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|254780611|ref|YP_003065024.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] (302 letters) Database: nr 14,124,377 sequences; 4,842,793,630 total letters Searching..................................................done Results from round 1 >gi|254780611|ref|YP_003065024.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] gi|254040288|gb|ACT57084.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] Length = 302 Score = 618 bits (1594), Expect = e-175, Method: Compositional matrix adjust. Identities = 302/302 (100%), Positives = 302/302 (100%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL Sbjct: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS Sbjct: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL Sbjct: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER Sbjct: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP Sbjct: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 Query: 301 RY 302 RY Sbjct: 301 RY 302 >gi|315121811|ref|YP_004062300.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313495213|gb|ADR51812.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 300 Score = 519 bits (1337), Expect = e-145, Method: Compositional matrix adjust. Identities = 247/289 (85%), Positives = 269/289 (93%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+R+NMSI+++GEIGL RYIHEI+KIPMLEKQEEY+LAKRY EH DL+A H+LVTSHLRL Sbjct: 1 MSRRNMSIMIDGEIGLRRYIHEIKKIPMLEKQEEYMLAKRYHEHHDLNAVHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VVKIAMGYRGYGLPISEV+SEGNIGLMQAVKKFDPERGFRLATY +WWIKAA+QEYILRS Sbjct: 61 VVKIAMGYRGYGLPISEVISEGNIGLMQAVKKFDPERGFRLATYGIWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLRRLKG LQA+ D NLKPEQVV IA KLNVSE+EVISMNCRL Sbjct: 121 WSLVKIGTTANQKRLFFNLRRLKGRLQAVNDTNLKPEQVVEIATKLNVSEAEVISMNCRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GDESLN L+NSSDK+SSQWQD LVY+HD QEQ LI+KEERKNRRNMLTRSMS LNPRER Sbjct: 181 SGDESLNVLMNSSDKDSSQWQDLLVYNHDSQEQTLIDKEERKNRRNMLTRSMSTLNPRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RIFEARRL ENP TLENLSSEF VSRER+RQIEARAF+KVQ S+QKQ E Sbjct: 241 RIFEARRLNENPSTLENLSSEFAVSRERIRQIEARAFEKVQASVQKQTE 289 >gi|190893168|ref|YP_001979710.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|190698447|gb|ACE92532.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] Length = 302 Score = 449 bits (1156), Expect = e-124, Method: Compositional matrix adjust. Identities = 213/288 (73%), Positives = 247/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E + RR ML+++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELETRRRMLSKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|327190963|gb|EGE58017.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CNPAF512] Length = 332 Score = 449 bits (1155), Expect = e-124, Method: Compositional matrix adjust. Identities = 213/288 (73%), Positives = 247/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 31 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 90 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 91 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 150 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 151 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 210 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E + RR ML+++MSVLN RER Sbjct: 211 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELETRRRMLSKAMSVLNERER 270 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 271 RIFEARRLAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDAVRKEA 318 >gi|222086841|ref|YP_002545375.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] gi|221724289|gb|ACM27445.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] Length = 302 Score = 448 bits (1153), Expect = e-124, Method: Compositional matrix adjust. Identities = 216/288 (75%), Positives = 242/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY EH D AAHRLVTSHLRL Sbjct: 1 MARNTLPSIAAGEAGLNRYLDEIRKFPMLEPQEEYMLAKRYAEHADREAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI + +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDEGDLKPEHVSEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ S QWQDWLV DH+ QE VLIE++E RR ML R+MSVLN RER Sbjct: 181 SGDASLNAPIKASEGESGQWQDWLVDDHESQEAVLIEQDELDTRRRMLARAMSVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LSSEF++SRERVRQIE RAF+KVQE++QK Sbjct: 241 RIFEARRLSEDPVTLEDLSSEFDISRERVRQIEVRAFEKVQEAVQKDA 288 >gi|74099847|gb|AAZ99132.1| RpoH [Rhizobium leguminosarum] Length = 302 Score = 447 bits (1150), Expect = e-124, Method: Compositional matrix adjust. Identities = 212/288 (73%), Positives = 245/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|15889716|ref|NP_355397.1| RNA polymerase factor sigma-32 [Agrobacterium tumefaciens str. C58] gi|15157628|gb|AAK88182.1| RNA polymerase sigma-32 factor [Agrobacterium tumefaciens str. C58] Length = 300 Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 214/288 (74%), Positives = 242/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++ I GE GL+RY+ EIRK PMLE QEEY+L KRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNSLPTITAGEAGLNRYLDEIRKFPMLEPQEEYMLGKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVKEIATKLQVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I +S+ S QWQDWLV DH+ QE VLIE++E + RR ML ++M VLN RER Sbjct: 181 HGDASLNAPIKASEGESGQWQDWLVDDHESQEAVLIEQDELETRRRMLAKAMGVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE LSSEF++SRERVRQIE RAF+KVQE++QK+ Sbjct: 241 RIFEARRLAEDPVTLEELSSEFDISRERVRQIEVRAFEKVQEAVQKEA 288 >gi|325293796|ref|YP_004279660.1| RNA polymerase sigma-32 factor [Agrobacterium sp. H13-3] gi|1710644|sp|P50507|RP32_AGRTU RecName: Full=RNA polymerase sigma-32 factor gi|1143324|dbj|BAA09439.1| sigma-32 homolog [Agrobacterium tumefaciens] gi|325061649|gb|ADY65340.1| RNA polymerase sigma-32 factor [Agrobacterium sp. H13-3] Length = 300 Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 214/288 (74%), Positives = 242/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++ I GE GL+RY+ EIRK PMLE QEEY+L KRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNSLPTITAGEAGLNRYLDEIRKFPMLEPQEEYMLGKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVKEIATKLQVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I +S+ S QWQDWLV DH+ QE VLIE++E + RR ML ++M VLN RER Sbjct: 181 HGDASLNAPIKASEGESGQWQDWLVDDHESQEAVLIEQDELETRRRMLAKAMGVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE LSSEF++SRERVRQIE RAF+KVQE++QK+ Sbjct: 241 RIFEARRLAEDPVTLEELSSEFDISRERVRQIEVRAFEKVQEAVQKEA 288 >gi|86358940|ref|YP_470832.1| RNA polymerase factor sigma-32 [Rhizobium etli CFN 42] gi|86283042|gb|ABC92105.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN 42] Length = 302 Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 211/288 (73%), Positives = 246/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WS VK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSAVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DH+ QE VLIE++E + RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHESQEDVLIEQDELETRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSAEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|116253507|ref|YP_769345.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. viciae 3841] gi|115258155|emb|CAK09256.1| putative RNA polymerase sigma-32 factor [Rhizobium leguminosarum bv. viciae 3841] Length = 302 Score = 446 bits (1146), Expect = e-123, Method: Compositional matrix adjust. Identities = 211/288 (73%), Positives = 244/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ + QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDGGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|209550663|ref|YP_002282580.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209536419|gb|ACI56354.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 302 Score = 446 bits (1146), Expect = e-123, Method: Compositional matrix adjust. Identities = 211/289 (73%), Positives = 245/289 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ + Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEAQ 289 >gi|222149598|ref|YP_002550555.1| RNA polymerase factor sigma-32 [Agrobacterium vitis S4] gi|221736580|gb|ACM37543.1| alternative sigma factor RpoH [Agrobacterium vitis S4] Length = 300 Score = 445 bits (1145), Expect = e-123, Method: Compositional matrix adjust. Identities = 214/288 (74%), Positives = 242/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++ I GE GL+RY+ EIRK PMLE Q EY+LAKRY EHGD AAHRLVTSHLRL Sbjct: 1 MARNSLPSITAGEGGLNRYLDEIRKFPMLEPQVEYMLAKRYAEHGDRDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI + +LKP+QV IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGKIQAIEEGDLKPDQVTEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ S QWQDWLV DHD QE LIE++E + RRNML+R+M VLN RER Sbjct: 181 SGDASLNAPIRASEGESGQWQDWLVDDHDSQEDTLIEQDELETRRNMLSRAMGVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIF ARRL E PVTLE LSSEF++SRERVRQIE RAF+KVQ+++QK Sbjct: 241 RIFAARRLAEEPVTLEELSSEFDISRERVRQIEVRAFEKVQDAVQKDA 288 >gi|241206034|ref|YP_002977130.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240859924|gb|ACS57591.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 302 Score = 443 bits (1140), Expect = e-122, Method: Compositional matrix adjust. Identities = 210/288 (72%), Positives = 243/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ + QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDGGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|10952458|gb|AAG24943.1|AF128845_2 RpoH [Sinorhizobium meliloti] Length = 301 Score = 437 bits (1124), Expect = e-121, Method: Compositional matrix adjust. Identities = 206/286 (72%), Positives = 244/286 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEEEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV DHD QEQ+LIE++E ++RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDDHDNQEQILIEQDELESRRALLANAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL E P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K Sbjct: 241 RIFEARRLTEEPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRK 286 >gi|15966479|ref|NP_386832.1| RNA polymerase factor sigma-32 [Sinorhizobium meliloti 1021] gi|307300484|ref|ZP_07580264.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] gi|307318349|ref|ZP_07597784.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|15075750|emb|CAC47305.1| RNA polymerase sigma factor (Sigma-32) [Sinorhizobium meliloti 1021] gi|306896031|gb|EFN26782.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|306904650|gb|EFN35234.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] Length = 301 Score = 437 bits (1124), Expect = e-121, Method: Compositional matrix adjust. Identities = 206/286 (72%), Positives = 244/286 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEEEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV DHD QEQ+LIE++E ++RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDDHDNQEQILIEQDELESRRALLANAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL E P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K Sbjct: 241 RIFEARRLTEEPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRK 286 >gi|10129883|dbj|BAB13517.1| sigma factor [Sinorhizobium meliloti] Length = 301 Score = 436 bits (1120), Expect = e-120, Method: Compositional matrix adjust. Identities = 205/286 (71%), Positives = 244/286 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE +V+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEEKVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV DHD QEQ+LIE++E ++RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDDHDNQEQILIEQDELESRRGLLANAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL E P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K Sbjct: 241 RIFEARRLTEEPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRK 286 >gi|227823295|ref|YP_002827267.1| RNA polymerase factor sigma-32 [Sinorhizobium fredii NGR234] gi|227342296|gb|ACP26514.1| RNA polymerase sigma factor, sigma-70 family [Sinorhizobium fredii NGR234] Length = 301 Score = 434 bits (1115), Expect = e-119, Method: Compositional matrix adjust. Identities = 206/286 (72%), Positives = 243/286 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D SAAH+LVTSHLRL Sbjct: 1 MARSTLPSIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRSAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVMSEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV +HD QE++LIE++E +RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDEHDNQEEILIEQDELDSRRALLASAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL E PVTLE LS+EF++SRERVRQIE RAF+KVQE+++K Sbjct: 241 RIFEARRLTEEPVTLEELSTEFDISRERVRQIEVRAFEKVQEAVRK 286 >gi|150397812|ref|YP_001328279.1| RNA polymerase factor sigma-32 [Sinorhizobium medicae WSM419] gi|150029327|gb|ABR61444.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium medicae WSM419] Length = 301 Score = 434 bits (1115), Expect = e-119, Method: Compositional matrix adjust. Identities = 205/286 (71%), Positives = 244/286 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV ++D QEQ+LIE++E NRR +L ++ VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDENDNQEQILIEQDELDNRRALLANALKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL E+P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K Sbjct: 241 RIFEARRLTEDPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRK 286 >gi|319781136|ref|YP_004140612.1| RNA polymerase sigma factor RpoH [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317167024|gb|ADV10562.1| RNA polymerase sigma factor RpoH [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 303 Score = 433 bits (1113), Expect = e-119, Method: Compositional matrix adjust. Identities = 200/282 (70%), Positives = 248/282 (87%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +++ IV+GE GLSRY+ EIR+ PML+ QEEY+LAKRY EH D SAAH+LVTSHLRLV K Sbjct: 3 QSLPSIVSGEGGLSRYLEEIRRFPMLQPQEEYMLAKRYAEHEDTSAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKA++QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKASIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ D +LKP+Q+ IA +LNVSE+EV+SMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDDGDLKPDQIAEIATRLNVSEAEVVSMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +S+ S +WQDWLV DH+ QE++LIE++E +NRR ML+ +++VLN RERRIF Sbjct: 183 ASLNAPIRASEGESGEWQDWLVDDHESQEEMLIEQDELENRRGMLSGALAVLNERERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 EARRL E P+TLE LSSEF++SRERVRQIE RAF+KVQ++++ Sbjct: 243 EARRLAEEPLTLEELSSEFDISRERVRQIEVRAFEKVQDAVK 284 >gi|260461535|ref|ZP_05809782.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] gi|259032605|gb|EEW33869.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] Length = 303 Score = 431 bits (1107), Expect = e-119, Method: Compositional matrix adjust. Identities = 198/282 (70%), Positives = 248/282 (87%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +++ IV+GE GLSRY+ EIR+ PML+ QEEY+LAKRY EH D SAAH+LVTSHLRLV K Sbjct: 3 QSLPSIVSGEGGLSRYLEEIRRFPMLQPQEEYMLAKRYAEHEDTSAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKA++QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKASIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ D +LKP+Q+ IA +LNVSE+EV+SMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDDGDLKPDQIAEIATRLNVSEAEVVSMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ S +WQDWLV DH+ QE++LIE++E +NRR ML+ +++VLN RERRIF Sbjct: 183 ASLNAPIRATEGESGEWQDWLVDDHESQEEMLIEQDELENRRGMLSGALAVLNDRERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 EARRL E P+TLE LS+EF++SRERVRQIE RAF+KVQ++++ Sbjct: 243 EARRLAEEPLTLEELSAEFDISRERVRQIEVRAFEKVQDAVK 284 >gi|13473215|ref|NP_104782.1| RNA polymerase factor sigma-32 [Mesorhizobium loti MAFF303099] gi|14023963|dbj|BAB50568.1| sigma factor [Mesorhizobium loti MAFF303099] Length = 303 Score = 430 bits (1106), Expect = e-118, Method: Compositional matrix adjust. Identities = 197/282 (69%), Positives = 248/282 (87%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +++ IV+GE GLSRY+ EIR+ PML+ QEEY+LAKRY EH D SAAH+LVTSHLRLV K Sbjct: 3 QSLPSIVSGEGGLSRYLEEIRRFPMLQPQEEYMLAKRYAEHEDTSAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKA++QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKASIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ D +LKP+Q+ IA +LNV+E+EV+SMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDDGDLKPDQIAEIATRLNVTEAEVVSMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ S +WQDWLV DH+ QE++LIE++E +NRR ML+ +++VLN RERRIF Sbjct: 183 ASLNAPIRATEGESGEWQDWLVDDHESQEEMLIEQDELENRRGMLSGALAVLNERERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 EARRL E P+TLE LS+EF++SRERVRQIE RAF+KVQ++++ Sbjct: 243 EARRLAEEPLTLEELSAEFDISRERVRQIEVRAFEKVQDAVK 284 >gi|110635485|ref|YP_675693.1| RNA polymerase factor sigma-32 [Mesorhizobium sp. BNC1] gi|110286469|gb|ABG64528.1| RNA polymerase, sigma 32 subunit, RpoH [Chelativorans sp. BNC1] Length = 308 Score = 422 bits (1086), Expect = e-116, Method: Compositional matrix adjust. Identities = 200/297 (67%), Positives = 248/297 (83%), Gaps = 4/297 (1%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + + IV+GE GL+RY+ EIR+ PML+ +EEY+LAKRYREH D AAH+LVTSHLRLV K Sbjct: 3 QTLPSIVSGEGGLTRYLEEIRRFPMLQPEEEYMLAKRYREHDDTDAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ + +L PEQV IA +LNVSE EVISMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDEGDLNPEQVSEIATRLNVSEEEVISMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ S +WQDWLV +H+ QE++L+E++E ++RR ML +M VLN RERRIF Sbjct: 183 ASLNAPIRATEGESGEWQDWLVDEHENQEEMLVEQDELESRRRMLEDAMDVLNDRERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI----QKQVELSSSPPL 296 EARRL + P+TLE LS EF++SRERVRQIE RAF+KVQE++ ++Q + S PL Sbjct: 243 EARRLSDEPMTLEELSGEFDISRERVRQIEVRAFEKVQEAVKASAKRQAQALRSAPL 299 >gi|163758761|ref|ZP_02165848.1| RNA polymerase sigma factor [Hoeflea phototrophica DFL-43] gi|162284051|gb|EDQ34335.1| RNA polymerase sigma factor [Hoeflea phototrophica DFL-43] Length = 300 Score = 422 bits (1085), Expect = e-116, Method: Compositional matrix adjust. Identities = 197/292 (67%), Positives = 244/292 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + ++ I GE GL+RY+ EIR+ PMLE QEEY+LAKR+ +H D AAH+LVTSHLRL Sbjct: 1 MAQTSLPTISAGENGLNRYLAEIRRFPMLEPQEEYMLAKRFLQHEDTKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L+P+QV IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKVKSKIQAVEDGDLRPDQVAEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ S QWQDWLV + D QE +L+E++E ++RR ML ++ VLN RE+ Sbjct: 181 SGDASLNAPIKASEGESGQWQDWLVDESDSQEDMLVEQDELESRRAMLKSALEVLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 RIFEARRL+++P+TLE+LS EF++SRERVRQIE RAF+KVQ+++QK S Sbjct: 241 RIFEARRLRDDPITLEDLSGEFDISRERVRQIEVRAFEKVQDAVQKAAAASD 292 >gi|90418989|ref|ZP_01226900.1| sigma factor [Aurantimonas manganoxydans SI85-9A1] gi|90337069|gb|EAS50774.1| sigma factor [Aurantimonas manganoxydans SI85-9A1] Length = 303 Score = 413 bits (1062), Expect = e-113, Method: Compositional matrix adjust. Identities = 194/292 (66%), Positives = 238/292 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +GE GLSRY+ EIR+ PMLE QEEY+LAKRY EH D AAHRLVTSHLRL Sbjct: 1 MAQANLPSISSGEAGLSRYLEEIRRFPMLEPQEEYMLAKRYAEHDDRDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVK+FDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ + +L+P+QV IA L VS+ EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSRIQALDEGDLRPDQVSQIATNLGVSDEEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +++ S +WQDWLV D + QE +L +E RR ML ++M VLN RER Sbjct: 181 SGDASLNAPLRATEGESGEWQDWLVDDSETQEDLLARNDELDQRRGMLQQAMGVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 RIFEARRL E+P+TLE LS EFE+SRERVRQIE RAF+KVQ++++ + ++ Sbjct: 241 RIFEARRLAEDPLTLETLSGEFEISRERVRQIEVRAFEKVQKAVRDTADATN 292 >gi|254473077|ref|ZP_05086475.1| alternative sigma factor RpoH [Pseudovibrio sp. JE062] gi|211957798|gb|EEA93000.1| alternative sigma factor RpoH [Pseudovibrio sp. JE062] Length = 297 Score = 413 bits (1061), Expect = e-113, Method: Compositional matrix adjust. Identities = 195/283 (68%), Positives = 236/283 (83%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ + GE GLSRY+ EIRK PML+ QEEY+LAKRYREH + AA +LV SHLRLV K Sbjct: 3 RNLPALTGGEGGLSRYLDEIRKFPMLQPQEEYMLAKRYREHDEPKAAEKLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLP+ EV+SEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILR+WSL Sbjct: 63 IAMGYRGYGLPLGEVISEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRTWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRR+KG +QA D +L+PEQV IA L V+E+EV+SMN RL GD Sbjct: 123 VKMGTTANQKRLFFNLRRVKGKIQAFEDGDLRPEQVQQIATTLGVTENEVVSMNRRLGGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA + SS+ SS+WQDWLV D + QE VL E+EE RR+ML +MSVLN RE RIF Sbjct: 183 SSLNAPLRSSEGESSEWQDWLVDDSESQEAVLAEQEEYDVRRDMLKNAMSVLNERETRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 EARRL ENP+TLE LS+EF VSRERVRQIE RAF+KVQ+++Q+ Sbjct: 243 EARRLSENPITLEELSTEFGVSRERVRQIEVRAFEKVQKAVQE 285 >gi|239832766|ref|ZP_04681095.1| alternative sigma factor RpoH [Ochrobactrum intermedium LMG 3301] gi|239825033|gb|EEQ96601.1| alternative sigma factor RpoH [Ochrobactrum intermedium LMG 3301] Length = 303 Score = 413 bits (1061), Expect = e-113, Method: Compositional matrix adjust. Identities = 193/278 (69%), Positives = 234/278 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMNLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHTDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D QEQ+LIE++E NRR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSSSQEQILIEQDELDNRRSMLEQAMDTLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL ++P+TLE+LSSEF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLSDDPMTLEDLSSEFSISRERVRQIEVRAFE 278 >gi|153008567|ref|YP_001369782.1| RNA polymerase factor sigma-32 [Ochrobactrum anthropi ATCC 49188] gi|151560455|gb|ABS13953.1| RNA polymerase, sigma 32 subunit, RpoH [Ochrobactrum anthropi ATCC 49188] Length = 303 Score = 412 bits (1059), Expect = e-113, Method: Compositional matrix adjust. Identities = 194/278 (69%), Positives = 234/278 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAHRLVTSHLRL Sbjct: 1 MAQMNLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHTDPKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KL VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLKVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D QEQVLIE++E +NRR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSSSQEQVLIEQDELENRRSMLEQAMDTLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL ++P+TLE+LSSEF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLSDDPMTLEDLSSEFGISRERVRQIEVRAFE 278 >gi|114707401|ref|ZP_01440298.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] gi|114537282|gb|EAU40409.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] Length = 304 Score = 412 bits (1058), Expect = e-113, Method: Compositional matrix adjust. Identities = 192/288 (66%), Positives = 240/288 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +GE GL+RY+ EIR+ PML+ EEY+LAKRY EH D +AAH+LVTSHLRL Sbjct: 1 MAQMNLPSIASGEGGLNRYLEEIRRFPMLQPDEEYMLAKRYAEHDDRNAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVK+FDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA +L VS+ EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSRIQALEDGDLNPDQVKQIATQLGVSDDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLN+ + +++ S +WQDWLV +++ QE VL +++E RR ML R+M +LN RER Sbjct: 181 SGDASLNSPLRATEGESGEWQDWLVDENESQEDVLAQQDELDQRRGMLKRAMGILNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+P+TLE LS EF++SRERVRQIE RAF+KVQ+++Q+ V Sbjct: 241 RIFEARRLSEDPITLEALSGEFDISRERVRQIEVRAFEKVQKAVQENV 288 >gi|306844673|ref|ZP_07477258.1| alternative sigma factor RpoH [Brucella sp. BO1] gi|306274845|gb|EFM56615.1| alternative sigma factor RpoH [Brucella sp. BO1] Length = 303 Score = 410 bits (1054), Expect = e-112, Method: Compositional matrix adjust. Identities = 193/278 (69%), Positives = 234/278 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LSSEF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSSEFGISRERVRQIEVRAFE 278 >gi|306841398|ref|ZP_07474101.1| alternative sigma factor RpoH [Brucella sp. BO2] gi|306288583|gb|EFM59932.1| alternative sigma factor RpoH [Brucella sp. BO2] Length = 303 Score = 408 bits (1049), Expect = e-112, Method: Compositional matrix adjust. Identities = 192/278 (69%), Positives = 233/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|218670385|ref|ZP_03520056.1| RNA polymerase factor sigma-32 [Rhizobium etli GR56] Length = 266 Score = 408 bits (1048), Expect = e-112, Method: Compositional matrix adjust. Identities = 192/252 (76%), Positives = 222/252 (88%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 +AKRY EHGD AAH+LVTSHLRLV KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPE Sbjct: 1 MAKRYAEHGDRDAAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPE 60 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 RGFRLATY+MWWIKA++QEYILRSWSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKP Sbjct: 61 RGFRLATYAMWWIKASIQEYILRSWSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKP 120 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E V IA KLNVSE EVISMN RL+GD SLNA I +++ +S QWQDWLV DHD QE VLI Sbjct: 121 EHVSEIATKLNVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLI 180 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 E++E + RR ML+++MSVLN RERRIFEARRL E PVTLE+LS+EF++SRERVRQIE RA Sbjct: 181 EQDELETRRRMLSKAMSVLNERERRIFEARRLAEEPVTLEDLSAEFDISRERVRQIEVRA 240 Query: 277 FKKVQESIQKQV 288 F+KVQ++++K+ Sbjct: 241 FEKVQDAVRKEA 252 >gi|254719685|ref|ZP_05181496.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|265984700|ref|ZP_06097435.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|306840038|ref|ZP_07472825.1| alternative sigma factor RpoH [Brucella sp. NF 2653] gi|264663292|gb|EEZ33553.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|306404852|gb|EFM61144.1| alternative sigma factor RpoH [Brucella sp. NF 2653] Length = 303 Score = 408 bits (1048), Expect = e-112, Method: Compositional matrix adjust. Identities = 192/278 (69%), Positives = 233/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|23502510|ref|NP_698637.1| RNA polymerase factor sigma-32 [Brucella suis 1330] gi|161619585|ref|YP_001593472.1| RNA polymerase factor sigma-32 [Brucella canis ATCC 23365] gi|163845234|ref|YP_001622889.1| RNA polymerase factor sigma-32 [Brucella suis ATCC 23445] gi|225628222|ref|ZP_03786256.1| alternative sigma factor RpoH [Brucella ceti str. Cudo] gi|254708479|ref|ZP_05170307.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|254708670|ref|ZP_05170481.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|254714517|ref|ZP_05176328.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|254717415|ref|ZP_05179226.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|256030196|ref|ZP_05443810.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|256061694|ref|ZP_05451831.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|256160370|ref|ZP_05458060.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|256255578|ref|ZP_05461114.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260167873|ref|ZP_05754684.1| RNA polymerase factor sigma-32 [Brucella sp. F5/99] gi|260568745|ref|ZP_05839213.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|261219245|ref|ZP_05933526.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261222781|ref|ZP_05937062.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|261315977|ref|ZP_05955174.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261316160|ref|ZP_05955357.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261322306|ref|ZP_05961503.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261325699|ref|ZP_05964896.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261757310|ref|ZP_06001019.1| sigma-70 factor family [Brucella sp. F5/99] gi|265987224|ref|ZP_06099781.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|265998739|ref|ZP_06111296.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|23348506|gb|AAN30552.1| RNA polymerase sigma-70 factor family protein [Brucella suis 1330] gi|161336396|gb|ABX62701.1| alternative sigma factor RpoH [Brucella canis ATCC 23365] gi|163675957|gb|ABY40067.1| alternative sigma factor RpoH [Brucella suis ATCC 23445] gi|225616068|gb|EEH13116.1| alternative sigma factor RpoH [Brucella ceti str. Cudo] gi|260154129|gb|EEW89211.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|260921365|gb|EEX88018.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260924334|gb|EEX90902.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261294996|gb|EEX98492.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261295383|gb|EEX98879.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261301679|gb|EEY05176.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261305003|gb|EEY08500.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261737294|gb|EEY25290.1| sigma-70 factor family [Brucella sp. F5/99] gi|262553428|gb|EEZ09197.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|264659421|gb|EEZ29682.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] Length = 303 Score = 408 bits (1048), Expect = e-112, Method: Compositional matrix adjust. Identities = 192/278 (69%), Positives = 233/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|328542558|ref|YP_004302667.1| RNA polymerase sigma factor [polymorphum gilvum SL003B-26A1] gi|326412304|gb|ADZ69367.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1] Length = 296 Score = 407 bits (1047), Expect = e-112, Method: Compositional matrix adjust. Identities = 193/293 (65%), Positives = 238/293 (81%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ ++ GE GLSRY+ EIR+ PMLE QEEY+LAKRY+EH D +AA RLV SHLRLV K Sbjct: 3 QNVPMLTAGEGGLSRYLDEIRRFPMLEPQEEYMLAKRYKEHDDPAAAERLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLP+ EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPLGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA KL V E +V+SMN RLAGD Sbjct: 123 VKMGTTANQKRLFFNLRRLKGRIQALEEGDLKPEQVQEIATKLGVPEEDVVSMNRRLAGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ +S +WQDWLV + + QE +L +EE RR +L +M +L RERRIF Sbjct: 183 ASLNAPIRAAEADSGEWQDWLVDESESQETLLANQEELDIRRKLLGDAMDILTERERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 EARRL E+P+TLE LS+EF VSRERVRQIE RAF+K+Q++++K P L Sbjct: 243 EARRLAEDPITLEELSTEFGVSRERVRQIEVRAFEKIQKAVRKSARDLEQPSL 295 >gi|254703436|ref|ZP_05165264.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261754065|ref|ZP_05997774.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261743818|gb|EEY31744.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] Length = 300 Score = 407 bits (1045), Expect = e-111, Method: Compositional matrix adjust. Identities = 191/270 (70%), Positives = 230/270 (85%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRLV KIAMGY Sbjct: 6 ITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRLVAKIAMGY 65 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRSWSLVK+GT Sbjct: 66 RGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRSWSLVKMGT 125 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL+GD SLNA Sbjct: 126 TANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRLSGDASLNA 185 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RERRIFEARRL Sbjct: 186 PLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRERRIFEARRL 245 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFK 278 E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 246 AEEPMTLEDLSGEFGISRERVRQIEVRAFE 275 >gi|17986661|ref|NP_539295.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. 16M] gi|62290526|ref|YP_222319.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 1 str. 9-941] gi|82700442|ref|YP_415016.1| RNA polymerase factor sigma-32 [Brucella melitensis biovar Abortus 2308] gi|189024748|ref|YP_001935516.1| RNA polymerase factor sigma-32 [Brucella abortus S19] gi|225853116|ref|YP_002733349.1| RNA polymerase factor sigma-32 [Brucella melitensis ATCC 23457] gi|237816032|ref|ZP_04595028.1| alternative sigma factor RpoH [Brucella abortus str. 2308 A] gi|254689824|ref|ZP_05153078.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|254694316|ref|ZP_05156144.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|254697972|ref|ZP_05159800.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|254730858|ref|ZP_05189436.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|256045266|ref|ZP_05448160.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|256114225|ref|ZP_05454970.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|256258077|ref|ZP_05463613.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|256263396|ref|ZP_05465928.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|260547226|ref|ZP_05822964.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|260565841|ref|ZP_05836324.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260755355|ref|ZP_05867703.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260758577|ref|ZP_05870925.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260762409|ref|ZP_05874746.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260884371|ref|ZP_05895985.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|261214622|ref|ZP_05928903.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|265991691|ref|ZP_06104248.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|265995528|ref|ZP_06108085.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|297248928|ref|ZP_06932636.1| alternative sigma factor RpoH [Brucella abortus bv. 5 str. B3196] gi|17982279|gb|AAL51559.1| RNA polymerase sigma-32 factor [Brucella melitensis bv. 1 str. 16M] gi|62196658|gb|AAX74958.1| RNA polymerase sigma-70 factor family protein [Brucella abortus bv. 1 str. 9-941] gi|82616543|emb|CAJ11621.1| Sigma-70 factor family:Sigma-70 region 2:Sigma-70 region 4 [Brucella melitensis biovar Abortus 2308] gi|189020320|gb|ACD73042.1| Sigma-70 factor family [Brucella abortus S19] gi|225641481|gb|ACO01395.1| alternative sigma factor RpoH [Brucella melitensis ATCC 23457] gi|237788695|gb|EEP62907.1| alternative sigma factor RpoH [Brucella abortus str. 2308 A] gi|260095591|gb|EEW79469.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|260151214|gb|EEW86309.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260668895|gb|EEX55835.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260672835|gb|EEX59656.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260675463|gb|EEX62284.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260873899|gb|EEX80968.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|260916229|gb|EEX83090.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|262766812|gb|EEZ12430.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|263002647|gb|EEZ15050.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|263093393|gb|EEZ17462.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|297174061|gb|EFH33418.1| alternative sigma factor RpoH [Brucella abortus bv. 5 str. B3196] gi|326409662|gb|ADZ66727.1| Sigma-70 factor family [Brucella melitensis M28] gi|326539369|gb|ADZ87584.1| alternative sigma factor RpoH [Brucella melitensis M5-90] Length = 303 Score = 405 bits (1042), Expect = e-111, Method: Compositional matrix adjust. Identities = 191/278 (68%), Positives = 232/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 IFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 HIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|118588309|ref|ZP_01545718.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] gi|118439015|gb|EAV45647.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] Length = 294 Score = 404 bits (1039), Expect = e-111, Method: Compositional matrix adjust. Identities = 195/291 (67%), Positives = 233/291 (80%), Gaps = 1/291 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ + GE GLSRY+ EIRK PML+ QEEY+LAKRY+EH D AA RLV SHLRLV K Sbjct: 3 QNVPTLTAGEGGLSRYLDEIRKFPMLQPQEEYMLAKRYKEHEDPEAAERLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRRLKG +QA+ + +LKP QV IA KL VSE EV+SMN RL GD Sbjct: 123 VKMGTTANQKRLFFNLRRLKGKIQALDEGDLKPHQVSEIATKLGVSEEEVVSMNRRLGGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA + ++ ++ +WQDWLV + D QE +L +EE RR ML +M VLN RERRIF Sbjct: 183 ASLNAPVR-AEADAGEWQDWLVDESDSQETLLANQEELDMRRKMLNDAMDVLNERERRIF 241 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 EARRL E+P+TLE+LS EF VSRERVRQIE RAF+KVQ++++ P Sbjct: 242 EARRLSEDPMTLEDLSGEFGVSRERVRQIEVRAFEKVQKAVRNSARTMDQP 292 >gi|148560551|ref|YP_001259508.1| RNA polymerase factor sigma-32 [Brucella ovis ATCC 25840] gi|294850906|ref|ZP_06791582.1| alternative sigma factor RpoH [Brucella sp. NVSL 07-0026] gi|148371808|gb|ABQ61787.1| alternative sigma factor RpoH [Brucella ovis ATCC 25840] gi|294821549|gb|EFG38545.1| alternative sigma factor RpoH [Brucella sp. NVSL 07-0026] Length = 303 Score = 404 bits (1039), Expect = e-111, Method: Compositional matrix adjust. Identities = 191/278 (68%), Positives = 232/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGL I EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLSIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|256370062|ref|YP_003107573.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] gi|256000225|gb|ACU48624.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] Length = 303 Score = 403 bits (1035), Expect = e-110, Method: Compositional matrix adjust. Identities = 191/278 (68%), Positives = 232/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQD LV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDRLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|49473931|ref|YP_031973.1| RNA polymerase factor sigma-32 [Bartonella quintana str. Toulouse] gi|49239434|emb|CAF25783.1| RNA polymerase sigma-32 factor [Bartonella quintana str. Toulouse] Length = 294 Score = 401 bits (1030), Expect = e-110, Method: Compositional matrix adjust. Identities = 191/285 (67%), Positives = 234/285 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + G+ GL+RY+ E+R+ P+LE +EEY+LA+RYR+H DL AAHRLVTSHLRL Sbjct: 1 MAHINLLSVTTGDGGLNRYLEEVRRFPILEPKEEYMLAQRYRQHNDLKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERG RLATY++WWIKA++QEY+LRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGLRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ + +L EQV IA +LNV+E EVISMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKSRLQVLDKGDLNAEQVKEIATQLNVTEDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+WQDWLV D + QEQ LIE+ E +NRR+MLT +MS LN RE+ Sbjct: 181 CGDTSLNAPLRTQEGENSEWQDWLVDDSNNQEQTLIEQSELENRRSMLTYAMSNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL + P+TLE LSSEF +SRERVRQIE RAF+KVQ SI+ Sbjct: 241 RIFKARRLSDKPLTLEELSSEFNISRERVRQIEMRAFEKVQNSIK 285 >gi|307944600|ref|ZP_07659940.1| alternative sigma factor RpoH [Roseibium sp. TrichSKD4] gi|307772349|gb|EFO31570.1| alternative sigma factor RpoH [Roseibium sp. TrichSKD4] Length = 294 Score = 400 bits (1028), Expect = e-109, Method: Compositional matrix adjust. Identities = 191/291 (65%), Positives = 235/291 (80%), Gaps = 1/291 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ ++ GE GLSRY+ EIRK P+L+ QEEY+LAKRY+EH D AA RLV SHLRLV K Sbjct: 3 QNVPMLTAGEGGLSRYLDEIRKFPLLQPQEEYMLAKRYKEHADPEAAERLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRRLKG +QA+ + +LKP QV IA KL VSE EVISMN RL GD Sbjct: 123 VKMGTTANQKRLFFNLRRLKGKIQALEEGDLKPHQVQEIATKLGVSEEEVISMNRRLGGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLN+ + ++ ++ +WQDWLV + D QE +L +EE RR +L+++M LN RERRIF Sbjct: 183 TSLNSPVR-AEADAGEWQDWLVDEADSQETLLANQEELDQRRELLSQAMDELNERERRIF 241 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ARRL E+P+TLE+LS+EF VSRERVRQIE RAF+KVQ++++ P Sbjct: 242 TARRLSEDPITLEDLSTEFGVSRERVRQIEVRAFEKVQKAVKNSARAKELP 292 >gi|163867808|ref|YP_001609012.1| RNA polymerase factor sigma-32 [Bartonella tribocorum CIP 105476] gi|161017459|emb|CAK01017.1| RNA polymerase sigma-32 factor [Bartonella tribocorum CIP 105476] Length = 294 Score = 399 bits (1025), Expect = e-109, Method: Compositional matrix adjust. Identities = 192/285 (67%), Positives = 235/285 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ I+ G+ GL+RY+ E+R+ PMLE +EEY+LA+RYREH DL AAHRLVTSHLRL Sbjct: 1 MAHMNLLSIITGDGGLNRYLEEVRRFPMLEPKEEYMLAQRYREHNDLKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V K+AMGYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY++WWIKA++QEY+LRS Sbjct: 61 VAKVAMGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ +L EQV IA +LNV+E EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKNKLQALDSGDLNTEQVKEIATQLNVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+ QDWLV + + QEQ+LIEK E +NRR ML +M+ LN RER Sbjct: 181 GGDTSLNAPLRTKEGENSELQDWLVDESNNQEQILIEKSELENRRFMLVNAMNNLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL + P+TLE LSSEF +SRERVRQIE RAF+KVQ SI+ Sbjct: 241 RIFKARRLNDIPLTLEELSSEFNISRERVRQIEMRAFEKVQNSIR 285 >gi|49475181|ref|YP_033222.1| RNA polymerase factor sigma-32 [Bartonella henselae str. Houston-1] gi|49237986|emb|CAF27191.1| RNA polymerase sigma-32 factor [Bartonella henselae str. Houston-1] Length = 294 Score = 398 bits (1023), Expect = e-109, Method: Compositional matrix adjust. Identities = 188/285 (65%), Positives = 236/285 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + G+ GLSRY+ E+R+ PMLE QEEY+LA+RYR+H DL AAH+LVTSHLRL Sbjct: 1 MAHMNLLSVTTGDGGLSRYLEEVRRFPMLEPQEEYMLAQRYRKHNDLKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGN+GLM+AVK+F+PERGFRLATY++WWIKA++QEY+LRS Sbjct: 61 VAKIAVGYRGYGLPIGEVISEGNVGLMKAVKRFEPERGFRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ + +L EQV IA +LNV+E EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKSRLQALDNGDLNAEQVKEIAIQLNVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+WQDWLV D + QEQ LIE+ E +NRR+MLT ++ LN RE+ Sbjct: 181 GGDTSLNAPLRTKEGENSEWQDWLVDDSNNQEQTLIEQNELENRRSMLTNALDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL + P+TLE LSSEF +SRERVRQIE RAF+K+Q SI+ Sbjct: 241 RIFKARRLSDIPLTLEELSSEFNISRERVRQIEMRAFEKIQNSIK 285 >gi|209886261|ref|YP_002290118.1| alternative sigma factor RpoH [Oligotropha carboxidovorans OM5] gi|209874457|gb|ACI94253.1| alternative sigma factor RpoH [Oligotropha carboxidovorans OM5] Length = 299 Score = 397 bits (1021), Expect = e-109, Method: Compositional matrix adjust. Identities = 193/288 (67%), Positives = 229/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R I+NGE GLS Y+ EIRK PMLE QEEY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARTATLPILNGESGLSHYLAEIRKFPMLEPQEEYMLAKRWREHDDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ D ++ +QV IAK+L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALEDGDMHEDQVKLIAKRLGVTERDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE ++ E EE +RRN LT +M VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDTSPNQETIMAESEEYDHRRNALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ V Sbjct: 240 RIFEARRLAEEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQAAVKSTV 287 >gi|240850016|ref|YP_002971409.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] gi|240267139|gb|ACS50727.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] Length = 294 Score = 397 bits (1020), Expect = e-108, Method: Compositional matrix adjust. Identities = 191/285 (67%), Positives = 234/285 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + G+ GL+RY+ E+R PML+ +EEY+LA+RYREH DL AAHRLVTSHLRL Sbjct: 1 MAHMNLLSVTAGDGGLNRYLEEVRHFPMLDPKEEYMLAQRYREHNDLKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY++WWIKA++QEY+LRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ + +L EQV IA +LNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKSKLQALDNGDLNAEQVKEIATQLNVSEDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+ QDWLV + + QEQVLIEK E +NRR+ML +M LN RE+ Sbjct: 181 GGDTSLNAPLRTKEGENSELQDWLVDESNDQEQVLIEKSELENRRSMLINAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL + P+TLE LS EF +SRERVRQIE RAF+KVQ+SI+ Sbjct: 241 RIFKARRLNDIPLTLEELSGEFNISRERVRQIEMRAFEKVQDSIR 285 >gi|299134310|ref|ZP_07027503.1| RNA polymerase, sigma 32 subunit, RpoH [Afipia sp. 1NLS2] gi|298591057|gb|EFI51259.1| RNA polymerase, sigma 32 subunit, RpoH [Afipia sp. 1NLS2] Length = 299 Score = 397 bits (1019), Expect = e-108, Method: Compositional matrix adjust. Identities = 192/288 (66%), Positives = 230/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLS Y+ EIRK PMLE QEEY+LAKR+REH D AAHRLVTSHLRL Sbjct: 1 MARTATLPVLNGESGLSHYLAEIRKFPMLEPQEEYMLAKRWREHDDRDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +++ +QV IAK+L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALEEGDMREDQVKLIAKRLGVTERDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE ++ E EE +RRN LT +M VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDTSPNQEAIMAESEEYDHRRNALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ V Sbjct: 240 RIFEARRLAEEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQAAVKSTV 287 >gi|27382448|ref|NP_773977.1| RNA polymerase factor sigma-32 [Bradyrhizobium japonicum USDA 110] gi|1834373|emb|CAA70697.1| rpoH2 [Bradyrhizobium japonicum] gi|27355619|dbj|BAC52602.1| sigma32-like transcription factor [Bradyrhizobium japonicum USDA 110] Length = 299 Score = 397 bits (1019), Expect = e-108, Method: Compositional matrix adjust. Identities = 188/288 (65%), Positives = 233/288 (80%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE Q+EY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARTAALPVLNGESGLSRYLAEIRKFPMLEPQQEYMLAKRWREHDDRDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L+P+QV IAK+L V++ +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKINALDEGDLRPDQVATIAKRLGVTDQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV + QE ++ E EE +RR+ L +M VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEAGEWQDWLVDNTPNQEAMMAEHEEYDHRRDALNGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGTI 287 >gi|298292657|ref|YP_003694596.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] gi|296929168|gb|ADH89977.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] Length = 303 Score = 396 bits (1018), Expect = e-108, Method: Compositional matrix adjust. Identities = 189/296 (63%), Positives = 235/296 (79%), Gaps = 1/296 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R MS+ + E GLSRY+ EIR+ PMLE QEEY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARSAMSL-PSAEGGLSRYLAEIRRFPMLEPQEEYMLAKRWREHEDPEAAHKLVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEV+SEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPISEVISEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A+ D +L+P+QV IA KL V+E EV+ MN RL Sbjct: 120 WSLVKMGTTAAQKKLFFNLRKAKSQISALEDGDLRPDQVQQIATKLGVTEQEVVDMNRRL 179 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + + +WQDWL D D QE L + EE NRR+ L ++SVLN RER Sbjct: 180 SGDASLNAPLRGDVEGGGEWQDWLADDRDDQETTLADLEETDNRRSALAGALSVLNERER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 RIFEARRL ++P+TLE+L+SEF VSRERVRQIE RAF+KVQ+++ +V + P+ Sbjct: 240 RIFEARRLSDDPMTLEDLASEFGVSRERVRQIEVRAFEKVQKAVIDRVHAMETAPM 295 >gi|158425877|ref|YP_001527169.1| RNA polymerase factor sigma-32 [Azorhizobium caulinodans ORS 571] gi|158332766|dbj|BAF90251.1| sigma-70 factor [Azorhizobium caulinodans ORS 571] Length = 300 Score = 394 bits (1013), Expect = e-108, Method: Compositional matrix adjust. Identities = 184/280 (65%), Positives = 228/280 (81%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I + E GL+RY+ EIR+ PMLE QEEY+LAK +REHGD AAH+LVTSHLRLV KIAMGY Sbjct: 9 IPSAEGGLTRYLEEIRRFPMLEPQEEYMLAKSWREHGDRDAAHKLVTSHLRLVAKIAMGY 68 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEV+SEGN+GLMQAVK+F+PE+GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 69 RGYGLPISEVISEGNVGLMQAVKRFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 128 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TA QK+LFFNLR+ K + A+ + +L+P+QV IA KL V+E +V+ MN RL+GD SLNA Sbjct: 129 TAAQKKLFFNLRKAKSQISALEEGDLRPDQVKQIATKLGVTEQDVVDMNRRLSGDASLNA 188 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + +WQDWL DH QE L+E EE NRR L+ +++VLNPRERRIFEARRL Sbjct: 189 PLREDGDGGGEWQDWLQDDHQDQETNLVESEELDNRRTALSSALAVLNPRERRIFEARRL 248 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E+PVTLE L++EF VSRERVRQIE RAF+KVQ+++ +V Sbjct: 249 SEDPVTLEELAAEFGVSRERVRQIEVRAFEKVQKAVVDKV 288 >gi|304393314|ref|ZP_07375242.1| alternative sigma factor RpoH [Ahrensia sp. R2A130] gi|303294321|gb|EFL88693.1| alternative sigma factor RpoH [Ahrensia sp. R2A130] Length = 300 Score = 394 bits (1012), Expect = e-108, Method: Compositional matrix adjust. Identities = 192/292 (65%), Positives = 233/292 (79%), Gaps = 2/292 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI +G GL RY+ EIRK PML+ EEY+L KRY EH D AAH++VTSHLRLV KIAM Sbjct: 7 SISASGN-GLQRYMEEIRKFPMLKPDEEYMLGKRYSEHDDTEAAHKMVTSHLRLVAKIAM 65 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP+SEV+SEGN+GLMQAVKKFDPE+GFRLATY+MWWIKA++QEY+LRSWSLVK+ Sbjct: 66 GYRGYGLPVSEVISEGNVGLMQAVKKFDPEKGFRLATYAMWWIKASIQEYVLRSWSLVKM 125 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 GTTANQKRLFFNLR+LKG L+A+ + LK E V IA L VS EV SMN RL+GD SL Sbjct: 126 GTTANQKRLFFNLRKLKGKLKALEEGELKQENVEKIASTLGVSHDEVRSMNQRLSGDASL 185 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA I +++ S QWQDWLV D + QEQ+LI+++E RR+ML +M VLN RE+RIF AR Sbjct: 186 NAPIKAAEGESGQWQDWLVDDSESQEQMLIKQDELDVRRDMLAEAMDVLNDREKRIFMAR 245 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES-IQKQVELSSSPPLL 297 RL+E+P+TLE LS EF++SRERVRQIE RAF+KVQ++ + EL+ P L Sbjct: 246 RLEEDPLTLEVLSGEFDISRERVRQIEVRAFEKVQKAMVTANKELAKPAPQL 297 >gi|154245929|ref|YP_001416887.1| RNA polymerase factor sigma-32 [Xanthobacter autotrophicus Py2] gi|154160014|gb|ABS67230.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthobacter autotrophicus Py2] Length = 300 Score = 394 bits (1011), Expect = e-107, Method: Compositional matrix adjust. Identities = 192/291 (65%), Positives = 234/291 (80%), Gaps = 2/291 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K+MSI + E GLSRY+ EIR+ PMLE QEEY+LAK +REHGD AAHRLVTSHLRLV K Sbjct: 5 KSMSI-PSAEGGLSRYLEEIRRFPMLEPQEEYMLAKSWREHGDRDAAHRLVTSHLRLVAK 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPISEV+SEGN+GLMQAVK+F+PE+GFRLATY+MWWI+A++QEYILRSWSL Sbjct: 64 IAMGYRGYGLPISEVISEGNVGLMQAVKRFEPEKGFRLATYAMWWIRASIQEYILRSWSL 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTA QK+LFFNLR+ K + A+ D +LKPE V IA KL V+E +V+ MN RL+GD Sbjct: 124 VKMGTTAAQKKLFFNLRKAKSQISALEDGDLKPEHVKQIATKLGVTEQDVVDMNRRLSGD 183 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLN+ I D +WQDWLV + QE+ L E EE NRR L+ ++SVLN RERRIF Sbjct: 184 ASLNSPIR-EDSEGGEWQDWLVDERLDQEEQLAESEELDNRRAALSGALSVLNDRERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 EARRL E+P+TLE+L+SEF VSRERVRQIE RAF+KVQ+++ +V +P Sbjct: 243 EARRLSEDPMTLEDLASEFGVSRERVRQIEVRAFEKVQKAVMDKVRQVEAP 293 >gi|170744871|ref|YP_001773526.1| RNA polymerase factor sigma-32 [Methylobacterium sp. 4-46] gi|168199145|gb|ACA21092.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium sp. 4-46] Length = 296 Score = 393 bits (1010), Expect = e-107, Method: Compositional matrix adjust. Identities = 188/280 (67%), Positives = 229/280 (81%), Gaps = 2/280 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIR+ PMLE EEY+LAK +REHGD AAH+LVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRRFPMLEPTEEYMLAKSWREHGDREAAHKLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+PEQV IA +L V E +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPEQVKQIATRLGVPEQDVIEMNRRLSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE VL +EE +NR L ++SVLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDSPSQEAVLAREEEGQNRLAALRDALSVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E P+TLE+LSSEF VSRERVRQIE RAF+KVQ+++++ + Sbjct: 245 AEEPITLEDLSSEFGVSRERVRQIEVRAFEKVQDAVKRNL 284 >gi|39933444|ref|NP_945720.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris CGA009] gi|192288802|ref|YP_001989407.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris TIE-1] gi|39647290|emb|CAE25811.1| RNA polymerase sigma 32 subunit, RpoH, stress response sigma factor [Rhodopseudomonas palustris CGA009] gi|192282551|gb|ACE98931.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris TIE-1] Length = 299 Score = 393 bits (1010), Expect = e-107, Method: Compositional matrix adjust. Identities = 189/288 (65%), Positives = 228/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R I+NGE GL+RY+ EIRK PMLE Q+EY+LAKR+REHGD AAH+LVTSHLRL Sbjct: 1 MARAATLPILNGESGLARYLAEIRKFPMLEPQQEYMLAKRWREHGDRDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L P+QV IA +L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDLHPDQVKLIATRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDQSPSQEAVMAEHEELDQRRAALNGAIQVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L+SEF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLASEFGVSRERVRQIEVRAFEKVQSAVKGTI 287 >gi|220927320|ref|YP_002502622.1| RNA polymerase factor sigma-32 [Methylobacterium nodulans ORS 2060] gi|219951927|gb|ACL62319.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium nodulans ORS 2060] Length = 296 Score = 392 bits (1008), Expect = e-107, Method: Compositional matrix adjust. Identities = 187/280 (66%), Positives = 229/280 (81%), Gaps = 2/280 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIR+ PMLE EEY+LAK +REHGD AAH+LVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRRFPMLEPTEEYMLAKSWREHGDREAAHKLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+PEQV IA +L V E +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPEQVKQIATRLGVPEQDVIDMNRRLSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE VL +EE +NR L ++SVLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDSPSQEAVLAREEEGQNRLAALRDALSVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E P+TLE+LS+EF VSRERVRQIE RAF+KVQ+++++ + Sbjct: 245 AEEPITLEDLSTEFGVSRERVRQIEVRAFEKVQDAVKRNL 284 >gi|75676615|ref|YP_319036.1| RNA polymerase factor sigma-32 [Nitrobacter winogradskyi Nb-255] gi|74421485|gb|ABA05684.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrobacter winogradskyi Nb-255] Length = 299 Score = 392 bits (1008), Expect = e-107, Method: Compositional matrix adjust. Identities = 187/288 (64%), Positives = 228/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE EEY+ AKR REH D AAH LVTSHLRL Sbjct: 1 MARTATLPVLNGENGLSRYLSEIRKFPMLEPHEEYMFAKRLREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +++P+QV IAK+L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMRPDQVKLIAKRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR LT +M VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEAGEWQDWLVDQSPNQEAIMAEHEEFDHRRRALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFNVSRERVRQIEVRAFEKVQSAVKTTI 287 >gi|92118359|ref|YP_578088.1| RNA polymerase factor sigma-32 [Nitrobacter hamburgensis X14] gi|91801253|gb|ABE63628.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrobacter hamburgensis X14] Length = 299 Score = 392 bits (1008), Expect = e-107, Method: Compositional matrix adjust. Identities = 187/288 (64%), Positives = 228/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R I+NGE GLSRY+ EIRK PMLE +EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARTATVPILNGESGLSRYLAEIRKFPMLEPHQEYMFAKRWREHDDREAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IAK+L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALEEGDMHPDQVKLIAKRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR LT +M VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEAGEWQDWLVDHSPTQEAIMAEHEELNHRRQALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFNVSRERVRQIEVRAFEKVQSAVKTTI 287 >gi|319898405|ref|YP_004158498.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] gi|319402369|emb|CBI75908.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] Length = 305 Score = 392 bits (1006), Expect = e-107, Method: Compositional matrix adjust. Identities = 187/285 (65%), Positives = 231/285 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + + GLSRY+ E+R+ P+LE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAHINLPSFIANDSGLSRYLEEVRRFPVLEPQEEYMLAKRYHEHNDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ +L EQV IA +L V+E EV+SMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKNKLQMFDSGDLNAEQVKEIATRLKVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + ++ S +WQDWLV D + QEQ+LIE++E +NR +ML ++M LN RE+ Sbjct: 181 SGDASLNAPLLTNKGESYEWQDWLVDDSNSQEQILIEQDELENRHSMLIQAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL++ P+TLE LS+EF +SRERVRQIE RAF+K+Q SI+ Sbjct: 241 RIFKARRLRDEPMTLEELSNEFNISRERVRQIEMRAFEKIQNSIK 285 >gi|146338455|ref|YP_001203503.1| RNA polymerase factor sigma-32 [Bradyrhizobium sp. ORS278] gi|146191261|emb|CAL75266.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Bradyrhizobium sp. ORS278] Length = 299 Score = 390 bits (1003), Expect = e-107, Method: Compositional matrix adjust. Identities = 186/288 (64%), Positives = 230/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE QEEY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARTATLPVLNGESGLARYLSEIRKFPMLEPQEEYMLAKRWREHDDSDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L+P+QV IAK+L V++ +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDLRPDQVKLIAKRLGVTDQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR L ++ VLN RER Sbjct: 181 GGDASLNAPIR-DDGEAGEWQDWLVDTSPNQEAIMAEHEEYDHRRQALNGAIGVLNARER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGAI 287 >gi|90422128|ref|YP_530498.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisB18] gi|90104142|gb|ABD86179.1| sigma 32 (RpoH) [Rhodopseudomonas palustris BisB18] Length = 299 Score = 390 bits (1003), Expect = e-106, Method: Compositional matrix adjust. Identities = 186/288 (64%), Positives = 228/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE Q+EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLSRYLAEIRKFPMLEPQQEYMFAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IAK+L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIAKRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE ++ E EE +RR LT ++ VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDHSPNQEAIMAEHEELDHRRAALTGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGTI 287 >gi|319408110|emb|CBI81763.1| RNA polymerase sigma-32 factor [Bartonella schoenbuchensis R1] Length = 308 Score = 390 bits (1002), Expect = e-106, Method: Compositional matrix adjust. Identities = 185/288 (64%), Positives = 235/288 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ I+ G+ GL+RY+ EIR+ PML+ +EEY+LAKRYREH D AAH+LVTSHLRL Sbjct: 1 MAHVNLPSIIAGDGGLNRYLEEIRRFPMLKPKEEYMLAKRYREHDDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ + +L EQV IA +LNV+E EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKNKLQALDNGDLNAEQVKEIATRLNVTEDEVVSMNHRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + + + ++WQDWLV D + QEQ+LIE++E +NRR+ML ++ LN RE+ Sbjct: 181 SGDTSLNAPLRTKEGEKTEWQDWLVDDSNSQEQILIEQDELENRRSMLIHAIDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 IF+ARRL + +TLE LS+ F +SRERVRQIE RAF+KV+ SI+ + Sbjct: 241 HIFKARRLSDESLTLEELSNTFNISRERVRQIEMRAFEKVRNSIKAAI 288 >gi|115522843|ref|YP_779754.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisA53] gi|115516790|gb|ABJ04774.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris BisA53] Length = 299 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 186/288 (64%), Positives = 228/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE Q+EY+LAKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLSRYLAEIRKFPMLEPQQEYMLAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IA +L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIATRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE +RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDHSPSQEAVMAEHEELDHRRAALNGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL ++P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADDPMTLEDLAAEFGVSRERVRQIEVRAFEKVQAAVKGTI 287 >gi|316931591|ref|YP_004106573.1| RNA polymerase sigma 32 subunit RpoH [Rhodopseudomonas palustris DX-1] gi|315599305|gb|ADU41840.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris DX-1] Length = 299 Score = 389 bits (998), Expect = e-106, Method: Compositional matrix adjust. Identities = 186/288 (64%), Positives = 227/288 (78%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE ++EY+LAKR+REHGD AAH+LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLARYLAEIRKFPMLEPEQEYMLAKRWREHGDRDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L P+ V IA +L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDLHPDHVKLIASRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE VL E EE RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDQSPSQEAVLAEHEELDQRRAALNGAIQVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGTI 287 >gi|170752008|ref|YP_001758268.1| RNA polymerase factor sigma-32 [Methylobacterium radiotolerans JCM 2831] gi|170658530|gb|ACB27585.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium radiotolerans JCM 2831] Length = 297 Score = 387 bits (995), Expect = e-106, Method: Compositional matrix adjust. Identities = 186/290 (64%), Positives = 230/290 (79%), Gaps = 3/290 (1%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 + ++ N E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KI Sbjct: 4 TLPVLAN-EGGLSRYLDEIRKFPMLEPSEEFTLAKAWRDAGDREAAHRLVTSHLRLVAKI 62 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 AMGYRGYGLPI EVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLV Sbjct: 63 AMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLV 122 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+GTTANQK+LFFNLR+ KG + A+ + +LKP+QV IA +L V E +VI MN RL+GD Sbjct: 123 KMGTTANQKKLFFNLRKAKGKISALDEGDLKPDQVKQIATRLGVPEQDVIDMNRRLSGDT 182 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLNA + ++ +WQDWLV + QE VL ++E +NR + L ++ VLNPRERRIFE Sbjct: 183 SLNAPLR--EEGEGEWQDWLVDNSPSQETVLAREQEGQNRLSALKDALGVLNPRERRIFE 240 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ARRL E+P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 241 ARRLAEDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNIATRELP 290 >gi|86747581|ref|YP_484077.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris HaA2] gi|86570609|gb|ABD05166.1| sigma 32 (RpoH) [Rhodopseudomonas palustris HaA2] Length = 299 Score = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 185/288 (64%), Positives = 227/288 (78%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE Q+EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLARYLAEIRKFPMLEPQQEYMFAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IAK+L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIAKRLGVTEQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE +RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDQSPNQEAVMAEHEELDHRRAALNGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGTI 287 >gi|300023529|ref|YP_003756140.1| RNA polymerase, sigma 32 subunit, RpoH [Hyphomicrobium denitrificans ATCC 51888] gi|299525350|gb|ADJ23819.1| RNA polymerase, sigma 32 subunit, RpoH [Hyphomicrobium denitrificans ATCC 51888] Length = 296 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 183/291 (62%), Positives = 227/291 (78%), Gaps = 1/291 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K + + G +GLSRY+ EIRK PML EEY+LAKR+++H D AA +LVTSHLRLV + Sbjct: 5 KGLPTLAGGSLGLSRYLEEIRKFPMLAPNEEYMLAKRWQQHEDSDAAEKLVTSHLRLVAR 64 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSL Sbjct: 65 IAMGYRGYGLPIGEVISEGNVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSL 124 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTA QK+LFFNLRR K LQA+ D +L+PE V AIA KL V E +V+SMN RL GD Sbjct: 125 VKMGTTAAQKKLFFNLRRAKSQLQALDDGDLRPEHVKAIATKLGVPEEDVVSMNRRLGGD 184 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I ++ S +WQDWLV D QE L+E EE + R++ L+ ++SVLN RERR+F Sbjct: 185 ASLNAPIR-AESESGEWQDWLVDDTPTQEDRLVEDEELRRRKSYLSSALSVLNDRERRVF 243 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 E RRL E P TLE LS+EF VSRER+RQIE RAF+KVQ+++ + +P Sbjct: 244 EQRRLAEEPATLEELSAEFGVSRERIRQIEVRAFEKVQKAVTSTARRAEAP 294 >gi|121602451|ref|YP_988610.1| RNA polymerase factor sigma-32 [Bartonella bacilliformis KC583] gi|120614628|gb|ABM45229.1| RNA polymerase sigma-32 factor [Bartonella bacilliformis KC583] Length = 303 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 188/288 (65%), Positives = 232/288 (80%), Gaps = 6/288 (2%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I + GLSRY+ EIR+ P+LE +EEY+L KRY EH DL AAH+LVTSHLRLV KIA+GY Sbjct: 9 IAANDGGLSRYLEEIRRFPILEPKEEYMLVKRYNEHNDLKAAHKLVTSHLRLVAKIAIGY 68 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLP+ EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRSWSLVKIGT Sbjct: 69 RGYGLPMGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRSWSLVKIGT 128 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 T NQKRLFFNLR+LK LQA+ + L EQV IA +LNV+E EV+SMN RL+GD SLNA Sbjct: 129 TTNQKRLFFNLRKLKSKLQALDNGELNTEQVKEIATRLNVTEDEVVSMNHRLSGDTSLNA 188 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + +++ S+WQD LV + QEQVLIEK+E +NRR++L +M+ LN RE+RIFEARRL Sbjct: 189 PLRTNEDEHSEWQDCLVDEASSQEQVLIEKDELENRRSLLIHAMANLNEREKRIFEARRL 248 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI------QKQVEL 290 + +TLE LSSEF +SRERVRQIE RAF+KVQ+ + QKQ ++ Sbjct: 249 SDEVLTLEELSSEFNISRERVRQIEMRAFEKVQDFVRASALSQKQAQI 296 >gi|148257972|ref|YP_001242557.1| RNA polymerase factor sigma-32 [Bradyrhizobium sp. BTAi1] gi|146410145|gb|ABQ38651.1| RNA polymerase, sigma 32 subunit, RpoH [Bradyrhizobium sp. BTAi1] Length = 299 Score = 386 bits (992), Expect = e-105, Method: Compositional matrix adjust. Identities = 184/288 (63%), Positives = 228/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE QEEY+LAKR+REH D AA +LVTSHLRL Sbjct: 1 MARTATLPVLNGESGLARYLAEIRKFPMLEPQEEYMLAKRWREHDDSDAAQKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L P+QV IAK+L V++ +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSRISALDEGDLHPDQVKLIAKRLGVTDQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR L ++ VLN RER Sbjct: 181 GGDASLNAPIR-DDGEAGEWQDWLVDTSPNQEAIMAEHEEYDHRRQALNGAIGVLNARER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGAI 287 >gi|91974840|ref|YP_567499.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisB5] gi|91681296|gb|ABE37598.1| RNA polymerase sigma factor RpoH [Rhodopseudomonas palustris BisB5] Length = 299 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 184/288 (63%), Positives = 226/288 (78%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE Q+EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLARYLAEIRKFPMLEPQQEYMFAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IA +L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIATRLGVTEQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE +RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIR-DDGEPGEWQDWLVDQSPSQEAVMAEHEELDHRRAALNGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGTI 287 >gi|319405171|emb|CBI78776.1| RNA polymerase sigma-32 factor [Bartonella sp. AR 15-3] Length = 305 Score = 385 bits (989), Expect = e-105, Method: Compositional matrix adjust. Identities = 185/285 (64%), Positives = 232/285 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + + L+RY+ EIR+ P+LE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAHINLPSFIANDNSLNRYLEEIRRFPILEPQEEYMLAKRYHEHNDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ + +L +QV IA +L V+E EV+SMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKNKLQMLDSGDLNAQQVKEIATRLKVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + ++ S +WQDWLV D + QEQ+LIE++E +NR ++L ++M LN RE+ Sbjct: 181 SGDASLNAPLLTNKGESYEWQDWLVDDSNNQEQILIEQDELENRYSLLIQAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL++ P+TLE LS+EF +SRERVRQIEARAF+KVQ SI+ Sbjct: 241 RIFKARRLRDEPLTLEELSNEFNISRERVRQIEARAFEKVQNSIK 285 >gi|188580210|ref|YP_001923655.1| RNA polymerase factor sigma-32 [Methylobacterium populi BJ001] gi|179343708|gb|ACB79120.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium populi BJ001] Length = 297 Score = 385 bits (988), Expect = e-105, Method: Compositional matrix adjust. Identities = 184/286 (64%), Positives = 227/286 (79%), Gaps = 2/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRKFPMLEPAEEFTLAKSWRDEGDREAAHRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+P+QV IA L V +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPDQVQQIATSLGVPTQDVIDMNRRLSGDTSLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV + QE VL +EE +NR + L ++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDNSPSQETVLAREEEGRNRLSALRDALGVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ++P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 245 ADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNLATRELP 290 >gi|254700317|ref|ZP_05162145.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|261750811|ref|ZP_05994520.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|261740564|gb|EEY28490.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] Length = 262 Score = 384 bits (987), Expect = e-105, Method: Compositional matrix adjust. Identities = 180/262 (68%), Positives = 219/262 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEF 262 RIFEARRL E P+TLE+LS EF Sbjct: 241 RIFEARRLAEEPMTLEDLSGEF 262 >gi|182677344|ref|YP_001831490.1| RNA polymerase, sigma 32 subunit, RpoH [Beijerinckia indica subsp. indica ATCC 9039] gi|182633227|gb|ACB94001.1| RNA polymerase, sigma 32 subunit, RpoH [Beijerinckia indica subsp. indica ATCC 9039] Length = 299 Score = 384 bits (987), Expect = e-105, Method: Compositional matrix adjust. Identities = 180/280 (64%), Positives = 229/280 (81%), Gaps = 2/280 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++GE GL+RY++EIR+ PMLE QEEY+LAKR+REH D AA RLVTSHLRLV KIAMGY Sbjct: 7 MISGESGLTRYLNEIRRFPMLEPQEEYMLAKRWREHEDPDAAQRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 67 RGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TA+QK+LFFNLR+ K + A+ + +L+P+QV IA +L V+ EVI MN R++GD SLNA Sbjct: 127 TASQKKLFFNLRKAKSQISALDEGDLRPDQVALIATRLGVTGQEVIDMNRRMSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE VL ++EE NR L +++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDQANQEHVLADQEESANRLGALRQALDVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++PVTLE LS EF++SRERVRQIE RAF+KVQ +++ V Sbjct: 245 ADDPVTLEALSDEFDISRERVRQIEVRAFEKVQAAVKAGV 284 >gi|218528993|ref|YP_002419809.1| RNA polymerase factor sigma-32 [Methylobacterium chloromethanicum CM4] gi|240137510|ref|YP_002961981.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|254559688|ref|YP_003066783.1| RNA polymerase sigma-32 [Methylobacterium extorquens DM4] gi|218521296|gb|ACK81881.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium chloromethanicum CM4] gi|240007478|gb|ACS38704.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|254266966|emb|CAX22766.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens DM4] Length = 297 Score = 384 bits (986), Expect = e-105, Method: Compositional matrix adjust. Identities = 184/286 (64%), Positives = 227/286 (79%), Gaps = 2/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRKFPMLEPAEEFTLAKSWRDDGDREAAHRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+P+QV IA L V +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPDQVQHIATSLGVPAQDVIDMNRRLSGDTSLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV + QE VL +EE +NR + L ++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDNSPSQETVLAREEEGRNRLSALRDALGVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ++P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 245 ADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNLATRELP 290 >gi|163850434|ref|YP_001638477.1| RNA polymerase factor sigma-32 [Methylobacterium extorquens PA1] gi|163662039|gb|ABY29406.1| RNA polymerase sigma factor RpoH [Methylobacterium extorquens PA1] Length = 297 Score = 384 bits (986), Expect = e-105, Method: Compositional matrix adjust. Identities = 184/286 (64%), Positives = 227/286 (79%), Gaps = 2/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRKFPMLEPAEEFTLAKSWRDDGDREAAHRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+P+QV IA L V +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPDQVQHIATSLGVPAQDVIDMNRRLSGDTSLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV + QE VL +EE +NR + L ++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDNSPSQETVLAREEEGRNRLSALRDALGVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ++P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 245 ADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNLATRELP 290 >gi|217978453|ref|YP_002362600.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocella silvestris BL2] gi|217503829|gb|ACK51238.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocella silvestris BL2] Length = 303 Score = 384 bits (986), Expect = e-105, Method: Compositional matrix adjust. Identities = 178/280 (63%), Positives = 233/280 (83%), Gaps = 2/280 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++GE GL+RY++EIR+ PMLE Q+EY+LAKR+REH D AAH+LVTSHLRLV KIAMGY Sbjct: 7 MISGESGLARYLNEIRRFPMLEPQQEYMLAKRWREHADSDAAHKLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TA+QK+LFFNLR++K + A+ + +L+PE V IA +L VS+ +VI MN R++GD SLNA Sbjct: 127 TASQKKLFFNLRKVKSQISALEEGDLRPEHVDKIAHRLGVSKQDVIDMNRRMSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE++L+++EE NR L +++VLN RERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDSASQEKLLVDREETDNRLGALHTALNVLNDRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++P+TLE LS EF++SRERVRQIE RAF+KVQ +++ V Sbjct: 245 ADDPMTLEALSDEFDISRERVRQIEVRAFEKVQSAVKAGV 284 >gi|319403703|emb|CBI77288.1| RNA polymerase sigma-32 factor [Bartonella rochalimae ATCC BAA-1498] Length = 305 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 183/281 (65%), Positives = 230/281 (81%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ + + GL+RY+ EIR+ P+LE QEEY+LAKRYRE+ D AAH+LVTSHLRLV KI Sbjct: 5 NLPSFIANDNGLNRYLEEIRRFPVLEPQEEYMLAKRYREYNDPKAAHKLVTSHLRLVAKI 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRSWSLV Sbjct: 65 AIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRSWSLV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTTANQKRLFFNLR+LK LQ + + +L +QV IA +L V+E EV+SMN RL GD Sbjct: 125 KIGTTANQKRLFFNLRKLKNKLQMLDNGDLNAQQVKEIATRLKVTEDEVVSMNRRLNGDA 184 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLNA + ++ S +WQDWLV D + QEQ LIE+ E +NR ++L +M LN RE+RIF+ Sbjct: 185 SLNAPLLTNKGESYEWQDWLVDDSNNQEQTLIEQNELENRYSILIHAMDNLNEREKRIFK 244 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ARRL+++P+TLE LS+EF +SRERVRQIEARAF+K+Q I+ Sbjct: 245 ARRLRDDPLTLEELSNEFNISRERVRQIEARAFEKIQNFIK 285 >gi|296445492|ref|ZP_06887449.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] gi|296257058|gb|EFH04128.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] Length = 294 Score = 381 bits (979), Expect = e-104, Method: Compositional matrix adjust. Identities = 182/293 (62%), Positives = 235/293 (80%), Gaps = 5/293 (1%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N ++G+ GLSRY+ EIR+ PMLE ++EY+LAKR+REH D +AA +LVTSHLRLV KI Sbjct: 3 NALPTLSGDSGLSRYLAEIRRFPMLEPEQEYMLAKRWREHEDPNAAQKLVTSHLRLVAKI 62 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 AMGYRGYGLPI E+VSEGN+GLMQAVK+F+PERGFRLATY+MWWI+A++QEYILRSWSLV Sbjct: 63 AMGYRGYGLPIGEIVSEGNVGLMQAVKRFEPERGFRLATYAMWWIRASIQEYILRSWSLV 122 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+GTTA+QK+LFFNLR+ K + A D +L PE V IA++L V+ +VI MN R++GD Sbjct: 123 KMGTTASQKKLFFNLRKAKSKISAFEDGDLTPEHVGEIARRLGVTNQDVIEMNRRMSGDA 182 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLNA + ++ +WQDWLV D QE++L+++EE NR + L +++VLNPRERRIFE Sbjct: 183 SLNAPLR--EEGEGEWQDWLVDDSSDQERILVDQEEAGNRLDALRGALTVLNPRERRIFE 240 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ---KQVELSSSP 294 ARRL E+PVTLE+LS+EF VSRERVRQIE RAF+KVQ +++ Q+E +P Sbjct: 241 ARRLSEDPVTLEDLSTEFGVSRERVRQIEVRAFEKVQSAVRAGMAQLEALPAP 293 >gi|319406710|emb|CBI80343.1| RNA polymerase sigma-32 factor [Bartonella sp. 1-1C] Length = 305 Score = 380 bits (975), Expect = e-103, Method: Compositional matrix adjust. Identities = 183/295 (62%), Positives = 235/295 (79%), Gaps = 7/295 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ + + GL+RY+ EIR+ P+LE QEEY+LAKRY E+ D AAH+LVTSHLRLV KI Sbjct: 5 NLPSFIANDNGLNRYLEEIRRFPVLEPQEEYMLAKRYHEYNDPKAAHKLVTSHLRLVAKI 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRSWSLV Sbjct: 65 AIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRSWSLV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTTANQKRLFFNLR+LK LQ + + +L +QV IA +L V+E EV+SMN RL GD Sbjct: 125 KIGTTANQKRLFFNLRKLKNKLQMLDNGDLNAQQVKEIATRLKVTEDEVVSMNRRLNGDA 184 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLNA + ++ S +WQDWL+ D + QEQ LIE++E +NR ++L +M LN RE+RIF+ Sbjct: 185 SLNAPLLTNKGESYEWQDWLIDDSNNQEQTLIEQDELENRYSILIHAMDNLNEREKRIFK 244 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQK 299 ARRL+++P+TLE LS+EF +SRERVRQIEARAF+K++ I+ + PL +K Sbjct: 245 ARRLRDDPLTLEELSNEFNISRERVRQIEARAFEKIKNFIK-------TSPLFRK 292 >gi|312114652|ref|YP_004012248.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodomicrobium vannielii ATCC 17100] gi|311219781|gb|ADP71149.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodomicrobium vannielii ATCC 17100] Length = 308 Score = 378 bits (970), Expect = e-103, Method: Compositional matrix adjust. Identities = 181/288 (62%), Positives = 226/288 (78%), Gaps = 3/288 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ +G GL+RY+ EIR+ PMLE Q+EY+LAKR++EH D AA +LVTSHLRLV +IAM Sbjct: 6 SVAASG--GLARYLEEIRRFPMLEPQQEYMLAKRWQEHEDAKAAQKLVTSHLRLVARIAM 63 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLPI EV+SEGN+GLMQAVK+FDP++GFRLATY+MWWI+AA+QEYILRSWSLVK+ Sbjct: 64 GYRGYGLPIGEVISEGNVGLMQAVKRFDPDKGFRLATYAMWWIRAAIQEYILRSWSLVKM 123 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 GTTA+QK+LFFNLR+ K LQA+ + +L+P+QV IA L V E +V+SMN RL GD SL Sbjct: 124 GTTASQKKLFFNLRKAKSQLQALEEGDLRPDQVKTIATNLGVPEEDVVSMNRRLGGDASL 183 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + +D S +WQDWLV + QE L E EE RR L +M LN RERRIF AR Sbjct: 184 NAPLR-ADSESGEWQDWLVDEGPNQETQLAESEELSRRREYLGAAMDSLNERERRIFTAR 242 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 RL ++P+TLE LSSEF VSRER+RQIE RAF+KVQ+++QK + +P Sbjct: 243 RLADDPLTLEELSSEFNVSRERIRQIEVRAFEKVQKAVQKAALKAEAP 290 >gi|254501465|ref|ZP_05113616.1| alternative sigma factor RpoH [Labrenzia alexandrii DFL-11] gi|222437536|gb|EEE44215.1| alternative sigma factor RpoH [Labrenzia alexandrii DFL-11] Length = 269 Score = 375 bits (963), Expect = e-102, Method: Compositional matrix adjust. Identities = 185/273 (67%), Positives = 223/273 (81%), Gaps = 6/273 (2%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 ML+ QEEY+LAKRY+EH D AA RLV SHLRLV KIAMGYRGYGLPI EVVSEGN+GLM Sbjct: 1 MLQPQEEYMLAKRYKEHEDPEAAERLVNSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 QAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSLVK+GTTANQKRLFFNLRRLKG +Q Sbjct: 61 QAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGTTANQKRLFFNLRRLKGKIQ 120 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 A+ + +LKP QV IA +L VSE EV+SMN RL GD SLNA I ++ ++ +WQDWLV + Sbjct: 121 ALEEGDLKPHQVQEIATRLGVSEEEVVSMNRRLGGDASLNAPIR-AEADAGEWQDWLVDE 179 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 D QE +L +EE RR ML+ +M VLN RERRIFEARRL E+P+TLE+LS EF VSRE Sbjct: 180 SDSQETLLANQEELDMRRKMLSDAMDVLNDRERRIFEARRLSEDPMTLEDLSGEFGVSRE 239 Query: 268 RVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 RVRQIE RAF+KVQ++++ +S+ L Q+P Sbjct: 240 RVRQIEVRAFEKVQKAVR-----NSARTLDQQP 267 >gi|323137119|ref|ZP_08072198.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] gi|322397477|gb|EFX99999.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] Length = 294 Score = 373 bits (957), Expect = e-101, Method: Compositional matrix adjust. Identities = 177/284 (62%), Positives = 225/284 (79%), Gaps = 4/284 (1%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ +I G GL+RY+ EIR+ PMLE Q+EY+LAKR+REH D AA LVTSHLRLV KI Sbjct: 3 NLPVIAEG--GLARYLAEIRRFPMLEPQQEYMLAKRWREHEDPKAAQELVTSHLRLVAKI 60 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 AMGYRGYGLPI E++SEGN+GLMQAVK+F+P+RGFRLATY+MWWI+A++QEYILRSWSLV Sbjct: 61 AMGYRGYGLPIGEIISEGNVGLMQAVKRFEPDRGFRLATYAMWWIRASIQEYILRSWSLV 120 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+GTTA+QK+LFFNLR+ K + A + +++PE V IA +L VS+ +VI MN R+ GD Sbjct: 121 KMGTTASQKKLFFNLRKAKSRISAFEEGDMRPENVEKIATRLGVSQQDVIEMNRRMGGDA 180 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLNA + ++ +WQDWLV D + QE++L+ +EE NR L ++ VLNPRERRIFE Sbjct: 181 SLNAPLR--EEGEGEWQDWLVDDSEDQERILVAQEENNNRLKALRGALDVLNPRERRIFE 238 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ARRL ++PVTLE LS EF VSRERVRQIE RAF+KVQ +++ V Sbjct: 239 ARRLADDPVTLEQLSEEFGVSRERVRQIEVRAFEKVQAAVRSGV 282 >gi|154252606|ref|YP_001413430.1| RNA polymerase sigma-32 subunit RpoH [Parvibaculum lavamentivorans DS-1] gi|154156556|gb|ABS63773.1| RNA polymerase, sigma 32 subunit, RpoH [Parvibaculum lavamentivorans DS-1] Length = 340 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 180/276 (65%), Positives = 218/276 (78%), Gaps = 2/276 (0%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 N E LSRY+ EIRK PMLE QEEY+LAKR+REH D AAH+LVTSHLRLV KIAMGYRG Sbjct: 49 NPEGSLSRYLQEIRKFPMLEPQEEYMLAKRWREHEDTEAAHQLVTSHLRLVAKIAMGYRG 108 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWI+A++QEYILRSWSLVK+GTTA Sbjct: 109 YGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIRASIQEYILRSWSLVKMGTTA 168 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNAL 189 QK+LFFNLR++KG +QAI + +L PEQV I+ +L V+E EVISMN RL+G D SLNA Sbjct: 169 AQKKLFFNLRKVKGQIQAIEEGDLHPEQVKVISDRLGVTEDEVISMNRRLSGPDNSLNAP 228 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + D +WQDWLV D QE L E EE RR ML +M+ LN RE I RRL+ Sbjct: 229 LR-QDSEGGEWQDWLVDDTADQEATLGEAEELDQRREMLAAAMATLNEREMHILTERRLK 287 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + P TLE+LS E+ +SRERVRQIE RAF+K+Q++++ Sbjct: 288 DEPATLEDLSQEYGISRERVRQIEVRAFEKLQKAMK 323 >gi|163794484|ref|ZP_02188455.1| RNA polymerase sigma-32 factor [alpha proteobacterium BAL199] gi|159180208|gb|EDP64731.1| RNA polymerase sigma-32 factor [alpha proteobacterium BAL199] Length = 298 Score = 368 bits (945), Expect = e-100, Method: Compositional matrix adjust. Identities = 182/285 (63%), Positives = 225/285 (78%), Gaps = 6/285 (2%) Query: 3 RKNM-SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 R N+ SI V G LSRY+ EIRK PMLE EEYVLAK +REH D+ +AH+LVTSHLRLV Sbjct: 5 RANLPSISVEG--NLSRYLQEIRKFPMLEPGEEYVLAKSWREHDDVESAHKLVTSHLRLV 62 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP++E++SEGN+G+MQAVK+FDPERGFRLATY+MWWI+A++QEYIL SW Sbjct: 63 AKIAMGYRGYGLPLAELISEGNVGMMQAVKRFDPERGFRLATYAMWWIRASIQEYILHSW 122 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 SLVK+GTTA QK+LFFNLRRLKG +QAI D +L PE+V AIA+KL+VSE++V+SMN RLA Sbjct: 123 SLVKMGTTAAQKKLFFNLRRLKGQMQAIEDGDLSPERVTAIAEKLDVSEADVVSMNRRLA 182 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 D SLNA + +WQDWLV + QE E EE RR +L +M LN RER Sbjct: 183 SPDHSLNAPLRQD--GEGEWQDWLVDEGQNQEVSFAEDEELSKRRRLLNVAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I RRL++NP TLE+LS E+++SRERVRQIE RAF+K+Q++I+ Sbjct: 241 HILTERRLRDNPTTLEDLSQEYDISRERVRQIEVRAFEKLQKAIK 285 >gi|23015588|ref|ZP_00055360.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 296 Score = 366 bits (940), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 175/280 (62%), Positives = 222/280 (79%), Gaps = 3/280 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ + E L+RY+ +IRK PML +EEY+LAKR+REHGDL AA+RLVTSHLRLV KIAM Sbjct: 7 SLSLAPEGNLTRYLQDIRKFPMLPPEEEYLLAKRFREHGDLPAANRLVTSHLRLVAKIAM 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP+ E++SEGN+G+MQAV++FDPERGFRLATY+MWWI+AA+QEYIL SWSLVK+ Sbjct: 67 GYRGYGLPLGELISEGNVGMMQAVRRFDPERGFRLATYAMWWIRAAIQEYILHSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLR+LKG +QAI + ++ E V IA KL V+E EVI+MN RL+ D S Sbjct: 127 GTTAAQKKLFFNLRKLKGQMQAIEEGDMSAENVAKIATKLEVTEDEVITMNRRLSSPDHS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA + + + +WQDWLV DH+ QE L E+EE RR MLT +++ LN RER I Sbjct: 187 LNAPVRT--EGEGEWQDWLVDDHEDQETELGEREEMGQRRGMLTSALAALNDRERAILIQ 244 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RRL E+P TLE+LS + +SRERVRQIE RAF+K+Q+S++ Sbjct: 245 RRLTEDPATLEDLSQRYGISRERVRQIEVRAFEKLQKSVK 284 >gi|83312286|ref|YP_422550.1| RNA polymerase factor sigma-32 [Magnetospirillum magneticum AMB-1] gi|82947127|dbj|BAE51991.1| DNA-directed RNA polymerase, sigma subunit [Magnetospirillum magneticum AMB-1] Length = 296 Score = 364 bits (935), Expect = 8e-99, Method: Compositional matrix adjust. Identities = 174/280 (62%), Positives = 221/280 (78%), Gaps = 3/280 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ + E L+RY+ +IRK PML +EEY+LAKR+REHGDL AA+RLVTSHLRLV KIAM Sbjct: 7 SLSLAPEGNLTRYLQDIRKFPMLPPEEEYLLAKRFREHGDLPAANRLVTSHLRLVAKIAM 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP+ E++SEGN+G+MQAV++FDPERGFRLATY+MWWI+AA+QEYIL SWSLVK+ Sbjct: 67 GYRGYGLPLGELISEGNVGMMQAVRRFDPERGFRLATYAMWWIRAAIQEYILHSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLR+LKG +QAI + ++ E V IA KL V+E EV++MN RL+ D S Sbjct: 127 GTTAAQKKLFFNLRKLKGQMQAIEEGDMSAENVAKIATKLEVTEDEVVTMNRRLSSPDHS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA + + + +WQDWLV DH+ QE L E+EE RR MLT ++ LN RER I Sbjct: 187 LNAPVRA--EGEGEWQDWLVDDHEDQETELGEREELGQRRQMLTSALEALNDRERAILIQ 244 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RRL E+P TLE+LS + +SRERVRQIE RAF+K+Q+S++ Sbjct: 245 RRLTEDPATLEDLSQRYGISRERVRQIEVRAFEKLQKSVK 284 >gi|209965020|ref|YP_002297935.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] gi|209958486|gb|ACI99122.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] Length = 294 Score = 364 bits (934), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 175/282 (62%), Positives = 222/282 (78%), Gaps = 3/282 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++N E L+RY+ EIRK PMLE +EEY+LAK +REHGD AAHRLVTSHLRLV KIAMGY Sbjct: 10 VINSESNLARYLQEIRKFPMLEAEEEYMLAKSWREHGDTDAAHRLVTSHLRLVAKIAMGY 69 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLP+SE++SEGN+G+MQAVK+FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+GT Sbjct: 70 RGYGLPLSELISEGNVGMMQAVKRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMGT 129 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR+LKG +QAI + +L PE V IA+ L+V ES+V++MN RLA D SLN Sbjct: 130 TAAQKKLFFNLRKLKGQMQAIDEGDLHPETVRKIAETLDVPESDVVNMNRRLASPDHSLN 189 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + +WQDWLV + + QE L E+EE R+ +L +M LN RER I RR Sbjct: 190 APLRVD--GEGEWQDWLVDESESQEIRLGEREELGKRKALLAEAMKTLNDRERHILVERR 247 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 L++NP TLE+LS ++ +SRERVRQIE RAF+K+Q++I+ E Sbjct: 248 LRDNPTTLEDLSQQYGISRERVRQIEVRAFEKLQKAIRSAAE 289 >gi|294085881|ref|YP_003552641.1| RNA polymerase sigma-32 subunit RpoH [Candidatus Puniceispirillum marinum IMCC1322] gi|292665456|gb|ADE40557.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Puniceispirillum marinum IMCC1322] Length = 312 Score = 363 bits (933), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 169/274 (61%), Positives = 221/274 (80%), Gaps = 1/274 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LSRY+ +IR PMLE ++EY+LAK ++E GD+ +AH+LVTSHLRLV KIAMGYRGYGLP+ Sbjct: 21 LSRYLEQIRAFPMLEPKQEYMLAKAWKEKGDVESAHQLVTSHLRLVAKIAMGYRGYGLPV 80 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++SEGN+G+M AVKKF+PE+GFRLATY+MWWIKAA+QEYILRSWSLVKIGTTA QK+L Sbjct: 81 ADLISEGNLGMMHAVKKFEPEKGFRLATYAMWWIKAAIQEYILRSWSLVKIGTTAGQKKL 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLRR+KG +QAI + +LKPEQV IA +LNV+E+EV+SMN R+AG D SLN ++ Sbjct: 141 FFNLRRIKGQIQAIDEGDLKPEQVTHIADELNVTEAEVMSMNQRMAGNDRSLNVPLSRDG 200 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 + + +WQDWL D QE E EE R N++ +M LN RE+RI +ARRL E P+T Sbjct: 201 EGTGEWQDWLEDDTVDQETSFAEHEEYSARANLMMDAMKGLNEREQRILQARRLAEPPLT 260 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 LE+L+ EF VSRER+RQIE RAF+K+Q++++ + Sbjct: 261 LEDLAGEFNVSRERIRQIEVRAFEKLQKAVRDKA 294 >gi|85714568|ref|ZP_01045555.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] gi|85698453|gb|EAQ36323.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] Length = 272 Score = 363 bits (931), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 172/261 (65%), Positives = 210/261 (80%), Gaps = 1/261 (0%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 MLE EEY+ AKR REH D AAH LVTSHLRLV KIAMGYRGYGLPISEVVSEGN+GLM Sbjct: 1 MLEPHEEYMFAKRLREHDDRDAAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 QAVK+F+PE+GFRLATY+MWWIKA++QEYILRSWSLVK+GTTANQK+LFFNLR+ K + Sbjct: 61 QAVKRFEPEKGFRLATYAMWWIKASIQEYILRSWSLVKMGTTANQKKLFFNLRKAKSKIS 120 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 A+ + +++P+QV IA++L V+E +V+ MN RL GD SLNA I D + +WQDWLV Sbjct: 121 ALDEGDMRPDQVKLIARRLGVTEQDVVDMNRRLGGDASLNAPIR-DDGEAGEWQDWLVDQ 179 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 QE V+ E EE +RR LT +M VLNPRERRIFEARRL + P+TLE+L++EF VSRE Sbjct: 180 SPTQEAVMAEHEEFDHRRRALTGAMGVLNPRERRIFEARRLADEPMTLEDLAAEFNVSRE 239 Query: 268 RVRQIEARAFKKVQESIQKQV 288 RVRQIE RAF+KVQ +++ + Sbjct: 240 RVRQIEVRAFEKVQSAVKTTI 260 >gi|144897893|emb|CAM74757.1| RNA polymerase sigma-32 factor [Magnetospirillum gryphiswaldense MSR-1] Length = 288 Score = 361 bits (927), Expect = 7e-98, Method: Compositional matrix adjust. Identities = 175/283 (61%), Positives = 219/283 (77%), Gaps = 3/283 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ + E LSRY+ EIRK PMLE EEY LAKRYREHGD AA RL+TSHLRLV KIAM Sbjct: 7 SLSLAPEGNLSRYLQEIRKFPMLEPTEEYQLAKRYREHGDFEAADRLITSHLRLVAKIAM 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP+ E++SEGN+G+MQAVK+FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+ Sbjct: 67 GYRGYGLPLGELISEGNVGMMQAVKRFDPDRGFRLATYAMWWIRAAVQEYILHSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLR+LKG +QA+ + +L E V +IA KLNV E++VI+MN RLA D S Sbjct: 127 GTTAAQKKLFFNLRKLKGQMQAMDEGDLPQETVTSIATKLNVPENDVINMNRRLASPDHS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA + +WQDWLV + D QE L +++ER R +L+ ++ LN RER I Sbjct: 187 LNAPVRMD--GEGEWQDWLVDESDDQETELADRQERGIRSKLLSTALDTLNERERSILSQ 244 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RRL E+P TLE+LS ++ +SRERVRQIE RAF+K+Q+SI+ V Sbjct: 245 RRLTEDPATLEDLSQQYGISRERVRQIEVRAFEKLQKSIRASV 287 >gi|296114957|ref|ZP_06833602.1| RNA polymerase factor sigma-32 [Gluconacetobacter hansenii ATCC 23769] gi|295978475|gb|EFG85208.1| RNA polymerase factor sigma-32 [Gluconacetobacter hansenii ATCC 23769] Length = 299 Score = 361 bits (927), Expect = 7e-98, Method: Compositional matrix adjust. Identities = 174/283 (61%), Positives = 219/283 (77%), Gaps = 3/283 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 +I+ E LS+Y+ +IRK PML +EE L++ ++E GD AAH+LVTSHLRLV KIAM Sbjct: 6 AILSGPENNLSKYLRDIRKFPMLSPEEELKLSRLWKEKGDTEAAHKLVTSHLRLVAKIAM 65 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP+ E++SEGNIG+MQAV++FDPERGFRLATY+MWWI+AA+QEYIL SWSLVKI Sbjct: 66 GYRGYGLPVGELISEGNIGMMQAVRRFDPERGFRLATYAMWWIRAAIQEYILHSWSLVKI 125 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDES 185 GTTA QK+LFFNLRRLKG +QAI D +L+PEQV IAK L V E +V++MN RL A D S Sbjct: 126 GTTAAQKKLFFNLRRLKGQMQAIDDGDLQPEQVDKIAKSLGVPEQDVVNMNRRLSAPDHS 185 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA + + + +WQDWLV DHD QEQ L E EE R+ +L +M LN RER I Sbjct: 186 LNAPLRTD--SEGEWQDWLVDDHDNQEQTLAENEEYSGRKALLANAMQSLNERERHILTE 243 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RRL+++P TLE+LS + +SRERVRQIE RAF+KVQ +++ +V Sbjct: 244 RRLKDDPATLEDLSHVYNISRERVRQIEVRAFEKVQNAMKAEV 286 >gi|315498780|ref|YP_004087584.1| RNA polymerase, sigma 32 subunit, rpoh [Asticcacaulis excentricus CB 48] gi|315416792|gb|ADU13433.1| RNA polymerase, sigma 32 subunit, RpoH [Asticcacaulis excentricus CB 48] Length = 344 Score = 360 bits (923), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 175/278 (62%), Positives = 220/278 (79%), Gaps = 3/278 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + GL+RY+ EIRK PML K EE++LAKR+ EH D AAH+LVTSHLRLV KIAMGY Sbjct: 62 VLSPDGGLNRYLSEIRKFPMLAKDEEFMLAKRWAEHADPKAAHKLVTSHLRLVAKIAMGY 121 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWIKAA+QEY+LRSWSLVK+GT Sbjct: 122 RGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIKAAIQEYVLRSWSLVKMGT 181 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR++K + A+ + +++ EQV IA KL VSE +VISMN R++ D SLN Sbjct: 182 TAAQKKLFFNLRKVKSEISALEEGDMRHEQVAQIATKLGVSEDDVISMNRRMSSPDSSLN 241 Query: 188 ALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A + S+ + S+WQDWL D QE VL + EE K R ++L +M LN RER I AR Sbjct: 242 APLRVSEGD-SEWQDWLADDSTPSQETVLADSEEYKLRMSLLEEAMGELNERERAILTAR 300 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RLQENP TLE+L+ F VSRERVRQIE RAF+K+Q+++ Sbjct: 301 RLQENPTTLEDLADRFGVSRERVRQIEVRAFEKLQKAM 338 >gi|258543198|ref|YP_003188631.1| RNA polymerase factor sigma-32 [Acetobacter pasteurianus IFO 3283-01] gi|256634276|dbj|BAI00252.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-01] gi|256637336|dbj|BAI03305.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-03] gi|256640388|dbj|BAI06350.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-07] gi|256643445|dbj|BAI09400.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-22] gi|256646500|dbj|BAI12448.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-26] gi|256649553|dbj|BAI15494.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-32] gi|256652539|dbj|BAI18473.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-01-42C] gi|256655597|dbj|BAI21524.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-12] Length = 319 Score = 358 bits (920), Expect = 4e-97, Method: Compositional matrix adjust. Identities = 177/283 (62%), Positives = 221/283 (78%), Gaps = 3/283 (1%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I V E LSRY+ EIRK P+L +EE L++ +R+ GD+ AAH+LVTSHLRLV KIAMG Sbjct: 29 INVGPENNLSRYLQEIRKYPLLTPEEELSLSRLWRDKGDVKAAHQLVTSHLRLVAKIAMG 88 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 YRGYGLPI+E++SEGNIG+MQAVK+FDPE+GFRLATY+MWWI+AA+QEYIL SWSLVK+G Sbjct: 89 YRGYGLPINELISEGNIGMMQAVKRFDPEKGFRLATYAMWWIRAAIQEYILHSWSLVKMG 148 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TTA QK+LFFNLRRLKG +QAI D +LKPEQV IA L VSE +V+ MN R+A D SL Sbjct: 149 TTAAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIATTLGVSEQDVVDMNRRMAAPDHSL 208 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + + S+WQD LV DH QE V E EE R+ +L+ +M LN RERRIF R Sbjct: 209 NAPMRAD--QDSEWQDRLVDDHTNQEDVYAENEELSGRKALLSSAMENLNERERRIFTER 266 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RL+++P TLE L+ E+ +SRERVRQIE RAF+KVQ +++K+V+ Sbjct: 267 RLKDDPSTLEELAHEYGISRERVRQIEVRAFEKVQAAMKKEVQ 309 >gi|209542656|ref|YP_002274885.1| RNA polymerase factor sigma-32 [Gluconacetobacter diazotrophicus PAl 5] gi|209530333|gb|ACI50270.1| RNA polymerase, sigma 32 subunit, RpoH [Gluconacetobacter diazotrophicus PAl 5] Length = 295 Score = 358 bits (920), Expect = 4e-97, Method: Compositional matrix adjust. Identities = 173/281 (61%), Positives = 217/281 (77%), Gaps = 3/281 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V E LSRY+ +IRK PML ++E L++R+++ GD AAH LVTSHLRLV KIAMGYR Sbjct: 8 VGPESNLSRYLQDIRKFPMLSPEDEQRLSRRWKDKGDTEAAHALVTSHLRLVAKIAMGYR 67 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+ E++SEGNIG+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+GTT Sbjct: 68 GYGLPLGELISEGNIGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMGTT 127 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNA 188 A QK+LFFNLRRLKG +QAI D +LKPEQV IA+ L V E +VI+MN RL A D SLNA Sbjct: 128 AAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIAESLGVPEQDVINMNRRLSAPDHSLNA 187 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + + +WQDWLV +HD QEQ L E EE R+ +L +M LN RER I RRL Sbjct: 188 PLRAD--SEGEWQDWLVDEHDNQEQTLAENEEFSGRKALLDNAMKTLNDRERHILTERRL 245 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +++P TLE LS + +SRERVRQIE RAF+KVQ +++ +VE Sbjct: 246 KDDPATLEELSHTYNISRERVRQIEVRAFEKVQAAMKAEVE 286 >gi|329114085|ref|ZP_08242849.1| RNA polymerase sigma-32 factor [Acetobacter pomorum DM001] gi|326696624|gb|EGE48301.1| RNA polymerase sigma-32 factor [Acetobacter pomorum DM001] Length = 319 Score = 358 bits (919), Expect = 5e-97, Method: Compositional matrix adjust. Identities = 177/283 (62%), Positives = 221/283 (78%), Gaps = 3/283 (1%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I V E LSRY+ EIRK P+L +EE L++ +R+ GD+ AAH+LVTSHLRLV KIAMG Sbjct: 29 INVGPENNLSRYLQEIRKYPLLTPEEELSLSRLWRDKGDVKAAHQLVTSHLRLVAKIAMG 88 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 YRGYGLPI+E++SEGNIG+MQAVK+FDPE+GFRLATY+MWWI+AA+QEYIL SWSLVK+G Sbjct: 89 YRGYGLPINELISEGNIGMMQAVKRFDPEKGFRLATYAMWWIRAAIQEYILHSWSLVKMG 148 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TTA QK+LFFNLRRLKG +QAI D +LKPEQV IA L VSE +V+ MN R+A D SL Sbjct: 149 TTAAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIATTLGVSEQDVVDMNRRMAAPDHSL 208 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + + S+WQD LV DH QE V E EE R+ +L+ +M LN RERRIF R Sbjct: 209 NAPMRAD--QDSEWQDRLVDDHTNQEDVYAENEELSGRKALLSSAMENLNERERRIFTER 266 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RL+++P TLE L+ E+ +SRERVRQIE RAF+KVQ +++K+V+ Sbjct: 267 RLKDDPSTLEELAHEYGISRERVRQIEVRAFEKVQAAMKKEVQ 309 >gi|162148038|ref|YP_001602499.1| RNA polymerase factor sigma-32 [Gluconacetobacter diazotrophicus PAl 5] gi|161786615|emb|CAP56197.1| putative RNA polymerase sigma-32 factor [Gluconacetobacter diazotrophicus PAl 5] Length = 325 Score = 358 bits (919), Expect = 5e-97, Method: Compositional matrix adjust. Identities = 173/281 (61%), Positives = 217/281 (77%), Gaps = 3/281 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V E LSRY+ +IRK PML ++E L++R+++ GD AAH LVTSHLRLV KIAMGYR Sbjct: 38 VGPESNLSRYLQDIRKFPMLSPEDEQRLSRRWKDKGDTEAAHALVTSHLRLVAKIAMGYR 97 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+ E++SEGNIG+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+GTT Sbjct: 98 GYGLPLGELISEGNIGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMGTT 157 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNA 188 A QK+LFFNLRRLKG +QAI D +LKPEQV IA+ L V E +VI+MN RL A D SLNA Sbjct: 158 AAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIAESLGVPEQDVINMNRRLSAPDHSLNA 217 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + + +WQDWLV +HD QEQ L E EE R+ +L +M LN RER I RRL Sbjct: 218 PLRAD--SEGEWQDWLVDEHDNQEQTLAENEEFSGRKALLDNAMKTLNDRERHILTERRL 275 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +++P TLE LS + +SRERVRQIE RAF+KVQ +++ +VE Sbjct: 276 KDDPATLEELSHTYNISRERVRQIEVRAFEKVQAAMKAEVE 316 >gi|58038976|ref|YP_190940.1| RNA polymerase factor sigma-32 [Gluconobacter oxydans 621H] gi|58001390|gb|AAW60284.1| Heat shock sigma factor RpoH [Gluconobacter oxydans 621H] Length = 297 Score = 357 bits (917), Expect = 9e-97, Method: Compositional matrix adjust. Identities = 176/283 (62%), Positives = 216/283 (76%), Gaps = 3/283 (1%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I V E L+RY+ EIRK P+L QEE L++R+R+ D SAAHRLVTSHLRLV KIAMG Sbjct: 7 ISVGPENNLTRYLQEIRKFPLLTPQEELDLSRRWRKDEDTSAAHRLVTSHLRLVAKIAMG 66 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 YRGYGLP++E++SEGNIG+MQAV++FDPERGFRLATY+MWWI+AAMQEYIL SWSLVK+G Sbjct: 67 YRGYGLPVNELISEGNIGMMQAVRRFDPERGFRLATYAMWWIRAAMQEYILHSWSLVKMG 126 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TTA QK+LFFNLRRLKG +QAI D +LKPEQV +IA L V E +V+SMN RLA D SL Sbjct: 127 TTAAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNSIATTLGVPEQDVVSMNQRLAAPDHSL 186 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + +WQDWLV DH+ QEQ EE R+ +L +++ LN RER I R Sbjct: 187 NAPLRID--GEGEWQDWLVDDHENQEQTYAASEEFTGRKALLDQALMTLNERERHILSER 244 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RL+E P TLE LS + VSRER+RQIEARA +K+Q+++ +VE Sbjct: 245 RLKEEPSTLEELSHHYNVSRERIRQIEARAMEKLQKAMAAEVE 287 >gi|197103875|ref|YP_002129252.1| heat shock sigma factor RpoH [Phenylobacterium zucineum HLK1] gi|196477295|gb|ACG76823.1| heat shock sigma factor RpoH [Phenylobacterium zucineum HLK1] Length = 295 Score = 357 bits (915), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 178/287 (62%), Positives = 222/287 (77%), Gaps = 4/287 (1%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N +++ E GLSRY+ EIRK PML K EE++LAKR++EH D AAHRLVTSHLRLV KI Sbjct: 4 NALAVMSPEGGLSRYLTEIRKFPMLAKDEEFMLAKRWQEHQDPEAAHRLVTSHLRLVAKI 63 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 AMGYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLV Sbjct: 64 AMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLV 123 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GD 183 K+GTTA QK+LFFNLR+ K + A+ + +L+PEQV IA KL V + EVISMN RLA GD Sbjct: 124 KMGTTAAQKKLFFNLRKAKSEISALEEGDLRPEQVRQIATKLGVLDEEVISMNRRLAGGD 183 Query: 184 ESLNALINSSDKNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SLN+ + + + S+WQDWLV D QE V+ E EER R +L +M+ L RER I Sbjct: 184 ASLNSPLRAD--SESEWQDWLVDEDTPSQESVVAEAEERGIRMELLQEAMAELTDRERHI 241 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RRL++ P TLE L+S++ VSRERVRQIE RAF+K+Q+S++ E Sbjct: 242 LTERRLKDEPTTLEELASQYGVSRERVRQIEVRAFEKLQKSMRAAAE 288 >gi|288962535|ref|YP_003452830.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288914801|dbj|BAI76286.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 296 Score = 355 bits (912), Expect = 3e-96, Method: Compositional matrix adjust. Identities = 172/277 (62%), Positives = 221/277 (79%), Gaps = 3/277 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + E LSRY+ EIRK PMLE + EY+LAKR+++H D AAH+LVTSHLRLV KIAMGYR Sbjct: 10 IGSESNLSRYLQEIRKFPMLEPEREYMLAKRWQQHEDSGAAHQLVTSHLRLVAKIAMGYR 69 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGN+G+MQAVK+FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+GTT Sbjct: 70 GYGLPLSELISEGNVGMMQAVKRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMGTT 129 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 A QK+LFFNLRRLKG +QAI + +L PEQV AIA KL+V E +V++MN RLA D SLNA Sbjct: 130 AAQKKLFFNLRRLKGQMQAIEEGDLSPEQVQAIATKLDVPEQDVVNMNRRLASPDHSLNA 189 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + ++ +WQD+LV + QE L ++EE RR +L +M+ LN RER I RRL Sbjct: 190 PLRA--ESEGEWQDFLVDESASQEIALADREELGKRRKLLVEAMTGLNERERDILTERRL 247 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +E P TLE+LS ++ +SRERVRQIE RAF+K+Q++I+ Sbjct: 248 REAPTTLEDLSQKYGISRERVRQIEVRAFEKLQKAIK 284 >gi|114797392|ref|YP_759060.1| RNA polymerase factor sigma-32 [Hyphomonas neptunium ATCC 15444] gi|114737566|gb|ABI75691.1| alternative sigma factor RpoH [Hyphomonas neptunium ATCC 15444] Length = 298 Score = 355 bits (912), Expect = 3e-96, Method: Compositional matrix adjust. Identities = 169/289 (58%), Positives = 221/289 (76%), Gaps = 3/289 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ ++ E G+SRY+ EIRK PMLEK EE++LA+R+ EH D AA ++VTSHLRLV KIAM Sbjct: 9 SVALSPEQGMSRYLSEIRKFPMLEKNEEFMLARRWHEHEDTEAAEKMVTSHLRLVAKIAM 68 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP++EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+AA+QEYILRSWSLVK+ Sbjct: 69 GYRGYGLPMAEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRAAIQEYILRSWSLVKL 128 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLRRLKG +QA+ + +LKPEQ IA+KLNV+E+EV SMN R++G D S Sbjct: 129 GTTAAQKKLFFNLRRLKGEMQALEEGDLKPEQARLIAEKLNVTETEVYSMNGRMSGSDAS 188 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN + + +WQDWL D G + +E R +LT++M L+ RER I Sbjct: 189 LNVPMGTD--GDMEWQDWLADDEPGTAETFANSQELDARMTLLTQAMEDLSERERHILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 RRL + P TLE LS ++ VSRER+RQIE RAF+K+Q+++++ + P Sbjct: 247 RRLVDEPKTLEELSEQYNVSRERIRQIEVRAFEKLQKAMKRMAKEQGLP 295 >gi|329890478|ref|ZP_08268821.1| alternative sigma factor RpoH [Brevundimonas diminuta ATCC 11568] gi|328845779|gb|EGF95343.1| alternative sigma factor RpoH [Brevundimonas diminuta ATCC 11568] Length = 294 Score = 354 bits (909), Expect = 7e-96, Method: Compositional matrix adjust. Identities = 173/286 (60%), Positives = 216/286 (75%), Gaps = 3/286 (1%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N +++ E GLSRY+ EIRK PML K EE++LAKR+ EH D AAHRLVTSHLRLV KI Sbjct: 4 NTLTVMSPEQGLSRYLTEIRKFPMLTKDEEFMLAKRWSEHQDPEAAHRLVTSHLRLVAKI 63 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 AMGYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLV Sbjct: 64 AMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLV 123 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+GTTA QK+LFFNLR+ K + A + +L PE + AIA KL VSE EV +MN RL GD Sbjct: 124 KMGTTAAQKKLFFNLRKAKSQISAFEEGDLHPEHLTAIATKLGVSEEEVTNMNRRLGGDA 183 Query: 185 SLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA + + S+WQDWL D QE L E EE+ R ++L +M L RE+ I Sbjct: 184 SLNAPLRAD--GESEWQDWLADDDAVSQETQLAENEEKSIRMSLLQEAMEELTDREKHIL 241 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RRL+++PVTLE L+ ++ VSRERVRQIE RAF+K+Q++++ E Sbjct: 242 TERRLKDDPVTLEELAGQYGVSRERVRQIEVRAFEKLQKAMRAAAE 287 >gi|294678332|ref|YP_003578947.1| RNA polymerase sigma-32 factor [Rhodobacter capsulatus SB 1003] gi|294477152|gb|ADE86540.1| RNA polymerase sigma-32 factor-2 [Rhodobacter capsulatus SB 1003] Length = 299 Score = 354 bits (909), Expect = 8e-96, Method: Compositional matrix adjust. Identities = 171/271 (63%), Positives = 215/271 (79%), Gaps = 2/271 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAK + +H D AAHRLVTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYLQEIRKFPLLEPEEEYMLAKAWVDHQDPKAAHRLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+AA+QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRAAIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 K+LFFNLR+ K + A+ + +L+P+ V IA LNVSE +VI MN RLAG D SLNA + Sbjct: 133 KKLFFNLRKAKSKIGALDEGDLRPDAVAKIAHDLNVSEDDVIEMNRRLAGSDASLNAQVG 192 Query: 192 SSD-KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +SD ++++QWQDWL + Q + E +E + RR ML +M VLN RER I ARRL++ Sbjct: 193 ASDGESATQWQDWLEDEDADQAEAYAEADELQARRAMLVAAMDVLNERERDILMARRLRD 252 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 PVTLE LSS+++VSRER+RQIE RAF+K+Q Sbjct: 253 EPVTLEELSSQYDVSRERIRQIEVRAFEKLQ 283 >gi|304320253|ref|YP_003853896.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] gi|303299155|gb|ADM08754.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] Length = 304 Score = 353 bits (906), Expect = 2e-95, Method: Compositional matrix adjust. Identities = 168/276 (60%), Positives = 218/276 (78%), Gaps = 2/276 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE+ EEY+LAKR++EH D AA RL+TSHLRLV KIAMGYRGYG Sbjct: 16 EGGLNRYLAEIRKFPLLERDEEYMLAKRFKEHEDPDAAQRLITSHLRLVAKIAMGYRGYG 75 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP EV+SEGN+GLMQAVKKFDP++GFRL+TY+MWWI+A++QEYILRSWSLVKIGTTA Q Sbjct: 76 LPTGEVISEGNVGLMQAVKKFDPDKGFRLSTYAMWWIRASIQEYILRSWSLVKIGTTAAQ 135 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 K+LFFNLR+LKG + A+ + +++PE+V IA +L V+E EVISMN R+AG D SLN+ + Sbjct: 136 KKLFFNLRKLKGQIDAVDEGDMRPEEVELIATRLGVTEDEVISMNRRMAGSDNSLNSPMR 195 Query: 192 SSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S ++WQDWLV ++ E L++ +E + R +L +M LN RER I RRL E Sbjct: 196 SDGDGGAEWQDWLVDENAVNAESQLVKDDEFETRMELLQEAMVDLNDRERHILTERRLTE 255 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 NP TLE LS E+ VSRER+RQIE RAF+K+Q+++++ Sbjct: 256 NPKTLEELSGEYGVSRERIRQIEVRAFEKLQKAMKR 291 >gi|114569135|ref|YP_755815.1| RNA polymerase factor sigma-32 [Maricaulis maris MCS10] gi|114339597|gb|ABI64877.1| RNA polymerase, sigma 32 subunit, RpoH [Maricaulis maris MCS10] Length = 295 Score = 353 bits (905), Expect = 2e-95, Method: Compositional matrix adjust. Identities = 171/282 (60%), Positives = 220/282 (78%), Gaps = 3/282 (1%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +S+ ++ E GLS Y+ EIR+ PMLEK EE++L KR+REH D AA +LVTSHLRLV KIA Sbjct: 5 VSMTLSPEQGLSSYLSEIRRFPMLEKDEEFMLGKRWREHEDGGAAEKLVTSHLRLVAKIA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 MGYRGYGLPI+EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLVK Sbjct: 65 MGYRGYGLPIAEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 +GTTA QK+LFFNLRR+K +QA+ + +LKP+QV AIA KL V+ EV+SMN RL+G D Sbjct: 125 MGTTAAQKKLFFNLRRMKSQMQALDEGDLKPDQVEAIATKLGVTNDEVMSMNGRLSGPDA 184 Query: 185 SLNALINSSDKNSSQWQDWLVYD-HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA + ++ QWQDWL D + QE L E +E R +L +M LN RE+ I Sbjct: 185 SLNAPLRGTE-GEGQWQDWLSDDTAESQEDELAESDEFDTRMQLLQSAMGELNEREQHIL 243 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + RRL E+P TLE L+ + VSRER+RQIE RAF+K+Q++++ Sbjct: 244 QERRLSEDPKTLEELAEHYGVSRERIRQIEVRAFEKLQKAMK 285 >gi|148261701|ref|YP_001235828.1| RNA polymerase factor sigma-32 [Acidiphilium cryptum JF-5] gi|326405194|ref|YP_004285276.1| RNA polymerase sigma factor RpoH [Acidiphilium multivorum AIU301] gi|146403382|gb|ABQ31909.1| RNA polymerase, sigma 32 subunit, RpoH [Acidiphilium cryptum JF-5] gi|325052056|dbj|BAJ82394.1| RNA polymerase sigma factor RpoH [Acidiphilium multivorum AIU301] Length = 296 Score = 352 bits (903), Expect = 3e-95, Method: Compositional matrix adjust. Identities = 170/277 (61%), Positives = 216/277 (77%), Gaps = 3/277 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E L+RY+ EIRK PML +EE LA+ +R++ D +AAH+LVTSHLRLV KIAMGYRGYG Sbjct: 5 EGNLARYLQEIRKFPMLSPEEEDRLARAWRDNEDQAAAHKLVTSHLRLVAKIAMGYRGYG 64 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP+ E++SEGN+G+MQAVK+FDPERGFRLATY+MWWI+AA+QEYIL SWSLVK+GTTA Q Sbjct: 65 LPLGELISEGNVGMMQAVKRFDPERGFRLATYAMWWIRAAIQEYILHSWSLVKMGTTAAQ 124 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALIN 191 K+LFFNLRRLKG +QAI D +++PEQV IA+ L V E +V+SMN RL A D SLNA I Sbjct: 125 KKLFFNLRRLKGQMQAIEDGDMQPEQVEKIARVLGVPEQDVVSMNRRLTAPDHSLNAPIR 184 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +WQDWLV D D QE+ + + EE RR +L ++ LN RER I RRL+++ Sbjct: 185 MD--GEGEWQDWLVDDADSQEEAIGDHEEMTGRRALLATALKTLNDRERHILIQRRLKDD 242 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P TLE+LS ++ +SRERVRQIE RAF+K+Q+S++ QV Sbjct: 243 PTTLEDLSQQYNISRERVRQIEVRAFEKLQKSMKAQV 279 >gi|302382389|ref|YP_003818212.1| RNA polymerase, sigma 32 subunit, RpoH [Brevundimonas subvibrioides ATCC 15264] gi|302193017|gb|ADL00589.1| RNA polymerase, sigma 32 subunit, RpoH [Brevundimonas subvibrioides ATCC 15264] Length = 295 Score = 352 bits (903), Expect = 4e-95, Method: Compositional matrix adjust. Identities = 170/282 (60%), Positives = 215/282 (76%), Gaps = 3/282 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ E GLSRY+ EIRK PML K EE++LAKR+ EH D +AHRLVTSHLRLV KIAMGY Sbjct: 9 VMSPEQGLSRYLTEIRKFPMLTKDEEFMLAKRWSEHQDSESAHRLVTSHLRLVAKIAMGY 68 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 69 RGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 128 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TA QK+LFFNLR+ K + A + +L+PE + AIA KL VSE EV +MN RL GD SLNA Sbjct: 129 TAAQKKLFFNLRKAKSQISAFEEGDLRPEHLAAIATKLGVSEEEVTNMNRRLGGDASLNA 188 Query: 189 LINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + S+WQDWL D+ QE L + EE+ R +L +M L RE+ I RR Sbjct: 189 PLRVD--GESEWQDWLSDDNAVSQETALADSEEKSLRMGLLQEAMGELTEREKHILTERR 246 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 L+++PVTLE L+ ++ VSRERVRQIE RAF+K+Q++++ E Sbjct: 247 LKDDPVTLEELAGQYGVSRERVRQIEVRAFEKLQKAMRAAAE 288 >gi|114327512|ref|YP_744669.1| RNA polymerase sigma-32 factor [Granulibacter bethesdensis CGDNIH1] gi|114315686|gb|ABI61746.1| RNA polymerase sigma-32 factor [Granulibacter bethesdensis CGDNIH1] Length = 375 Score = 352 bits (903), Expect = 4e-95, Method: Compositional matrix adjust. Identities = 169/282 (59%), Positives = 216/282 (76%), Gaps = 3/282 (1%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I + E LSRY+ EIRK PML +EE L++R+R+ D+ AAHRLVTSHLRLV KIAMG Sbjct: 76 IKIAPEGNLSRYLQEIRKYPMLTPEEELDLSRRWRDTEDMGAAHRLVTSHLRLVAKIAMG 135 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 YRGYGLP+ E++SEGN+G+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+G Sbjct: 136 YRGYGLPVGELISEGNVGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMG 195 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESL 186 TTA QK+LFFNLRRLKG +QAI D +LKPEQV IA LNV E +V+ MN R+ A D SL Sbjct: 196 TTAAQKKLFFNLRRLKGQMQAIDDGDLKPEQVSKIATSLNVPEQDVVQMNRRMSAPDHSL 255 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + + +WQDWLV D + QE VL + EE R+ +L ++ LN RER I R Sbjct: 256 NAPLRQ--EGEGEWQDWLVDDAETQETVLADTEELGGRKTLLANALKTLNDRERHILTER 313 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL++ P TLE+LS + +SRERVRQIE RAF+K+Q++++ +V Sbjct: 314 RLKDEPTTLEDLSQHYNISRERVRQIEVRAFEKLQKAMKAEV 355 >gi|2384764|gb|AAC97123.1| heat shock sigma factor [Rhodobacter capsulatus] Length = 299 Score = 352 bits (902), Expect = 5e-95, Method: Compositional matrix adjust. Identities = 170/271 (62%), Positives = 213/271 (78%), Gaps = 2/271 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAK + +H D AAHRLVTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYLQEIRKFPLLEPEEEYMLAKAWVDHQDPKAAHRLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+AA+QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRAAIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 K+LFFNLR+ K + A + +L+P+ V IA LNVSE +VI MN RLAG D SLNA + Sbjct: 133 KKLFFNLRKAKSKIGAFEEGDLRPDAVAKIAHDLNVSEGDVIEMNRRLAGSDASLNAQVG 192 Query: 192 SSD-KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + D ++++QWQDWL + Q + E +E + RR ML +M VLN RER I ARRL++ Sbjct: 193 AGDGESATQWQDWLEDEDADQAEAYAEADELQARRAMLVAAMDVLNERERDILMARRLRD 252 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 PVTLE LSS+++VSRER+RQIE RAF+K+Q Sbjct: 253 EPVTLEELSSQYDVSRERIRQIEVRAFEKLQ 283 >gi|296536196|ref|ZP_06898318.1| DNA-directed RNA polymerase sigma subunit RpoH [Roseomonas cervicalis ATCC 49957] gi|296263478|gb|EFH09981.1| DNA-directed RNA polymerase sigma subunit RpoH [Roseomonas cervicalis ATCC 49957] Length = 295 Score = 351 bits (901), Expect = 6e-95, Method: Compositional matrix adjust. Identities = 167/282 (59%), Positives = 219/282 (77%), Gaps = 3/282 (1%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I + E LSRY+ EIRK PML +EE+ LAK ++EHGD AAH+LVTSHLRLV KIAMG Sbjct: 8 IPIAPEGNLSRYLQEIRKFPMLTPEEEFRLAKDWKEHGDQKAAHKLVTSHLRLVAKIAMG 67 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 YRGYGLP+ E++SEGN+G+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+G Sbjct: 68 YRGYGLPVGELISEGNVGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMG 127 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TTA QK+LFFNLRRLKG + A+ + +L+PEQV IA+ L V E +V+SMN RLA D SL Sbjct: 128 TTAAQKKLFFNLRRLKGQMAALEEGDLQPEQVEKIARVLQVPEQDVVSMNRRLASPDNSL 187 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + + + +WQDWLV + + QE + E+++ NRR +L ++ LN RER I R Sbjct: 188 NAPVRAD--SEGEWQDWLVDESESQETEIAERQDMSNRRELLGEALKTLNERERHILIER 245 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL++ P TLE LS ++ +SRERVRQIE RAF+K+Q+S++ Q+ Sbjct: 246 RLKDEPTTLEELSQQYNISRERVRQIEVRAFEKLQKSMKSQI 287 >gi|114763110|ref|ZP_01442536.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601] gi|114544163|gb|EAU47172.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601] Length = 298 Score = 351 bits (900), Expect = 9e-95, Method: Compositional matrix adjust. Identities = 175/286 (61%), Positives = 217/286 (75%), Gaps = 5/286 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GLSRY+ EIRK P+LE +EEY+LAKR+ E D +AHRLVTSHLRL KIAMGYRGYG Sbjct: 13 EAGLSRYLSEIRKFPLLEPEEEYMLAKRWVEDQDAESAHRLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA L V+ EVISMN RL+ GD SLNA + Sbjct: 133 KKLFFNLRKAKSRIGALEDGDLRPEHVERIATDLGVTHDEVISMNRRLSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S D++S QWQDWL + Q E+ E + RR +LT +M VLN RER I RRL E Sbjct: 193 SDDESSMQWQDWLEDESADQAGDYAERNELEARRELLTEAMDVLNERERDILTQRRLAEQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI----QKQVELSSS 293 PVTLE LS ++VSRER+RQIE RAF+K+Q+ + Q+Q LSS+ Sbjct: 253 PVTLEELSGVYDVSRERIRQIEVRAFEKLQKRMRDLAQEQGMLSSA 298 >gi|77462968|ref|YP_352472.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides 2.4.1] gi|126461842|ref|YP_001042956.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17029] gi|221638824|ref|YP_002525086.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides KD131] gi|332557843|ref|ZP_08412165.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] gi|1769585|gb|AAC46050.1| RpoH [Rhodobacter sphaeroides] gi|77387386|gb|ABA78571.1| sigma factor RpoH1 (Sigma-32 group, heat shock) [Rhodobacter sphaeroides 2.4.1] gi|126103506|gb|ABN76184.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17029] gi|221159605|gb|ACM00585.1| RNA polymerase sigma factor [Rhodobacter sphaeroides KD131] gi|332275555|gb|EGJ20870.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] Length = 298 Score = 351 bits (900), Expect = 9e-95, Method: Compositional matrix adjust. Identities = 170/270 (62%), Positives = 212/270 (78%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ +H D AAH+LVTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYMQEIRKFPLLEPEEEYMLAKRWVDHQDNRAAHKLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 K+LFFNLR+ K L A+ + +L+PE V IAK L VSE+EVI MN RL+G D SLNA I Sbjct: 133 KKLFFNLRKAKAKLGALEEGDLRPENVAQIAKDLGVSETEVIDMNRRLSGSDASLNATIG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + S+QWQDWL + Q E++E + RR +L +SMSVLN RE+ I RRL ++ Sbjct: 193 SDGEGSTQWQDWLEDEDSDQAADYAERDELEIRRELLAQSMSVLNDREKDILVQRRLTDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 PVTLE LS + VSRER+RQIE RAF+K+Q Sbjct: 253 PVTLEELSEGYGVSRERIRQIEVRAFEKLQ 282 >gi|254419521|ref|ZP_05033245.1| alternative sigma factor RpoH [Brevundimonas sp. BAL3] gi|196185698|gb|EDX80674.1| alternative sigma factor RpoH [Brevundimonas sp. BAL3] Length = 286 Score = 350 bits (899), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 171/278 (61%), Positives = 212/278 (76%), Gaps = 3/278 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GLSRY+ EIRK PML K EE++LAKR+ EH D AAHRLVTSHLRLV KIAMGYRGYG Sbjct: 4 EQGLSRYLTEIRKFPMLTKDEEFMLAKRWSEHQDPEAAHRLVTSHLRLVAKIAMGYRGYG 63 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLVK+GTTA Q Sbjct: 64 LPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGTTAAQ 123 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 K+LFFNLR+ K + A + +L PE + AIA KL VSE EV +MN RL GD SLNA + + Sbjct: 124 KKLFFNLRKAKSQISAFEEGDLHPEHLAAIATKLGVSEEEVTNMNRRLGGDASLNAPLRA 183 Query: 193 SDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S+WQDWL D QE L + EE+ R ++L +M L RE+ I RRL+++ Sbjct: 184 D--GESEWQDWLADDTAVSQETQLADDEEKGIRMSLLQEAMEELTDREKHILTERRLKDD 241 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 PVTLE L+ ++ VSRERVRQIE RAF+K+Q++++ E Sbjct: 242 PVTLEELAGQYGVSRERVRQIEVRAFEKLQKAMRAAAE 279 >gi|103487228|ref|YP_616789.1| RNA polymerase factor sigma-32 [Sphingopyxis alaskensis RB2256] gi|98977305|gb|ABF53456.1| RNA polymerase sigma factor RpoH [Sphingopyxis alaskensis RB2256] Length = 300 Score = 350 bits (899), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 172/290 (59%), Positives = 221/290 (76%), Gaps = 7/290 (2%) Query: 2 NRKNMSIIV---NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHL 58 N+ N+ +V GE L+RY+ EIRK P+L ++EY+LAKR++EHGD AA +LVTSHL Sbjct: 3 NKSNVPAVVPALGGEASLNRYLAEIRKFPLLTPEQEYMLAKRFQEHGDNEAAAQLVTSHL 62 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLV KIAMGYRGYGLP+SE++SEGNIGLMQ VKKFDPERGFRLATY+MWWI+A++QE+IL Sbjct: 63 RLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAMWWIRASIQEFIL 122 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 RSWSLVK+GTTA QK+LFFNLRR+K +L+A D +L PE V IA L V+E EV+SMN Sbjct: 123 RSWSLVKMGTTAAQKKLFFNLRRMKNNLEAFEDGDLSPEHVAKIATDLGVTEDEVVSMNR 182 Query: 179 RLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 R+A GD SLN + + SQWQD L D Q++ + E +ER R ++LT ++ LN Sbjct: 183 RMAMGGDTSLN--VPMGEDGDSQWQDLLGDDGPLQDERVAEAQERDVRHDLLTEALETLN 240 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RER I RRL ++P TLE+LS ++VSRERVRQIE RAF+K+Q+++ K Sbjct: 241 ERERHILTERRLTDDPKTLEDLSQLYDVSRERVRQIEVRAFEKLQKAMLK 290 >gi|330993273|ref|ZP_08317209.1| RNA polymerase sigma-32 factor [Gluconacetobacter sp. SXCC-1] gi|329759675|gb|EGG76183.1| RNA polymerase sigma-32 factor [Gluconacetobacter sp. SXCC-1] Length = 298 Score = 350 bits (899), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 167/283 (59%), Positives = 217/283 (76%), Gaps = 3/283 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++I E LS+Y+ +IRK PML +EE L++R+++ GD AAH+LVTSHLRLV KIAM Sbjct: 5 ALISGPENNLSKYLRDIRKFPMLSPEEELRLSRRWKDKGDTEAAHKLVTSHLRLVAKIAM 64 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP+ E++SEGNIG+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVKI Sbjct: 65 GYRGYGLPVGELISEGNIGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKI 124 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLRRLKG +QAI D +L+PEQV IA+ L V E +V++MN RLA D S Sbjct: 125 GTTAAQKKLFFNLRRLKGQMQAIDDGDLRPEQVNKIAQSLGVPEQDVVNMNRRLAAPDHS 184 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA + +WQDWLV D+D QE+ L + EE R+ +L ++ LN RER I Sbjct: 185 LNAPLRMD--GEGEWQDWLVDDNDNQEETLAQSEEYSGRQALLANALKTLNERERHILTE 242 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RRL++ P TLE+LS + +SRERVRQIE RAF+K+Q +++ +V Sbjct: 243 RRLKDEPATLEDLSHVYNISRERVRQIEVRAFEKLQAAMKAEV 285 >gi|260575497|ref|ZP_05843496.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] gi|259022417|gb|EEW25714.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] Length = 298 Score = 350 bits (897), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 166/275 (60%), Positives = 217/275 (78%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ +H D +AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYMQEIRKFPLLEPEEEYMLAKRWVDHQDATAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA LNVSE+EVI MN RL+ GD SLNA + Sbjct: 133 KKLFFNLRKAKAKVGALEEGDLRPENVARIAHDLNVSETEVIDMNRRLSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + S+QWQDWL + Q E+ E + RR +L ++M+VLN RE+ I RRL + Sbjct: 193 SDGEGSTQWQDWLEDEDSDQANDYAERNELEMRRALLVQAMAVLNDREKDILMQRRLADE 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 PVTLE+LS+ + VSRER+RQIE RAF+K+QE +++ Sbjct: 253 PVTLEDLSASYGVSRERIRQIEVRAFEKLQERMRE 287 >gi|218513990|ref|ZP_03510830.1| RNA polymerase factor sigma-32 [Rhizobium etli 8C-3] Length = 217 Score = 350 bits (897), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 166/217 (76%), Positives = 184/217 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIE 217 >gi|167644630|ref|YP_001682293.1| RNA polymerase factor sigma-32 [Caulobacter sp. K31] gi|167347060|gb|ABZ69795.1| RNA polymerase, sigma 32 subunit, RpoH [Caulobacter sp. K31] Length = 295 Score = 349 bits (895), Expect = 3e-94, Method: Compositional matrix adjust. Identities = 169/280 (60%), Positives = 219/280 (78%), Gaps = 4/280 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRLV KIAMGY Sbjct: 8 VMSPDGGLSRYLTEIRKFPMLPKDEEFMLAQRWKEHQDSEAAHKMVTSHLRLVAKIAMGY 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVKKF+P++GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 68 RGYGLPIGEVISEGNVGLMQAVKKFEPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 127 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR+ K + A D +L P+QV IA KL V +SEVISMN RL G D SLN Sbjct: 128 TAAQKKLFFNLRKAKSQIAAFQDGDLHPDQVSYIATKLGVLDSEVISMNRRLGGPDASLN 187 Query: 188 ALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A + + S+WQDWL D+ QE V+ E +E+ R +L +M L RER I R Sbjct: 188 APLRAD--GESEWQDWLADDNQVSQETVVAENQEKSMRMTLLEEAMVELTDRERHILTER 245 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RL+++P TLE+L++E+ VSRERVRQIE RAF+K+Q+S+++ Sbjct: 246 RLKDDPTTLEDLATEYGVSRERVRQIEVRAFEKLQKSMRE 285 >gi|329849869|ref|ZP_08264715.1| alternative sigma factor RpoH [Asticcacaulis biprosthecum C19] gi|328841780|gb|EGF91350.1| alternative sigma factor RpoH [Asticcacaulis biprosthecum C19] Length = 299 Score = 348 bits (894), Expect = 5e-94, Method: Compositional matrix adjust. Identities = 170/272 (62%), Positives = 215/272 (79%), Gaps = 3/272 (1%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 GL+RY+ EIRK PML K EE++LAKR++EH D AAH+LVTSHLRLV KIAMGYRGYGLP Sbjct: 23 GLNRYLSEIRKFPMLAKDEEFMLAKRWQEHQDPKAAHKLVTSHLRLVAKIAMGYRGYGLP 82 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + EV+SEGN+GLMQAVKKFD +RGFRLATY+MWWIKA++QEY+LRSWSLVK+GTTA QK+ Sbjct: 83 VGEVISEGNVGLMQAVKKFDADRGFRLATYAMWWIKASIQEYVLRSWSLVKMGTTAAQKK 142 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR++K + A+ + +L+ EQV IA KL VSE++VI+MN R++ D SLNA I +S Sbjct: 143 LFFNLRKVKSEISALEEGDLRHEQVEQIATKLGVSETDVINMNRRMSSPDSSLNAPIRAS 202 Query: 194 DKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + S+WQDWLV D QE VL + EE R +L +M LN RER I RRL+++P Sbjct: 203 E-GESEWQDWLVDDKQVSQETVLADSEEYSQRMGLLEAAMGELNAREREILTERRLKDSP 261 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TLE+L+ F VSRERVRQIE RAF+K+Q+++ Sbjct: 262 TTLEDLAERFGVSRERVRQIEVRAFEKLQKAM 293 >gi|260425792|ref|ZP_05779772.1| alternative sigma factor RpoH [Citreicella sp. SE45] gi|260423732|gb|EEX16982.1| alternative sigma factor RpoH [Citreicella sp. SE45] Length = 298 Score = 348 bits (892), Expect = 7e-94, Method: Compositional matrix adjust. Identities = 168/275 (61%), Positives = 214/275 (77%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GLSRY+ EIRK P+LE +EEY+LAKR+ E D +AH+LVTSHLRL KIAMGYRGYG Sbjct: 13 EAGLSRYLSEIRKFPLLEPEEEYMLAKRWVEDQDAPSAHKLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L VS+ EVISMN RL+ GD SLNA + Sbjct: 133 KKLFFNLRKAKSRIGALEEGDLRPEHVEKIATDLGVSKDEVISMNRRLSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S D +S QWQDWL + Q E+ E + RR +L ++M VLN RE+ I RRL E Sbjct: 193 SDDDSSMQWQDWLEDEGADQASDYAERNELEARRALLAQAMDVLNDREKDILTQRRLAEQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 PVTLE+LSS ++VSRER+RQIE RAF+K+Q+ +++ Sbjct: 253 PVTLEDLSSVYDVSRERIRQIEVRAFEKLQKRMRE 287 >gi|146277611|ref|YP_001167770.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17025] gi|145555852|gb|ABP70465.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17025] Length = 298 Score = 348 bits (892), Expect = 7e-94, Method: Compositional matrix adjust. Identities = 168/270 (62%), Positives = 211/270 (78%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ +H D AAHRLVTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYMQEIRKFPLLEPEEEYMLAKRWVDHQDNRAAHRLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALIN 191 K+LFFNLR+ K L A+ + +L+PE V IAK L+V+E+EVI MN RL A D SLNA I Sbjct: 133 KKLFFNLRKAKAKLGALEEGDLRPENVAQIAKDLSVTEAEVIDMNRRLSASDASLNATIG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S ++QWQDWL + Q E++E + RR +L ++MSVLN RE+ I RRL ++ Sbjct: 193 SDGDGATQWQDWLEDEDSDQASDYAERDELEIRRELLAQAMSVLNDREKDILVQRRLTDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 PVTLE LS + VSRER+RQIE RAF+K+Q Sbjct: 253 PVTLEELSDGYGVSRERIRQIEVRAFEKLQ 282 >gi|84688065|ref|ZP_01015924.1| RNA polymerase sigma factor [Maritimibacter alkaliphilus HTCC2654] gi|84663915|gb|EAQ10420.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2654] Length = 298 Score = 348 bits (892), Expect = 7e-94, Method: Compositional matrix adjust. Identities = 165/275 (60%), Positives = 214/275 (77%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ +IRK PMLE +EEY+LAKR+ +H D AAH+LVTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQDIRKFPMLEPEEEYMLAKRWVDHQDTDAAHQLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA LNV+E EVISMN R++ GD SLNA I Sbjct: 133 KKLFFNLRKAKARIGALEDGDLRPENVAQIAHDLNVTEEEVISMNRRMSGGDASLNATIT 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + ++ QWQDWL + Q +++E RR ML ++M VLN RE+ I RRL + Sbjct: 193 NDGDSTMQWQDWLEDEDADQAGDYEQRDELTVRREMLAQAMDVLNDREKDILTQRRLSDE 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 VTLE+LS +++VSRER+RQIE RAF+K+Q+ +Q+ Sbjct: 253 TVTLEDLSGQYDVSRERIRQIEVRAFEKLQKRMQE 287 >gi|89067929|ref|ZP_01155373.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] gi|89046527|gb|EAR52583.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] Length = 297 Score = 348 bits (892), Expect = 8e-94, Method: Compositional matrix adjust. Identities = 166/275 (60%), Positives = 212/275 (77%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIR+ PMLE +EEY+LAKR+ +H D AAH+LVTSHLRL KIAMGYRGYG Sbjct: 12 EQGLNRYLQEIRRFPMLEPEEEYMLAKRWVDHEDTDAAHKLVTSHLRLAAKIAMGYRGYG 71 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 72 LPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 131 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E+EVISMN RL+ GD SLNA+I Sbjct: 132 KKLFFNLRKAKARIGALEEGDLRPENVAQIANDLGVTETEVISMNRRLSGGDASLNAMIG 191 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + +++QWQDWL + Q E++E RR +L +M VLN RE+ I RRLQ+ Sbjct: 192 TEGDSATQWQDWLEDESADQAGDYEERDELSTRRELLGEAMDVLNDREKDILTQRRLQDQ 251 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 VTLE LS ++ VSRER+RQIE RAF K+Q +Q+ Sbjct: 252 AVTLEELSGQYGVSRERIRQIEVRAFDKLQARMQQ 286 >gi|254294740|ref|YP_003060763.1| RNA polymerase factor sigma-32 [Hirschia baltica ATCC 49814] gi|254043271|gb|ACT60066.1| RNA polymerase, sigma 32 subunit, RpoH [Hirschia baltica ATCC 49814] Length = 295 Score = 347 bits (890), Expect = 1e-93, Method: Compositional matrix adjust. Identities = 170/288 (59%), Positives = 224/288 (77%), Gaps = 3/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + SI ++ E GLSRY+ EIRK P+LEK +E++LA R+R+H D AA ++VTSHLRL Sbjct: 1 MAQLSTSIALSPEQGLSRYLTEIRKYPLLEKDQEFMLANRWRDHEDPEAAEKMVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLRRLKG +QA+ + +L+PE V IA +LNVSE+EVISMN R+ Sbjct: 121 WSLVKLGTTAAQKKLFFNLRRLKGEIQALEEGDLRPENVAEIATRLNVSETEVISMNRRM 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 GD SLNA I +D + +W DWL D+ Q + + +E R ++L +M LN R Sbjct: 181 TGGDASLNAPIGGADGD-GEWMDWLSDDNQQNQAEEYEQNDEFSTRMSLLETAMEGLNER 239 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ I RRL++ P TLE LS+ + VSRER+RQIE RAF+K+Q+++++ Sbjct: 240 EKHIIAERRLKDEPSTLEELSAVYNVSRERIRQIEVRAFEKLQKAMKE 287 >gi|295688294|ref|YP_003591987.1| RNA polymerase sigma 32 factor subunit RpoH [Caulobacter segnis ATCC 21756] gi|295430197|gb|ADG09369.1| RNA polymerase, sigma 32 subunit, RpoH [Caulobacter segnis ATCC 21756] Length = 295 Score = 346 bits (887), Expect = 3e-93, Method: Compositional matrix adjust. Identities = 168/280 (60%), Positives = 221/280 (78%), Gaps = 4/280 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRLV KIAMGY Sbjct: 8 VMSPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRLVAKIAMGY 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVKKF+P++GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 68 RGYGLPIGEVISEGNVGLMQAVKKFEPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 127 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR+ K + A + +L+PEQV AIA KL V +SEVISMN RL+G D SLN Sbjct: 128 TAAQKKLFFNLRKAKSQIAAFQEGDLRPEQVSAIATKLGVLDSEVISMNRRLSGPDASLN 187 Query: 188 ALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A + S + S+WQDWL + QE + E EE+ R ++L +M L RER I R Sbjct: 188 APLRSD--SESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDRERHILTER 245 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 246 RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 285 >gi|83592446|ref|YP_426198.1| RNA polymerase factor sigma-32 [Rhodospirillum rubrum ATCC 11170] gi|83575360|gb|ABC21911.1| Sigma 32 (RpoH) [Rhodospirillum rubrum ATCC 11170] Length = 299 Score = 345 bits (886), Expect = 4e-93, Method: Compositional matrix adjust. Identities = 166/277 (59%), Positives = 210/277 (75%), Gaps = 3/277 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 + + E L+RY+ IRK PML +EEY LA+R R+ GD AAHRLVTSHLRLV KIAM Sbjct: 7 GLSIGPESNLTRYLQNIRKFPMLAPEEEYTLAQRLRDSGDSEAAHRLVTSHLRLVAKIAM 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP+ EV+SEGN+GLMQAVK+FDPERGFRLATY+MWWI+AA+QEYIL SWSLVK+ Sbjct: 67 GYRGYGLPMGEVISEGNVGLMQAVKRFDPERGFRLATYAMWWIRAAIQEYILHSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLR++KG LQ + + ++ P++V IA KL V E +VI+MN RL+ D S Sbjct: 127 GTTAAQKKLFFNLRKMKGQLQLMDEGDMHPDKVTQIATKLGVPEQDVINMNRRLSSPDHS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA + +WQDWLV + D QE L E +E RR +L+ ++ LN RER I Sbjct: 187 LNAPVRMD--GDGEWQDWLVDESDDQETTLAESQEMGQRRALLSGALKSLNERERHILTQ 244 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 RRL+++PVTLE+LS + +SRERVRQIE RAF+K+Q+ Sbjct: 245 RRLRDDPVTLEDLSQHYGISRERVRQIEVRAFEKLQK 281 >gi|126727088|ref|ZP_01742925.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] gi|126703516|gb|EBA02612.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] Length = 289 Score = 345 bits (885), Expect = 5e-93, Method: Compositional matrix adjust. Identities = 165/278 (59%), Positives = 211/278 (75%), Gaps = 1/278 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE +EEY+LAK + EH D AAHRLVTSHLRL KIAMGYRGYG Sbjct: 7 EQGLNRYMQEIRKFPMLEPEEEYMLAKNWVEHQDSGAAHRLVTSHLRLAAKIAMGYRGYG 66 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EVVSE N+GLMQAVKKFDPE+GFRL+TY+MWWI+A++QEY+LRSWSLVK+GTT+ Q Sbjct: 67 LPQAEVVSEANVGLMQAVKKFDPEKGFRLSTYAMWWIRASIQEYVLRSWSLVKLGTTSAQ 126 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA LNV+E+EVISMN R++ GD SLN + Sbjct: 127 KKLFFNLRKAKNRIGALEEGDLRPENVAKIASDLNVTETEVISMNRRMSGGDASLNVQVG 186 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + ++QWQDWL D Q +++E RR ++ ++M+VLN RE+ I RRLQ+ Sbjct: 187 GDGEGTAQWQDWLADDSADQAGDYEKQDELDTRRELMAQAMAVLNDREKEILMERRLQDK 246 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 P TLE LS F VSRER+RQIE RAF+K+Q ++ E Sbjct: 247 PKTLEELSEVFSVSRERIRQIEVRAFEKLQTEMRSLAE 284 >gi|85373062|ref|YP_457124.1| RNA polymerase factor sigma-32 [Erythrobacter litoralis HTCC2594] gi|84786145|gb|ABC62327.1| RNA polymerase sigma-32 factor [Erythrobacter litoralis HTCC2594] Length = 301 Score = 345 bits (884), Expect = 5e-93, Method: Compositional matrix adjust. Identities = 164/279 (58%), Positives = 211/279 (75%), Gaps = 2/279 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EI+K P+L ++EY+LAKRY+EH D AA +LV+SHLRLV KIAMGYR Sbjct: 12 LGGEQSLNRYLSEIKKYPVLTAEQEYMLAKRYQEHEDPEAAAQLVSSHLRLVAKIAMGYR 71 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+S+++SEGN+GLMQ VKKF+P+RGFRLATY+MWWIKA+MQE+ILRSWSLVK+GTT Sbjct: 72 GYGLPVSDLISEGNVGLMQGVKKFEPDRGFRLATYAMWWIKASMQEFILRSWSLVKMGTT 131 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLN 187 A QK+LFFNLRR+K L+A D +L PE V IA L V E EVI+MN R + GD SLN Sbjct: 132 AAQKKLFFNLRRMKKQLEAYEDTDLSPEDVTKIATDLGVPEQEVINMNRRMMMGGDGSLN 191 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + + S +WQDWL D Q++ + EE + R ML +M LN RE+ I RR Sbjct: 192 TPMRNGEDGSGEWQDWLTDDRPLQDETVANAEEAQVRHEMLVEAMDALNEREQHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ENP TLE LS ++VSRER+RQIE RAF+K+Q+++Q+ Sbjct: 252 LTENPQTLEELSQVYDVSRERIRQIEVRAFEKLQKAMQR 290 >gi|332185869|ref|ZP_08387616.1| alternative sigma factor RpoH [Sphingomonas sp. S17] gi|332014227|gb|EGI56285.1| alternative sigma factor RpoH [Sphingomonas sp. S17] Length = 301 Score = 345 bits (884), Expect = 6e-93, Method: Compositional matrix adjust. Identities = 167/279 (59%), Positives = 212/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EI+K P+L ++EY+LAKR++EHGD AA +LVTSHLRLV KIAMGYR Sbjct: 14 LGGEQSLNRYLAEIKKFPILAPEQEYMLAKRFQEHGDPEAAAQLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWI+A++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPTSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIRASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRR+K L A D +L+PE V IA L V+E EVISMN R+A GD SLN Sbjct: 134 AAQKKLFFNLRRMKSKLDAFEDGDLRPEDVTKIATDLGVNEDEVISMNRRMAMGGDTSLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 ++ + QWQDWL D Q+ V+ E++E R +ML +M LN RE+ I RR Sbjct: 194 --VSMREDGEGQWQDWLADDAPLQDSVVAEQQEADVRHDMLVSAMDDLNDREKHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ++P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 252 LTDDPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 290 >gi|84515395|ref|ZP_01002757.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] gi|84510678|gb|EAQ07133.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] Length = 303 Score = 344 bits (883), Expect = 8e-93, Method: Compositional matrix adjust. Identities = 167/270 (61%), Positives = 208/270 (77%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE +EEY+LAKR+ +H D AAH++VTSHLRL KIAMGYRGYG Sbjct: 18 EGGLNRYMQEIRKFPMLEPEEEYMLAKRWVDHEDTEAAHKMVTSHLRLAAKIAMGYRGYG 77 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 78 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGTTSAQ 137 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E EVISMN RL+ GD SLNA I Sbjct: 138 KKLFFNLRKAKNRIGALEEGDLRPENVKQIANDLGVTEDEVISMNRRLSGGDASLNAQIG 197 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + S QWQDWL D E +E RR +L +M++LNPRE+ I RRL E Sbjct: 198 SDGEGSMQWQDWLEDDSANTAADYEEHDELDARRALLVEAMTLLNPREKDILVQRRLAEE 257 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTLE+LS+ +EVSRER+RQIE RAF+K+Q Sbjct: 258 TVTLEDLSARYEVSRERIRQIEVRAFEKLQ 287 >gi|119384948|ref|YP_916004.1| RNA polymerase factor sigma-32 [Paracoccus denitrificans PD1222] gi|119374715|gb|ABL70308.1| RNA polymerase, sigma 32 subunit, RpoH [Paracoccus denitrificans PD1222] Length = 301 Score = 344 bits (882), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 166/276 (60%), Positives = 214/276 (77%), Gaps = 2/276 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAK + +H D AA RLVTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYLQEIRKFPLLEPEEEYMLAKAWVDHQDAEAAQRLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALIN 191 K+LFFNLR+ K L A+ + +L+PE V IA LNV+E EVI MN RL +GD SLNA + Sbjct: 133 KKLFFNLRKAKSKLGALEEGDLRPENVTQIAHDLNVTEQEVIDMNRRLSSGDASLNATVG 192 Query: 192 SSD-KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D ++++QWQDWL + Q + E +E RR ML +M VLN RE+ I RRL++ Sbjct: 193 SGDGESTAQWQDWLEDEDANQAEAFAEADELSARREMLIAAMDVLNDREKDILMERRLRD 252 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +P+TLE+LS+ + VSRER+RQIE RAF+K+Q I++ Sbjct: 253 DPMTLEDLSTRYGVSRERIRQIEVRAFEKLQNRIRE 288 >gi|110679109|ref|YP_682116.1| RNA polymerase factor sigma-32 [Roseobacter denitrificans OCh 114] gi|109455225|gb|ABG31430.1| RNA polymerase sigma-32 factor [Roseobacter denitrificans OCh 114] Length = 298 Score = 343 bits (881), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 166/283 (58%), Positives = 215/283 (75%), Gaps = 1/283 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE QEEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPQEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSGQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L P+ V IAK L V+E+EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNKIGALEEGDLHPDNVARIAKDLGVTETEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR +L +MSVLN RER I + RRL E Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLADAMSVLNDRERDILQQRRLSEQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 VTLE+LS+E+ VSRER+RQIE RAF+K+Q+ ++ + P Sbjct: 253 TVTLEDLSAEYNVSRERIRQIEVRAFEKLQKKMRDLAKEKGMP 295 >gi|163747420|ref|ZP_02154772.1| RNA polymerase sigma factor [Oceanibulbus indolifex HEL-45] gi|161379273|gb|EDQ03690.1| RNA polymerase sigma factor [Oceanibulbus indolifex HEL-45] Length = 298 Score = 343 bits (881), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 161/270 (59%), Positives = 211/270 (78%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSGQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA +L V+E+EV+SMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNKIGALEEGDLRPENVTEIATQLGVTEAEVVSMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q E++E + RR ML ++ VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYAERDELETRREMLADALDVLNDREKDILTQRRLSDE 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTLE+LS++++VSRER+RQIE RAF+K+Q Sbjct: 253 TVTLEDLSTQYDVSRERIRQIEVRAFEKLQ 282 >gi|89055891|ref|YP_511342.1| RNA polymerase factor sigma-32 [Jannaschia sp. CCS1] gi|88865440|gb|ABD56317.1| RNA polymerase, sigma 32 subunit, RpoH [Jannaschia sp. CCS1] Length = 298 Score = 343 bits (881), Expect = 2e-92, Method: Compositional matrix adjust. Identities = 163/275 (59%), Positives = 213/275 (77%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE +EEY+LAK + E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPMLEPEEEYMLAKAWAEKEDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVKKFDPE+GFRLATY+MWWI+AA+QEY+LRSWS+VK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKKFDPEKGFRLATYAMWWIRAAIQEYVLRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E+EV+SMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDLRPENVERIANDLGVTEAEVVSMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S D+ S+QWQDWL + Q E++E ++R ++ +M VLN RE+ I RRLQE Sbjct: 193 SEDEGSAQWQDWLEDEDADQATDYAERDEFQSRMALMAEAMEVLNDREKDILTQRRLQEK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 VTLE+LS + VSRERVRQIE RAF+K+Q+ +++ Sbjct: 253 AVTLEDLSGVYNVSRERVRQIEVRAFEKLQKRMRE 287 >gi|163733965|ref|ZP_02141406.1| RNA polymerase sigma factor [Roseobacter litoralis Och 149] gi|161392501|gb|EDQ16829.1| RNA polymerase sigma factor [Roseobacter litoralis Och 149] Length = 298 Score = 342 bits (878), Expect = 3e-92, Method: Compositional matrix adjust. Identities = 165/283 (58%), Positives = 215/283 (75%), Gaps = 1/283 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE QEEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPQEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSGQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L P+ V IAK L V+E+EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNKIGALEEGDLHPDNVARIAKDLGVTETEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR +L +MSVLN RE+ I + RRL E Sbjct: 193 SEGEGTMQWQDWLEDEGADQAGDYEARDELEARRELLADAMSVLNDREKDILQQRRLSEK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 VTLE+LS+E+ VSRER+RQIE RAF+K+Q+ ++ + P Sbjct: 253 TVTLEDLSAEYNVSRERIRQIEVRAFEKLQKKMRDLAKEKGMP 295 >gi|326386899|ref|ZP_08208513.1| RNA polymerase factor sigma-32 [Novosphingobium nitrogenifigens DSM 19370] gi|326208579|gb|EGD59382.1| RNA polymerase factor sigma-32 [Novosphingobium nitrogenifigens DSM 19370] Length = 300 Score = 342 bits (876), Expect = 5e-92, Method: Compositional matrix adjust. Identities = 169/291 (58%), Positives = 220/291 (75%), Gaps = 7/291 (2%) Query: 1 MNRKNMSIIV---NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSH 57 M+ +N ++ V +GE L+RY+ EIRK P+L ++EY+LAKRY+EHGD AA +LVTSH Sbjct: 1 MSEQNKALSVPALSGEASLNRYLTEIRKFPLLTAEQEYMLAKRYQEHGDPQAAAQLVTSH 60 Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLV KIAMGYRGYGLP+SE++SEGNIGLMQ VKKFDP+RGFRLATY+MWWIKA++QE+I Sbjct: 61 LRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPDRGFRLATYAMWWIKASIQEFI 120 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRSWSLVK+GTTA QK+LFFNLRR+K +L+A D++L P+ V IA L V E++V+SMN Sbjct: 121 LRSWSLVKMGTTAAQKKLFFNLRRMKKNLEAFEDSDLHPDDVKKIATDLGVPEADVVSMN 180 Query: 178 CR--LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 R + GD SLN + + S WQDWL + Q++ + + EE + R ++L +M L Sbjct: 181 RRMMMGGDASLNVPLREDGEGS--WQDWLADERPLQDEAVADAEEAQVRHDLLVEAMQDL 238 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 N RER I RRL + P TLE LS + VSRERVRQIE RAF+K+Q++IQ+ Sbjct: 239 NDRERHILIDRRLVDEPKTLEELSQVYHVSRERVRQIEVRAFEKLQKAIQR 289 >gi|16127328|ref|NP_421892.1| RNA polymerase factor sigma-32 [Caulobacter crescentus CB15] gi|221236131|ref|YP_002518568.1| RNA polymerase factor sigma-32 [Caulobacter crescentus NA1000] gi|13424754|gb|AAK25060.1| heat shock sigma factor RpoH [Caulobacter crescentus CB15] gi|220965304|gb|ACL96660.1| RNA polymerase sigma-32 factor [Caulobacter crescentus NA1000] Length = 298 Score = 342 bits (876), Expect = 6e-92, Method: Compositional matrix adjust. Identities = 166/280 (59%), Positives = 218/280 (77%), Gaps = 4/280 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRLV KIAMGY Sbjct: 11 VMSPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRLVAKIAMGY 70 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 71 RGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 130 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR+ K + A + +L P+QV IA KL V +SEVISMN RL+G D SLN Sbjct: 131 TAAQKKLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKLGVLDSEVISMNRRLSGPDASLN 190 Query: 188 ALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A + + S+WQDWL + QE + E EE+ R ++L +M L RER I R Sbjct: 191 APLRAD--GESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDRERHILTER 248 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 249 RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 288 >gi|310815299|ref|YP_003963263.1| alternative sigma factor RpoH [Ketogulonicigenium vulgare Y25] gi|308754034|gb|ADO41963.1| alternative sigma factor RpoH [Ketogulonicigenium vulgare Y25] Length = 298 Score = 341 bits (875), Expect = 7e-92, Method: Compositional matrix adjust. Identities = 162/275 (58%), Positives = 210/275 (76%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GLSRY+ EIRK PMLE ++EY+LA+ + +HGD AAH+LVTSHLRL KIAMGYRGYG Sbjct: 13 EQGLSRYLQEIRKFPMLEPEQEYMLARNWVDHGDTQAAHKLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V E EV++MN RL+ GD SLNA++ Sbjct: 133 KKLFFNLRKAKARIGALEEGDLRPEHVQRIAHDLGVPEEEVVNMNRRLSGGDASLNAMVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D +S+QWQDWL + Q ++E RR +L +M LN RER + RRLQ+ Sbjct: 193 GDDDSSTQWQDWLEDEDSDQAADFEARDELDARRVLLEAAMEDLNDRERDVLMMRRLQDP 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 PVTLE LS ++ VSRER+RQIE RAF+K+Q+ + + Sbjct: 253 PVTLEELSEKYSVSRERIRQIEVRAFEKLQKRMTQ 287 >gi|254441831|ref|ZP_05055324.1| alternative sigma factor RpoH [Octadecabacter antarcticus 307] gi|198251909|gb|EDY76224.1| alternative sigma factor RpoH [Octadecabacter antarcticus 307] Length = 298 Score = 341 bits (874), Expect = 8e-92, Method: Compositional matrix adjust. Identities = 159/274 (58%), Positives = 211/274 (77%), Gaps = 1/274 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE EEY+LAKR+ +H D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYMQEIRKFPMLEPDEEYMLAKRWVDHEDTDAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEY+LRSWS+VK+GTT+ Q Sbjct: 73 LPTAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYVLRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E+EV+SMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNRIGALEEGDLRPENVQRIANDLGVTEAEVVSMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q +++E + RR ++ +M VLN RE+ I RRL E Sbjct: 193 SDGEGTMQWQDWLEDESADQAGDYEDRDELQQRRELMAEAMDVLNDREKDILMQRRLAEK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 VTLE+LS ++ VSRER+RQIE RAF+K+Q+ +Q Sbjct: 253 TVTLEDLSGQYSVSRERIRQIEVRAFEKLQKKMQ 286 >gi|239977584|sp|P0CAW9|RP32_CAUCR RecName: Full=RNA polymerase sigma-32 factor gi|239977655|sp|B8H3C3|RP32_CAUCN RecName: Full=RNA polymerase sigma-32 factor gi|1262200|gb|AAC43981.1| RpoH [Caulobacter vibrioides] gi|1588870|prf||2209377A heat shock sigma factor 32 Length = 295 Score = 341 bits (874), Expect = 8e-92, Method: Compositional matrix adjust. Identities = 166/280 (59%), Positives = 218/280 (77%), Gaps = 4/280 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRLV KIAMGY Sbjct: 8 VMSPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRLVAKIAMGY 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 68 RGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 127 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR+ K + A + +L P+QV IA KL V +SEVISMN RL+G D SLN Sbjct: 128 TAAQKKLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKLGVLDSEVISMNRRLSGPDASLN 187 Query: 188 ALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A + + S+WQDWL + QE + E EE+ R ++L +M L RER I R Sbjct: 188 APLRAD--GESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDRERHILTER 245 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 246 RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 285 >gi|148552989|ref|YP_001260571.1| RNA polymerase factor sigma-32 [Sphingomonas wittichii RW1] gi|148498179|gb|ABQ66433.1| RNA polymerase sigma factor RpoH [Sphingomonas wittichii RW1] Length = 301 Score = 341 bits (874), Expect = 8e-92, Method: Compositional matrix adjust. Identities = 170/279 (60%), Positives = 210/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L +EEY+LAKR++EHGD AA RLVTSHLRLV KIAMGYR Sbjct: 14 LGGEQSLNRYLAEIRKFPLLTAEEEYMLAKRFQEHGDPEAATRLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWIKA++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPASELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIKASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRR+K L+A D +LKPE + IA L VSE EV SMN R++ GD SLN Sbjct: 134 AAQKKLFFNLRRMKSQLEAFEDGDLKPEDLKKIATDLGVSEEEVTSMNRRMSMGGDASLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 +N + +WQD LV Q++ L E EE+ R NML +++ LN RE+ I RR Sbjct: 194 VSMN--EDGEGEWQDMLVDQGPLQDERLAEVEEKSVRHNMLNEALAALNDREKHILVERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L + P TLE LS + VSRERVRQIE RAF K+Q+++ + Sbjct: 252 LVDEPKTLEELSQVYGVSRERVRQIEVRAFDKLQKAMMR 290 >gi|159045149|ref|YP_001533943.1| RNA polymerase factor sigma-32 [Dinoroseobacter shibae DFL 12] gi|157912909|gb|ABV94342.1| RNA polymerase [Dinoroseobacter shibae DFL 12] Length = 298 Score = 341 bits (874), Expect = 8e-92, Method: Compositional matrix adjust. Identities = 164/274 (59%), Positives = 213/274 (77%), Gaps = 1/274 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE +EEY+LAKR+ +H D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYLQEIRKFPMLEPEEEYMLAKRWVDHEDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA LNV+E EVISMN R++ GD SLNA+I Sbjct: 133 KKLFFNLRKAKNRIGALEEGDLRPENVARIANDLNVTEDEVISMNRRMSGGDASLNAMIG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + +++WQDWL + Q EK+E RR +L +M VLN RE+ I RRL++ Sbjct: 193 SDGEGATEWQDWLEDEDADQADDFAEKDELMVRRELLAEAMGVLNDREKDILMKRRLEDK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P TLE LS + VSRER+RQIE RAF+K+Q++++ Sbjct: 253 PATLEELSEVYGVSRERIRQIEVRAFEKLQKAMR 286 >gi|126729201|ref|ZP_01745015.1| RNA polymerase sigma factor [Sagittula stellata E-37] gi|126710191|gb|EBA09243.1| RNA polymerase sigma factor [Sagittula stellata E-37] Length = 298 Score = 341 bits (874), Expect = 9e-92, Method: Compositional matrix adjust. Identities = 164/270 (60%), Positives = 207/270 (76%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GLSRY+ EIRK P+LE ++EY+LAKR+ E D AAH+LVTSHLRL KIAMGYRGYG Sbjct: 13 EAGLSRYLQEIRKFPLLEPEQEYMLAKRWVEDEDTQAAHQLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA L V++ EVISMN RL+ GD SLNA + Sbjct: 133 KKLFFNLRKAKSRIGALEDGDLRPEHVEKIATDLGVTQDEVISMNRRLSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q E+ E + RR +L ++M VLN RER I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGEYAERNELEARRALLEQAMDVLNDRERDILSQRRLSDQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTLE LS +++VSRER+RQIE RAF+K+Q Sbjct: 253 AVTLEELSGQYDVSRERIRQIEVRAFEKLQ 282 >gi|254462386|ref|ZP_05075802.1| alternative sigma factor RpoH [Rhodobacterales bacterium HTCC2083] gi|206678975|gb|EDZ43462.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium HTCC2083] Length = 298 Score = 340 bits (873), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 163/271 (60%), Positives = 210/271 (77%), Gaps = 1/271 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE +EEY+LAK + E D +AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPMLEPEEEYMLAKSWVEKQDTAAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EVVSE N+GLMQAVK+FDPE+GFRL+TY+MWWI+AA+QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVVSEANVGLMQAVKRFDPEKGFRLSTYAMWWIRAAIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +++PE V IA L V+E+EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNRIGALEEGDMRPENVARIAHDLGVTETEVISMNRRMSGGDASLNAQVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR ML +M VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEARDELEARREMLADAMDVLNDREKDILVQRRLSDK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 PVTLE+LS +++VSRER+RQIE RAF+K+QE Sbjct: 253 PVTLEDLSGQYDVSRERIRQIEVRAFEKLQE 283 >gi|99080404|ref|YP_612558.1| RNA polymerase factor sigma-32 [Ruegeria sp. TM1040] gi|99036684|gb|ABF63296.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. TM1040] Length = 299 Score = 340 bits (873), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 167/287 (58%), Positives = 216/287 (75%), Gaps = 4/287 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN R++ GD SLNA++ Sbjct: 133 KKLFFNLRKAKARIGALEDGDLRPEVVKKIATDLGVTEDEVISMNRRMSGGDASLNAMVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S ++ QWQDWL + Q ++E + RR +L +MSVLN RE+ I RRL E Sbjct: 193 SDGDSTMQWQDWLEDEDADQAGDYEARDELQARRELLAEAMSVLNDREKDILTQRRLAEQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 TLE LS +++VSRER+RQIE RAF+K+Q +K EL++ +LQ Sbjct: 253 AKTLEELSVQYDVSRERIRQIEVRAFEKLQ---KKMRELAAGKGMLQ 296 >gi|149202313|ref|ZP_01879286.1| RNA polymerase sigma factor [Roseovarius sp. TM1035] gi|149144411|gb|EDM32442.1| RNA polymerase sigma factor [Roseovarius sp. TM1035] Length = 298 Score = 340 bits (873), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 162/270 (60%), Positives = 209/270 (77%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKRWAEEQDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 K+LFFNLR+ K + A+ + +++P+ V IA L V+E+EVISMN R+AG D SLNA + Sbjct: 133 KKLFFNLRKAKAKIGALEEGDMRPDVVKKIATDLGVTEAEVISMNQRMAGADASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + S QWQDWL + Q ++E RR +L ++M VLN RER I RRL + Sbjct: 193 AEGEGSMQWQDWLEDEDADQAGDYERRDELDARRELLVQAMDVLNERERDILTQRRLSDE 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTLE+LS+E++VSRER+RQIE RAF+K+Q Sbjct: 253 TVTLEDLSAEYDVSRERIRQIEVRAFEKLQ 282 >gi|85707639|ref|ZP_01038705.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] gi|85689173|gb|EAQ29176.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] Length = 298 Score = 340 bits (872), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 161/279 (57%), Positives = 212/279 (75%), Gaps = 2/279 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++GE L+RY+ EI+K P+L ++EY+LAKRY EH D AA +LV+SHLRLV KIAMGYR Sbjct: 9 LSGEQSLNRYLSEIKKYPVLTAEQEYMLAKRYAEHEDPEAASQLVSSHLRLVAKIAMGYR 68 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+S+++SEGN+GLMQ VKKF+P+RGFRLATY+MWWIKA++QEYILRSWSLVK+GTT Sbjct: 69 GYGLPVSDLISEGNVGLMQGVKKFEPDRGFRLATYAMWWIKASIQEYILRSWSLVKMGTT 128 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLN 187 A QK+LFFNLRR+K L+A D++L P+ V IA L V E EV++MN R + GD SLN Sbjct: 129 AAQKKLFFNLRRMKKQLEAYEDSDLHPDDVTKIATDLGVPEQEVVNMNRRMMMGGDGSLN 188 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + + S +WQDWL D Q++ + + EE + R ML +M LN RE+ I RR Sbjct: 189 TPMRNGEDGSGEWQDWLTDDRPLQDETVADAEEAEVRHEMLVEAMDSLNEREQHILTERR 248 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L E P TLE LS ++VSRER+RQIE RAF+K+Q+++Q+ Sbjct: 249 LTEKPQTLEELSQVYDVSRERIRQIEVRAFEKLQKAMQR 287 >gi|83941135|ref|ZP_00953597.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] gi|83846955|gb|EAP84830.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] Length = 298 Score = 340 bits (871), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 162/270 (60%), Positives = 209/270 (77%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSGQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L P+ V IA L V+E+EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNRIGALEEGDLHPDNVKRIATDLGVTETEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q E++E + RR ML ++ VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQATDYEERDELETRREMLAEALDVLNDREKDILTQRRLSDQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTLE+LSS+++VSRER+RQIE RAF+K+Q Sbjct: 253 TVTLEDLSSQYDVSRERIRQIEVRAFEKLQ 282 >gi|1184690|gb|AAB01724.1| RNA polymerase sigma 32 subunit [Caulobacter crescentus CB15] Length = 295 Score = 339 bits (870), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 166/280 (59%), Positives = 217/280 (77%), Gaps = 4/280 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRLV KIAMGY Sbjct: 8 VMSPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRLVAKIAMGY 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 68 RGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 127 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR+ K + A + +L P+QV IA KL V +SEVISMN RL+G D SLN Sbjct: 128 TAAQKKLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKLGVLDSEVISMNRRLSGPDASLN 187 Query: 188 ALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A + S+WQDWL + QE + E EE+ R ++L +M L RER I R Sbjct: 188 APLRRD--GESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDRERHILTER 245 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 246 RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 285 >gi|254453399|ref|ZP_05066836.1| alternative sigma factor RpoH [Octadecabacter antarcticus 238] gi|198267805|gb|EDY92075.1| alternative sigma factor RpoH [Octadecabacter antarcticus 238] Length = 298 Score = 339 bits (869), Expect = 3e-91, Method: Compositional matrix adjust. Identities = 159/274 (58%), Positives = 209/274 (76%), Gaps = 1/274 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE EEY+LAKR+ +H D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYMQEIRKFPMLEPDEEYMLAKRWVDHEDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEY+LRSWS+VK+GTT+ Q Sbjct: 73 LPTAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYVLRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E+EV+SMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNRIGALEEGDLRPENVQRIATDLGVTEAEVVSMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E RR ++ +M VLN RE+ I RRL E Sbjct: 193 SDGEGTMQWQDWLEDESADQAGDYEARDELTQRRELMAEAMEVLNDREKDILMQRRLAEK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 VTLE+LS ++ VSRER+RQIE RAF+K+Q+ +Q Sbjct: 253 TVTLEDLSGQYSVSRERIRQIEVRAFEKLQKKMQ 286 >gi|126733180|ref|ZP_01748927.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] gi|126716046|gb|EBA12910.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] Length = 298 Score = 339 bits (869), Expect = 3e-91, Method: Compositional matrix adjust. Identities = 162/275 (58%), Positives = 210/275 (76%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE ++EY+LAKR+ +H D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPMLEPEQEYMLAKRWVDHEDTDAAHQMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN RL+ GD SLNA ++ Sbjct: 133 KKLFFNLRKAKNRIGALEDGDLRPENVERIANDLGVTEQEVISMNRRLSGGDASLNATVS 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + ++QWQDWL + +E RR +L +M VLN RE+ I RRL E Sbjct: 193 ADGEGAAQWQDWLEDESANTAADYEASDELTARRELLAEAMEVLNDREKDILMQRRLSEE 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 VTLE+LS +++VSRER+RQIE RAF+K+Q +Q+ Sbjct: 253 TVTLEDLSGQYDVSRERIRQIEVRAFEKLQAKMQE 287 >gi|260434077|ref|ZP_05788048.1| alternative sigma factor RpoH [Silicibacter lacuscaerulensis ITI-1157] gi|260417905|gb|EEX11164.1| alternative sigma factor RpoH [Silicibacter lacuscaerulensis ITI-1157] Length = 298 Score = 338 bits (868), Expect = 4e-91, Method: Compositional matrix adjust. Identities = 166/286 (58%), Positives = 215/286 (75%), Gaps = 2/286 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N KN+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH+LVTSHLRL Sbjct: 3 NYKNLPVPTP-EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEDHDTEAAHKLVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L P+ V IA L V+E EVISMN R++ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLHPDNVKQIAHDLGVTEDEVISMNRRMS 181 Query: 182 -GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q +EE + RR +L ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDESADQAGDYETREELEVRRELLAEALEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I RRL + PVTLE LSS++ VSRER+RQIE RAF+K+Q+ +++ Sbjct: 242 DILTQRRLMDQPVTLEELSSQYNVSRERIRQIEVRAFEKLQKKMRE 287 >gi|149187051|ref|ZP_01865358.1| RNA polymerase sigma factor [Erythrobacter sp. SD-21] gi|148829340|gb|EDL47784.1| RNA polymerase sigma factor [Erythrobacter sp. SD-21] Length = 319 Score = 338 bits (867), Expect = 6e-91, Method: Compositional matrix adjust. Identities = 161/278 (57%), Positives = 211/278 (75%), Gaps = 2/278 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EI+K P+L +++EY+LAKRY EHGD AA +LVTSHLRLV KIAMGYR Sbjct: 30 LGGEQSLNRYLSEIKKFPILTQEQEYMLAKRYEEHGDSEAAAQLVTSHLRLVSKIAMGYR 89 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+S+++SEGN+GLMQ VKKF+ +RGFRLATY+MWWIKA++QEYILRSWSLVK+GTT Sbjct: 90 GYGLPVSDLISEGNVGLMQGVKKFEADRGFRLATYAMWWIKASIQEYILRSWSLVKMGTT 149 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLN 187 A QK+LFFNLRR+K +L A D +L P+ V IA L V E EV++MN R + GD SLN Sbjct: 150 AAQKKLFFNLRRMKKNLDAYEDTDLHPDDVQKIATDLGVPEQEVVNMNRRMMMGGDGSLN 209 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + ++ S +W DWL D Q++ + + EE++ R ML +M LN RE+ I RR Sbjct: 210 VPMRNGEEGSGEWMDWLTDDRPLQDETVADAEEKEVRHEMLGEAMEALNEREQHILTERR 269 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L ENP TLE LS + VSRER+RQIE RAF+K+Q++++ Sbjct: 270 LTENPQTLEELSQVYNVSRERIRQIEVRAFEKLQKAMK 307 >gi|259417918|ref|ZP_05741837.1| alternative sigma factor RpoH [Silicibacter sp. TrichCH4B] gi|259346824|gb|EEW58638.1| alternative sigma factor RpoH [Silicibacter sp. TrichCH4B] Length = 298 Score = 338 bits (866), Expect = 7e-91, Method: Compositional matrix adjust. Identities = 165/287 (57%), Positives = 215/287 (74%), Gaps = 4/287 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN R++ GD SLNA++ Sbjct: 133 KKLFFNLRKAKARIGALEDGDLRPEAVKKIATDLGVTEDEVISMNRRMSGGDASLNAMVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ QWQDWL + Q ++E + RR +L +MSVLN RE+ I RRL + Sbjct: 193 GDGDSTMQWQDWLEDEGADQAGDYEAQDELQARRELLAEAMSVLNDREKDILTQRRLADQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 TLE LS +++VSRER+RQIE RAF+K+Q +K EL++ +LQ Sbjct: 253 AKTLEELSVQYDVSRERIRQIEVRAFEKLQ---KKMRELAAGKGMLQ 296 >gi|87201057|ref|YP_498314.1| RNA polymerase factor sigma-32 [Novosphingobium aromaticivorans DSM 12444] gi|87136738|gb|ABD27480.1| RNA polymerase, sigma 32 subunit, RpoH [Novosphingobium aromaticivorans DSM 12444] Length = 299 Score = 338 bits (866), Expect = 8e-91, Method: Compositional matrix adjust. Identities = 164/279 (58%), Positives = 211/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L ++EY+LAKR++EH D AA +LVTSHLRLV KIAMGYR Sbjct: 13 LGGEASLNRYLSEIRKFPVLTAEQEYMLAKRFQEHQDPEAAAQLVTSHLRLVAKIAMGYR 72 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWIKA+MQE+ILRSWSLVK+GTT Sbjct: 73 GYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIKASMQEFILRSWSLVKMGTT 132 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLN 187 A QK+LFFNLRR+K +L+A D++L P+ V IA L V E EV++MN R + GD SLN Sbjct: 133 AAQKKLFFNLRRMKKNLEAFEDSDLHPDDVRKIATDLGVPEQEVVNMNRRMMMGGDASLN 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 ++ + WQDWL D Q++ + + EE + R +L +M LN RER I RR Sbjct: 193 --VSMREDGEGSWQDWLTDDRPLQDETVADAEEAQYRHELLVEAMESLNERERHILTDRR 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ++P TLE LS + VSRERVRQIE RAF+K+Q++IQ+ Sbjct: 251 LIDDPKTLEELSQVYNVSRERVRQIEVRAFEKLQKAIQR 289 >gi|85704966|ref|ZP_01036066.1| RNA polymerase sigma factor [Roseovarius sp. 217] gi|85670288|gb|EAQ25149.1| RNA polymerase sigma factor [Roseovarius sp. 217] Length = 279 Score = 337 bits (865), Expect = 1e-90, Method: Compositional matrix adjust. Identities = 161/263 (61%), Positives = 203/263 (77%), Gaps = 1/263 (0%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYGLP +EV+ Sbjct: 1 MQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYGLPQAEVI 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 SE N+GLMQAVK+FDPERGFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ QK+LFFNL Sbjct: 61 SEANVGLMQAVKRFDPERGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQKKLFFNL 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSS 198 R+ K + A+ D +++PE V IA L V+E+EVISMN R+AG D SLNA + S + S Sbjct: 121 RKAKAKIGALEDGDMRPEVVKKIATDLGVTEAEVISMNQRMAGADASLNATVGSEGEGSM 180 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 QWQDWL + Q ++E RR +LT +M VLN RER I RRL + VTLE+L Sbjct: 181 QWQDWLEDEDADQAGDYERRDEMDARRELLTMAMDVLNERERDILTQRRLSDETVTLEDL 240 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 S+E++VSRER+RQIE RAF+K+Q Sbjct: 241 SAEYDVSRERIRQIEVRAFEKLQ 263 >gi|255263634|ref|ZP_05342976.1| alternative sigma factor RpoH [Thalassiobium sp. R2A62] gi|255105969|gb|EET48643.1| alternative sigma factor RpoH [Thalassiobium sp. R2A62] Length = 298 Score = 337 bits (864), Expect = 1e-90, Method: Compositional matrix adjust. Identities = 162/275 (58%), Positives = 212/275 (77%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE +EEY+LAK + E+ D +AH+LVTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYLQEIRKFPMLEPEEEYMLAKSWVENEDSKSAHKLVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVKKFDPE+GFRL+TY+MWWI+AA+QEY+LRSWS+VK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKKFDPEKGFRLSTYAMWWIRAAIQEYVLRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA L V+E EVI+MN RL+ GD SLNA + Sbjct: 133 KKLFFNLRKAKSRIGALEDGDLRPEHVERIANDLGVNEQEVINMNRRLSGGDASLNAQVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q K+E +RR +L +MSVLN RE+ I RRLQ+ Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEAKDELDSRRELLADAMSVLNDREKDILMQRRLQDK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +TLE LS +++VSRER+RQIE RAF+K+Q+ +++ Sbjct: 253 AITLEELSGQYDVSRERIRQIEVRAFEKLQKKMRE 287 >gi|262277481|ref|ZP_06055274.1| alternative sigma factor RpoH [alpha proteobacterium HIMB114] gi|262224584|gb|EEY75043.1| alternative sigma factor RpoH [alpha proteobacterium HIMB114] Length = 300 Score = 337 bits (864), Expect = 1e-90, Method: Compositional matrix adjust. Identities = 164/281 (58%), Positives = 213/281 (75%), Gaps = 2/281 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + Y+ +IRK PML+ EEY+LAK +RE GD +AH+LVTSHLRLV KIA GY Sbjct: 12 VLSPDGSFDSYLQKIRKFPMLDAAEEYILAKNWREKGDKESAHKLVTSHLRLVAKIATGY 71 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLP+SE+VSEGNIGLM AVKKFDPERGFRLATY+MWWIKA+MQEYILRSWSLVKIGT Sbjct: 72 RGYGLPMSELVSEGNIGLMTAVKKFDPERGFRLATYAMWWIKASMQEYILRSWSLVKIGT 131 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLN 187 TA QK+LFFNLR++K + +L PEQV IA +L+V+E EV SM+ R+ G E SLN Sbjct: 132 TAAQKKLFFNLRKMKNQIMRSDQTDLLPEQVTEIANRLDVTEDEVNSMDQRMKGPEASLN 191 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A I S ++ S+WQDW+V ++ QE + ++E R+ +L ++MS+LN RE+ I RR Sbjct: 192 ATI-SGEEGESEWQDWVVDENADQELQIAHRQETNKRKALLDKAMSILNEREKEILFDRR 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L E P TLE LS ++ +SRER+RQIE RAF+K+Q+ + +Q Sbjct: 251 LNEEPKTLEELSQKYNISRERIRQIENRAFEKLQKEMLEQA 291 >gi|94497521|ref|ZP_01304090.1| sigma 32 (RpoH) [Sphingomonas sp. SKA58] gi|94422938|gb|EAT07970.1| sigma 32 (RpoH) [Sphingomonas sp. SKA58] Length = 310 Score = 336 bits (862), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 165/290 (56%), Positives = 216/290 (74%), Gaps = 6/290 (2%) Query: 1 MNRKNMSII--VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHL 58 M + N+ + + GE L+RY+ EIRK P+L ++EY+LAKRY+EH D AA +LVTSHL Sbjct: 8 MAKSNVPAVPALGGEASLNRYLSEIRKFPLLTPEQEYMLAKRYQEHQDPEAAAQLVTSHL 67 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLV KIAMGYRGYGLP+SE++SEGNIGLMQ VKKF+ +RGFRLATY+MWWI+A++QE+IL Sbjct: 68 RLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFEADRGFRLATYAMWWIRASIQEFIL 127 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 RSWSLVK+GTTA QK+LFFNLRR+K +++A D +L+PE V IA L VSE +VISMN Sbjct: 128 RSWSLVKMGTTAAQKKLFFNLRRMKNNIEAFEDGDLRPEDVTKIATDLGVSEDDVISMNR 187 Query: 179 RLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 R+A GD SLN + + QWQDWL Q++ + +++E+ R +ML +M LN Sbjct: 188 RMAMGGDTSLN--VPMREDGEGQWQDWLADTDPLQDERVADEQEKVQRHDMLVEAMDDLN 245 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RE+ I RRL E P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 246 DREKHILAERRLAEEPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 295 >gi|330814385|ref|YP_004358624.1| RNA polymerase sigma factor RpoH [Candidatus Pelagibacter sp. IMCC9063] gi|327487480|gb|AEA81885.1| RNA polymerase sigma factor RpoH [Candidatus Pelagibacter sp. IMCC9063] Length = 300 Score = 336 bits (861), Expect = 3e-90, Method: Compositional matrix adjust. Identities = 163/273 (59%), Positives = 212/273 (77%), Gaps = 2/273 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E S Y+ +IRK PML+ EEYVLAK +RE GD AAH+LVTSHLRLV KIAMGYRGYG Sbjct: 16 EGSFSSYLSKIRKFPMLDAAEEYVLAKNWREQGDKDAAHKLVTSHLRLVAKIAMGYRGYG 75 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP+SE+VSEGNIGLMQAV+KFDPE+GFRLATY+MWWIKA++QEY+LRSWSLVKIGTT+ Q Sbjct: 76 LPVSELVSEGNIGLMQAVRKFDPEKGFRLATYAMWWIKASIQEYVLRSWSLVKIGTTSAQ 135 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALIN 191 K+LFFNL+++K + A N+ PE + IA +L+V E EV+SMN RLAG E SLNA + Sbjct: 136 KKLFFNLKKIKNQIFAAEQGNMLPEHITEIATQLDVREDEVVSMNQRLAGHEHSLNAPVG 195 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + ++WQDW+V ++ QE + +K+E R+++L ++ VL+ RE+ I RRL + Sbjct: 196 GEDSD-AEWQDWVVDENADQELQISQKQELNQRQSLLKNALHVLDEREKEILHNRRLIDE 254 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P TLE LS + +VSRER+RQIE RAF+KVQ+++ Sbjct: 255 PKTLEELSQKHKVSRERIRQIENRAFEKVQKAM 287 >gi|254464548|ref|ZP_05077959.1| alternative sigma factor RpoH [Rhodobacterales bacterium Y4I] gi|206685456|gb|EDZ45938.1| alternative sigma factor RpoH [Rhodobacterales bacterium Y4I] Length = 298 Score = 336 bits (861), Expect = 3e-90, Method: Compositional matrix adjust. Identities = 159/275 (57%), Positives = 212/275 (77%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D ++AH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDAASAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEDGDLRPENVKRIATDLGVTEDEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR +L ++ VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLAEALDVLNDREKDILTQRRLMDQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 VTLE+LS+++ VSRER+RQIE RAF+K+Q+ +++ Sbjct: 253 AVTLEDLSAQYNVSRERIRQIEVRAFEKLQKKMRE 287 >gi|84500884|ref|ZP_00999119.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] gi|84390951|gb|EAQ03369.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] Length = 298 Score = 335 bits (859), Expect = 5e-90, Method: Compositional matrix adjust. Identities = 159/270 (58%), Positives = 208/270 (77%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L P+ V IA L V+E+EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDLHPDNVKQIANDLGVTEAEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +++ +WQDWL + Q E++E +RR +L +M+VLN RER I RRL E Sbjct: 193 MDAESAMEWQDWLEDEEADQAGDYAERDEMDSRRELLAEAMAVLNDRERDILTQRRLSEE 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TLE+LS ++ VSRER+RQIE RAF+K+Q Sbjct: 253 TITLEDLSEQYGVSRERIRQIEVRAFEKLQ 282 >gi|83859148|ref|ZP_00952669.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] gi|83852595|gb|EAP90448.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] Length = 296 Score = 334 bits (857), Expect = 7e-90, Method: Compositional matrix adjust. Identities = 169/291 (58%), Positives = 221/291 (75%), Gaps = 4/291 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ E GLSRY+ EIRK PMLEK +E++LAKR++EH D AAH+LVTSHLRL Sbjct: 1 MANMKTALTMSPEAGLSRYLAEIRKFPMLEKDQEFMLAKRWQEHEDSDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI+EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIAEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLRR+K ++A+ + +L+P+QV IA KL V++ +VISMN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRRMKSQMRALDEGDLRPDQVEEIATKLGVTDDDVISMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDW-LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +G D SLNA + + ++WQDW D D E L E +E R +L +M LN R Sbjct: 181 SGPDASLNAPMRAD--GEAEWQDWLADDDADDAEDELAESDEFSMRMTLLQEAMGALNER 238 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 E+ I + RRL E P TLE+L+ + VSRER+RQIE RAF+K+Q +++ E Sbjct: 239 EQNIIQERRLTEEPKTLEDLAQVYGVSRERIRQIEVRAFEKLQNEMKRLAE 289 >gi|307293092|ref|ZP_07572938.1| RNA polymerase, sigma 32 subunit, RpoH [Sphingobium chlorophenolicum L-1] gi|306881158|gb|EFN12374.1| RNA polymerase, sigma 32 subunit, RpoH [Sphingobium chlorophenolicum L-1] Length = 304 Score = 333 bits (854), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 162/279 (58%), Positives = 210/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L ++EY+LAKRY EH D AA +LVTSHLRLV KIAMGYR Sbjct: 13 LGGEASLNRYLSEIRKFPILTPEQEYMLAKRYAEHADSEAAAQLVTSHLRLVAKIAMGYR 72 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWI+A++QE+ILRSWSLVK+GTT Sbjct: 73 GYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIRASIQEFILRSWSLVKMGTT 132 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRR+K +++A D +L P+ V IA L V+E +VISMN R+A GD SLN Sbjct: 133 AAQKKLFFNLRRMKNNIEAFEDGDLHPDDVKKIATDLGVTEEDVISMNRRMAMGGDTSLN 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + QWQDWL Q++ + +++E + R +ML +M LN RE+ I RR Sbjct: 193 --VPMREDGEGQWQDWLADTDPLQDERVADRQESELRHDMLVEAMDDLNDREKHILAERR 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L E P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 251 LAEEPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 289 >gi|126738732|ref|ZP_01754428.1| RNA polymerase sigma factor [Roseobacter sp. SK209-2-6] gi|126719913|gb|EBA16620.1| RNA polymerase sigma factor [Roseobacter sp. SK209-2-6] Length = 298 Score = 333 bits (854), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 163/288 (56%), Positives = 214/288 (74%), Gaps = 4/288 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAK + E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKAWVEKEDTGAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDLRPENVAQIAHDLGVTEEEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR +L ++M VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLVQAMEVLNDREKDILTQRRLSDQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQK 299 TLE+LS E+ VSRER+RQIE RAF+K+Q +K +L+S +L + Sbjct: 253 ATTLEDLSGEYGVSRERIRQIEVRAFEKLQ---KKMRDLASEKGMLAR 297 >gi|254511947|ref|ZP_05124014.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium KLH11] gi|221535658|gb|EEE38646.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium KLH11] Length = 298 Score = 333 bits (854), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 158/275 (57%), Positives = 211/275 (76%), Gaps = 1/275 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVKKFDPE+GFRLATY+MWWI+A++QEY+LRSWS+VK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKKFDPEKGFRLATYAMWWIRASIQEYVLRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA+ L V+E EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDLRPENVARIAEDLGVTEEEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR +L ++ VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLAAALDVLNDREKDILTQRRLMDQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 VTLE LS+++ VSRER+RQIE RAF+K+Q+ +++ Sbjct: 253 VVTLEELSTQYNVSRERIRQIEVRAFEKLQKKMRE 287 >gi|86137868|ref|ZP_01056444.1| RNA polymerase sigma factor [Roseobacter sp. MED193] gi|85825460|gb|EAQ45659.1| RNA polymerase sigma factor [Roseobacter sp. MED193] Length = 298 Score = 333 bits (854), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 163/286 (56%), Positives = 215/286 (75%), Gaps = 4/286 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAK + E D AAHR+VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKAWVEKEDSGAAHRMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEY+LRSWS+VK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYVLRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDLRPENVAKIAHDLGVTEDEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR +L +++ VLN RE+ I RRL EN Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLGQALEVLNDREKDILTKRRLAEN 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 TLE LS+++ VSRER+RQIE RAF+K+Q +K EL+S+ +L Sbjct: 253 VQTLEELSAQYSVSRERIRQIEVRAFEKLQ---KKMRELASAKGML 295 >gi|296284608|ref|ZP_06862606.1| RNA polymerase factor sigma-32 [Citromicrobium bathyomarinum JL354] Length = 280 Score = 333 bits (853), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 158/269 (58%), Positives = 205/269 (76%), Gaps = 2/269 (0%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + EI+K P+L ++EY+LAKRY EH D AA +LV+SHLRLV KIAMGYRGYGLP+S+++ Sbjct: 1 MSEIKKFPVLTAEQEYMLAKRYEEHEDPEAAAQLVSSHLRLVAKIAMGYRGYGLPVSDLI 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 SEGN+GLMQ VKKF+P+RGFRLATY+MWWIKA++QEYILRSWSLVK+GTTA QK+LFFNL Sbjct: 61 SEGNVGLMQGVKKFEPDRGFRLATYAMWWIKASIQEYILRSWSLVKMGTTAAQKKLFFNL 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLNALINSSDKNS 197 RR+K +L A D +L P+ V IA L V E EVI+MN R + GD SLN + ++N+ Sbjct: 121 RRMKKNLDAYEDTDLHPDDVKKIATDLGVPEQEVINMNRRMLMGGDSSLNVSMRGDEENA 180 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 SQWQDWL D Q++ + +E + R ML +M LN RE+ I RRL E+P TLE Sbjct: 181 SQWQDWLTDDRPLQDETTADTQEAQVRHAMLLEAMDSLNDREKHILTERRLTEDPQTLEE 240 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQK 286 LS ++VSRER+RQIE RAF+K+Q+++Q+ Sbjct: 241 LSKVYDVSRERIRQIEVRAFEKLQKAMQR 269 >gi|294011928|ref|YP_003545388.1| RNA polymerase sigma-32 factor [Sphingobium japonicum UT26S] gi|292675258|dbj|BAI96776.1| RNA polymerase sigma-32 factor [Sphingobium japonicum UT26S] Length = 304 Score = 332 bits (852), Expect = 3e-89, Method: Compositional matrix adjust. Identities = 162/279 (58%), Positives = 210/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L ++EY+LAKRY EH D AA +LVTSHLRLV KIAMGYR Sbjct: 13 LGGEASLNRYLSEIRKFPILTPEQEYMLAKRYAEHQDSEAAAQLVTSHLRLVAKIAMGYR 72 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWI+A++QE+ILRSWSLVK+GTT Sbjct: 73 GYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIRASIQEFILRSWSLVKMGTT 132 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRR+K +++A D +L P+ V IA L V+E +VISMN R+A GD SLN Sbjct: 133 AAQKKLFFNLRRMKNNIEAFEDGDLHPDDVKKIATDLGVTEEDVISMNRRMAMGGDTSLN 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + QWQDWL Q++ + +++E + R +ML +M LN RE+ I RR Sbjct: 193 --VPMREDGEGQWQDWLADSDPLQDERVADRQESELRHDMLVEAMDDLNDREKHILAERR 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L E P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 251 LAEEPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 289 >gi|56696293|ref|YP_166650.1| RNA polymerase factor sigma-32 [Ruegeria pomeroyi DSS-3] gi|56678030|gb|AAV94696.1| RNA polymerase sigma-32 factor [Ruegeria pomeroyi DSS-3] Length = 298 Score = 332 bits (852), Expect = 3e-89, Method: Compositional matrix adjust. Identities = 160/276 (57%), Positives = 213/276 (77%), Gaps = 3/276 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D +AH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDAESAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+AA+QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRAAIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L VSE +VISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKAKIGALEEGDLRPENVARIAHDLGVSEDDVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIE-KEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S + + QWQDWL D D + E ++E + RR +L ++ VLN RE+ + RRL + Sbjct: 193 SEGEGTMQWQDWL-EDEDADQAADYEARDELEARRELLASALDVLNEREKDVLTQRRLLD 251 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 VTLE+LS+++ VSRER+RQIE RAF+K+Q+ +++ Sbjct: 252 QTVTLEDLSAQYNVSRERIRQIEVRAFEKLQKRMRE 287 >gi|83955694|ref|ZP_00964274.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83839988|gb|EAP79164.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] Length = 279 Score = 331 bits (848), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 157/263 (59%), Positives = 203/263 (77%), Gaps = 1/263 (0%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL KIAMGYRGYGLP +EV+ Sbjct: 1 MQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLAAKIAMGYRGYGLPQAEVI 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ QK+LFFNL Sbjct: 61 SEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSGQKKLFFNL 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSSDKNSS 198 R+ K + A+ + +L P+ V IA L V+E+EVISMN R++ GD SLNA + S + + Sbjct: 121 RKAKNRIGALEEGDLHPDNVKRIATDLGVTETEVISMNRRMSGGDASLNATVGSEGEGTM 180 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 QWQDWL + Q E++E + RR ML ++ VLN RE+ I RRL + VTLE+L Sbjct: 181 QWQDWLEDEDADQATDYEERDELETRREMLAEALDVLNDREKDILTQRRLSDQTVTLEDL 240 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 SS+++VSRER+RQIE RAF+K+Q Sbjct: 241 SSQYDVSRERIRQIEVRAFEKLQ 263 >gi|56551645|ref|YP_162484.1| RNA polymerase factor sigma-32 [Zymomonas mobilis subsp. mobilis ZM4] gi|241761228|ref|ZP_04759316.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|260752767|ref|YP_003225660.1| RNA polymerase factor sigma-32 [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|59803027|sp|P50512|RP32_ZYMMO RecName: Full=RNA polymerase sigma-32 factor gi|56543219|gb|AAV89373.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ZM4] gi|241374135|gb|EER63632.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|258552130|gb|ACV75076.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 302 Score = 330 bits (847), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 172/290 (59%), Positives = 215/290 (74%), Gaps = 7/290 (2%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + G+ L+ Y+ +IRK P+L+ +EEY+LAKR++EH D AA RLVTSHLRLV KIAMGYR Sbjct: 14 LGGDQSLNHYLADIRKFPILKPEEEYMLAKRFQEHQDPKAASRLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKFDPERGFRLATY++WWIKA++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAIWWIKASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRRLK ++ A D +LKP++V +IA L VS EV++MN R+A GD SLN Sbjct: 134 AAQKKLFFNLRRLKSNMNAFEDGDLKPDEVDSIATNLGVSNEEVVNMNRRMAMGGDSSLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + Q QDWLV Q+Q + E+EE R +L +M LN RE+ I RR Sbjct: 194 --ITMREDGEGQMQDWLVDQEPLQDQQIEEEEESLVRHKLLIEAMDKLNDREKHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 L +NP TLE LS + VSRERVRQIE RAF K+Q++I +EL+ LL Sbjct: 252 LSDNPKTLEELSQVYGVSRERVRQIEVRAFDKLQKAI---MELAGDRKLL 298 >gi|83949442|ref|ZP_00958175.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] gi|83837341|gb|EAP76637.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] Length = 298 Score = 330 bits (847), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 161/271 (59%), Positives = 206/271 (76%), Gaps = 3/271 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAK + E D AAHR+VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPLLEPEEEYMLAKAWVEKQDTEAAHRMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWS+VK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + ++ P+ V IA L V+E EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDMHPDNVKRIATDLGVTEDEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEK-EERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S + + QWQDWL D D + EK E + R +LT +M VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWL-EDEDADQAGDYEKRNEMETRLELLTEAMDVLNDREKDILSQRRLND 251 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTLE+LS+E+ VSRER+RQIE RAF+K+Q Sbjct: 252 ETVTLEDLSTEYGVSRERIRQIEVRAFEKLQ 282 >gi|1143379|dbj|BAA09444.1| sigma-32 homolog [Zymomonas mobilis] Length = 302 Score = 330 bits (846), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 172/290 (59%), Positives = 215/290 (74%), Gaps = 7/290 (2%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + G+ L+ Y+ +IRK P+L+ +EEY+LAKR++EH D AA RLVTSHLRLV KIAMGYR Sbjct: 14 LGGDQSLNHYLADIRKFPILKPEEEYMLAKRFQEHQDPKAASRLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKFDPERGFRLATY++WWIKA++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAIWWIKASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRRLK ++ A D +LKP++V +IA L VS EV++MN R+A GD SLN Sbjct: 134 AAQKKLFFNLRRLKSNMNAFEDGDLKPDEVDSIATNLGVSNEEVVNMNRRMAMGGDSSLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + Q QDWLV Q+Q + E+EE R +L +M LN RE+ I RR Sbjct: 194 --ITMREDGEGQMQDWLVDQEPLQDQQIEEEEESLVRHKLLIEAMDRLNDREKHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 L +NP TLE LS + VSRERVRQIE RAF K+Q++I +EL+ LL Sbjct: 252 LSDNPKTLEELSQVYGVSRERVRQIEVRAFDKLQKAI---MELAGDRKLL 298 >gi|163738663|ref|ZP_02146077.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] gi|163742952|ref|ZP_02150335.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161383635|gb|EDQ08021.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161387991|gb|EDQ12346.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] Length = 298 Score = 330 bits (846), Expect = 2e-88, Method: Compositional matrix adjust. Identities = 161/286 (56%), Positives = 215/286 (75%), Gaps = 4/286 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D ++AH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDSASAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L P+ V IA L V+E+EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDLHPDSVKKIATDLGVTETEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E + RR +L ++ VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLASALEVLNDREKDILTQRRLADQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 TLE+LS+++ VSRER+RQIE RAF+K+Q +K EL+S +L Sbjct: 253 AKTLEDLSTQYGVSRERIRQIEVRAFEKLQ---KKMRELASEKGML 295 >gi|254486865|ref|ZP_05100070.1| alternative sigma factor RpoH [Roseobacter sp. GAI101] gi|214043734|gb|EEB84372.1| alternative sigma factor RpoH [Roseobacter sp. GAI101] Length = 298 Score = 329 bits (843), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 161/270 (59%), Positives = 210/270 (77%), Gaps = 1/270 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSGQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +++PE V IA L V+E+EV+SMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKNRIGALEEGDMRPENVSRIATDLGVTEAEVVSMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q E+EE + RR ML ++ VLN RE+ I RRL + Sbjct: 193 SEGEGTMQWQDWLEDEDADQAGDYEEREELETRREMLAEALEVLNDREKDILTQRRLSDE 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TLE+LSS+++VSRER+RQIE RAF+K+Q Sbjct: 253 TITLEDLSSQYDVSRERIRQIEVRAFEKLQ 282 >gi|254477747|ref|ZP_05091133.1| alternative sigma factor RpoH [Ruegeria sp. R11] gi|214031990|gb|EEB72825.1| alternative sigma factor RpoH [Ruegeria sp. R11] Length = 298 Score = 327 bits (839), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 159/286 (55%), Positives = 214/286 (74%), Gaps = 4/286 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK P+LE +EEY+LAKR+ E D ++AH++VTSHLRL KIAMGYRGYG Sbjct: 13 EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDANSAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ Q Sbjct: 73 LPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALIN 191 K+LFFNLR+ K + A+ + +L P+ V IA L V+E EVISMN R++ GD SLNA + Sbjct: 133 KKLFFNLRKAKARIGALEEGDLHPDSVKKIATDLGVTEDEVISMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + + QWQDWL + Q ++E + RR +L ++ VLN RE+ I RRL + Sbjct: 193 TEGEGAMQWQDWLEDEDADQAGDYEARDELEARRELLASALEVLNDREKDILTQRRLADQ 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 TLE+LS+++ VSRER+RQIE RAF+K+Q +K EL++ +L Sbjct: 253 AKTLEDLSTQYGVSRERIRQIEVRAFEKLQ---KKMRELAAQKGML 295 >gi|254456610|ref|ZP_05070039.1| alternative sigma factor RpoH [Candidatus Pelagibacter sp. HTCC7211] gi|207083612|gb|EDZ61038.1| alternative sigma factor RpoH [Candidatus Pelagibacter sp. HTCC7211] Length = 297 Score = 325 bits (833), Expect = 5e-87, Method: Compositional matrix adjust. Identities = 160/284 (56%), Positives = 219/284 (77%), Gaps = 11/284 (3%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ + N E GLS Y+ +I+K PML +EEY+LAK ++ G++ AA +LVTSHLRLV KI Sbjct: 8 NLPALTN-EGGLSAYLEQIKKFPMLAAEEEYMLAKNWKTTGNVKAAEKLVTSHLRLVAKI 66 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 AMGY+GYGLP++E++SEGN+GLMQAVKKF+PE+GFRLATY+MWWIKA++QEYILRSWSLV Sbjct: 67 AMGYKGYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWWIKASIQEYILRSWSLV 126 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTT QK+LFFNL+++K + T+ +L+ E V IA KL+VS+ EV+SMN RL+G E Sbjct: 127 KIGTTTAQKKLFFNLKKIKNQIAPQTEGDLRNEHVNEIANKLDVSKEEVVSMNRRLSGKE 186 Query: 185 -SLNALINSSDKNSSQWQDWLV---YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 SLNA + ++ +WQDWLV DHD + +EE + R+++L S+ VLN RER Sbjct: 187 FSLNAQVG---EDGDEWQDWLVDKELDHDLK---FAHQEEMEQRKDLLKNSIKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +RRL ++P TLE+LS ++++SRERVRQIE +AF+K+Q+ + Sbjct: 241 EILYSRRLNDDPTTLEDLSKKYKISRERVRQIENKAFEKLQKHM 284 >gi|71083311|ref|YP_266030.1| RNA polymerase factor sigma-32 [Candidatus Pelagibacter ubique HTCC1062] gi|71062424|gb|AAZ21427.1| RNA polymerase sigma-32 factor (rpoH) RP303 [Candidatus Pelagibacter ubique HTCC1062] Length = 293 Score = 325 bits (832), Expect = 7e-87, Method: Compositional matrix adjust. Identities = 157/279 (56%), Positives = 216/279 (77%), Gaps = 10/279 (3%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ E GLS Y+ +I+K PML +EEY+LAK ++ G++ AA +LVTSHLRLV KIAMGYR Sbjct: 8 LSNEGGLSAYLEQIKKFPMLAAEEEYMLAKNWKATGNVKAAEKLVTSHLRLVAKIAMGYR 67 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP++E++SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRSWSLVKIGTT Sbjct: 68 GYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKIGTT 127 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 QK+LFFNL+++K + ++ +L+PE V IA KL+V++ EVISMN RL+G E SLNA Sbjct: 128 TAQKKLFFNLKKIKNQIAPQSEGDLRPEHVTEIANKLDVNKDEVISMNRRLSGKEFSLNA 187 Query: 189 LINSSDKNSSQWQDWLV---YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + ++ +WQDWLV DHD + +EE R+N+L S+ +LN RE+ I + Sbjct: 188 QVG---EDGDEWQDWLVDKELDHDLK---FAHQEEMGQRQNLLKDSIKILNEREKEILYS 241 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRL + P TLE+LS ++++SRERVRQIE +AF+K+Q+ + Sbjct: 242 RRLNDEPTTLEDLSKKYKISRERVRQIENKAFEKLQKHM 280 >gi|91762259|ref|ZP_01264224.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] gi|91718061|gb|EAS84711.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] Length = 293 Score = 324 bits (830), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 156/279 (55%), Positives = 216/279 (77%), Gaps = 10/279 (3%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ E GLS Y+ +I+K PML +EEY+LAK ++ G++ AA +LVTSHLRLV KIAMGYR Sbjct: 8 LSNEGGLSAYLEQIKKFPMLAAEEEYMLAKNWKATGNVKAAEKLVTSHLRLVAKIAMGYR 67 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP++E++SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRSWSLVKIGTT Sbjct: 68 GYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKIGTT 127 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 QK+LFFNL+++K + ++ +L+PE V IA KL+V++ EVISMN RL+G E SLNA Sbjct: 128 TAQKKLFFNLKKIKNQIAPQSEGDLRPEHVTEIANKLDVNKDEVISMNRRLSGKEFSLNA 187 Query: 189 LINSSDKNSSQWQDWLV---YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + ++ +WQDWLV DHD + +EE R+N+L S+ +LN RE+ I + Sbjct: 188 QVG---EDGDEWQDWLVDKELDHDLK---FAHQEEMGQRQNLLKDSIKILNEREKEILYS 241 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRL + P TLE+LS ++++SRER+RQIE +AF+K+Q+ + Sbjct: 242 RRLNDEPTTLEDLSKKYKISRERIRQIENKAFEKLQKHM 280 >gi|197103427|ref|YP_002128805.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] gi|196480703|gb|ACG80230.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] Length = 316 Score = 321 bits (822), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 167/279 (59%), Positives = 211/279 (75%), Gaps = 10/279 (3%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 + E GL RY+ EIRK P+L K EEY+LAKR+REH D AAHRLVTSHLRL KIA+ YRG Sbjct: 9 SAEGGLRRYLTEIRKYPLLGKDEEYMLAKRWREHEDPEAAHRLVTSHLRLSAKIALSYRG 68 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP+ EV+SEGN+GLM AVKKFDP++GFRLATY++WWI+AA+QEYILRSWSLVK+GT+A Sbjct: 69 YGLPLGEVISEGNLGLMHAVKKFDPDKGFRLATYAIWWIRAAIQEYILRSWSLVKLGTSA 128 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNAL 189 QK+LFFNLRR K + A++D +LKP+QV AIA +L V+E EV++M+ RLA D SLN+ Sbjct: 129 VQKKLFFNLRRAKARISALSDGDLKPDQVKAIASRLGVNEEEVVNMDRRLASRDASLNSP 188 Query: 190 INSSDKNSSQWQDWLVYDHD----GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + + + Q+WL D E + E EER R ++L ++M LN RERRIF A Sbjct: 189 LAADAE-----QEWLDVLEDEAAVDPEAAVAEAEERALRMDLLAQAMQTLNARERRIFTA 243 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRLQ+ P LE+L+ +F VSRERVRQIE RAF+KVQ + Sbjct: 244 RRLQDPPALLEDLAKDFGVSRERVRQIEVRAFEKVQAFV 282 >gi|288962386|ref|YP_003452681.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288914652|dbj|BAI76137.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 293 Score = 318 bits (816), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 155/266 (58%), Positives = 204/266 (76%), Gaps = 2/266 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LSRYI++ + P+L ++EY+LAK + EHGD+ AAHRLVTSHLRLVVKIA GYRGYGLP+ Sbjct: 16 LSRYINDTHRYPVLTAEDEYMLAKAWTEHGDVDAAHRLVTSHLRLVVKIAGGYRGYGLPL 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S++++EGN+GLM AVKKF+PERGFRL+TY+MWWIKA++Q+YILRSWSLVKIGTTA QK+L Sbjct: 76 SDLIAEGNLGLMTAVKKFEPERGFRLSTYAMWWIKASIQDYILRSWSLVKIGTTAAQKKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD-ESLNALINSSD 194 FF+L RLK L +L P+ V +IA L V E +V++MN RL+ SLNA + S++ Sbjct: 136 FFSLGRLKRKLGEYGGGDLHPDSVTSIATDLAVPEDDVVAMNRRLSAPVASLNAPM-SAE 194 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 +S +WQD L D E+ L+E+ E + R +L +M VLN RER I +RRL ++P+T Sbjct: 195 GDSGEWQDLLADDRPSVEESLVERGEARQRSALLHEAMGVLNDRERDILTSRRLSDSPLT 254 Query: 255 LENLSSEFEVSRERVRQIEARAFKKV 280 LE+LS + VSRER+RQIE RAF+KV Sbjct: 255 LEDLSVRYGVSRERIRQIEERAFEKV 280 >gi|83592357|ref|YP_426109.1| RNA polymerase factor sigma-32 [Rhodospirillum rubrum ATCC 11170] gi|83575271|gb|ABC21822.1| Sigma 32 (RpoH) [Rhodospirillum rubrum ATCC 11170] Length = 306 Score = 315 bits (806), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 159/278 (57%), Positives = 204/278 (73%), Gaps = 3/278 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E GLSRY+ EI++ PML +EE++LAKR ++ GD AAHRLVTSHLRLV KIAMGYR Sbjct: 11 VSDEGGLSRYLTEIKRFPMLTPEEEFMLAKRLQDEGDRDAAHRLVTSHLRLVAKIAMGYR 70 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 YGLP+S++V+EGN+GLM+AVKKF+ +RGFRLATY+MWWIKA++ EYIL SWSLVK+GT Sbjct: 71 HYGLPVSDLVAEGNMGLMKAVKKFEADRGFRLATYAMWWIKASINEYILNSWSLVKVGTV 130 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 A QK+LFFNLRRLK L + +L PE V IA +L V+E++V+ MN RLAG D SLN Sbjct: 131 AAQKKLFFNLRRLKAKLGVYEEGDLSPEDVKTIATQLKVTEADVVMMNRRLAGPDASLNV 190 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + S D L+ + D QE+V EE+ +L ++S L RER I ARRL Sbjct: 191 PVG--EDQSMDRMDLLMDEGDNQEEVYAAHEEQSLGNRLLKDALSTLTERERHIITARRL 248 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + PVTLE L E+ VSRERVRQIE RAF+K+Q +++K Sbjct: 249 RSEPVTLEELGGEYGVSRERVRQIENRAFEKLQTAVRK 286 >gi|83311906|ref|YP_422170.1| RNA polymerase factor sigma-32 [Magnetospirillum magneticum AMB-1] gi|82946747|dbj|BAE51611.1| RNA polymerase sigma-32 factor [Magnetospirillum magneticum AMB-1] Length = 292 Score = 309 bits (792), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 145/278 (52%), Positives = 210/278 (75%), Gaps = 4/278 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +V G+ GL++Y+ +I++ P+L +EE++LAKR+ ++ D AAHRLVTSHLRLV KIA+GY Sbjct: 8 VVAGDDGLAKYLRDIKEFPVLAPEEEFMLAKRWVDYEDTDAAHRLVTSHLRLVAKIALGY 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 R YGLP+++++SEGNIGLM+AVKKF+P+RGFRLATY+MWWIKA++ E++L SWS+VKIGT Sbjct: 68 RHYGLPVADLISEGNIGLMRAVKKFEPDRGFRLATYAMWWIKASLNEFVLNSWSMVKIGT 127 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 A QK+LFFNLRR+K L+ + +L PE V IA++L+V E +V++MN R+AG D SLN Sbjct: 128 LAAQKKLFFNLRRIKSRLRLLEAGDLAPEHVATIARELDVDERDVVAMNRRMAGRDSSLN 187 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + + ++ QD + + D QE ++EE R ++ R++ L RER +F RR Sbjct: 188 APVG---EGGTEIQDLMADEADNQETAYGKREELSKGRVLIARALDSLTEREREVFVERR 244 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+++PVTLE L + VSRER+RQIE +AF+KV++ +Q Sbjct: 245 LRDDPVTLEELGGRYGVSRERIRQIEVKAFEKVRDLVQ 282 >gi|23014972|ref|ZP_00054764.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 292 Score = 309 bits (791), Expect = 4e-82, Method: Compositional matrix adjust. Identities = 143/278 (51%), Positives = 210/278 (75%), Gaps = 4/278 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +V G+ GL++Y+ +I++ P+L +EE++LAKR+ ++ D AAH+LVTSHLRLV KIA+GY Sbjct: 8 VVAGDDGLAKYLRDIKEFPVLAPEEEFMLAKRWVDYEDTEAAHKLVTSHLRLVAKIALGY 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 R YGLP+++++SEGNIGLM+AVKKF+P+RGFRLATY+MWWIKA++ E++L SWS+VKIGT Sbjct: 68 RHYGLPVADLISEGNIGLMRAVKKFEPDRGFRLATYAMWWIKASLNEFVLNSWSMVKIGT 127 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 A QK+LFFNLRR+K L+ + +L PE V IA++L+V E +V++MN R+AG D SLN Sbjct: 128 LAAQKKLFFNLRRIKSRLRLLESGDLAPEHVTTIARELDVDERDVVAMNRRMAGRDSSLN 187 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + ++ QD + + D QE L ++EE R ++ R++ L RER +F RR Sbjct: 188 TPVG---EGGAEIQDLMADEADNQETSLAKREELSKGRTLIARALDSLTEREREVFVERR 244 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+++P+TLE L + VSRER+RQIE +AF+KV++ +Q Sbjct: 245 LRDDPLTLEELGGRYGVSRERIRQIEVKAFEKVRDLVQ 282 >gi|91205341|ref|YP_537696.1| RNA polymerase factor sigma-32 [Rickettsia bellii RML369-C] gi|91068885|gb|ABE04607.1| RNA polymerase sigma-32 factor [Rickettsia bellii RML369-C] Length = 294 Score = 305 bits (782), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 149/279 (53%), Positives = 202/279 (72%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE++LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEEFLLAKSYLEQNDLQAAHKLVTSHLKLVAKIAT 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLP++E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPVTELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + V IA +L VS SEV MN RL+G D S Sbjct: 127 GTTAAQKKLFFSLSKIKNKITNLYSRAITSDDFVQIADELGVSVSEVSDMNIRLSGSDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN IN+ D +S + + L E + I KE+ ++R +L+ +M VLN RE RI Sbjct: 187 LNNTINNDDASSGELIELLPETRPSPEAIAISKEDMTHKRALLSSAMKVLNARELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+LQ+ P TL+ LSSE+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLQDTPKTLDVLSSEYNISKERIRQIENTAFEKIKKFI 285 >gi|27380342|ref|NP_771871.1| RNA polymerase factor sigma-32 [Bradyrhizobium japonicum USDA 110] gi|1613784|gb|AAC44755.1| sigma32-like factor RpoH1 [Bradyrhizobium japonicum] gi|27353506|dbj|BAC50496.1| sigma32-like factor [Bradyrhizobium japonicum USDA 110] Length = 308 Score = 305 bits (780), Expect = 8e-81, Method: Compositional matrix adjust. Identities = 160/283 (56%), Positives = 208/283 (73%), Gaps = 1/283 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 + GLS+Y+ EIRK P+L ++E A+R+REH D AA+ LVTSHLRLV KIAM YRGYG Sbjct: 13 DAGLSKYLVEIRKFPLLTPEQELAYARRWREHRDRDAAYHLVTSHLRLVAKIAMRYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LPI+E+VSEGNIGLMQAV++FDP+RG RLATY+MWWI+A++QEYILRSWSLVKI +A+Q Sbjct: 73 LPIAEIVSEGNIGLMQAVRRFDPDRGVRLATYAMWWIRASIQEYILRSWSLVKIAASASQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 K+LFF LRR K + A+ D +L+PEQV IA++L V+E +V++M+ RL GD SLN I+ Sbjct: 133 KKLFFKLRRAKSAISALQDGDLRPEQVRLIAERLKVAERDVVAMDRRLRGDASLNVPIHD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 D+ Q DWLV E L E++E K RR L +++ LN RER IF AR L E Sbjct: 193 EDEG-GQTLDWLVDPAPTCEITLAEEQEAKQRRLALANALANLNARERNIFTARWLNEES 251 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPP 295 TLE L++E+ VSRERVRQIE RAF+KV+ ++ ++ PP Sbjct: 252 TTLEELAAEYGVSRERVRQIEERAFQKVKAAMLTSRHEANGPP 294 >gi|288961334|ref|YP_003451673.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288913642|dbj|BAI75129.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 287 Score = 302 bits (774), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 145/266 (54%), Positives = 195/266 (73%), Gaps = 2/266 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ + RK L + E LA R+ +H D +A RLV SHLRLVVK+A GY GYGLP++++ Sbjct: 4 YLQDARKYQYLTPELELELAARWHDHQDPAALDRLVGSHLRLVVKMARGYLGYGLPLADL 63 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V+EGN+GLMQA +KFDP +GFR ATY+ WW++AA+QEY+L +WSLVKIGTTA QK+LFF+ Sbjct: 64 VAEGNVGLMQAAQKFDPGKGFRFATYASWWVRAAIQEYVLHNWSLVKIGTTAGQKKLFFS 123 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LRRLK +Q + +L PE V +IA +LNVS++EV+ MN RL D SLN + S+ + Sbjct: 124 LRRLKARMQELDSGDLSPEAVESIATELNVSKAEVVEMNRRLGNDRSLN--VGLSEDGDA 181 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 +WQD L D QE VL + EER+ R+ L + VL+ RERRI ARRL++ P+TLE L Sbjct: 182 EWQDLLADDRPDQETVLADSEERRRRQQFLKLGLGVLDDRERRILVARRLRDEPLTLEEL 241 Query: 259 SSEFEVSRERVRQIEARAFKKVQESI 284 S F+VSRERVRQ+E RAF+K+Q+++ Sbjct: 242 SQTFQVSRERVRQLEVRAFEKLQKAV 267 >gi|144898533|emb|CAM75397.1| Sigma-70 region 2:Sigma-70 region 4 [Magnetospirillum gryphiswaldense MSR-1] Length = 290 Score = 302 bits (773), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 149/280 (53%), Positives = 207/280 (73%), Gaps = 4/280 (1%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 R + I + GLS+Y+ EIR P+LE ++EY+LAKR+ ++ D +AAH+LVTSHLRLV Sbjct: 2 RATVPAISADDSGLSKYLREIRDFPVLEPEQEYMLAKRWVDYEDTAAAHQLVTSHLRLVA 61 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 KIAMGYR YGLP+++++SEGN+GLM+AVKKF+PERGFRL+TY+MWWIKA++ E++L SWS Sbjct: 62 KIAMGYRHYGLPMADLISEGNLGLMRAVKKFEPERGFRLSTYAMWWIKASLNEFVLNSWS 121 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 LVKIGT A QK+LFFNLR++K L+ + L P V AIAK+L VSE++V++MN R+ G Sbjct: 122 LVKIGTLAAQKKLFFNLRKVKTKLRLLDATELAPADVRAIAKELGVSETDVVNMNRRMGG 181 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SLN + S ++ + L + D QE L + EE R ++ ++++ LN RER Sbjct: 182 RDSSLNTPVGES---GTEIIELLPDETDNQETGLAKHEELSKGRKLIAQALTSLNERERE 238 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 IF RRL++ P+TLE L + F VSRER+RQIE +AF+KV+ Sbjct: 239 IFVERRLRDEPLTLEELGARFGVSRERIRQIEVKAFEKVR 278 >gi|218680389|ref|ZP_03528286.1| RNA polymerase factor sigma-32 [Rhizobium etli CIAT 894] Length = 209 Score = 298 bits (764), Expect = 5e-79, Method: Compositional matrix adjust. Identities = 141/196 (71%), Positives = 168/196 (85%) Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 D ERGFRLATY+MWWIKA++QEYILRSWSLVK+GTTANQKRLFFNLRRLKG +QAI D + Sbjct: 1 DAERGFRLATYAMWWIKASIQEYILRSWSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGD 60 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 LKPE V IA KL VSE EVISMN RL+GD SLNA I +++ +S QWQDWLV DHD QE Sbjct: 61 LKPEHVSEIATKLKVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHDSQED 120 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 VLIE++E RR ML ++MSVLN RERRIFEARRL E+PVTLE+LS+EF++SRERVRQIE Sbjct: 121 VLIEQDELDTRRRMLAKAMSVLNERERRIFEARRLAEDPVTLEDLSTEFDISRERVRQIE 180 Query: 274 ARAFKKVQESIQKQVE 289 RAF+KVQ++++K+ + Sbjct: 181 VRAFEKVQDAVRKEAQ 196 >gi|67458885|ref|YP_246509.1| RNA polymerase factor sigma-32 [Rickettsia felis URRWXCal2] gi|67004418|gb|AAY61344.1| RNA polymerase sigma-32 factor [Rickettsia felis URRWXCal2] Length = 293 Score = 297 bits (760), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 145/279 (51%), Positives = 200/279 (71%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE++LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEEFLLAKSYLEENDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + + IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKIKHKITNLYSRAITADDFIQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K++ +R +L+ +M +LN RE RIF Sbjct: 187 LNNPINSDDAESGELIELLPETRPTPETIAINKQDSTGKRKLLSNAMKILNDRELRIFTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSNEYNISKERIRQIENTAFEKIKKFI 285 >gi|157803973|ref|YP_001492522.1| RNA polymerase factor sigma-32 [Rickettsia canadensis str. McKiel] gi|157785236|gb|ABV73737.1| hypothetical protein A1E_04050 [Rickettsia canadensis str. McKiel] Length = 296 Score = 295 bits (755), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 146/282 (51%), Positives = 200/282 (70%), Gaps = 1/282 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE++LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEEFLLAKSYLEENDLKAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + V IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++++L +M +LN RE RI Sbjct: 187 LNNSINSDDTESGELIELLPETRPTPEAMAINKQNYTTKKHLLASAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R+L++ P TL+ LSSE+ +S+ER+RQIE AF+K+++ I K Sbjct: 247 RKLKDTPKTLDILSSEYNISKERIRQIENTAFEKIKKFILKH 288 >gi|239947881|ref|ZP_04699634.1| alternative sigma factor RpoH [Rickettsia endosymbiont of Ixodes scapularis] gi|239922157|gb|EER22181.1| alternative sigma factor RpoH [Rickettsia endosymbiont of Ixodes scapularis] Length = 293 Score = 293 bits (749), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 145/279 (51%), Positives = 198/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE++LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEEFLLAKSYLEENDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGVSINEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI Sbjct: 187 LNNSINSDDAESGELIELLPETRPTPEAMAINKQNSTSKRKLLSNAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LSSE+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSSEYNISKERIRQIENTAFEKIKKFI 285 >gi|238650752|ref|YP_002916605.1| RNA polymerase factor sigma-32 [Rickettsia peacockii str. Rustic] gi|238624850|gb|ACR47556.1| RNA polymerase factor sigma-32 [Rickettsia peacockii str. Rustic] Length = 293 Score = 291 bits (745), Expect = 9e-77, Method: Compositional matrix adjust. Identities = 145/279 (51%), Positives = 198/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE +LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEELLLAKSYLEGNDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + V IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI Sbjct: 187 LNNSINSDDAESGELIELLPETRPTPEAMAINKQNSTSKRQLLSNAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSNEYNISKERIRQIENTAFEKIKKFI 285 >gi|15892330|ref|NP_360044.1| RNA polymerase factor sigma-32 [Rickettsia conorii str. Malish 7] gi|15619475|gb|AAL02945.1| RNA polymerase sigma-32 factor [Rickettsia conorii str. Malish 7] Length = 293 Score = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 145/279 (51%), Positives = 198/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE +LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEELLLAKSYLEGNDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + V IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI Sbjct: 187 LNNSINSDDAESGELIELLPETRPTPEAMAINKQNSTSKRQLLSNAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSNEYNISKERIRQIENTAFEKIKKFI 285 >gi|229586560|ref|YP_002845061.1| RNA polymerase factor sigma-32 [Rickettsia africae ESF-5] gi|228021610|gb|ACP53318.1| RNA polymerase sigma-32 factor [Rickettsia africae ESF-5] Length = 293 Score = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 144/279 (51%), Positives = 198/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE +LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEELLLAKSYLEGNDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLP++E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPMTELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + V IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRTITTDDFVQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI Sbjct: 187 LNNSINSDDAESGELIELLPETRPTPETMAINKQNSTSKRQLLSNAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSNEYNISKERIRQIENTAFEKIKKFI 285 >gi|51473499|ref|YP_067256.1| RNA polymerase factor sigma-32 [Rickettsia typhi str. Wilmington] gi|51459811|gb|AAU03774.1| RNA polymerase sigma 32 subunit (heat shock sigma factor) [Rickettsia typhi str. Wilmington] Length = 293 Score = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 143/279 (51%), Positives = 198/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE++LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEEFLLAKSYLEENDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GY+ YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKA++QEYIL+SWSLVK+ Sbjct: 67 GYKTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKASIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + IA +L VS EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGVSVHEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI + Sbjct: 187 LNNSINSDDVESGELIELLPETRPTPEAMAINKQNYTSKRKLLSNAMQILNDRELRILKD 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LSSE+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSSEYNISKERIRQIENTAFEKIKKFI 285 >gi|157964378|ref|YP_001499202.1| RNA polymerase factor sigma-32 [Rickettsia massiliae MTU5] gi|157844154|gb|ABV84655.1| RNA polymerase sigma-32 factor [Rickettsia massiliae MTU5] Length = 310 Score = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 144/279 (51%), Positives = 197/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE +LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 24 ALAISSESGFYSYLQKINKIPSLTQEEELLLAKSYLEGNDLQAAHKLVTSHLKLVAKIAS 83 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 84 GYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 143 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + IA +L VS +EV MN R++G D S Sbjct: 144 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGVSVNEVSEMNTRISGPDLS 203 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI Sbjct: 204 LNNSINSDDAESGELIELLPETRPTPEAMAINKQNSTSKRQLLSNAMKILNDRELRILTE 263 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 264 RKLTDTPKTLDILSNEYNISKERIRQIENTAFEKIKKFI 302 >gi|157825543|ref|YP_001493263.1| RNA polymerase factor sigma-32 [Rickettsia akari str. Hartford] gi|157799501|gb|ABV74755.1| RNA polymerase factor sigma-32 [Rickettsia akari str. Hartford] Length = 293 Score = 289 bits (739), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 142/279 (50%), Positives = 196/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I IP L ++EE++LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYNYLQKINNIPSLTQEEEFLLAKSYLEENDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YG+PI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGIPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAKIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L +M +LN RE RI Sbjct: 187 LNNSINSDDAASGELIELLPETRPTPEAMAINKQNFTSKRKLLANAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPTTLDILSNEYNISKERIRQIENTAFEKIKKFI 285 >gi|34580656|ref|ZP_00142136.1| RNA polymerase sigma-32 factor [Rickettsia sibirica 246] gi|28262041|gb|EAA25545.1| RNA polymerase sigma-32 factor [Rickettsia sibirica 246] Length = 293 Score = 288 bits (737), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 143/279 (51%), Positives = 197/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE +LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEELLLAKSYLEGNDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLP++E+VSEGNIGLMQAVKKF+P GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPMTELVSEGNIGLMQAVKKFNPALGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + V IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI Sbjct: 187 LNNSINSDDAESGELIELLPETRPTPETMAINKQNSTSKRQLLSNAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSNEYNISKERIRQIENTAFEKIKKFI 285 >gi|157828283|ref|YP_001494525.1| RNA polymerase factor sigma-32 [Rickettsia rickettsii str. 'Sheila Smith'] gi|165932987|ref|YP_001649776.1| RNA polymerase factor sigma-32 [Rickettsia rickettsii str. Iowa] gi|157800764|gb|ABV76017.1| RNA polymerase factor sigma-32 [Rickettsia rickettsii str. 'Sheila Smith'] gi|165908074|gb|ABY72370.1| RNA polymerase sigma-32 factor [Rickettsia rickettsii str. Iowa] Length = 293 Score = 288 bits (736), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 143/279 (51%), Positives = 197/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE +LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEELLLAKSYLEGNDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYR YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKAA+QEYIL+SWSLVK+ Sbjct: 67 GYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTT QK+LFF+L ++K + + + + V IA +L VS +EV MN R++G D S Sbjct: 127 GTTTAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN IN+ D S + + L E + I K+ ++R +L+ +M +LN RE RI Sbjct: 187 LNNSINNDDAESGELIELLPETRPTPEAMAINKQNSTSKRQLLSNAMKILNDRELRILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LS+E+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSNEYNISKERIRQIENTAFEKIKKFI 285 >gi|15604172|ref|NP_220687.1| RNA polymerase factor sigma-32 [Rickettsia prowazekii str. Madrid E] gi|3860864|emb|CAA14764.1| RNA POLYMERASE SIGMA-32 FACTOR (rpoH) [Rickettsia prowazekii] gi|292571903|gb|ADE29818.1| RNA polymerase sigma-32 factor [Rickettsia prowazekii Rp22] Length = 293 Score = 287 bits (734), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 142/279 (50%), Positives = 198/279 (70%), Gaps = 1/279 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ ++ E G Y+ +I KIP L ++EE++LAK Y E DL AAH+LVTSHL+LV KIA Sbjct: 7 ALAISSESGFYSYLQKINKIPSLTQEEEFLLAKSYLEENDLQAAHKLVTSHLKLVAKIAS 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y+ YGLPI+E+VSEGNIGLMQAVKKF+PE GFRL+TY+MWWIKA++QEYIL+SWSLVK+ Sbjct: 67 SYKTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKASIQEYILKSWSLVKM 126 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFF+L ++K + + + + IA +L VS +EV MN R++G D S Sbjct: 127 GTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGVSVNEVSEMNTRISGPDLS 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN INS D S + + L E + I K+ ++R +L+ +M +LN RE RI + Sbjct: 187 LNNSINSDDVESGELIELLPELRPTPEAMAINKQNYTSKRKLLSNAMQILNDRELRILKD 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L + P TL+ LSSE+ +S+ER+RQIE AF+K+++ I Sbjct: 247 RKLTDTPKTLDILSSEYNISKERIRQIENTAFEKIKKFI 285 >gi|288958414|ref|YP_003448755.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288910722|dbj|BAI72211.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 323 Score = 287 bits (734), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 143/278 (51%), Positives = 198/278 (71%), Gaps = 4/278 (1%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ GE L+RYI E ++ P+L E LA +RE G+ A +LV SHLRLV+KIA G Sbjct: 32 LLTGENASLTRYIEESKRFPILAPDVERDLAIAWRERGNPRALEQLVGSHLRLVIKIARG 91 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 + GYGL + ++V+EGN+GLMQA +KFDP+RGFR ATY+ WWI+AA+QEYIL SWSLVK+G Sbjct: 92 FGGYGLSLVDLVAEGNVGLMQAAQKFDPQRGFRFATYATWWIRAAIQEYILHSWSLVKMG 151 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TTA QK+LFFNLRRLK + + +L PE V IA +L+V E+EV+ MN RLA D SL Sbjct: 152 TTAAQKKLFFNLRRLKSQMAELEQGDLSPETVATIAAELDVPETEVVEMNRRLAANDSSL 211 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 +A +++ + W + L D Q+ +L + +E RR ++ +++ L+PRERRI R Sbjct: 212 DATLSTD--GETNWLELLADDRPTQDAMLADADELALRRRLVGQALDRLDPRERRILFER 269 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RL+++P TLE LS +F VSRERVRQIE RAF+K+Q+++ Sbjct: 270 RLKDDPSTLEALSQQFSVSRERVRQIEVRAFEKLQKAV 307 >gi|218459714|ref|ZP_03499805.1| RNA polymerase factor sigma-32 [Rhizobium etli Kim 5] Length = 198 Score = 278 bits (710), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 132/184 (71%), Positives = 159/184 (86%) Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 +MWWIKA++QEYILRSWSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA Sbjct: 1 AMWWIKASIQEYILRSWSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIAT 60 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KLNVSE EVISMN RL+GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E + R Sbjct: 61 KLNVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELETR 120 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R ML+++MSVLN RERRIFEARRL E PVTLE+LS+EF++SRERVRQIE RAF+KVQ+++ Sbjct: 121 RRMLSKAMSVLNERERRIFEARRLAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDAV 180 Query: 285 QKQV 288 +K+ Sbjct: 181 RKEA 184 >gi|190571331|ref|YP_001975689.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|190357603|emb|CAQ55044.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus Pel] Length = 297 Score = 263 bits (673), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 133/283 (46%), Positives = 197/283 (69%), Gaps = 2/283 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ VN L +YI E+RK PML ++EE LAK ++E+ D+S+AHRL+TSHL LVVKIAM Sbjct: 7 NLCVNSSTNLMQYIAEVRKFPMLSQEEEVRLAKNWQEYQDISSAHRLITSHLNLVVKIAM 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ YGL + ++V EGN+GLM AVKKF+P+ GFR +TY++WWI+A+M+++IL+SWSLVKI Sbjct: 67 KFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEASMKDFILKSWSLVKI 126 Query: 127 GTTANQKRLFFNLRRLKGH-LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 GTT Q+RLFF+LR++K LQ L E++ AI+ +L+VSE +V+ M+ RLA D+ Sbjct: 127 GTTQAQRRLFFSLRKIKKRILQYTNRETLSKEEIKAISNELSVSEEDVVQMSYRLACKDQ 186 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLN I D + + QD + + QE EE+ + +L+ +++ LN R R IF Sbjct: 187 SLNNCIKIGDDSKKELQDMIPCNLVSQEVAYQNHEEKALKETILSNALASLNERSRDIFI 246 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +R L EN TL+ LS ++ VSRER+RQ+ +A KV++ I+ + Sbjct: 247 SRYLSENTQTLDELSKKYCVSRERIRQLAEQAMSKVKQHIKSE 289 >gi|58584688|ref|YP_198261.1| DNA-directed RNA polymerase sigma 32 subunit [Wolbachia endosymbiont strain TRS of Brugia malayi] gi|58419004|gb|AAW71019.1| DNA-directed RNA polymerase sigma 32 subunit, RpoH subfamily [Wolbachia endosymbiont strain TRS of Brugia malayi] Length = 297 Score = 261 bits (667), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 130/284 (45%), Positives = 197/284 (69%), Gaps = 2/284 (0%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +S+ +NG L++YI E+RK PML ++EE LAK + + D+S+AH+L+TSHL LVVKIA Sbjct: 6 VSLCINGSTNLTQYITEVRKFPMLSQEEEVRLAKSWNQCKDISSAHKLITSHLNLVVKIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 M ++ YGL + +++ EGN+GL+ AVKKF+P+ GFR +TY++WWI+A+++++IL+SWS VK Sbjct: 66 MKFKNYGLLLMDLIMEGNMGLIHAVKKFNPDLGFRFSTYAVWWIEASIKDFILKSWSFVK 125 Query: 126 IGTTANQKRLFFNLRRLKGH-LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 IGTT Q+RLFF+LR++K LQ L E++ AI+ +L+VSE +VI MN RLA D Sbjct: 126 IGTTQAQRRLFFSLRKIKKRILQYTNRETLNNEEIKAISNELSVSEGDVIQMNYRLACKD 185 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +SLN I + + QD + + QE +EE++ + +L +++ LN R R IF Sbjct: 186 QSLNNCIKVGGDSKKELQDMIPCNSVNQEVTYQNREEKELKETILNNALASLNERSRDIF 245 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +R L EN TL+ LS ++ VSRER+RQ+ +A KV++ IQ + Sbjct: 246 ISRYLSENTQTLDELSKKYCVSRERIRQLAEQAMSKVKQHIQSE 289 >gi|189184203|ref|YP_001937988.1| RNA polymerase factor sigma-32 [Orientia tsutsugamushi str. Ikeda] gi|189180974|dbj|BAG40754.1| heat shock sigma factor RpoH [Orientia tsutsugamushi str. Ikeda] Length = 299 Score = 258 bits (659), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 130/269 (48%), Positives = 186/269 (69%), Gaps = 1/269 (0%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 G Y+ +I +IP L +EEY+LAK Y E +L AAH LV SHL+LV KIA+ YRGYGLP Sbjct: 18 GFYIYLQKINRIPSLTAEEEYMLAKSYFEQNNLKAAHSLVKSHLKLVAKIALSYRGYGLP 77 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++VSEGNIGL+QAVKK++PE GFRL+TY++WWIKAA+Q+YILRSWSLVK+GTTA QK+ Sbjct: 78 VVDLVSEGNIGLLQAVKKYNPELGFRLSTYAIWWIKAAIQDYILRSWSLVKLGTTAAQKK 137 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSS 193 LFFNL ++K + + + IA + VS +EV +N RL+ D SLN I+ Sbjct: 138 LFFNLGKIKNKITKLHARAINSSDYKQIADESGVSIAEVSEVNQRLSNSDLSLNTPISYH 197 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + ++++ + + QE +L +++ ++ +L ++ L RE I AR+LQ+ P Sbjct: 198 EDDATELVELVPEHRPNQEIILANQQDLNLKQEVLQNALQTLTQRELYIIRARKLQDEPD 257 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE LS F VS+ER+RQIE++AF+K+Q+ Sbjct: 258 TLEKLSLHFNVSKERIRQIESKAFEKLQQ 286 >gi|148284686|ref|YP_001248776.1| RNA polymerase factor sigma-32 [Orientia tsutsugamushi str. Boryong] gi|146740125|emb|CAM80313.1| RNA polymerase sigma-32 factor [Orientia tsutsugamushi str. Boryong] Length = 299 Score = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 134/274 (48%), Positives = 190/274 (69%), Gaps = 11/274 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 G Y+ +I +IP L +EEY+LAK Y E +L AAH LV SHL+LV KIA+ YRGYGLP Sbjct: 18 GFYIYLQKINRIPSLTAEEEYMLAKSYFEQNNLKAAHSLVKSHLKLVAKIALSYRGYGLP 77 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++VSEGNIGL+QAVKK++PE GFRL+TY++WWIKAA+Q+YILRSWSLVK+GTTA QK+ Sbjct: 78 VVDLVSEGNIGLLQAVKKYNPELGFRLSTYAIWWIKAAIQDYILRSWSLVKLGTTAAQKK 137 Query: 135 LFFNLRRLKG-----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNA 188 LFFNL ++K H +AI ++ K IA + VS +EV +N RL+ D SLN Sbjct: 138 LFFNLGKIKNKITKMHARAINSSDYK-----QIADESGVSIAEVSEVNQRLSNSDLSLNT 192 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 I+ + ++++ + + QE +L +++ ++ +L ++ L RE I AR+L Sbjct: 193 PISYHEDDATELVELVPEHRPNQEIILANQQDLNLKKEVLENALQTLTQRELYIIRARKL 252 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 Q+ P TLE LS F VS+ER+RQIE++AF+K+Q+ Sbjct: 253 QDEPDTLEKLSLHFNVSKERIRQIESKAFEKLQQ 286 >gi|213018727|ref|ZP_03334535.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus JHB] gi|212995678|gb|EEB56318.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus JHB] Length = 281 Score = 257 bits (657), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 130/272 (47%), Positives = 192/272 (70%), Gaps = 2/272 (0%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +YI E+RK PML ++EE LAK ++E+ D+S+AHRL+TSHL LVVKIAM ++ YGL + + Sbjct: 2 QYIAEVRKFPMLSQEEEVRLAKNWQEYQDISSAHRLITSHLNLVVKIAMKFKNYGLLLMD 61 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +V EGN+GLM AVKKF+P+ GFR +TY++WWI+A+M+++IL+SWSLVKIGTT Q+RLFF Sbjct: 62 LVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEASMKDFILKSWSLVKIGTTQAQRRLFF 121 Query: 138 NLRRLKGH-LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDK 195 +LR++K LQ L E++ AI+ +L+VSE +V+ M+ RLA D+SLN I D Sbjct: 122 SLRKIKKRILQYTNRETLSKEEIKAISNELSVSEEDVVQMSYRLACKDQSLNNCIKIGDD 181 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + QD + + QE EE+ + +L+ +++ LN R R IF +R L EN TL Sbjct: 182 SKKELQDMIPCNLVSQEVAYQNHEEKALKETILSNALASLNERSRDIFISRYLSENTQTL 241 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + LS ++ VSRER+RQ+ +A KV++ I+ + Sbjct: 242 DELSKKYCVSRERIRQLAEQAMSKVKQHIKSE 273 >gi|197103189|ref|YP_002128567.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] gi|196480465|gb|ACG79992.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] Length = 310 Score = 254 bits (648), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 130/275 (47%), Positives = 181/275 (65%), Gaps = 6/275 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +R+ P+L + EEY LA+R R+ DL+AAHRL+TSHLRL KIA GYRGYGLP+ Sbjct: 19 LRQYLSAVRRYPVLTRDEEYALARRVRDEVDLAAAHRLMTSHLRLAAKIACGYRGYGLPL 78 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SE N+GL+ A+ KFD ER RL+TY+ WWI+AA+Q+YILR WS+VK+GT+A QKRL Sbjct: 79 EDMISEANVGLLHAIYKFDLERDCRLSTYAAWWIRAALQDYILRHWSIVKLGTSATQKRL 138 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FF RR + ++A L + + +A+ +V ++ M RL D SL+AL D Sbjct: 139 FFGFRRARARVEACPSELLAGDSIAKMAELFHVPPGDITGMEARLGWRDLSLSAL--HGD 196 Query: 195 KNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + L D + Q E L E +ER R +LT+++S L RE RIF ARRL++ P Sbjct: 197 EGEPDRLERLA-DENAQDPETALSEADERDYRTRLLTQALSPLGSREHRIFVARRLRDPP 255 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L L+ E+ VS ER+RQIE RAF+KVQ + Q Sbjct: 256 APLAELAQEYGVSCERIRQIEMRAFEKVQRFVTDQ 290 >gi|73667010|ref|YP_303026.1| sigma-70 region 2:sigma-70 region 4 [Ehrlichia canis str. Jake] gi|72394151|gb|AAZ68428.1| RNA polymerase, sigma 32 subunit, RpoH [Ehrlichia canis str. Jake] Length = 300 Score = 252 bits (643), Expect = 5e-65, Method: Compositional matrix adjust. Identities = 133/280 (47%), Positives = 187/280 (66%), Gaps = 4/280 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI + L Y++E+ P+L +EE LAK + E+G + AHRLVTSHLRLVVKIA+ Sbjct: 11 SIFSLTQDNLMSYMNEVHTFPILSPEEEDRLAKNWYENGIVEDAHRLVTSHLRLVVKIAL 70 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ YGLP+ E++ EGNIGLMQAVKKF+P GFRL+TY++WWIKA++++YIL+SWS +KI Sbjct: 71 SFKNYGLPLIELIMEGNIGLMQAVKKFNPTLGFRLSTYAIWWIKASIKDYILKSWSCIKI 130 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTT Q++LFF+LR++K L NN+ + + IA + + SE EV MN D S Sbjct: 131 GTTQAQRKLFFSLRKIKQKL--FKYNNITQDDIKLIANECSTSEQEVEQMNRYFTYRDRS 188 Query: 186 LNALINSSDKNSS-QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LN ++ S+D + Q+ + D QE + EE + ++T+++S LN R R IF Sbjct: 189 LNEVVFSNDNQKGIELQEIIKCDTPNQEDTYLLNEEASLKETLITQALSTLNERYRDIFI 248 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRL ENP TL+ LS E+++S+ERVRQIE AF KV+ I Sbjct: 249 RRRLIENPDTLDTLSQEYKISKERVRQIEMHAFTKVKNFI 288 >gi|111035800|emb|CAL29427.1| RNA polymerase sigma-32 factor [Wolbachia endosymbiont of Onchocerca volvulus] Length = 297 Score = 251 bits (642), Expect = 7e-65, Method: Compositional matrix adjust. Identities = 124/284 (43%), Positives = 195/284 (68%), Gaps = 2/284 (0%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +++ +NG L +YI E++K P+L ++EE LAK + ++ ++S+AH+L+TSHL LVVKIA Sbjct: 6 LNLCINGSASLMQYIAEVQKFPILSQEEETRLAKNWHQYKNISSAHKLITSHLNLVVKIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 M ++ YGL + +++ EGNIGLM AVKKF+P GFR +TY++WWI+A+++++IL+SWS +K Sbjct: 66 MKFKNYGLLLMDLIMEGNIGLMHAVKKFNPNLGFRFSTYAVWWIEASIKDFILKSWSFIK 125 Query: 126 IGTTANQKRLFFNLRRLKGH-LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GD 183 IGTT Q++LFF+LR++K LQ L E++ AI+ +L VSE +VI M+ RLA D Sbjct: 126 IGTTQAQRKLFFSLRKIKKRILQYTNRETLSNEEIKAISNELAVSEGDVIQMSYRLAYKD 185 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +SLN+ + D + + QD + + QE EE++ + +L +++ LN R R IF Sbjct: 186 QSLNSCLKVGDGSKKELQDMIPCNSVSQEVTYQNHEEKELKETILNNALANLNERSRDIF 245 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +R L EN TL+ L ++ VSRER+RQ+ +A KV++ IQ + Sbjct: 246 ISRYLSENTQTLDELGKKYNVSRERIRQLAEQAMSKVKQYIQSE 289 >gi|42520871|ref|NP_966786.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila melanogaster] gi|42410611|gb|AAS14720.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila melanogaster] Length = 297 Score = 251 bits (641), Expect = 9e-65, Method: Compositional matrix adjust. Identities = 127/283 (44%), Positives = 194/283 (68%), Gaps = 2/283 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ V+ L +YI ++K PML ++EE LAK + ++ D+S+AH+L+TSHL LVVKIAM Sbjct: 7 NLCVDSRTNLMQYIARVQKFPMLSQEEEVRLAKNWNQYKDVSSAHKLITSHLNLVVKIAM 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ YGL + ++V EGN+GLM AVKKF+P+ GFR +TY++WWI+A+++++IL+SWS VKI Sbjct: 67 KFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEASIKDFILKSWSFVKI 126 Query: 127 GTTANQKRLFFNLRRLKGH-LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 GTT Q+RLFF+LR++K LQ L E++ AI+ +L+VSE +V+ MN R+A D+ Sbjct: 127 GTTQAQRRLFFSLRKIKKRILQYTNRETLNNEEIKAISNELSVSEGDVLQMNYRMACKDQ 186 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLN I D + + QD + + QE EE++ + +L +++ LN R R IF Sbjct: 187 SLNDCIKIGDDSKRELQDMIPCNLVSQEVTYQNHEEKELKETILNNALASLNERARDIFI 246 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +R L EN TL+ LS ++ VSRER+RQ+ +A KV++ IQ + Sbjct: 247 SRYLSENIQTLDELSKKYCVSRERIRQLAEQAMAKVKQYIQSE 289 >gi|255003152|ref|ZP_05278116.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Puerto Rico] gi|255004281|ref|ZP_05279082.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Virginia] Length = 296 Score = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 131/275 (47%), Positives = 188/275 (68%), Gaps = 4/275 (1%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L Y+ ++R P+L ++EE LA+ + G ++ AHRLVTSHLRLVVKIAMG++ Y Sbjct: 17 GSDDLVSYVAQVRTFPILSEEEEKRLAENWYRRGSVADAHRLVTSHLRLVVKIAMGFKSY 76 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GLPI E++ EGNIGLMQAVK+F+P+ GFRLATY++WWIKA++++YILRSWS +++GTT Sbjct: 77 GLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKASIKDYILRSWSCIRVGTTQA 136 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALI 190 QK+LFF+LR++K L + + K E + AIA++ SE EV M+ A D SLN + Sbjct: 137 QKKLFFSLRKIKKRLLSCGSSMTKKE-IKAIAEECATSEEEVERMDRFFANRDVSLNEQV 195 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + ++S + QD + QE + + EE +++M +++ L+ R R IF RRLQE Sbjct: 196 HG--ESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSALATLDDRHRDIFTRRRLQE 253 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P TLE LS E+ VS+ERVRQIE +A K++ I+ Sbjct: 254 RPDTLEKLSEEYGVSKERVRQIELQALCKIKSFIE 288 >gi|222475169|ref|YP_002563585.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Florida] gi|222419306|gb|ACM49329.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Florida] Length = 307 Score = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 131/275 (47%), Positives = 188/275 (68%), Gaps = 4/275 (1%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L Y+ ++R P+L ++EE LA+ + G ++ AHRLVTSHLRLVVKIAMG++ Y Sbjct: 28 GSDDLVSYVAQVRTFPILSEEEEKRLAENWYRRGSVADAHRLVTSHLRLVVKIAMGFKSY 87 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GLPI E++ EGNIGLMQAVK+F+P+ GFRLATY++WWIKA++++YILRSWS +++GTT Sbjct: 88 GLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKASIKDYILRSWSCIRVGTTQA 147 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALI 190 QK+LFF+LR++K L + + K E + AIA++ SE EV M+ A D SLN + Sbjct: 148 QKKLFFSLRKIKKRLLSCGSSMTKKE-IKAIAEECATSEEEVERMDRFFANRDVSLNEQV 206 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + ++S + QD + QE + + EE +++M +++ L+ R R IF RRLQE Sbjct: 207 HG--ESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSALATLDDRHRDIFTRRRLQE 264 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P TLE LS E+ VS+ERVRQIE +A K++ I+ Sbjct: 265 RPDTLEKLSEEYGVSKERVRQIELQALCKIKSFIE 299 >gi|56416805|ref|YP_153879.1| RNA polymerase sigma-32 factor [Anaplasma marginale str. St. Maries] gi|56388037|gb|AAV86624.1| RNA polymerase sigma-32 factor [Anaplasma marginale str. St. Maries] Length = 290 Score = 249 bits (637), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 131/275 (47%), Positives = 188/275 (68%), Gaps = 4/275 (1%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L Y+ ++R P+L ++EE LA+ + G ++ AHRLVTSHLRLVVKIAMG++ Y Sbjct: 11 GSDDLVSYVAQVRTFPILSEEEEKRLAENWYRRGSVADAHRLVTSHLRLVVKIAMGFKSY 70 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GLPI E++ EGNIGLMQAVK+F+P+ GFRLATY++WWIKA++++YILRSWS +++GTT Sbjct: 71 GLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKASIKDYILRSWSCIRVGTTQA 130 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALI 190 QK+LFF+LR++K L + + K E + AIA++ SE EV M+ A D SLN + Sbjct: 131 QKKLFFSLRKIKKRLLSCGSSMTKKE-IKAIAEECATSEEEVERMDRFFANRDVSLNEQV 189 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + ++S + QD + QE + + EE +++M +++ L+ R R IF RRLQE Sbjct: 190 HG--ESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSALATLDDRHRDIFTRRRLQE 247 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P TLE LS E+ VS+ERVRQIE +A K++ I+ Sbjct: 248 RPDTLEKLSEEYGVSKERVRQIELQALCKIKSFIE 282 >gi|88658518|ref|YP_507464.1| RNA polymerase sigma-32 factor [Ehrlichia chaffeensis str. Arkansas] gi|88599975|gb|ABD45444.1| RNA polymerase sigma-32 factor [Ehrlichia chaffeensis str. Arkansas] Length = 297 Score = 248 bits (633), Expect = 7e-64, Method: Compositional matrix adjust. Identities = 133/280 (47%), Positives = 189/280 (67%), Gaps = 3/280 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI + L YI+E+ P+L +EE LA+ + E+G ++ AHRLVTSHLRLVVK+A+ Sbjct: 5 SIFSLTQDNLMSYINEVHAFPILSPEEEDRLARNWYENGIVADAHRLVTSHLRLVVKVAL 64 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ Y LP+ E++ EGNIGLMQAVKKF+P GFRL+TY++WWIKA +++YIL+SWS +KI Sbjct: 65 SFKNYELPLIELIMEGNIGLMQAVKKFNPTLGFRLSTYAIWWIKAFIKDYILKSWSCIKI 124 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN-CRLAGDES 185 GTT Q++LFF+LR++K L ++N+ E + IA K + SE EV MN L D S Sbjct: 125 GTTQAQRKLFFSLRKIKKKLFKY-NHNITKEDIKLIANKCSTSEQEVEQMNRYFLYRDRS 183 Query: 186 LNALINSSD-KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LN L+ S+D +N + Q+ + D QE + EE ++ ++++++S LN R R IF Sbjct: 184 LNELVFSNDNQNGVELQEIIKCDTPNQEDTYLLNEELNIKKALISQALSTLNERYRDIFI 243 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRL E P TL+ LS E+ +S+ERVRQIE AF KV+ I Sbjct: 244 RRRLIEEPDTLDKLSQEYNISKERVRQIEMHAFTKVKNFI 283 >gi|254995008|ref|ZP_05277198.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Mississippi] Length = 296 Score = 248 bits (632), Expect = 9e-64, Method: Compositional matrix adjust. Identities = 130/275 (47%), Positives = 188/275 (68%), Gaps = 4/275 (1%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L Y+ ++R P+L ++EE LA+ + G ++ AHRLVTSHLRLVVKIAMG++ Y Sbjct: 17 GSDDLVSYVAQVRTFPILSEEEEKRLAENWYRRGSVADAHRLVTSHLRLVVKIAMGFKSY 76 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GLPI E++ EGNIGLMQAVK+F+P+ GFRLATY++WWIKA++++YILRSWS +++GTT Sbjct: 77 GLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKASIKDYILRSWSCIRVGTTQA 136 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALI 190 QK+LFF+LR++K L + + K E + AIA++ SE EV M+ A D SLN + Sbjct: 137 QKKLFFSLRKIKKRLLSCGSSMTKKE-IKAIAEECATSEEEVERMDRFFANRDVSLNEQV 195 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + ++S + QD + QE + + EE +++M +++ L+ R R IF RRL+E Sbjct: 196 HG--ESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSALATLDDRHRDIFTRRRLRE 253 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P TLE LS E+ VS+ERVRQIE +A K++ I+ Sbjct: 254 RPDTLEKLSEEYGVSKERVRQIELQALCKIKSFIE 288 >gi|27375413|ref|NP_766942.1| RNA polymerase subunit [Bradyrhizobium japonicum USDA 110] gi|1834377|emb|CAA70861.1| RNA polymerase subunit [Bradyrhizobium japonicum] gi|27348550|dbj|BAC45567.1| RNA polymerase subunit [Bradyrhizobium japonicum USDA 110] Length = 307 Score = 246 bits (627), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 129/269 (47%), Positives = 175/269 (65%), Gaps = 1/269 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y IR+ +LE +E LA+R+ E D AA LVTSHLRL K+A GY+GYGLP+ Sbjct: 25 LSAYSAAIRRYELLEPGQEQQLARRWHETRDRGAADALVTSHLRLAAKLARGYKGYGLPM 84 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++E N+GL+ A +F+P RG R +TY++WWIKAA+ EYILRSWSLVKIGTTA QK+L Sbjct: 85 VDLIAEANLGLVIAASRFEPGRGARFSTYAIWWIKAAIHEYILRSWSLVKIGTTAAQKKL 144 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF LR + L P+ IA KL+V+ EVI M+ RL GD SLNA + ++ Sbjct: 145 FFKLRSEIRKATGSVMSGLTPDVAELIAGKLDVTAREVIEMDARLNGDMSLNARVG-GEE 203 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + ++ + LV E +L + E+ + R L ++ L RER +FEARRL E PVTL Sbjct: 204 SGTELEALLVDGAVDAETMLADHEQTERRAKALRVALGGLAARERHVFEARRLTECPVTL 263 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+ E +S ERVRQIE RAF KV+ ++ Sbjct: 264 DQLARELSISSERVRQIEIRAFAKVKRAV 292 >gi|134096067|ref|YP_001101142.1| sigma H factor [Herminiimonas arsenicoxydans] gi|133739970|emb|CAL63021.1| RNA polymerase sigma-32 factor [Herminiimonas arsenicoxydans] Length = 298 Score = 243 bits (620), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 135/285 (47%), Positives = 182/285 (63%), Gaps = 13/285 (4%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 MS+ +G +G + YI + ++PML +EE LAKR R+ DL AA +LV SHLRLVV I Sbjct: 17 MSLGFSGALGNIDAYISAVNRLPMLTHEEEISLAKRLRDDNDLGAAQKLVLSHLRLVVSI 76 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLP ++++ EGNIGLM+AVK+FDP++G RL +YSM WIKA M EYIL++W LV Sbjct: 77 ARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYSMHWIKAEMHEYILKNWRLV 136 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+ TT Q++LFFNLR K L A+T P+QV A+AK LNV EVI M RL+G + Sbjct: 137 KVATTKAQRKLFFNLRSHKTGLDAMT-----PDQVEALAKTLNVKREEVIEMETRLSGRD 191 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM--LTRSMSVLNPRERRI 242 AL +D ++ D QE + + +R +R L+ ++ L+PR RRI Sbjct: 192 I--ALEAPTDDEDDKFAPIAYLSSDSQEPTRVLESQRYDRLQTEGLSSALGKLDPRSRRI 249 Query: 243 FEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 EAR L + TL L++EF VS ER+RQIE A KK++ S+ Sbjct: 250 VEARWLANDDGSGATLHELANEFGVSAERIRQIETVALKKMKGSL 294 >gi|154252145|ref|YP_001412969.1| RNA polymerase sigma-32 subunit RpoH [Parvibaculum lavamentivorans DS-1] gi|154156095|gb|ABS63312.1| RNA polymerase, sigma 32 subunit, RpoH [Parvibaculum lavamentivorans DS-1] Length = 298 Score = 243 bits (620), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 120/283 (42%), Positives = 185/283 (65%), Gaps = 3/283 (1%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 RY+ + +P+L++Q E+ LA+R+++HGD A H L +++RLV+ +A +R YGLP + Sbjct: 15 RYMKQAMTVPLLDEQHEFDLARRWKDHGDEQALHELTCAYMRLVISLATRFRNYGLPYGD 74 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GLMQA +F+PERG R +TY+ WWI+AA+Q+YILR+WS+V+ GTTA K LFF Sbjct: 75 LIQEGNVGLMQAAARFEPERGVRFSTYASWWIRAAIQDYILRNWSIVRTGTTAAHKSLFF 134 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALI--NSSD 194 NLRRL+ + T NL + + IAK+L V S+V +++ RL GD SLNA + ++S Sbjct: 135 NLRRLRALIANGTRQNLTEDDRIFIAKRLGVGASDVATIDARLMTGDRSLNATVSDSTSS 194 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 +N ++WQD L + E+ ++E + K R + ++ LN RE I RRL+++ T Sbjct: 195 ENLTEWQDLLPCERPLPEEEVMENHDSKQRSRWIEGALESLNERELTIIRERRLRDDVAT 254 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 LE L +S+ERVRQIE A KK++ ++ +V + LL Sbjct: 255 LETLGVRLGISKERVRQIEHMALKKLRTALLDKVPDPEAAGLL 297 >gi|88607306|ref|YP_505338.1| RNA polymerase sigma-32 factor [Anaplasma phagocytophilum HZ] gi|88598369|gb|ABD43839.1| RNA polymerase sigma-32 factor [Anaplasma phagocytophilum HZ] Length = 289 Score = 241 bits (615), Expect = 9e-62, Method: Compositional matrix adjust. Identities = 121/270 (44%), Positives = 185/270 (68%), Gaps = 2/270 (0%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L Y+ ++R PML ++EE A+ + ++ ++ AH+LVTSHLRLVVK+AMG+R Y Sbjct: 10 GADDLLAYMEQVRAFPMLTEREEKECAENWHKNRSVADAHKLVTSHLRLVVKVAMGFRSY 69 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GLP+ E++ EGNIGLMQAVKKF+PE GFRL+TY++WWIKA++++YILRSWS ++IGTT Sbjct: 70 GLPLMELIMEGNIGLMQAVKKFNPELGFRLSTYAIWWIKASIKDYILRSWSCMRIGTTQA 129 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 QK+LFF+LR++K + + + + + + AIA++ SE EV SM+ R + ++ Sbjct: 130 QKKLFFSLRKIKRRILGCSASASQSD-IRAIAEECGTSEKEVESMD-RFFSNRDISLSDK 187 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ ++ QD + QE + + EE + M+ ++S L+ R R IF R+L+E+ Sbjct: 188 VCCESGTELQDLIPCSSPNQEVMYLSHEESVMKDQMVKEALSTLDERHRDIFSRRKLKEH 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE LS E+ VS+ER+RQIE ++F KV+ Sbjct: 248 PDTLETLSEEYGVSKERIRQIELQSFSKVR 277 >gi|269958772|ref|YP_003328559.1| RNA polymerase sigma-32 factor [Anaplasma centrale str. Israel] gi|269848601|gb|ACZ49245.1| RNA polymerase sigma-32 factor [Anaplasma centrale str. Israel] Length = 307 Score = 241 bits (614), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 126/275 (45%), Positives = 186/275 (67%), Gaps = 4/275 (1%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L YI ++R P+L ++EE LA+ + G ++ AH+LVTSHLRLVVK+AMG++ Y Sbjct: 28 GSGDLVSYIAQVRTFPVLSEEEEKRLAENWYRRGSVADAHKLVTSHLRLVVKVAMGFKNY 87 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GLP+ E++ EGNIGLMQAVK+F+P+ G RLATY++WWIKA++++YILRSWS +++GTT Sbjct: 88 GLPLMELIMEGNIGLMQAVKRFNPDLGSRLATYAVWWIKASIKDYILRSWSCIRVGTTQA 147 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALI 190 QK+LFF+LR++K L ++ ++V IA++ SE EV M+ A D SLN + Sbjct: 148 QKKLFFSLRKIKKRLLG-CGTSMTQKEVKTIAEECATSEEEVERMDRFFASRDVSLNEPV 206 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + ++S + QD + QE + + EE +++M ++S L+ R R IF RRLQE Sbjct: 207 HG--ESSVELQDLVPSSLPSQEAMYLADEESAIKKSMFDAALSTLDHRHRDIFTRRRLQE 264 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P TLE LS ++ VS+ERVRQIE +A K++ I+ Sbjct: 265 RPDTLEKLSEKYGVSKERVRQIELQALCKIKTFIE 299 >gi|58579073|ref|YP_197285.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] gi|58417699|emb|CAI26903.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] Length = 320 Score = 239 bits (611), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 129/280 (46%), Positives = 191/280 (68%), Gaps = 3/280 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI+ + L YI+E++ +L +EE LAK + EHG ++ AH+LVTSHLRLVVK+A+ Sbjct: 29 SILSLTQDNLMSYINEVQSFQVLSLEEEEKLAKNWYEHGVIADAHKLVTSHLRLVVKVAL 88 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ YGLP+ E++ EGNIGLMQAVKKF+P GFRL+TY++WWIKA++++YIL+SWS +KI Sbjct: 89 SFKNYGLPLIELIMEGNIGLMQAVKKFNPNLGFRLSTYAIWWIKASIKDYILKSWSCIKI 148 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTT Q++LFF+LR++K L NN+ E + IA + + SE EV MN D+S Sbjct: 149 GTTQAQRKLFFSLRKIKKKLLK-YHNNITKEDIKMIANECSTSEQEVEQMNKYFTYRDKS 207 Query: 186 LNALINSS-DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LN ++ S+ +N Q QD + + QE + EE +++++T++++ LN R R IF Sbjct: 208 LNDVVFSNGSQNGVQLQDMIKCEDPNQEDAYLLNEETDIKKSLITQALATLNERHRDIFI 267 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L E P TLE LS ++ +S+ER+RQIE AF KV+ + Sbjct: 268 RRKLIEEPDTLEILSKKYNISKERIRQIETHAFLKVKNFV 307 >gi|58617131|ref|YP_196330.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Gardel] gi|58416743|emb|CAI27856.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Gardel] Length = 319 Score = 239 bits (610), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 129/280 (46%), Positives = 191/280 (68%), Gaps = 3/280 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI+ + L YI+E++ +L +EE LAK + EHG ++ AH+LVTSHLRLVVK+A+ Sbjct: 29 SILSLTQDNLMSYINEVQSFQVLSLEEEEKLAKNWYEHGVIADAHKLVTSHLRLVVKVAL 88 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ YGLP+ E++ EGNIGLMQAVKKF+P GFRL+TY++WWIKA++++YIL+SWS +KI Sbjct: 89 SFKNYGLPLIELIMEGNIGLMQAVKKFNPNLGFRLSTYAIWWIKASIKDYILKSWSCIKI 148 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTT Q++LFF+LR++K L NN+ E + IA + + SE EV MN D+S Sbjct: 149 GTTQAQRKLFFSLRKIKKKLLK-YHNNITKEDIKMIANECSTSEQEVEQMNKYFTYRDKS 207 Query: 186 LNALINSS-DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LN ++ S+ +N Q QD + + QE + EE +++++T++++ LN R R IF Sbjct: 208 LNDVVFSNGSQNGVQLQDMIKCEDPNQEDAYLLNEETDIKKSLITQALATLNERHRDIFI 267 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R+L E P TLE LS ++ +S+ER+RQIE AF KV+ + Sbjct: 268 RRKLIEEPDTLEILSKKYNISKERIRQIETHAFLKVKNFV 307 >gi|57239125|ref|YP_180261.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] gi|57161204|emb|CAH58118.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] Length = 296 Score = 239 bits (610), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 129/277 (46%), Positives = 190/277 (68%), Gaps = 3/277 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI+ + L YI+E++ +L +EE LAK + EHG ++ AH+LVTSHLRLVVK+A+ Sbjct: 5 SILSLTQDNLMSYINEVQSFQVLSLEEEEKLAKNWYEHGVIADAHKLVTSHLRLVVKVAL 64 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ YGLP+ E++ EGNIGLMQAVKKF+P GFRL+TY++WWIKA++++YIL+SWS +KI Sbjct: 65 SFKNYGLPLIELIMEGNIGLMQAVKKFNPNLGFRLSTYAIWWIKASIKDYILKSWSCIKI 124 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTT Q++LFF+LR++K L NN+ E + IA + + SE EV MN D+S Sbjct: 125 GTTQAQRKLFFSLRKIKKKLLKY-HNNITKEDIKMIANECSTSEQEVEQMNKYFTYRDKS 183 Query: 186 LNALINSS-DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LN ++ S+ +N Q QD + + QE + EE +++++T++++ LN R R IF Sbjct: 184 LNDVVFSNGSQNGVQLQDMIKCEDPNQEDAYLLNEETDIKKSLITQALATLNERHRDIFI 243 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+L E P TLE LS ++ +S+ER+RQIE AF KV+ Sbjct: 244 RRKLIEEPDTLEILSKKYNISKERIRQIETHAFLKVK 280 >gi|209965510|ref|YP_002298425.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] gi|209958976|gb|ACI99612.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] Length = 295 Score = 238 bits (607), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 125/273 (45%), Positives = 181/273 (66%), Gaps = 4/273 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 +I K P+L + E+ LAKR+RE GD +A H LV S+ RLVV A +R YGLP+ ++ Sbjct: 16 FIKASMKEPLLSRDHEFDLAKRWRERGDEAALHELVRSYTRLVVATAARFRNYGLPMGDL 75 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLMQA +F+P+R R +TY+ WWI++AMQ+YILR+WS+V+ GTTA QK LFFN Sbjct: 76 VQEGNVGLMQAAARFEPDREVRFSTYAAWWIRSAMQDYILRNWSIVRTGTTAAQKALFFN 135 Query: 139 LRRLKGHLQ-AITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKN 196 LRRL+ ++ + + + L P+ IA++LNV ES+V SM RL A D+SLN+ + ++ Sbjct: 136 LRRLRAKIEDSPSASALSPDGRRRIAEELNVDESDVESMEMRLAAADQSLNSPV--AEGG 193 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 +WQD+L E V+I + + R L ++ L+PRER I RRL+++ TLE Sbjct: 194 DDEWQDFLSDQRPSPEDVVIGMRDGRMRSRWLAEALGELSPRERTIIAQRRLRDDGATLE 253 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 L VS+ERVRQ+E RA K++ S+ ++VE Sbjct: 254 ELGRVLGVSKERVRQLEHRALMKLRASMIRRVE 286 >gi|117925612|ref|YP_866229.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] gi|117609368|gb|ABK44823.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] Length = 290 Score = 238 bits (606), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 127/278 (45%), Positives = 178/278 (64%), Gaps = 10/278 (3%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 M + GE L+ Y+ ++ PML +EE+ LA RYRE DL AAH+LVTS+LR V I Sbjct: 4 TMLVPYKGENQLAGYMQQVDSYPMLSAEEEFELAVRYREQNDLEAAHKLVTSYLRYVASI 63 Query: 65 AMGYRGY-GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 A Y+GY G+ ++V EG++GLMQAVK+FDP +GFRLATY+MWWIKA++QE++L WSL Sbjct: 64 AKEYQGYYGIKFMDLVQEGSVGLMQAVKRFDPHKGFRLATYAMWWIKASIQEFVLHHWSL 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 VKIGTTA Q++LFFNLR+ K L+ L Q + ++ VS V+ M+ RL+G Sbjct: 124 VKIGTTAAQRKLFFNLRKSKDTLE-----RLDATQAEEMGQRFGVSGEAVLEMDARLSGP 178 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D+SLN + + + Q+ L QE L+ E + ++ M+ +++S L+ RE+ I Sbjct: 179 DDSLNRCLV---EGGEEIQNMLADSAPNQEMRLLASESERLQQQMIKQALSFLSEREQMI 235 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 AR + PVTLE L VSRER+RQ+E RA KK+ Sbjct: 236 VRARIMCAEPVTLEVLGERLGVSRERIRQLETRALKKL 273 >gi|225630797|ref|YP_002727588.1| heat shock sigma factor RpoH [Wolbachia sp. wRi] gi|225592778|gb|ACN95797.1| heat shock sigma factor RpoH [Wolbachia sp. wRi] Length = 270 Score = 236 bits (602), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 121/262 (46%), Positives = 182/262 (69%), Gaps = 2/262 (0%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 ML ++EE LAK + ++ D+S+AH+L+TSHL LVVKIAM ++ YGL + ++V EGN+GLM Sbjct: 1 MLSQEEEVRLAKNWNQYKDVSSAHKLITSHLNLVVKIAMKFKNYGLLLMDLVMEGNMGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-L 146 AVKKF+P+ GFR +TY++WWI+A+++++IL+SWS VKIGTT Q+RLFF+LR++K L Sbjct: 61 HAVKKFNPDLGFRFSTYAVWWIEASIKDFILKSWSFVKIGTTQAQRRLFFSLRKIKKRIL 120 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 Q L E++ AI+ +L+VSE +V+ MN R+A D+SLN I D + + QD + Sbjct: 121 QYTNRETLNNEEIKAISNELSVSEGDVLQMNYRMACKDQSLNDCIKIGDDSKRELQDMIP 180 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 + QE EE++ + +L +++ LN R R IF +R L EN TL+ LS ++ VS Sbjct: 181 CNLVSQEVTYQNHEEKELKEAILNNALASLNERARDIFISRYLSENIQTLDELSKKYCVS 240 Query: 266 RERVRQIEARAFKKVQESIQKQ 287 RER+RQ+ +A KV++ IQ + Sbjct: 241 RERIRQLAEQAMAKVKQYIQSE 262 >gi|256061796|ref|ZP_05451931.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] Length = 311 Score = 233 bits (595), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEAAARFDPDRDVRFSTYAFWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S++ M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDIEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|189024846|ref|YP_001935614.1| RNA polymerase factor sigma-32 [Brucella abortus S19] gi|189020418|gb|ACD73140.1| Sigma-70 factor family [Brucella abortus S19] Length = 306 Score = 233 bits (594), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 37 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 96 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 97 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 156 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 157 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 216 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 217 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 276 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 277 KERVRQIESRAMEKLKIALLSQHELAA 303 >gi|261325797|ref|ZP_05964994.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261301777|gb|EEY05274.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] Length = 293 Score = 233 bits (594), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 24 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 83 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 84 LEAAARFDPDRDVRFSTYAFWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 143 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S++ M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 144 AQTDDNMTKAEIYREISDQLGVSTSDIEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 203 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 204 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 263 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 264 KERVRQIESRAMEKLKIALLSQHELAA 290 >gi|254694416|ref|ZP_05156244.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] Length = 311 Score = 233 bits (594), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|62290634|ref|YP_222427.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 1 str. 9-941] gi|82700548|ref|YP_415122.1| RNA polymerase factor sigma-32 [Brucella melitensis biovar Abortus 2308] gi|148559493|ref|YP_001259609.1| RNA polymerase factor sigma-32 [Brucella ovis ATCC 25840] gi|254689924|ref|ZP_05153178.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|254700417|ref|ZP_05162245.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|254719758|ref|ZP_05181569.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|254730958|ref|ZP_05189536.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|256258178|ref|ZP_05463714.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|256370169|ref|YP_003107680.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] gi|260547128|ref|ZP_05822866.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|297249027|ref|ZP_06932735.1| RNA polymerase sigma-32 factor [Brucella abortus bv. 5 str. B3196] gi|306839453|ref|ZP_07472261.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. NF 2653] gi|62196766|gb|AAX75066.1| RNA polymerase sigma-70 factor family protein [Brucella abortus bv. 1 str. 9-941] gi|82616649|emb|CAJ11731.1| Sigma-70 factor family:Sigma-70 region 2:Sigma-70 region 4 [Brucella melitensis biovar Abortus 2308] gi|148370750|gb|ABQ60729.1| RNA polymerase sigma-70 factor family protein [Brucella ovis ATCC 25840] gi|256000332|gb|ACU48731.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] gi|260095493|gb|EEW79371.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|297174160|gb|EFH33517.1| RNA polymerase sigma-32 factor [Brucella abortus bv. 5 str. B3196] gi|306405398|gb|EFM61669.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. NF 2653] Length = 311 Score = 233 bits (594), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|260755457|ref|ZP_05867805.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260758679|ref|ZP_05871027.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260884475|ref|ZP_05896089.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|261214728|ref|ZP_05929009.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|261750913|ref|ZP_05994622.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|265984775|ref|ZP_06097510.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|294851008|ref|ZP_06791684.1| RNA polymerase sigma-32 factor [Brucella sp. NVSL 07-0026] gi|260668997|gb|EEX55937.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260675565|gb|EEX62386.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260874003|gb|EEX81072.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|260916335|gb|EEX83196.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|261740666|gb|EEY28592.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|264663367|gb|EEZ33628.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|294821651|gb|EFG38647.1| RNA polymerase sigma-32 factor [Brucella sp. NVSL 07-0026] Length = 293 Score = 233 bits (593), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 24 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 83 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 84 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 143 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 144 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 203 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 204 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 263 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 264 KERVRQIESRAMEKLKIALLSQHELAA 290 >gi|306844750|ref|ZP_07477335.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. BO1] gi|306274922|gb|EFM56692.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. BO1] Length = 311 Score = 233 bits (593), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEESGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|23502620|ref|NP_698747.1| RNA polymerase factor sigma-32 [Brucella suis 1330] gi|161619688|ref|YP_001593575.1| RNA polymerase factor sigma-32 [Brucella canis ATCC 23365] gi|254703536|ref|ZP_05165364.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|260568841|ref|ZP_05839309.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|23348625|gb|AAN30662.1| RNA polymerase sigma-70 factor family protein [Brucella suis 1330] gi|161336499|gb|ABX62804.1| RNA polymerase sigma factor, sigma-70 family [Brucella canis ATCC 23365] gi|260154225|gb|EEW89307.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] Length = 311 Score = 233 bits (593), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNCWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|237816135|ref|ZP_04595131.1| RNA polymerase sigma factor, sigma-70 family [Brucella abortus str. 2308 A] gi|237788798|gb|EEP63010.1| RNA polymerase sigma factor, sigma-70 family [Brucella abortus str. 2308 A] Length = 319 Score = 233 bits (593), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 50 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 109 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 110 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 169 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 170 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 229 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 230 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 289 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 290 KERVRQIESRAMEKLKIALLSQHELAA 316 >gi|261754167|ref|ZP_05997876.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261743920|gb|EEY31846.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] Length = 293 Score = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 180/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 24 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 83 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 84 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 143 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 144 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 203 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 204 DDHPLQDEIAESSIDMERRNCWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 263 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 264 KERVRQIESRAMEKLKIALLSQHELAA 290 >gi|152980759|ref|YP_001354832.1| RNA polymerase sigma-32 factor [Janthinobacterium sp. Marseille] gi|151280836|gb|ABR89246.1| RNA polymerase sigma-32 factor [Janthinobacterium sp. Marseille] Length = 298 Score = 232 bits (592), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 182/288 (63%), Gaps = 11/288 (3%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N +++ +G +G + YI + ++PML +EE LA+R R+ DL AA +LV SHLRL Sbjct: 13 NSNMLALGFSGALGNIDAYISAVNRLPMLTHEEEMSLARRLRDENDLGAAQKLVLSHLRL 72 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA GY GYGLP ++++ EGNIGLM+AVK+FDP++G RL +YSM WIKA M EYIL++ Sbjct: 73 VVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYSMHWIKAEMHEYILKN 132 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVK+ TT Q++LFFNLR K L ++T P+QV +AK LNV EVI M RL Sbjct: 133 WRLVKVATTKAQRKLFFNLRSHKTGLDSMT-----PDQVDELAKTLNVKREEVIEMETRL 187 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 +G D +L A + D + +L D +VL ++ + + L+ ++ L+ R Sbjct: 188 SGRDIALEAPTDDEDDKFAPIA-YLSSDMQEPTKVLESQQFDRLQTEGLSNALGKLDARS 246 Query: 240 RRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRI EAR L + TL L+ EF VS ER+RQIEA A KK++ S+ Sbjct: 247 RRIVEARWLANDDGSGATLHELADEFGVSAERIRQIEAVALKKMKGSL 294 >gi|77919976|ref|YP_357791.1| RNA polymerase, sigma (32) factor [Pelobacter carbinolicus DSM 2380] gi|77546059|gb|ABA89621.1| RNA polymerase, sigma 32 subunit, RpoH [Pelobacter carbinolicus DSM 2380] Length = 286 Score = 231 bits (590), Expect = 8e-59, Method: Compositional matrix adjust. Identities = 127/295 (43%), Positives = 196/295 (66%), Gaps = 15/295 (5%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ + V+ + LS YI +IR +L K+EE+ L + Y + ++ AA +L+ ++LR VVKI Sbjct: 3 NLPLPVSSD-NLSLYIAQIRAFELLTKEEEFRLTQDYHRNQNIEAAQQLICANLRFVVKI 61 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A YRGYGL + +++ EGNIGLM+AVKKFDP+RG R TY++WWI+A + +I+R+WSLV Sbjct: 62 AHEYRGYGLKLLDIIQEGNIGLMKAVKKFDPDRGLRFITYAVWWIRAYIHNFIIRNWSLV 121 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 KIGTT QK+LFF L +++ +Q +T + E AIA++LNV + EV M R+AG D Sbjct: 122 KIGTTQAQKKLFFKLNQVRSAIQRMTGS----EDTKAIARELNVRDDEVEDMARRMAGRD 177 Query: 184 ESLNA-LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SL+ L+ D D L + + QE++LI+++E++ + + ++ LN RERRI Sbjct: 178 TSLDMRLVEGEDFT---LLDSLADERESQEELLIKQQEKQITTSHIHGALQELNDRERRI 234 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 E R LQE P TL+ L+ +F +SRERVRQ+E A +K+++++ +++P LL Sbjct: 235 VEERILQEEPRTLQALADDFGISRERVRQLEKNALEKIRKTLT-----ANAPCLL 284 >gi|254708375|ref|ZP_05170203.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|254708771|ref|ZP_05170582.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|254714614|ref|ZP_05176425.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|254717512|ref|ZP_05179323.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|256030297|ref|ZP_05443911.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|256160470|ref|ZP_05458159.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|256255677|ref|ZP_05461213.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260167971|ref|ZP_05754782.1| RNA polymerase factor sigma-32 [Brucella sp. F5/99] gi|261757411|ref|ZP_06001120.1| sigma-70 factor family [Brucella sp. F5/99] gi|261737395|gb|EEY25391.1| sigma-70 factor family [Brucella sp. F5/99] Length = 311 Score = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+ +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSVPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|261219345|ref|ZP_05933626.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261222881|ref|ZP_05937162.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|261315875|ref|ZP_05955072.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261316262|ref|ZP_05955459.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261322406|ref|ZP_05961603.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|265987326|ref|ZP_06099883.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|265998840|ref|ZP_06111397.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|260921465|gb|EEX88118.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260924434|gb|EEX91002.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261295096|gb|EEX98592.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261295485|gb|EEX98981.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261304901|gb|EEY08398.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|262553529|gb|EEZ09298.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|264659523|gb|EEZ29784.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] Length = 293 Score = 231 bits (588), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 24 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 83 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 84 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 143 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+ +N + +S+ D+LV Sbjct: 144 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSVPMNGEETGASRRMDFLV 203 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 204 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 263 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 264 KERVRQIESRAMEKLKIALLSQHELAA 290 >gi|225628325|ref|ZP_03786359.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella ceti str. Cudo] gi|225616171|gb|EEH13219.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella ceti str. Cudo] Length = 278 Score = 231 bits (588), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 9 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 68 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 69 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+ +N + +S+ D+LV Sbjct: 129 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSVPMNGEETGASRRMDFLV 188 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 189 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 248 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 249 KERVRQIESRAMEKLKIALLSQHELAA 275 >gi|256114330|ref|ZP_05455068.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] Length = 311 Score = 230 bits (586), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEEAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKVLFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|225853213|ref|YP_002733446.1| RNA polymerase factor sigma-32 [Brucella melitensis ATCC 23457] gi|256263296|ref|ZP_05465828.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|225641578|gb|ACO01492.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella melitensis ATCC 23457] gi|263093265|gb|EEZ17362.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|326409772|gb|ADZ66837.1| RNA polymerase factor sigma-32 [Brucella melitensis M28] Length = 311 Score = 230 bits (586), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEEAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKVLFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|265995632|ref|ZP_06108189.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|262766916|gb|EEZ12534.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] Length = 293 Score = 230 bits (586), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 24 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 83 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 84 LEEAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKVLFFNLRRLRSKL 143 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 144 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 203 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 204 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 263 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 264 KERVRQIESRAMEKLKIALLSQHELAA 290 >gi|326539488|gb|ADZ87703.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella melitensis M5-90] Length = 293 Score = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 24 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 83 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 84 LEEAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKVLFFNLRRLRSKL 143 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 144 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 203 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 204 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 263 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 264 KERVRQIESRAMEKLKIALLSQHELAA 290 >gi|88608622|ref|YP_506230.1| RNA polymerase sigma-32 factor [Neorickettsia sennetsu str. Miyayama] gi|88600791|gb|ABD46259.1| RNA polymerase sigma-32 factor [Neorickettsia sennetsu str. Miyayama] Length = 288 Score = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 125/273 (45%), Positives = 182/273 (66%), Gaps = 11/273 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y +I IP+L+++EE L R+ H D+SAA RLV ++LRLVVK+ + +R YG P+ ++ Sbjct: 16 YARKILAIPILQEEEERELIDRWFVHRDISAAQRLVEAYLRLVVKVTVRFRNYGFPLMDL 75 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 SEGNIGLM+A+K F+P G +ATY++WWIKAA+ EY++RSWS+VKIGTTA Q+RLFFN Sbjct: 76 ASEGNIGLMKAIKNFNPTLGHGIATYAIWWIKAAINEYVIRSWSMVKIGTTAAQRRLFFN 135 Query: 139 LRRLK--GHLQAITDNNL--KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LR+LK G + + +N + + +++A++K +V E E I +N R D SLN + D Sbjct: 136 LRKLKNSGSVAGLDENQVVKRISEILAVSKN-DVEEMERI-LNAR---DVSLNMQLGEDD 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 SS+ D + + QE VL+E +ER+ + +L ++ L R + IF AR L P T Sbjct: 191 --SSEVHDLVPFPEANQEAVLLETQERQMKSQLLYEAVEALEARHKEIFVARSLSAVPRT 248 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L+ L +F +S+ERVRQI ARA KKV E ++K Sbjct: 249 LKELGEKFSISQERVRQIHARAMKKVTEYVEKH 281 >gi|329910210|ref|ZP_08275256.1| RNA polymerase sigma factor RpoH [Oxalobacteraceae bacterium IMCC9480] gi|327546240|gb|EGF31276.1| RNA polymerase sigma factor RpoH [Oxalobacteraceae bacterium IMCC9480] Length = 298 Score = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 128/284 (45%), Positives = 182/284 (64%), Gaps = 11/284 (3%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +++ G +G + YI + ++PML +EE LA+R R+ DL AA +V SHLRLVV I Sbjct: 17 LALGFTGTLGNIDSYISAVNRLPMLTHEEEMSLARRLRDQNDLGAAQGMVLSHLRLVVSI 76 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLP ++++ EGNIGLM+AVK+FDP++G RL +Y+M WIKA M EYIL++W LV Sbjct: 77 ARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHWIKAEMHEYILKNWRLV 136 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 K+ TT Q++LFFNLR K L ++T P QV A+A+ LNV EVI M RL+G D Sbjct: 137 KVATTKAQRKLFFNLRSHKTGLDSMT-----PAQVEALAQTLNVKREEVIEMETRLSGRD 191 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +L A + D + +L D + VL ++ + + + L+++++ L+ R RRI Sbjct: 192 IALEAPTDDEDDKFAPIA-YLSSDRNEPTNVLEAQQYDRLQSDGLSQALNKLDERSRRIV 250 Query: 244 EARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 EAR L + TL L+ EF VS ER+RQIEA A KK++ S+ Sbjct: 251 EARWLANDDGSGATLHELAKEFGVSAERIRQIEAVALKKMKGSL 294 >gi|95929333|ref|ZP_01312076.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfuromonas acetoxidans DSM 684] gi|95134449|gb|EAT16105.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfuromonas acetoxidans DSM 684] Length = 282 Score = 229 bits (584), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 123/279 (44%), Positives = 188/279 (67%), Gaps = 12/279 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ ++++G Y+ +I + L+++ EY LA RYR++ DL AAH+LV ++LR VVKI Sbjct: 3 NLPLVIDG---FDHYMAQISQFEPLDRETEYELANRYRKNNDLDAAHKLVCANLRFVVKI 59 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y+ YGL + ++V EGNIGLM+A+KKFDP+R RL +Y++WWI+A + YI+ +WSLV Sbjct: 60 AYEYQAYGLKMIDLVQEGNIGLMKAIKKFDPDRNIRLISYAVWWIRAYIHNYIINAWSLV 119 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 KIGTT +K+LFF L++ + LQ + ++ E IA++LNVS EV M+ RL G D Sbjct: 120 KIGTTQARKKLFFKLKQTRDALQKMGNDADHAE----IARQLNVSTDEVAEMSVRLGGRD 175 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SL+ + + D +S D LV DHD QEQ LIE E + + +++S LN RE+ I Sbjct: 176 SSLDGQL-TPDSTTSHL-DTLV-DHDKDQEQRLIELEHESLTTHRVQQALSHLNEREQHI 232 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +R LQ++ TL++L+ ++ +S+ERVRQ+E RA +K++ Sbjct: 233 VHSRILQDDKATLQDLADQYGISKERVRQLEKRALEKLK 271 >gi|78224050|ref|YP_385797.1| sigma 32 (RpoH) [Geobacter metallireducens GS-15] gi|78195305|gb|ABB33072.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter metallireducens GS-15] Length = 279 Score = 229 bits (583), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 117/277 (42%), Positives = 178/277 (64%), Gaps = 9/277 (3%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ ++ + + Y+ EIRK P+L +EE++ A ++ E DL AAHRL+T++LR VVK+ Sbjct: 4 NLPVVADS---FTLYLAEIRKFPVLTPEEEHLYAVKFYEEKDLEAAHRLITANLRFVVKV 60 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y+ YG+ + +++ EGNIGLM AV+KFDP +G RL +Y++WWI+A +Q YI+ +WSL+ Sbjct: 61 AAEYKSYGMKMLDLIQEGNIGLMMAVRKFDPHKGIRLISYAVWWIRAYIQNYIISAWSLL 120 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTT QK+LFF L + K ++ +T + A A L+V ESEVI M+ R+ GD Sbjct: 121 KIGTTQAQKKLFFKLNQAKNAIRRLTGGD----DTEATALSLHVKESEVIEMDQRMRGDY 176 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL+A + D D LV + QE+ L E++E +T+++ LN +ER + E Sbjct: 177 SLDAEL--VDGEGLTMLDTLVDERQNQEEALAEQQEASRLHGQVTQALERLNEKERYVVE 234 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + P+TL+ ++ F +SRERVRQIE A KK++ Sbjct: 235 NRVTADEPLTLQEIADHFAISRERVRQIEEGALKKIK 271 >gi|291613119|ref|YP_003523276.1| RNA polymerase, sigma 32 subunit, RpoH [Sideroxydans lithotrophicus ES-1] gi|291583231|gb|ADE10889.1| RNA polymerase, sigma 32 subunit, RpoH [Sideroxydans lithotrophicus ES-1] Length = 289 Score = 229 bits (583), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 120/282 (42%), Positives = 183/282 (64%), Gaps = 10/282 (3%) Query: 5 NMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +MS+ + +G L Y+ + + P+L +EE LA R++ H DL AA +LV SHLR+VV Sbjct: 4 SMSLPIPSAVGSLESYVQAVNRFPVLSHEEELSLANRFKAHNDLDAARQLVLSHLRVVVS 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +A GY GYGLP ++++ EGNIGLM+AVK++D RG RL ++++ WI+A + EY++R+W L Sbjct: 64 VARGYAGYGLPQADLIQEGNIGLMKAVKRYDATRGVRLVSFALHWIRAEIHEYVVRNWRL 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VKI TT +Q++LFFNLR +K L+ LKP+QV IA++LNVSE +V+ M R AG Sbjct: 124 VKIATTKSQRKLFFNLRSMKQGLEP-----LKPQQVREIAQQLNVSERDVVEMEARFAGH 178 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRI 242 E ++ + S +L + + + ++E ER++ L ++++ L+ R RRI Sbjct: 179 EVALEPLSGEEDESYAPISYLADNAEHEPSYILEAAEREHLHTAGLAQALASLDERSRRI 238 Query: 243 FEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 EAR L +E+ TL L+ EF+VS ER+RQIE +A K+Q Sbjct: 239 VEARWLRDEEEHAATLHELADEFKVSAERIRQIEQKALSKMQ 280 >gi|265991792|ref|ZP_06104349.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|263002748|gb|EEZ15151.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] Length = 293 Score = 229 bits (583), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 115/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 24 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 83 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 84 LEEAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKVLFFNLRRLRSKL 143 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 144 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSASMNGEETGASRRMDFLV 203 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 204 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 263 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 ++RVRQIE+RA +K++ ++ Q EL++ Sbjct: 264 KQRVRQIESRAMEKLKIALLSQHELAA 290 >gi|256045366|ref|ZP_05448260.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|260565741|ref|ZP_05836224.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260151114|gb|EEW86209.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] Length = 311 Score = 229 bits (583), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 115/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEEAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKVLFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSASMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 ++RVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KQRVRQIESRAMEKLKIALLSQHELAA 308 >gi|163845340|ref|YP_001622995.1| RNA polymerase factor sigma-32 [Brucella suis ATCC 23445] gi|163676063|gb|ABY40173.1| RNA polymerase sigma factor, sigma-70 family [Brucella suis ATCC 23445] Length = 311 Score = 228 bits (582), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 178/267 (66%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV +A +R + LP+S+++ EG +GL Sbjct: 42 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVTSMAGRFRKFKLPMSDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNL RL+ L Sbjct: 102 LEAAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLCRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 162 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNCWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|17986563|ref|NP_539197.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. 16M] gi|17982171|gb|AAL51461.1| RNA polymerase sigma-32 factor [Brucella melitensis bv. 1 str. 16M] Length = 319 Score = 228 bits (582), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 115/267 (43%), Positives = 179/267 (67%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 50 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 109 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ +FDP+R R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 110 LEEAARFDPDRDVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKVLFFNLRRLRSKL 169 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV Sbjct: 170 AQTDDNMTKAEIYREISDQLGVSTSDVEFMDSRLSGPDSSLSASMNGEETGASRRMDFLV 229 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R LTR++ LN RE I RRL ++ VTLE L + +S Sbjct: 230 DDHPLQDEIAESSIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 289 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 ++RVRQIE+RA +K++ ++ Q EL++ Sbjct: 290 KQRVRQIESRAMEKLKIALLSQHELAA 316 >gi|257095687|ref|YP_003169328.1| RNA polymerase sigma-32 subunit RpoH [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257048211|gb|ACV37399.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 286 Score = 228 bits (582), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 122/275 (44%), Positives = 175/275 (63%), Gaps = 9/275 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + YI R+ PML ++EE+ LA R+R+ DL AA +LV SHLRLV+ IA GY GYGLP Sbjct: 16 IDAYIQAARQFPMLTQEEEFRLATRFRDDSDLDAARQLVLSHLRLVISIARGYLGYGLPH 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+L++W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKRFDPAHGVRLVSFAIHWIKAEIHEYVLKNWRMVKLATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K + +A L P QV IA +L+V EV M RL G + AL SD Sbjct: 136 FFNLRSMKANSEA-----LSPGQVTDIAHRLSVKPEEVSEMEARLTGHDL--ALDGDSDD 188 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRL-QENPV 253 + + DH + ++E R+ N L +++ L+PR RRI EAR L E+P Sbjct: 189 DEVFAPISYLADHSSEPVHVLEARARERLHNEGLQGALASLDPRSRRIVEARWLTDESPA 248 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL L++EF VS ER+RQ+E +A +K++ S+ V Sbjct: 249 TLHELAAEFGVSAERIRQVEVKAMQKMRASLAPLV 283 >gi|302877701|ref|YP_003846265.1| RNA polymerase, sigma 32 subunit, RpoH [Gallionella capsiferriformans ES-2] gi|302580490|gb|ADL54501.1| RNA polymerase, sigma 32 subunit, RpoH [Gallionella capsiferriformans ES-2] Length = 284 Score = 228 bits (581), Expect = 9e-58, Method: Compositional matrix adjust. Identities = 120/268 (44%), Positives = 176/268 (65%), Gaps = 7/268 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YIH +R+ +L ++EE+ LA R+R DL AA +LV SHLR+VV +A GY GYGLP Sbjct: 16 LDSYIHLVRRYAVLSQEEEFDLATRFRNDNDLDAARQLVLSHLRVVVSVARGYAGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK +DPE G RL ++++ WI+A + E+++R+W +VKI TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKHYDPEFGVRLVSFALHWIRAEINEFVVRNWRMVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR LK L++ LKP+Q+ IA++LNVSE +VI M R AG E S D Sbjct: 136 FFNLRSLKQGLES-----LKPKQISEIAEQLNVSEHDVIEMEARFAGHEVALDPAGSDDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENP-V 253 ++ +L + + ++E E + R L R+++ L+ R RRI EAR L E+ Sbjct: 191 DTYAPIQYLADSEEHEPSNILESSEGLSLRTQGLARALASLDDRSRRIVEARWLSEDQNA 250 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL +L++EF+VS ER+RQIE +A K+ Sbjct: 251 TLHDLAAEFKVSAERIRQIEQKAMSKMH 278 >gi|86747323|ref|YP_483819.1| sigma 32 (RpoH) [Rhodopseudomonas palustris HaA2] gi|86570351|gb|ABD04908.1| sigma 32 (RpoH) [Rhodopseudomonas palustris HaA2] Length = 329 Score = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 118/270 (43%), Positives = 166/270 (61%), Gaps = 1/270 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ I + P+LE EE L +R+ +H D +AA L+TSHLRL K+A +R YG P+ ++ Sbjct: 25 YMRAIGRYPVLEPDEEARLWQRWLQHRDKAAADALITSHLRLAAKLARDFRRYGFPLGDL 84 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 ++E N+GLM A+ +FDPERG R +T ++WWI++A+ ++I+RSWSLV+IG T QK+LFF Sbjct: 85 IAEANLGLMMALDRFDPERGARFSTCAVWWIRSAIYDHIIRSWSLVRIGRTPAQKKLFFR 144 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR LQ L E I+ L+V EVI M RL+GD SLN ++ D+ S Sbjct: 145 LRGEIRRLQPDHHGTLTKELAEQISATLDVPLREVIEMEQRLSGDRSLNTPLSDLDE-SG 203 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 +WQD + D E VL +E ++R L ++ L+ RER IF AR L E P + E + Sbjct: 204 EWQDLIADDAPNAEAVLAGHDELDHQRRALQDALVQLDARERYIFSARHLGERPASFETI 263 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +S ERVRQIEARAF KV S ++ Sbjct: 264 GQSLSISAERVRQIEARAFAKVANSARRTC 293 >gi|307943602|ref|ZP_07658946.1| RNA polymerase sigma-32 factor [Roseibium sp. TrichSKD4] gi|307773232|gb|EFO32449.1| RNA polymerase sigma-32 factor [Roseibium sp. TrichSKD4] Length = 291 Score = 225 bits (574), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 114/265 (43%), Positives = 179/265 (67%), Gaps = 9/265 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P L ++EE+ LA R+R++ D A +L SH RLV+ +A +R +GLP+ +++ EG++ Sbjct: 17 KAPYLTREEEHDLAVRWRDNRDEKALEKLSLSHTRLVISVASKFRNFGLPLGDLIQEGHV 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK- 143 GL++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ Sbjct: 77 GLLEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRA 136 Query: 144 ---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 G+ Q +TD+ L + IA + V ++V +MN RL+G D SLNA + S+ +SS Sbjct: 137 KLSGNQQNLTDSELHQK----IADAIGVKPADVATMNARLSGPDTSLNAPVTDSEGSSSD 192 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 QD+LV D + ++ E + + RR L +M+VL RE +I RRL E TLE+L Sbjct: 193 RQDFLVSDAPQPDDIVSESIDTERRRKWLASAMTVLTDRELKIVRERRLTEEGATLESLG 252 Query: 260 SEFEVSRERVRQIEARAFKKVQESI 284 + +S+ERVRQIE+RA +K++ ++ Sbjct: 253 QKLGISKERVRQIESRAMEKLKTAL 277 >gi|300313436|ref|YP_003777528.1| RNA polymerase sigma-32 factor protein [Herbaspirillum seropedicae SmR1] gi|300076221|gb|ADJ65620.1| RNA polymerase sigma-32 factor protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 225 bits (573), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 128/285 (44%), Positives = 180/285 (63%), Gaps = 11/285 (3%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +++ +G +G + YI + ++PML +EE LA+ RE DL AA ++V SHLRLVV I Sbjct: 18 LALGFSGSLGNIDAYISAVNRLPMLTHEEEVKLARDLREKNDLGAAQKMVLSHLRLVVSI 77 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLP ++++ EGNIGLM+AVK+FDP + RL +Y+M WIKA + EYIL++W LV Sbjct: 78 ARGYLGYGLPHADLIQEGNIGLMKAVKRFDPAQNVRLVSYAMHWIKAEIHEYILKNWRLV 137 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 K+ TT Q++LFFNLR K L A+T P QV A+AK L+V EVI M RL+G D Sbjct: 138 KVATTKAQRKLFFNLRSHKEGLDAMT-----PAQVEALAKTLDVKREEVIEMETRLSGRD 192 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +L + + D + +L D+ +V+ K+ + + L ++S L+ R RRI Sbjct: 193 IALESPTDDEDDKFAPIA-YLSSDNSEPTRVIEAKQYDRLQSEGLEAALSKLDERSRRIV 251 Query: 244 EARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 EAR L + TL L+ EF VS ER+RQIEA A KK++ S+Q Sbjct: 252 EARWLANDDGSGATLHELADEFGVSAERIRQIEAVALKKMKTSLQ 296 >gi|297539272|ref|YP_003675041.1| RNA polymerase sigma-32 subunit RpoH [Methylotenera sp. 301] gi|297258619|gb|ADI30464.1| RNA polymerase, sigma 32 subunit, RpoH [Methylotenera sp. 301] Length = 285 Score = 225 bits (573), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 127/277 (45%), Positives = 171/277 (61%), Gaps = 11/277 (3%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ L Y I+ P+L +EEY LA ++R DL AA +L+ SHLRLV IA GY Sbjct: 9 VLTASDSLEHYSRVIKAYPVLSAEEEYSLAVKFRADNDLEAARQLIVSHLRLVASIARGY 68 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGLP S+++ EGNIGLM+AVK+FDPERG RL +++M WIKA M EYI+R+W +VKI T Sbjct: 69 NGYGLPQSDLIQEGNIGLMKAVKRFDPERGVRLVSFAMHWIKAEMHEYIVRNWRMVKIAT 128 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLN 187 T Q++LFFNLR +K L N+L+P +V IAK+LNV EV+ M RL G E SL Sbjct: 129 TKAQRKLFFNLRSMKTGL-----NSLQPAEVAHIAKELNVKPEEVLEMEARLNGHEISLE 183 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQE--QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 A N D + Q+ +G E + L K+ L ++ L+ R RR+ EA Sbjct: 184 A--NIDDDSDEQYSPIAYLPDEGLEPLEALESKQIEIAETTGLANALQNLDDRSRRVVEA 241 Query: 246 RRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R LQ+ TL L+ EF VS ER+RQIE +A +K++ Sbjct: 242 RWLQDQGGKTLHELADEFGVSAERIRQIEQKAMQKMK 278 >gi|153008471|ref|YP_001369686.1| RNA polymerase factor sigma-32 [Ochrobactrum anthropi ATCC 49188] gi|151560359|gb|ABS13857.1| RNA polymerase, sigma 32 subunit, RpoH [Ochrobactrum anthropi ATCC 49188] Length = 311 Score = 224 bits (572), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 114/267 (42%), Positives = 178/267 (66%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+++++ EG +GL Sbjct: 42 PYLEREEERALAIRWKELKDQDALHRITSAHMRLVISMAGRFRKFKLPMNDLIQEGYVGL 101 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDPER R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 102 LEAAARFDPEREVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 DN K E I+ +L VS S+V M+ RL+G D SL+A +N+ + + + D+LV Sbjct: 162 AQSDDNMTKAEMYREISDQLGVSTSDVEIMDSRLSGPDSSLSAPVNNEESGAVRRMDFLV 221 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R L ++ LN RE I RRL ++ VTLE L + +S Sbjct: 222 DDHPLQDEIAESSIDMERRNQWLNVALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 281 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 282 KERVRQIESRAMEKLKIALLSQHELAA 308 >gi|30248598|ref|NP_840668.1| RNA polymerase factor sigma-32 [Nitrosomonas europaea ATCC 19718] gi|30180193|emb|CAD84495.1| Sigma-70 factor family [Nitrosomonas europaea ATCC 19718] Length = 280 Score = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 126/281 (44%), Positives = 178/281 (63%), Gaps = 9/281 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M++ V L YI P+L ++EE LAKR RE GD++AAH+LV SHLR+VV IA Sbjct: 5 MALPVMAGGDLDSYIRATSSFPVLSREEEASLAKRMREEGDVNAAHQLVLSHLRVVVTIA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AV++FDPERG RL ++++ WI+A + E+I+R+W LVK Sbjct: 65 RGYLGYGLPHADLIQEGNIGLMKAVRRFDPERGVRLISFAIHWIRAEIHEFIMRNWRLVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 I TT Q++LFFNLR +K L + + +V ++A++L V EV+ M R +G D Sbjct: 125 IATTKQQRKLFFNLRSMKKGL-----DTMSQAEVASMAEQLGVKAEEVVEMETRFSGRDI 179 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL + +S + + S WL D ++ E+ ER L S+ L+ R RRI E Sbjct: 180 SLEPVTDSDEDDFSPIA-WLTDGSDPSRELEKEQLERLTHAR-LKNSLDSLDERSRRIIE 237 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L+E+ TL L+ E VS ERVRQIEA+A KK++ I Sbjct: 238 ARWLREDKAATLHELADELGVSAERVRQIEAKAMKKMRAEI 278 >gi|239832848|ref|ZP_04681177.1| RNA polymerase sigma factor, sigma-70 family [Ochrobactrum intermedium LMG 3301] gi|239825115|gb|EEQ96683.1| RNA polymerase sigma factor, sigma-70 family [Ochrobactrum intermedium LMG 3301] Length = 278 Score = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 178/267 (66%), Gaps = 1/267 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R+RE D A HR+ ++H+RLV+ +A +R + LP+++++ EG +GL Sbjct: 9 PYLEREEERDLAIRWRELKDQEALHRITSAHMRLVISMAGRFRKFKLPMNDLIQEGYVGL 68 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDPER R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 69 LEAAARFDPEREVRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKL 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 D K E I+ +L VS S+V M+ RL+G D SL+A +NS + +S+ D+LV Sbjct: 129 AQSDDTMSKAEIYREISDQLGVSTSDVEIMDSRLSGPDSSLSAPVNSEESGASRRMDFLV 188 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH Q+++ + + R L ++ LN RE I RRL ++ VTLE L + +S Sbjct: 189 DDHPLQDEIAESSIDMERRNQWLNVALDTLNERELHIIRERRLDDDGVTLEALGEKLGIS 248 Query: 266 RERVRQIEARAFKKVQESIQKQVELSS 292 +ERVRQIE+RA +K++ ++ Q EL++ Sbjct: 249 KERVRQIESRAMEKLKIALLSQHELAA 275 >gi|5911381|gb|AAD55771.1|AF177466_1 sigma-32 factor RpoH [Methylovorus sp. SS1] Length = 284 Score = 224 bits (570), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 119/270 (44%), Positives = 174/270 (64%), Gaps = 11/270 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ I+ P+L +EEY LA R R+ D+ AA L+ SHLRLV IA GY GYGLP Sbjct: 16 LDQYLRTIKAFPVLSVEEEYDLATRLRKGTDIEAAKGLIVSHLRLVASIARGYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AV++FDP+RG RL +++M WIKA + EYI+R+W LVK+ TT Q++L Sbjct: 76 ADLIQEGNVGLMKAVRRFDPDRGVRLVSFAMHWIKAEIHEYIVRNWRLVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K + + L P +V IA++L V EV+ M R+ G E +L +SD Sbjct: 136 FFNLRSMKKN-----SHTLSPAEVADIARELRVKPEEVVEMESRMGGHEI--SLEGNSDD 188 Query: 196 NSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-N 251 ++ + Y D Q ++L E+E N+ L ++ L+ R RRI +AR LQE N Sbjct: 189 DTEDNFSPIAYLEDQQPEPSELLAEREAEHNQTVGLAHALESLDERSRRIVQARWLQENN 248 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL +L++EF VS ER+RQIE +A +K++ Sbjct: 249 SATLHDLAAEFGVSAERIRQIEQKAMQKMK 278 >gi|118594538|ref|ZP_01551885.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] gi|118440316|gb|EAV46943.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] Length = 286 Score = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 127/268 (47%), Positives = 172/268 (64%), Gaps = 13/268 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y IRKIP L +EEY LA R + DL AA +L+ SHL+LV+KIA Y GY LP +++ Sbjct: 18 YQETIRKIPSLTAEEEYELASRLKRDNDLEAAKKLILSHLKLVMKIARSYSGYNLPHADL 77 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGNIGLM+AVKKFDP+RG RL +Y+++WIKA +QEY++++W LVK TT Q++LFFN Sbjct: 78 VQEGNIGLMKAVKKFDPDRGVRLVSYAIYWIKAEIQEYVVKNWRLVKTATTKAQRKLFFN 137 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR L+ LQ LKPE++ +IA +LNV ESEV M RL G E+ I+ SD S Sbjct: 138 LRSLRKTLQP-----LKPEEIKSIANELNVKESEVREMEFRLNGKET---TIDYSDDESE 189 Query: 199 QWQDWLVYDHDGQEQVLIEKEE----RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV- 253 + + + + +EK E N L ++S L+ R R + EAR L +N Sbjct: 190 EDHFRPISYLEDETPSPLEKIEMDQAESNVSAELQHALSELDSRSRSVVEARWLNDNKSE 249 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L+S+F+VS ER+RQIE AFKK++ Sbjct: 250 TLNELASKFKVSAERIRQIEKNAFKKIR 277 >gi|114798150|ref|YP_762122.1| putative alternative sigma factor RpoH [Hyphomonas neptunium ATCC 15444] gi|114738324|gb|ABI76449.1| putative alternative sigma factor RpoH [Hyphomonas neptunium ATCC 15444] Length = 295 Score = 223 bits (568), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 109/270 (40%), Positives = 171/270 (63%), Gaps = 3/270 (1%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +++ K P+L+ E LA+R+RE D +A H L T+++RLV+ +A +R YGLP+++ Sbjct: 14 QFVKTAMKAPLLDPAHEASLARRWREAEDEAALHELTTAYMRLVISMAAKFRHYGLPMAD 73 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +VSEGN+GLMQA +F+PER R +TY+ WWI++++Q+Y+LR+WS+V+ GTT+ QK LFF Sbjct: 74 LVSEGNVGLMQAAARFEPEREVRFSTYASWWIRSSIQDYVLRNWSIVRTGTTSAQKSLFF 133 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKN 196 NLRRL+ + + D + E ++ L V +V M+ RL+G D SLNA + Sbjct: 134 NLRRLRARISDLGDGTMTRENKQWVSTHLGVPLRDVEIMSARLSGSDRSLNAPLTM--DG 191 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 ++WQD + + E+ ++ + R ++ +M L PRE I RRL E P TLE Sbjct: 192 DAEWQDMIADEGAPPEEAVMRSHDTARRHEWISEAMEALTPRETYIITRRRLSEEPQTLE 251 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L E VS+ERVRQIE +A K++ ++++ Sbjct: 252 ALGHELGVSKERVRQIEHQALSKLKRALEQ 281 >gi|94309217|ref|YP_582427.1| RNA polymerase factor sigma-32 [Cupriavidus metallidurans CH34] gi|93353069|gb|ABF07158.1| RNA polymerase sigma 32 (sigma H) factor [Cupriavidus metallidurans CH34] Length = 311 Score = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 123/286 (43%), Positives = 179/286 (62%), Gaps = 13/286 (4%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 ++ G +G L YI + +IPML +EE LA+ R++ + AA R+V SHLRLVV I Sbjct: 28 FALTFPGTLGNLDSYIQAVHRIPMLTPEEELSLARDLRDNDSVDAARRMVMSHLRLVVSI 87 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y GYGLP ++++ EGNIGLM+AVK+FDPE+G RL +Y+M WIKA + EY+L++W +V Sbjct: 88 ARQYLGYGLPHADLIQEGNIGLMKAVKRFDPEQGVRLVSYAMHWIKAEIHEYVLKNWRMV 147 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GD 183 K+ TT Q++LFFNLR H Q + PEQ+ A+A++LNV EV+ M R++ GD Sbjct: 148 KVATTKAQRKLFFNLR---SHKQG--SHTFTPEQIEAVARELNVKPEEVMEMETRMSGGD 202 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +L I ++ + +L +H+ QVL K + + L +++ L+PR RRI Sbjct: 203 MALEGQIEDGEEEFAPIA-YLADNHNEPTQVLEAKRHDRLQVEGLEEALTKLDPRSRRII 261 Query: 244 EARRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 EAR L N TL L+ EF VS ER+RQIE+ A KK++ ++ Sbjct: 262 EARWLDVNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMKGAL 307 >gi|332286014|ref|YP_004417925.1| RNA polymerase sigma-32 factor [Pusillimonas sp. T7-7] gi|330429967|gb|AEC21301.1| RNA polymerase sigma-32 factor [Pusillimonas sp. T7-7] Length = 293 Score = 223 bits (567), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 129/288 (44%), Positives = 187/288 (64%), Gaps = 14/288 (4%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N+ M+I G +G + YI + ++PML ++EE L KR R+H DL AA +L+TSHLRL Sbjct: 13 NQLAMAISNPGALGTIEAYISAVNRLPMLTQEEETSLGKRLRDHDDLDAARQLITSHLRL 72 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y GYGL ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + EYI+R+ Sbjct: 73 VVSIARQYLGYGLAHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYIVRN 132 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVK+ TT Q++LFFNLRR++ Q L EQV IA++LNV +V M R+ Sbjct: 133 WRLVKVATTKAQRKLFFNLRRMRPDGQ-----TLDTEQVNEIARELNVRPEDVSEMEVRM 187 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ---VLIEKEERKNRRNMLTRSMSVLNP 237 +G E AL ++ D++ +L +GQ++ VL + + + L ++ VL+ Sbjct: 188 SGREF--ALESNDDEDGYAPIAYL--SDEGQQEPSRVLERRAYDALQGSGLADALDVLDE 243 Query: 238 RERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R RRI +AR LQ E TL L++EF VS ER+RQIEA AFKK++ ++ Sbjct: 244 RSRRIVQARWLQDEGGATLHELAAEFGVSAERIRQIEAAAFKKLRVAL 291 >gi|261855188|ref|YP_003262471.1| RNA polymerase, sigma 32 subunit, RpoH [Halothiobacillus neapolitanus c2] gi|261835657|gb|ACX95424.1| RNA polymerase, sigma 32 subunit, RpoH [Halothiobacillus neapolitanus c2] Length = 291 Score = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 115/269 (42%), Positives = 177/269 (65%), Gaps = 8/269 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ E+R+IP+L EE LA++ + GD+ AA +L+ SHLR VV IA GYRGYGLP Sbjct: 19 SLQQYLAEVRRIPLLTADEEQKLAEQLKSTGDIDAAQKLIMSHLRFVVHIARGYRGYGLP 78 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++++ EGNIGLM+AVK+F+PE+ RL T+++ WI+A + EYIL++W +VKI TT Q++ Sbjct: 79 LADLIQEGNIGLMKAVKRFEPEQKVRLVTFAVHWIRAEIHEYILKNWRIVKIATTKAQRK 138 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSS 193 LFF +R++K L +T + + AIA +LNV E EV++M RL + D +++A + S Sbjct: 139 LFFKMRQMKSGLGWLTADETR-----AIAAELNVPEREVVTMESRLYSHDIAIDAPVYDS 193 Query: 194 DKNSS--QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ S ++ LV H + + + + +R +T ++ L+ R R I E R LQE Sbjct: 194 EQEGSGPSYEQILVDQHQVSVEDMTAQRDEDDRVTAMTHALHDLDARSRDILERRWLQEP 253 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKV 280 TL+ L+ E++VS ERVRQIE A KK+ Sbjct: 254 KATLQTLADEYQVSAERVRQIENAALKKL 282 >gi|119776597|ref|YP_929337.1| RNA polymerase factor sigma-32 [Shewanella amazonensis SB2B] gi|119769097|gb|ABM01668.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella amazonensis SB2B] Length = 285 Score = 222 bits (566), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 113/280 (40%), Positives = 175/280 (62%), Gaps = 7/280 (2%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M+++V G L YIH + +PMLE ++EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALMVPQGASSLEAYIHSVNSMPMLEAEQEYQLAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKSYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L +D+ +V +A+ L VS+ +V M R+A Sbjct: 126 IVKVATTKAQRKLFFNLRKAKQRLGWFSDD-----EVAMVAENLGVSKDDVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERR 241 + L+N D + + DH IE + N +N L ++ L+ R + Sbjct: 181 QDQAFDLVNDHDDDEGFAPVHYLEDHSSDLAANIENDNWESNAQNRLIAAIKTLDERSQH 240 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I AR L ++ VTL+ L+ +++VS ER+RQ+E A K++ Sbjct: 241 ILRARWLDDDKVTLQELAEQYQVSAERIRQLEKNAMNKLK 280 >gi|307728369|ref|YP_003905593.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1003] gi|307582904|gb|ADN56302.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1003] Length = 311 Score = 222 bits (566), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 124/287 (43%), Positives = 177/287 (61%), Gaps = 13/287 (4%) Query: 7 SIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S ++ G++G + YI + +IPML EE A +REH +L AA RLV SHLRLVV IA Sbjct: 29 SSLLPGQLGNIDAYIQAVNRIPMLTPAEERQFATEFREHDNLEAARRLVLSHLRLVVSIA 88 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK Sbjct: 89 RNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVK 148 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 + TT Q++LFFNLR K L A T P+++ +AK+LNV EV M RL+ GD Sbjct: 149 VATTKAQRKLFFNLRSHKQGLGAFT-----PDEIDGLAKELNVKREEVAEMETRLSGGDV 203 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L + +++ + +L H VL ++ K + + + ++ L+ R RRI E Sbjct: 204 ALEGQVEDGEESYAPIA-YLADSHSEPTAVLASRQRDKLQSDGIATALEALDARSRRIIE 262 Query: 245 ARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 AR L+ TL L+ EF VS ER+RQIEA A KK++ ++ + Sbjct: 263 ARWLKVQDDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGALSE 309 >gi|114570847|ref|YP_757527.1| RNA polymerase sigma 32 subunit RpoH [Maricaulis maris MCS10] gi|114341309|gb|ABI66589.1| RNA polymerase, sigma 32 subunit, RpoH [Maricaulis maris MCS10] Length = 305 Score = 222 bits (566), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 111/277 (40%), Positives = 173/277 (62%), Gaps = 3/277 (1%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 + G R++ +L +++E LA+R+++ D A H L +H+RLV+ +A ++ YG Sbjct: 19 DAGEQRFVKSAMARDLLSREDEADLARRWKDDRDEKALHELTEAHMRLVIAVAAKFKRYG 78 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP S+++ EGNIGLM+A +FDPER R +TY WWI++ +Q+Y+LR+WS+V+ GTT+ Q Sbjct: 79 LPFSDLIQEGNIGLMKAADRFDPERDVRFSTYVTWWIRSCIQDYVLRNWSIVRTGTTSAQ 138 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALIN 191 K LFFNLRR++ ++ + +++ P+ IAK L V E +V +M RL A D SLNA + Sbjct: 139 KSLFFNLRRIRANIGDLDGSSITPDNRQKIAKDLRVRERDVENMALRLSASDRSLNAPVG 198 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D SQWQD+LV D E ++ + + + R L ++ LN RE+ I RRL+E+ Sbjct: 199 --DAEDSQWQDFLVDDTAAPETEVMNRTDSERRSAWLGLALDGLNSREQFIIRERRLRED 256 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL +L +S+ERVRQIE A K+++ + V Sbjct: 257 GSTLASLGDSLGISKERVRQIENAALAKLRDHLTANV 293 >gi|295675387|ref|YP_003603911.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1002] gi|295435230|gb|ADG14400.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1002] Length = 311 Score = 222 bits (566), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 124/285 (43%), Positives = 176/285 (61%), Gaps = 13/285 (4%) Query: 7 SIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S ++ G++G + YI + +IPML EE A REH +L AA RLV SHLRLVV IA Sbjct: 29 SSLLPGQLGNIDAYIQAVNRIPMLTPAEERKFATELREHDNLEAARRLVLSHLRLVVSIA 88 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK Sbjct: 89 RNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVK 148 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 + TT Q++LFFNLR K L A T P+++ +AK+LNV EV M RL+ GD Sbjct: 149 VATTKAQRKLFFNLRSHKQGLGAFT-----PDEIEGLAKELNVKREEVAEMETRLSGGDI 203 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L + +++ + +L H VL ++ + + + + ++ L+PR RRI E Sbjct: 204 ALEGQVEDGEESYAPIA-YLADSHSEPTAVLASRQRDRLQSDGIASALDALDPRSRRIIE 262 Query: 245 ARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L+ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 263 ARWLKVADDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGAL 307 >gi|332524130|ref|ZP_08400360.1| RNA polymerase sigma-32 factor [Rubrivivax benzoatilyticus JA2] gi|332107469|gb|EGJ08693.1| RNA polymerase sigma-32 factor [Rubrivivax benzoatilyticus JA2] Length = 306 Score = 222 bits (566), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 119/283 (42%), Positives = 178/283 (62%), Gaps = 15/283 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML QEE L KR REHGDL AA RLV SHLRLVV ++ Y GYGLP Sbjct: 23 LDAYITAVNRLPMLSAQEEVALGKRLREHGDLEAAGRLVLSHLRLVVSVSRQYLGYGLPH 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y++ WIKA + EYIL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYALHWIKAEIHEYILKNWRMVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQA------ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 FFNLR +K L+ + + L P +V +A++LNV EV+ M RLAG + AL Sbjct: 143 FFNLRSMKQGLKGEAAEADLHRSTLTPAEVETVARELNVKPDEVVEMETRLAGGDV--AL 200 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN--RRNMLTRSMSVLNPRERRIFEARR 247 +D + + + E + + R++ + + +++SVL+ R RRI E R Sbjct: 201 EPQTDDSEESFAPIAYLADEASEPTRLLEARRRDWLSGDGIAQALSVLDARSRRIVEERW 260 Query: 248 LQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+ N +TL L++E+ VS ER+RQIE A KK++++++ Sbjct: 261 LKVNDDSSGGMTLHELAAEYGVSAERIRQIEVAAMKKMRKALE 303 >gi|115372678|ref|ZP_01459985.1| alternative sigma factor RpoH [Stigmatella aurantiaca DW4/3-1] gi|310823838|ref|YP_003956196.1| RNA polymerase sigma-c factor [Stigmatella aurantiaca DW4/3-1] gi|115370399|gb|EAU69327.1| alternative sigma factor RpoH [Stigmatella aurantiaca DW4/3-1] gi|309396910|gb|ADO74369.1| RNA polymerase sigma-C factor [Stigmatella aurantiaca DW4/3-1] Length = 293 Score = 222 bits (566), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 121/269 (44%), Positives = 175/269 (65%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EI + P+L +QEE LA+ +R+ GDL A HRLVTS+LR VVK+A YR YGL + Sbjct: 11 LSTYLSEINQYPLLTQQEEQALARSFRQ-GDLQAGHRLVTSNLRFVVKVAYEYRSYGLRM 69 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ E NIGLM+AV+KFDP++G RL +Y++WWI+A +Q Y+L++WSLVK+GTT Q+RL Sbjct: 70 SDLIQEANIGLMKAVQKFDPDKGIRLISYAVWWIRAYIQGYVLKNWSLVKLGTTQAQRRL 129 Query: 136 FFNLRRLKGHL--QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 FF L R + L Q TD N+ + IA+KLNV SEV M R+ G D SL+A + Sbjct: 130 FFALARTRRELEKQGNTDGNIVNAE--EIARKLNVKASEVREMEQRMGGRDLSLDAPMG- 186 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + D++ D Q + +++E R + +++ L+PRER I E R + ++ Sbjct: 187 -EDGDATHMDFVASDSVSQADEVADRQEADLARTRIQQALQRLDPRERFIIEKRVMSDSE 245 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TL L F SRER RQ+E RA K++ Sbjct: 246 MTLSELGEHFGFSRERARQLEIRAKDKLK 274 >gi|323524659|ref|YP_004226812.1| RNA polymerase sigma-32 subunit RpoH [Burkholderia sp. CCGE1001] gi|323381661|gb|ADX53752.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1001] Length = 311 Score = 222 bits (565), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 124/285 (43%), Positives = 176/285 (61%), Gaps = 13/285 (4%) Query: 7 SIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S ++ G++G + YI + +IPML EE A +REH +L AA RLV SHLRLVV IA Sbjct: 29 SSLLPGQLGNIDAYIQAVNRIPMLTPAEERQFATEFREHDNLEAARRLVLSHLRLVVSIA 88 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK Sbjct: 89 RNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVK 148 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 + TT Q++LFFNLR K L A T P+++ +AK+LNV EV M RL+ GD Sbjct: 149 VATTKAQRKLFFNLRSHKQGLGAFT-----PDEIDGLAKELNVKREEVAEMETRLSGGDI 203 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L + +++ + +L H VL ++ K + + + ++ L+ R RRI E Sbjct: 204 ALEGQVEDGEESYAPIA-YLADSHSEPTAVLASRQRDKLQSDGIATALEALDARSRRIIE 262 Query: 245 ARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L+ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 263 ARWLKVQDDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGAL 307 >gi|237749576|ref|ZP_04580056.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes OXCC13] gi|229380938|gb|EEO31029.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes OXCC13] Length = 299 Score = 221 bits (564), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 124/289 (42%), Positives = 185/289 (64%), Gaps = 11/289 (3%) Query: 1 MNRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 ++R ++ ++ G +G + YI EI ++PML ++ E LA+RY E+ DL+AA LV SHLR Sbjct: 13 VSRHALAPVLTGSLGNIEAYIAEINRLPMLTQERETELAQRYHENNDLAAAQELVLSHLR 72 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 LV IA Y GYGLP ++++ EGNIGLM+AVK+FDP+ G RL +Y++ WIKA + EYILR Sbjct: 73 LVASIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPKMGVRLVSYAIHWIKAEIHEYILR 132 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 +W +VK+ TT Q++LFFNLR K +A+T EQ+ ++A+KLNV + EV M R Sbjct: 133 NWRMVKVATTKAQRKLFFNLRSHKSGNEAMT-----REQIRSLAEKLNVKDEEVSEMETR 187 Query: 180 LAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 L+G D +L + D N + +L + +VL K+ + + L ++ L+ R Sbjct: 188 LSGHDIALETQHDDDDDNFAPIA-YLSSEQTEPTRVLEAKQHDRLQSEGLAEALDKLDDR 246 Query: 239 ERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +RI EAR L+ + TL +L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 247 SKRIIEARWLKNDDGSGATLHDLAEEFGVSAERIRQIEAAALKKMKNTL 295 >gi|85859725|ref|YP_461927.1| RNA polymerase sigma-B factor [Syntrophus aciditrophicus SB] gi|85722816|gb|ABC77759.1| RNA polymerase sigma-B factor [Syntrophus aciditrophicus SB] Length = 289 Score = 221 bits (564), Expect = 9e-56, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 175/267 (65%), Gaps = 6/267 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI EI + P+L +EE+ A ++++ ++ AA +LV S+LR VVKIA YR YG+ + Sbjct: 10 LEVYIAEINRFPILTAEEEFRYAIEWKKNQNMEAAEKLVVSNLRFVVKIAHEYRNYGVKL 69 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM AVKKFDP +G+RL +Y++WWI+A +Q YI+++WSLVKIGTT Q++L Sbjct: 70 ADLIQEGNIGLMHAVKKFDPYKGYRLISYAVWWIRAYIQNYIIKTWSLVKIGTTQAQRKL 129 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FF L + K +QA++ LK + IA+ L V E EV M+ R++ D SL+ I D Sbjct: 130 FFKLNKTKKDIQALS---LKNPEFSEIAESLGVREGEVEEMDVRMSNRDLSLDMAI--GD 184 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 S D+L Y + QE LI KEE + R +T +++VLN +E I R + ++P T Sbjct: 185 DGGSSHMDFLTYAGEDQETALIRKEEAELVRKNITGALAVLNEKEMYIIRNRVMADDPKT 244 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 L+ + + ++RER RQIE +A KK++ Sbjct: 245 LQEIGDIYNITRERARQIEKQALKKLR 271 >gi|313201748|ref|YP_004040406.1| RNA polymerase sigma-32 subunit RpoH [Methylovorus sp. MP688] gi|312441064|gb|ADQ85170.1| RNA polymerase, sigma 32 subunit, RpoH [Methylovorus sp. MP688] Length = 290 Score = 221 bits (563), Expect = 9e-56, Method: Compositional matrix adjust. Identities = 120/270 (44%), Positives = 175/270 (64%), Gaps = 11/270 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ I+ P+L +EEY LA R R+ D+ AA L+ SHLRLV IA GY GYGLP Sbjct: 22 LDQYLRTIKAFPVLSAEEEYDLATRLRKDNDIDAAKGLIVSHLRLVASIARGYSGYGLPQ 81 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AV++FDP+RG RL +++M WIKA + EYI+R+W LVK+ TT Q++L Sbjct: 82 ADLIQEGNVGLMKAVRRFDPDRGVRLVSFAMHWIKAEIHEYIVRNWRLVKVATTKAQRKL 141 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K + + L P++V IA++L V EV+ M R+ G E +L +SD Sbjct: 142 FFNLRSMKKN-----SHTLSPDEVADIARELKVKPEEVVEMESRMGGHEI--SLEGNSDD 194 Query: 196 NSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-N 251 +S + Y D Q ++L E+E N+ L ++ L+ R RRI +AR LQE N Sbjct: 195 DSEDSFSPIAYLEDQQPEPSELLAEREAEHNQTVGLAHALESLDDRSRRIVQARWLQENN 254 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL +L++EF VS ER+RQIE +A +K++ Sbjct: 255 SATLHDLAAEFGVSAERIRQIEQKAMQKMK 284 >gi|253999699|ref|YP_003051762.1| RNA polymerase sigma-32 subunit RpoH [Methylovorus sp. SIP3-4] gi|253986378|gb|ACT51235.1| RNA polymerase, sigma 32 subunit, RpoH [Methylovorus sp. SIP3-4] Length = 284 Score = 221 bits (563), Expect = 9e-56, Method: Compositional matrix adjust. Identities = 120/270 (44%), Positives = 175/270 (64%), Gaps = 11/270 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ I+ P+L +EEY LA R R+ D+ AA L+ SHLRLV IA GY GYGLP Sbjct: 16 LDQYLRTIKAFPVLSAEEEYDLATRLRKDNDIDAAKGLIVSHLRLVASIARGYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AV++FDP+RG RL +++M WIKA + EYI+R+W LVK+ TT Q++L Sbjct: 76 ADLIQEGNVGLMKAVRRFDPDRGVRLVSFAMHWIKAEIHEYIVRNWRLVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K + + L P++V IA++L V EV+ M R+ G E +L +SD Sbjct: 136 FFNLRSMKKN-----SHTLSPDEVADIARELKVKPEEVVEMESRMGGHEI--SLEGNSDD 188 Query: 196 NSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-N 251 +S + Y D Q ++L E+E N+ L ++ L+ R RRI +AR LQE N Sbjct: 189 DSEDSFSPIAYLEDQQPEPSELLAEREAEHNQTVGLAHALESLDDRSRRIVQARWLQENN 248 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL +L++EF VS ER+RQIE +A +K++ Sbjct: 249 SATLHDLAAEFGVSAERIRQIEQKAMQKMK 278 >gi|323138995|ref|ZP_08074055.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] gi|322395749|gb|EFX98290.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] Length = 294 Score = 221 bits (563), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 116/262 (44%), Positives = 177/262 (67%), Gaps = 2/262 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+ EE LA +R+HGD A H+L +H+RLV+ +A +R YGLPI+++V EG++GL Sbjct: 19 PFLERDEEKALAVAWRDHGDRRALHKLTAAHMRLVIALAAKFRHYGLPIADLVQEGHVGL 78 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F PER R +TY+ WWI+A++Q+Y+LR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 79 LEAAARFAPERDVRFSTYATWWIRASIQDYVLRNWSIVRGGTSSSQKALFFNLRRLRARL 138 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA-LINSSDKNSSQWQDWL 204 D + AIAK L VS ++V M+ RL+G D SLNA L++ S+Q D+L Sbjct: 139 ARDPDAYGSGDAYQAIAKALGVSRADVEMMDSRLSGSDVSLNAQLVDDDSSGSAQRMDFL 198 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V DH ++ + E + R L ++++L+ RE RI + RRL +N VTLE L + + Sbjct: 199 VDDHPLPDEAVQETMDSDRRARWLKDALAILSERELRIVQERRLTDNLVTLETLGDKLGI 258 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ERVRQIE+RA K+++++ + Sbjct: 259 SKERVRQIESRALIKLRKALSR 280 >gi|39995761|ref|NP_951712.1| RNA polymerase sigma-32 factor [Geobacter sulfurreducens PCA] gi|39982525|gb|AAR33985.1| RNA polymerase sigma-32 factor [Geobacter sulfurreducens PCA] gi|298504771|gb|ADI83494.1| RNA polymerase sigma-32 factor RpoH [Geobacter sulfurreducens KN400] Length = 284 Score = 221 bits (562), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 117/277 (42%), Positives = 177/277 (63%), Gaps = 7/277 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +MS+ V + L+ Y+ EIRK P+L +EEY A ++ E DL AAH L+TS+LR VVKI Sbjct: 2 SMSLPVVAD-SLTVYLREIRKFPVLTPEEEYRFAVKFYEDKDLEAAHSLITSNLRFVVKI 60 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A YR YGL + +++ EGN+GLM AV+KF+P +G RL +Y++WWI+A +Q +I+ +WSL+ Sbjct: 61 AAEYRSYGLKMLDLIQEGNVGLMMAVRKFNPYKGIRLISYAVWWIRAYIQNHIISAWSLL 120 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTT QK+LFF L + K ++ +T + + A A L+V ESEV+ M+ R+ GD Sbjct: 121 KIGTTQAQKKLFFKLNQAKNAIKGLTGTD----DIEATATSLHVKESEVLEMDQRMRGDF 176 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 L+A I + D + + L + QE L E +E + + + ++ LN +ER I E Sbjct: 177 YLDAEIKNGDGLT--ILETLADERQNQEDTLAELQESELLKQHIAGALGKLNEKERFIVE 234 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + P+TL+ ++ F +SRERVRQIE A +K++ Sbjct: 235 QRVTADTPLTLQEIADRFSISRERVRQIEEAALRKIK 271 >gi|1143832|gb|AAA84899.1| RNA polymerase sigma C subunit [Stigmatella aurantiaca DW4/3-1] Length = 293 Score = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 121/269 (44%), Positives = 174/269 (64%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EI + P+L +QEE LA+ +R+ GDL A HRLVTS+LR VVK+A YR YGL + Sbjct: 11 LSTYLSEINQYPLLTQQEEQALARSFRQ-GDLQAGHRLVTSNLRFVVKVAYEYRSYGLRM 69 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ E NIGLM+AV+KFDP++G RL +Y++WWI A +Q Y+L++WSLVK+GTT Q+RL Sbjct: 70 SDLIQEANIGLMKAVQKFDPDKGIRLISYAVWWILAYIQGYVLKNWSLVKLGTTQAQRRL 129 Query: 136 FFNLRRLKGHL--QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 FF L R + L Q TD N+ + IA+KLNV SEV M R+ G D SL+A + Sbjct: 130 FFALARTRRELEKQGNTDGNIVNAE--EIARKLNVKASEVREMEQRMGGRDLSLDAPMG- 186 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + D++ D Q + +++E R + +++ L+PRER I E R + ++ Sbjct: 187 -EDGDATHMDFVASDSVSQADEVADRQEADLARTRIQQALQRLDPRERFIIEKRVMSDSE 245 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TL L F SRER RQ+E RA K++ Sbjct: 246 MTLSELGEHFGFSRERARQLEIRAKDKLK 274 >gi|188591091|ref|YP_001795691.1| RNA polymerase factor sigma-32 [Cupriavidus taiwanensis LMG 19424] gi|170937985|emb|CAP62969.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Cupriavidus taiwanensis LMG 19424] Length = 309 Score = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 123/293 (41%), Positives = 181/293 (61%), Gaps = 17/293 (5%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N + ++ +G L YI + +IP+L +EE LA+ R+H + AA RLV SHLRL Sbjct: 22 NTGSFALTFPATVGNLDSYIQAVHRIPLLTAEEEQRLARELRDHDSVEAARRLVMSHLRL 81 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y GYGLP ++++ EGNIGLM+AVK+FDP++G RL +Y+M WIKA + EY+L++ Sbjct: 82 VVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYVLKN 141 Query: 121 WSLVKIGTTANQKRLFFNLRRLK--GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 W +VK+ TT Q++LFFNLR K GH PEQV A+A++LNV EV+ M Sbjct: 142 WRMVKVATTKAQRKLFFNLRSHKQGGH-------TFTPEQVEAVARELNVKPEEVMEMET 194 Query: 179 RLA-GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 RL+ GD +L ++ ++ + +L +H+ +V+ K + + + L +++ L+ Sbjct: 195 RLSGGDLALEGQVDDGEEEFAPIA-YLADNHNEPTRVMEAKRQDRMQVEGLEEALAKLDE 253 Query: 238 RERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R RRI EAR L TL L+ EF VS ER+RQIEA A KK++ ++Q Sbjct: 254 RSRRIIEARWLNVEDDGSGGATLHELADEFGVSAERIRQIEAAAMKKMKGALQ 306 >gi|170691517|ref|ZP_02882682.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia graminis C4D1M] gi|170143722|gb|EDT11885.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia graminis C4D1M] Length = 311 Score = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 123/285 (43%), Positives = 176/285 (61%), Gaps = 13/285 (4%) Query: 7 SIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S ++ G++G + YI + +IPML EE A +REH +L AA RLV SHLRLVV IA Sbjct: 29 SSLLPGQLGNIDAYIQAVNRIPMLTPAEERQFATEFREHDNLEAARRLVLSHLRLVVSIA 88 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK Sbjct: 89 RNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVK 148 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 + TT Q++LFFNLR K L + T P+++ +AK+LNV EV M RL+ GD Sbjct: 149 VATTKAQRKLFFNLRSHKQGLGSFT-----PDEIEGLAKELNVKREEVAEMETRLSGGDI 203 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L + +++ + +L H VL ++ K + + + ++ L+ R RRI E Sbjct: 204 ALEGQVEDGEESYAPIA-YLADSHSEPTAVLASRQRDKLQSDGIATALEALDARSRRIIE 262 Query: 245 ARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L+ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 263 ARWLKVQDDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGAL 307 >gi|237747428|ref|ZP_04577908.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes HOxBLS] gi|229378779|gb|EEO28870.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes HOxBLS] Length = 299 Score = 220 bits (560), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 125/279 (44%), Positives = 175/279 (62%), Gaps = 11/279 (3%) Query: 11 NGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 G +G + YI E+ ++P+L ++E LA RYRE DLSAA LV SHLRLVV IA Y Sbjct: 23 TGSLGNIEAYIAEVNRLPILTLEQETDLALRYRERNDLSAAQELVLSHLRLVVSIARNYL 82 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP ++++ EGNIGLM+AVK+FDP G RL +Y++ WIKA + EYILR+W +VKI TT Sbjct: 83 GYGLPHADLIQEGNIGLMKAVKRFDPGMGVRLVSYAIHWIKAEIHEYILRNWRMVKIATT 142 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 Q++LFFNLR K L ++T Q+ ++A+KLNV + EV M RL G D +L Sbjct: 143 KAQRKLFFNLRSHKNGLDSMT-----RAQIRSLAEKLNVKDEEVAEMETRLNGHDIALET 197 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + D N + +L + +L ++ + + L +++ L+PR RRI EAR L Sbjct: 198 QHDDDDDNFAPIA-YLSSEQTEPASILEARQNDRMQSEGLAEALAKLDPRSRRIVEARWL 256 Query: 249 QE---NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N TL L++EF VS ER+RQIEA A KK++ ++ Sbjct: 257 NSDDGNSATLHALAAEFGVSAERIRQIEAAALKKMKNTL 295 >gi|328542017|ref|YP_004302126.1| RNA polymerase sigma factor [polymorphum gilvum SL003B-26A1] gi|326411767|gb|ADZ68830.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1] Length = 289 Score = 220 bits (560), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 112/261 (42%), Positives = 177/261 (67%), Gaps = 1/261 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++EE LA R+R+ D++A RL +H+RLV+ +A +R +GLP+++++ EG++GL Sbjct: 19 PYLTREEELELATRWRQDKDVAALERLSLAHMRLVIAVASRFRNFGLPMNDLIQEGHVGL 78 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 79 LEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSTQKALFFNLRRLRAKL 138 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 + + + E IA+ + V ++V MN RL+G D SLNA I SD +S+ QD+L+ Sbjct: 139 SSNRVDLPETELHRQIAEAIGVKTADVDLMNARLSGPDTSLNAPIIDSDGSSADRQDFLI 198 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 D ++ + E + + +R L +M+VL RER+I RRL E TLE L ++ +S Sbjct: 199 SDAPLPDETVSENIDSERQRRWLRSAMNVLTERERKIVSERRLTEEGATLEALGAKMGIS 258 Query: 266 RERVRQIEARAFKKVQESIQK 286 +ERVRQIE RA +K++E++ K Sbjct: 259 KERVRQIENRALEKLREALLK 279 >gi|209519627|ref|ZP_03268417.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. H160] gi|209499913|gb|EDZ99978.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. H160] Length = 311 Score = 220 bits (560), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 122/280 (43%), Positives = 172/280 (61%), Gaps = 13/280 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G++G + YI + +IPML EE A REH +L AA RLV SHLRLVV IA Y G Sbjct: 34 GQLGNIDAYIQAVNRIPMLTPAEERQFATELREHDNLEAARRLVLSHLRLVVSIARNYLG 93 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK+ TT Sbjct: 94 YGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVKVATTK 153 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K L A T P+++ +A++LNV EV M RL+ GD +L Sbjct: 154 AQRKLFFNLRSHKQGLGAFT-----PDEIDGLARELNVKREEVAEMETRLSGGDIALEGQ 208 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + +++ + +L H VL ++ + + + ++ L+PR RRI EAR L+ Sbjct: 209 VEDGEESYAPIA-YLADSHSEPTAVLASRQRDRLHSDGIASALDALDPRSRRIIEARWLK 267 Query: 250 -----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 268 VADDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGAL 307 >gi|118578560|ref|YP_899810.1| RNA polymerase sigma-32 subunit RpoH [Pelobacter propionicus DSM 2379] gi|118501270|gb|ABK97752.1| RNA polymerase, sigma 32 subunit, RpoH [Pelobacter propionicus DSM 2379] Length = 292 Score = 219 bits (558), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 121/296 (40%), Positives = 185/296 (62%), Gaps = 17/296 (5%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ ++ + L+ Y+ EIRK +L ++EE A R+ E DL AAH LVTS+LR VVKI Sbjct: 4 NLPVVADS---LTLYLAEIRKFNLLSEEEERSCAIRFYEEKDLEAAHTLVTSNLRYVVKI 60 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A YR YG+ + +++ EGNIGLM AV+KF+P R RL +Y++WWI+A +Q YI+ +WSL+ Sbjct: 61 ASEYRNYGMKMLDLIQEGNIGLMMAVRKFNPYRKIRLISYAVWWIRAYIQNYIVSAWSLI 120 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTT Q++LF+ LR+ K L +T ++ IA L V + EVI M RL G+ Sbjct: 121 KIGTTQAQRKLFYGLRKTKEALLRMTGSD---NDAAEIASMLQVPDHEVIDMEQRLKGEV 177 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL+ I SD + + + + D QE++L E ++ + + ++M LN +ER I E Sbjct: 178 SLDCQIVESDGLT--FLETIADDRMNQEELLGENQQELQVKQRVIKAMEGLNEKERYIVE 235 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 R + P+TL++++S F +SRERVRQ+E RA K+++ ++ PL++KP Sbjct: 236 HRITSDEPLTLQDIASHFSISRERVRQLEERALAKLKKVLE---------PLMEKP 282 >gi|222053896|ref|YP_002536258.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. FRC-32] gi|221563185|gb|ACM19157.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. FRC-32] Length = 283 Score = 219 bits (558), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 113/280 (40%), Positives = 183/280 (65%), Gaps = 8/280 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +M ++V+ LS Y+ EI++ P+L +EE+ A R+ E DL AAH+L+TS+LR VVKI Sbjct: 4 SMPVVVDN---LSLYLAEIKRFPVLSPEEEHECAVRFYEKKDLEAAHKLITSNLRFVVKI 60 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A YR YG+ + +++ EGN+GLM AV+KF+P +GFRL +Y++WWI+A +Q +I+ +WSL+ Sbjct: 61 AGEYRAYGMKMLDLIQEGNVGLMMAVRKFNPHKGFRLISYAVWWIRAYIQNHIISAWSLL 120 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTT Q++LFF L + K ++ +T E A A+ L+V E+EV M+ R+ GD Sbjct: 121 KIGTTQAQRKLFFKLNQAKSAIRNMTGGG---EDFQATAEALDVKETEVAEMDQRMRGDF 177 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 L+A + + + + + L + QE++L E +E + +++ LN +ER + E Sbjct: 178 FLDAQVITGEGLT--MLESLPDERRNQEELLAEAQESALLEKQVASALTCLNEKERYVIE 235 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R E+P+TL+ ++ F +SRERVRQIE A KK+++++ Sbjct: 236 QRVSAESPLTLQEIADHFSISRERVRQIEEGALKKMKQAL 275 >gi|83859721|ref|ZP_00953241.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] gi|83852080|gb|EAP89934.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] Length = 301 Score = 219 bits (558), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 118/272 (43%), Positives = 174/272 (63%), Gaps = 3/272 (1%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 R++ + P+LE++EE LA ++E GD A H L T+++RLV+ IA +R YGLP + Sbjct: 20 RFMKQAMDAPLLEREEELNLATAWKEKGDEEALHALTTAYMRLVISIAAKFRHYGLPFPD 79 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +VSEGNIGLMQA +F+PER R +TY+ WWI+A++Q+Y+LR+WS+V+ GTTA QK LFF Sbjct: 80 LVSEGNIGLMQAAARFEPEREVRFSTYATWWIRASIQDYVLRNWSIVRTGTTAAQKSLFF 139 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKN 196 NLRRL+ ++ + L PE +A+ L V E +V M RLA D SLNA S+ Sbjct: 140 NLRRLRALIKDTSSGQLTPENRAYVAQALRVGEDDVEKMASRLAAVDRSLNAPF--SEDG 197 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 +WQD L ++ E ++E ++ R L ++S L+ RE+ I RRL E+ VTLE Sbjct: 198 EGEWQDLLADENPDPETQVMEDRDQAQRAQWLGEALSRLSEREQLIIRERRLGEDSVTLE 257 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L +S+ERVRQ+E +A K+++ + + V Sbjct: 258 KLGERLGISKERVRQVEHQALNKLKKYLTEVV 289 >gi|254796721|ref|YP_003081557.1| RNA polymerase sigma-32 factor (RpoH) [Neorickettsia risticii str. Illinois] gi|254589969|gb|ACT69331.1| RNA polymerase sigma-32 factor (RpoH) [Neorickettsia risticii str. Illinois] Length = 288 Score = 219 bits (558), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 124/274 (45%), Positives = 177/274 (64%), Gaps = 13/274 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y +I IP+L+++EE L R+ H D+SAA RLV ++LRLVVK+ + +R YG P+ ++ Sbjct: 16 YARKILAIPILQEEEERDLIDRWFLHRDISAAQRLVEAYLRLVVKVTVRFRNYGFPLMDL 75 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 SEGNIGLM+A+K F+P G +ATY++WWIKAA+ EY++RSWS+VKIGTTA Q++LFFN Sbjct: 76 ASEGNIGLMKAIKNFNPTLGHGIATYAIWWIKAAINEYVIRSWSIVKIGTTAAQRKLFFN 135 Query: 139 LRRLKGHLQAITDNNLKPEQVVA-IAKKLNVSESEVISM----NCRLAGDESLNALINSS 193 LR+LK + + L QVV I++ L VS+++V M N R D SLN + Sbjct: 136 LRKLK---NSGSVAGLDEHQVVGKISEMLEVSKNDVEEMERILNVR---DVSLN--MQLG 187 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + SS+ D + + QE VL E ER+ + +L ++ L R + IF AR L P Sbjct: 188 EDGSSEVHDLIPFPEANQEAVLSETRERQMKNRLLYEAVESLEARHKEIFVARSLSAVPR 247 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TL+ L +F +S+ERVRQI ARA KKV E +++ Sbjct: 248 TLKELGEKFSISQERVRQIHARAMKKVAEYVEEH 281 >gi|285019635|ref|YP_003377346.1| RNA polymerase sigma-32 factor protein [Xanthomonas albilineans GPE PC73] gi|283474853|emb|CBA17352.1| probable rna polymerase sigma-32 factor protein [Xanthomonas albilineans] Length = 292 Score = 219 bits (558), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 117/269 (43%), Positives = 170/269 (63%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L +EE+ LA RYR+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 24 LDAYIGAVHQIPVLTSEEEHALAVRYRDQEDLDAARELVHSHLRFVVHVARGYNGYGLPL 83 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++V EGNIGLM+AVK+FDP+ G RL ++++ WI+A M EYIL++W +VK+ TT Q++L Sbjct: 84 GDLVQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEYILKNWRIVKVATTKAQRKL 143 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V A+AK LNVSE EV+ M RL+G D +A + D Sbjct: 144 FFNLRKSKTRL-----GWMNAAEVTAVAKDLNVSEREVLEMESRLSGRDIGFDAPSDEDD 198 Query: 195 KNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENP 252 ++ +L+ + + Q + N+ +L ++ L+ R R I E R L ++ Sbjct: 199 DHAPPSPAAYLMANEEDPSQAYERADSDDNQLQLLREGLAELDARSRDIIERRWLDADSK 258 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 259 ITLQELADEYGVSAERIRQIEANALKKMK 287 >gi|325983562|ref|YP_004295964.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosomonas sp. AL212] gi|325533081|gb|ADZ27802.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosomonas sp. AL212] Length = 281 Score = 219 bits (557), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 123/271 (45%), Positives = 173/271 (63%), Gaps = 13/271 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 YI + P+L ++EE LA+R GD+ AA +L+ SHLR VV IA GY+GYGLP +++ Sbjct: 17 YIQSVNSFPILTQEEETSLARRLWNRGDIEAAQQLIMSHLRFVVAIARGYKGYGLPQADL 76 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+FDPERG RL ++++ WIKA + E+I+R+W LVKI TT Q++LFFN Sbjct: 77 IQEGNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEFIMRNWRLVKIATTKQQRKLFFN 136 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR +K L + + P++V A+A +L V EVI M R G D SL + D Sbjct: 137 LRSMKHGL-----DTMNPQEVDAMAAQLGVKAEEVIEMEKRFNGSDISLEPVSEDEDDTF 191 Query: 198 SQWQDWLVYDHDGQE-QVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQE-NPVT 254 S + Y DG E L+EKE+ + R L +S+ L+ R R I EAR L+E + T Sbjct: 192 SP----INYLTDGTEPSQLLEKEQITHLREKGLQKSLDCLDKRSRHIIEARWLREKDTAT 247 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L +L+ E VS ERVRQIE +A +K++ +I+ Sbjct: 248 LHDLADELGVSAERVRQIEVKALQKMRGAIK 278 >gi|189424394|ref|YP_001951571.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter lovleyi SZ] gi|189420653|gb|ACD95051.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter lovleyi SZ] Length = 285 Score = 219 bits (557), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 118/275 (42%), Positives = 180/275 (65%), Gaps = 4/275 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 S+Y+ EI+ P+L++QEE+ LA R E DLSAA L+TS+LR VVKIA YR YGL + Sbjct: 12 FSKYLSEIKSFPLLDEQEEHRLAVRLFEENDLSAAQTLITSNLRFVVKIAAEYRNYGLKM 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM AV+KF+P RGFRL TY++WWI+A +Q YI+ SWSL+KIGTT Q++L Sbjct: 72 LDLIQEGNIGLMLAVRKFNPYRGFRLITYAVWWIRAQIQSYIVSSWSLLKIGTTQAQRKL 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF L++ K + ++ N + A A L+V E+EV M RL G+ SL+A + + Sbjct: 132 FFKLKQAKNAI--LSMNGGDEGDLPATALSLDVREAEVEEMELRLMGEVSLDAEQVAGEG 189 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 S + LV D QE L + +E++ R ++ ++S L +E+ + + R + ++P+TL Sbjct: 190 GS--LLETLVDDRPNQESQLADLQEQQALRVVVADAVSRLGEKEQFVVKQRIVADDPMTL 247 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 + ++ F +SRERVRQIE A +K++ + ++L Sbjct: 248 QEIADHFSISRERVRQIEENALRKIKGFLGASMQL 282 >gi|311103433|ref|YP_003976286.1| alternative sigma factor RpoH [Achromobacter xylosoxidans A8] gi|310758122|gb|ADP13571.1| alternative sigma factor RpoH [Achromobacter xylosoxidans A8] Length = 294 Score = 218 bits (556), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 180/288 (62%), Gaps = 13/288 (4%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N ++I G +G + YI + ++P+L + E L +R R+ DL AA L+ SHLRL Sbjct: 13 NALALAIANPGALGTIDAYISSVNRLPVLSAERETELGRRLRDQEDLGAARELILSHLRL 72 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + EYI+R+ Sbjct: 73 VVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYIIRN 132 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVK+ TT Q++LFFNLR ++ Q L P+QV IA++LNV +V M RL Sbjct: 133 WRLVKVATTKAQRKLFFNLRSMRPDGQ-----TLDPDQVDHIARELNVRREDVSEMEVRL 187 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKNRRNM-LTRSMSVLNP 237 +G D SL N D + S + D QE ++E+ R ++ LT ++ L+P Sbjct: 188 SGRDMSLE---NQDDDDDSYAPIAYLSDEGRQEPTRVLERAARDQLQSAGLTDALQALDP 244 Query: 238 RERRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R RRI EAR LQ++ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 245 RSRRIVEARWLQDDGGATLHELAQEFGVSAERIRQIEAAALKKMRGNL 292 >gi|192289929|ref|YP_001990534.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris TIE-1] gi|192283678|gb|ACF00059.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris TIE-1] Length = 326 Score = 218 bits (556), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 116/270 (42%), Positives = 163/270 (60%), Gaps = 1/270 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ I + P+LE EE L +R+ D +AA L+TSHLRL K+A YR YG PI ++ Sbjct: 25 YMRAIGRYPVLEPDEEARLWQRWHTARDKAAADVLITSHLRLAAKLARNYRRYGFPIGDL 84 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 ++E N+GLM A+ KFDP RG R AT ++WWI++A+ ++I+RSWSLV+IG T QK+LFF Sbjct: 85 IAEANLGLMMALDKFDPTRGARFATCAVWWIRSAIYDHIVRSWSLVRIGRTPAQKKLFFR 144 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR L+ L + I+ L+V EVI M RL+GD SLNA ++ D+ S Sbjct: 145 LRGEIRRLRPDHHGALTKDLAEQISTSLDVPLREVIEMEQRLSGDLSLNAPLSDLDE-SG 203 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 +WQD + D E +L +E +R L ++ L+ RER IF AR L + P + E + Sbjct: 204 EWQDLIADDSPNAEAILAGHDELDRQRGALRDALVQLDARERYIFSARHLGDRPASFEAI 263 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +S ERVRQIEARAF KV + ++ Sbjct: 264 GQSLSLSAERVRQIEARAFAKVATAARRHC 293 >gi|114331030|ref|YP_747252.1| RNA polymerase factor sigma-32 [Nitrosomonas eutropha C91] gi|114308044|gb|ABI59287.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosomonas eutropha C91] Length = 280 Score = 218 bits (555), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 126/284 (44%), Positives = 181/284 (63%), Gaps = 15/284 (5%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 + +I G L YI P+L ++EE LAK+ +E+GD++AAH+LV SHLR VV I Sbjct: 6 TLPVISGG--NLESYIRAANSFPVLSREEEISLAKKMQENGDINAAHQLVLSHLRTVVMI 63 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLP ++++ EGNIGLM+AV++FDPERG RL ++++ WIKA + E+I+R+W LV Sbjct: 64 ARGYLGYGLPHADLIQEGNIGLMKAVRRFDPERGVRLISFAIHWIKAEIHEFIMRNWRLV 123 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 KI TT Q++LFFNLR +K L + + +V +A++L V EV+ M R +G D Sbjct: 124 KIATTKPQRKLFFNLRSMKEGL-----DTMNQAEVATMAEQLGVKAEEVVEMETRFSGRD 178 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVL-IEKEERKNRRNM-LTRSMSVLNPRERR 241 SL L +S +++ S + Y DG + +EKE+ + + L S+ L+ R RR Sbjct: 179 ISLEPLTDSDEEDFSP----IAYLTDGSDPSRELEKEQLERLTHAKLKDSLDSLDERSRR 234 Query: 242 IFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I EAR L+E+ TL L+ E VS ERVRQIEA+A KK++ I Sbjct: 235 IIEARWLREDKAATLHELAKELGVSAERVRQIEAKAMKKMRAEI 278 >gi|127514531|ref|YP_001095728.1| RNA polymerase factor sigma-32 [Shewanella loihica PV-4] gi|126639826|gb|ABO25469.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella loihica PV-4] Length = 285 Score = 218 bits (555), Expect = 9e-55, Method: Compositional matrix adjust. Identities = 115/281 (40%), Positives = 175/281 (62%), Gaps = 9/281 (3%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M+++V L YIH IPMLE EEY LAKR +E GD+ AA +L+ SHLR V+ Sbjct: 6 QSMALMVPQSSSSLEAYIHSAHNIPMLEANEEYELAKRLQETGDIQAAKQLIMSHLRFVI 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYAGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L +D E+V +A+ L VS+S+V M R+A Sbjct: 126 IVKVATTKAQRKLFFNLRKAKKRLGWFSD-----EEVTMVAENLGVSKSDVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L + +D + + DH D QV + E N+ +L ++ L+ R + Sbjct: 181 QDPAFDLASDNDDDQDYAPVHYLEDHSSDIASQVENDNFEADNQTRLLA-AIKTLDERSQ 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I +AR L E TL+ L++ ++VS ER+RQ+E A K++ Sbjct: 240 HILQARWLDEEKTTLQELAATYQVSAERIRQLEKNAMNKLK 280 >gi|317403164|gb|EFV83689.1| RNA polymerase sigma factor [Achromobacter xylosoxidans C54] Length = 294 Score = 218 bits (555), Expect = 9e-55, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 180/288 (62%), Gaps = 13/288 (4%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N ++I G +G + YI + ++P+L + E L +R R+ DL AA LV SHLRL Sbjct: 13 NALALAIANPGALGTIDAYISAVNRLPVLSAERETELGRRLRDSEDLGAARELVLSHLRL 72 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + EYI+R+ Sbjct: 73 VVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYIIRN 132 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVK+ TT Q++LFFNLR ++ Q L PEQV IA++LNV +V M RL Sbjct: 133 WRLVKVATTKAQRKLFFNLRSMRPDGQ-----TLDPEQVDHIARELNVRREDVSEMEVRL 187 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKN-RRNMLTRSMSVLNP 237 +G D SL N D + S + D QE ++E+ R + + L+ ++ L+P Sbjct: 188 SGRDMSLE---NQDDDDDSYAPIAYLSDEGRQEPTRVLERAARDQLQSSGLSSALEALDP 244 Query: 238 RERRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R RRI EAR LQ++ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 245 RSRRIVEARWLQDDGGATLHELAQEFGVSAERIRQIEAAALKKMRGNL 292 >gi|329120658|ref|ZP_08249321.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Neisseria bacilliformis ATCC BAA-1200] gi|327460882|gb|EGF07216.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Neisseria bacilliformis ATCC BAA-1200] Length = 287 Score = 218 bits (555), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 122/283 (43%), Positives = 183/283 (64%), Gaps = 9/283 (3%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 + +G L +YIH + IP+L +EE+ LA+R + GD+ AA RL+ SHLR+VV IA GY Sbjct: 11 VPSGHGSLEQYIHTVNSIPLLTPEEEHNLAER-KMGGDVEAAKRLILSHLRVVVSIARGY 69 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGL ++++ EGNIGLM+AVK+++P+RG RL ++++ WIKA + E+ILR+W LV++ T Sbjct: 70 DGYGLNQADLIQEGNIGLMKAVKRYEPDRGARLFSFAVHWIKAEIHEFILRNWRLVRVAT 129 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 T Q++LFFNLR ++ L A L P++ AIA L V SEV+ M R+ G + Sbjct: 130 TKPQRKLFFNLRSMRKSLSA-----LSPKEAQAIADDLGVKLSEVMEMEQRMTGRDIALL 184 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIE-KEERKNRRNMLTRSMSVLNPRERRIFEARR 247 NS D++S DWL DHD + IE K + L +++ L+ R RRI E R Sbjct: 185 ADNSDDEDSFAPIDWLA-DHDNEPTRQIERKAHHALQTEGLQNALAKLDERSRRIVETRW 243 Query: 248 LQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 244 LQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 286 >gi|241661869|ref|YP_002980229.1| RNA polymerase factor sigma-32 [Ralstonia pickettii 12D] gi|240863896|gb|ACS61557.1| RNA polymerase, sigma 32 subunit, RpoH [Ralstonia pickettii 12D] Length = 309 Score = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 120/281 (42%), Positives = 179/281 (63%), Gaps = 12/281 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G +G + YI + ++PML +EE LA+ YR++ +L AA RLV SHLRLVV IA GY G Sbjct: 31 GNLGNIDAYIQSVNRVPMLSAEEEQRLAREYRDNDNLDAARRLVLSHLRLVVSIARGYLG 90 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGNIGLM+AVK+FDP++G RL +Y+M WIKA M EYIL++W +VK+ TT Sbjct: 91 YGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHWIKAEMHEYILKNWRMVKVATTK 150 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K QA +++ A+A +LNV +EV M RL+ GD +L Sbjct: 151 AQRKLFFNLRSHKQDAQA----TFTSDEIDAVAAELNVKGTEVREMETRLSGGDIALEGQ 206 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 ++ +++ + +L H+ +V+ + + + + +++ L+ R RRI EAR L Sbjct: 207 MDDGEESYAPIA-YLADTHNEPTRVIEARSNDRMQSEGIEAALAKLDDRSRRIIEARWLN 265 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 N TL L+ EF VS ER+RQIE+ A KK++ ++Q Sbjct: 266 VNDDGSGGSTLHELADEFGVSAERIRQIESAAMKKMKGALQ 306 >gi|187927337|ref|YP_001897824.1| RNA polymerase factor sigma-32 [Ralstonia pickettii 12J] gi|309779962|ref|ZP_07674716.1| alternative sigma factor RpoH [Ralstonia sp. 5_7_47FAA] gi|187724227|gb|ACD25392.1| RNA polymerase, sigma 32 subunit, RpoH [Ralstonia pickettii 12J] gi|308921321|gb|EFP66964.1| alternative sigma factor RpoH [Ralstonia sp. 5_7_47FAA] Length = 309 Score = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 120/281 (42%), Positives = 179/281 (63%), Gaps = 12/281 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G +G + YI + ++PML +EE LA+ YR++ +L AA RLV SHLRLVV IA GY G Sbjct: 31 GNLGNIDAYIQSVNRVPMLSAEEEQRLAREYRDNDNLDAARRLVLSHLRLVVSIARGYLG 90 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGNIGLM+AVK+FDP++G RL +Y+M WIKA M EYIL++W +VK+ TT Sbjct: 91 YGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHWIKAEMHEYILKNWRMVKVATTK 150 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K QA +++ A+A +LNV +EV M RL+ GD +L Sbjct: 151 AQRKLFFNLRSHKQDAQA----TFTSDEIDAVAAELNVKGTEVREMETRLSGGDIALEGQ 206 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 ++ +++ + +L H+ +V+ + + + + +++ L+ R RRI EAR L Sbjct: 207 MDDGEESFAPIA-YLADTHNEPTRVIEARSNDRMQSEGIEAALAKLDDRSRRIIEARWLN 265 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 N TL L+ EF VS ER+RQIE+ A KK++ ++Q Sbjct: 266 VNDDGSGGSTLHELADEFGVSAERIRQIESAAMKKMKGALQ 306 >gi|3219168|dbj|BAA28784.1| sigma-32 homolog [Achromobacter xylosoxidans] Length = 306 Score = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 180/288 (62%), Gaps = 13/288 (4%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N ++I G +G + YI + ++P+L + E L +R R+ DL AA L+ SHLRL Sbjct: 25 NALALAIANPGALGTIDAYISAVNRLPVLSAERETELGRRLRDQEDLGAARELILSHLRL 84 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + EYI+R+ Sbjct: 85 VVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYIIRN 144 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVK+ TT Q++LFFNLR ++ Q L PEQV IA++LNV +V M RL Sbjct: 145 WRLVKVATTKAQRKLFFNLRSMRPDGQ-----TLDPEQVEHIARELNVRREDVSEMEVRL 199 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKN-RRNMLTRSMSVLNP 237 +G D SL N D + S + D QE ++E+ R + + L+ ++ L+P Sbjct: 200 SGRDMSLE---NQDDDDDSYAPIAYLSDDGRQEPTRVLERAARDQLQGSGLSDALEALDP 256 Query: 238 RERRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R RRI EAR LQ++ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 257 RSRRIVEARWLQDDGGATLHELAQEFGVSAERIRQIEAAALKKMRGNL 304 >gi|33594607|ref|NP_882251.1| RNA polymerase factor sigma-32 [Bordetella pertussis Tohama I] gi|33598734|ref|NP_886377.1| RNA polymerase factor sigma-32 [Bordetella parapertussis 12822] gi|33603808|ref|NP_891368.1| RNA polymerase factor sigma-32 [Bordetella bronchiseptica RB50] gi|33564683|emb|CAE44005.1| RNA polymerase sigma-32 factor [Bordetella pertussis Tohama I] gi|33574864|emb|CAE39527.1| RNA polymerase sigma-32 factor [Bordetella parapertussis] gi|33577933|emb|CAE35198.1| RNA polymerase sigma-32 factor [Bordetella bronchiseptica RB50] gi|332384018|gb|AEE68865.1| RNA polymerase factor sigma-32 [Bordetella pertussis CS] Length = 307 Score = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 124/289 (42%), Positives = 180/289 (62%), Gaps = 15/289 (5%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N +++ G +G + YI + ++P+L ++E LA+R R+ GDL AA LV SHLRL Sbjct: 25 NALALAVANPGALGTIDAYISAVNRLPILTAEQEGQLARRLRDEGDLEAARELVVSHLRL 84 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + E+I+R+ Sbjct: 85 VVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEFIIRN 144 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVK+ TT Q++LFFNLR ++ Q L PEQV IA++LNV +V M RL Sbjct: 145 WRLVKVATTKAQRKLFFNLRSMRPDGQ-----TLDPEQVDHIARELNVRREDVSEMEVRL 199 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQ---VLIEKEERKNRRNMLTRSMSVLN 236 +G D SL S D + + +G+++ VL + L R++ L+ Sbjct: 200 SGRDLSL----ESQDDDDDSFAPIAYLSDEGRQEPSRVLDRMAHDDLQGAGLGRALEALD 255 Query: 237 PRERRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R RRI EAR LQ++ +TL L+ EF VS ERVRQIEA A KK++ ++ Sbjct: 256 ARSRRIIEARWLQDDGGLTLHELAQEFGVSAERVRQIEAAALKKMRGAL 304 >gi|74316363|ref|YP_314103.1| sigma-70 factor [Thiobacillus denitrificans ATCC 25259] gi|74055858|gb|AAZ96298.1| sigma-70 factor [Thiobacillus denitrificans ATCC 25259] Length = 281 Score = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 118/283 (41%), Positives = 182/283 (64%), Gaps = 8/283 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + MS+ + L YI + PML +EE LA+ + + DL AA RLV SHLR+VV Sbjct: 3 QTMSLPIPAAYSLDSYIQTVSHYPMLSLEEEQKLARAWHDEQDLEAARRLVLSHLRVVVS 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GYGLP ++++ EGN+GLM+AVK+FDP+RG RL ++++ WI+A + EY+L+++ + Sbjct: 63 IARHYLGYGLPHADLIQEGNVGLMKAVKRFDPDRGVRLVSFALHWIRAEIHEYVLKNYRM 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 VK+ TT Q++LFFNLR LK L A+T +Q A+A++LNVS +V+ M RL+G Sbjct: 123 VKLATTKAQRKLFFNLRSLKQSLNALT-----VQQADAMAQELNVSRKDVLEMETRLSGH 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D S++ +++ + + S +L + Q L ++ + R + LT ++ L+ R R I Sbjct: 178 DVSIDPMVDDGEDDYSPIA-YLASAEENPAQRLEREQTERLRESGLTSALEELDERSRHI 236 Query: 243 FEARRLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +AR L E V TL L++++ VS ER+RQIEARA +K++ SI Sbjct: 237 IQARWLSEGDVATLHELAAQYGVSAERIRQIEARALQKMRASI 279 >gi|167622231|ref|YP_001672525.1| RNA polymerase factor sigma-32 [Shewanella halifaxensis HAW-EB4] gi|167352253|gb|ABZ74866.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella halifaxensis HAW-EB4] Length = 285 Score = 217 bits (553), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 115/285 (40%), Positives = 178/285 (62%), Gaps = 9/285 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 + M+++V G L Y+H IPMLE EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QTMALMVPQSSGSLESYVHSAHNIPMLEADTEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L +D+ +V +A L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNLRKAKKRLGWFSDS-----EVGMVADSLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L + +D + DH D QV + E+ N+ +L+ ++ L+ R + Sbjct: 181 QDPAFDLASDNDDEHDYAPMHYLEDHSSDLASQVESDNWEQNNQARLLS-AIKTLDERSQ 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +AR L E+ TL++L+S ++VS ER+RQ+E A K++ ++ Sbjct: 240 HILKARWLDEDKTTLQDLASTYQVSAERIRQLEKNAMSKLKGCME 284 >gi|186475070|ref|YP_001856540.1| RNA polymerase factor sigma-32 [Burkholderia phymatum STM815] gi|184191529|gb|ACC69494.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia phymatum STM815] Length = 311 Score = 217 bits (553), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 121/283 (42%), Positives = 173/283 (61%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IPML EE A YRE +L +A +LV SHLRLVV IA Sbjct: 31 LLPGQLGNIDAYIQAVNRIPMLTPAEERQFATEYREQNNLESARKLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K LQ+ T P+++ +AK+LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKQGLQSFT-----PDEIDGLAKELNVKREEVAEMETRLSGGDVAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + ++ + +L H VL ++ + + + ++ L+ R RRI EAR Sbjct: 206 EGQVEDGEEAFAPIA-YLADSHSEPTAVLAARQRDRLHSDGIASALESLDSRSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 LQ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLQVEDDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRTAL 307 >gi|91775055|ref|YP_544811.1| sigma 32 (RpoH) [Methylobacillus flagellatus KT] gi|91709042|gb|ABE48970.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacillus flagellatus KT] Length = 285 Score = 217 bits (553), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 119/270 (44%), Positives = 173/270 (64%), Gaps = 10/270 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ I+ P+L +EE LA R +++ DL AA LV SHLRLV IA Y GYGLP Sbjct: 16 LDQYLRAIKSFPVLSAEEELKLATRLKKYNDLEAAKTLVVSHLRLVASIARNYAGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++FDP+RG RL +++M WIKA + EYI+R+W LVK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFDPDRGVRLVSFAMHWIKAEIHEYIVRNWRLVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 FFNLR +K A +L ++V IA++LNV EV+ M R++G E SL N+ D Sbjct: 136 FFNLRSMKKGQTA----SLHSDEVAHIARELNVKPEEVLEMEARMSGHEISLEG--NADD 189 Query: 195 KNSSQWQ--DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-N 251 N + +L H ++L +E + L+ +++ L+ R RRI EAR LQE + Sbjct: 190 DNEDMFSPISYLQASHAEPSEILEAQEADQLHTTGLSTALAKLDDRSRRIVEARWLQEGH 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL +L+ EF VS ER+RQIE +A K+++ Sbjct: 250 NATLHDLAEEFGVSAERIRQIEQKAMKQMR 279 >gi|288957081|ref|YP_003447422.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288909389|dbj|BAI70878.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 298 Score = 217 bits (553), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 124/280 (44%), Positives = 176/280 (62%), Gaps = 7/280 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 +I + P+L + E+ LA+++RE D A H+LV ++ RLVV A +R YGLP+ ++ Sbjct: 16 FIKASMREPLLSRDHEFDLARKWREGSDERALHQLVRAYTRLVVATASRFRNYGLPMGDL 75 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLMQA +F+P+R R +TY+ WWI++AMQ+YILR+WS+V+ GTTA QK LFFN Sbjct: 76 VQEGNVGLMQAASRFEPDREVRFSTYAAWWIRSAMQDYILRNWSIVRTGTTAAQKSLFFN 135 Query: 139 LRRLKGHLQAITDNN----LKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LRRL+ + + T N L E IA +L V +EV +M RL+G D+SLN + + Sbjct: 136 LRRLRAKIDSATQNGSGAPLTKEGREWIAGELRVEVAEVEAMEMRLSGADQSLNTPV--A 193 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + WQD+L E V+I + R L ++ L+PRER I RRL+E Sbjct: 194 DGSDDDWQDFLADQRPSPEDVVIGMRDANTRSQWLAEALGELSPRERTIIRERRLREEGA 253 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 TLE L E VS+ERVRQ+E RA K+++S+ K+VE S Sbjct: 254 TLEELGRELGVSKERVRQLEHRALLKLRQSMLKRVEDSDD 293 >gi|209965454|ref|YP_002298369.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] gi|209958920|gb|ACI99556.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] Length = 307 Score = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 122/292 (41%), Positives = 176/292 (60%), Gaps = 4/292 (1%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 MS+ L Y + + PML+ EE +LA+ + E D A RLV SH+RL VKIA Sbjct: 4 MSVFSESIDVLRAYTAQANRHPMLDPAEEQMLARAWAERQDRKAFDRLVRSHMRLAVKIA 63 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GLP+ +++SE NIGL++AV++FDP+RGFRLATY++WWI+A +Q Y+L +WS++K Sbjct: 64 SKYARSGLPMGDLISEANIGLVKAVQRFDPDRGFRLATYALWWIRAEVQTYVLHNWSMLK 123 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD-E 184 G TA KRLFFNLR+ + L I D + E+ +A +L S EV M R A Sbjct: 124 GGNTAALKRLFFNLRQTQRRL-GIQDRIMSDEEADRVADELGASVDEVREMEHRFATPVT 182 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLN + + + D L + + E L EK E R+ ++ ++ L RER IF Sbjct: 183 SLNVPVGEDGDHEA--LDLLADETETVEVRLAEKSELAVRKALMVDALGALGDRERHIFV 240 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 +R L + PVTLE L+ ++ VS+ER+RQIE+ A+KKV ++ E S++P L Sbjct: 241 SRNLTDQPVTLETLAQQYGVSKERIRQIESGAYKKVARRVRGAAEASAAPIL 292 >gi|294670676|ref|ZP_06735551.1| hypothetical protein NEIELOOT_02398 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291307564|gb|EFE48807.1| hypothetical protein NEIELOOT_02398 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 287 Score = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 119/283 (42%), Positives = 183/283 (64%), Gaps = 9/283 (3%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 + +G L +YIH + IP+L +EE+ LA+R + GD+ AA +L+ SHLR+VV IA GY Sbjct: 11 VPSGHGSLDQYIHTVNSIPLLTPEEEHNLAER-KMRGDVEAAKQLILSHLRVVVSIARGY 69 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGL ++++ EGNIGLM+AVK+++P+RG RL ++++ WIKA + E+ILR+W LV++ T Sbjct: 70 DGYGLNQADLIQEGNIGLMKAVKRYEPDRGARLFSFAVHWIKAEIHEFILRNWRLVRVAT 129 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 T Q++LFFNLR ++ L A L P++ AIA L V SEV+ M R+ G + Sbjct: 130 TKPQRKLFFNLRSMRKSLSA-----LSPKEAQAIADDLGVKLSEVLEMEQRMTGKDVALL 184 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARR 247 NS D ++ DWL DHD + IE++ + L +++ L+ R RRI E R Sbjct: 185 ADNSDDDDNFAPIDWLA-DHDNEPTRQIERKAHYTLQTEGLQNALAKLDDRSRRIVETRW 243 Query: 248 LQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 244 LQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLRTFLAEETE 286 >gi|221199969|ref|ZP_03573012.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2M] gi|221206876|ref|ZP_03579888.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2] gi|221173531|gb|EEE05966.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2] gi|221180208|gb|EEE12612.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2M] Length = 311 Score = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 119/283 (42%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A YRE+ +L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERQYATEYRENNNLEAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGMQAMT-----PEEIDGLAQELNVKREEVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|15676610|ref|NP_273754.1| RNA polymerase factor sigma-32 [Neisseria meningitidis MC58] gi|7225940|gb|AAF41127.1| RNA polymerase sigma-32 factor [Neisseria meningitidis MC58] Length = 290 Score = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 121/286 (42%), Positives = 186/286 (65%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + +IPML ++EE LA+R + GDL+AA +L+ SHLR+VV IA Sbjct: 10 LPAIQSGNGSLEQYIHTVNRIPMLTQEEETRLAER-QHKGDLNAAKQLILSHLRVVVSIA 68 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 69 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 128 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 129 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 183 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 184 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 242 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 243 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 288 >gi|113866384|ref|YP_724873.1| RNA polymerase factor sigma-32 [Ralstonia eutropha H16] gi|113525160|emb|CAJ91505.1| DNA-directed RNA polymerase sigma subunit (RpoH) [Ralstonia eutropha H16] Length = 308 Score = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 120/276 (43%), Positives = 172/276 (62%), Gaps = 12/276 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L +EE LA+ R+H + AA ++V SHLRLVV IA Y GYGLP Sbjct: 36 LDSYIQAVHRIPLLTAEEEQRLARELRDHDSVDAARQMVMSHLRLVVSIARQYLGYGLPH 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP++G RL +Y+M WIKA + EY+L++W +VK+ TT Q++L Sbjct: 96 ADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYVLKNWRMVKVATTKAQRKL 155 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSSD 194 FFNLR K T PEQV A+A++LNV EV+ M RL+ GD +L I+ + Sbjct: 156 FFNLRSHKQGAHTFT-----PEQVEAVARELNVKPEEVMEMETRLSGGDLALEGQIDDGE 210 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ----- 249 + + +L +H+ +VL K + + L ++ L+ R RRI EAR L Sbjct: 211 EEFAPIA-YLADNHNEPTRVLEAKRHDRMQVEGLEEALGKLDERSRRIIEARWLHVEDDG 269 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL L+ EF VS ER+RQIEA A KK++ ++Q Sbjct: 270 SGGSTLHELADEFGVSAERIRQIEAAAMKKMKGALQ 305 >gi|220921709|ref|YP_002497010.1| RNA polymerase factor sigma-32 [Methylobacterium nodulans ORS 2060] gi|219946315|gb|ACL56707.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium nodulans ORS 2060] Length = 293 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 111/262 (42%), Positives = 173/262 (66%), Gaps = 1/262 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R+++ D A HRL+++H+RLV+ +A +R YGLP++++V EG++GL Sbjct: 19 PFLEREEERGLAVRWKDERDEQALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGL 78 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 79 MEAAARFEPERDVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARL 138 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 TD + E IA + VS +V M+ RL+G D SLNA I S++ D+LV Sbjct: 139 MQSTDERVGDEIHSRIATAIGVSREDVALMDARLSGPDMSLNAPITDEGDASAERVDFLV 198 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 ++ + + + + R L ++++VL+ RE RI RRL E+ TLE L +S Sbjct: 199 DTSPLPDEAVSDAVDGERRLTWLRQALTVLSERELRILHERRLAEDQATLEALGHRLGIS 258 Query: 266 RERVRQIEARAFKKVQESIQKQ 287 +ERVRQIE RA +K++ ++ ++ Sbjct: 259 KERVRQIENRALEKLRRALAER 280 >gi|163748787|ref|ZP_02156039.1| RNA polymerase sigma factor [Shewanella benthica KT99] gi|161331561|gb|EDQ02366.1| RNA polymerase sigma factor [Shewanella benthica KT99] Length = 286 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 115/284 (40%), Positives = 178/284 (62%), Gaps = 10/284 (3%) Query: 6 MSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 M+++V +G L Y+H I MLE +EY LAKR +E GD+ AA +L+ SHLR VV + Sbjct: 8 MALVVPHGSGSLEAYVHSAHNISMLEADQEYELAKRLQETGDIQAAKQLIMSHLRFVVHV 67 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+L++W +V Sbjct: 68 AKGYAGYGLPQADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWIKAEIHEYVLKNWRIV 127 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+ TT Q++LFFNLR+ K L +D +V +A+ L VS+++V M R+A + Sbjct: 128 KVATTKAQRKLFFNLRKAKKRLGWFSD-----AEVGMVAENLGVSKADVTEMESRMAAQD 182 Query: 185 SLNALINSSDKNSSQWQDWL-VYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 L++ SD + + L + DH D QV + E N+ +L ++ L+ R + Sbjct: 183 PAFDLVSDSDDDIQDYAPALYLEDHSSDLASQVETDNLEASNQTRLLA-AIKTLDERSQH 241 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +AR L E+ TL+ L++ ++VS ER+RQ+E A K++ I+ Sbjct: 242 ILQARWLNEDKTTLQELAATYQVSAERIRQLEKNAMNKLKGCIE 285 >gi|255068324|ref|ZP_05320179.1| alternative sigma factor RpoH [Neisseria sicca ATCC 29256] gi|261365915|ref|ZP_05978798.1| alternative sigma factor RpoH [Neisseria mucosa ATCC 25996] gi|255047443|gb|EET42907.1| alternative sigma factor RpoH [Neisseria sicca ATCC 29256] gi|288565493|gb|EFC87053.1| alternative sigma factor RpoH [Neisseria mucosa ATCC 25996] Length = 287 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 120/286 (41%), Positives = 186/286 (65%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + +I +G L +YIH + IPML +EE LA+R ++ GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPVIHSGNGSLEQYIHTVNSIPMLTPEEESQLAER-QQKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVMEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 N+ D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 AIMADNNDDEDSFAPIDWLA-DHDAEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 285 >gi|161869654|ref|YP_001598821.1| RNA polymerase factor sigma-32 [Neisseria meningitidis 053442] gi|161595207|gb|ABX72867.1| RNA polymerase sigma-32 factor [Neisseria meningitidis 053442] gi|316983693|gb|EFV62674.1| alternative sigma factor RpoH [Neisseria meningitidis H44/76] gi|325140133|gb|EGC62662.1| alternative sigma factor RpoH [Neisseria meningitidis CU385] gi|325200603|gb|ADY96058.1| alternative sigma factor RpoH [Neisseria meningitidis H44/76] Length = 287 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 121/286 (42%), Positives = 186/286 (65%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + +IPML ++EE LA+R + GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPAIQSGNGSLEQYIHTVNRIPMLTQEEETRLAER-QHKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 285 >gi|297250602|ref|ZP_06934149.1| alternative sigma factor RpoH [Neisseria polysaccharea ATCC 43768] gi|296838520|gb|EFH22458.1| alternative sigma factor RpoH [Neisseria polysaccharea ATCC 43768] Length = 290 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 123/290 (42%), Positives = 186/290 (64%), Gaps = 9/290 (3%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+V Sbjct: 6 NAFALPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVV 64 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W Sbjct: 65 VSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNW 124 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LV++ TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ Sbjct: 125 RLVRVATTKPQRKLFFNLRSMRKNL-----NALSPKEAQEIADDLGVKLSEVLEMEQRMT 179 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRER 240 G + NS D++S DWL DHD + + K+ + L +++ L+ R R Sbjct: 180 GHDIAIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSR 238 Query: 241 RIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RI E+R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 239 RIVESRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 288 >gi|325518946|gb|EGC98485.1| RNA polymerase factor sigma-32 [Burkholderia sp. TJI49] Length = 311 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 120/283 (42%), Positives = 177/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G L YI + +IP+L +EE A ++RE +L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNLDAYIQAVNRIPLLTAEEERQYATQFREDNNLDAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRTVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +AK+LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGVQAMT-----PEEIDGLAKELNVKREEVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|296161515|ref|ZP_06844320.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. Ch1-1] gi|295888159|gb|EFG67972.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. Ch1-1] Length = 311 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 122/285 (42%), Positives = 175/285 (61%), Gaps = 13/285 (4%) Query: 7 SIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S ++ G++G + YI + +IPML EE A +RE +L +A RLV SHLRLVV IA Sbjct: 29 SSLLPGQLGNIDAYIQAVNRIPMLTPAEERQFATEFREQDNLESARRLVLSHLRLVVSIA 88 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK Sbjct: 89 RNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVK 148 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 + TT Q++LFFNLR K L A T P+++ +AK+LNV EV M RL+ GD Sbjct: 149 VATTKAQRKLFFNLRSHKQGLGAFT-----PDEIEGLAKELNVKREEVSEMETRLSGGDI 203 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L + +++ + +L H VL ++ K + + + ++ L+ R RRI E Sbjct: 204 ALEGQVEDGEESYAPIA-YLADSHSEPTAVLASRQRDKLQSDGIASALDALDARSRRIIE 262 Query: 245 ARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L+ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 263 ARWLKVEDDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGAL 307 >gi|254804595|ref|YP_003082816.1| RNA polymerase sigma subunit [Neisseria meningitidis alpha14] gi|254668137|emb|CBA04749.1| RNA polymerase sigma subunit [Neisseria meningitidis alpha14] gi|254669711|emb|CBA03845.1| RNA polymerase sigma-32 factor [Neisseria meningitidis alpha153] gi|308388900|gb|ADO31220.1| putative RNA polymerase sigma-32 factor [Neisseria meningitidis alpha710] gi|319410084|emb|CBY90418.1| RNA polymerase sigma factor RpoH (Sigma-32) [Neisseria meningitidis WUE 2594] gi|325127782|gb|EGC50690.1| alternative sigma factor RpoH [Neisseria meningitidis N1568] gi|325129864|gb|EGC52669.1| alternative sigma factor RpoH [Neisseria meningitidis OX99.30304] gi|325131835|gb|EGC54535.1| alternative sigma factor RpoH [Neisseria meningitidis M6190] gi|325133774|gb|EGC56430.1| alternative sigma factor RpoH [Neisseria meningitidis M13399] gi|325136066|gb|EGC58676.1| alternative sigma factor RpoH [Neisseria meningitidis M0579] gi|325137885|gb|EGC60460.1| alternative sigma factor RpoH [Neisseria meningitidis ES14902] gi|325141969|gb|EGC64407.1| alternative sigma factor RpoH [Neisseria meningitidis 961-5945] gi|325144085|gb|EGC66393.1| alternative sigma factor RpoH [Neisseria meningitidis M01-240013] gi|325197931|gb|ADY93387.1| alternative sigma factor RpoH [Neisseria meningitidis G2136] gi|325203799|gb|ADY99252.1| alternative sigma factor RpoH [Neisseria meningitidis M01-240355] gi|325206445|gb|ADZ01898.1| alternative sigma factor RpoH [Neisseria meningitidis M04-240196] Length = 287 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 185/286 (64%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 285 >gi|34499661|ref|NP_903876.1| RNA polymerase factor sigma-32 [Chromobacterium violaceum ATCC 12472] gi|34105511|gb|AAQ61866.1| RNA polymerase sigma-32 factor [Chromobacterium violaceum ATCC 12472] Length = 287 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 116/276 (42%), Positives = 175/276 (63%), Gaps = 7/276 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +YI + IPML ++E LA R+++ DL AA ++V SHLR+VV ++ GY GYGL Sbjct: 16 LEQYIQAVNSIPMLTPEQETELATRFQQENDLEAARQMVLSHLRVVVSVSRGYAGYGLQQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+P RG RL ++++ WIKA + E+ILR+W LV+I TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKRFEPGRGVRLFSFAIHWIKAEIHEFILRNWRLVRIATTKPQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K A+++ K +IA+ L V EV M R+ G + ++ L +S D+ Sbjct: 136 FFNLRSMKSGFSALSEQEAK-----SIAEDLGVKPEEVREMEIRMTG-QDVSLLADSDDE 189 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP-VT 254 +S DWL H + L + + L ++S L+PR RRI EAR L ++ T Sbjct: 190 DSYAPIDWLADSHSEPTRALERRAFDMLQSEGLEYALSTLDPRSRRIVEARWLADDSGAT 249 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 L L++EF VS ER+RQIEA+A K++ ++ + V L Sbjct: 250 LHELAAEFGVSAERIRQIEAKALSKMKAALSEGVVL 285 >gi|121634509|ref|YP_974754.1| RNA polymerase factor sigma-32 [Neisseria meningitidis FAM18] gi|218767834|ref|YP_002342346.1| RNA polymerase factor sigma-32 [Neisseria meningitidis Z2491] gi|120866215|emb|CAM09955.1| putative RNA polymerase sigma-32 factor [Neisseria meningitidis FAM18] gi|121051842|emb|CAM08148.1| putative RNA polymerase sigma-32 factor [Neisseria meningitidis Z2491] gi|261392916|emb|CAX50501.1| RNA polymerase sigma factor RpoH (Sigma-32) [Neisseria meningitidis 8013] Length = 290 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 185/286 (64%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 10 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 68 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 69 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 128 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 129 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 183 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 184 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 242 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 243 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 288 >gi|304387988|ref|ZP_07370160.1| DNA-directed RNA polymerase sigma subunit RpoH [Neisseria meningitidis ATCC 13091] gi|304337987|gb|EFM04125.1| DNA-directed RNA polymerase sigma subunit RpoH [Neisseria meningitidis ATCC 13091] Length = 290 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 185/286 (64%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 10 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 68 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 69 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 128 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 129 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 183 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 184 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 242 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 243 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEKAE 288 >gi|83718896|ref|YP_441014.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis E264] gi|167579742|ref|ZP_02372616.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis TXDOH] gi|167617818|ref|ZP_02386449.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis Bt4] gi|257140333|ref|ZP_05588595.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis E264] gi|83652721|gb|ABC36784.1| RNA polymerase sigma-32 factor [Burkholderia thailandensis E264] Length = 311 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 121/283 (42%), Positives = 175/283 (61%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A YRE L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERQYATEYREQNSLDAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K QA T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGTQAFT-----PEEIDGLAQELNVKREEVAEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I+ +++ + +L H+ VL ++ + + + R++ L+ R RRI EAR Sbjct: 206 EGQIDDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIARALDSLDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|157963788|ref|YP_001503822.1| RNA polymerase factor sigma-32 [Shewanella pealeana ATCC 700345] gi|157848788|gb|ABV89287.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella pealeana ATCC 700345] Length = 285 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 114/285 (40%), Positives = 181/285 (63%), Gaps = 9/285 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M+++V G L Y+H IPMLE +EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALMVPQSSGSLESYVHSAHNIPMLEADKEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L +D+ +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNLRKAKKRLGWFSDS-----EVGMVAESLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L + +D + DH D QV + E+ N+ +L+ ++ L+ R + Sbjct: 181 QDPAFDLASDNDDEQDYAPMHYLEDHSSDLASQVENDNWEQNNQARLLS-AIKTLDERSQ 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +AR L E+ TL++L++ ++VS ER+RQ+E A K++ ++ Sbjct: 240 HILKARWLDEDKTTLQDLAATYQVSAERIRQLEKNAMNKLKGCME 284 >gi|53724102|ref|YP_104622.1| RNA polymerase factor sigma-32 [Burkholderia mallei ATCC 23344] gi|121598782|ref|YP_991458.1| RNA polymerase factor sigma-32 [Burkholderia mallei SAVP1] gi|124383719|ref|YP_001027464.1| RNA polymerase factor sigma-32 [Burkholderia mallei NCTC 10229] gi|126449925|ref|YP_001082430.1| RNA polymerase factor sigma-32 [Burkholderia mallei NCTC 10247] gi|167001066|ref|ZP_02266867.1| alternative sigma factor RpoH [Burkholderia mallei PRL-20] gi|238561338|ref|ZP_00442201.2| alternative sigma factor RpoH [Burkholderia mallei GB8 horse 4] gi|254175044|ref|ZP_04881705.1| alternative sigma factor RpoH [Burkholderia mallei ATCC 10399] gi|254201710|ref|ZP_04908074.1| alternative sigma factor RpoH [Burkholderia mallei FMH] gi|254207043|ref|ZP_04913394.1| alternative sigma factor RpoH [Burkholderia mallei JHU] gi|254357524|ref|ZP_04973798.1| alternative sigma factor RpoH [Burkholderia mallei 2002721280] gi|52427525|gb|AAU48118.1| RNA polymerase sigma-32 factor [Burkholderia mallei ATCC 23344] gi|121227592|gb|ABM50110.1| alternative sigma factor RpoH [Burkholderia mallei SAVP1] gi|124291739|gb|ABN01008.1| RNA polymerase sigma-32 factor [Burkholderia mallei NCTC 10229] gi|126242795|gb|ABO05888.1| alternative sigma factor RpoH [Burkholderia mallei NCTC 10247] gi|147747604|gb|EDK54680.1| alternative sigma factor RpoH [Burkholderia mallei FMH] gi|147752585|gb|EDK59651.1| alternative sigma factor RpoH [Burkholderia mallei JHU] gi|148026588|gb|EDK84673.1| alternative sigma factor RpoH [Burkholderia mallei 2002721280] gi|160696089|gb|EDP86059.1| alternative sigma factor RpoH [Burkholderia mallei ATCC 10399] gi|238524810|gb|EEP88241.1| alternative sigma factor RpoH [Burkholderia mallei GB8 horse 4] gi|243063136|gb|EES45322.1| alternative sigma factor RpoH [Burkholderia mallei PRL-20] Length = 311 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 120/283 (42%), Positives = 175/283 (61%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G +G + YI + +IP+L +EE A YRE +L AA RLV SHLRLVV +A Sbjct: 31 MLPGHLGNIDAYIQAVNRIPLLSAEEERQYATEYREQNNLDAARRLVLSHLRLVVSVARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K QA T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGTQAFT-----PEEIDGLAQELNVKREEVAEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I+ +++ + +L H+ VL ++ + + + R++ L+ R RRI EAR Sbjct: 206 EGQIDDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIARALESLDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|53718144|ref|YP_107130.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei K96243] gi|76812253|ref|YP_332145.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 1710b] gi|126441976|ref|YP_001057600.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 668] gi|126453430|ref|YP_001064846.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 1106a] gi|134279764|ref|ZP_01766476.1| alternative sigma factor RpoH [Burkholderia pseudomallei 305] gi|167717993|ref|ZP_02401229.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei DM98] gi|167737009|ref|ZP_02409783.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 14] gi|167814118|ref|ZP_02445798.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 91] gi|167822644|ref|ZP_02454115.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 9] gi|167844214|ref|ZP_02469722.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei B7210] gi|167892724|ref|ZP_02480126.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 7894] gi|167901220|ref|ZP_02488425.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei NCTC 13177] gi|167909437|ref|ZP_02496528.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 112] gi|167917468|ref|ZP_02504559.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei BCC215] gi|217419877|ref|ZP_03451383.1| alternative sigma factor RpoH [Burkholderia pseudomallei 576] gi|226199497|ref|ZP_03795054.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pakistan 9] gi|237810751|ref|YP_002895202.1| alternative sigma factor RpoH [Burkholderia pseudomallei MSHR346] gi|242316271|ref|ZP_04815287.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1106b] gi|254181885|ref|ZP_04888482.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1655] gi|254187820|ref|ZP_04894332.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pasteur 52237] gi|254196825|ref|ZP_04903249.1| alternative sigma factor RpoH [Burkholderia pseudomallei S13] gi|254260127|ref|ZP_04951181.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1710a] gi|254296064|ref|ZP_04963521.1| alternative sigma factor RpoH [Burkholderia pseudomallei 406e] gi|52208558|emb|CAH34494.1| RNA polymerase sigma-32 factor [Burkholderia pseudomallei K96243] gi|76581706|gb|ABA51181.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1710b] gi|126221469|gb|ABN84975.1| alternative sigma factor RpoH [Burkholderia pseudomallei 668] gi|126227072|gb|ABN90612.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1106a] gi|134248964|gb|EBA49046.1| alternative sigma factor RpoH [Burkholderia pseudomallei 305] gi|157805888|gb|EDO83058.1| alternative sigma factor RpoH [Burkholderia pseudomallei 406e] gi|157935500|gb|EDO91170.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pasteur 52237] gi|169653568|gb|EDS86261.1| alternative sigma factor RpoH [Burkholderia pseudomallei S13] gi|184212423|gb|EDU09466.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1655] gi|217397181|gb|EEC37197.1| alternative sigma factor RpoH [Burkholderia pseudomallei 576] gi|225928378|gb|EEH24408.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pakistan 9] gi|237503746|gb|ACQ96064.1| alternative sigma factor RpoH [Burkholderia pseudomallei MSHR346] gi|242139510|gb|EES25912.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1106b] gi|254218816|gb|EET08200.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1710a] Length = 311 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 120/283 (42%), Positives = 175/283 (61%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G +G + YI + +IP+L +EE A YRE +L AA RLV SHLRLVV +A Sbjct: 31 MLPGHLGNIDAYIQAVNRIPLLSAEEERQYATEYREQNNLDAARRLVLSHLRLVVSVARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K QA T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGTQAFT-----PEEIDGLAQELNVKREEVAEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I+ +++ + +L H+ VL ++ + + + R++ L+ R RRI EAR Sbjct: 206 EGQIDDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIARALESLDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|91781700|ref|YP_556906.1| RNA polymerase factor sigma-32 [Burkholderia xenovorans LB400] gi|91685654|gb|ABE28854.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia xenovorans LB400] Length = 307 Score = 216 bits (551), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 122/285 (42%), Positives = 175/285 (61%), Gaps = 13/285 (4%) Query: 7 SIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S ++ G++G + YI + +IPML EE A +RE +L +A RLV SHLRLVV IA Sbjct: 25 SSLLPGQLGNIDAYIQAVNRIPMLTPAEERQFATEFREQDNLESARRLVLSHLRLVVSIA 84 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK Sbjct: 85 RNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVK 144 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 + TT Q++LFFNLR K L A T P+++ +AK+LNV EV M RL+ GD Sbjct: 145 VATTKAQRKLFFNLRSHKQGLGAFT-----PDEIEGLAKELNVKREEVSEMETRLSGGDI 199 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L + +++ + +L H VL ++ K + + + ++ L+ R RRI E Sbjct: 200 ALEGQVEDGEESYAPIA-YLADSHSEPTAVLASRQRDKLQSDGIASALDALDARSRRIIE 258 Query: 245 ARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L+ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 259 ARWLKVEDDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGAL 303 >gi|187922577|ref|YP_001894219.1| RNA polymerase factor sigma-32 [Burkholderia phytofirmans PsJN] gi|187713771|gb|ACD14995.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia phytofirmans PsJN] Length = 311 Score = 216 bits (551), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 123/285 (43%), Positives = 173/285 (60%), Gaps = 13/285 (4%) Query: 7 SIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S ++ G++G + YI + +IPML EE A +RE +L +A RLV SHLRLVV IA Sbjct: 29 SSLLPGQLGNIDAYIQAVNRIPMLTPAEERQFATEFREQDNLESARRLVLSHLRLVVSIA 88 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYILR+W +VK Sbjct: 89 RNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILRNWRMVK 148 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 + TT Q++LFFNLR K L A T P+Q+ +AK+LNV EV M RL+ GD Sbjct: 149 VATTKAQRKLFFNLRSHKQGLGAFT-----PDQIDDLAKELNVKREEVSEMETRLSGGDI 203 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L + ++ + +L H VL ++ K + + ++ L+ R RRI E Sbjct: 204 ALEGQVEDGEEAYAPIA-YLADSHSEPTAVLASRQRDKLHSDGIASALDALDARSRRIIE 262 Query: 245 ARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L+ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 263 ARWLKVEDDGSGGSTLHELADEFGVSAERIRQIEASAMKKMRGAL 307 >gi|261377878|ref|ZP_05982451.1| alternative sigma factor RpoH [Neisseria cinerea ATCC 14685] gi|269145731|gb|EEZ72149.1| alternative sigma factor RpoH [Neisseria cinerea ATCC 14685] Length = 290 Score = 216 bits (551), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 123/290 (42%), Positives = 185/290 (63%), Gaps = 9/290 (3%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N + I +G L +YIH + IPML EE LA+R R+ GDL+AA +L+ SHLR+V Sbjct: 6 NAFALPAIQSGNGSLEQYIHTVNSIPMLTLDEETHLAERQRK-GDLNAAKQLILSHLRVV 64 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W Sbjct: 65 VSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNW 124 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LV++ TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ Sbjct: 125 RLVRVATTKPQRKLFFNLRSMRKNL-----NALSPKEAQEIADDLGVKLSEVLEMEQRMT 179 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRER 240 G + NS D++S DWL DHD + + K+ + L +++ L+ R R Sbjct: 180 GHDIAIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSR 238 Query: 241 RIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RI E+R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 239 RIVESRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 288 >gi|170724574|ref|YP_001758600.1| RNA polymerase factor sigma-32 [Shewanella woodyi ATCC 51908] gi|169809921|gb|ACA84505.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella woodyi ATCC 51908] Length = 283 Score = 216 bits (551), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 115/284 (40%), Positives = 178/284 (62%), Gaps = 9/284 (3%) Query: 1 MNRKNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 M ++M++ V +G L Y+H I MLE ++EY LAKR +E GDL AA +L+ SHLR Sbjct: 1 MTNQSMALTVPHGSGSLEAYVHSAHNISMLEPEQEYELAKRLQETGDLQAAKQLIMSHLR 60 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 VV +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L+ Sbjct: 61 FVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLK 120 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 +W +VK+ TT Q++LFFNLR+ K L +D E+V +A L VS+++V M R Sbjct: 121 NWRIVKVATTKAQRKLFFNLRKSKKRLGWFSD-----EEVGMVADNLGVSKADVTEMESR 175 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 +A + L + +D + + DH D QV + E N+ +L+ ++ L+ Sbjct: 176 MAAQDPAFDLASDNDDDQDFSPVHYLEDHSSDLASQVENDNLESNNQARLLS-AIKTLDE 234 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + I +AR L E+ TL+ L++ ++VS ER+RQ+E A K++ Sbjct: 235 RSQHILQARWLNEDKTTLQELAATYQVSAERIRQLEKNAMNKLK 278 >gi|221211178|ref|ZP_03584157.1| alternative sigma factor RpoH [Burkholderia multivorans CGD1] gi|221168539|gb|EEE01007.1| alternative sigma factor RpoH [Burkholderia multivorans CGD1] Length = 281 Score = 216 bits (551), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 119/283 (42%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A YRE+ +L AA RLV SHLRLVV IA Sbjct: 1 MLPGQLGNIDAYIQAVNRIPLLTAEEERQYATEYRENNNLEAARRLVLSHLRLVVSIARN 60 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 61 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 120 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV EV M RL+ GD +L Sbjct: 121 TTKAQRKLFFNLRSHKKGMQAMT-----PEEIDGLAQELNVKREEVTEMETRLSGGDIAL 175 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 176 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 234 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 235 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 277 >gi|240013602|ref|ZP_04720515.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae DGI18] gi|240112396|ref|ZP_04726886.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae MS11] gi|240120672|ref|ZP_04733634.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID24-1] gi|268598456|ref|ZP_06132623.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae MS11] gi|268582587|gb|EEZ47263.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae MS11] Length = 290 Score = 216 bits (551), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 185/286 (64%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 10 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 68 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 69 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 128 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 129 VATTKPQRKLFFNLRSMRKNL-----NVLSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 183 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 184 AIMTDNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 242 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 243 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 288 >gi|317163755|gb|ADV07296.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae TCDC-NG08107] Length = 287 Score = 216 bits (550), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 185/286 (64%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NVLSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 285 >gi|161523666|ref|YP_001578678.1| RNA polymerase factor sigma-32 [Burkholderia multivorans ATCC 17616] gi|189351565|ref|YP_001947193.1| RNA polymerase factor sigma-32 [Burkholderia multivorans ATCC 17616] gi|160341095|gb|ABX14181.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia multivorans ATCC 17616] gi|189335587|dbj|BAG44657.1| RNA polymerase sigma-32 factor [Burkholderia multivorans ATCC 17616] Length = 311 Score = 216 bits (550), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 118/283 (41%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A YRE+ +L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERQYATEYRENNNLEAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV +V M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGMQAMT-----PEEIDGLAQELNVKREDVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|21233199|ref|NP_639116.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66770141|ref|YP_244903.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. campestris str. 8004] gi|188993348|ref|YP_001905358.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. campestris str. B100] gi|3046929|gb|AAC38329.1| heat shock sigma factor 32 [Xanthomonas campestris pv. campestris] gi|21115547|gb|AAM43471.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66575473|gb|AAY50883.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. campestris str. 8004] gi|167735108|emb|CAP53320.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. campestris] Length = 291 Score = 216 bits (550), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 121/272 (44%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 23 LDAYIGAVHQIPVLSVDEEQNLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDPE G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 143 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 194 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 195 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDTRSRDIVKRRWLDS 254 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 255 ESKVTLQELADEYGVSAERIRQIEANALKKMK 286 >gi|59800736|ref|YP_207448.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA 1090] gi|194098013|ref|YP_002001061.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae NCCP11945] gi|239998477|ref|ZP_04718401.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 35/02] gi|240016041|ref|ZP_04722581.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA6140] gi|240080183|ref|ZP_04724726.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA19] gi|240115137|ref|ZP_04729199.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID18] gi|240117420|ref|ZP_04731482.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID1] gi|240122976|ref|ZP_04735932.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID332] gi|240125228|ref|ZP_04738114.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-92-679] gi|240127682|ref|ZP_04740343.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-93-1035] gi|254493195|ref|ZP_05106366.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 1291] gi|260441046|ref|ZP_05794862.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae DGI2] gi|268594335|ref|ZP_06128502.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 35/02] gi|268596331|ref|ZP_06130498.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA19] gi|268600810|ref|ZP_06134977.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID18] gi|268603115|ref|ZP_06137282.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID1] gi|268681596|ref|ZP_06148458.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID332] gi|268683824|ref|ZP_06150686.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-92-679] gi|268686066|ref|ZP_06152928.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-93-1035] gi|291044379|ref|ZP_06570088.1| RNA polymerase sigma factor [Neisseria gonorrhoeae DGI2] gi|293399564|ref|ZP_06643717.1| alternative sigma factor RpoH [Neisseria gonorrhoeae F62] gi|59717631|gb|AAW89036.1| putative RNA polymerase sigma-32 [Neisseria gonorrhoeae FA 1090] gi|193933303|gb|ACF29127.1| RNA polymerase sigma factor [Neisseria gonorrhoeae NCCP11945] gi|226512235|gb|EEH61580.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 1291] gi|268547724|gb|EEZ43142.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 35/02] gi|268550119|gb|EEZ45138.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA19] gi|268584941|gb|EEZ49617.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID18] gi|268587246|gb|EEZ51922.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID1] gi|268621880|gb|EEZ54280.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID332] gi|268624108|gb|EEZ56508.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-92-679] gi|268626350|gb|EEZ58750.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-93-1035] gi|291011273|gb|EFE03269.1| RNA polymerase sigma factor [Neisseria gonorrhoeae DGI2] gi|291610133|gb|EFF39255.1| alternative sigma factor RpoH [Neisseria gonorrhoeae F62] Length = 290 Score = 216 bits (550), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 185/286 (64%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 10 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 68 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 69 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 128 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 129 VATTKPQRKLFFNLRSMRKNL-----NVLSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 183 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 184 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 242 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 243 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 288 >gi|170742915|ref|YP_001771570.1| RNA polymerase factor sigma-32 [Methylobacterium sp. 4-46] gi|168197189|gb|ACA19136.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium sp. 4-46] Length = 293 Score = 216 bits (550), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 111/262 (42%), Positives = 173/262 (66%), Gaps = 1/262 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R+++ D A HRL+++H+RLV+ +A +R YGLP++++V EG++GL Sbjct: 19 PFLEREEERGLAVRWKDKRDEQALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGL 78 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 79 MEAAARFEPERDVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARL 138 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLV 205 TD + E IA + VS +V M+ RL+G D SLNA I S++ D+LV Sbjct: 139 MQSTDERVGDEIHRRIATAIGVSREDVALMDARLSGPDMSLNAPITDEGDASAERVDFLV 198 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 ++ + + + + R L ++++VL+ RE RI RRL E+ TLE L +S Sbjct: 199 DTSPLPDEAVSDAVDGERRLTWLRQALTVLSERELRILHERRLAEDQATLEALGHRLGIS 258 Query: 266 RERVRQIEARAFKKVQESIQKQ 287 +ERVRQIE RA +K++ ++ ++ Sbjct: 259 KERVRQIENRALEKLRRALAER 280 >gi|325913818|ref|ZP_08176177.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas vesicatoria ATCC 35937] gi|325539893|gb|EGD11530.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas vesicatoria ATCC 35937] Length = 291 Score = 216 bits (550), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 121/272 (44%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 23 LDAYIGAVHQIPVLSVDEEQNLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDPE G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 143 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 194 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 195 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDTRSRDIVKRRWLDS 254 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 255 ESKVTLQELADEYGVSAERIRQIEANALKKMK 286 >gi|325202493|gb|ADY97947.1| alternative sigma factor RpoH [Neisseria meningitidis M01-240149] gi|325207756|gb|ADZ03208.1| alternative sigma factor RpoH [Neisseria meningitidis NZ-05/33] Length = 287 Score = 216 bits (550), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 184/286 (64%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK++ P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYKPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 285 >gi|118579103|ref|YP_900353.1| RNA polymerase sigma-32 subunit RpoH [Pelobacter propionicus DSM 2379] gi|118501813|gb|ABK98295.1| RNA polymerase, sigma 32 subunit, RpoH [Pelobacter propionicus DSM 2379] Length = 282 Score = 216 bits (549), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 117/273 (42%), Positives = 178/273 (65%), Gaps = 5/273 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ EIRK +L ++EE+ A + E DL AAH L+TS+LR VV++A YR YGL + Sbjct: 12 LALYLAEIRKFTLLSEEEEHRTAIAFYEKKDLRAAHTLITSNLRFVVRVAYEYRHYGLKM 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM AVKK++P +G RL +Y++WWI+A +Q +++ +WSL+KIGTT Q++L Sbjct: 72 LDLIQEGNIGLMMAVKKYNPFKGVRLISYAVWWIRAYIQNHVISAWSLLKIGTTQAQRKL 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF LR + AI N + + + A+ LNVS+SEV+ M RL G+ SL+A + + Sbjct: 132 FFKLREAR---NAIRHLNGGEDDLQSTARSLNVSDSEVVEMEQRLRGECSLDAELPGGEG 188 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + D LV D QE++L E + ++ R + ++S LN +ER + E R + P+TL Sbjct: 189 VTG--LDGLVDDRMNQEELLSECQLQRKLRTDVATAVSALNEKERFVIEHRVSADTPLTL 246 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + ++S F +SRERVRQIE A KK++ S+ V Sbjct: 247 QEIASRFSISRERVRQIEEAALKKLKLSLVSAV 279 >gi|187479755|ref|YP_787780.1| RNA polymerase factor sigma-32 [Bordetella avium 197N] gi|115424342|emb|CAJ50895.1| RNA polymerase sigma-32 factor [Bordetella avium 197N] Length = 307 Score = 216 bits (549), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 126/287 (43%), Positives = 181/287 (63%), Gaps = 22/287 (7%) Query: 8 IIVN-GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 ++ N G +G + YI + ++P+L ++E LA+R R+ DL +A LV SHLRLVV +A Sbjct: 30 VVANPGALGTIDAYITTVNRLPVLTAEQESTLARRLRDSDDLESARELVLSHLRLVVSVA 89 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + EYI+R+W LVK Sbjct: 90 RQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYIIRNWRLVK 149 Query: 126 IGTTANQKRLFFNLRRLK--GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 + TT Q++LFFNLR ++ GH L EQV IA++LNV +V M RL+G Sbjct: 150 VATTKAQRKLFFNLRSMRPDGH-------TLDTEQVDHIARELNVRREDVSEMEVRLSGR 202 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM----LTRSMSVLNPR 238 D SL N D + + D +E + ERK R ++ L+ +++ L+PR Sbjct: 203 DLSLE---NQDDDDDGYAPIAYLSDECREEPTRV--LERKARDDLQGKGLSDAITALDPR 257 Query: 239 ERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRI EAR LQ E TL L++EF VS ER+RQIEA A KK++ ++ Sbjct: 258 SRRIVEARWLQDEGGATLHELAAEFGVSAERIRQIEAAALKKMRGAL 304 >gi|254251367|ref|ZP_04944685.1| hypothetical protein BDAG_00552 [Burkholderia dolosa AUO158] gi|124893976|gb|EAY67856.1| hypothetical protein BDAG_00552 [Burkholderia dolosa AUO158] Length = 311 Score = 216 bits (549), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 118/283 (41%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +RE+ +L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERQYATEFRENNNLEAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKSMQAMT-----PEEIDGLAQELNVKREEVAEMETRLSGGDVAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|107023748|ref|YP_622075.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia AU 1054] gi|116690835|ref|YP_836458.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia HI2424] gi|170734160|ref|YP_001766107.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia MC0-3] gi|254247164|ref|ZP_04940485.1| Sigma-70 region 2 [Burkholderia cenocepacia PC184] gi|105893937|gb|ABF77102.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia AU 1054] gi|116648924|gb|ABK09565.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia HI2424] gi|124871940|gb|EAY63656.1| Sigma-70 region 2 [Burkholderia cenocepacia PC184] gi|169817402|gb|ACA91985.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia MC0-3] Length = 311 Score = 216 bits (549), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 118/283 (41%), Positives = 177/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +RE +L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERRYATEFREDNNLDAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKSMQAMT-----PEEIDGLAQELNVKREEVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|167585406|ref|ZP_02377794.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ubonensis Bu] Length = 311 Score = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 118/283 (41%), Positives = 177/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +RE +L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERRYATEFREQNNLDAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGMQAMT-----PEEIDGLAQELNVKREEVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|319940794|ref|ZP_08015133.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] gi|319805676|gb|EFW02457.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] Length = 281 Score = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 120/280 (42%), Positives = 177/280 (63%), Gaps = 13/280 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L ++ + PML +EE LA + R+ DL AA +LV SHLRLV+ IA G+ GYGLP Sbjct: 4 LDAFLRAAERAPMLTAEEEKTLALKLRDQNDLEAAQKLVLSHLRLVISIARGFLGYGLPY 63 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+A++++DP+RG RL T+++ WI++ +QEYI+R+W +VK+ TT NQ++L Sbjct: 64 ADLIQEGNIGLMKAIRRYDPDRGARLMTFAVHWIRSEIQEYIIRNWRIVKLATTKNQRKL 123 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 FFNLR+LK QA N ++ IA L+V EV+ M R+ G E S++ +S D Sbjct: 124 FFNLRQLKEDSQAALTN----QEAQRIALTLDVKPKEVLDMEERMYGQETSIDGPADSDD 179 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQEN-- 251 + DWL D Q + ++E E+R++ L +++ L+PR RR+ EAR L + Sbjct: 180 DDRFSPSDWLTRTSD-QPEAILEAEDRQHLEGEGLQTALAALDPRSRRVIEARYLTVDAD 238 Query: 252 ----PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 PVTL+ L+ E VS ERVRQIE A KK+ E + Q Sbjct: 239 GTAKPVTLQALAHELGVSAERVRQIEKLAIKKMGEKLAGQ 278 >gi|71909448|ref|YP_287035.1| RNA polymerase factor sigma-32 [Dechloromonas aromatica RCB] gi|71849069|gb|AAZ48565.1| RNA polymerase, sigma 32 subunit, RpoH [Dechloromonas aromatica RCB] Length = 286 Score = 215 bits (548), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 118/280 (42%), Positives = 172/280 (61%), Gaps = 8/280 (2%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +++ + +G + YI + PML + EE LA+R GD+ AA +LV SHLRLV+ I Sbjct: 5 LALPIPSSVGNIDAYIQAANRYPMLTEAEESRLAERLHNDGDVEAARQLVLSHLRLVISI 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLP ++++ EGNIGLM+AVK+FDP RG RL +++M WIKA + EYIL++W LV Sbjct: 65 ARGYLGYGLPHADLIQEGNIGLMKAVKRFDPSRGVRLVSFAMHWIKAEIHEYILKNWRLV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+ TT Q++LFFNLR +K + I + L Q +A +L V + EV+ M RL+G + Sbjct: 125 KVATTKAQRKLFFNLRSMKSGYEGI--DTLSGTQAAEVAARLGVKQDEVVEMETRLSGRD 182 Query: 185 SLNALINSSDKNSSQWQ--DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 AL + D + D+L +VL K + + L ++ L+PR RRI Sbjct: 183 I--ALDGNPDDGEEAFAPIDYLADSRYEPTRVLENKAIARLQDEGLHEALEALDPRSRRI 240 Query: 243 FEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 EAR L + TL +L+ EF+VS ER+RQIE +A +K++ Sbjct: 241 IEARWLHDGETATLHDLADEFDVSAERIRQIEVKALQKMR 280 >gi|300705271|ref|YP_003746874.1| RNA polymerase sigma h (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum CFBP2957] gi|299072935|emb|CBJ44291.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum CFBP2957] Length = 306 Score = 215 bits (548), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 121/281 (43%), Positives = 176/281 (62%), Gaps = 12/281 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G +G L YI + ++PML +EE LA+ Y GDL AA RLV SHLRLVV IA Y G Sbjct: 28 GSLGNLDAYIQSVNRVPMLTAEEEQQLARDYHATGDLDAARRLVLSHLRLVVSIARQYLG 87 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGNIGLM+AVK+FDP++G RL +Y++ WIKA M EYIL++W +VK+ TT Sbjct: 88 YGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAIHWIKAEMHEYILKNWRMVKVATTK 147 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K A +++ A+A++LNV +EV M RL+ GD +L Sbjct: 148 AQRKLFFNLRSHKQDAHA----TFTSDEIDAVAQELNVKGAEVREMETRLSGGDIALEGH 203 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I+ +++ + +L H+ +VL + + + + +++ L+ R RRI EAR L Sbjct: 204 IDDGEESFAPIA-YLADTHNEPTRVLETRGHDRLQSEGIETALAKLDDRSRRIIEARWLN 262 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 N TL L+ EF VS ER+RQIE+ A KK++ ++Q Sbjct: 263 VNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMKGALQ 303 >gi|241206826|ref|YP_002977922.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM1325] gi|86450985|gb|ABC96760.1| putative RNA polymerase sigma factor [Rhizobium leguminosarum bv. trifolii TA1] gi|240860716|gb|ACS58383.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 287 Score = 215 bits (548), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 116/263 (44%), Positives = 175/263 (66%), Gaps = 9/263 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 18 PYLARQEEHDLATRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 77 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 78 LEAAARFEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL 137 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 A D L + + IA L VS S+V +M+ RL+G D SL A S D S++ D+L Sbjct: 138 -AKGDTQLTLQSIHQEIAAALGVSLSDVQTMDARLSGNDASLQAPSVSGDAESAEKMDFL 196 Query: 205 VYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D Q +I+ E RR L ++ LN RE +I ARRL E+ TLE L ++ Sbjct: 197 VSDDPLPDEQVSNMIDGE---RRRVWLASALKHLNEREMKIISARRLAEDGATLEELGAD 253 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE+RA +K++ ++ Sbjct: 254 LGISKERVRQIESRAMEKLRSAL 276 >gi|293602894|ref|ZP_06685333.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Achromobacter piechaudii ATCC 43553] gi|292818688|gb|EFF77730.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Achromobacter piechaudii ATCC 43553] Length = 294 Score = 215 bits (547), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 123/287 (42%), Positives = 179/287 (62%), Gaps = 11/287 (3%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N ++I G +G + YI + ++P+L + E L +R R+ DL AA L+ SHLRL Sbjct: 13 NALALAIANPGALGTIDAYISAVNRLPVLSAERETELGRRLRDQEDLGAARELILSHLRL 72 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + EYI+R+ Sbjct: 73 VVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYIIRN 132 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVK+ TT Q++LFFNLR ++ Q L P+QV IA++LNV +V M RL Sbjct: 133 WRLVKVATTKAQRKLFFNLRSMRPDGQ-----TLDPDQVDHIARELNVRREDVSEMEVRL 187 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKNRRNM-LTRSMSVLNPR 238 +G E +L N D + S + D QE ++E+ R ++ LT ++ L+ R Sbjct: 188 SGREM--SLENQDDDDDSFAPIAYLSDDGRQEPTRVLERAARDELQSTGLTTALEALDAR 245 Query: 239 ERRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRI EAR LQ++ TL L+ EF VS ER+RQIEA A KK++ ++ Sbjct: 246 SRRIVEARWLQDDGGATLHELAQEFGVSAERIRQIEAAALKKMRGNL 292 >gi|325924311|ref|ZP_08185855.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas gardneri ATCC 19865] gi|325545176|gb|EGD16486.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas gardneri ATCC 19865] Length = 291 Score = 215 bits (547), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 120/272 (44%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 23 LDAYIGAVHQIPVLSVDEEQNLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDPE G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 143 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 194 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L +S L+ R R I + R L Sbjct: 195 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGLSGLDTRSRDIVKRRWLDS 254 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 255 DSKVTLQELADEYGVSAERIRQIEANALKKMK 286 >gi|116254340|ref|YP_770178.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. viciae 3841] gi|115258988|emb|CAK10097.1| putative rpoH sigma factor [Rhizobium leguminosarum bv. viciae 3841] Length = 304 Score = 215 bits (547), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 116/263 (44%), Positives = 175/263 (66%), Gaps = 9/263 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 35 PYLARQEEHDLATRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 94 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 95 LEAAARFEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL 154 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 A D L + + IA L VS S+V +M+ RL+G D SL A S D S++ D+L Sbjct: 155 -AKGDTQLTLQSIHQEIAAALGVSLSDVQTMDARLSGNDASLQAPSVSGDAESAEKMDFL 213 Query: 205 VYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D Q +I+ E RR L ++ LN RE +I ARRL E+ TLE L ++ Sbjct: 214 VSDDPLPDEQVSNMIDGE---RRRVWLASALKHLNEREMKIISARRLAEDGATLEELGAD 270 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE+RA +K++ ++ Sbjct: 271 LGISKERVRQIESRAMEKLRSAL 293 >gi|85710830|ref|ZP_01041891.1| RNA polymerase sigma factor [Idiomarina baltica OS145] gi|85695234|gb|EAQ33171.1| RNA polymerase sigma factor [Idiomarina baltica OS145] Length = 286 Score = 215 bits (547), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 119/288 (41%), Positives = 184/288 (63%), Gaps = 15/288 (5%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K M++ V GL YI + +IPML ++E LAKR +E DL AA L+ SHLR VV Sbjct: 6 KTMALSVPQGGGLDGYIQSVNRIPMLSAEKEKALAKRLQEDKDLDAAKELIMSHLRFVVH 65 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 66 IARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRV 125 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AG 182 VK+ TT Q++LFFNLR++K L ++V +AK+L VS EV+ M R+ A Sbjct: 126 VKVATTKAQRKLFFNLRKMKKRL-----GWFNQDEVETVAKELGVSSKEVMEMEARMSAH 180 Query: 183 DESLNALINSSDKNSSQWQDW--LVYDHDGQ----EQVLIEKEERKNRRNMLTRSMSVLN 236 D++ ++S D +S + + +Y D + E++ E E ++ + + +MS L+ Sbjct: 181 DQAFE--LSSDDDDSKEGSTYSPAMYLEDKRSDLAEEIETEDYEAHTQKKLFS-AMSELD 237 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I ++R L E+ VTL +L++++EVS ERVRQ+E A KK++ ++ Sbjct: 238 ERSQDIVQSRWLSESKVTLHDLAAKYEVSAERVRQLEQNAMKKLRAAM 285 >gi|226939164|ref|YP_002794235.1| RNA polymerase factor sigma-32 [Laribacter hongkongensis HLHK9] gi|226714088|gb|ACO73226.1| RpoH [Laribacter hongkongensis HLHK9] Length = 282 Score = 214 bits (546), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 115/268 (42%), Positives = 174/268 (64%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +YI + IPML + EE LA+R ++ D+ AA +LV SHLR+VV IA GY GYGLP Sbjct: 16 LDQYIAAVNSIPMLSQDEEQALARRLQQDNDVEAARQLVMSHLRVVVSIARGYAGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+PERG RL ++++ WIKA + E+ILR+W LV++ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKRFEPERGVRLFSFAIHWIKAEIHEFILRNWRLVRVATTKPQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K A++D + IA L V EV M R++G + ++ L +++ Sbjct: 136 FFNLRSMKQGFSALSDTEAR-----QIADDLGVKPEEVREMETRMSG-QDISLLAEDNEE 189 Query: 196 NSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-PV 253 DWL + +Q+ ++ ER R + +++ L+PR RRI EAR L ++ + Sbjct: 190 EGFAPIDWLADTRSEPTKQLEMQAYERLQREG-IEQALQALDPRSRRIIEARWLADDGGL 248 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL +L++EF VS ER+RQIE +A KK++ Sbjct: 249 TLHDLAAEFGVSAERIRQIEVKALKKMK 276 >gi|206559184|ref|YP_002229944.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia J2315] gi|198035221|emb|CAR51095.1| RNA polymerase sigma-32 factor [Burkholderia cenocepacia J2315] Length = 311 Score = 214 bits (546), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 117/283 (41%), Positives = 177/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +R+ +L AA RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERRYATEFRDDNNLDAARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKSMQAMT-----PEEIDGLAQELNVKREEVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|21244548|ref|NP_644130.1| RNA polymerase factor sigma-32 [Xanthomonas axonopodis pv. citri str. 306] gi|21110222|gb|AAM38666.1| RNA polymerase sigma-32 factor [Xanthomonas axonopodis pv. citri str. 306] Length = 291 Score = 214 bits (546), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 23 LDAYIGAVHQIPVLSVDEEQDLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 143 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 194 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 195 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDARSRDIVKRRWLDS 254 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 255 DSKVTLQELADEYGVSAERIRQIEANALKKMK 286 >gi|261380105|ref|ZP_05984678.1| alternative sigma factor RpoH [Neisseria subflava NJ9703] gi|284797325|gb|EFC52672.1| alternative sigma factor RpoH [Neisseria subflava NJ9703] Length = 287 Score = 214 bits (546), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 119/286 (41%), Positives = 186/286 (65%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + +I +G L +YIH + IPML +EE LA+R ++ GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPVIHSGNGSLEQYIHTVNSIPMLTAEEETQLAER-QQKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQEIADDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 N+ D+++ DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 GIMAENNDDEDNFAPIDWLA-DHDAEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 285 >gi|241758558|ref|ZP_04756675.1| alternative sigma factor RpoH [Neisseria flavescens SK114] gi|241321301|gb|EER57461.1| alternative sigma factor RpoH [Neisseria flavescens SK114] Length = 287 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/286 (41%), Positives = 186/286 (65%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + +I +G L +YIH + IPML +EE LA+R ++ GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPVIHSGNGSLEQYIHTVNSIPMLTAEEETQLAER-QQKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQEIANDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 N+ D+++ DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 GIMAENNDDEDNFAPIDWLA-DHDAEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 285 >gi|319945291|ref|ZP_08019553.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Lautropia mirabilis ATCC 51599] gi|319741861|gb|EFV94286.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Lautropia mirabilis ATCC 51599] Length = 298 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 114/275 (41%), Positives = 176/275 (64%), Gaps = 12/275 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE LA+R++EH D+ AA LVTSHLRLVV +A Y GYGLP Sbjct: 26 LDAYISAVNRMPMLSAEEESSLARRFKEHQDVDAARTLVTSHLRLVVSVARQYLGYGLPH 85 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP+R RL ++++ WIKA + EYIL++W LVK+ TT Q++L Sbjct: 86 ADLIQEGNIGLMKAVKRFDPDRSVRLVSFALHWIKAEIHEYILKNWRLVKVATTKAQRKL 145 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K L +T PE V IA++LNV E +V M R+ G E + D+ Sbjct: 146 FFNLRSMKKDLDTLT-----PEAVTDIAEQLNVREKDVTEMETRMTGHE-IALEPQGDDE 199 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKN--RRNMLTRSMSVLNPRERRIFEARRLQE--- 250 + + G E I ++ +++ + L+ +++ L+ R R I ++R L++ Sbjct: 200 EGAGFGPAAYLAAPGSEPTEIIEDRQRDWLQTEGLSNALATLDERSRNIVQSRWLRDEDE 259 Query: 251 -NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L++E+ VS ER+RQIEA+A KK++ ++ Sbjct: 260 GGSRTLQDLANEYGVSAERIRQIEAQAMKKMKAAL 294 >gi|78049505|ref|YP_365680.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|294626531|ref|ZP_06705130.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|294665098|ref|ZP_06730402.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|78037935|emb|CAJ25680.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|292599221|gb|EFF43359.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292605140|gb|EFF48487.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 294 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 26 LDAYIGAVHQIPVLSVDEEQDLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 85 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 86 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 145 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 146 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 197 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 198 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDARSRDIVKRRWLDS 257 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 258 DSKVTLQELADEYGVSAERIRQIEANALKKMK 289 >gi|253997181|ref|YP_003049245.1| RNA polymerase sigma-32 subunit RpoH [Methylotenera mobilis JLW8] gi|253983860|gb|ACT48718.1| RNA polymerase, sigma 32 subunit, RpoH [Methylotenera mobilis JLW8] Length = 285 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 118/277 (42%), Positives = 171/277 (61%), Gaps = 11/277 (3%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ L +Y I+ P+L +EE LA R+++ DL AA +L+ SHLRLV IA GY Sbjct: 9 VLTAADSLDQYTRAIKAYPILSAEEELTLANRFKKENDLEAARQLIVSHLRLVASIARGY 68 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGLP ++++ EGNIGLM+AVK+FDPERG RL +++M WIKA + EYI+R+W LVKI T Sbjct: 69 MGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAMHWIKAEIHEYIVRNWRLVKIAT 128 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 T Q++LFFNLR +K + N ++ ++ IA++LNV EV+ M RL G E + Sbjct: 129 TKAQRKLFFNLRSMKTGI-----NTMQTSEIDHIARELNVKPEEVLEMESRLNGHEI--S 181 Query: 189 LINSSDKNSSQWQDWLVYDHD---GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L ++ D +S + + Y D + L K+ L +++ L+ R RR+ EA Sbjct: 182 LESNIDDDSEEHYSPIAYLQDESLTPPEALEAKQFEMAETTGLASALNHLDERSRRVVEA 241 Query: 246 RRLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R LQE+ TL L+ EF VS ER+RQIE +A K++ Sbjct: 242 RWLQEDASKTLHELADEFGVSAERIRQIEQKAMLKMK 278 >gi|254503566|ref|ZP_05115717.1| RNA polymerase sigma factor, sigma-70 family [Labrenzia alexandrii DFL-11] gi|222439637|gb|EEE46316.1| RNA polymerase sigma factor, sigma-70 family [Labrenzia alexandrii DFL-11] Length = 287 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 108/265 (40%), Positives = 178/265 (67%), Gaps = 9/265 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P L ++EE LA ++R++ D A +L SH+RLV+ +A ++ +GL I +++ EG++ Sbjct: 13 KAPYLTREEELELAIQWRDNKDEKALEKLSLSHMRLVIAVASRFKNFGLNIGDLIQEGHV 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ Sbjct: 73 GLLEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRA 132 Query: 145 HLQA----ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L + +TD+ L + IA + V +S+V MN RL+G D SLNA + ++ +S+ Sbjct: 133 KLSSNQTPLTDSELHQK----IADAIGVKQSDVAVMNARLSGPDTSLNAPVTDTEGSSAD 188 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 QD+LV D ++++ E + + R L ++ VL+ RE +I RRL E+ TLE+L Sbjct: 189 RQDFLVSDAPQPDEIVTENIDAERRNTWLASALDVLSERELKIVRERRLSEDGATLESLG 248 Query: 260 SEFEVSRERVRQIEARAFKKVQESI 284 + +S+ERVRQIE+RA +K++ ++ Sbjct: 249 KKLGISKERVRQIESRALQKLKSAL 273 >gi|110635708|ref|YP_675916.1| RNA polymerase factor sigma-32 [Mesorhizobium sp. BNC1] gi|110286692|gb|ABG64751.1| RNA polymerase, sigma 32 subunit, RpoH [Chelativorans sp. BNC1] Length = 284 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 110/271 (40%), Positives = 174/271 (64%), Gaps = 1/271 (0%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 + I K P L ++EE+ LA +++E D A HR++ +H+RLV+ +A +R +GL +S+ Sbjct: 8 KLIKAAMKAPYLGREEEHELALQWKERQDQQALHRMIMAHMRLVIAMAGKFRNFGLSMSD 67 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EG++GL++A +FDPER R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFF Sbjct: 68 LIQEGHVGLLEAAARFDPEREVRFSTYATWWIRASMQDYILRNWSIVRGGTSSAQKALFF 127 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKN 196 NLRRL+ LQ + +A+ L VSES+V M+ RL A D SLNA + S Sbjct: 128 NLRRLRMKLQKAGGTTPSEDVYREVAQALRVSESDVAMMDSRLAAADASLNAPLRSDSDP 187 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 +S+ D+L+ D ++++ E + + + L +++ LN RE I RRL E TLE Sbjct: 188 TSERIDFLICDKPQPDELVREAIDGERKAQWLHQALGTLNGRELTIVRERRLSEEGATLE 247 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L + +S+ERVRQIE+RA +K++ ++ K Sbjct: 248 ALGASLGISKERVRQIESRALEKLRTALVKH 278 >gi|319639187|ref|ZP_07993938.1| RNA polymerase sigma-32 factor [Neisseria mucosa C102] gi|317399371|gb|EFV80041.1| RNA polymerase sigma-32 factor [Neisseria mucosa C102] Length = 287 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/286 (41%), Positives = 186/286 (65%), Gaps = 9/286 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + +I +G L +YIH + IPML +EE LA+R ++ GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPVIHSGNGSLEQYIHTVNSIPMLTAEEETQLAER-QQKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L A L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNLSA-----LSPKEAQEIADDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 N+ D+++ DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 GIMAENNDDEDNFAPIDWLA-DHDAEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 240 SRWLQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 285 >gi|84625707|ref|YP_453079.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|289664834|ref|ZP_06486415.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. vasculorum NCPPB702] gi|289671390|ref|ZP_06492465.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. musacearum NCPPB4381] gi|84369647|dbj|BAE70805.1| RNA polymerase sigma-32 factor [Xanthomonas oryzae pv. oryzae MAFF 311018] Length = 291 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 23 LDAYIGAVHQIPVLSVDEEQNLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 143 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 194 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 195 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDTRSRDIVKRRWLDS 254 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 255 DSKVTLQELADEYGVSAERIRQIEANALKKMK 286 >gi|325928799|ref|ZP_08189966.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas perforans 91-118] gi|325540772|gb|EGD12347.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas perforans 91-118] Length = 282 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 14 LDAYIGAVHQIPVLSVDEEQDLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 73 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 74 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 133 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 134 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 185 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 186 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDARSRDIVKRRWLDS 245 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 246 DSKVTLQELADEYGVSAERIRQIEANALKKMK 277 >gi|153003975|ref|YP_001378300.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] gi|152027548|gb|ABS25316.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] Length = 299 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 122/276 (44%), Positives = 179/276 (64%), Gaps = 11/276 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L +EE LA+ +R+ G AAH+LV ++LR VVK+A YR YGL + Sbjct: 11 LDQYLREINKVALLTVEEERRLAREFRDEGKTRAAHKLVEANLRFVVKVAFEYRSYGLRM 70 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV+KFDP++ RL +Y++WWI+A +Q +IL+SWSLVKIGTT Q++L Sbjct: 71 ADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWWIRAYIQNHILKSWSLVKIGTTQAQRKL 130 Query: 136 FFNLRRLKGHLQAITDN-NLKPE--QVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 FF+L R + ++ +T L E V +AKKL V S+V+ M R+ G D SL+A + Sbjct: 131 FFSLARTRHEIERVTPGAGLDSEGIDVNLVAKKLRVRASDVVEMQQRMEGRDLSLDAPV- 189 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERK--NRRNMLTRSMSVLNPRERRIFEARRLQ 249 +D S+ + + D D Q+ L EE NRR + +MS L+PRER I EAR + Sbjct: 190 -ADGTSTHLE-FTPSDADPQDDELARAEEDAIVNRR--VNDAMSRLDPRERHIVEARIMG 245 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + TL +L F SRER RQ+E RA +K++ +Q Sbjct: 246 DGKETLRDLGQHFGFSRERARQLEIRALEKLRRELQ 281 >gi|167835356|ref|ZP_02462239.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis MSMB43] Length = 311 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 118/283 (41%), Positives = 176/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + ++P+L +EE A YRE +L AA +LV SHLRLVV +A Sbjct: 31 MLPGQLGNIDAYIQAVNRVPLLTAEEERQYATEYREQNNLDAARQLVLSHLRLVVSVARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K QA T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGTQAFT-----PEEIDGLAQELNVKREEVAEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I+ +++ + +L H+ VL ++ + + + R++ L+ R RRI EAR Sbjct: 206 EGQIDDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIARALESLDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|58583919|ref|YP_202935.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzae KACC10331] gi|58428513|gb|AAW77550.1| RNA polymerase sigma-32 factor [Xanthomonas oryzae pv. oryzae KACC10331] Length = 329 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 61 LDAYIGAVHQIPVLSVDEEQNLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 120 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 121 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 180 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 181 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 232 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 233 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDTRSRDIVKRRWLDS 292 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 293 DSKVTLQELADEYGVSAERIRQIEANALKKMK 324 >gi|115378280|ref|ZP_01465448.1| RNA polymerase sigma-B factor [Stigmatella aurantiaca DW4/3-1] gi|310821082|ref|YP_003953440.1| RNA polymerase sigma-b factor [Stigmatella aurantiaca DW4/3-1] gi|401024|sp|Q01624|RPSB_STIAD RecName: Full=RNA polymerase sigma-B factor gi|46680|emb|CAA78693.1| sigma factor (SigB) [Stigmatella aurantiaca DW4/3-1] gi|115364722|gb|EAU63789.1| RNA polymerase sigma-B factor [Stigmatella aurantiaca DW4/3-1] gi|309394154|gb|ADO71613.1| RNA polymerase sigma-B factor [Stigmatella aurantiaca DW4/3-1] Length = 296 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 117/262 (44%), Positives = 168/262 (64%), Gaps = 4/262 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ EI + +L +EE LA+++ + GDL+A HRLVTS+LR VVK++ YR YG+ + Sbjct: 14 LTMYLSEINQYGLLSVEEEQALARKFVK-GDLAAGHRLVTSNLRFVVKVSYEYRSYGIKM 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A +Q YIL+SWSLVK+GTT Q++L Sbjct: 73 SDLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAYIQNYILKSWSLVKLGTTQAQRKL 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FF+L R + L+ + V IA KLNV SEV M R+ G D SL+A + Sbjct: 133 FFSLARTRRELEKFGAGDGAVVNVDEIANKLNVKASEVREMEQRMGGRDLSLDAPMGEDG 192 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 NS D++ Q+ +KEE + + ++ L+PRER I E R + E P+T Sbjct: 193 GNSH--VDFVASAAAPQDDEFADKEEAGLINSRVHMALMRLDPRERFIIEQRVMNERPMT 250 Query: 255 LENLSSEFEVSRERVRQIEARA 276 L+ L F SRER RQ+E RA Sbjct: 251 LKELGEHFGFSRERARQLEIRA 272 >gi|188574757|ref|YP_001911686.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzae PXO99A] gi|188519209|gb|ACD57154.1| alternative sigma factor RpoH [Xanthomonas oryzae pv. oryzae PXO99A] Length = 282 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 170/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 14 LDAYIGAVHQIPVLSVDEEQNLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 73 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 74 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 133 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 134 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 185 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N+ +L M+ L+ R R I + R L Sbjct: 186 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNQLQLLREGMAGLDTRSRDIVKRRWLDS 245 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 246 DSKVTLQELADEYGVSAERIRQIEANALKKMK 277 >gi|212637488|ref|YP_002314013.1| RNA polymerase factor sigma-32 [Shewanella piezotolerans WP3] gi|212558972|gb|ACJ31426.1| RNA polymerase sigma-32 factor [Shewanella piezotolerans WP3] Length = 285 Score = 214 bits (544), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 114/281 (40%), Positives = 177/281 (62%), Gaps = 9/281 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 + M+++V G L YIH I ML+ ++E+ LAKR +E GDLSAA L+ SHLR VV Sbjct: 6 QTMALMVPQSSGSLESYIHSAHSISMLDAEKEHELAKRLQETGDLSAAKELIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L +DN +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNLRKTKKRLGWFSDN-----EVGMVAESLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L + +D + DH D QV + E+ N+ +L+ ++ L+ R + Sbjct: 181 QDPAFDLASDNDDEQDYAPMHYLEDHSSDLASQVENDNWEQSNQTRLLS-AIKTLDERSQ 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I +AR L E+ TL+ L++ ++VS ER+RQ+E A K++ Sbjct: 240 HILQARWLNEDKTTLQELAATYQVSAERIRQLEKNAMNKLK 280 >gi|86359605|ref|YP_471497.1| RNA polymerase factor sigma-32 [Rhizobium etli CFN 42] gi|86283707|gb|ABC92770.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN 42] Length = 287 Score = 214 bits (544), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 115/263 (43%), Positives = 175/263 (66%), Gaps = 9/263 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 18 PYLARQEEHDLATRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 77 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 78 LEAAARFEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL 137 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 A D L + + IA L VS ++V +M+ RL+G D SL A S D S++ D+L Sbjct: 138 -ARGDTQLTLQSIHQEIAAALGVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFL 196 Query: 205 VYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D Q +I+ E RR L ++ LN RE +I ARRL E+ TLE L ++ Sbjct: 197 VSDDPLPDEQVSNMIDGE---RRRVWLASALKHLNEREMKIISARRLAEDGATLEELGAD 253 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE+RA +K++ ++ Sbjct: 254 LGISKERVRQIESRAMEKLRSAL 276 >gi|190893879|ref|YP_001980421.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|190699158|gb|ACE93243.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] Length = 287 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 115/263 (43%), Positives = 175/263 (66%), Gaps = 9/263 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 18 PYLARQEEHDLATRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 77 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 78 LEAAARFEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL 137 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 A D L + + IA L VS ++V +M+ RL+G D SL A S D S++ D+L Sbjct: 138 -AKGDTQLTLQSIHQEIAAALGVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFL 196 Query: 205 VYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D Q +I+ E RR L ++ LN RE +I ARRL E+ TLE L ++ Sbjct: 197 VSDDPLPDEQVSNMIDGE---RRRIWLASALKHLNEREMKIISARRLAEDGATLEELGAD 253 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE+RA +K++ ++ Sbjct: 254 LGISKERVRQIESRAMEKLRTAL 276 >gi|82703854|ref|YP_413420.1| RNA polymerase factor sigma-32 [Nitrosospira multiformis ATCC 25196] gi|82411919|gb|ABB76028.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosospira multiformis ATCC 25196] Length = 281 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 121/280 (43%), Positives = 174/280 (62%), Gaps = 12/280 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 ++ V L YI + + +L ++EE LA+ R+ G + AA +LV SHLRLVV I Sbjct: 2 TFALTVPSAGSLENYIQSVNQFRILTQEEELQLARSLRDEGSIDAARQLVLSHLRLVVAI 61 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY+GYGLP ++++ EGNIGLM+AVK+FDPERG RL ++++ WIKA + E+ILR+W LV Sbjct: 62 ARGYKGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEFILRNWRLV 121 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 KI TT Q++LFFNLR LK L + + ++V +A++L V EV+ M R +G D Sbjct: 122 KIATTKAQRKLFFNLRSLKQAL-----DTMSQKEVAEVAEQLGVKPEEVVEMETRFSGRD 176 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQE--QVLIEKEERKNRRNMLTRSMSVLNPRERR 241 SL L D+ + + Y DG E VL +++ + R L +++ L+ R R Sbjct: 177 ISLEPLSEDDDEETFS---PIAYLTDGSEPSHVLEDEQTMRLRGEGLEQALESLDARSRH 233 Query: 242 IFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 I EAR L+E + TL L+ E VS ERVRQIEA+A +K+ Sbjct: 234 IIEARWLREKDTATLHELADELGVSAERVRQIEAKAMQKL 273 >gi|312797371|ref|YP_004030293.1| RNA polymerase sigma-32 factor [Burkholderia rhizoxinica HKI 454] gi|312169146|emb|CBW76149.1| RNA polymerase sigma-32 factor [Burkholderia rhizoxinica HKI 454] Length = 319 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 175/288 (60%), Gaps = 19/288 (6%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G +G L YI + +IP+L + +E LA YRE L AA +LV SHLRLVV IA Sbjct: 39 MLPGTLGNLDAYIQAVNRIPLLSQADETRLAIEYREQNKLDAARQLVLSHLRLVVSIARN 98 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP ++++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 99 YLGYGLPHADLIQEGNIGLMKAVKRFDPRQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 158 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA T P+++ +AK+LNV EV M RLA GD +L Sbjct: 159 TTKAQRKLFFNLRSHKQGMQAFT-----PDEIAGLAKELNVKREEVTEMETRLAGGDIAL 213 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQ---VLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +++ + + Y D + + VL ++ + L ++ L+ R RRI Sbjct: 214 EGQFEDGEESFAP----IAYLADSRTEPTTVLASRQRDLLQTEGLAEALESLDARSRRII 269 Query: 244 EARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 EAR LQ TL L+ EF VS ER+RQIEA A KK++ ++Q+ Sbjct: 270 EARWLQVQDDGSGGATLHELADEFGVSAERIRQIEASAMKKMRSALQQ 317 >gi|221065333|ref|ZP_03541438.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni KF-1] gi|220710356|gb|EED65724.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni KF-1] Length = 324 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 119/284 (41%), Positives = 174/284 (61%), Gaps = 15/284 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE A++ +EH DL AA RLV SHLRLVV I+ Y GYGLP Sbjct: 37 LDAYISAVNRMPMLTLEEEQDYARKLKEHNDLDAAGRLVMSHLRLVVSISRQYLGYGLPH 96 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 97 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 156 Query: 136 FFNLRRLKGHLQ---AITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 FFNLR +K L+ A+ D+ L ++ A+A KLNV EVI M RLAG + L Sbjct: 157 FFNLRSMKHELKSDAAMADDELALRETLTSNEIDAVAAKLNVKREEVIEMETRLAGGDVL 216 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEA 245 S D + + D + ++E +R + + L ++ L+ R RRI E Sbjct: 217 LDPSPSDDGEQAFGPIAYLADASHEPTAMLESRQRDHLATDGLVMALEGLDDRSRRIVEE 276 Query: 246 RRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L+ N +TL L++E+ VS ER+RQIE A KK+++++ Sbjct: 277 RWLKVNDDGSGGMTLHELAAEYGVSAERIRQIEVAAMKKMKKAL 320 >gi|115352926|ref|YP_774765.1| RNA polymerase factor sigma-32 [Burkholderia ambifaria AMMD] gi|170701101|ref|ZP_02892077.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria IOP40-10] gi|172061774|ref|YP_001809426.1| RNA polymerase factor sigma-32 [Burkholderia ambifaria MC40-6] gi|115282914|gb|ABI88431.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria AMMD] gi|170134002|gb|EDT02354.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria IOP40-10] gi|171994291|gb|ACB65210.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MC40-6] Length = 311 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 116/283 (40%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +RE +L +A RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERRYATEFREDNNLDSARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPTQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV +V M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKSMQAMT-----PEEIDGLAQELNVKREDVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 ++ +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVDDGEESYAPIA-YLADSHNEPSAVLAARQRDMLQTDGIAQALEALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|166710450|ref|ZP_02241657.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzicola BLS256] Length = 282 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 169/272 (62%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R+R+ DL AA LV SHLR VV +A GY GYGLP+ Sbjct: 14 LDAYIGAVHQIPVLSVDEEQNLARRFRDELDLDAARELVHSHLRFVVHVARGYNGYGLPL 73 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 74 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 133 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L L +V A+AK LNVSE EV+ M RL+G D +A SSD Sbjct: 134 FFNLRKSKTRL-----GWLNASEVTAVAKDLNVSEREVMEMESRLSGRDIGFDA---SSD 185 Query: 195 KNSSQWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ- 249 ++ +LV + + Q + N +L M+ L+ R R I + R L Sbjct: 186 EDDDHGPPSPVSYLVANEEDPSQAYERHDSEDNHLQLLREGMAGLDTRSRDIVKRRWLDS 245 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 246 DSKVTLQELADEYGVSAERIRQIEANALKKMK 277 >gi|153004710|ref|YP_001379035.1| RNA polymerase sigma factor RpoH [Anaeromyxobacter sp. Fw109-5] gi|152028283|gb|ABS26051.1| RNA polymerase sigma factor RpoH [Anaeromyxobacter sp. Fw109-5] Length = 307 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 115/274 (41%), Positives = 173/274 (63%), Gaps = 6/274 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L EE LA+ +R+ GD AAHRLVT++LR VVK++ YR YG + Sbjct: 13 LELYLSEINRFPLLTVDEEQRLARLFRDEGDTRAAHRLVTANLRFVVKVSYEYRSYGFKM 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A +Q YIL+SWSLVK+GTT Q++L Sbjct: 73 ADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAYIQNYILKSWSLVKLGTTQAQRKL 132 Query: 136 FFNLRRLKGHLQAIT---DNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 FF+L R K L ++ + + IAKKL V +EV M R+ G D SL+A + Sbjct: 133 FFSLARTKRELDKMSVEHGRDSDAQDKGKIAKKLRVKPAEVEEMEQRMDGRDLSLDAPMG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D D++ Q+ L + EE++ +T +++ L+ RER I E R + + Sbjct: 193 --DDGGYSHIDFVAAKSAAQDDELSDAEEQQIVSAKVTAALARLDQRERYIIEQRVMSDR 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P+TL+ L F SRER RQ+E RA +K+++ + Sbjct: 251 PLTLKELGEHFGFSRERARQLEIRAKEKLKQELH 284 >gi|171320177|ref|ZP_02909239.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171094591|gb|EDT39643.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 311 Score = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 116/283 (40%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +RE +L +A RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTAEEERRYATEFREDNNLDSARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPTQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV +V M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKSMQAMT-----PEEIDGLAQELNVKREDVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 ++ +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVDDGEESYAPIA-YLADSHNEPSAVLAARQRDMLQTDGIAQALEALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|167561467|ref|ZP_02354383.1| RNA polymerase factor sigma-32 [Burkholderia oklahomensis EO147] gi|167568698|ref|ZP_02361572.1| RNA polymerase factor sigma-32 [Burkholderia oklahomensis C6786] Length = 311 Score = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 119/283 (42%), Positives = 176/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A YR+ +L AA +LV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTPEEERQYATEYRDGNNLDAARQLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K QA T PE++ +A++LNV EV M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGTQAFT-----PEEIDGLAQELNVKREEVAEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I+ +++ + +L H+ VL ++ + + + R++ L+ R RRI EAR Sbjct: 206 EGQIDDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIARALESLDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVGDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|327191758|gb|EGE58760.1| RNA polymerase factor sigma-32 [Rhizobium etli CNPAF512] Length = 319 Score = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 115/263 (43%), Positives = 175/263 (66%), Gaps = 9/263 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 50 PYLARQEEHDLATRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 109 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 110 LEAAARFEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL 169 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 A D L + + IA L VS ++V +M+ RL+G D SL A S D S++ D+L Sbjct: 170 -AKGDTQLTLQSIHQEIAAALGVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFL 228 Query: 205 VYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D Q +I+ E RR L ++ LN RE +I ARRL E+ TLE L ++ Sbjct: 229 VSDDPLPDEQVSNMIDGE---RRRIWLASALKHLNEREMKIISARRLAEDGATLEELGAD 285 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE+RA +K++ ++ Sbjct: 286 LGISKERVRQIESRAMEKLRTAL 308 >gi|83746847|ref|ZP_00943894.1| RNA polymerase sigma-32 factor [Ralstonia solanacearum UW551] gi|207727816|ref|YP_002256210.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum MolK2] gi|207742220|ref|YP_002258612.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum IPO1609] gi|83726432|gb|EAP73563.1| RNA polymerase sigma-32 factor [Ralstonia solanacearum UW551] gi|206591057|emb|CAQ56669.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum MolK2] gi|206593608|emb|CAQ60535.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum IPO1609] Length = 306 Score = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 120/281 (42%), Positives = 176/281 (62%), Gaps = 12/281 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G +G L YI + ++PML +EE LA+ Y G+L AA RLV SHLRLVV IA Y G Sbjct: 28 GSLGNLDAYIQSVNRVPMLTAEEEQQLARDYHATGNLDAARRLVLSHLRLVVSIARQYLG 87 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGNIGLM+AVK+FDP++G RL +Y++ WIKA M EYIL++W +VK+ TT Sbjct: 88 YGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAIHWIKAEMHEYILKNWRMVKVATTK 147 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K A +++ A+A++LNV +EV M RL+ GD +L Sbjct: 148 AQRKLFFNLRSHKQDAHA----TFTSDEIDAVAQELNVKGAEVREMETRLSGGDIALEGQ 203 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I+ +++ + +L H+ +VL + + + + +++ L+ R RRI EAR L Sbjct: 204 IDDGEESFAPIA-YLADTHNEPTRVLETRGHDRLQSEGIETALAKLDDRSRRIIEARWLN 262 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 N TL L+ EF VS ER+RQIE+ A KK++ ++Q Sbjct: 263 VNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMKGALQ 303 >gi|148265963|ref|YP_001232669.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter uraniireducens Rf4] gi|146399463|gb|ABQ28096.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter uraniireducens Rf4] Length = 280 Score = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 113/269 (42%), Positives = 175/269 (65%), Gaps = 5/269 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EIR+ P+L +EE+ LA + E DL AAHRL+TS+LR VVKIA YR YG+ + Sbjct: 8 LSLYLAEIRRFPVLSAEEEHGLAVKLYEEKDLEAAHRLITSNLRFVVKIAGEYRSYGMKM 67 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM AV+KF+P +GFRL +Y++WWI+A +Q +I+ +WSL+KIGTT Q++L Sbjct: 68 LDLIQEGNIGLMMAVRKFNPYKGFRLISYAVWWIRAYIQNHIVSTWSLLKIGTTQAQRKL 127 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF L + K ++++T + + A A L+V ESE M+ R+ GD L+A + + + Sbjct: 128 FFKLNQAKSAIRSMTGGG---DDLQAAALSLDVKESEAQEMDQRMRGDYFLDAEVVTGEG 184 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + L + QE++L E EE + +++ LN +ER + E R + P+TL Sbjct: 185 LT--MLESLPDERRNQEELLGEAEESAILEREVAAALTCLNEKERYVIEQRVSSDEPLTL 242 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESI 284 + ++ F +SRERVRQIE A KK++ ++ Sbjct: 243 QEIADHFSISRERVRQIEEGALKKMKRAL 271 >gi|300692652|ref|YP_003753647.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum PSI07] gi|299079712|emb|CBJ52389.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum PSI07] Length = 306 Score = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 120/281 (42%), Positives = 176/281 (62%), Gaps = 12/281 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G +G L YI + ++PML +EE LA+ Y G+L AA RLV SHLRLVV IA Y G Sbjct: 28 GSLGNLDAYIQSVNRVPMLTAEEEQQLARDYHATGNLDAARRLVLSHLRLVVSIARQYLG 87 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGNIGLM+AVK+FDP++G RL +Y++ WIKA M EYIL++W +VK+ TT Sbjct: 88 YGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAIHWIKAEMHEYILKNWRMVKVATTK 147 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K A +++ A+A++LNV +EV M RL+ GD +L Sbjct: 148 AQRKLFFNLRSHKQDAHA----TFTSDEIDAVAQELNVKGTEVREMETRLSGGDIALEGQ 203 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I+ +++ + +L H+ +VL + + + + +++ L+ R RRI EAR L Sbjct: 204 IDDGEESFAPIA-YLADAHNEPTRVLEARGHDRLQSEGIETALAKLDDRSRRIIEARWLN 262 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 N TL L+ EF VS ER+RQIE+ A KK++ ++Q Sbjct: 263 VNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMKGALQ 303 >gi|134297011|ref|YP_001120746.1| RNA polymerase factor sigma-32 [Burkholderia vietnamiensis G4] gi|134140168|gb|ABO55911.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia vietnamiensis G4] Length = 331 Score = 213 bits (542), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 117/283 (41%), Positives = 176/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +RE +L AA +LV SHLRLVV IA Sbjct: 51 LLPGQLGNIDAYIQAVNRIPLLSAEEERRYATEFREDNNLDAARKLVLSHLRLVVSIARN 110 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 111 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 170 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV EV M RL+ GD +L Sbjct: 171 TTKAQRKLFFNLRSHKKSMQAMT-----PEEIDGLAQELNVKREEVTEMETRLSGGDIAL 225 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + ++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 226 EGQVEDGEEAYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIAQALEALDARSRRIIEAR 284 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 285 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 327 >gi|209551384|ref|YP_002283301.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209537140|gb|ACI57075.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 287 Score = 213 bits (542), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 115/263 (43%), Positives = 175/263 (66%), Gaps = 9/263 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 18 PYLARQEEHDLAIRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 77 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 78 LEAAARFEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL 137 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 A D L + + IA L VS ++V +M+ RL+G D SL A S D S++ D+L Sbjct: 138 -AKGDTQLTLQSIHQEIAAALGVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFL 196 Query: 205 VYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D Q +I+ E RR L ++ LN RE +I ARRL E+ TLE L ++ Sbjct: 197 VSDDPLPDEQVSNMIDGE---RRRVWLASALKHLNEREMKIISARRLAEDGATLEELGAD 253 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE+RA +K++ ++ Sbjct: 254 LGISKERVRQIESRAMEKLRSAL 276 >gi|118591280|ref|ZP_01548678.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] gi|118435952|gb|EAV42595.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] Length = 287 Score = 213 bits (541), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 109/265 (41%), Positives = 177/265 (66%), Gaps = 9/265 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P L ++EE LA R+R+ D A +L SH+RLV+ +A +R +GL + +++ EG++ Sbjct: 15 KAPYLTREEELELAIRWRQERDEKALEKLSLSHMRLVIAVASRFRNFGLSLGDLIQEGHV 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ Sbjct: 75 GLLEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRA 134 Query: 145 HLQA----ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +TD+ L + IA + V +S+V MN RL+G D SLNA + S+ +S+ Sbjct: 135 KLSGNQTPLTDSELHQK----IADAIGVKQSDVALMNARLSGPDTSLNAPVTDSEGSSAD 190 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 QD+LV D ++++ + + R+ L+ ++ VL+ RE +I RRL E+ TLE+L Sbjct: 191 RQDFLVSDAPLPDEIVTVSIDTERRQRWLSSALEVLSERELKIVRERRLSEDGATLESLG 250 Query: 260 SEFEVSRERVRQIEARAFKKVQESI 284 + +S+ERVRQIE+RA +K++ ++ Sbjct: 251 VKLGISKERVRQIESRAMEKLKSAL 275 >gi|264680055|ref|YP_003279964.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni CNB-2] gi|262210570|gb|ACY34668.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni CNB-2] Length = 324 Score = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 119/284 (41%), Positives = 173/284 (60%), Gaps = 15/284 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE A++ +EH DL AA RLV SHLRLVV I+ Y GYGLP Sbjct: 37 LDAYISAVNRMPMLTLEEEQDYARKLKEHNDLDAAGRLVMSHLRLVVSISRQYLGYGLPH 96 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 97 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 156 Query: 136 FFNLRRLKGHLQ---AITD------NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 FFNLR +K L+ A+ D L ++ A+A KLNV EVI M RLAG + L Sbjct: 157 FFNLRSMKHDLKSDAAMADEELALRETLTSNEIDAVAAKLNVKREEVIEMETRLAGGDVL 216 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEA 245 S D + + D + ++E +R + + L ++ L+ R RRI E Sbjct: 217 LDPSPSDDGEQAFGPIAYLADASHEPTAMLESRQRDHLATDGLVMALEGLDDRSRRIVEE 276 Query: 246 RRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L+ N +TL L++E+ VS ER+RQIE A KK+++++ Sbjct: 277 RWLKVNDDGSGGMTLHELAAEYGVSAERIRQIEVAAMKKMKKAL 320 >gi|197121539|ref|YP_002133490.1| RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] gi|196171388|gb|ACG72361.1| putative RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] Length = 300 Score = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 115/274 (41%), Positives = 178/274 (64%), Gaps = 7/274 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +L +EE LA+++R+ G+ A HRLV ++LR VVK+A YR YGL + Sbjct: 11 LDQYLREINRVALLTVEEERRLARQFRDEGNTRAGHRLVEANLRFVVKVAFEYRSYGLRM 70 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV+KFDP++ RL +Y++WWI+A +Q +IL+SWSLVKIGTT Q++L Sbjct: 71 ADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWWIRAYIQNHILKSWSLVKIGTTQAQRKL 130 Query: 136 FFNLRRLKGHLQAITDNNLKPEQ---VVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 FF+L R + ++ +T E+ V +AKKL V S+V+ M R+ G D SL+A + Sbjct: 131 FFSLARTRHEIERLTPGAGLAEEGIDVALVAKKLRVRPSDVVEMTQRMEGRDLSLDAPV- 189 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D S+ + + D + Q++ L EE ++ +M L+PRER I EAR + E Sbjct: 190 -ADGTSTHLE-FTPADGEPQDEELARAEEDALLARRVSEAMGRLDPRERHIVEARIMGEG 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L F SRER RQ+E RA +K++ ++ Sbjct: 248 KETLRDLGHHFGFSRERARQLEIRALEKLRRDLE 281 >gi|17545093|ref|NP_518495.1| RNA polymerase factor sigma-32 [Ralstonia solanacearum GMI1000] gi|17427383|emb|CAD13902.1| probable rna polymerase sigma h (sigma-32) factor transcription regulator protein [Ralstonia solanacearum GMI1000] Length = 306 Score = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 120/281 (42%), Positives = 176/281 (62%), Gaps = 12/281 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G +G L YI + ++PML +EE LA+ Y G+L AA RLV SHLRLVV IA Y G Sbjct: 28 GSLGNLDAYIQSVNRVPMLTAEEEQQLARDYHATGNLDAARRLVLSHLRLVVSIARQYLG 87 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGN+GLM+AVK+FDP++G RL +Y++ WIKA M EYIL++W +VK+ TT Sbjct: 88 YGLPHADLIQEGNVGLMKAVKRFDPDQGVRLVSYAIHWIKAEMHEYILKNWRMVKVATTK 147 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K A ++V A+A++LNV +EV M RL+ GD +L Sbjct: 148 AQRKLFFNLRSHKQDAHA----TFTSDEVDAVAQELNVKGAEVREMETRLSGGDIALEGQ 203 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I+ +++ + +L H+ +VL + + + + +++ L+ R RRI EAR L Sbjct: 204 IDDGEESFAPIA-YLADTHNEPTRVLEGRGRDRLQSEGIETALAKLDDRSRRIIEARWLH 262 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 N TL L+ EF VS ER+RQIE+ A KK++ ++Q Sbjct: 263 VNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMKGALQ 303 >gi|86157496|ref|YP_464281.1| RNA polymerase sigma-32 subunit RpoH [Anaeromyxobacter dehalogenans 2CP-C] gi|85774007|gb|ABC80844.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-C] Length = 300 Score = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 119/289 (41%), Positives = 183/289 (63%), Gaps = 12/289 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MNR + S L +Y+ EI ++ +L +EE LA+++R+ G+ A HRLV ++LR Sbjct: 1 MNRPSTSSST-----LDQYLREINRVALLTVEEERRLARQFRDEGNTRAGHRLVEANLRF 55 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VVK+A YR YGL +++++ EGNIGLM+AV+KFDP++ RL +Y++WWI+A +Q +IL+S Sbjct: 56 VVKVAFEYRSYGLRMADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWWIRAYIQNHILKS 115 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ---VVAIAKKLNVSESEVISMN 177 WSLVKIGTT Q++LFF+L R + ++ +T E+ V +AKKL V S+V+ M Sbjct: 116 WSLVKIGTTQAQRKLFFSLARTRHEIERLTPGAGLAEEGIDVALVAKKLRVRPSDVVEMT 175 Query: 178 CRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 R+ G D SL+A + +D S+ + + D + Q++ L EE ++ +M L+ Sbjct: 176 QRMEGRDLSLDAPV--ADGTSTHLE-FTPADGEPQDEELARAEEDALLARRVSEAMGRLD 232 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 PRER I EAR + E TL +L F SRER RQ+E RA +K++ ++ Sbjct: 233 PRERHIVEARIMGEGKETLRDLGHHFGFSRERARQLEIRALEKLRRDLE 281 >gi|299068068|emb|CBJ39282.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum CMR15] Length = 306 Score = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 119/281 (42%), Positives = 177/281 (62%), Gaps = 12/281 (4%) Query: 12 GEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G +G L YI + ++PML +EE LA+ Y GDL AA RLV SHLRLVV IA Y G Sbjct: 28 GSLGNLDAYIQSVNRVPMLTAEEEQQLARDYHATGDLDAARRLVLSHLRLVVSIARQYLG 87 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP ++++ EGN+GLM+AVK+FDP++G RL +Y++ WIKA M EYIL++W +VK+ TT Sbjct: 88 YGLPHADLIQEGNVGLMKAVKRFDPDQGVRLVSYAIHWIKAEMHEYILKNWRMVKVATTK 147 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNAL 189 Q++LFFNLR K + A +++ A+A++L+V +EV M RL+ GD +L Sbjct: 148 AQRKLFFNLRSHKQNAHA----TFTSDEIDAVAQELDVKGAEVREMETRLSGGDIALEGQ 203 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I+ +++ + +L H+ +VL + + + + +++ L+ R RRI EAR L Sbjct: 204 IDDGEESFAPIA-YLADTHNEPTRVLEGRGLDRLQSEGIETALAKLDDRSRRIIEARWLH 262 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 N TL L+ EF VS ER+RQIE+ A KK++ ++Q Sbjct: 263 VNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMKGALQ 303 >gi|73540031|ref|YP_294551.1| RNA polymerase factor sigma-32 [Ralstonia eutropha JMP134] gi|72117444|gb|AAZ59707.1| Sigma-70 region 2 [Ralstonia eutropha JMP134] Length = 309 Score = 212 bits (540), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 118/276 (42%), Positives = 171/276 (61%), Gaps = 12/276 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IPML +EE LA+ RE + AA +LV SHLRLVV IA Y GYGLP Sbjct: 37 LESYIQAVHRIPMLTAEEEQRLARELREDDSVDAARQLVMSHLRLVVSIARQYLGYGLPH 96 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP +G RL +Y+M WIKA + EY+L++W +VK+ TT Q++L Sbjct: 97 ADLIQEGNIGLMKAVKRFDPNQGVRLVSYAMHWIKAEIHEYVLKNWRMVKVATTKAQRKL 156 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSSD 194 FFNLR H Q + PEQ+ A+A+ LNV EV+ M R++ GD +L ++ + Sbjct: 157 FFNLR---SHKQG--SHTFTPEQIEAVARDLNVKPEEVMEMETRMSGGDLALEGQVDDGE 211 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ----- 249 + + +L +H+ +VL K + + + L +++ L+ R RRI EAR L Sbjct: 212 EEFAPIA-YLADNHNEPTRVLEAKRQDRMQVEGLEEALARLDERSRRIIEARWLNVEDDG 270 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL L+ EF VS ER+RQIE A KK++ ++Q Sbjct: 271 SGGATLHELADEFGVSAERIRQIEVAAMKKMKGALQ 306 >gi|330818365|ref|YP_004362070.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia gladioli BSR3] gi|327370758|gb|AEA62114.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia gladioli BSR3] Length = 311 Score = 212 bits (540), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 115/283 (40%), Positives = 179/283 (63%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IPML +EE A +R+ +L +A RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQSVNRIPMLTLEEERQYATEFRDQNNLESARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPNQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV +V M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGMQAMT-----PEEIDGLAQELNVKREDVAEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 ++ +++ + +L H+ V+ ++ + + + ++ ++ L+ R RRI EAR Sbjct: 206 EGQVDDGEESFAPIA-YLADSHNEPTAVIASRQRDRLQTDGISEALESLDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVEDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRAAL 307 >gi|238028681|ref|YP_002912912.1| RNA polymerase factor sigma-32 [Burkholderia glumae BGR1] gi|237877875|gb|ACR30208.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia glumae BGR1] Length = 311 Score = 212 bits (540), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 116/283 (40%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IPML +EE A +R+ +L +A RLV SHLRLVV IA Sbjct: 31 MLPGQLGNIDAYIQAVNRIPMLTPEEERQYATEFRDQQNLESARRLVLSHLRLVVSIARN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP++ RL +Y++ WIKA + EYILR+W +VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPDQNVRLVSYAIHWIKAEIHEYILRNWRMVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K +QA+T PE++ +A++LNV +V M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGMQAMT-----PEEIDGLAQELNVKREDVAEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + ++ ++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESFAPIA-YLADSHNEPTAVLASRQRDRLQTEGISEALDSLDTRSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLNVGDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRAAL 307 >gi|220916304|ref|YP_002491608.1| RNA polymerase, sigma 70 family subunit [Anaeromyxobacter dehalogenans 2CP-1] gi|219954158|gb|ACL64542.1| putative RNA polymerase, sigma 70 family subunit [Anaeromyxobacter dehalogenans 2CP-1] Length = 300 Score = 212 bits (540), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 115/274 (41%), Positives = 178/274 (64%), Gaps = 7/274 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +L +EE LA+++R+ G+ A HRLV ++LR VVK+A YR YGL + Sbjct: 11 LDQYLREINRVALLTVEEERRLARQFRDEGNTRAGHRLVEANLRFVVKVAFEYRSYGLRM 70 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV+KFDP++ RL +Y++WWI+A +Q +IL+SWSLVKIGTT Q++L Sbjct: 71 ADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWWIRAYIQNHILKSWSLVKIGTTQAQRKL 130 Query: 136 FFNLRRLKGHLQAITDNNLKPEQ---VVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 FF+L R + ++ +T E+ V +AKKL V S+V+ M R+ G D SL+A + Sbjct: 131 FFSLARTRHEIERLTPGAGLAEEGIDVALVAKKLRVRPSDVVEMTQRMEGRDLSLDAPV- 189 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D S+ + + D + Q++ L EE ++ +M L+PRER I EAR + E Sbjct: 190 -ADGTSTHLE-FTPADGEPQDEELARAEEDALLARRVSEAMGRLDPRERHIVEARIMGEG 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L F SRER RQ+E RA +K++ ++ Sbjct: 248 KETLRDLGHHFGFSRERARQLEIRALEKLRRDLE 281 >gi|78067614|ref|YP_370383.1| RNA polymerase factor sigma-32 [Burkholderia sp. 383] gi|77968359|gb|ABB09739.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. 383] Length = 311 Score = 212 bits (540), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 117/283 (41%), Positives = 176/283 (62%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G++G + YI + +IP+L +EE A +RE +L +A RLV SHLRLVV I+ Sbjct: 31 MLPGQLGNIDAYIQAVNRIPLLTVEEERQYATEFREGNNLDSARRLVLSHLRLVVSISRN 90 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W VK+ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRTVKVA 150 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 TT Q++LFFNLR K LQA+T PE++ +AK+LNV +V M RL+ GD +L Sbjct: 151 TTKAQRKLFFNLRSHKKGLQAMT-----PEEIDGLAKELNVKREDVTEMETRLSGGDIAL 205 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +++ + +L H+ VL ++ + + + +++ L+ R RRI EAR Sbjct: 206 EGQVEDGEESYAPIA-YLADSHNEPTAVLAARQRDTLQTDGIAQALDALDARSRRIIEAR 264 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 265 WLHVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 307 >gi|299534115|ref|ZP_07047467.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni S44] gi|298718024|gb|EFI59029.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni S44] Length = 314 Score = 212 bits (540), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 119/284 (41%), Positives = 173/284 (60%), Gaps = 15/284 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE A++ +EH DL AA RLV SHLRLVV I+ Y GYGLP Sbjct: 27 LDAYISAVNRMPMLTLEEEQDYARKLKEHNDLDAAGRLVMSHLRLVVSISRQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQ---AITD------NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 FFNLR +K L+ A+ D L ++ A+A KLNV EVI M RLAG + L Sbjct: 147 FFNLRSMKHDLKSDAAMADEELALRETLTSNEIDAVAAKLNVKREEVIEMETRLAGGDVL 206 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEA 245 S D + + D + ++E +R + + L ++ L+ R RRI E Sbjct: 207 LDPSPSDDGEQAFGPIAYLADASHEPTAMLESRQRDHLATDGLVMALEGLDDRSRRIVEE 266 Query: 246 RRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L+ N +TL L++E+ VS ER+RQIE A KK+++++ Sbjct: 267 RWLKVNDDGSGGMTLHELAAEYGVSAERIRQIEVAAMKKMKKAL 310 >gi|157373363|ref|YP_001471963.1| RNA polymerase factor sigma-32 [Shewanella sediminis HAW-EB3] gi|157315737|gb|ABV34835.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sediminis HAW-EB3] Length = 285 Score = 212 bits (539), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 113/281 (40%), Positives = 176/281 (62%), Gaps = 9/281 (3%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M++ V +G L Y+H I ML+ ++EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALTVPHGSGSLEAYVHSAHNISMLQPEQEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L +D E+V +A L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNLRKSKKRLGWFSD-----EEVGMVADNLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L + +D + + DH D QV + E N+ +L+ ++ L+ R + Sbjct: 181 QDPAFDLASDNDDDHDFAPMHYLEDHSSDLASQVENDNLEASNQARLLS-AIKTLDERSQ 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I +AR L E+ TL+ L++ ++VS ER+RQ+E A K++ Sbjct: 240 HILQARWLNEDKTTLQELAATYQVSAERIRQLEKNAMNKLK 280 >gi|319778863|ref|YP_004129776.1| RNA polymerase sigma factor RpoH [Taylorella equigenitalis MCE9] gi|317108887|gb|ADU91633.1| RNA polymerase sigma factor RpoH [Taylorella equigenitalis MCE9] Length = 292 Score = 212 bits (539), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 117/288 (40%), Positives = 182/288 (63%), Gaps = 10/288 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K+M +I +G + YI E+ +IP+L ++E A+R ++ GDL AA L+ HLRLVV Sbjct: 12 KSMDLINPSALGTIEAYIQEVNRIPILTAEQERDYAERLQKSGDLKAAQALILPHLRLVV 71 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AVK+FD RG RL T++M WIKA + EY++R+W Sbjct: 72 SVARQYLGYGLPHADLIQEGNIGLMKAVKRFDVSRGVRLVTFAMHWIKAEIHEYVIRNWR 131 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 LVKI TT Q++LFFNL L+ +++ +++ +V IAKKLNV +V+ M R++G Sbjct: 132 LVKIATTKAQRKLFFNLNSLRPEGKSLDNDD-----IVGIAKKLNVRPEDVVEMEKRMSG 186 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRER 240 D +L+ L++ D + +L D + E V++ +E K L ++ L+ R R Sbjct: 187 HDIALDTLMDEDDDYAP--IQYLADDEAYEPENVMLAQEHDKLENQGLKSALDQLDDRSR 244 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 I E+R L E+ TL +L++++ VS ER+RQIE A KK++ ++ V Sbjct: 245 HIIESRWLSEDKPTLHDLAAQYNVSAERIRQIENAAIKKMRSYLEDYV 292 >gi|120600694|ref|YP_965268.1| RNA polymerase factor sigma-32 [Shewanella sp. W3-18-1] gi|146291400|ref|YP_001181824.1| RNA polymerase factor sigma-32 [Shewanella putrefaciens CN-32] gi|120560787|gb|ABM26714.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. W3-18-1] gi|145563090|gb|ABP74025.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella putrefaciens CN-32] gi|319428373|gb|ADV56447.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella putrefaciens 200] Length = 285 Score = 211 bits (538), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 110/284 (38%), Positives = 172/284 (60%), Gaps = 7/284 (2%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M++ V G L YIH + I ML+ + EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALTVPQGSSSLEAYIHSVTSISMLDAEAEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFN+R+ K L +D E+V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNIRKAKKRLGWFSD-----EEVTMVAENLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERR 241 + L + +D + DH IE + N + L ++ L+ R + Sbjct: 181 QDPAFDLTSDNDDEQDFAPVHYLEDHSSDLAENIENDNWESNAQGRLLSAIKTLDERSQH 240 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L ++ TL+ L+ ++VS ER+RQ+E A K++ ++ Sbjct: 241 ILRARWLDDDKTTLQELAETYQVSAERIRQLEKNAMNKLKACME 284 >gi|160877394|ref|YP_001556710.1| RNA polymerase factor sigma-32 [Shewanella baltica OS195] gi|160862916|gb|ABX51450.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS195] gi|315269598|gb|ADT96451.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS678] Length = 285 Score = 211 bits (538), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 110/284 (38%), Positives = 171/284 (60%), Gaps = 7/284 (2%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M++ V G L YIH + I ML+ + EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALTVPQGASSLEAYIHSVTSISMLDAEAEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFN+R+ K L +D +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNIRKAKKRLGWFSD-----AEVTMVAENLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERR 241 + L N D+ + DH IE + N + L ++ L+ R + Sbjct: 181 QDPAFDLTNDQDEEHDFAPVHYLEDHSSDLAENIENDNWESNAQGRLLSAIKTLDERSQH 240 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L ++ TL+ L+ ++VS ER+RQ+E A K++ ++ Sbjct: 241 ILHARWLDDDKTTLQELAETYQVSAERIRQLEKNAMNKLKACME 284 >gi|189423258|ref|YP_001950435.1| RNA polymerase, sigma 70 family subunit [Geobacter lovleyi SZ] gi|189419517|gb|ACD93915.1| putative RNA polymerase, sigma 70 family subunit [Geobacter lovleyi SZ] Length = 280 Score = 211 bits (538), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 116/284 (40%), Positives = 178/284 (62%), Gaps = 8/284 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N+ II + L+ Y+ EIRK +L + EE A ++ E DL AAH L+TS+LR VVK+ Sbjct: 4 NLPIISDS---LTLYLSEIRKFNLLTEDEERDYAVKFFEEKDLEAAHTLITSNLRYVVKV 60 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A YR YGL + +++ EGNIGLM AV+KF+P RG RL +Y++WWI+A +Q YI+ +WSLV Sbjct: 61 ASEYRHYGLKMLDLIQEGNIGLMMAVRKFNPYRGVRLISYAVWWIRAYIQNYIVSAWSLV 120 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KIGTT Q++LF+ LR+ K L +T + ++ L+V + EV+ M RL G+ Sbjct: 121 KIGTTQAQRKLFYGLRKTKEALLKLTG---RDSDAFEVSSMLHVPDHEVVEMEQRLKGEV 177 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLN I D + + + D QE++L E ++ + + + ++ LN +E+ I E Sbjct: 178 SLNEEIIEGDGLT--ILETIADDRMNQEEMLGEYQQEHSLKKAIAHALQGLNEKEKYIVE 235 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R ++P+TL++++ F +SRERVRQIE RA K++ +Q Q+ Sbjct: 236 HRITNDDPLTLQDIADHFSISRERVRQIEERALVKLKNVLQPQL 279 >gi|224827256|ref|ZP_03700350.1| RNA polymerase, sigma 32 subunit, RpoH [Lutiella nitroferrum 2002] gi|224600545|gb|EEG06734.1| RNA polymerase, sigma 32 subunit, RpoH [Lutiella nitroferrum 2002] Length = 287 Score = 211 bits (538), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 116/279 (41%), Positives = 174/279 (62%), Gaps = 9/279 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +YI + +P+L +EE LA R DL AA +LV SHLR+VV IA GY GYGLP Sbjct: 16 LEQYIQIVNSVPLLSAEEENELANRLHAQNDLEAAKKLVLSHLRVVVSIARGYAGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+P RG RL ++++ WIKA + E+ILR+W LV++ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKRFEPNRGVRLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR +K A+TD+ + IA L V EV M R++G + + L + +D Sbjct: 136 FFNLRSMKKSFAALTDSEAR-----VIADDLGVKPEEVREMETRMSG-QDVALLADDNDD 189 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENP-V 253 DWL D D + +EK+ + + L +++S L+ R RRI EAR L ++ Sbjct: 190 EGFAPIDWLA-DSDHEPTRQLEKKAFDHLQTAGLEQALSSLDARSRRIIEARWLADDSGA 248 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 TL L++EF VS ER+RQIEA+A K++ ++ ++ + + Sbjct: 249 TLHELAAEFGVSAERIRQIEAKALTKMKAALSERAAIEA 287 >gi|257453679|ref|ZP_05618966.1| RNA polymerase factor sigma-32 [Enhydrobacter aerosaccus SK60] gi|257448913|gb|EEV23869.1| RNA polymerase factor sigma-32 [Enhydrobacter aerosaccus SK60] Length = 393 Score = 211 bits (537), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 111/278 (39%), Positives = 167/278 (60%), Gaps = 7/278 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L ++E LA RY + GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 119 VNLGAYINAVHQIPILTAEQEQELAHRYTDEGDVEAARLLVMSHLRFVIHIARSYSGYGL 178 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++R+W +VK+ TT + Sbjct: 179 PQGDLIQEGNVGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVATTKAHR 238 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK T+N L E+ AIAK LNV+ +V+ M RL D S A + Sbjct: 239 KLFFNLRSLKK-----TNNQLTLEEAEAIAKDLNVTVKQVLEMESRLTSYDASFEAQSDD 293 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 D+ Q + + D ++ + + +N + L +M L+ R R I + R L E Sbjct: 294 EDEGRYAPQ-YFLEDAADPADMVEDADWEENNNSALMEAMEDLDDRSRDIVQQRWLNEQK 352 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 TL L++E+ +S ERVRQIE A K++E++ L Sbjct: 353 ATLHELAAEYNISAERVRQIEKNAMDKIKEAMLANTHL 390 >gi|298369543|ref|ZP_06980860.1| alternative sigma factor RpoH [Neisseria sp. oral taxon 014 str. F0314] gi|298282100|gb|EFI23588.1| alternative sigma factor RpoH [Neisseria sp. oral taxon 014 str. F0314] Length = 287 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 119/281 (42%), Positives = 177/281 (62%), Gaps = 9/281 (3%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N + + +G L +YIH + IPML +EE LA+R ++ GDL AA +L+ SHLR+V Sbjct: 3 NAFALPAVHSGNGSLEQYIHTVNSIPMLSAEEESSLAER-QQKGDLEAAKQLILSHLRVV 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W Sbjct: 62 VSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGARLFSFAVHWIKAEIHEFILRNW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LV++ TT Q++LFFNLR ++ L N L P++ IA L V SEV+ M R+ Sbjct: 122 RLVRVATTKPQRKLFFNLRSMRKSL-----NALSPKEAQEIADDLGVKLSEVLEMEQRMT 176 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRER 240 + NS D++S DWL DHD + + K+ + L +++ L+ R R Sbjct: 177 SHDIGIMADNSDDEDSFAPIDWLA-DHDAEPSRQLAKQAHYALQTEGLQNALAQLDDRSR 235 Query: 241 RIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 RI E+R LQ++ +TL L+ E+ VS ER+RQIEA+A +K+ Sbjct: 236 RIVESRWLQDDGGLTLHELADEYGVSAERIRQIEAKAMQKL 276 >gi|259416055|ref|ZP_05739975.1| RNA polymerase sigma-32 factor [Silicibacter sp. TrichCH4B] gi|259347494|gb|EEW59271.1| RNA polymerase sigma-32 factor [Silicibacter sp. TrichCH4B] Length = 292 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 111/270 (41%), Positives = 183/270 (67%), Gaps = 10/270 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+H D+ A HRL+T+++RL V +A +R YG P+++++ E + Sbjct: 17 KAELLDAETELALAYAWRDHQDVQALHRLITAYMRLAVSMASKFRRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A +KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAAEKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HL--QAITD----NNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 L +A +D + K Q+V A+++ V +V M+ RLAG D SLNA + S+D++ Sbjct: 137 QLEREAESDGVELDRHKLHQMV--AEEIGVPLRDVEMMDGRLAGADFSLNA-VQSADEDG 193 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +W D L D + + + +R+ R L +++ LN RER I R+L+E TLE+ Sbjct: 194 REWIDALEDDSEQAAERVAADHDRRQLREWLVTALNGLNERERFIVRERKLREESRTLES 253 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L +E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 254 LGNELGLSKERVRQLEAAAFLKMRKSLEGQ 283 >gi|126172428|ref|YP_001048577.1| RNA polymerase factor sigma-32 [Shewanella baltica OS155] gi|153002659|ref|YP_001368340.1| RNA polymerase factor sigma-32 [Shewanella baltica OS185] gi|217975235|ref|YP_002359986.1| RNA polymerase factor sigma-32 [Shewanella baltica OS223] gi|304412289|ref|ZP_07393897.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS183] gi|307306073|ref|ZP_07585818.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica BA175] gi|125995633|gb|ABN59708.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS155] gi|151367277|gb|ABS10277.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS185] gi|217500370|gb|ACK48563.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS223] gi|304349324|gb|EFM13734.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS183] gi|306910946|gb|EFN41373.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica BA175] Length = 285 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 110/284 (38%), Positives = 171/284 (60%), Gaps = 7/284 (2%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M++ V G L YIH + I ML+ + EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALTVPQGASSLEAYIHSVTSISMLDAEAEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFN+R+ K L +D +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNIRKAKKRLGWFSD-----AEVTMVAENLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERR 241 + L N D+ + DH IE + N + L ++ L+ R + Sbjct: 181 QDPAFDLTNDQDEEHDFAPVHYLEDHSSDLAENIENDNWESNAQGRLLSAIKTLDERSQH 240 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L ++ TL+ L+ ++VS ER+RQ+E A K++ ++ Sbjct: 241 ILRARWLDDDKTTLQELAETYQVSAERIRQLEKNAMNKLKACME 284 >gi|294138987|ref|YP_003554965.1| RNA polymerase sigma-32 factor [Shewanella violacea DSS12] gi|293325456|dbj|BAJ00187.1| RNA polymerase sigma-32 factor [Shewanella violacea DSS12] Length = 286 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 112/282 (39%), Positives = 178/282 (63%), Gaps = 10/282 (3%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M+++V +G L Y+H I MLE ++E+ LAKR +E GD+ AA +L+ SHLR VV Sbjct: 6 QSMALVVPHGSGSLEAYVHSAHNISMLEAKQEHELAKRLQETGDIQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L +D +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNLRKSKKRLGWFSD-----AEVGMVAENLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWL-VYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 + L + +D + + L + DH D QV + E N+ +L ++ L+ R Sbjct: 181 QDPAFDLASDNDDDIQDYAPALYLEDHSSDLANQVETDNFEADNQTRLLA-AIKTLDERS 239 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + I +AR L E+ TL+ L++ ++VS ER+RQ+E A K++ Sbjct: 240 QHILQARWLNEDKTTLQELAATYQVSAERIRQLEKNAMNKLK 281 >gi|254468686|ref|ZP_05082092.1| alternative sigma factor RpoH [beta proteobacterium KB13] gi|207087496|gb|EDZ64779.1| alternative sigma factor RpoH [beta proteobacterium KB13] Length = 281 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 120/267 (44%), Positives = 168/267 (62%), Gaps = 11/267 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y +++ IP+L + EE LAK+ E DL+AA +L+ SHLRLV+KIA Y GYGL +++ Sbjct: 19 YQQQVQAIPLLTEHEEMNLAKKLHEENDLNAARQLIMSHLRLVIKIARSYSGYGLNQADL 78 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGNIGLM+AVK+FDP RG RL +++M+WIKA +QE+++R+W LVK TT Q++LFFN Sbjct: 79 VQEGNIGLMKAVKRFDPSRGVRLVSFAMYWIKAEIQEFVVRNWRLVKTATTKAQRKLFFN 138 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR +K LQ LK E++ IAK+LNV ES+V M R G+E AL + N Sbjct: 139 LRSMKKTLQP-----LKQEEIKEIAKELNVKESDVKEMEYRFNGNEI--ALDYQDEDNED 191 Query: 199 QWQDWLVYDHDGQE---QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-QENPVT 254 + + Y D + LI KE N + L+ ++ ++ R R I E+R L +E T Sbjct: 192 EVFRPISYLQDENADPVKQLISKESESNNLSALSNAIKSIDERSRYILESRWLNEEKSKT 251 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 L L+ E VS ER+RQIE A KK++ Sbjct: 252 LHELADELGVSAERIRQIEQNALKKLK 278 >gi|114561466|ref|YP_748979.1| RNA polymerase factor sigma-32 [Shewanella frigidimarina NCIMB 400] gi|114332759|gb|ABI70141.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella frigidimarina NCIMB 400] Length = 285 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 111/274 (40%), Positives = 171/274 (62%), Gaps = 9/274 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L YI + I ML+ EY +AKR +E+GDL AA +L+ SHLR VV +A GY GYGLP Sbjct: 18 SLEAYIQSVTSINMLDADTEYDIAKRLQENGDLQAAKQLIMSHLRFVVHVAKGYSGYGLP 77 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W +VK+ TT Q++ Sbjct: 78 QADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWRIVKVATTKAQRK 137 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LFFN+R+ K L +D +V +A+ L VS+++V M R+A + L N SD Sbjct: 138 LFFNIRKSKKRLGWFSD-----AEVTMVAENLGVSKADVTEMESRMAAQDPAFDLTNDSD 192 Query: 195 KNSSQWQDWL-VYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + L + DH D +QV E ++ +L+ ++ L+ R + I AR L + Sbjct: 193 DDHHDFAPALYLEDHSSDVADQVEHANWEADSQTRLLS-AIKTLDERSQHILRARWLDDT 251 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 VTL+ L+S +EVS ER+RQ+E A K++ ++ Sbjct: 252 KVTLQELASTYEVSAERIRQLEKNAMNKLKSCME 285 >gi|222150148|ref|YP_002551105.1| RNA polymerase factor sigma-32 [Agrobacterium vitis S4] gi|221737130|gb|ACM38093.1| alternative sigma factor RpoH [Agrobacterium vitis S4] Length = 285 Score = 211 bits (536), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 111/263 (42%), Positives = 173/263 (65%), Gaps = 9/263 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+QEE+ LA R++ D A +++ +H+RLV+ +A +RG+GLP+ +++ EG IGL Sbjct: 18 PYLERQEEHDLAVRWKHGNDQVARNQIAHAHMRLVIAMASKFRGFGLPLGDLIQEGYIGL 77 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+P R R +TY+ WWI+A+MQ+YILR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 78 LEAAARFEPTRDVRFSTYAGWWIRASMQDYILRNWSIVRGGTSSSQKALFFNLRRLRAKL 137 Query: 147 ----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQ 201 Q +TD + E IA L VS ++V SM+ RL+ D SL A I+++ + ++ Sbjct: 138 AQGDQRLTDQAIHQE----IATALGVSLADVQSMDARLSSNDTSLQAPISNNGEEGAERL 193 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D L D ++ + + + + R + L +M+ LN RE RI ARRL E+ TLE L E Sbjct: 194 DMLASDEPTPDEQVTDMIDTERRLDWLRGAMAHLNEREMRIIRARRLSEDGATLEELGCE 253 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE RA +K++ ++ Sbjct: 254 LGISKERVRQIETRAMEKLKVAL 276 >gi|90420276|ref|ZP_01228184.1| RNA polymerase major sigma-32 factor [Aurantimonas manganoxydans SI85-9A1] gi|90335610|gb|EAS49360.1| RNA polymerase major sigma-32 factor [Aurantimonas manganoxydans SI85-9A1] Length = 289 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 105/260 (40%), Positives = 173/260 (66%), Gaps = 2/260 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L+++EEY LA R++E D A H++ ++H+RLV+ +A +R +GL +++++ EG++GL Sbjct: 18 PYLQREEEYELAVRWKEKRDQEALHKITSAHMRLVISMAAKFRHFGLAMNDLIQEGHVGL 77 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 78 LEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARL 137 Query: 147 QAITDNNLKPEQVVA-IAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 D + + IA L VSE +V M+ RL+G D SLNA + + S+ QD+L Sbjct: 138 SQGADGGVTGSAMYKEIATALKVSEGDVALMDSRLSGPDSSLNAPLMEDESGSADRQDFL 197 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V + ++++ + + R L ++ VL+ RE +I RRLQ++ TLE L ++ + Sbjct: 198 VSNSPLPDEMVSVSIDDERRVTWLHSALDVLSERELKIIRERRLQDDGATLEALGTKLGI 257 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ERVRQIE RA +K++ ++ Sbjct: 258 SKERVRQIETRALEKLRAAL 277 >gi|13473307|ref|NP_104874.1| RNA polymerase factor sigma-32 [Mesorhizobium loti MAFF303099] gi|14024055|dbj|BAB50660.1| RpoH-like sigma factor C [Mesorhizobium loti MAFF303099] Length = 287 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 112/268 (41%), Positives = 174/268 (64%), Gaps = 10/268 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P LE+ EE+ LA +++ D +A H + +H+RLV+ +A +R YGLP+ +++ EG++ Sbjct: 16 KAPYLERDEEHRLALLWKQDNDQNALHSITVAHMRLVISMASKFRHYGLPLGDLIQEGHV 75 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A +F+PER R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ Sbjct: 76 GLLEAAARFEPEREVRFSTYATWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRA 135 Query: 145 HL----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQ 199 L + +++ L E VA L VSE++V M+ RL A D SLN + + D +++ Sbjct: 136 RLANGAEPLSNTTLYREVSVA----LGVSEADVAMMDSRLSAPDSSLNMPL-ADDAGATE 190 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 D+LV D ++++ +K + R L ++ LN RE RI E RRL + TLE L Sbjct: 191 RMDFLVSDDPLPDEIVGDKIDVARRSLWLKEALHALNARELRIIEERRLNDEGATLEALG 250 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 +S+ERVRQIEARA +K++ ++ KQ Sbjct: 251 ETLGISKERVRQIEARAMEKLKVALVKQ 278 >gi|332977407|gb|EGK14184.1| DNA-directed RNA polymerase sigma subunit RpoH [Psychrobacter sp. 1501(2011)] Length = 362 Score = 210 bits (534), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 112/273 (41%), Positives = 164/273 (60%), Gaps = 9/273 (3%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 I L Y++ + +IP+L ++E LA RY + GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 84 INLGAYMNSVHQIPILTTEQEQELAHRYYDEGDVEAARILVMSHLRFVIHIARSYSGYGL 143 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++R+W +VK+ TT + Sbjct: 144 PQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVATTKAHR 203 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK T+N L E+ AIA LNV+ +V+ M RL D S A S Sbjct: 204 KLFFNLRSLKK-----TNNQLTLEEADAIAADLNVTRKQVLEMESRLTSYDASFEA--QS 256 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SD + L + ++E + +N N L +M L+ R R I E R L E Sbjct: 257 SDDEDGHYAPQLFLEDGVDPAEMVEDADWEENNTNALMDAMDTLDDRSRDIVEQRWLSEQ 316 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E++ Sbjct: 317 KSTLHELAAVYNISAERVRQIEKNAMDKIREAM 349 >gi|322421263|ref|YP_004200486.1| RNA polymerase sigma 32 subunit RpoH [Geobacter sp. M18] gi|320127650|gb|ADW15210.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. M18] Length = 284 Score = 210 bits (534), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 114/266 (42%), Positives = 167/266 (62%), Gaps = 6/266 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ EI + P+L EE LA R+R+ GDL AAH+L+TS+LR VVKIA YR YG+ + Sbjct: 12 LTLYLTEINRFPLLSADEEMDLAYRFRDEGDLQAAHKLITSNLRFVVKIAGEYRSYGMKM 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM AV+KFDP +G RL +Y++WWI+A +Q +I+ +WSL+KIGTT Q++L Sbjct: 72 LDLIQEGNIGLMMAVRKFDPAKGVRLISYAVWWIRAYIQNHIISAWSLLKIGTTQAQRKL 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF L + K QAI N + A A L+V ++E M RL G+ SL+ + D Sbjct: 132 FFKLNQAK---QAII-NMTGEGDLHAAAISLDVKDTEAREMEQRLRGELSLD--VEMFDG 185 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + L QE++L E++E + ++ LN +ER + E R E P+TL Sbjct: 186 EGGTFLETLPDLRQNQEEMLAERQETTILEQGVASALGHLNEKERFVIERRVAAEEPLTL 245 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ F +SRERVRQIE A KK++ Sbjct: 246 QEIADHFSISRERVRQIEEGALKKMK 271 >gi|217969486|ref|YP_002354720.1| RNA polymerase factor sigma-32 [Thauera sp. MZ1T] gi|217506813|gb|ACK53824.1| RNA polymerase, sigma 32 subunit, RpoH [Thauera sp. MZ1T] Length = 283 Score = 210 bits (534), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 116/279 (41%), Positives = 177/279 (63%), Gaps = 8/279 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + ++ V L +YI + ++PML +Q+E LA R R+ GD+ AA +LV SHLR+VV Sbjct: 3 QALTFPVPAAGSLDQYIQSVNRMPMLSEQQEVELATRLRDEGDVDAARQLVMSHLRVVVA 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA GY GYGLP ++++ EGNIGLM+AVK+FDP RG RL ++++ WIKA + EYIL++W L Sbjct: 63 IARGYLGYGLPHADLIQEGNIGLMKAVKRFDPTRGVRLVSFAIHWIKAEIHEYILKNWRL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 VKI TT Q++LFFNLR +K + L+P +V +IA +L V EV+ M RL+G Sbjct: 123 VKIATTKAQRKLFFNLRGMKQ-----DSSTLQPAEVRSIAAQLGVKPEEVVEMETRLSGR 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D L+A + D+ + +L H + + + + + + + L +++ L+ R R I Sbjct: 178 DIPLDAGSDDEDERFAPIA-YLPDPHAEPSEQVEQAQLARLQDSGLRDALASLDERSRAI 236 Query: 243 FEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R L E + TL L++E+ VS ER+RQIEA+A +K+ Sbjct: 237 VQRRWLAEGDSATLHELAAEYGVSAERIRQIEAKAMQKM 275 >gi|319781051|ref|YP_004140527.1| RNA polymerase sigma factor, sigma-70 family [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317166939|gb|ADV10477.1| RNA polymerase sigma factor, sigma-70 family [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 287 Score = 210 bits (534), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 112/268 (41%), Positives = 175/268 (65%), Gaps = 10/268 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P LE+ EE+ LA ++E D +A H + +H+RLV+ +A +R YGLP+ ++V EG++ Sbjct: 16 KAPYLERDEEHRLALLWKEDNDQNALHSITVAHMRLVISMASKFRHYGLPLGDLVQEGHV 75 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A +F+PER R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ Sbjct: 76 GLLEAAARFEPEREVRFSTYATWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRA 135 Query: 145 HL----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQ 199 L + +++ L E +++ L VSE++V M+ RL A D SLN + + D S++ Sbjct: 136 RLANGAEPLSNATLYRE----VSEALGVSEADVAMMDSRLSAPDSSLNMPV-ADDAGSTE 190 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 ++LV D ++++ +K + R L ++ LN RE RI E RRL + TLE L Sbjct: 191 RMEFLVSDDPLPDEIVGDKIDVARRSLWLREALRALNARELRIIEERRLNDEGATLEALG 250 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 +S+ERVRQIEARA +K++ ++ KQ Sbjct: 251 ETLGISKERVRQIEARAMEKLKVALVKQ 278 >gi|225024603|ref|ZP_03713795.1| hypothetical protein EIKCOROL_01480 [Eikenella corrodens ATCC 23834] gi|224942617|gb|EEG23826.1| hypothetical protein EIKCOROL_01480 [Eikenella corrodens ATCC 23834] Length = 283 Score = 210 bits (534), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 118/282 (41%), Positives = 176/282 (62%), Gaps = 8/282 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN I +G L +YIH + IP+L +EE+ LA R + GDL AA +L+ SHLR+ Sbjct: 1 MNNAFALPIPSGHGSLEQYIHTVNSIPLLTAEEEHSLAVRQLQ-GDLEAAKKLILSHLRV 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+ Sbjct: 60 VVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPNRGARLFSFAVHWIKAEIHEFILRN 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +V++ TT Q++LFFNLR ++ + N L PE+ IA L V EV+ M R+ Sbjct: 120 WRMVRVATTKPQRKLFFNLRSMRKSM-----NALSPEEAQTIADDLGVKMDEVLEMEQRM 174 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 G D +L + SD++S DWL Q + +K + L +++ L+ R Sbjct: 175 TGKDIALLPDNSDSDEDSYAPIDWLADTRSEPTQQIAQKARYAMQTEGLQNALAQLDDRS 234 Query: 240 RRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 RRI E+R LQ++ +TL L++E+ VS ER+RQIEA+A +K+ Sbjct: 235 RRIVESRWLQDDGGLTLHELAAEYGVSAERIRQIEAKAIQKL 276 >gi|56477835|ref|YP_159424.1| RNA polymerase factor sigma-32 [Aromatoleum aromaticum EbN1] gi|56313878|emb|CAI08523.1| Sigma-32 factor RpoH (RNA polymerase sigma factor) [Aromatoleum aromaticum EbN1] Length = 283 Score = 209 bits (533), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 120/280 (42%), Positives = 175/280 (62%), Gaps = 11/280 (3%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +S V +G + +YI + +IP+L +QEE LA R R GDL AA LV SHLRLVV I Sbjct: 5 LSFPVPFAVGSIDQYIQSVNRIPLLTEQEEVSLATRLRNEGDLEAARGLVMSHLRLVVAI 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 + GY GYGLP ++++ EGNIGLM+AVK+FDP+RG RL ++++ WIKA + EYIL++W LV Sbjct: 65 SRGYLGYGLPHADLIQEGNIGLMKAVKRFDPDRGVRLVSFAIHWIKAEIHEYILKNWRLV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KI TT Q++LFFNLR LK L ++VVA+AK+L V EV+ M RL G + Sbjct: 125 KIATTKAQRKLFFNLRSLKQ-----DTGTLNRDEVVAVAKQLGVKPEEVVEMETRLTGRD 179 Query: 185 SLNALINSSDKNSSQWQD--WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 L D + + +L + +VL + + + + L+ +++ L+ R R I Sbjct: 180 I--QLEGGPDDDEHHFAPIAYLPDPNAEPSEVLEQAQLARLQDEGLSDALASLDDRSRTI 237 Query: 243 FEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R L E + TL L++E+ VS ER+RQIEA+A +K++ Sbjct: 238 VKRRWLTEGDSATLHELAAEYGVSAERIRQIEAKAMQKMR 277 >gi|239817346|ref|YP_002946256.1| RNA polymerase, sigma 32 subunit, RpoH [Variovorax paradoxus S110] gi|239803923|gb|ACS20990.1| RNA polymerase, sigma 32 subunit, RpoH [Variovorax paradoxus S110] Length = 313 Score = 209 bits (533), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 115/283 (40%), Positives = 172/283 (60%), Gaps = 14/283 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI ++PML +EE A+R R+H DL AA L+ SHLRLVV I+ Y GYGLP Sbjct: 27 LDAYISAANRLPMLTLEEEQGFARRLRDHNDLEAAGALILSHLRLVVSISRQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQ---AITDNN-----LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 FFNLR +K + A DN L P++V +A +LNV EV+ M RL+G + L Sbjct: 147 FFNLRSMKQGFKADSAAADNGTHRDTLSPDEVSQMATRLNVKPEEVLEMETRLSGGDVLL 206 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEAR 246 S D + + + D + L+E ++R + + ++ L+ R RRI E R Sbjct: 207 DPGPSDDGDEAFGPIAYLADATQEPTALLESQQRDRLSSDGIATALEALDDRSRRIVEER 266 Query: 247 RLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ N +TL +L++ + VS ER+RQIE A KK+++++ Sbjct: 267 WLKVNDDGSGGMTLHDLAAVYGVSAERIRQIEVAAMKKMKKAL 309 >gi|71064787|ref|YP_263514.1| RNA polymerase factor sigma-32 [Psychrobacter arcticus 273-4] gi|71037772|gb|AAZ18080.1| putative Sigma 32 (RpoH) [Psychrobacter arcticus 273-4] Length = 341 Score = 209 bits (533), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 113/274 (41%), Positives = 169/274 (61%), Gaps = 11/274 (4%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L +E LA RY + GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 64 VNLGAYINTVHQIPILTPTQEQELAHRYYDEGDVEAARLLVMSHLRFVIHIARSYSGYGL 123 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++R+W +VK+ TT + Sbjct: 124 PQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVATTKAHR 183 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK T+N L E+ AIA LNV+ +V+ M RL D S A S Sbjct: 184 KLFFNLRSLKK-----TNNQLTIEEADAIANDLNVTRKQVLEMESRLTSYDASFEA--QS 236 Query: 193 SDKNSSQWQDWLVYDHDGQE--QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD + ++ L + DG + +++ E + +N + L +M L+ R R I E R L E Sbjct: 237 SDDDDGRYAPQLFLE-DGIDPAEIVEESDWEENNSSALIAAMETLDDRSRDIVEQRWLSE 295 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E++ Sbjct: 296 QKSTLHELAAVYSISAERVRQIEKNAMDKIREAM 329 >gi|253699229|ref|YP_003020418.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. M21] gi|251774079|gb|ACT16660.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. M21] Length = 285 Score = 209 bits (532), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 115/266 (43%), Positives = 168/266 (63%), Gaps = 5/266 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ EI + P+L EE LA R+R GDL AAHRL+TS+LR VVKIA YR YG+ + Sbjct: 12 LTLYLTEINRFPLLTADEEMDLACRFRREGDLEAAHRLITSNLRFVVKIAGEYRSYGMKM 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM AV+KFDP++G RL +Y++WWI+A +Q +I+ +WSL+KIGTT Q++L Sbjct: 72 LDLIQEGNIGLMMAVRKFDPDKGVRLISYAVWWIRAYIQNHIISAWSLLKIGTTQAQRKL 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF L + K QAI N + A A L+V + E M RL G+ SL+ + + Sbjct: 132 FFKLNQAK---QAIV-NMTGEGDLHAAAISLDVKDHEAQEMEQRLRGELSLDVEMFEGEG 187 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + + L QE++L E++E + ++ LN +ER + E R ENP+TL Sbjct: 188 GGT-FLESLPDLRQNQEEMLAERQETTILERNVASALEDLNEKERFVIEQRVAAENPMTL 246 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ F +SRERVRQIE A KK++ Sbjct: 247 QEIADHFSISRERVRQIEEGALKKMK 272 >gi|93005058|ref|YP_579495.1| RNA polymerase factor sigma-32 [Psychrobacter cryohalolentis K5] gi|92392736|gb|ABE74011.1| sigma 32 (RpoH) [Psychrobacter cryohalolentis K5] Length = 287 Score = 209 bits (532), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 113/274 (41%), Positives = 169/274 (61%), Gaps = 11/274 (4%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L +E LA RY + GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 10 VNLGAYINTVHQIPILTPTQEQELAHRYYDEGDVEAARLLVMSHLRFVIHIARSYSGYGL 69 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++R+W +VK+ TT + Sbjct: 70 PQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVATTKAHR 129 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK T+N L E+ AIA LNV+ +V+ M RL D S A S Sbjct: 130 KLFFNLRSLKK-----TNNQLTLEEADAIANDLNVTRKQVLEMESRLTSYDASFEA--QS 182 Query: 193 SDKNSSQWQDWLVYDHDGQE--QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD + ++ L + DG + +++ E + +N + L +M L+ R R I E R L E Sbjct: 183 SDDDDGRYAPQLFLE-DGIDPAEIVEESDWEENNSSALIAAMETLDDRSRDIVEQRWLSE 241 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E++ Sbjct: 242 QKSTLHELAAVYSISAERVRQIEKNAMDKIREAM 275 >gi|163736875|ref|ZP_02144293.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] gi|161389479|gb|EDQ13830.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] Length = 292 Score = 209 bits (532), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 109/266 (40%), Positives = 178/266 (66%), Gaps = 6/266 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D+ A HRL+ +++RL + +A +R YG P+++++ E + Sbjct: 17 KAELLDAETELQLAYAWRDERDVQALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HL--QAITDN-NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L QA +D L Q+ IA ++ V +V M+ RLAG D SLNA + SS+ + Sbjct: 137 QLERQAQSDGARLDKHQLHQQIATEIGVPLRDVQMMDGRLAGSDFSLNA-VQSSEDEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W + L D +++ E + + R+ L +M LN RER I R+L+E P TLE+L Sbjct: 196 WIEALEDDSAQAAELVEESHDTRQLRDWLVEAMQALNERERFIITERKLREKPRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQ 285 +E ++S+ERVRQ+EA AF+K+++S++ Sbjct: 256 NELDLSKERVRQLEAGAFQKMRKSLE 281 >gi|113972098|ref|YP_735891.1| RNA polymerase factor sigma-32 [Shewanella sp. MR-4] gi|114049328|ref|YP_739878.1| RNA polymerase factor sigma-32 [Shewanella sp. MR-7] gi|117922401|ref|YP_871593.1| RNA polymerase factor sigma-32 [Shewanella sp. ANA-3] gi|113886782|gb|ABI40834.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. MR-4] gi|113890770|gb|ABI44821.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. MR-7] gi|117614733|gb|ABK50187.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. ANA-3] Length = 285 Score = 209 bits (531), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 112/286 (39%), Positives = 175/286 (61%), Gaps = 11/286 (3%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M++ V G L YIH + + ML+ + EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALTVPQGSSSLEAYIHSVTSMTMLDAETEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFN+R+ K L +D+ +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNIRKAKTRLGWFSDD-----EVAMVAENLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVY--DHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRE 239 + A SSD + Q + Y DH IE + N + L ++ L+ R Sbjct: 181 QDP--AFDLSSDNDDEQDFAPVHYLEDHSSDLAENIENDNWESNAQGRLLSAIKTLDERS 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L ++ TL+ L+ ++VS ER+RQ+E A K++ ++ Sbjct: 239 QHILRARWLDDDKTTLQELAETYQVSAERIRQLEKNAMNKLKACME 284 >gi|160897140|ref|YP_001562722.1| RNA polymerase sigma 32 subunit RpoH [Delftia acidovorans SPH-1] gi|160362724|gb|ABX34337.1| RNA polymerase, sigma 32 subunit, RpoH [Delftia acidovorans SPH-1] Length = 314 Score = 209 bits (531), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 118/286 (41%), Positives = 175/286 (61%), Gaps = 19/286 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE A++ +EH DL AA RLV SHLRLVV I+ Y GYGLP Sbjct: 27 LDAYISAVNRLPMLTLEEEQDYARKLKEHSDLDAAGRLVMSHLRLVVSISRQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++ RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQNVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQ---------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 FFNLR +K L+ A+ + L ++ A+A+KLNV EV+ M RLAG + L Sbjct: 147 FFNLRSMKQGLKSDAAMAEDGAMLRDTLTSGEIDAVAEKLNVKREEVMEMETRLAGGDVL 206 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQ--VLIEKEERKN-RRNMLTRSMSVLNPRERRIF 243 L S + Q + Y DG + +IE +R + + + ++ L+ R RRI Sbjct: 207 --LDPSPSDDGEQAFGPIAYLADGAHEPTAMIESRQRDHLATDGIAMALDSLDDRSRRIV 264 Query: 244 EARRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E R L+ N +TL L++ + VS ER+RQIE A KK+++++ Sbjct: 265 EERWLKVNDDGSGGMTLHELAAVYGVSAERIRQIEVAAMKKMKKAL 310 >gi|319788352|ref|YP_004147827.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoxanthomonas suwonensis 11-1] gi|317466864|gb|ADV28596.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoxanthomonas suwonensis 11-1] Length = 292 Score = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 114/269 (42%), Positives = 171/269 (63%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L +EE LA+RYR+ DL AA LV SHLR VV +A GY GYGL + Sbjct: 24 LEAYIGAVHQIPVLSVEEEQALARRYRDQEDLDAARELVHSHLRFVVHVARGYNGYGLQL 83 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A + E+IL++W +VK+ TT Q++L Sbjct: 84 GDLIQEGNIGLMKAVKRFDPDLGVRLVSFAVHWIRAEIHEFILKNWRIVKVATTKAQRKL 143 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V A+AK LNVSE EV+ M RL+G D +A + + Sbjct: 144 FFNLRKAKTRL-----GWMNAAEVSAVAKDLNVSEREVLEMESRLSGRDIGFDAPADEDE 198 Query: 195 KNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-QENP 252 +++ +LV + Q L ++ ++ ++L ++ L+ R R I R L E+ Sbjct: 199 EHAPPSPAAYLVSMDEDPSQALEREDSEGHKLDLLRDGLASLDARSRDIIARRWLDDESK 258 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 259 VTLQELADEYGVSAERIRQIEANAMKKMR 287 >gi|148652168|ref|YP_001279261.1| RNA polymerase factor sigma-32 [Psychrobacter sp. PRwf-1] gi|148571252|gb|ABQ93311.1| RNA polymerase, sigma 32 subunit, RpoH [Psychrobacter sp. PRwf-1] Length = 372 Score = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 111/273 (40%), Positives = 164/273 (60%), Gaps = 9/273 (3%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 I L Y++ + +IP+L ++E LA RY + GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 94 INLGAYMNSVHQIPILTTEQEQELAHRYYDDGDVEAARILVMSHLRFVIHIARSYSGYGL 153 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++R+W +VK+ TT + Sbjct: 154 PQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVATTKAHR 213 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK T+N L E+ AIA LNV+ +V+ M RL D S A S Sbjct: 214 KLFFNLRSLKK-----TNNQLTLEEADAIAADLNVTRKQVLEMESRLTSYDASFEA--QS 266 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D + L + ++E + +N N L +M L+ R R I E R L E Sbjct: 267 TDDEDGHYAPQLFLEDGVDPAEMVEDADWEENNTNALMDAMDTLDERSRDIVEQRWLSEQ 326 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E++ Sbjct: 327 KSTLHELAAVYNISAERVRQIEKNAMDKIREAM 359 >gi|296448000|ref|ZP_06889906.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] gi|296254510|gb|EFH01631.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] Length = 289 Score = 208 bits (530), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 109/261 (41%), Positives = 175/261 (67%), Gaps = 3/261 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA +++ D A H+L ++H+RLV+ +A+ +R YGLP++++V EG++GL Sbjct: 19 PFLEREEEKQLAIAWKDRRDGVALHKLASAHMRLVIALAVRFRHYGLPVADLVQEGHVGL 78 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F PER R +TY+ WWI+A++Q+Y+LR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 79 LEAAARFAPERDVRFSTYATWWIRASIQDYVLRNWSIVRGGTSSSQKALFFNLRRLRAKL 138 Query: 147 -QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA-LINSSDKNSSQWQDW 203 A + AIA + VS ++V MN RLAG D SLN+ LI +S++ D+ Sbjct: 139 AHAPQTAAESGDAFDAIAGAIGVSRADVELMNSRLAGSDVSLNSQLIEDDSASSAERMDF 198 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 LV D ++++ ++ + R L ++ +L+ RE RI + RRL E+ VTLE+L Sbjct: 199 LVDDRPLPDEIVEDRLDSDRRARWLADALKLLSERELRIVQERRLSESLVTLESLGDRLG 258 Query: 264 VSRERVRQIEARAFKKVQESI 284 +S+ERVRQIE RA K+++++ Sbjct: 259 ISKERVRQIENRALCKLRKAL 279 >gi|241764416|ref|ZP_04762441.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax delafieldii 2AN] gi|241366206|gb|EER60777.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax delafieldii 2AN] Length = 312 Score = 208 bits (530), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 113/282 (40%), Positives = 170/282 (60%), Gaps = 13/282 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++P+L +EE A++ R+H D+ AA RLV SHLRLVV IA Y GYGLP Sbjct: 27 LDAYISAVNRLPLLTHEEEQTYARKLRDHNDVDAAGRLVMSHLRLVVSIARQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQAITD-------NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 FFNLR +K +A + L +++ A+A +LNV EVI M R+AG + L Sbjct: 147 FFNLRSMKQGFKADAAVDAATHRDTLSEQEIDAVATQLNVKREEVIEMETRMAGGDVLLD 206 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARR 247 S D + + D + +IE +R + + +++ L+ R RRI E R Sbjct: 207 PAPSDDGEQAFGPIGYLADASHEPTAMIESRQRDALATDGIAMALARLDDRSRRIVEERW 266 Query: 248 LQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ N +TL L++ + VS ER+RQIE A KK++ ++ Sbjct: 267 LKVNDDGTGGMTLHELAAVYGVSAERIRQIEVAAMKKMKTAL 308 >gi|12744861|gb|AAK06822.1|AF326688_1 RNA polymerase sigma-32 factor [Burkholderia pseudomallei] Length = 281 Score = 208 bits (530), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 117/283 (41%), Positives = 171/283 (60%), Gaps = 13/283 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ G +G + YI + +IP+L +EE A YRE +L AA RLV SHLRLVV +A Sbjct: 1 MLPGHLGNIDAYIQAVNRIPLLSAEEERQYATEYREQNNLDAARRLVLSHLRLVVSVARN 60 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GYGLP +++ EGNIGLM+AVK+FDP + RL +Y++ WIKA + EYILR+W +VK+G Sbjct: 61 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRMVKVG 120 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 + FFNLR K QA T PE++ +A++LNV EV M RL+ GD +L Sbjct: 121 DDEGAAQAFFNLRSHKKGTQAFT-----PEEIDGLAQELNVKREEVAEMETRLSGGDIAL 175 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I+ +++ + +L H+ VL ++ + + + R++ L+ R RRI EAR Sbjct: 176 EGQIDDGEESYAPIA-YLADSHNEPTAVLAARQRDMLQTDGIARALESLDARSRRIIEAR 234 Query: 247 RLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L TL +L++EF VS ER+RQIEA A KK++ ++ Sbjct: 235 WLNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMRTAL 277 >gi|24376056|ref|NP_720099.1| RNA polymerase factor sigma-32 [Shewanella oneidensis MR-1] gi|24351072|gb|AAN57543.1|AE015890_4 RNA polymerase sigma-32 factor [Shewanella oneidensis MR-1] Length = 285 Score = 208 bits (529), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 108/284 (38%), Positives = 172/284 (60%), Gaps = 7/284 (2%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++M++ V G L YIH + + ML+ + EY LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMALTVPQGSSSLEAYIHSVTSMNMLDAETEYELAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYAGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFN+R+ K L +D+ +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNIRKAKTRLGWFSDD-----EVTMVAENLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERR 241 + L + +D + DH IE + N + L ++ L+ R + Sbjct: 181 QDPAFDLSSDNDDEHDFAPVHYLEDHSSDLAENIENDNWESNAQGRLLSAIKTLDERSQH 240 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L ++ TL+ L+ ++VS ER+RQ+E A K++ ++ Sbjct: 241 ILRARWLDDDKTTLQELAETYQVSAERIRQLEKNAMNKLKACME 284 >gi|15839280|ref|NP_299968.1| RNA polymerase factor sigma-32 [Xylella fastidiosa 9a5c] gi|9107932|gb|AAF85488.1|AE004075_3 RNA polymerase sigma-32 factor [Xylella fastidiosa 9a5c] Length = 293 Score = 207 bits (528), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 166/268 (61%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +I +L EE +LA+RYR+ DL AA LV SHLR VV++A GY GYGL + Sbjct: 28 LEAYISAVHQISVLSVDEEQLLARRYRDQQDLDAARELVHSHLRFVVRVARGYSGYGLSL 87 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL +++M WI+A M E+IL++W +VK+ TT Q++L Sbjct: 88 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHWIRAEMHEFILKNWRIVKVATTKAQRKL 147 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ + L + E+V A+A+ LNVSE EV+ M RL+G D +A D Sbjct: 148 FFNLRKSRTRL-----GWMNAEEVSAVARDLNVSEREVLEMESRLSGRDIGFDA--PEED 200 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENPV 253 +L+ + Q + + +L +SVL+ R R I + R L+ + + Sbjct: 201 NAPPSPVGYLIANDGDPSQAYERGNSEETKLRLLQEGLSVLDTRSRDIIQRRWLETDKKI 260 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 261 TLQELAEEYGVSAERIRQIEANALKKMK 288 >gi|91787153|ref|YP_548105.1| sigma 32 (RpoH) [Polaromonas sp. JS666] gi|91696378|gb|ABE43207.1| RNA polymerase, sigma 32 subunit, RpoH [Polaromonas sp. JS666] Length = 322 Score = 207 bits (527), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 114/278 (41%), Positives = 171/278 (61%), Gaps = 11/278 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML ++E AK+ +E+ DL +A +LV SHLRLVV I+ Y GYGLP Sbjct: 39 LDAYISAVNRLPMLTLEQEQEFAKKLKENNDLDSAGKLVLSHLRLVVSISRKYLGYGLPH 98 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDPE+ RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 99 GDLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 158 Query: 136 FFNLRRLKGHLQAITD-----NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 FFNLR +K + D + L Q+ ++AK LNV EVI M R++G + L Sbjct: 159 FFNLRSMKQGFKDDADVATHRDTLTEGQIDSMAKTLNVKREEVIEMEQRMSGGDVLLDPS 218 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQ 249 S D + + D + L+E +R + + ++ ++ L+PR RRI E R L+ Sbjct: 219 PSDDGEDAFGPIAYLADATQEPTALMESRQRDSLASDGISAALQELDPRSRRIVEERWLK 278 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 N +TL +L+ E++VS ER+RQIE A KK+++ Sbjct: 279 VNDDGSGGMTLHDLADEYQVSAERIRQIEVSAMKKMKK 316 >gi|108762657|ref|YP_634340.1| RNA polymerase sigma-C factor [Myxococcus xanthus DK 1622] gi|585929|sp|Q07083|RPSC_MYXXA RecName: Full=RNA polymerase sigma-C factor gi|293866|gb|AAA25408.1| sigma factor [Myxococcus xanthus] gi|108466537|gb|ABF91722.1| RNA polymerase sigma-C factor [Myxococcus xanthus DK 1622] Length = 295 Score = 207 bits (527), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 113/267 (42%), Positives = 173/267 (64%), Gaps = 4/267 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EI + P+L + +E L+KR+R GDL+A H+LVT++LR VVK+A YR YGL + Sbjct: 13 LSTYLSEINQYPLLTQPQEQELSKRFR-AGDLAAGHQLVTANLRFVVKVAYEYRSYGLKM 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ E NIGLM+AV+KFDP++G RL +Y++WWI+A +Q IL++WSLVK+GTT Q+RL Sbjct: 72 SDLIQEANIGLMKAVQKFDPDKGIRLISYAVWWIRAYIQNCILKNWSLVKLGTTQAQRRL 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FF+L R + L+ + + IA+KLNV SEV M R+ G D SL+A + D Sbjct: 132 FFSLARTRRELEKMGAGDANVVNAEEIARKLNVKASEVREMEQRMGGRDLSLDAPMG-ED 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 +++ D++ + + ++++ R ++ R++ L+PRER I E R + + +T Sbjct: 191 GDATHL-DFVESESVSAVDEVADRQQANLTRELVQRALRRLDPRERFIIEQRVMGDAEMT 249 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 L L F SRER RQ+E RA K++ Sbjct: 250 LSELGEHFGFSRERARQLEIRAKDKLK 276 >gi|28199909|ref|NP_780223.1| RNA polymerase factor sigma-32 [Xylella fastidiosa Temecula1] gi|28058040|gb|AAO29872.1| RNA polymerase sigma-32 factor [Xylella fastidiosa Temecula1] Length = 293 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 166/268 (61%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +I +L EE +LA+RYR+ DL AA LV SHLR VV++A GY GYGL + Sbjct: 28 LEAYISAVHQISVLSVDEEQLLARRYRDQQDLDAARELVHSHLRFVVRVARGYSGYGLSL 87 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL +++M WI+A M E+IL++W +VK+ TT Q++L Sbjct: 88 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHWIRAEMHEFILKNWRIVKVATTKAQRKL 147 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ + L + E+V A+A+ LNVSE EV+ M RL+G D +A D Sbjct: 148 FFNLRKSRTRL-----GWMNAEEVSAVARDLNVSEREVLEMESRLSGRDIGFDA--PEED 200 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENPV 253 +L+ + Q + + +L +SVL+ R R I + R L+ + + Sbjct: 201 NAPPSPVGYLIANDGDPSQAYERGNSEETQLRLLQEGLSVLDTRSRDIIQRRWLETDKKI 260 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 261 TLQELAEEYGVSAERIRQIEANALKKMK 288 >gi|182682661|ref|YP_001830821.1| RNA polymerase factor sigma-32 [Xylella fastidiosa M23] gi|182632771|gb|ACB93547.1| RNA polymerase, sigma 32 subunit, RpoH [Xylella fastidiosa M23] Length = 288 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 166/268 (61%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +I +L EE +LA+RYR+ DL AA LV SHLR VV++A GY GYGL + Sbjct: 23 LEAYISAVHQISVLSVDEEQLLARRYRDQQDLDAARELVHSHLRFVVRVARGYSGYGLSL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL +++M WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ + L + E+V A+A+ LNVSE EV+ M RL+G D +A D Sbjct: 143 FFNLRKSRTRL-----GWMNAEEVSAVARDLNVSEREVLEMESRLSGRDIGFDA--PEED 195 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENPV 253 +L+ + Q + + +L +SVL+ R R I + R L+ + + Sbjct: 196 NAPPSPVGYLIANDGDPSQAYERGNSEETQLRLLQEGLSVLDTRSRDIIQRRWLETDKKI 255 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 256 TLQELAEEYGVSAERIRQIEANALKKMK 283 >gi|71901711|ref|ZP_00683785.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] gi|71728528|gb|EAO30685.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] Length = 288 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 166/268 (61%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +I +L EE +LA+RYR+ DL AA LV SHLR VV++A GY GYGL + Sbjct: 23 LEAYISAVHQISVLSVDEEQLLARRYRDQQDLDAARELVHSHLRFVVRVARGYSGYGLSL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL +++M WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ + L + E+V A+A+ LNVSE EV+ M RL+G D +A D Sbjct: 143 FFNLRKSRTRL-----GWMNAEEVSAVARDLNVSEREVLEMESRLSGRDIGFDA--PEED 195 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENPV 253 +L+ + Q + + +L +SVL+ R R I + R L+ + + Sbjct: 196 NAPPSPVGYLIANDGDPSQAYERGNSEETQLRLLQEGLSVLDTRSRDIIQRRWLETDKKI 255 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 256 TLQELAEEYGVSAERIRQIEANALKKMK 283 >gi|294676015|ref|YP_003576630.1| RNA polymerase sigma-32 factor [Rhodobacter capsulatus SB 1003] gi|294474835|gb|ADE84223.1| RNA polymerase sigma-32 factor-1 [Rhodobacter capsulatus SB 1003] Length = 292 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 106/268 (39%), Positives = 178/268 (66%), Gaps = 10/268 (3%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L+ + E LA+ +R+H D +A HRLV++++RL + +A +R YG P+++++ E ++GLM+ Sbjct: 21 LDAETEAALARAWRDHRDEAALHRLVSAYMRLAISMASKFRRYGAPMNDLIQEASLGLMK 80 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ- 147 A KFDP+RG R +TY++WWIKA++QE+++R+WS+V+ G+T++QK LFFNL+R++ +Q Sbjct: 81 AADKFDPDRGVRFSTYAVWWIKASIQEFVMRNWSMVRTGSTSSQKALFFNLKRVQAQIQR 140 Query: 148 -----AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQ 201 + + + + VAI+ + VS ++V M RL+G D SLNA S D++ +W Sbjct: 141 EAEAEGVVLDGAQLREKVAIS--IGVSMADVEMMEGRLSGSDLSLNA-PQSHDEDGREWV 197 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D L + E + E + R+ L ++M L+ RER I RRL + P TLE+L E Sbjct: 198 DTLEDEGGSPETRVTEAHDGAKMRDWLGQAMGQLSARERYIVAQRRLIDEPRTLESLGEE 257 Query: 262 FEVSRERVRQIEARAFKKVQESIQKQVE 289 +S+ER+RQ+EA+AF K+++S++ + E Sbjct: 258 LGLSKERIRQLEAQAFSKMRKSLESRSE 285 >gi|319764144|ref|YP_004128081.1| RNA polymerase sigma factor rpoh [Alicycliphilus denitrificans BC] gi|330826499|ref|YP_004389802.1| RNA polymerase sigma-32 subunit RpoH [Alicycliphilus denitrificans K601] gi|317118705|gb|ADV01194.1| RNA polymerase sigma factor RpoH [Alicycliphilus denitrificans BC] gi|329311871|gb|AEB86286.1| RNA polymerase, sigma 32 subunit, RpoH [Alicycliphilus denitrificans K601] Length = 311 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 114/281 (40%), Positives = 172/281 (61%), Gaps = 12/281 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++P+L +EE A+++++ DL AA RLV SHLRLVV I+ Y GYGLP Sbjct: 27 LDAYISAVNRLPLLTLEEEQRYAQQFKKDNDLEAAGRLVLSHLRLVVSISRQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 FFNLR +K +A + L ++ +A++LNV EVI M RLAG + L Sbjct: 147 FFNLRSMKQGFKADAIDADTHRETLSDHEIDMVAEQLNVKREEVIEMETRLAGGDVLLDP 206 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRL 248 S D + + D + +IE +R + +T +++ L+ R RRI E R L Sbjct: 207 APSDDGEQAFGPIAYLADTAHEPTAMIESRQRDALATDGITSALASLDARSRRIVEQRWL 266 Query: 249 QENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 Q N +TL L++E+ VS ER+RQIE A KK+++++ Sbjct: 267 QVNDDGSGGMTLHELAAEYGVSAERIRQIEVAAMKKMKKAL 307 >gi|238021049|ref|ZP_04601475.1| hypothetical protein GCWU000324_00946 [Kingella oralis ATCC 51147] gi|237868029|gb|EEP69035.1| hypothetical protein GCWU000324_00946 [Kingella oralis ATCC 51147] Length = 290 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 123/282 (43%), Positives = 175/282 (62%), Gaps = 8/282 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN + +G L +YIH + IPML +EE LA+R + GDL AA +L+ SHLR+ Sbjct: 1 MNNAFALSVPSGHGSLEQYIHTVNSIPMLTLEEETSLAQR-QLRGDLEAAKQLILSHLRV 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA GY GYGL ++++ EGN+GLM+AVK+F+P G RL ++++ WIKA + E+ILR+ Sbjct: 60 VVSIARGYDGYGLNQADLIQEGNVGLMKAVKRFEPTHGARLFSFAVHWIKAEIHEFILRN 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LV+I TT Q++LFFNLR ++ L A L P++ IA L V S+V+ M R+ Sbjct: 120 WRLVRIATTKPQRKLFFNLRSMRKSLSA-----LSPKEAQDIADDLGVKLSDVLEMEQRM 174 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 G D +L A + D N+ DWL D Q L +K + L ++S L+ R Sbjct: 175 TGNDVALLADNSDDDDNNFAPIDWLSDDSSEPSQQLAKKAHYALQTEGLRNALSQLDERS 234 Query: 240 RRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 RRI E R LQ++ +TL L++EF VS ER+RQIEA+A +K+ Sbjct: 235 RRIVETRWLQDDGGLTLHELAAEFGVSAERIRQIEAKAMQKL 276 >gi|71275285|ref|ZP_00651572.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Dixon] gi|71902025|ref|ZP_00684069.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] gi|71164094|gb|EAO13809.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Dixon] gi|71728204|gb|EAO30391.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] Length = 288 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 166/268 (61%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +I +L EE +LA+RYR+ DL AA LV SHLR VV++A GY GYGL + Sbjct: 23 LEAYISAVHQISVLSVDEEQLLARRYRDQQDLDAARELVHSHLRFVVRVARGYSGYGLSL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL +++M WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ + L + E+V A+A+ LNVSE EV+ M RL+G D +A D Sbjct: 143 FFNLRKSRTRL-----GWMNAEEVSAVARDLNVSEREVLEMESRLSGRDIGFDA--PEED 195 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENPV 253 +L+ + Q + + +L +SVL+ R R I + R L+ + + Sbjct: 196 NAPPSPVGYLIANDGDPSQAYERGNSEETQLRLLQEGLSVLDTRSRDIIQRRWLETDKKI 255 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 256 TLQELAEEYGVSAERIRQIEANALKKMK 283 >gi|222087729|ref|YP_002546266.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] gi|221725177|gb|ACM28333.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] Length = 286 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 115/275 (41%), Positives = 176/275 (64%), Gaps = 15/275 (5%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 R I P L + EE+ LA R+++H D A +++ T+H+RLV+ +A +R +GLP+S+ Sbjct: 8 RMIKMAMAAPYLARDEEHDLAIRWKDHEDRGARNKIATAHMRLVISMAGKFRNFGLPMSD 67 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +V EG +GL++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFF Sbjct: 68 LVQEGYVGLLEAAARFEPEREVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFF 127 Query: 138 NLRRLKGHL----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 NLRRL+ L +T ++ E IA L VS S+V +M+ RL+ D SL A S Sbjct: 128 NLRRLRAKLARGNTGVTVQSIHEE----IAVALGVSLSDVQTMDARLSSNDASLQAPSIS 183 Query: 193 SDKNSSQWQDWLVYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 D S++ D+L+ D D Q +I+ E RR L ++ LN RE +I ARRL Sbjct: 184 GDAESAERMDFLISDEPLPDEQVSNMIDGE---RRRVWLASALKHLNEREMKIIRARRLV 240 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E+ TLE L ++ +S+ERVRQIE+RA +K++ ++ Sbjct: 241 EDGATLEELGADLGISKERVRQIESRAMEKLRSAL 275 >gi|307578942|gb|ADN62911.1| RNA polymerase factor sigma-32 [Xylella fastidiosa subsp. fastidiosa GB514] Length = 282 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 166/268 (61%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +I +L EE +LA+RYR+ DL AA LV SHLR VV++A GY GYGL + Sbjct: 17 LEAYISAVHQISVLSVDEEQLLARRYRDQQDLDAARELVHSHLRFVVRVARGYSGYGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL +++M WI+A M E+IL++W +VK+ TT Q++L Sbjct: 77 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHWIRAEMHEFILKNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ + L + E+V A+A+ LNVSE EV+ M RL+G D +A D Sbjct: 137 FFNLRKSRTRL-----GWMNAEEVSAVARDLNVSEREVLEMESRLSGRDIGFDA--PEED 189 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENPV 253 +L+ + Q + + +L +SVL+ R R I + R L+ + + Sbjct: 190 NAPPSPVGYLIANDGDPSQAYERGNSEETQLRLLQEGLSVLDTRSRDIIQRRWLETDKKI 249 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 250 TLQELAEEYGVSAERIRQIEANALKKMK 277 >gi|298293645|ref|YP_003695584.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] gi|296930156|gb|ADH90965.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] Length = 293 Score = 206 bits (525), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 118/273 (43%), Positives = 174/273 (63%), Gaps = 12/273 (4%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+L++ EEY LA+R+ E D A H L+ +H+RL + IA +R YGLP+ +++ EG+IGL Sbjct: 19 PLLDRTEEYELARRWAEQHDEKALHALIHAHMRLAIAIARRFRNYGLPMPDLIQEGHIGL 78 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+A +F+ R ATY+ WWI+AA+Q+Y+LR+WS+V+ GT++ QK LFFNLRR++ L Sbjct: 79 MEAASRFETTHEVRFATYASWWIRAAIQDYVLRNWSIVRGGTSSGQKALFFNLRRVRARL 138 Query: 147 Q---AITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQWQD 202 + + E +IA+KL VSE EV M+ RL D SLNA ++ +++ ++ D Sbjct: 139 ERANGGAGETTREEMHRSIAEKLGVSEIEVARMDARLNVPDLSLNAPLSFGEEDGAERMD 198 Query: 203 WLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 LV D EQV +E + + RR L ++ LN RE RI EARRL E+ TLE L Sbjct: 199 QLVAADPLPDEQVSMEIDGER-RRRWLQGALRGLNEREFRIIEARRLTEDSETLEVLGER 257 Query: 262 FEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 +S+ERVRQIE+RA +K+ ++ L+ SP Sbjct: 258 LGISKERVRQIESRAIEKL------RIALTRSP 284 >gi|52842873|ref|YP_096672.1| RNA polymerase factor sigma-32 [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52629984|gb|AAU28725.1| RNA polymerase sigma-32 factor RpoH [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 292 Score = 206 bits (525), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 177/272 (65%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YIH + +IPML +EE A+R+ GD+ AA +LV +HLR VV++A GY GYGLP+ Sbjct: 25 LDSYIHRVNQIPMLTLEEEIAYAERFHSEGDIEAARQLVLAHLRYVVRVARGYLGYGLPL 84 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+FDP+ G RL ++++ WIKA + E++LR+W +VK+ TT Q++L Sbjct: 85 SDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKL 144 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR++K L ++ E+V A+AK L VS +V+ M RL D S +A + Sbjct: 145 FFNLRQMKNRLGWFSN-----EEVDAVAKDLGVSREDVLLMEQRLNVMDSSYDAPDVDDN 199 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ + + +++ + VL+E E+ ++ R L +M L+ R + I + R L E + Sbjct: 200 DDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAMEQLDERSQDILQQRWLAEEKL 259 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ ++ VS ERVRQ+E A KK+++ ++ Sbjct: 260 TLHDLAEKYGVSAERVRQLEKNAMKKIRQYME 291 >gi|54295507|ref|YP_127922.1| RNA polymerase factor sigma-32 [Legionella pneumophila str. Lens] gi|53755339|emb|CAH16835.1| RNA polymerase sigma-32 factor [Legionella pneumophila str. Lens] Length = 284 Score = 206 bits (525), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 177/272 (65%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YIH + +IPML +EE A+R+ GD+ AA +LV +HLR VV++A GY GYGLP+ Sbjct: 17 LDSYIHRVNQIPMLTLEEEIAYAERFHSEGDIEAARQLVLAHLRYVVRVARGYLGYGLPL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+FDP+ G RL ++++ WIKA + E++LR+W +VK+ TT Q++L Sbjct: 77 SDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR++K L ++ E+V A+AK L VS +V+ M RL D S +A + Sbjct: 137 FFNLRQMKNRLGWFSN-----EEVDAVAKDLGVSREDVLLMEQRLNVMDSSYDAPDVDDN 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ + + +++ + VL+E E+ ++ R L +M L+ R + I + R L E + Sbjct: 192 DDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAMEQLDERSQDILQQRWLAEEKL 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ ++ VS ERVRQ+E A KK+++ ++ Sbjct: 252 TLHDLAEKYGVSAERVRQLEKNAMKKIRQYME 283 >gi|307611543|emb|CBX01223.1| RNA polymerase sigma-32 factor [Legionella pneumophila 130b] Length = 284 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 177/272 (65%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YIH + +IPML +EE A+R+ GD+ AA +LV +HLR VV++A GY GYGLP+ Sbjct: 17 LDSYIHRVNQIPMLTLEEEIAYAERFHSEGDIEAARQLVLAHLRYVVRVARGYLGYGLPL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+FDP+ G RL ++++ WIKA + E++LR+W +VK+ TT Q++L Sbjct: 77 SDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR++K L ++ E+V A+AK L VS +V+ M RL D S +A + Sbjct: 137 FFNLRQMKNRLGWFSN-----EEVDAVAKDLGVSREDVLLMEQRLNVMDSSYDAPDVDDN 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ + + +++ + VL+E E+ ++ R L +M L+ R + I + R L E + Sbjct: 192 DDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAMEQLDERSQDILQQRWLAEEKL 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ ++ VS ERVRQ+E A KK+++ ++ Sbjct: 252 TLHDLAEKYGVSAERVRQLEKNAMKKIRQYME 283 >gi|297180174|gb|ADI16396.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured bacterium HF130_12L15] Length = 288 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 118/279 (42%), Positives = 184/279 (65%), Gaps = 3/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 +N E S I RK P L++ EE+ LA R+R+ D A HR+ +H+RLV+ +A +R Sbjct: 1 MNAEPAGSSMISAARKAPYLDRVEEHDLAVRWRDDRDQEALHRITMAHMRLVISMAGKFR 60 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 +GLP+S++V EG++GL++A +F+PER R +TY+ WWI+A+MQ++ILR+WS+V+ GT+ Sbjct: 61 YFGLPMSDLVQEGHVGLLEAAARFEPERDVRFSTYATWWIRASMQDHILRNWSIVRGGTS 120 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAG-DESLN 187 + QK LFFNLRRL+ L T+ LK V IA + VS ++V M+ RL+G D SLN Sbjct: 121 SAQKALFFNLRRLRARLAQGTE-PLKGAAVYQEIADAIGVSVADVALMDSRLSGPDSSLN 179 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + +++S+ D+LV + ++V+ + + R L R++ VLN RE RI RR Sbjct: 180 APVADGGESTSERMDFLVSEDPTPDEVVSASIDDERRTMWLNRALGVLNDRELRIIRERR 239 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L++ TLE+L ++ +S+ERVRQIE RA +K++ ++ K Sbjct: 240 LRDEGATLESLGAKLGISKERVRQIENRALEKLRSALLK 278 >gi|170731288|ref|YP_001776721.1| RNA polymerase factor sigma-32 [Xylella fastidiosa M12] gi|167966081|gb|ACA13091.1| RNA polymerase sigma-32 factor [Xylella fastidiosa M12] Length = 288 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 166/268 (61%), Gaps = 9/268 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +I +L EE +LA+RYR+ DL AA LV SHLR VV++A GY GYGL + Sbjct: 23 LEAYISAVHQISVLSVDEEQLLARRYRDQQDLDAARELVHSHLRFVVRVARGYSGYGLSL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL +++M WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ + L + E+V A+A+ LNVSE EV+ M RL+G D +A D Sbjct: 143 FFNLRKSRTRL-----GWMNAEEVSAVARDLNVSEREVLEMESRLSGRDIGFDA--PEED 195 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENPV 253 +L+ + Q + + +L +SVL+ R R I + R L+ + + Sbjct: 196 NAPLSPVGYLIANDGDPSQAYERGNSEETQLRLLQEGLSVLDTRSRDIIQRRWLETDKKI 255 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL+ L+ E+ VS ER+RQIEA A KK++ Sbjct: 256 TLQELAEEYGVSAERIRQIEANALKKMK 283 >gi|221133912|ref|ZP_03560217.1| RNA polymerase, sigma 32 subunit, RpoH [Glaciecola sp. HTCC2999] Length = 283 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 113/281 (40%), Positives = 169/281 (60%), Gaps = 7/281 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M++ + + YI + IPML EE LA+R GDL+AA LV SHLR VV IA Sbjct: 7 MALTIPQSGSIESYIQSVSNIPMLSADEEKSLAERLFNEGDLTAARELVMSHLRFVVHIA 66 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGL +++V EGNIGLM+AVK+FDP G RL ++++ WIKA + E++L++W +VK Sbjct: 67 KSYSGYGLAQADLVQEGNIGLMKAVKRFDPNVGVRLVSFAVHWIKAEIHEFVLKNWRIVK 126 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 + TT Q++LFFNLR+ K L T ++V +A++L VSE EV+ M R+ D Sbjct: 127 VATTKAQRKLFFNLRKSKKRLGWFT-----HKEVQKVAEELGVSEKEVLQMEARMGSQDT 181 Query: 185 SLNALINSSDKNSS-QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + + + D NS+ +L + E +I + N L ++ L+ R + I Sbjct: 182 AFDLSSDDGDDNSNFSPAQYLEDKSENVEAAVINADYDSNASARLYSAIKTLDERSQYII 241 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E R L +N +TL++L++++EVS ERVRQIE A KK+Q ++ Sbjct: 242 ETRWLNDNKMTLQDLAAKYEVSAERVRQIEKNAMKKIQAAM 282 >gi|56695321|ref|YP_165669.1| RNA polymerase factor sigma-32 [Ruegeria pomeroyi DSS-3] gi|56677058|gb|AAV93724.1| RNA polymerase sigma-32 factor [Ruegeria pomeroyi DSS-3] Length = 292 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 106/266 (39%), Positives = 177/266 (66%), Gaps = 6/266 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+H D +A HRL+T+++RL + +A ++ YG P+++++ E + Sbjct: 17 KAELLDAETELALAYAWRDHRDEAALHRLITAYMRLAISMAAKFKRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HL--QAITDN-NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +A TD L Q+ IA ++ V +V M RL+G D SLNA +SD+ + Sbjct: 137 RLEREAATDGLALDRHQLHQMIASEIGVPLRDVEMMEGRLSGSDFSLNA-TQASDEEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W + L + + +++ + + + R+ L +M LN RER I R+L++ P TLE+L Sbjct: 196 WIEALEDESEQAAELVAHRHDTEQLRDWLIEAMQALNERERFIVRERKLRDEPRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQ 285 E +S+ERVRQ+EA AF K+++S++ Sbjct: 256 DELGLSKERVRQLEAAAFAKMRKSLE 281 >gi|148358598|ref|YP_001249805.1| hypothetical protein LPC_0471 [Legionella pneumophila str. Corby] gi|148280371|gb|ABQ54459.1| hypothetical protein LPC_0471 [Legionella pneumophila str. Corby] Length = 284 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 177/272 (65%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YIH + +IPML +EE A+R+ GD+ AA +LV +HLR VV++A GY GYGLP+ Sbjct: 17 LDSYIHRVNQIPMLTLEEEIAYAERFHSEGDIEAARQLVLAHLRYVVRVARGYLGYGLPL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+FDP+ G RL ++++ WIKA + E++LR+W +VK+ TT Q++L Sbjct: 77 SDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR++K L ++ E+V A+AK L VS +V+ M RL D S +A + Sbjct: 137 FFNLRQMKNRLGWFSN-----EEVDAVAKDLGVSREDVLLMEQRLNVMDSSYDAPDVDDN 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ + + +++ + VL+E E+ ++ R L +M L+ R + I + R L E + Sbjct: 192 DDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAMEQLDERSQDILQQRWLAEEKL 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ ++ VS ERVRQ+E A KK+++ ++ Sbjct: 252 TLHDLAEKYGVSAERVRQLEKNAMKKIRQYME 283 >gi|54298657|ref|YP_125026.1| RNA polymerase factor sigma-32 [Legionella pneumophila str. Paris] gi|296108313|ref|YP_003620014.1| RNA polymerase sigma-32 factor [Legionella pneumophila 2300/99 Alcoy] gi|53752442|emb|CAH13874.1| RNA polymerase sigma-32 factor [Legionella pneumophila str. Paris] gi|295650215|gb|ADG26062.1| RNA polymerase sigma-32 factor [Legionella pneumophila 2300/99 Alcoy] Length = 284 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 177/272 (65%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YIH + +IPML +EE A+R+ GD+ AA +LV +HLR VV++A GY GYGLP+ Sbjct: 17 LDSYIHRVNQIPMLTLEEEIAYAERFHSEGDIEAARQLVLAHLRYVVRVARGYLGYGLPL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+FDP+ G RL ++++ WIKA + E++LR+W +VK+ TT Q++L Sbjct: 77 SDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR++K L ++ E+V A+AK L VS +V+ M RL D S +A + Sbjct: 137 FFNLRQMKNRLGWFSN-----EEVDAVAKDLGVSREDVLLMEQRLNVMDSSYDAPDVDDN 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ + + +++ + VL+E E+ ++ R L +M L+ R + I + R L E + Sbjct: 192 DDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAMEQLDERSQDILQQRWLAEEKL 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ ++ VS ERVRQ+E A KK+++ ++ Sbjct: 252 TLHDLAEKYGVSAERVRQLEKNAMKKIRQYME 283 >gi|190576084|ref|YP_001973929.1| RNA polymerase factor sigma-32 [Stenotrophomonas maltophilia K279a] gi|190014006|emb|CAQ47646.1| putative RNA polymerase sigma-32 factor [Stenotrophomonas maltophilia K279a] Length = 291 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 111/269 (41%), Positives = 169/269 (62%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L +E LA+R+R+ DL AA LV SHLR VV +A GY GYGL + Sbjct: 23 LDAYIGAVHQIPVLSVDDEQDLARRFRDGNDLDAARELVHSHLRFVVHVARGYNGYGLAL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V A+AK LNVSE EV+ M RL+G D +A + + Sbjct: 143 FFNLRKSKTRL-----GWMNAAEVSAVAKDLNVSEREVMEMESRLSGRDIGFDAPTDEDN 197 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK-NRRNMLTRSMSVLNPRERRIFEARRLQ-ENP 252 +++ + D + E+E+ + N+ +L ++ L+ R R I R L ++ Sbjct: 198 EHAPPSPAAFLVADDEDPSMAYEREDSEDNQMQLLREGLAELDARSRDIIRRRWLDADSK 257 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTL+ L+ E+ VS ER+RQ+EA A KK++ Sbjct: 258 VTLQELADEYGVSAERIRQVEANALKKMK 286 >gi|47028349|gb|AAT09107.1| RpoH-like sigma factor [Rhizobium sp. TAL11145] Length = 289 Score = 206 bits (524), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 119/292 (40%), Positives = 182/292 (62%), Gaps = 22/292 (7%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ KNMS R I P L + EE+ LA R+++H D A +++ T+H+RL Sbjct: 1 MHMKNMS-------ADRRMIKIAMAAPYLGRDEEHDLAIRWKDHDDRGARNKIATAHMRL 53 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A +R +GLP+S++V EG +GL++A +F+PER R +TY+ WWI+A++Q+YILR+ Sbjct: 54 VISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPEREVRFSTYASWWIRASIQDYILRN 113 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHL----QAITDNNLKPEQVVAIAKKLNVSESEVISM 176 WS+V+ GT++ QK LFFNLRRL+ L +T ++ E IA L VS ++V +M Sbjct: 114 WSIVRGGTSSAQKALFFNLRRLRAKLARGNTGVTVQSIHEE----IAVALGVSLADVQTM 169 Query: 177 NCRLAG-DESLNALINSSDKNSSQWQDWLVYDH---DGQEQVLIEKEERKNRRNMLTRSM 232 + RL+ D SL A S D S++ D+L+ D D Q +I+ E RR L ++ Sbjct: 170 DARLSSNDASLQAPSISGDAESAERMDFLISDEPLPDEQVSNMIDGE---RRRVWLASAL 226 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 LN RE +I ARRL E+ TLE L ++ +S+ERVRQIE+RA +K++ ++ Sbjct: 227 KHLNEREMKIIRARRLVEDGATLEELGADLGISKERVRQIESRAMEKLRSAL 278 >gi|254465185|ref|ZP_05078596.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacterales bacterium Y4I] gi|206686093|gb|EDZ46575.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacterales bacterium Y4I] Length = 292 Score = 206 bits (524), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 176/268 (65%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ E LA +R+ D+ + HRL+ +++RL + +A ++ YG P+++++ E + Sbjct: 17 KAELLDADTERRLAYAWRDDRDVESLHRLINAYMRLAISMAAKFKRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HLQAITDNNLKP----EQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ ++ P + IA ++ V +V M RL+G D SLNA + S+D+ + Sbjct: 137 QLEREARSSGVPLDQHQLHQKIATEIGVPLRDVEMMEGRLSGADFSLNA-VQSTDEEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D E ++ E+ +R+ R L ++ LN RER I R+L++ P TLE+L Sbjct: 196 WIDALEDDASQAEDLVQERHDRRQLRKWLVTALQALNDRERFIITERKLRDRPRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E +S+ERVRQ+EA AF+K+++S++ Q Sbjct: 256 TELGLSKERVRQLEAGAFQKMRKSLESQ 283 >gi|197116970|ref|YP_002137397.1| RNA polymerase sigma-32 factor RpoH [Geobacter bemidjiensis Bem] gi|197086330|gb|ACH37601.1| RNA polymerase sigma-32 factor RpoH [Geobacter bemidjiensis Bem] Length = 285 Score = 206 bits (524), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 112/266 (42%), Positives = 169/266 (63%), Gaps = 5/266 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ EI + P+L EE LA R+R GDL AAHRL+T++LR VVKIA YR YG+ + Sbjct: 12 LTLYLAEINRFPLLTADEEMDLAGRFRREGDLEAAHRLITANLRFVVKIAGEYRSYGMKM 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM AV+KFDP++G RL +Y++WWI+A +Q +I+ +WSL+KIGTT Q++L Sbjct: 72 LDLIQEGNIGLMMAVRKFDPDKGVRLISYAVWWIRAYIQNHIISAWSLLKIGTTQAQRKL 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF L + K QAI N + A A L+V ++E M RL G+ SL+ + + Sbjct: 132 FFKLNQAK---QAIV-NMTGEGDLHAAAISLDVKDNEAREMEQRLRGELSLDVEMFEGEG 187 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + + L QE++L E++E + ++ LN +E+ + E R E+P+TL Sbjct: 188 GGT-FLESLPDLRQNQEEMLAERQETTILERNVASALENLNEKEKFVIEQRVAAEDPMTL 246 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ F +SRERVRQIE A KK++ Sbjct: 247 QEIADHFSISRERVRQIEEGALKKMK 272 >gi|99080297|ref|YP_612451.1| RNA polymerase factor sigma-32 [Ruegeria sp. TM1040] gi|99036577|gb|ABF63189.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. TM1040] Length = 292 Score = 206 bits (524), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 179/270 (66%), Gaps = 10/270 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D+ A HRL+T+++RL V +A +R YG P+++++ E + Sbjct: 17 KAELLDAETELALAYAWRDEKDVQALHRLITAYMRLAVSMASKFRRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A +KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAAEKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HL------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 L + + + K Q+V A+++ V +V M+ RLAG D SLNA + S+D++ Sbjct: 137 QLEREAAGEGVELDRHKLMQMV--AEEIGVPLRDVEMMDGRLAGADFSLNA-VQSADEDG 193 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +W D L D + + +R+ R L +++ LN RER I R+L+E TLE+ Sbjct: 194 REWIDALEDDSEQAADRVEADHDRRQLREWLLSALNGLNERERFIVRERKLREEARTLES 253 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L +E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 254 LGNELGLSKERVRQLEAAAFSKMRKSLEGQ 283 >gi|303256291|ref|ZP_07342307.1| alternative sigma factor RpoH [Burkholderiales bacterium 1_1_47] gi|330998988|ref|ZP_08322713.1| alternative sigma factor RpoH [Parasutterella excrementihominis YIT 11859] gi|302861020|gb|EFL84095.1| alternative sigma factor RpoH [Burkholderiales bacterium 1_1_47] gi|329575730|gb|EGG57256.1| alternative sigma factor RpoH [Parasutterella excrementihominis YIT 11859] Length = 306 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 116/280 (41%), Positives = 166/280 (59%), Gaps = 13/280 (4%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I + +G L YI K P+L + E+ LA R +EHGD+ AA LV SHLRLV+ IA Sbjct: 24 IPDASLGSLEEYIRAANKAPILSAEREHELAVRLQEHGDMEAAGELVMSHLRLVISIARQ 83 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y+GYGLP +++ EGNIGLM+AVK+F+P G RL T++M WIK+ +QEY+LR+W LVK+ Sbjct: 84 YQGYGLPFGDLIQEGNIGLMKAVKRFNPNNGARLVTFAMTWIKSEIQEYVLRNWRLVKVA 143 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TT +Q++LFFNLR+LK + L + IA+ L+V SEV M R+ G D + Sbjct: 144 TTKSQRKLFFNLRKLKDDTKL-----LGTSEAEKIAETLDVKPSEVFEMEKRMLGSDVEI 198 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +D+ + +WL + D E + N L ++ L+ R RRI EAR Sbjct: 199 DEPSGGTDEGMAP-SEWLTDERDTPENTIARGAYENTIENRLPEAVKKLDDRSRRIIEAR 257 Query: 247 RLQEN-----PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + TL +L+ E VS+ERVRQ+E +AF ++ Sbjct: 258 WLYNDQDGSKGATLADLAKEMGVSQERVRQLEKKAFATLK 297 >gi|119899581|ref|YP_934794.1| RNA polymerase factor sigma-32 [Azoarcus sp. BH72] gi|119671994|emb|CAL95908.1| RNA polymerase sigma-32 factor [Azoarcus sp. BH72] Length = 284 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 115/283 (40%), Positives = 178/283 (62%), Gaps = 13/283 (4%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 + +S V +G + +YI + ++P+L +Q+E LA R R+ GD+ AA +LV SHLR+VV Sbjct: 3 QALSFPVPSVVGSIDQYIQAVNRVPLLTEQQEVELATRLRDDGDVDAARQLVMSHLRVVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA GY GYGLP ++++ EGNIGLM+AVK+FDP RG RL ++++ WIKA + EYIL++W Sbjct: 63 AIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPTRGVRLVSFAIHWIKAEIHEYILKNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 LVKI TT Q++LFFNLR LK L ++V A+A +L V EV+ M RL+G Sbjct: 123 LVKIATTKAQRKLFFNLRSLKQDT-----GTLNRDEVEAVATQLGVKPEEVVEMETRLSG 177 Query: 183 DESLNALINSSDKNSSQWQDWLVY--DHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRE 239 + I+ + + + + Y + ++E+ ER + ++ L +++ L+ R Sbjct: 178 R---DIPIDGGNDDEDERFAPIAYLPAPAAEPSEVLERAERAHLQDTGLKQALGALDERS 234 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R I E R L + + TL L++E+ VS ER+RQIEA+A +K++ Sbjct: 235 RTIVERRWLTDGDSATLHELAAEYGVSAERIRQIEAKAMQKMR 277 >gi|326318574|ref|YP_004236246.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax avenae subsp. avenae ATCC 19860] gi|323375410|gb|ADX47679.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax avenae subsp. avenae ATCC 19860] Length = 313 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 113/285 (39%), Positives = 174/285 (61%), Gaps = 18/285 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE A+R +EH D+ AA R+V SHLRLVV IA Y GYGLP Sbjct: 27 LDAYISAVNRLPMLTAEEERTYARRLKEHNDVEAAGRMVMSHLRLVVSIARQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++ RL +Y+M WIKA + EYIL++W +VK+ TT +Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQNVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKSQRKL 146 Query: 136 FFNLRRLKGHLQAITD--------NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 FFNLR +K +A + L +++ +A++LNV EVI M RL+G + + Sbjct: 147 FFNLRSMKQGFKADSAAGNTGTHRETLSEQEIDVVAQQLNVKREEVIEMETRLSGGDVM- 205 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQ--VLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 L + + Q + Y DG + +IE +R + + +++ L+ R RRI E Sbjct: 206 -LDPAPSDDGEQAYGPIAYLADGTHEPTAMIESRQRDVLATDGIANALATLDDRSRRIVE 264 Query: 245 ARRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L+ N +TL L++ + VS ER+RQIE A KK+++++ Sbjct: 265 ERWLKVNDDGSGGMTLHELAAVYGVSAERIRQIEVAAMKKMKKAL 309 >gi|121611388|ref|YP_999195.1| RNA polymerase sigma-32 subunit RpoH [Verminephrobacter eiseniae EF01-2] gi|121556028|gb|ABM60177.1| RNA polymerase, sigma 32 subunit, RpoH [Verminephrobacter eiseniae EF01-2] Length = 313 Score = 206 bits (523), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 113/285 (39%), Positives = 174/285 (61%), Gaps = 14/285 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++P+L ++E A++++EH DL AA RLV SHLRLVV IA Y GYGLP Sbjct: 27 LDAYIAAVNRLPLLTYEQEQSYARQFKEHNDLDAAGRLVLSHLRLVVSIARQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQAITD--------NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 FFNLR +K +A + L ++ A+A +L+V EVI M R++G + L Sbjct: 147 FFNLRSMKQGFKADAGATDAATYRDTLSEHEIDAVAAQLHVKREEVIEMETRMSGGDVLL 206 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEAR 246 S D + + D + LIE +R + + ++++ L+ R RRI + R Sbjct: 207 DPAPSDDGEQAFGPIAYLADASHEPTALIESRQRDALATDGIAKALASLDERSRRIVQER 266 Query: 247 RLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L+ N +TL +L++ + VS ER+RQIE A KK+++++ K Sbjct: 267 WLKVNDDGTGGMTLHDLAAIYGVSAERIRQIEVAAMKKMKQALVK 311 >gi|254490572|ref|ZP_05103758.1| alternative sigma factor RpoH [Methylophaga thiooxidans DMS010] gi|224464316|gb|EEF80579.1| alternative sigma factor RpoH [Methylophaga thiooxydans DMS010] Length = 287 Score = 206 bits (523), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 112/272 (41%), Positives = 171/272 (62%), Gaps = 10/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y + IP+L +EEY LA R ++ GDL AA RLV SHLR VV+IA GY GYGLP+ Sbjct: 18 LDAYTSLVHTIPVLTAEEEYDLATRLQQDGDLEAAQRLVLSHLRFVVRIAKGYSGYGLPV 77 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+PE+G RL ++++ W++A + EY++R+W +VKI TT Q++L Sbjct: 78 ADLIQEGNIGLMKAVKRFNPEKGVRLVSFAVHWVRAEIHEYVIRNWRIVKIATTKAQRKL 137 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSSD 194 FFNLR K L L E+V A+A+ L V+ + V+ M RLA D S + +S+D Sbjct: 138 FFNLRSAKQRL-----GWLNQEEVEAVAEDLGVTPANVMDMERRLAQPDASFDLPADSND 192 Query: 195 KNSSQWQD--WLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + +L + +E+E + ++ LT +++ L+ R R I R L E+ Sbjct: 193 DEETHFSPVAYLAGPENSDPSQQLEQENYSDYQQQKLTNALATLDDRSRDIIMQRWLNED 252 Query: 252 P-VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 TL L+ +++VS ER+RQIE A KK+++ Sbjct: 253 DKATLHTLADQYQVSAERIRQIENNAMKKLKK 284 >gi|319407753|emb|CBI81400.1| RNA polymerase sigma-32 factor [Bartonella sp. 1-1C] Length = 303 Score = 205 bits (522), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 109/277 (39%), Positives = 180/277 (64%), Gaps = 4/277 (1%) Query: 11 NGEIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 N + L R + ++ P LE+++E+ LA R++ D +A H++ +H+RLV+ IA ++ Sbjct: 17 NTDTSLGRNMMRSAKQAPYLERKKEHDLALRWKNKRDDNAMHQIAAAHMRLVISIASRFK 76 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 + +P+ ++V EG +GL++A +FDP+RG R +TY+ WWI+A++Q+YILR+WS+V+ GT+ Sbjct: 77 RFKMPLGDLVQEGYVGLLEAAARFDPDRGVRFSTYATWWIRASIQDYILRNWSIVRGGTS 136 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAG-DESLN 187 ++QK LFFNLRRL+ L A DN L +++ AI++KL VS ++V M+ R +G D SL+ Sbjct: 137 SSQKALFFNLRRLRAKL-AQDDNTLTKQEIFRAISEKLGVSVNDVEKMDFRFSGTDNSLS 195 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I+ + + D L+ DH + V+ + + + R L ++ +LN RE I RR Sbjct: 196 LSISENGETPIAKMDSLIDDHPLPDSVIEQAIDGQRRAQWLHEALQILNERELEIIRFRR 255 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L E TLE L + +S+ERVRQIEARA +K++ ++ Sbjct: 256 LNEEGTTLEVLGEKLGISKERVRQIEARALQKLRCAL 292 >gi|121603798|ref|YP_981127.1| RNA polymerase sigma-32 subunit RpoH [Polaromonas naphthalenivorans CJ2] gi|120592767|gb|ABM36206.1| RNA polymerase, sigma 32 subunit, RpoH [Polaromonas naphthalenivorans CJ2] Length = 322 Score = 205 bits (522), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 112/278 (40%), Positives = 172/278 (61%), Gaps = 11/278 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML ++E +K+ +E+ DL +A +LV SHLRLVV I+ Y GYGLP Sbjct: 39 LDAYISAVNRLPMLTLEQEQEFSKKLKENNDLDSAGKLVLSHLRLVVSISRKYLGYGLPH 98 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP++ RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 99 GDLIQEGNIGLMKAVKRFDPDQNVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 158 Query: 136 FFNLRRLKGHLQAITD-----NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 FFNLR +K + D + L Q+ ++A+ LNV EVI M R++G + L Sbjct: 159 FFNLRSMKQGYKDDADVATHRDTLTESQIDSMARTLNVKREEVIEMEQRMSGGDVLLDPS 218 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQ 249 + D + + + D + L+E ER + + L+ ++ L+PR RRI E R L Sbjct: 219 PNDDGDDAFGPIAYLADAAQEPTALMESRERDDLMTDGLSTALQELDPRARRIVEERWLN 278 Query: 250 ENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 N +TL +L++E++VS ER+RQIE A KK+++ Sbjct: 279 VNDDGSGGMTLHDLAAEYKVSAERIRQIEVAAMKKMKK 316 >gi|163740703|ref|ZP_02148097.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161386561|gb|EDQ10936.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] Length = 292 Score = 205 bits (522), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 107/266 (40%), Positives = 177/266 (66%), Gaps = 6/266 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D+ A HRL+ +++RL + +A +R YG P+++++ E + Sbjct: 17 KAELLDAETELQLAYAWRDERDVQALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HL--QAITDNN-LKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L QA ++ L Q+ IA ++ V +V M+ RLAG D SLNA + S+++ + Sbjct: 137 QLERQAQSEGTRLDQHQLHQQIATEIGVPLRDVQMMDGRLAGADFSLNA-VQSAEEEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W + L D +++ E + + R L +M LN RER I R+L+E P TLE+L Sbjct: 196 WIEALEDDSAQAAELVEESHDTRQLRTWLVEAMQALNDRERFIITERKLREKPRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQ 285 +E +S+ERVRQ+EA AF+K+++S++ Sbjct: 256 TELGLSKERVRQLEAGAFQKMRKSLE 281 >gi|270158013|ref|ZP_06186670.1| RNA polymerase sigma-32 factor RpoH [Legionella longbeachae D-4968] gi|289163720|ref|YP_003453858.1| RNA polymerase sigma-32 factor [Legionella longbeachae NSW150] gi|269990038|gb|EEZ96292.1| RNA polymerase sigma-32 factor RpoH [Legionella longbeachae D-4968] gi|288856893|emb|CBJ10704.1| RNA polymerase sigma-32 factor [Legionella longbeachae NSW150] Length = 284 Score = 205 bits (521), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 110/279 (39%), Positives = 175/279 (62%), Gaps = 8/279 (2%) Query: 10 VNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +N +G + YIH + +IPML +EE A+R+ GDL AA RLV +HLR VV++A GY Sbjct: 10 INLPVGSIDAYIHRVNQIPMLSLEEEIACAERFHSEGDLEAARRLVLAHLRYVVRVARGY 69 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGLP+++++ EGN+GLM+AVK+FDP+ G RL ++++ WIKA + E++LR+W +VKI T Sbjct: 70 LGYGLPLNDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKIAT 129 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLN 187 T Q++LFFNLR++K L ++ E+V A+A L VS +V+ M RL A D + Sbjct: 130 TKAQRKLFFNLRQMKNRLGWMSH-----EEVSAVANDLGVSREDVLVMEQRLNAMDTPYD 184 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEAR 246 A + +++ + V++E + ++ R L ++ L+ R + I + R Sbjct: 185 APDADDHDEFYTAPERYLFNTNDDPSVMLENDSASDQGREKLMFALEQLDERSQDILQQR 244 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L E +TL +L+ ++ VS ERVRQ+E A KK+++ I+ Sbjct: 245 WLSEEKLTLHDLAKKYGVSAERVRQLEKNAMKKLKQYIE 283 >gi|170750108|ref|YP_001756368.1| RNA polymerase factor sigma-32 [Methylobacterium radiotolerans JCM 2831] gi|170656630|gb|ACB25685.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium radiotolerans JCM 2831] Length = 291 Score = 205 bits (521), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 112/278 (40%), Positives = 179/278 (64%), Gaps = 1/278 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 +I + P L ++EE LA R+++ D A HRL+++H+RLV+ +A +R YGLP++++ Sbjct: 11 FIRTAMEAPFLAREEERGLAVRWKDERDERALHRLISAHMRLVIALAGRFRHYGLPMADL 70 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EG++GLM+A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFN Sbjct: 71 VQEGHVGLMEAAARFEPERDVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFN 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LRRL+ L T+ ++ E IA + VS +V M+ RL+G D SLNA + S Sbjct: 131 LRRLRARLMQSTEEHVGDEIHRRIASAIGVSRDDVALMDARLSGPDMSLNAPVGEDSDAS 190 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 S+ D+LV D ++ + + + R + L ++++VL+ RE RI RRL E+ TLE Sbjct: 191 SERMDFLVDGADLPDETVSATVDGERRLSWLQQALTVLSERELRILRERRLAEDQATLEA 250 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPP 295 L +S+ERVRQIE RA +K++ ++ + ++ P Sbjct: 251 LGQRLGISKERVRQIENRALEKLRRALADRFPAATGSP 288 >gi|325266382|ref|ZP_08133060.1| DNA-directed RNA polymerase sigma subunit RpoH [Kingella denitrificans ATCC 33394] gi|324982175|gb|EGC17809.1| DNA-directed RNA polymerase sigma subunit RpoH [Kingella denitrificans ATCC 33394] Length = 332 Score = 205 bits (521), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 119/284 (41%), Positives = 174/284 (61%), Gaps = 9/284 (3%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 + +G L +YIH + IPML +EE LA+R + GDL AA +L+ SHLR+VV IA GY Sbjct: 50 VPSGHGNLEQYIHTVNNIPMLSAEEETRLAERQIK-GDLEAAKQLILSHLRVVVSIARGY 108 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGL ++++ EGNIGLM+AVK+F+P G RL ++++ WIKA + E+ILR+W LV++ T Sbjct: 109 DGYGLNQADLIQEGNIGLMKAVKRFEPHHGARLFSFAVHWIKAEIHEFILRNWRLVRVAT 168 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 T Q++LFFNLR ++ L+A L P++ IA L V SEV+ M R+ G D L Sbjct: 169 TKPQRKLFFNLRSMRNSLKA-----LSPKEAQDIADDLGVKVSEVMEMEQRMTGHDIGLL 223 Query: 188 ALINSSDKNSSQWQ-DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A D+N++ DWL L +K + L +++ L+ R RRI E R Sbjct: 224 ADNQDDDENNAFAPIDWLSDSQHEPSHQLAQKAHYALQTEGLQAALAQLDERSRRIVETR 283 Query: 247 RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 L + TL L++EF VS ER+RQIEA+A +K++ ++ Q + Sbjct: 284 WLHDGQAATLHELAAEFGVSAERIRQIEAKAIQKLRAIMENQAD 327 >gi|319795672|ref|YP_004157312.1| RNA polymerase, sigma 32 subunit, rpoh [Variovorax paradoxus EPS] gi|315598135|gb|ADU39201.1| RNA polymerase, sigma 32 subunit, RpoH [Variovorax paradoxus EPS] Length = 313 Score = 205 bits (521), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 112/283 (39%), Positives = 172/283 (60%), Gaps = 14/283 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI ++P+L +EE A++ R+ DL AA L+ SHLRLVV I+ Y GYGLP Sbjct: 27 LDAYISAANRLPLLTLEEEQGFARKLRDQNDLDAAGALILSHLRLVVSISRQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQ---AITDNN-----LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 FFNLR +K + A +DN L P++V +A +LNV EV+ M RL+G + L Sbjct: 147 FFNLRSMKQGFKADSAASDNGTHRETLSPDEVSQMATRLNVKPEEVLEMETRLSGGDVLL 206 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEAR 246 S D + + + D + L+E ++R + + ++ L+ R RRI E R Sbjct: 207 DPGPSDDGDEAFGPIAYLADATQEPTALLESQQRDRLSSDGIATALEALDARSRRIVEER 266 Query: 247 RLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ N +TL +L++ + VS ER+RQIE A KK+++++ Sbjct: 267 WLKVNDDGSGGMTLHDLAAVYGVSAERIRQIEVAAMKKMKKAL 309 >gi|294788977|ref|ZP_06754217.1| alternative sigma factor RpoH [Simonsiella muelleri ATCC 29453] gi|294483079|gb|EFG30766.1| alternative sigma factor RpoH [Simonsiella muelleri ATCC 29453] Length = 289 Score = 205 bits (521), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 116/284 (40%), Positives = 177/284 (62%), Gaps = 10/284 (3%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I +G L +YIH + IPML +EE LA+R + GD+ AA +L+ SHLR+VV IA GY Sbjct: 9 IPSGHGSLEQYIHTVNAIPMLSLEEETKLAER-QLRGDIEAAKQLILSHLRVVVSIARGY 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGL ++++ EGNIGLM+AVK+F+P G RL ++++ WIKA + E+ILR+W LV+I T Sbjct: 68 DGYGLNQADLIQEGNIGLMKAVKRFEPVHGARLFSFAVHWIKAEIHEFILRNWRLVRIAT 127 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 T Q++LFFNLR ++ L N L P++ IA L V +EV+ M R+ G++ + Sbjct: 128 TKPQRKLFFNLRSMRKSL-----NALSPKEAQEIADDLGVKLTEVMEMEQRMTGND-VAL 181 Query: 189 LINSSDKNSSQWQ--DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L S D N + DWL + Q + ++ + L +++ L+ R RRI E R Sbjct: 182 LAESDDDNEDSFAPIDWLADNDSEPSQQIAKQAHYALQTEGLQNALAQLDERSRRIVETR 241 Query: 247 RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 L ++ +TL +L++E+ VS ER+RQIEA+A +K++ + + E Sbjct: 242 WLADDGGLTLHDLAAEYGVSAERIRQIEAKAMQKLRGFLASEAE 285 >gi|194367438|ref|YP_002030048.1| RNA polymerase factor sigma-32 [Stenotrophomonas maltophilia R551-3] gi|194350242|gb|ACF53365.1| RNA polymerase, sigma 32 subunit, RpoH [Stenotrophomonas maltophilia R551-3] Length = 291 Score = 204 bits (520), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 111/269 (41%), Positives = 167/269 (62%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L +E LA+R+R+ DL AA LV SHLR VV +A GY GYGL + Sbjct: 23 LDAYIGAVHQIPVLSVDDEQDLARRFRDGNDLDAARELVHSHLRFVVHVARGYNGYGLAL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDPE G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V A+AK LNVSE EV+ M RL+G D +A + + Sbjct: 143 FFNLRKSKTRL-----GWMNAAEVSAVAKDLNVSEREVMEMESRLSGRDIGFDAPTDEDN 197 Query: 195 KNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENP 252 +++ +LV + + + N+ +L ++ L+ R R I R L ++ Sbjct: 198 EHAPPSPAAYLVANDEDPSMAYERADSEDNQMQLLREGLAELDARSRDIIRRRWLDADSK 257 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTL+ L+ E+ VS ER+RQ+EA A KK++ Sbjct: 258 VTLQELADEYGVSAERIRQVEANALKKMK 286 >gi|254525091|ref|ZP_05137146.1| alternative sigma factor RpoH [Stenotrophomonas sp. SKA14] gi|219722682|gb|EED41207.1| alternative sigma factor RpoH [Stenotrophomonas sp. SKA14] Length = 291 Score = 204 bits (520), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 110/269 (40%), Positives = 168/269 (62%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L +E LA+R+R+ DL AA LV SHLR VV +A GY GYGL + Sbjct: 23 LDAYIGAVHQIPVLSVDDEQDLARRFRDGNDLDAARELVHSHLRFVVHVARGYNGYGLAL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A M E+IL++W +VK+ TT Q++L Sbjct: 83 GDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHWIRAEMHEFILKNWRIVKVATTKAQRKL 142 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V A+AK LNVSE EV+ M RL+G D +A + + Sbjct: 143 FFNLRKSKTRL-----GWMNAAEVSAVAKDLNVSEREVMEMESRLSGRDIGFDAPTDEDN 197 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEK-EERKNRRNMLTRSMSVLNPRERRIFEARRLQ-ENP 252 +++ + +D + E+ + N+ +L ++ L+ R R I R L ++ Sbjct: 198 EHAPPSPAAFLVANDEDPSMAYERADSEDNQMQLLREGLAELDARSRDIIRRRWLDADSK 257 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VTL+ L+ E+ VS ER+RQ+EA A KK++ Sbjct: 258 VTLQELADEYGVSAERIRQVEANALKKMK 286 >gi|171060212|ref|YP_001792561.1| RNA polymerase sigma-32 subunit RpoH [Leptothrix cholodnii SP-6] gi|170777657|gb|ACB35796.1| RNA polymerase, sigma 32 subunit, RpoH [Leptothrix cholodnii SP-6] Length = 313 Score = 204 bits (520), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 116/282 (41%), Positives = 171/282 (60%), Gaps = 15/282 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++P+L +EE A+R R+ D+ AA RLV SHLRLVV +A Y GYGLP Sbjct: 30 LDAYISAVNRLPLLTHEEEVSFARRLRDSQDVEAAGRLVLSHLRLVVSVARQYLGYGLPH 89 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDPE+G RL +Y+M WIKA + EY+L++W +VK+ TT Q++L Sbjct: 90 GDLIQEGNVGLMKAVKRFDPEQGVRLVSYAMHWIKAEIHEYVLKNWRVVKLATTKAQRKL 149 Query: 136 FFNLRRLKGHLQA-ITDNN-----LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 FFNLR +K L+ D + L ++ +A++LNV EVI M R AG + AL Sbjct: 150 FFNLRSMKRQLKGEAADGDTHRSSLTEAEIDTVARELNVKREEVIEMEARFAGGDV--AL 207 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKNRRN-MLTRSMSVLNPRERRIFEARR 247 SD++ + + QE +E R L R++ L+ R RRI E R Sbjct: 208 EPGSDEDDESYTPIAYLADERQEPTRALEAAHRDELAGPGLLRALDALDARSRRIVEERW 267 Query: 248 LQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ N +TL +L++E+ VS ER+RQIE A KK+++++ Sbjct: 268 LKVNDDGSGGLTLHDLAAEYGVSAERIRQIEVAAMKKMRKAL 309 >gi|163759996|ref|ZP_02167080.1| RNA polymerase sigma-32 factor [Hoeflea phototrophica DFL-43] gi|162282954|gb|EDQ33241.1| RNA polymerase sigma-32 factor [Hoeflea phototrophica DFL-43] Length = 278 Score = 204 bits (520), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 169/268 (63%), Gaps = 10/268 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+ EE+ LA ++ + D A H++ +H+RLV+ +A +R +GLP+ ++V EG++GL Sbjct: 9 PYLERDEEHDLAVAWKNNKDQDALHKITMAHMRLVISMAAKFRNFGLPMGDLVQEGHVGL 68 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDPER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 69 LEAAARFDPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARL 128 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKN-SSQWQDW 203 A D L + + IA L V +V M+ RL+G D SLNA ++ + SS D+ Sbjct: 129 -AQDDPTLTDSAIHIQIADSLGVHVKDVAVMDARLSGPDSSLNAPMSDGESGASSDRMDF 187 Query: 204 LVYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 L D D Q +I+ EER+N L +++ LNPRE I RRL E TLE L + Sbjct: 188 LKSDEPLPDEQVSTIID-EERRN--TWLGDALNTLNPRELLIIRKRRLAEEGATLEALGA 244 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQV 288 +S+ERVRQIE RA +K++ + + Sbjct: 245 TLGISKERVRQIENRALEKLRAVLSSET 272 >gi|254476880|ref|ZP_05090266.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. R11] gi|214031123|gb|EEB71958.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. R11] Length = 292 Score = 204 bits (520), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 104/266 (39%), Positives = 174/266 (65%), Gaps = 6/266 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D+ A HRL+ +++RL + +A +R YG P+++++ E + Sbjct: 17 KAELLDAETELKLAYAWRDERDVQALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ A + L Q+ IA ++ V +V M+ RL+G D SLNA + S++ + Sbjct: 137 QLEREAAASGEQLDQHQLHQKIATEIGVPLRDVQMMDGRLSGADFSLNA-VQSAEDEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W + L D +++ E + + R L +M LN RER I R+L++ P TLE+L Sbjct: 196 WIEALEDDSAQAAELVEESHDTRQLRTWLVEAMQALNDRERFIITERKLRDKPRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQ 285 E +S+ERVRQ+EA AF+K+++S++ Sbjct: 256 DELGLSKERVRQLEAAAFQKMRKSLE 281 >gi|146329254|ref|YP_001209773.1| RNA polymerase sigma-32 factor [Dichelobacter nodosus VCS1703A] gi|146232724|gb|ABQ13702.1| RNA polymerase sigma-32 factor [Dichelobacter nodosus VCS1703A] Length = 297 Score = 204 bits (519), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 107/272 (39%), Positives = 178/272 (65%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + +YI ++R+IP+L+ EE+ LA +++ L+AA L+ HL+ VV IA G+ GYGLP+ Sbjct: 27 IDQYIAKVRQIPILDADEEFRLATELQQNHSLAAAQTLIVHHLKFVVHIARGFLGYGLPL 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+F+P+RG RL ++++ WIK+ + EY++R+W LVKI TT Q++L Sbjct: 87 GDLIQEGNIGLMKAVKRFEPQRGVRLVSFAVHWIKSEIHEYVIRNWRLVKIATTKAQRKL 146 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR +K ++ ++D + IA+ LNVS +V+ M R+ G D + + L + D Sbjct: 147 FFNLRSMKKNMHWLSDAEAQ-----TIAEDLNVSVKDVLEMESRIHGQDIAFDPLDENDD 201 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQEN-P 252 + + WL D + E E+K+ ++ LT+ ++ L+ R R I E+R L E+ Sbjct: 202 EENVAPAAWLT-DESVDPALSTEHHEQKHLLQHQLTQGLNQLDARSREIIESRWLNEHEK 260 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 VTL+ L+S++ +S ER+RQIE +A +++ S+ Sbjct: 261 VTLQTLASKYHISAERIRQIEQQALLQLKNSM 292 >gi|120612533|ref|YP_972211.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax citrulli AAC00-1] gi|120590997|gb|ABM34437.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax citrulli AAC00-1] Length = 313 Score = 204 bits (519), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 113/285 (39%), Positives = 173/285 (60%), Gaps = 18/285 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE A+R +EH D+ AA R+V SHLRLVV IA Y GYGLP Sbjct: 27 LDAYISAVNRLPMLTAEEERTYARRLKEHNDVEAAGRMVMSHLRLVVSIARQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++ RL +Y+M WIKA + EYIL++W +VK+ TT +Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQNVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKSQRKL 146 Query: 136 FFNLRRLKGHLQAITD--------NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 FFNLR +K +A L +++ +A++LNV EVI M RL+G + + Sbjct: 147 FFNLRSMKQGFKADAAAGDAGTHRETLSEQEIDVVAQQLNVKREEVIEMETRLSGGDVM- 205 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQ--VLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 L + + Q + Y DG + +IE +R + + +++ L+ R RRI E Sbjct: 206 -LDPAPSDDGEQAYGPIAYLADGMHEPTAMIESRQRDVLATDGIANALATLDDRSRRIVE 264 Query: 245 ARRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L+ N +TL L++ + VS ER+RQIE A KK+++++ Sbjct: 265 ERWLKVNDDGSGGMTLHELAAVYGVSAERIRQIEVAAMKKMKKAL 309 >gi|149925644|ref|ZP_01913908.1| RNA polymerase sigma factor [Limnobacter sp. MED105] gi|149825761|gb|EDM84969.1| RNA polymerase sigma factor [Limnobacter sp. MED105] Length = 308 Score = 204 bits (519), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 119/288 (41%), Positives = 176/288 (61%), Gaps = 9/288 (3%) Query: 3 RKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 R +++ G +G L YI +IPML +EE L +R + DL AA RLV SHLRLV Sbjct: 20 RDPWALVARGPLGNLDAYISATHQIPMLSPEEEVELGERLQRDNDLEAARRLVLSHLRLV 79 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V +A Y GYGLP ++++ EGNIGLM+AVK+FDP RG RL ++++ WIKA + EYI+R+W Sbjct: 80 VAVARQYLGYGLPHADLIQEGNIGLMKAVKRFDPTRGVRLVSFALHWIKAEIHEYIIRNW 139 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT ++LFFNL K + Q L P+Q+ +A +LNV +V M R+A Sbjct: 140 RMVKMITTKAHRKLFFNLNSFKKYGQ-----TLSPDQINEVASELNVRPEDVYDMERRMA 194 Query: 182 GDE-SLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 G E SL+ +++ S++NS +L + +VL + L +++ L+ R Sbjct: 195 GHEFSLDPVVDVDSEENSYNPVRYLAAEGAEPTEVLEGANMERLHSEGLDMALASLDERS 254 Query: 240 RRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +RI +R L EN TL +L++E VS ERVRQIE +A KK++ ++ K Sbjct: 255 QRIISSRWLAGENAKTLHDLAAELGVSAERVRQIETQAMKKMKTALLK 302 >gi|54307376|ref|YP_128396.1| RNA polymerase factor sigma-32 [Photobacterium profundum SS9] gi|46911796|emb|CAG18594.1| putative RNA polymerase sigma-32 factor [Photobacterium profundum SS9] Length = 282 Score = 204 bits (519), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 113/283 (39%), Positives = 173/283 (61%), Gaps = 10/283 (3%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +M++I G L YI + + PML ++E LA+R GD+ AA LV SH+R VV + Sbjct: 3 SMALIFAG--SLDSYIQTVNRHPMLSAEQEKELAERLHYDGDIEAAKGLVMSHMRFVVHV 60 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLPI++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +V Sbjct: 61 ARGYSGYGLPIADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIV 120 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+ TT Q++LFFNLR+ K L NN + E V A++L V+ SEV M RLA + Sbjct: 121 KVATTKAQRKLFFNLRKSKKRLGWF--NNAEVEMV---AEQLGVNPSEVREMESRLAAQD 175 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERR 241 L N D + + + + D V + EE + N L+ +++ L+ R + Sbjct: 176 PAFELPNEDDDRDAGYTAPVYFLEDKSSDVALSYEENNWENHTNNRLSNALAGLDERSQH 235 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +R L + TL++L++ + +S ERVRQ+E A KK++E++ Sbjct: 236 IVRSRWLDDEKTTLQDLANHYGISAERVRQLEKNAMKKLKEAV 278 >gi|50262051|gb|AAT72766.1| putative sigma factor 32 [Dichelobacter nodosus] Length = 283 Score = 204 bits (519), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 107/272 (39%), Positives = 178/272 (65%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + +YI ++R+IP+L+ EE+ LA +++ L+AA L+ HL+ VV IA G+ GYGLP+ Sbjct: 13 IDQYIAKVRQIPILDADEEFRLATELQQNHSLAAAQTLIVHHLKFVVHIARGFLGYGLPL 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+F+P+RG RL ++++ WIK+ + EY++R+W LVKI TT Q++L Sbjct: 73 GDLIQEGNIGLMKAVKRFEPQRGVRLVSFAVHWIKSEIHEYVIRNWRLVKIATTKAQRKL 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR +K ++ ++D + IA+ LNVS +V+ M R+ G D + + L + D Sbjct: 133 FFNLRSMKKNMHWLSDAEAQ-----TIAEDLNVSVKDVLEMESRIHGQDIAFDPLDENDD 187 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQEN-P 252 + + WL D + E E+K+ ++ LT+ ++ L+ R R I E+R L E+ Sbjct: 188 EENVAPAAWLT-DESVDPALSTEHHEQKHLLQHQLTQGLNQLDARSREIIESRWLNEHEK 246 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 VTL+ L+S++ +S ER+RQIE +A +++ S+ Sbjct: 247 VTLQTLASKYHISAERIRQIEQQALLQLKNSM 278 >gi|319406278|emb|CBI79915.1| RNA polymerase sigma-32 factor [Bartonella sp. AR 15-3] Length = 303 Score = 204 bits (519), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 111/277 (40%), Positives = 180/277 (64%), Gaps = 4/277 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ +G S +R P LE+++E+ LA R+++ D A H++ +H+RLV+ IA ++ Sbjct: 18 VDASLGRSMMRSAMRA-PYLERKKEHDLALRWKDKRDDDAMHQIAAAHMRLVISIASRFK 76 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 + +P+ ++V EG +GL++A +FDPER R +TY+ WWI+A++Q+YILR+WS+V+ GT+ Sbjct: 77 RFKMPLGDLVQEGYVGLLEAAARFDPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTS 136 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAG-DESLN 187 ++QK LFFNLRRL+ L A DN L +++ AI++KL VS ++V M+ R +G D SL+ Sbjct: 137 SSQKALFFNLRRLRAKL-AQDDNTLTKQEIFSAISEKLGVSVNDVEKMDFRFSGTDNSLS 195 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I+ S + D L+ DH + V+ + + + R L ++ +LN RE I RR Sbjct: 196 LSISESGETPIAKMDSLIDDHPLPDAVIEQVIDGQRRAQWLYEALQILNERELEIIRFRR 255 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+E TLE L + +S+ERVRQIEARA +K++ ++ Sbjct: 256 LKEEGATLEVLGEKLGISKERVRQIEARALQKLRCAL 292 >gi|115374575|ref|ZP_01461855.1| sigma-E factor [Stigmatella aurantiaca DW4/3-1] gi|310823765|ref|YP_003956123.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] gi|115368445|gb|EAU67400.1| sigma-E factor [Stigmatella aurantiaca DW4/3-1] gi|309396837|gb|ADO74296.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] Length = 366 Score = 204 bits (518), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 114/283 (40%), Positives = 184/283 (65%), Gaps = 12/283 (4%) Query: 13 EIGLSR------YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 + GL+R Y+ E+ + P+L+++EEY LAK+Y++ GD+ AA+RLV S+LRLVVK+A Sbjct: 78 DTGLARKDPLQAYMAEVTRHPLLKREEEYALAKQYQQTGDVRAAYRLVASNLRLVVKLAH 137 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y L + ++V EGNIGLMQAVKK+DPERG +L++Y+ WWI+A + YI+ +W +VK+ Sbjct: 138 EYHRNPLSLLDLVQEGNIGLMQAVKKYDPERGVKLSSYAAWWIRAYILRYIMDNWKMVKL 197 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-S 185 GTT Q++LFF LR+ + L A +P + +A++LNV+E +V+ M+ RL DE S Sbjct: 198 GTTEAQRKLFFKLRQEQDKLIA---QGFEPNPKL-LAERLNVTEQDVVEMDQRLGHDEVS 253 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 ++A + + +S+ L G E+ L +E ++ R L L +ER IFE+ Sbjct: 254 IDAPVGDESR-ASRADRLLPSSAVGAEERLGNEELKELFREKLAEFAQTLEGKERFIFES 312 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R + P+TL+++ ++ VSRER RQIEA +++E +++++ Sbjct: 313 RLTADEPLTLQDIGDKYGVSRERARQIEAALINRMREFMRERI 355 >gi|254498663|ref|ZP_05111381.1| RNA polymerase factor sigma-32 [Legionella drancourtii LLAP12] gi|254352111|gb|EET10928.1| RNA polymerase factor sigma-32 [Legionella drancourtii LLAP12] Length = 280 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 176/272 (64%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YIH + +IPML +EE A+R+ GD+ AA RLV +HLR VV++A GY GYGLP+ Sbjct: 13 LDAYIHRVNQIPMLTMEEEIACAERFHSEGDIEAARRLVLAHLRYVVRVARGYLGYGLPL 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+FDP+ G RL ++++ WIKA + E++LR+W +VKI TT Q++L Sbjct: 73 NDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKIATTKAQRKL 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR++K L ++ E+V A+AK L VS EV+ M RL A D +A + Sbjct: 133 FFNLRQMKNRLGWFSN-----EEVAAVAKDLGVSTDEVLVMEQRLNAMDAPYDAPDADDN 187 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQENPV 253 + + +++ + +++EKE +R R L ++ L+ R + I + R L ++ + Sbjct: 188 DDFHMAPERYLFNVNDDPALVLEKESTGDRGREQLLLALEQLDERSQDILQQRWLADDKL 247 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ ++ +S ERVRQ+E A KK+++ I+ Sbjct: 248 TLHDLAEKYAISAERVRQLEKNAMKKLRQFIE 279 >gi|308051462|ref|YP_003915028.1| RNA polymerase, sigma 32 subunit, RpoH [Ferrimonas balearica DSM 9799] gi|307633652|gb|ADN77954.1| RNA polymerase, sigma 32 subunit, RpoH [Ferrimonas balearica DSM 9799] Length = 286 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 112/288 (38%), Positives = 170/288 (59%), Gaps = 10/288 (3%) Query: 2 NRKNMSIIV--NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 R NM+++V G L YI + IPML +EE LA++ E GDL AA L+ +HLR Sbjct: 4 TRPNMALMVVPQGHGTLESYIQAVNAIPMLSAEEEQYLARQV-EQGDLDAAKHLIMAHLR 62 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 VV +A Y GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+L+ Sbjct: 63 FVVHVARSYAGYGLPQADLIQEGNIGLMKAVKRFDPNIGVRLVSFAVHWIKAEIHEYVLK 122 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 +W +VK+ TT Q++LFFNLR+ K L E+V +A +L VSESEV+ M R Sbjct: 123 NWRIVKVATTKAQRKLFFNLRKAKKRL-----GWFSAEEVSTVADELGVSESEVMEMEAR 177 Query: 180 LAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNP 237 +A D + + D + + D +E+E+ + + L +++ L+ Sbjct: 178 MAAVDAAFDIAPERDDDEGAFAPALFLEDKQSDHAEALEQEDWDRQSQQRLHAALNTLDE 237 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R R I AR L E TL+ L+ ++VS ER+RQ+E A KK++ +++ Sbjct: 238 RSRDILMARWLDEPKATLQELADRYQVSAERIRQLEKNAIKKLKSAME 285 >gi|90407357|ref|ZP_01215542.1| RpoD protein [Psychromonas sp. CNPT3] gi|90311508|gb|EAS39608.1| RpoD protein [Psychromonas sp. CNPT3] Length = 282 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 115/283 (40%), Positives = 169/283 (59%), Gaps = 10/283 (3%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +M ++ G I YI + K ML EE LA+R GDL AA +LV SHLR V I Sbjct: 7 SMGLVPQGSI--EAYIQSVNKFAMLSASEEKALAERLFYEGDLDAAKKLVMSHLRFVAYI 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y GYGL I++++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +V Sbjct: 65 AKSYAGYGLAIADLIQEGNVGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEYVIRNWRVV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 KI TT Q++LFFNLR+ K L + ++V +A LNVS +V+ M RL G D Sbjct: 125 KIATTKAQRKLFFNLRKAKKRLGWFS-----KDEVENVANNLNVSTKDVLEMESRLNGHD 179 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRI 242 S + + D+N +L D + +L+E E + N + L ++S L+ R + I Sbjct: 180 YSFDLTGDDDDENCFAPVQYL-EDKNADVALLVEVENSQSNMKRQLHSALSSLDERSQDI 238 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +R L E TL +L++ + +S ERVRQ+EA A KK+Q ++Q Sbjct: 239 ISSRWLNEPKATLHDLAARYSISAERVRQLEANAIKKLQSNMQ 281 >gi|56459340|ref|YP_154621.1| RNA polymerase factor sigma-32 [Idiomarina loihiensis L2TR] gi|56178350|gb|AAV81072.1| DNA-directed RNA polymerase sigma 32 subunit [Idiomarina loihiensis L2TR] Length = 286 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 113/282 (40%), Positives = 173/282 (61%), Gaps = 13/282 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 M++ V GL YI + +IPML ++E LA R E+ DL AA L+ SHLR VV + Sbjct: 7 TMALSVPQGAGLDGYIQSVNRIPMLTAEKEKALATRLYENSDLDAAKELIMSHLRFVVHV 66 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+LR+W +V Sbjct: 67 ARSYSGYGLPQADLIQEGNIGLMKAVKRFDPSVGVRLVSFAVHWIKAEIHEYVLRNWRVV 126 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGD 183 K+ TT Q++LFFNLR++K L + ++V +A +L VS EV+ M R+ A D Sbjct: 127 KVATTKAQRKLFFNLRKMKKRLGWFS-----QKEVETVANELGVSTKEVLEMETRMSAHD 181 Query: 184 ESLNALINSSDKNSSQWQDW--LVYDHDGQEQVLIE---KEERKNRRNMLTRSMSVLNPR 238 ++ ++S D +S + + +Y D + + E K+ + + L +MS L+ R Sbjct: 182 QAFE--LSSDDDDSKEGSAYSPAMYLEDKRSDLAAEIEAKDYENHTQQKLLGAMSHLDER 239 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + I ++R L E+ TL +L+ ++EVS ERVRQ+E A KK+ Sbjct: 240 SQDIVQSRWLSEDKTTLHDLAEKYEVSAERVRQLEQNAMKKL 281 >gi|146276534|ref|YP_001166693.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17025] gi|145554775|gb|ABP69388.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17025] Length = 292 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 110/270 (40%), Positives = 174/270 (64%), Gaps = 10/270 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + +L+ Q E LA +R+ D A HRL+T+++RL + +A YR YG P+++++ E ++ Sbjct: 17 RAELLDAQTELRLAYAWRDQRDERALHRLITAYMRLAISMASKYRRYGAPMNDLIQEASL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WSLV+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSLVRTGSTSSQKALFFNMRRVQA 136 Query: 145 HLQAITDNNLKPEQVVA------IAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 L+ + + + EQ+ A +A + V S+V M RL+G D SLNA S+D Sbjct: 137 RLE--REASQRGEQLDAHQLRELVAHDVGVPLSDVEMMEGRLSGSDFSLNA-TQSADDEG 193 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +W D L D +V+ + + R L +M LN RER I R+L++ P TLE+ Sbjct: 194 REWIDALEDDSAQASEVVEGSLDAERLRGWLVVAMQQLNARERFIVTERKLRDVPRTLES 253 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L E ++S+ERVRQ+EA AF K++ S++ Q Sbjct: 254 LGEELKLSKERVRQLEAAAFAKMRRSLEAQ 283 >gi|156972625|ref|YP_001443532.1| RNA polymerase factor sigma-32 [Vibrio harveyi ATCC BAA-1116] gi|156524219|gb|ABU69305.1| hypothetical protein VIBHAR_00277 [Vibrio harveyi ATCC BAA-1116] Length = 285 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 111/272 (40%), Positives = 164/272 (60%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML +EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTPEEERGLAERLHYKGEIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V SEV M RLA +S + D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAVDSTFDMPMDDDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 NS+ + + Y D V E + N L +++ L+ R +RI +R L ++ Sbjct: 191 NSNSYTAPMFYLEDKSSDVADNIEAANWETHTNNRLGHALASLDERSQRIVRSRWLDDDK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ EF VS ER+RQ+E A KK++ ++ Sbjct: 251 ATLQDLADEFGVSAERIRQLEKNAMKKLKLAV 282 >gi|304311558|ref|YP_003811156.1| RNA polymerase sigma factor [gamma proteobacterium HdN1] gi|301797291|emb|CBL45511.1| RNA polymerase sigma factor [gamma proteobacterium HdN1] Length = 285 Score = 203 bits (517), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 111/269 (41%), Positives = 171/269 (63%), Gaps = 9/269 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+RY+ + + +L EE LA+RY + D+ AA +LV +HLR VV +A GY GYGL + Sbjct: 17 LNRYLSAVNSVAILSADEERALAERYYYNEDVDAARQLVLAHLRFVVHVARGYNGYGLQL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S++V EGN+GLM+AVK+FDP G RL ++++ WIKA + E+ILR+W +VKI TT +Q++L Sbjct: 77 SDLVQEGNVGLMKAVKRFDPTMGVRLVSFAVHWIKAEIHEFILRNWRIVKIATTKSQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L L ++V IA +LNVS +V M RLA D + +A +++ D Sbjct: 137 FFNLRSHKRRLGV-----LSGDEVNMIATELNVSPEDVREMEGRLAAHDTAFDAPVDADD 191 Query: 195 KNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 +++SQ + + D D Q L + + N + L +M+ L+ R R I + R ++ Sbjct: 192 ESASQAPVYYLEDASMDPAHQ-LEDAQWTDNTTDRLQLAMNSLDERSRDILQQRWFNDDK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL +L++++ VS ER+RQ+EA A KK++ Sbjct: 251 ATLHDLAAQYSVSAERIRQLEANAMKKIK 279 >gi|296135250|ref|YP_003642492.1| RNA polymerase, sigma 32 subunit, RpoH [Thiomonas intermedia K12] gi|294339349|emb|CAZ87705.1| RNA polymerase sigma-32 factor (Heat shock regulatory protein F33.4) [Thiomonas sp. 3As] gi|295795372|gb|ADG30162.1| RNA polymerase, sigma 32 subunit, RpoH [Thiomonas intermedia K12] Length = 302 Score = 203 bits (517), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 115/278 (41%), Positives = 169/278 (60%), Gaps = 18/278 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE LA+ +RE GD AA +LV SHLRLVV A Y GYGLP Sbjct: 30 LDAYISAVNRLPMLSAEEEARLARTWREQGDKDAAGKLVLSHLRLVVSTARQYLGYGLPH 89 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL +Y++ WIKA + EYILR+W LVK+ TT +Q++L Sbjct: 90 ADLIQEGNIGLMKAVKRFDPAHGVRLVSYALHWIKAEIHEYILRNWRLVKVATTKSQRKL 149 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR +K + + Q+ +A+ LNV +VI M R+ G D +L+ + + Sbjct: 150 FFNLRSMK-----TANAGMNEAQIDDMAQALNVKREDVIEMESRMGGADIALDPTVEDGE 204 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRR---NMLTRSMSVLNPRERRIFEARRLQEN 251 ++ + + Y D ++ + E R + R L ++ +L+ R R I E R LQ N Sbjct: 205 ESYAP----ISYLADNTQEPMAVLEARSHDRLQVEGLENALELLDARSRAIVEQRWLQVN 260 Query: 252 P-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E+ VS ER+RQIE A KK+++S+ Sbjct: 261 DDGSGGKTLHELAAEYGVSAERIRQIEVAAMKKMRKSL 298 >gi|163803403|ref|ZP_02197278.1| RNA polymerase sigma factor [Vibrio sp. AND4] gi|159172807|gb|EDP57652.1| RNA polymerase sigma factor [Vibrio sp. AND4] Length = 285 Score = 203 bits (517), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 113/287 (39%), Positives = 170/287 (59%), Gaps = 8/287 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ S+ + + L YI PML EE LA+R G++ AA L+ SHLR Sbjct: 1 MTKEAYSMALVTQDSLDSYIRSANSYPMLTADEERGLAERLHYKGEIDAAKGLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A GY GYGLP++++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L + +V +A++L V SEV M RL Sbjct: 121 WRIVKVATTKAQRKLFFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRL 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A +S + D NS+ + +VY D V E + N L +++ L+ Sbjct: 176 AAVDSTFDMPMDDDDNSNSYTAPMVYLEDKSSDVADNIEAANWEAHTNNRLGHALASLDE 235 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R +RI +R L ++ TL++L+ EF VS ER+RQ+E A KK++ ++ Sbjct: 236 RSQRIVRSRWLDDDKSTLQDLADEFGVSAERIRQLEKNAMKKLKLAV 282 >gi|260425737|ref|ZP_05779717.1| RNA polymerase sigma-32 factor [Citreicella sp. SE45] gi|260423677|gb|EEX16927.1| RNA polymerase sigma-32 factor [Citreicella sp. SE45] Length = 292 Score = 203 bits (517), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 108/268 (40%), Positives = 174/268 (64%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D ++ HRL+ +++RL + +A ++ YG P+ ++V E + Sbjct: 17 KAELLDAETELRLAYAWRDQRDEASLHRLINAYMRLAISMASKFKRYGAPMGDLVQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ A L+ + AIA+++ V S+V M RL+G D SLNA SSD++ + Sbjct: 137 RLEREAAAEGKTLERHMLHAAIAQEIGVPLSDVEMMEGRLSGSDFSLNA-TQSSDEDGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D + V+ + + R L +MS LN RER I R+L++ TLE+L Sbjct: 196 WIDTLEDDGEQGSSVVEGRLDNAQLREWLVVAMSALNDRERFIVRERKLRDETRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 256 QELGLSKERVRQLEAAAFAKMRKSLEAQ 283 >gi|195970121|ref|NP_387362.2| RNA polymerase factor sigma-32 [Sinorhizobium meliloti 1021] gi|307302477|ref|ZP_07582234.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] gi|307316193|ref|ZP_07595637.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|8131943|gb|AAF73147.1|AF149031_2 sigma factor RpoH2 [Sinorhizobium meliloti] gi|10129889|dbj|BAB13518.1| sigma factor [Sinorhizobium meliloti] gi|187904236|emb|CAC47835.2| RNA polymerase sigma factor (Sigma-32) [Sinorhizobium meliloti 1021] gi|306898033|gb|EFN28775.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|306903147|gb|EFN33737.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] Length = 288 Score = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 113/276 (40%), Positives = 171/276 (61%), Gaps = 9/276 (3%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 R I + P LE+ EE+ LA+ +R D A +++ SH+RLV+ +A +R +GLP+ + Sbjct: 9 RMIKIAMEAPYLERDEEHALAQAWRNDNDQEARNKIAMSHMRLVISMAAKFRSFGLPMGD 68 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +V EG+IGL++A +F+P R R +TY+ WWI+A+MQ+Y+LR+WS+V+ GT++ QK LFF Sbjct: 69 LVQEGHIGLLEAAARFEPSREVRFSTYATWWIRASMQDYVLRNWSIVRGGTSSAQKALFF 128 Query: 138 NLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDK 195 NLRRL+ L A D L + + IA L VS ++V +M+ RL+G D SL A I S D Sbjct: 129 NLRRLRARL-AQGDRQLTSQAMHEEIAAALGVSLADVQTMDARLSGNDASLQAPIGSGDP 187 Query: 196 NSSQWQDWLVYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ D+L + D Q LI+ E R L ++ L+ RE +I ARRL E+ Sbjct: 188 DAGARLDFLASEAPLPDEQVSDLIDGE---RARRWLQVALGELSEREMKIIRARRLTEDG 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE L +S+ERVRQIE RA +K++ ++ + Sbjct: 245 ATLEELGVALGISKERVRQIETRALEKLRAALTAKA 280 >gi|260461453|ref|ZP_05809700.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] gi|259032523|gb|EEW33787.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] Length = 287 Score = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 113/268 (42%), Positives = 175/268 (65%), Gaps = 10/268 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P LE+ EE+ LA ++E D +A H + +H+RLV+ +A +R YGLP+ +++ EG++ Sbjct: 16 KAPYLERDEEHRLALLWKEDNDQNALHSITVAHMRLVISMASKFRHYGLPLGDLIQEGHV 75 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A +F+PER R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ Sbjct: 76 GLLEAAARFEPERDVRFSTYATWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRA 135 Query: 145 HL----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQ 199 L + +++ L E VA L VSE++V M+ RL A D SLN + + D +++ Sbjct: 136 RLANGAEPLSNETLYREVSVA----LGVSEADVAMMDSRLSAPDSSLNVPL-ADDAGATE 190 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 D+LV D ++V+ ++ + R L +++ LN RE RI E RRL + TLE L Sbjct: 191 RMDFLVSDDPLPDEVVSDRIDVARRSVWLKAALAALNARELRIIEERRLSDEGATLEALG 250 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 +S+ERVRQIEARA +K++ ++ KQ Sbjct: 251 ETLGISKERVRQIEARAMEKLKVALVKQ 278 >gi|86158413|ref|YP_465198.1| RNA polymerase sigma factor RpoH [Anaeromyxobacter dehalogenans 2CP-C] gi|85774924|gb|ABC81761.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-C] Length = 307 Score = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 114/274 (41%), Positives = 165/274 (60%), Gaps = 6/274 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L EE LA+++ D AAHRLVT++LR VVK+A YR YG + Sbjct: 13 LELYLSEINRFPLLTVDEEQRLARQFCADRDTRAAHRLVTANLRFVVKVAYEYRSYGFRM 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A +Q YIL+SWSLVK+GTT Q++L Sbjct: 73 ADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAYIQNYILKSWSLVKLGTTQAQRKL 132 Query: 136 FFNLRRLKGHLQAITDN---NLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 FF+L R K L + + +AKKL V EV M R+ G D SL+A + Sbjct: 133 FFSLARTKRELDKRSQEQGADSDGHDANKVAKKLRVKPGEVREMEQRMEGRDLSLDAPMG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D D+L Q+ L +E+K + ++ L+ RER I E R + + Sbjct: 193 --DDGGYSHVDFLASGSTSQDDELSGVQEQKVVSGRIVEALGRLDQRERYIIEMRVMSDR 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P+TL+ L F SRER RQ+E RA K++E ++ Sbjct: 251 PLTLKELGEHFGFSRERARQLEIRAKDKLKEELR 284 >gi|242281118|ref|YP_002993247.1| RNA polymerase, sigma 70 family subunit [Desulfovibrio salexigens DSM 2638] gi|242124012|gb|ACS81708.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio salexigens DSM 2638] Length = 322 Score = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 120/283 (42%), Positives = 177/283 (62%), Gaps = 12/283 (4%) Query: 12 GEIG----LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 GE+ L Y+ EI + P+LE EE+ LAK+ +E+GD AA RLV+SHLRLVVKIAM Sbjct: 34 GEVATKDPLHLYLQEISRFPLLEPDEEFRLAKQVQENGDQQAAFRLVSSHLRLVVKIAMD 93 Query: 68 Y-RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + R + + +++ EGN+GLM+AV KFDP++G + + Y+ +WIKA + +YI+ +W +VKI Sbjct: 94 FQRRWMQNVLDLIQEGNVGLMKAVNKFDPDKGIKFSYYAAFWIKAYILKYIMDNWRMVKI 153 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDES 185 GTT Q++LF+NL + + LQA+ + E ++KKLNVSE E+ M+ RLA D S Sbjct: 154 GTTQTQRKLFYNLNKERQRLQALGFDPTTSE----LSKKLNVSEEEITEMDQRLAKNDLS 209 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN + + + + D+L G E+ L KE + L + LN +E+ I Sbjct: 210 LN--LKFGEDSEATRMDFLPDLGPGVEETLANKEISTLLLDQLRAIVPNLNEKEQVILND 267 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R L ++P TL + EF V+RERVRQIEAR KK++E + + V Sbjct: 268 RLLSDSPRTLREIGEEFGVTRERVRQIEARLLKKLREHLAESV 310 >gi|3219170|dbj|BAA28785.1| sigma-32 homolog [Hydrogenophilus thermoluteolus] Length = 309 Score = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 116/276 (42%), Positives = 167/276 (60%), Gaps = 12/276 (4%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 RYI + + P+L + EE+ LA+R+ E DL AA +LV ++LR VV IA Y GYGLP ++ Sbjct: 39 RYIQAVNRFPVLSEAEEHELARRFHETNDLDAARKLVLANLRYVVMIARQYFGYGLPEAD 98 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GL++AV++FDP +G R T++ +WIKA + +YILR+W LVKI TT QK+LFF Sbjct: 99 LIQEGNVGLLKAVRRFDPYKGVRFITFAAYWIKAEIHDYILRNWRLVKIATTKAQKKLFF 158 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSSDKN 196 NLR+L G L + AIA+ L V EV M+ R A GD +L A I+S ++ Sbjct: 159 NLRKLLG------SEPLTRAKADAIAETLAVKPEEVAEMHARFAGGDVALEAPIDSDEE- 211 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRR---NMLTRSMSVLNPRERRIFEARRLQENPV 253 + W+ L Y D E + R L ++++ L+ R R I R L E P Sbjct: 212 -ADWRAPLAYLPDPSGTPEEAVAEAEAERLSHEGLQQALTQLDERSRAIVTRRWLTEKPA 270 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 TL L++E+ +S ERVRQIEA A KK++ + Q + Sbjct: 271 TLHELAAEYGISAERVRQIEAAALKKLRVWLSPQAD 306 >gi|254510133|ref|ZP_05122200.1| RNA polymerase sigma-32 factor [Rhodobacteraceae bacterium KLH11] gi|221533844|gb|EEE36832.1| RNA polymerase sigma-32 factor [Rhodobacteraceae bacterium KLH11] Length = 292 Score = 202 bits (515), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 177/268 (66%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R++ D A HRL+T+++RL + +A ++ YG P+++++ E + Sbjct: 17 KAELLDAETELQLAYAWRDNRDEQALHRLITAYMRLAISMAAKFKRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HL--QAITDN-NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +A T+ +L Q+ IA ++ V +V M RLAG D SLNA + S+D++ + Sbjct: 137 RLEREAATEGLDLDRHQLHQMIAAEIGVPLRDVEMMEGRLAGSDFSLNA-VQSADEDGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D + + + + + R+ L +M LN RER I R+L+E TLE+L Sbjct: 196 WIDALEDDREQAAESVEHSHDTQQLRDWLVTAMQALNDRERFIVRERKLREPARTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF K++++++ Q Sbjct: 256 QELGLSKERVRQLEAAAFTKMRKNLEAQ 283 >gi|208779746|ref|ZP_03247090.1| alternative sigma factor RpoH [Francisella novicida FTG] gi|208744201|gb|EDZ90501.1| alternative sigma factor RpoH [Francisella novicida FTG] Length = 292 Score = 202 bits (515), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 105/284 (36%), Positives = 176/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K ++ V + LS Y++ + +P+L ++E LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KTKTLPVVSDNNLSAYLNFVNTLPVLSLEQEQELARRYKYKKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR +K + ++ ++K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSIKDKIGWLSSEDIKE-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ D + Q + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVKDVLSGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L +N TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIK 289 >gi|114764201|ref|ZP_01443439.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601] gi|114543353|gb|EAU46369.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601] Length = 292 Score = 202 bits (515), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 106/268 (39%), Positives = 175/268 (65%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+H D +A HRL+ +++RL + +A ++ YG P+ +++ E + Sbjct: 17 KAELLDAETELQLAYAWRDHRDEAALHRLINAYMRLAISMAAKFKRYGAPMGDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ A L+ + AIAK++ V +V M+ RL+G D SLNA S+D++ + Sbjct: 137 RLEREAAAEGRALERHSLHAAIAKEVGVPLHDVEMMDGRLSGSDFSLNA-TQSTDEDGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D + ++ K + R L +++ LN RER I R+L++ TLE+L Sbjct: 196 WIDTLEDDGEQSASLVEGKLDNDQLREWLVVALTGLNDRERFIVRERKLRDETRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 256 QELGLSKERVRQLEAAAFVKMRKSLEAQ 283 >gi|91794849|ref|YP_564500.1| RNA polymerase factor sigma-32 [Shewanella denitrificans OS217] gi|91716851|gb|ABE56777.1| RNA polymerase sigma factor RpoH [Shewanella denitrificans OS217] Length = 284 Score = 202 bits (515), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 171/284 (60%), Gaps = 7/284 (2%) Query: 4 KNMSIIV-NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++MS+ V G L YI + I ML ++E LAKR +E GDL AA +L+ SHLR VV Sbjct: 6 QSMSLTVPRGSSSLEAYIQSVTSINMLGAEDEQALAKRLQETGDLQAAKQLIMSHLRFVV 65 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A GY GYGLP ++++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY+L++W Sbjct: 66 HVAKGYAGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVLKNWR 125 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFN+R+ K L +D +V +A+ L VS+++V M R+A Sbjct: 126 IVKVATTKAQRKLFFNIRKSKKRLGWFSD-----AEVTMVAENLGVSKADVTEMESRMAA 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERR 241 + + + +D + + DH +E N ++ L ++ L+ R + Sbjct: 181 QDPAFDIASDNDDETDFSPVHYLEDHSSDVAQQVENANWESNSQSRLFSAIKTLDERSQH 240 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +AR L ++ TL+ L+ ++VS ER+RQ+E A K++ ++ Sbjct: 241 ILQARWLDDDKTTLQELAETYQVSAERIRQLEKNAMNKLKACME 284 >gi|260574108|ref|ZP_05842113.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] gi|259023574|gb|EEW26865.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] Length = 292 Score = 202 bits (515), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 108/277 (38%), Positives = 177/277 (63%), Gaps = 6/277 (2%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 +R + K +L+ + E LA +R+ D +A HRL+T+++RL + +A +R YG P++ Sbjct: 9 ARLSRQAMKAELLDAETELRLAYAWRDQRDEAALHRLITAYMRLAISMAAKFRRYGAPMN 68 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ E ++GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LF Sbjct: 69 DLIQEASLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLF 128 Query: 137 FNLRRLKGHLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 FNL+R++ L+ A +L Q+ +A+++ V ++V M RLAG D SLNA Sbjct: 129 FNLKRVQAKLEREAAQRGESLDGHQLREMVAREVGVPLADVEMMEGRLAGSDFSLNA-TQ 187 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SS+ +W D L D + + + R L +M+ LNPRER I R+L+ + Sbjct: 188 SSEDEGREWIDALEDDGVQAAEAVEGAHDAARLRGWLVVAMAALNPRERFIVTERKLRGD 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE+L +E +S+ERVRQ+EA AF K++ S++ Q Sbjct: 248 GRTLESLGAELGLSKERVRQLEAAAFAKLRRSLEGQT 284 >gi|89256211|ref|YP_513573.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica LVS] gi|115314678|ref|YP_763401.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica OSU18] gi|156502270|ref|YP_001428335.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica FTNF002-00] gi|167009752|ref|ZP_02274683.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica FSC200] gi|254367537|ref|ZP_04983563.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. holarctica 257] gi|290952961|ref|ZP_06557582.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica URFT1] gi|295313833|ref|ZP_06804405.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica URFT1] gi|89144042|emb|CAJ79290.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. holarctica LVS] gi|115129577|gb|ABI82764.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica OSU18] gi|134253353|gb|EBA52447.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. holarctica 257] gi|156252873|gb|ABU61379.1| alternative sigma factor RpoH [Francisella tularensis subsp. holarctica FTNF002-00] Length = 292 Score = 202 bits (514), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 175/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K ++ V + LS Y++ + +P+L ++E LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KTKTLPVVSDNNLSAYLNFVNTLPVLSLEQEQELARRYKYKKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ N+K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSSKDKIGWLSSENIKE-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ D + Q + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLSYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVKDVLSGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L +N TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIK 289 >gi|220917075|ref|YP_002492379.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] gi|219954929|gb|ACL65313.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] Length = 307 Score = 202 bits (514), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 114/274 (41%), Positives = 167/274 (60%), Gaps = 6/274 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L ++E LA++Y D AAHRLVT++LR VVK+A YR YG + Sbjct: 13 LEVYLSEINRFPLLTVEDEQRLARQYCADRDTRAAHRLVTANLRFVVKVAYEYRSYGFRM 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A +Q YIL+SWSLVK+GTT Q++L Sbjct: 73 ADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAYIQNYILKSWSLVKLGTTQAQRKL 132 Query: 136 FFNLRRLKGHLQAITDN---NLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 FF+L R K L + + +AKKL V EV M R+ G D SL+A + Sbjct: 133 FFSLARTKRELDKRSQEHGADSDGHDANKVAKKLRVKPGEVREMEQRMEGRDLSLDAPMG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D D+L Q+ L +E+K + ++ L+ RER I E R + + Sbjct: 193 --DDGGYSHVDFLPSGTASQDDELSGVQEQKVVSGRVVEALGRLDQRERYIIEMRVMSDR 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P+TL+ L F SRER RQ+E RA +K++E ++ Sbjct: 251 PLTLKELGEHFGFSRERARQLEIRAKEKLKEELR 284 >gi|56708190|ref|YP_170086.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis SCHU S4] gi|110670661|ref|YP_667218.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis FSC198] gi|134302102|ref|YP_001122071.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis WY96-3418] gi|187931929|ref|YP_001891914.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. mediasiatica FSC147] gi|224457293|ref|ZP_03665766.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis MA00-2987] gi|254370677|ref|ZP_04986682.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis FSC033] gi|254875002|ref|ZP_05247712.1| alternative sigma factor rpoH [Francisella tularensis subsp. tularensis MA00-2987] gi|56604682|emb|CAG45745.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis SCHU S4] gi|110320994|emb|CAL09128.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis FSC198] gi|134049879|gb|ABO46950.1| alternative sigma factor RpoH [Francisella tularensis subsp. tularensis WY96-3418] gi|151568920|gb|EDN34574.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis FSC033] gi|187712838|gb|ACD31135.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. mediasiatica FSC147] gi|254841001|gb|EET19437.1| alternative sigma factor rpoH [Francisella tularensis subsp. tularensis MA00-2987] gi|282159406|gb|ADA78797.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis NE061598] Length = 292 Score = 202 bits (514), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 175/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K ++ V + LS Y++ + +P+L ++E LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KTKTLPVVSDNNLSAYLNFVNTLPVLSLEQEQELARRYKYKKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ N+K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSSKDKIGWLSSENIKE-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ D + Q + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVKDVLSGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L +N TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIK 289 >gi|328675965|gb|AEB28640.1| RNA polymerase sigma factor RpoH [Francisella cf. novicida 3523] Length = 292 Score = 202 bits (514), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 175/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K ++ V + LS Y++ + +P+L ++E LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KTKTLPVVSDNNLSAYLNFVNTLPVLSLEQEQELARRYKYKKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDPE+G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPEQGVRLVSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ ++K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSSKDKIGWLSSEDIKE-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ D + Q + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVKDVLSGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L +N TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIK 289 >gi|62258694|gb|AAX77814.1| unknown protein [synthetic construct] Length = 327 Score = 202 bits (514), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 175/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K ++ V + LS Y++ + +P+L ++E LA+RY+ DL AA +LV SHLR V K Sbjct: 37 KTKTLPVVSDNNLSAYLNFVNTLPVLSLEQEQELARRYKYKKDLDAAQQLVLSHLRFVTK 96 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 97 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHWIKAEMHDYVLKNWKI 156 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ N+K +A++L V E VI M R+ G Sbjct: 157 VKVATTKAQRKLFFNLRSSKDKIGWLSSENIKE-----LAEELGVKEETVIEMEKRMCQG 211 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ D + Q + D E +++++ N + ++ +S + R + Sbjct: 212 DASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVKDVLSGFDTRTKD 271 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L +N TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 272 IIMSRYLLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIK 315 >gi|90412724|ref|ZP_01220725.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] gi|90326299|gb|EAS42718.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] Length = 286 Score = 202 bits (514), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 111/283 (39%), Positives = 173/283 (61%), Gaps = 10/283 (3%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +M+++ G L YI + + PML ++E LA+R GD+ AA LV SH+R VV + Sbjct: 7 SMALVSTG--SLDSYIQTVNRHPMLTVEQEKELAERLHYDGDIEAAKGLVMSHMRFVVHV 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGLP+++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +V Sbjct: 65 ARGYSGYGLPMADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+ TT Q++LFFNLR+ K L NN + E V A++L V+ SEV M RLA + Sbjct: 125 KVATTKAQRKLFFNLRKSKKRLGWF--NNAEVEMV---AEQLGVNPSEVREMESRLAAQD 179 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERR 241 L N D + + + + D V + EE + N L+ +++ L+ R + Sbjct: 180 PAFELPNEDDDRDAGYTAPVYFLEDKASDVALSYEENNWENHTNNRLSNALAGLDERSQH 239 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +R L + TL++L++ + +S ERVRQ+E A KK++E++ Sbjct: 240 IVRSRWLDDEKTTLQDLANHYGISAERVRQLEKNAMKKLKEAV 282 >gi|254369205|ref|ZP_04985217.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica FSC022] gi|157122155|gb|EDO66295.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica FSC022] Length = 292 Score = 202 bits (514), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 175/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K ++ V + LS Y++ + +P+L ++E LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KTKTLPVVSDNNLSAYLNFVNTLPVLSLEQEQELARRYKYKKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ N+K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSSKDKIGWLSSENIKE-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ D + Q + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVKDVLSGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L +N TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIK 289 >gi|114705882|ref|ZP_01438785.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] gi|114538728|gb|EAU41849.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] Length = 300 Score = 202 bits (513), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 104/252 (41%), Positives = 169/252 (67%), Gaps = 9/252 (3%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A R++E+ D A H++ ++H+RLV+ +A +R +GL +++++ EG++GL++A +F+PER Sbjct: 42 AVRWKENRDQEALHKITSAHMRLVISMASKFRHFGLAMNDLIQEGHVGLLEAAARFEPER 101 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL----QAITDNN 153 R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L + I+ N Sbjct: 102 EVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARLSQGAEPISGNA 161 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQE 212 + E IA L VSES+V M+ RL+G D SLNA + + S+ QD+LV D + Sbjct: 162 MYRE----IAGALKVSESDVALMDSRLSGPDSSLNAPLLDDESGSADRQDFLVADDPLPD 217 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 + + + + R LT ++ VL+ RE +I RRLQ++ TLE L ++ +S+ERVRQI Sbjct: 218 ETVSVSIDDERRVTWLTSALDVLSERELKIIRERRLQDDGATLEALGTKLGISKERVRQI 277 Query: 273 EARAFKKVQESI 284 E RA +K++ ++ Sbjct: 278 ETRALEKLRSAL 289 >gi|326563747|gb|EGE13998.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 46P47B1] Length = 371 Score = 202 bits (513), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 162/273 (59%), Gaps = 9/273 (3%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L +EE LA+RY GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 97 VNLGAYINTVHQIPILTPEEERALAERYYHDGDVEAARLLVMSHLRFVIHIARSYSGYGL 156 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++++W +VK+ TT + Sbjct: 157 SQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIKNWRIVKVATTKAHR 216 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK + N L ++ AIA LNV+ +V+ M RL D S A Sbjct: 217 KLFFNLRSLKK-----SSNQLTLDEATAIANDLNVTVKQVLEMESRLTSYDASFEA--QD 269 Query: 193 SDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SD + ++ L D V+ E + +N L +M +L+ R R I R L + Sbjct: 270 SDDDEGRYAPQLFLEDAVNPADVVEEADWEENTTTALKDAMEILDERSRDIITQRWLADQ 329 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E+I Sbjct: 330 KSTLHELAATYNISAERVRQIEKNAMNKIKEAI 362 >gi|197122293|ref|YP_002134244.1| RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] gi|196172142|gb|ACG73115.1| putative RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] Length = 307 Score = 202 bits (513), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 116/278 (41%), Positives = 169/278 (60%), Gaps = 14/278 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L ++E LA++Y D AAHRLVT++LR VVK+A YR YG + Sbjct: 13 LEVYLSEINRFPLLTVEDEQRLARQYCADRDTRAAHRLVTANLRFVVKVAYEYRSYGFRM 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A +Q YIL+SWSLVK+GTT Q++L Sbjct: 73 ADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAYIQNYILKSWSLVKLGTTQAQRKL 132 Query: 136 FFNLRRLKGHLQ-------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 FF+L R K L A +D + +AKKL V EV M R+ G D SL+ Sbjct: 133 FFSLARTKRELDKRSQEHGADSDGH----DANKVAKKLRVKPGEVREMEQRMEGRDLSLD 188 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + D D+L Q+ L +E+K + ++ L+ RER I E R Sbjct: 189 APMG--DDGGYSHVDFLPSGTASQDDELSGVQEQKVVSGRVGEALGRLDQRERYIIEMRV 246 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + + P+TL+ L F SRER RQ+E RA +K++E ++ Sbjct: 247 MSDRPLTLKELGEHFGFSRERARQLEIRAKEKLKEELR 284 >gi|269961508|ref|ZP_06175871.1| RNA polymerase sigma -32 factor [Vibrio harveyi 1DA3] gi|269833737|gb|EEZ87833.1| RNA polymerase sigma -32 factor [Vibrio harveyi 1DA3] Length = 285 Score = 202 bits (513), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 165/272 (60%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML +EE LA+R +G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTPEEERGLAERLHYNGEIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V SEV M RLA +S + D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAVDSTFDMPMDDDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 +++ + +VY D V E + N L +++ L+ R +RI +R L + Sbjct: 191 SANSYTAPMVYLEDKSSDVADNIEAANWETHTNNRLGHALASLDERSQRIVRSRWLDDEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ EF VS ER+RQ+E A KK++ ++ Sbjct: 251 ATLQDLADEFGVSAERIRQLEKNAMKKLKLAV 282 >gi|309378784|emb|CBX22610.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 287 Score = 202 bits (513), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 119/290 (41%), Positives = 185/290 (63%), Gaps = 9/290 (3%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N + I +G L +YI + IPML ++EE LA+R R GDL+AA +L+ SHLR+V Sbjct: 3 NTFALPAIQSGNGSLEQYIRTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVV 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+IL++W Sbjct: 62 VSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILKNW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LV++ TT Q++LFFNLR ++ +L N L P++ +IA L V SEV+ M R+ Sbjct: 122 RLVRVATTKPQRKLFFNLRSMRKNL-----NALSPKEAQSIADDLGVKLSEVLEMEQRMT 176 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRER 240 G + N+ D ++ DWL DHD + + K+ + L +++ L+ R R Sbjct: 177 GRDIAIMADNNDDDDNFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSR 235 Query: 241 RIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RI E+R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 236 RIVESRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 285 >gi|332529979|ref|ZP_08405929.1| RNA polymerase sigma-32 subunit RpoH [Hylemonella gracilis ATCC 19624] gi|332040452|gb|EGI76828.1| RNA polymerase sigma-32 subunit RpoH [Hylemonella gracilis ATCC 19624] Length = 326 Score = 202 bits (513), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 113/290 (38%), Positives = 169/290 (58%), Gaps = 21/290 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML +EE A+++R++ DL AA +LV SHLRLVV A Y GYGLP Sbjct: 33 LDAYITAVNRMPMLTAEEEQEFARKFRDNNDLEAAGKLVLSHLRLVVATARQYMGYGLPH 92 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y++ WIKA + EYIL++W +VK+ TT Q++L Sbjct: 93 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYALHWIKAEIHEYILKNWRMVKVATTKAQRKL 152 Query: 136 FFNLR--------------RLKGHLQAITD-NNLKPEQVVAIAKKLNVSESEVISMNCRL 180 FFNLR L L A T L ++ +A++LNV EVI M RL Sbjct: 153 FFNLRSKKQGYKAASAADSSLHDGLDAATHRETLSEHEIDQMARELNVKREEVIEMETRL 212 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRE 239 +G + + D S + D + +IE +R + + +++ L+PR Sbjct: 213 SGGDVMLDPGPGEDGEDSFGPIAYLTDAGHEPTAMIEARQRDRLATDGIAKALDALDPRS 272 Query: 240 RRIFEARRLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RRI E R L+ N +TL L++E+ VS ER+RQIE A KK++ ++ Sbjct: 273 RRIVEERWLKVNDDASGGMTLHELAAEYGVSAERIRQIEVAAMKKMKTAL 322 >gi|261400394|ref|ZP_05986519.1| alternative sigma factor RpoH [Neisseria lactamica ATCC 23970] gi|313668808|ref|YP_004049092.1| RNA polymerase sigma-32 factor [Neisseria lactamica ST-640] gi|269209833|gb|EEZ76288.1| alternative sigma factor RpoH [Neisseria lactamica ATCC 23970] gi|313006270|emb|CBN87733.1| putative RNA polymerase sigma-32 factor [Neisseria lactamica 020-06] Length = 290 Score = 202 bits (513), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 119/290 (41%), Positives = 185/290 (63%), Gaps = 9/290 (3%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N + I +G L +YI + IPML ++EE LA+R R GDL+AA +L+ SHLR+V Sbjct: 6 NAFALPAIQSGNGSLEQYIRTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVV 64 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+IL++W Sbjct: 65 VSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILKNW 124 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LV++ TT Q++LFFNLR ++ +L N L P++ +IA L V SEV+ M R+ Sbjct: 125 RLVRVATTKPQRKLFFNLRSMRKNL-----NALSPKEAQSIADDLGVKLSEVLEMEQRMT 179 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRER 240 G + N+ D ++ DWL DHD + + K+ + L +++ L+ R R Sbjct: 180 GRDIAIMADNNDDDDNFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSR 238 Query: 241 RIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RI E+R LQ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 239 RIVESRWLQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLRGFLTEEAE 288 >gi|58699726|ref|ZP_00374383.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] gi|58533758|gb|EAL58100.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] Length = 216 Score = 201 bits (512), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 98/208 (47%), Positives = 148/208 (71%), Gaps = 2/208 (0%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ V+ L +YI ++K PML ++EE LAK + ++ D+S+AH+L+TSHL LVVKIAM Sbjct: 3 NLCVDSRTNLMQYIARVQKFPMLSQEEEVRLAKNWNQYKDVSSAHKLITSHLNLVVKIAM 62 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++ YGL + ++V EGN+GLM AVKKF+P+ GFR +TY++WWI+A+++++IL+SWS VKI Sbjct: 63 KFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEASIKDFILKSWSFVKI 122 Query: 127 GTTANQKRLFFNLRRLKGH-LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 GTT Q+RLFF+LR++K LQ L E++ AI+ +L+VSE +V+ MN R+A D+ Sbjct: 123 GTTQAQRRLFFSLRKIKKRILQYTNRETLNNEEIKAISNELSVSEGDVLQMNYRMACKDQ 182 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQE 212 SLN I D + + QD + + QE Sbjct: 183 SLNDCIKIGDDSKRELQDMIPCNLVSQE 210 >gi|292492240|ref|YP_003527679.1| RNA polymerase sigma factor RpoH [Nitrosococcus halophilus Nc4] gi|291580835|gb|ADE15292.1| RNA polymerase sigma factor RpoH [Nitrosococcus halophilus Nc4] Length = 287 Score = 201 bits (512), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 115/285 (40%), Positives = 174/285 (61%), Gaps = 14/285 (4%) Query: 3 RKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 R + +V +G L Y + IP+L +E+ LA R R+H DL AA +LV SHLR V Sbjct: 6 RNSNGFLVPVAVGDLDTYCQTVHSIPILSADQEHNLALRLRDHHDLDAARQLVLSHLRFV 65 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V+IA GY GYGLP+++++ EGNIGLM+AVK+FDPE+G RL ++++ WI+A + E+ILR+W Sbjct: 66 VRIARGYSGYGLPLADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHWIRAEIHEFILRNW 125 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT Q++LFFNLR K L L ++V +A+ L VS +V+ M RL+ Sbjct: 126 RIVKVATTKAQRKLFFNLRSAKKRL-----GWLNRKEVDEVARDLGVSPKQVLEMEARLS 180 Query: 182 GD----ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLN 236 E NA NS D + ++D +E+ +++N L +++ L+ Sbjct: 181 SQDTPFEGPNAE-NSEDDIPAPIA--YLFDPTTDPARQMERLDQENHYGQRLQQALEALD 237 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 PR R I R LQE+ TL L++E+++S ER+RQ+E A KK++ Sbjct: 238 PRSRAIIHRRWLQESKSTLHELAAEYQISAERIRQLENNAIKKLR 282 >gi|319409355|emb|CBI82999.1| RNA polymerase sigma-32 factor [Bartonella schoenbuchensis R1] Length = 303 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 110/262 (41%), Positives = 173/262 (66%), Gaps = 7/262 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LEK++E+ LA R+++ D A H++ +H+RLV+ IA ++ + +P+S++V EG +GL Sbjct: 34 PYLEKKKEHDLALRWKDKRDDKAMHQIAAAHMRLVISIASRFKRFKMPLSDLVQEGYVGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+P+R R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 94 LEAAARFEPDRDVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAQL 153 Query: 147 QAITDNNLKPEQVV--AIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDW 203 + D++ +Q + I++KL VS S+V +M+ R +G D SL+ ++ +D NS D Sbjct: 154 --VQDDSTMSKQDIFRVISEKLGVSVSDVETMDFRFSGTDNSLSMSVSENDDNSVTKLDT 211 Query: 204 LVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 LV D LIEK RR L ++ +LN RE I RRL E TLE L + Sbjct: 212 LV-DEKPLPDSLIEKVIDGQRRTQWLYDALQILNERELEIIRFRRLNEESATLEFLGEKL 270 Query: 263 EVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIEARA +K++ ++ Sbjct: 271 GISKERVRQIEARALQKLRCAL 292 >gi|124268355|ref|YP_001022359.1| RNA polymerase sigma-32 factor [Methylibium petroleiphilum PM1] gi|124261130|gb|ABM96124.1| RNA polymerase sigma-32 factor [Methylibium petroleiphilum PM1] Length = 319 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 114/281 (40%), Positives = 173/281 (61%), Gaps = 13/281 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ YI + ++PML +EE L +R R+ DL AA RLV SHLRLVV ++ Y GYGLP Sbjct: 36 LNAYIAAVNRLPMLTLEEEQSLGQRLRDEHDLEAAGRLVLSHLRLVVSVSRQYLGYGLPH 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP +G RL +Y++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 96 GDLIQEGNVGLMKAVKRFDPSQGVRLVSYALHWIKAEIHEYVLRNWRMVKLATTKAQRKL 155 Query: 136 FFNLRRLK-GHLQAITDNN-----LKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNA 188 FFNLR +K G TD++ L ++ +A +L V EVI M RL+ GD +L+ Sbjct: 156 FFNLRSMKQGFKGDATDSDLHRSTLTDAEIDIVASELKVKREEVIEMETRLSGGDVALDP 215 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + D++ + +L D +VL + + + ++ VL+ R RRI E R L Sbjct: 216 QTDDGDESYAPIA-YLADDRHEPTRVLDAQRRDALAGDGIGEALDVLDARSRRIVEERWL 274 Query: 249 QENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + N +TL L++E+ VS ER+RQIE A KK+++++ Sbjct: 275 KVNDNGSGGMTLHELAAEYGVSAERIRQIEVAAMKKMRKAL 315 >gi|150398305|ref|YP_001328772.1| RNA polymerase factor sigma-32 [Sinorhizobium medicae WSM419] gi|150029820|gb|ABR61937.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium medicae WSM419] Length = 288 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 112/272 (41%), Positives = 169/272 (62%), Gaps = 9/272 (3%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 R I + P LE+ EE+ LA+ +R D A +++ SH+RLV+ +A +R +GLP+ + Sbjct: 9 RMIKIAMEAPYLERDEEHALAEAWRNDNDQEARNKIAMSHMRLVISMAAKFRSFGLPMGD 68 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +V EG+IGL++A +F+P R R +TY+ WWI+A+MQ+Y+LR+WS+V+ GT++ QK LFF Sbjct: 69 LVQEGHIGLLEAAARFEPSREVRFSTYATWWIRASMQDYVLRNWSIVRGGTSSAQKALFF 128 Query: 138 NLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDK 195 NLRRL+ L A D L + V IA + VS ++V +M+ RL+G D SL A I D Sbjct: 129 NLRRLRARL-AQGDRQLTSQAVHEEIAAAIGVSLADVQTMDARLSGNDASLQAPIGGGDP 187 Query: 196 NSSQWQDWLVYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ D+L + D Q LI+ E R L ++ L+ RE +I ARRL E+ Sbjct: 188 DAGARLDFLASEAPLPDEQVSDLIDGE---RARRWLHVALGELSEREMKIIRARRLSEDG 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TLE L +S+ERVRQIE RA +K++ ++ Sbjct: 245 ATLEELGVALGISKERVRQIETRALEKLRAAL 276 >gi|260431476|ref|ZP_05785447.1| RNA polymerase sigma-32 factor [Silicibacter lacuscaerulensis ITI-1157] gi|260415304|gb|EEX08563.1| RNA polymerase sigma-32 factor [Silicibacter lacuscaerulensis ITI-1157] Length = 292 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 175/268 (65%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D A HRL+T+++RL + +A ++ YG P+++++ E + Sbjct: 17 KAELLDAETELRLAYAWRDERDEQALHRLITAYMRLAISMAAKFKRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HL--QAITDN-NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +A +D L Q+ IA ++ V +V M+ RLAG D SLNA + S+D++ + Sbjct: 137 RLEREAASDGVELDRHQLHQMIAAEIGVPLRDVEMMHGRLAGSDFSLNA-VQSADEDGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D +++ + + R L +M LN RER I R+L++ TLE+L Sbjct: 196 WIDALEDDSAQAAELVEHGHDTRQLREWLITAMQALNERERFIVRERKLRDPARTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 256 QELGLSKERVRQLEAAAFAKMRKSLEGQ 283 >gi|118497682|ref|YP_898732.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. novicida U112] gi|194323654|ref|ZP_03057430.1| alternative sigma factor RpoH [Francisella tularensis subsp. novicida FTE] gi|254373048|ref|ZP_04988537.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. novicida GA99-3549] gi|254374500|ref|ZP_04989981.1| RNA polymerase sigma-32 factor [Francisella novicida GA99-3548] gi|118423588|gb|ABK89978.1| RNA polymerase sigma-32 factor [Francisella novicida U112] gi|151570775|gb|EDN36429.1| RNA polymerase sigma-32 factor [Francisella novicida GA99-3549] gi|151572219|gb|EDN37873.1| RNA polymerase sigma-32 factor [Francisella novicida GA99-3548] gi|194322018|gb|EDX19500.1| alternative sigma factor RpoH [Francisella tularensis subsp. novicida FTE] gi|332678395|gb|AEE87524.1| RNA polymerase sigma factor RpoH [Francisella cf. novicida Fx1] Length = 292 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 105/284 (36%), Positives = 175/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K ++ V + LS Y++ + +P+L ++E LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KTKTLPVVSDNNLSAYLNFVNTLPVLSLEQEQELARRYKYKKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ ++K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSSKDKIGWLSSEDIKE-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ D + Q + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVKDVLSGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L +N TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIK 289 >gi|198284457|ref|YP_002220778.1| RNA polymerase sigma-32 subunit RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218667652|ref|YP_002427124.1| RNA polymerase sigma-32 factor [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248978|gb|ACH84571.1| RNA polymerase, sigma 32 subunit, RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218519865|gb|ACK80451.1| RNA polymerase sigma-32 factor [Acidithiobacillus ferrooxidans ATCC 23270] Length = 286 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 109/272 (40%), Positives = 173/272 (63%), Gaps = 10/272 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 GL+ Y+ + P+L +EE LA+R R+HGD+ AA LV SHLR VV++A GYRGYGL Sbjct: 16 GLAGYLRFVNAQPLLRPEEERDLARRLRDHGDVDAAKDLVLSHLRFVVRVARGYRGYGLQ 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGNIGLM+AVK++DP+ G RL ++++ W+KA + E+ILR+W +VK+ TT Q++ Sbjct: 76 EADLIQEGNIGLMKAVKRYDPDHGVRLVSFAVHWVKAEIHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR + H ++ E+ A+A L V++++V+ M R++G D SLN L Sbjct: 136 LFFNLRSSRSHTGWMSG-----EESAAMADDLGVTQAQVLEMEGRMSGYDYSLN-LEPDE 189 Query: 194 DKNSSQWQDWLVYDHDGQE-QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ + D + D G + L+E++ + + L ++S L R+R I E R L ++P Sbjct: 190 EREGGRAPD--LADPTGSPIEQLVERDWDQQQHRALHTALSALPQRDRYIIENRWLSDDP 247 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L E VS ERVRQ+E + K+++ + Sbjct: 248 KTLQVLGDELGVSAERVRQLEKSSMGKLRQQM 279 >gi|222112015|ref|YP_002554279.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax ebreus TPSY] gi|221731459|gb|ACM34279.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax ebreus TPSY] Length = 311 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 111/281 (39%), Positives = 170/281 (60%), Gaps = 12/281 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L ++EE A++ ++ ++ AA RLV SHLRLVV I+ Y GYGLP Sbjct: 27 LDAYISAVNRIPLLTQEEEQRYARQLKDDNNVEAAGRLVLSHLRLVVSISRQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 FFNLR +K +A + L ++ +A++LNV EVI M RL+G + L Sbjct: 147 FFNLRSMKQGFKADALDADTHRETLSDHEIDLVAEQLNVKREEVIEMETRLSGGDVLLDP 206 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRL 248 S D + + D + +IE +R + + ++ L+ R RRI E R L Sbjct: 207 APSDDGEQAFGPIAYLADAGHEPTAMIESRQRDALATDGIATALDSLDARSRRIVEQRWL 266 Query: 249 QENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 Q N +TL L++E+ VS ER+RQIE A KK+++++ Sbjct: 267 QVNDDGSGGMTLHELAAEYGVSAERIRQIEVAAMKKMKKAL 307 >gi|326571483|gb|EGE21498.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis BC7] Length = 371 Score = 201 bits (510), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 161/273 (58%), Gaps = 9/273 (3%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L +EE LA+RY GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 97 VNLGAYINTVHQIPILTPEEERALAERYYHDGDVEAARLLVMSHLRFVIHIARSYSGYGL 156 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++++W +VK+ TT + Sbjct: 157 SQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIKNWRIVKVATTKAHR 216 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK + N L ++ AIA LNV+ +V+ M RL D S A Sbjct: 217 KLFFNLRSLKK-----SSNQLTLDEATAIANDLNVTVKQVLEMESRLTSYDASFEA--QD 269 Query: 193 SDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SD + ++ L D V+ E + +N L +M L+ R R I R L + Sbjct: 270 SDDDEGRYAPQLFLEDAVNPADVVEEADWEENTTTALKDAMETLDERSRDIITQRWLADQ 329 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E+I Sbjct: 330 KSTLHELAATYNISAERVRQIEKNAMNKIKEAI 362 >gi|77464172|ref|YP_353676.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides 2.4.1] gi|126463015|ref|YP_001044129.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17029] gi|221640041|ref|YP_002526303.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides KD131] gi|332559048|ref|ZP_08413370.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] gi|77388590|gb|ABA79775.1| sigma factor RpoH2 (Sigma-32 group [Rhodobacter sphaeroides 2.4.1] gi|126104679|gb|ABN77357.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17029] gi|221160822|gb|ACM01802.1| RNA polymerase, sigma 32 subunit, RpoH precursor [Rhodobacter sphaeroides KD131] gi|332276760|gb|EGJ22075.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] Length = 292 Score = 201 bits (510), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 108/272 (39%), Positives = 171/272 (62%), Gaps = 14/272 (5%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + +L+ + E LA +R+ D A HRL+T+++RL + +A YR YG P+++++ E ++ Sbjct: 17 RAELLDAETELRLAYAWRDQRDERALHRLITAYMRLAISMASKYRRYGAPMNDLIQEASL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WSLV+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSLVRTGSTSSQKALFFNMRRVQA 136 Query: 145 HL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDK 195 L +A+ + L+ +A + V S+V M RL+G D SLNA S+D Sbjct: 137 RLEREASQRGEALDAHQLRE----MVAHDVGVPLSDVEMMEGRLSGSDFSLNA-TQSADD 191 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 +W D L D +V+ + R L +M LN RER I R+L++ P TL Sbjct: 192 EGREWIDALEDDSAQAAEVVEGSLDAARLRGWLVSAMQQLNARERFIVTERKLRDVPRTL 251 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E+L E ++S+ERVRQ+EA AF K++ S++ Q Sbjct: 252 ESLGEELKLSKERVRQLEAAAFAKMRRSLEAQ 283 >gi|296112758|ref|YP_003626696.1| RNA polymerase sigma factor 32 [Moraxella catarrhalis RH4] gi|295920452|gb|ADG60803.1| RNA polymerase sigma factor 32 [Moraxella catarrhalis RH4] gi|326561004|gb|EGE11369.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 7169] gi|326566767|gb|EGE16906.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 103P14B1] gi|326567391|gb|EGE17506.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis BC1] gi|326575234|gb|EGE25162.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis CO72] gi|326576679|gb|EGE26586.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 101P30B1] gi|326577646|gb|EGE27523.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis O35E] Length = 371 Score = 201 bits (510), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 161/273 (58%), Gaps = 9/273 (3%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L +EE LA+RY GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 97 VNLGAYINTVHQIPILTPEEERALAERYYHDGDVEAARLLVMSHLRFVIHIARSYSGYGL 156 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++++W +VK+ TT + Sbjct: 157 SQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIKNWRIVKVATTKAHR 216 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK + N L ++ AIA LNV+ +V+ M RL D S A Sbjct: 217 KLFFNLRSLKK-----SSNQLTLDEATAIANDLNVTVKQVLEMESRLTSYDASFEA--QD 269 Query: 193 SDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SD + ++ L D V+ E + +N L +M L+ R R I R L + Sbjct: 270 SDDDEGRYAPQLFLEDAVNPADVVEEADWEENTTTALKDAMETLDERSRDIITQRWLADQ 329 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E+I Sbjct: 330 KSTLHELAATYNISAERVRQIEKNAMNKIKEAI 362 >gi|121595815|ref|YP_987711.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax sp. JS42] gi|120607895|gb|ABM43635.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax sp. JS42] Length = 321 Score = 201 bits (510), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 111/281 (39%), Positives = 170/281 (60%), Gaps = 12/281 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++P+L ++EE A++ ++ ++ AA RLV SHLRLVV I+ Y GYGLP Sbjct: 37 LDAYISAVNRLPLLTQEEEQRYARQLKDDNNVEAAGRLVLSHLRLVVSISRQYLGYGLPH 96 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL +Y+M WIKA + EYIL++W +VK+ TT Q++L Sbjct: 97 GDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKL 156 Query: 136 FFNLRRLKGHLQAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 FFNLR +K +A + L ++ +A++LNV EVI M RL+G + L Sbjct: 157 FFNLRSMKQGFKADALDADTHRETLSDHEIDLVAEQLNVKREEVIEMETRLSGGDVLLDP 216 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRL 248 S D + + D + LIE +R + + ++ L+ R RRI E R L Sbjct: 217 APSDDGEQAFGPIAYLADAGHEPTALIESRQRDALATDGIATALDSLDARSRRIVEQRWL 276 Query: 249 QENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 Q N +TL L++E+ VS ER+RQIE A KK+++++ Sbjct: 277 QVNDDGSGGMTLHELATEYGVSAERIRQIEVAAMKKMKKAL 317 >gi|319899398|ref|YP_004159495.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] gi|319403366|emb|CBI76925.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] Length = 303 Score = 201 bits (510), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 105/260 (40%), Positives = 172/260 (66%), Gaps = 3/260 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+++E+ LA R+++ D +A H++ +H+RLV+ IA ++ + +P+ ++V EG +GL Sbjct: 34 PYLERKKEHDLALRWKDKRDDNAMHQIAAAHMRLVISIASRFKRFKMPLGDLVQEGYVGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +FDP+R R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 94 LEAAARFDPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAKL 153 Query: 147 QAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWL 204 A D+ L +++ I++KL VS S+V M+ R A D SL+ ++ + +N D L Sbjct: 154 -AQDDSTLTKQEIFRTISEKLGVSVSDVEKMDFRFSAADNSLSLSVSENGENPIAKMDSL 212 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V DH + V+ + + + R L ++ +LN RE I RRL E TLE L + + Sbjct: 213 VDDHPLPDAVIEQAIDGQRRTKWLYEALKILNERELEIIRFRRLNEEGATLEVLGQKLGI 272 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ERVRQIEARA +K++ ++ Sbjct: 273 SKERVRQIEARALQKLRCAL 292 >gi|326564381|gb|EGE14609.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 12P80B1] Length = 371 Score = 201 bits (510), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 161/273 (58%), Gaps = 9/273 (3%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L +EE LA+RY GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 97 VNLGAYINTVHQIPILTPEEERALAERYYHDGDVEAARLLVMSHLRFVIHIARSYSGYGL 156 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++++W +VK+ TT + Sbjct: 157 SQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIKNWRIVKVATTKAHR 216 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK + N L ++ AIA LNV+ +V+ M RL D S A Sbjct: 217 KLFFNLRSLKK-----SSNQLTLDEATAIANDLNVTVKQVLEMESRLTSYDASFEA--QD 269 Query: 193 SDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SD + ++ L D V+ E + +N L +M L+ R R I R L + Sbjct: 270 SDDDEGRYAPQLFLEDAVNPADVVEEADWEENTTTALKDAMETLDERSRDIITQRWLADQ 329 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E+I Sbjct: 330 KSTLHELAATYNISAERVRQIEKNAMNKIKEAI 362 >gi|269103879|ref|ZP_06156576.1| RNA polymerase sigma factor RpoH [Photobacterium damselae subsp. damselae CIP 102761] gi|268163777|gb|EEZ42273.1| RNA polymerase sigma factor RpoH [Photobacterium damselae subsp. damselae CIP 102761] Length = 287 Score = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 111/276 (40%), Positives = 165/276 (59%), Gaps = 8/276 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + + PML ++E LA+R GD+ AA LV SHLR VV IA GY GYGLP+ Sbjct: 16 LDSYIQAVNRYPMLTAEQEKELAERLHFDGDIDAAKALVMSHLRFVVHIARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + E++LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L NN E++ +A +L V SEV M RLA ++ + N D Sbjct: 136 FFNLRKSKKRLGWF--NN---EEINMVADQLGVEPSEVREMESRLAAQDATFEMSNDDDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 Y D V EE + N L+++++ L+ R + I +R L E+ Sbjct: 191 RDFTPTAPAYYLEDKSSDVARSYEESNWETHATNRLSQALAGLDERSQFIVRSRWLDEDK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL++L+ F VS ER+RQ+E A KK++E++ + Sbjct: 251 STLQDLADRFGVSAERIRQLEKNAMKKLKEAVGDDI 286 >gi|114321809|ref|YP_743492.1| RNA polymerase, sigma 32 subunit, RpoH [Alkalilimnicola ehrlichii MLHE-1] gi|114228203|gb|ABI58002.1| RNA polymerase, sigma 32 subunit, RpoH [Alkalilimnicola ehrlichii MLHE-1] Length = 285 Score = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 105/267 (39%), Positives = 162/267 (60%), Gaps = 6/267 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 YIH + +IP+L +EE+ LA+RYR GDL AA LV SHLR VV IA YRGYGLP+ ++ Sbjct: 23 YIHAVNQIPVLSAEEEHELAERYRLQGDLDAARALVLSHLRFVVHIARSYRGYGLPLGDI 82 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AVK+FDP +G RL ++++ WI+A + EY+LR+W +VK+ TT Q++LFFN Sbjct: 83 IQEGNVGLMKAVKRFDPAQGVRLVSFAVHWIRAEIHEYVLRNWRIVKVATTKAQRKLFFN 142 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + HL +T E+V A+A+ L V V M R+ G D + + D+ Sbjct: 143 LRSGRKHLGWLTS-----EEVDAMARDLGVKPETVREMEARMTGNDTTFDPTPGQDDEGI 197 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +L + E + ++R L ++++ L+ R + I R L E TL+ Sbjct: 198 HAPVAYLEDKRYDPATAVEEADWEQHRDQNLHQALAGLDERSQDILARRWLSERKATLKE 257 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESI 284 L+ ++VS ER+RQ+E A +++ ++ Sbjct: 258 LAEHYQVSAERIRQLEKNAMGRLKTAL 284 >gi|254230128|ref|ZP_04923524.1| alternative sigma factor RpoH [Vibrio sp. Ex25] gi|151937373|gb|EDN56235.1| alternative sigma factor RpoH [Vibrio sp. Ex25] Length = 284 Score = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 163/272 (59%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTADEERELAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V SEV M RLA +S + D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAVDSTFDMPTDEDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQENP 252 +S+ + ++Y D V E + N L +++ L+ R +RI +R L + Sbjct: 191 SSNAYTAPMLYLEDKSSDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLDDEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ EF VS ER+RQ+E A KK++ ++ Sbjct: 251 ATLQDLADEFGVSAERIRQLEKNAMKKLKLAV 282 >gi|28899727|ref|NP_799332.1| RNA polymerase factor sigma-32 [Vibrio parahaemolyticus RIMD 2210633] gi|260879104|ref|ZP_05891459.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AN-5034] gi|28807979|dbj|BAC61216.1| RNA polymerase sigma-32 factor [Vibrio parahaemolyticus RIMD 2210633] gi|308089656|gb|EFO39351.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AN-5034] gi|328472446|gb|EGF43312.1| RNA polymerase factor sigma-32 [Vibrio parahaemolyticus 10329] Length = 286 Score = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 110/273 (40%), Positives = 163/273 (59%), Gaps = 9/273 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTADEERELAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V +A++L V SEV M RLA D + + + D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAVDSTFDMPTDDDD 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +S + ++Y D V E + N L +++ L+ R +RI +R L + Sbjct: 191 SATSSYTAPMLYLEDKSSDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLDDE 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ EF VS ER+RQ+E A KK++ ++ Sbjct: 251 KATLQDLADEFGVSAERIRQLEKNAMKKLKLAV 283 >gi|91227498|ref|ZP_01261835.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] gi|262392915|ref|YP_003284769.1| RNA polymerase sigma factor RpoH [Vibrio sp. Ex25] gi|269968648|ref|ZP_06182645.1| RNA polymerase sigma -32 factor [Vibrio alginolyticus 40B] gi|91188522|gb|EAS74814.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] gi|262336509|gb|ACY50304.1| RNA polymerase sigma factor RpoH [Vibrio sp. Ex25] gi|269826735|gb|EEZ81072.1| RNA polymerase sigma -32 factor [Vibrio alginolyticus 40B] Length = 285 Score = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 110/272 (40%), Positives = 163/272 (59%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTADEERELAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V SEV M RLA +S + D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAVDSTFDMPTDEDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQENP 252 +S+ + ++Y D V E + N L +++ L+ R +RI +R L + Sbjct: 191 SSNAYTAPMLYLEDKSSDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLDDEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ EF VS ER+RQ+E A KK++ ++ Sbjct: 251 ATLQDLADEFGVSAERIRQLEKNAMKKLKLAV 282 >gi|323144379|ref|ZP_08078987.1| alternative sigma factor RpoH [Succinatimonas hippei YIT 12066] gi|322415832|gb|EFY06558.1| alternative sigma factor RpoH [Succinatimonas hippei YIT 12066] Length = 295 Score = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 115/272 (42%), Positives = 164/272 (60%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y+ I K PMLE+++E LAKR R++GDL AA +LV SHLRLVV IA GY GYGLPI Sbjct: 20 IDAYVKAINKFPMLEEEDERTLAKRLRDYGDLDAARKLVLSHLRLVVSIARGYLGYGLPI 79 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGNIGLM+AVK FDP+ G RLA +++ WIKA + +Y++++W +VK+ TT Q++L Sbjct: 80 SDLIQEGNIGLMKAVKHFDPDVGGRLAAFAVHWIKAEIHDYVIKNWRVVKVATTKAQRKL 139 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FF LR+ K L +D+ +A L VS +V M RLAG + + D Sbjct: 140 FFKLRQNKQRLGWFSDSERNK-----VADDLGVSADDVAEMETRLAGQDIGFDADSDDDS 194 Query: 196 NSSQWQDWLVY--DHDGQEQVLIEKEERKNRR-NMLTRSMSVLNPRERRIFEARRLQENP 252 + Y D + E + +N + L +++ L+ R R I + R L EN Sbjct: 195 DKGSSFSPSAYLEDENSNFANTFENIDYENYELSSLRKALDSLDERSRYIVQRRWLDENK 254 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ LS + VS ERVRQIE +A KK++ +I Sbjct: 255 ATLQELSEKLNVSIERVRQIENQALKKIKSNI 286 >gi|77359323|ref|YP_338898.1| RNA polymerase factor sigma-32 [Pseudoalteromonas haloplanktis TAC125] gi|76874234|emb|CAI85455.1| RNA polymerase sigma-32 factor (Heat shock regulatory protein F33.4) [Pseudoalteromonas haloplanktis TAC125] Length = 287 Score = 200 bits (508), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 166/273 (60%), Gaps = 9/273 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y+ + IPML+ ++E LA R +E GDLSAA +L+ SHLR V IA GY GYGLP Sbjct: 19 MDGYLQAVSTIPMLKVEQEQELATRLQEEGDLSAAKQLIMSHLRFVAHIAKGYSGYGLPQ 78 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + E++L++W +VK+ TT Q++L Sbjct: 79 ADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQRKL 138 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L +V +A +L VSE EV M R++G D + + D Sbjct: 139 FFNLRKNKKRL-----GWFNQAEVSTVASELGVSEKEVREMESRMSGQDMGFDLTGDDDD 193 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR---SMSVLNPRERRIFEARRLQEN 251 S + Y DG + + E+++ + TR ++ L+ R + I AR L ++ Sbjct: 194 SAPSSTYSPVQYLTDGTADLADDIEQQQWQEQSHTRLFSALKTLDERSQDIVSARWLTDD 253 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L+ ++ VS ERVRQ+E A KK+Q ++ Sbjct: 254 KATLQELAEKYSVSAERVRQLEKTAMKKLQAAM 286 >gi|89053397|ref|YP_508848.1| RNA polymerase factor sigma-32 [Jannaschia sp. CCS1] gi|88862946|gb|ABD53823.1| RNA polymerase, sigma 32 subunit, RpoH [Jannaschia sp. CCS1] Length = 292 Score = 200 bits (508), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 109/281 (38%), Positives = 179/281 (63%), Gaps = 9/281 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G+ LSR K +L+ + E LA +R+ + HRLVT+++RL + +A ++ Y Sbjct: 6 GDQSLSR---RAMKAELLDAETELRLAYAWRDDRCEESLHRLVTAYMRLAISMAAKFKRY 62 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G P+++++ E +GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ G+T++ Sbjct: 63 GAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVRTGSTSS 122 Query: 132 QKRLFFNLRRLKGHLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESL 186 QK LFFN+RR++ L+ + + L Q+ IA ++ V +V M RLAG D SL Sbjct: 123 QKSLFFNMRRVQARLEREAMKSGDTLDKHQLRQMIATEVGVPLHDVEMMEGRLAGSDYSL 182 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA S++ +W D L D + E ++ + R+ L SM+ LN RER I R Sbjct: 183 NA-TQSAEDEGREWIDTLEDDGEQAEHIVEHFHDTAQLRDWLIASMNALNDRERFIVRER 241 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +L+E+P TLE+L +E +S+ERVRQ+EA AF K++++++ Q Sbjct: 242 KLREDPRTLESLGTELGLSKERVRQLEAAAFGKMRKTLEAQ 282 >gi|260774824|ref|ZP_05883726.1| RNA polymerase sigma factor [Vibrio coralliilyticus ATCC BAA-450] gi|260609249|gb|EEX35404.1| RNA polymerase sigma factor [Vibrio coralliilyticus ATCC BAA-450] Length = 285 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 110/287 (38%), Positives = 169/287 (58%), Gaps = 8/287 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + V + L YI + PML +EE LA+R +G++ AA L+ SHLR Sbjct: 1 MTNQAYPMAVVTQDSLDSYIRTVNGYPMLTAEEERGLAERLHYNGEIEAAKGLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A GY GYGLP++++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VKI TT Q++LFFNLR+ K L + +V +A++L V SEV M RL Sbjct: 121 WRIVKIATTKAQRKLFFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRL 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A ++ + N D + + ++Y D V E + N L+ ++S L+ Sbjct: 176 AAQDAAFEMQNDDDDSGVSYTAPMLYLEDKASDVADNVEAANWEAHTNNRLSLALSSLDE 235 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I +R L++N TL+ L+ + VS ER+RQ+E A KK++ ++ Sbjct: 236 RSQHIVRSRWLEDNKSTLQELAETYSVSAERIRQLEKNAMKKLKAAV 282 >gi|149202416|ref|ZP_01879389.1| RNA polymerase sigma-32 factor [Roseovarius sp. TM1035] gi|149144514|gb|EDM32545.1| RNA polymerase sigma-32 factor [Roseovarius sp. TM1035] Length = 277 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 173/268 (64%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K ML+ + E LA +R+ D A HRL+ +++RL + +A +R YG P+++++ E + Sbjct: 2 KAEMLDAETELALAYAWRDQRDEEALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGL 61 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 62 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 121 Query: 145 HL--QAITDN-NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +A+ + L Q+ IA ++ V +V M RL+G D SLNA SS+ Q Sbjct: 122 RLEREALANGEQLDGYQLREMIAHEVGVPLRDVEMMEGRLSGSDFSLNA-TQSSEDEGRQ 180 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D ++++ + R L ++S LN RER I R+L+++P TLE+L Sbjct: 181 WIDTLEDDGARGDEIVERDHDMHALRTWLADALSRLNDRERFIVRERKLRDDPRTLESLG 240 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF+K+++ ++K Sbjct: 241 EELNLSKERVRQLEAAAFQKMRKHLEKH 268 >gi|258546170|ref|ZP_05706404.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Cardiobacterium hominis ATCC 15826] gi|258518595|gb|EEV87454.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Cardiobacterium hominis ATCC 15826] Length = 287 Score = 199 bits (507), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 113/274 (41%), Positives = 169/274 (61%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + +YI +IR+IP L+ +EE LA +E D++AA L+ HL+ VV IA G+ GYGLP+ Sbjct: 20 IDQYIAKIRQIPALDAEEERKLAIALQETNDINAAQTLIVHHLKFVVHIARGFTGYGLPL 79 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+F+P+RG RL ++++ WIK+ + EYI+R+W +VKI TT Q++L Sbjct: 80 GDLIQEGNVGLMKAVKRFEPQRGVRLVSFAVHWIKSEIHEYIIRNWRMVKIATTKAQRKL 139 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR +K L N L + AIA +LNVS +V M R+ G D + + D Sbjct: 140 FFNLRSMKKSL-----NWLNEAEAKAIADELNVSTKDVFEMESRIHGQDIAFELNDDDED 194 Query: 195 KNSSQWQDWLVYDH-DGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQENP 252 + WL D D E E E +N + L + + L+PR R I +AR L E+ Sbjct: 195 NDHFSPSQWLADDSIDPAEHT--EHAEHENLMQRKLAKGLQALDPRSRAIVQARWLNEDS 252 Query: 253 -VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+SE+ VS ER+RQIE +A +++ I+ Sbjct: 253 KATLQTLASEYNVSAERIRQIEQQAMHQLRAHIE 286 >gi|159045518|ref|YP_001534312.1| RNA polymerase factor sigma-32 [Dinoroseobacter shibae DFL 12] gi|157913278|gb|ABV94711.1| RNA polymerase sigma 32 factor [Dinoroseobacter shibae DFL 12] Length = 293 Score = 199 bits (507), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 112/283 (39%), Positives = 179/283 (63%), Gaps = 11/283 (3%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 +GE+ LSR + +L+ + E LA +R+ D A HRL+T+++RL + +A ++ Sbjct: 7 SGEMSLSR---RAMQAELLDAETELRLAYAWRDQRDEEALHRLITAYMRLAISMAAKFKR 63 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YG P+++++ E +GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T+ Sbjct: 64 YGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTS 123 Query: 131 NQKRLFFNLRRLKGHLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DES 185 +QK LFFN+RR++ L+ A L Q+ IA ++ V +V M RLAG D S Sbjct: 124 SQKSLFFNMRRVQARLEREAASAGEPLDRHQLRQMIATEVGVPLHDVEMMEGRLAGSDYS 183 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFE 244 LNA S++ +W D L D Q L+E++ + + R L +M LN RER I Sbjct: 184 LNA-TQSTEDEGREWIDTL-EDTGAQAAELVEQDHDIETLRGWLITAMDALNERERFIVR 241 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R+L++ P TLE+L E +S+ERVRQ+EA AF K+++++ Q Sbjct: 242 ERKLRDQPRTLESLGQELGLSKERVRQLEAAAFGKMRKNLMNQ 284 >gi|332531759|ref|ZP_08407644.1| RNA polymerase sigma factor RpoH [Pseudoalteromonas haloplanktis ANT/505] gi|332038735|gb|EGI75177.1| RNA polymerase sigma factor RpoH [Pseudoalteromonas haloplanktis ANT/505] Length = 287 Score = 199 bits (507), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 107/273 (39%), Positives = 165/273 (60%), Gaps = 9/273 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y+ + IPML+ ++E LAKR +E GDLSAA +L+ SHLR V IA Y GYGLP Sbjct: 19 MDGYLQAVSTIPMLKVEQEQELAKRLQEEGDLSAAKQLIMSHLRFVAHIAKSYSGYGLPQ 78 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + E++L++W +VK+ TT Q++L Sbjct: 79 ADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQRKL 138 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L +V +A +L VSE EV M R++G D + + +D Sbjct: 139 FFNLRKNKKRL-----GWFNQAEVSTVASELGVSEKEVREMESRMSGQDMGFDLTGDDND 193 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR---SMSVLNPRERRIFEARRLQEN 251 + + Y DG + + E+ + + TR ++ L+ R + I AR L ++ Sbjct: 194 DAPTSTYSPVQYLTDGAADLADDVEQEQWKEQAHTRLFSALKTLDERSQDIVSARWLSDD 253 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L+ ++ VS ERVRQ+E A KK+Q ++ Sbjct: 254 KATLQELAQKYSVSAERVRQLEKTAMKKLQSAM 286 >gi|167627742|ref|YP_001678242.1| RNA polymerase factor sigma-32 [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167597743|gb|ABZ87741.1| RNA polymerase sigma-32 factor [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 292 Score = 199 bits (507), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 105/284 (36%), Positives = 175/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K S+ V + L+ Y++ + +P+L +EE LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KGKSLPVVSDNNLNSYLNFVNSLPILSVEEEQELARRYKYQKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ ++K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSSKDKIGWLSSEDIKQ-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ + S Q + + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLPYTDDEGGQSNQQSFYLEDKSSDIEHQIVQQDYYDNFKAIVKDVISGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L + TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDTKATLQDLAAKYNISAERVRQIEEEALVKLRKAIK 289 >gi|84499725|ref|ZP_00998013.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] gi|84392869|gb|EAQ05080.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] Length = 292 Score = 199 bits (507), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 172/270 (63%), Gaps = 10/270 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D A HRLVT+++RL + +A YR YG P+++++ E + Sbjct: 17 KAELLDAETELSLAYSWRDDRDERALHRLVTAYMRLAISMASKYRRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HLQ------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 L+ T + + Q+VA+ ++ V +V M+ RL+G D SLNA S D+ Sbjct: 137 KLEREALGRGETLDKHQLHQLVAM--EVGVPLRDVQMMDGRLSGSDFSLNA-TQSVDEEG 193 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +W D + D + + +R+ R L +MS LN RE I R+L++ P TLE+ Sbjct: 194 REWIDTIEDDGVQAAEAVEADHDRETLRLWLAEAMSDLNDRETLIVTERKLRDAPRTLES 253 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L E +S+ERVRQ+EA AFKK++ ++ Q Sbjct: 254 LGQELGLSKERVRQLEAAAFKKMRRHLESQ 283 >gi|77165402|ref|YP_343927.1| RpoH [Nitrosococcus oceani ATCC 19707] gi|254433859|ref|ZP_05047367.1| alternative sigma factor RpoH [Nitrosococcus oceani AFC27] gi|76883716|gb|ABA58397.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosococcus oceani ATCC 19707] gi|207090192|gb|EDZ67463.1| alternative sigma factor RpoH [Nitrosococcus oceani AFC27] Length = 287 Score = 199 bits (506), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 116/286 (40%), Positives = 176/286 (61%), Gaps = 18/286 (6%) Query: 3 RKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 R + +V +G L+ Y IP+L ++E LA R R+H DL AA +LV SHLR V Sbjct: 6 RNDNGALVPVAVGNLNTYCQNAHSIPVLSAEQERSLALRLRQHNDLEAARQLVLSHLRFV 65 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 ++IA GY GYGLP+++++ EGNIGLM+AVK+FDPE+G RL ++++ WI+A + E+ILR+W Sbjct: 66 IRIARGYNGYGLPLADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHWIRAEIHEFILRNW 125 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT Q++LFFNLR K L L ++V +A+ L VS +V+ M RL+ Sbjct: 126 RIVKVATTKAQRKLFFNLRSAKKRL-----GWLNRKEVDEVAQDLGVSPKQVMEMEARLS 180 Query: 182 GDESLNALINSSDKNSSQ--WQDWLVYDHD-----GQEQVLIEKEERKNRRNMLTRSMSV 234 S +A + S+ S+ + Y D Q+ L+++E +R L +++ V Sbjct: 181 ---SQDAPFDGSNAEESENGIPAPMAYLADPSADPAQKMELLDQENYYGQR--LQQALEV 235 Query: 235 LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L+ R R I R LQEN TL L++E+++S ER+RQ+E A KK+ Sbjct: 236 LDLRSRTIINRRWLQENKSTLHELAAEYQISAERIRQLENNAIKKM 281 >gi|332995320|gb|AEF05375.1| RNA polymerase sigma factor [Alteromonas sp. SN2] Length = 284 Score = 199 bits (506), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 107/267 (40%), Positives = 162/267 (60%), Gaps = 6/267 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ + +I ML +EE LA R RE DL AA +LV SHLR VV IA Y GYGLP +++ Sbjct: 21 YVQAVSRIDMLTAEEERALAVRLREDEDLEAARKLVMSHLRFVVHIAKSYSGYGLPQADL 80 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+FDP G RL ++++ WIKA + E++L++W +VK+ TT Q++LFFN Sbjct: 81 IQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQRKLFFN 140 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR+ K L T E+V +A +L VS EV+ M R++ D++ + + + + Sbjct: 141 LRKAKKRLGWFT-----HEEVQTVASELGVSTKEVLQMEARMSSQDQAFDLSADEDETGN 195 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +L E +I + N L ++ L+ R + I E R L ++ +TL++ Sbjct: 196 FAPVQFLEDKSTDVEMDVINNDWDTNASKRLYSAIKTLDDRSQDIIETRWLADSKITLQD 255 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESI 284 L+ ++EVS ERVRQIE A KK+Q ++ Sbjct: 256 LADKYEVSAERVRQIEKNAMKKLQAAM 282 >gi|126739146|ref|ZP_01754840.1| RNA polymerase sigma-32 factor [Roseobacter sp. SK209-2-6] gi|126719763|gb|EBA16471.1| RNA polymerase sigma-32 factor [Roseobacter sp. SK209-2-6] Length = 292 Score = 199 bits (506), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 111/266 (41%), Positives = 173/266 (65%), Gaps = 8/266 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D+ A HRL +++RL + +A + YG P+++++ E + Sbjct: 17 KAELLDAETERALAYAWRDQRDVKALHRLTNAYMRLAISMAAKFNRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFNLRR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKTLFFNLRRVQA 136 Query: 145 HLQ--AITDNN-LKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ A D + L Q+ IA ++ V +V M+ RL+G D SLNA +SD + + Sbjct: 137 QLERRAYADGHRLDRHQLHQKIASEIGVPLRDVEMMDGRLSGSDFSLNA-NQASDNDGRE 195 Query: 200 WQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 W D L +H +G EQV +R+ R L +M L RER I AR+LQE TLE+L Sbjct: 196 WIDALEDEHAEGAEQV-EGTHDRRQLRQWLVEAMQSLTERERFIIVARKLQEPFRTLEDL 254 Query: 259 SSEFEVSRERVRQIEARAFKKVQESI 284 E +S+ERVRQ+EA A KK+++++ Sbjct: 255 GQELNLSKERVRQLEAAALKKMRKAL 280 >gi|326569916|gb|EGE19966.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis BC8] Length = 371 Score = 199 bits (505), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 107/273 (39%), Positives = 161/273 (58%), Gaps = 9/273 (3%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI+ + +IP+L +EE LA+RY GD+ A LV SHLR V+ IA Y GYGL Sbjct: 97 VNLGAYINTVHQIPILTPEEERALAERYYHDGDVEATRLLVMSHLRFVIHIARSYSGYGL 156 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E+++++W +VK+ TT + Sbjct: 157 SQADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIKNWRIVKVATTKAHR 216 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFFNLR LK + N L ++ AIA LNV+ +V+ M RL D S A Sbjct: 217 KLFFNLRSLKK-----SSNQLTLDEATAIANDLNVTVKQVLEMESRLTSYDASFEA--QD 269 Query: 193 SDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SD + ++ L + D V+ E + +N L +M L+ R R I R L + Sbjct: 270 SDDDEGRYAPQLFLEDAVNPADVVEEADWEENTTTALKDAMETLDERSRDIITQRWLADQ 329 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++ + +S ERVRQIE A K++E+I Sbjct: 330 KSTLHELAATYNISAERVRQIEKNAMNKIKEAI 362 >gi|307824539|ref|ZP_07654764.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] gi|307734523|gb|EFO05375.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] Length = 285 Score = 199 bits (505), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 104/283 (36%), Positives = 176/283 (62%), Gaps = 8/283 (2%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +++ +N +G Y++ +R++P L ++E LA ++R+ GDL AA LV ++LR V+ + Sbjct: 5 LALPINLSVGTFDAYLNVVRQMPKLTVEQERELALKFRDDGDLEAARELVMTNLRFVIHV 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY GYGL + +++ EGNIGLM+AVK+FDP+ G RL ++++ WIKA + EY++++W +V Sbjct: 65 ARGYSGYGLSMPDIIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVIKNWGIV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-D 183 K+ TT Q++LFFNLR+ K L ++++ + VAIAK L+V S V M RL D Sbjct: 125 KVATTKAQRKLFFNLRKSKQDLGWLSND-----EAVAIAKDLDVDVSTVYEMEKRLGSRD 179 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRI 242 S + ++ S + S ++ H G VL+E + + +++L +M+ L+ R I Sbjct: 180 MSFDMPVDESTEESYVAPASYLHQHGGDPAVLLENSDWEGHEQDLLADAMAELDERSLDI 239 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +R L + TL L+ + VS ER+RQ+E A KK++ +++ Sbjct: 240 LSSRWLMDKKATLHELAERYNVSAERIRQLEQNAMKKLRAAVE 282 >gi|258404985|ref|YP_003197727.1| putative RNA polymerase, sigma 70 family subunit [Desulfohalobium retbaense DSM 5692] gi|257797212|gb|ACV68149.1| putative RNA polymerase, sigma 70 family subunit [Desulfohalobium retbaense DSM 5692] Length = 350 Score = 199 bits (505), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 112/276 (40%), Positives = 175/276 (63%), Gaps = 8/276 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ E+ + P+LE EE LA+R R+ D SAA RL++SHLRLVVKIAM + R + Sbjct: 71 LKLYLREVNRFPLLEPDEEVELARRVRDENDQSAAFRLISSHLRLVVKIAMEFQRRWMKN 130 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++V EGN+GLM+AV+KFDPERG + + Y+ +WI+A + ++I+ +W +VK+GTT Q++ Sbjct: 131 VLDLVQEGNVGLMKAVQKFDPERGIKFSYYASFWIRAYILKFIMDNWRMVKLGTTQAQRK 190 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LF+NL R K LQA P+ +++ L+VSE V+ M RL G D SL+A + Sbjct: 191 LFYNLSREKQRLQA---QGFDPD-ASTLSENLDVSEESVVEMTQRLGGHDLSLDAPLG-- 244 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + +SS D+L G E+ L ++E R L + LN +E+ I E R L ++PV Sbjct: 245 EDSSSSRMDFLPALGAGIEESLAQQEMGSALRQHLQTILPKLNDKEKEILEHRLLTDSPV 304 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 TL + ++ ++RERVRQIE+R +K++ + +++ Sbjct: 305 TLREIGEKYGITRERVRQIESRLLQKLKTHLSSEIQ 340 >gi|303248805|ref|ZP_07335056.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio fructosovorans JJ] gi|302489817|gb|EFL49747.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio fructosovorans JJ] Length = 344 Score = 199 bits (505), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 109/279 (39%), Positives = 179/279 (64%), Gaps = 6/279 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI K PML+ +EE LA+R R+ GD AA RL++SHLRLVVKIAM + R + Sbjct: 64 LQLYLREIGKFPMLKPEEEQELARRVRDSGDEKAAFRLISSHLRLVVKIAMDFQRRWMQN 123 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+AV KFDP++G + + Y+ +WIKA + +YI+ +W +VKIGTT Q++ Sbjct: 124 VLDLIQEGNVGLMRAVTKFDPDKGIKFSYYAAYWIKAYILKYIMDNWRMVKIGTTQAQRK 183 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LF+NL + + LQ + P +++ LNV+ES+++ M+ RL+G++ L+ ++ + Sbjct: 184 LFYNLNKERNRLQTL---GFDP-SASQLSEALNVTESDIVEMDQRLSGND-LSLDVSLGE 238 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 ++S D+L G E++L E + LN +E + + R L ++PVT Sbjct: 239 DSTSTRLDFLPALTPGIEEILAGDEISHQLEKHIQTIRPSLNEKELDLLDNRILSDSPVT 298 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 L + +++ ++RERVRQIEAR +K++E + K++E SS Sbjct: 299 LREIGAKYGITRERVRQIEARLLEKLKEHLSKRIEDFSS 337 >gi|323498063|ref|ZP_08103069.1| RNA polymerase factor sigma-32 [Vibrio sinaloensis DSM 21326] gi|323316871|gb|EGA69876.1| RNA polymerase factor sigma-32 [Vibrio sinaloensis DSM 21326] Length = 285 Score = 199 bits (505), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 110/287 (38%), Positives = 167/287 (58%), Gaps = 8/287 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + V + L YI ++ PML EE LA+R G++ AA L+ SHLR Sbjct: 1 MTNQAYPMAVVTQDSLDSYIRKVNSYPMLTADEERELAERLHYDGEIEAAKGLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A GY GYGLP++++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VKI TT Q++LFFNLR+ K L + +V +AK+L V +EV M RL Sbjct: 121 WRIVKIATTKAQRKLFFNLRKSKKRLGWFNNG-----EVETVAKELGVEPAEVREMESRL 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A +S + D + S + ++Y D V E + N L+ +++ L+ Sbjct: 176 AAQDSTFEMPTDDDDSVSSYTAPVLYLEDKASDVADNVEAANWEAHTNNRLSLALASLDE 235 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I +R L +N TL+ L+ + VS ER+RQ+E A KK++ ++ Sbjct: 236 RSQHIVRSRWLDDNKSTLQELAETYSVSAERIRQLEKNAMKKLKTAV 282 >gi|241668310|ref|ZP_04755888.1| RNA polymerase factor sigma-32 [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254876843|ref|ZP_05249553.1| RNA polymerase sigma-32 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254842864|gb|EET21278.1| RNA polymerase sigma-32 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 292 Score = 198 bits (504), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 105/284 (36%), Positives = 174/284 (61%), Gaps = 7/284 (2%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K S+ V + L+ Y++ + +P+L +EE LA+RY+ DL AA +LV SHLR V K Sbjct: 11 KGKSLPVVSDNNLNSYLNFVNSLPILSVEEEQELARRYKYQKDLDAAQQLVLSHLRFVTK 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA + GYGL I++++ EGNIGLM+AV KFDP++G RL ++++ WIKA M +Y+L++W + Sbjct: 71 IARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHWIKAEMHDYVLKNWKI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-G 182 VK+ TT Q++LFFNLR K + ++ ++K +A++L V E VI M R+ G Sbjct: 131 VKVATTKAQRKLFFNLRSSKDKIGWLSSEDIKQ-----LAEELGVKEETVIEMEKRMCQG 185 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SL+ + S Q + D E +++++ N + ++ +S + R + Sbjct: 186 DASLDLPYTDDEGGQSNQQSLYLEDKSSDIEHQIVQQDYYDNFKAIVKDVISGFDTRTKD 245 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I +R L + TL++L++++ +S ERVRQIE A K++++I+ Sbjct: 246 IIMSRYLLDTKATLQDLATKYNISAERVRQIEEEALVKLRKAIK 289 >gi|254487022|ref|ZP_05100227.1| RNA polymerase sigma-32 factor [Roseobacter sp. GAI101] gi|214043891|gb|EEB84529.1| RNA polymerase sigma-32 factor [Roseobacter sp. GAI101] Length = 277 Score = 198 bits (504), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 105/268 (39%), Positives = 171/268 (63%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D A HRL+T+++RL + +A ++ YG P+++++ E + Sbjct: 2 KAELLDAETELKLAYAWRDERDEEALHRLITAYMRLAISMAGKFKRYGAPMNDLIQEAGL 61 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 62 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVRTGSTSSQKSLFFNMRRVQA 121 Query: 145 HL----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L QA + K + I+ ++ V +V M RL+G D SLNA SS+ + Sbjct: 122 RLEREAQAAGETLDKHQLRQMISTEIGVPMHDVEMMEGRLSGSDYSLNA-TQSSEDEGRE 180 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D LV D + + E + RN L +M LN RE+ I R+L++ P TLE+L Sbjct: 181 WIDALVDDTAQAAERVEESHDIVTLRNWLLGAMQALNDREQFIVRERKLRDQPRTLESLG 240 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF K++++++ Q Sbjct: 241 QELNLSKERVRQLEAAAFAKMRKTLETQ 268 >gi|46579995|ref|YP_010803.1| sigma 70 family protein [Desulfovibrio vulgaris str. Hildenborough] gi|120602593|ref|YP_966993.1| sigma-70 region 2 domain-containing protein [Desulfovibrio vulgaris DP4] gi|46449411|gb|AAS96062.1| sigma 70 family protein [Desulfovibrio vulgaris str. Hildenborough] gi|120562822|gb|ABM28566.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfovibrio vulgaris DP4] gi|311234006|gb|ADP86860.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio vulgaris RCH1] Length = 356 Score = 198 bits (504), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 114/289 (39%), Positives = 180/289 (62%), Gaps = 7/289 (2%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 + + G+ L Y+ EI + PML+ +EEY LAKR RE GD AA RLV+SHLRLVVKIAM Sbjct: 68 ATVSTGKDSLHLYLREISRFPMLKPEEEYELAKRVRETGDGDAAFRLVSSHLRLVVKIAM 127 Query: 67 GY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 + R + + +++ EGN+GLM+AV KFDPE+G + + Y+ +WIKA + ++I+ +W +VK Sbjct: 128 DFQRRWMQNVLDLIQEGNVGLMRAVNKFDPEKGIKFSYYAAFWIKAYILKFIMDNWRMVK 187 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDE 184 IGTT Q++LF+NL + + Q + P+ ++++LNV++ +V+ M RL A D Sbjct: 188 IGTTQAQRKLFYNLNKER---QKLILQGYDPD-AATLSERLNVTKEQVVEMEQRLDASDV 243 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL+ + +S+ D+L G E L E +N L + L+ +E I + Sbjct: 244 SLDIPVGDEGGGASR-MDFLPALGPGIEDALSNHEIASMVQNRLQSIIPKLSDKEVDILQ 302 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 R L E PVTL + +++++RERVRQIEAR +K+++ + K+++ SS Sbjct: 303 NRLLSEEPVTLREIGEKYDITRERVRQIEARLLQKIRDHLFKEIKDFSS 351 >gi|15603449|ref|NP_246523.1| RNA polymerase factor sigma-32 [Pasteurella multocida subsp. multocida str. Pm70] gi|12721979|gb|AAK03668.1| RpoH [Pasteurella multocida subsp. multocida str. Pm70] Length = 281 Score = 198 bits (504), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 109/288 (37%), Positives = 171/288 (59%), Gaps = 13/288 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN+ ++++ + + YI + PML +EE LA+R DL AA +L+ SHLR Sbjct: 1 MNKDTQTMMLVPQGSIEAYIRAANEYPMLTAEEEKELAERLYYQEDLEAAKKLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +N +V +A +L VS ++V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRLGWFNEN-----EVEMVANELGVSPADVMEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LN 236 G + A +D N + L + G + E +N T +SV L+ Sbjct: 176 TGADV--AFDLPTDDNEETYSPSLYLEDKGSN--FAAELENENYEAQATEQLSVALEGLD 231 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R I +AR L EN TL++L++++ +S ERVRQ+E A KK++ ++ Sbjct: 232 ERSLDIIKARWLDENKATLQDLAAKYNISAERVRQLETNALKKLKSAV 279 >gi|315127793|ref|YP_004069796.1| RNA polymerase factor sigma-32 [Pseudoalteromonas sp. SM9913] gi|315016307|gb|ADT69645.1| RNA polymerase factor sigma-32 [Pseudoalteromonas sp. SM9913] Length = 287 Score = 198 bits (503), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 106/273 (38%), Positives = 166/273 (60%), Gaps = 9/273 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y+ + IPML+ ++E LAK+ +E GDLSAA +L+ SHLR V IA Y GYGLP Sbjct: 19 MDGYLQAVSTIPMLKVEQEQELAKKLQEEGDLSAAKQLIMSHLRFVAHIAKSYSGYGLPQ 78 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + E++L++W +VK+ TT Q++L Sbjct: 79 ADLIQEGNIGLMKAVKRFDPSVGVRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQRKL 138 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L +V +A +L VSE EV M R++G D + + +D Sbjct: 139 FFNLRKNKKRL-----GWFNQAEVSTVASELGVSEKEVREMESRMSGQDMGFDLTGDDND 193 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR---SMSVLNPRERRIFEARRLQEN 251 + + Y DG + + E+++ + TR ++ L+ R + I AR L ++ Sbjct: 194 DAPTSTYSPVQYLTDGSADLADDIEQQQWQEQSHTRLFSALKTLDERSQDIVSARWLSDD 253 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L+ ++ VS ERVRQ+E A KK+Q ++ Sbjct: 254 KATLQELAEKYSVSAERVRQLEKTAMKKLQSAM 286 >gi|239994826|ref|ZP_04715350.1| RNA polymerase sigma factor [Alteromonas macleodii ATCC 27126] Length = 284 Score = 198 bits (503), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 109/284 (38%), Positives = 168/284 (59%), Gaps = 6/284 (2%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N ++M++ V + YI + I ML +EE LA R RE DL AA +LV SHLR V Sbjct: 4 NLQSMALSVPHSGSIEGYIQAVSSIDMLSAEEERELAVRLREDEDLQAARKLVMSHLRFV 63 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA Y GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + E++L++W Sbjct: 64 VHIAKSYSGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEFVLKNW 123 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT Q++LFFNLR+ K L T ++V +A +L VS EV+ M R++ Sbjct: 124 RIVKVATTKAQRKLFFNLRKAKKRLGWFT-----HDEVQTVANELGVSTKEVLQMEARMS 178 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 D++ + + + + +L E +I + L ++ L+ R + Sbjct: 179 SQDQAFDLTADEDETGNFAPVQYLEDKSSDVETDVINNDWDTAASKRLYSAIKTLDERSQ 238 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I E R L +N +TL++L+ +++VS ERVRQIE A KK+Q ++ Sbjct: 239 DIIETRWLADNKITLQDLADKYQVSAERVRQIEKNAMKKLQAAM 282 >gi|320353914|ref|YP_004195253.1| RNA polymerase sigma 32 subunit RpoH [Desulfobulbus propionicus DSM 2032] gi|320122416|gb|ADW17962.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfobulbus propionicus DSM 2032] Length = 328 Score = 198 bits (503), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 111/276 (40%), Positives = 180/276 (65%), Gaps = 8/276 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L RY+ EI + +L ++E LA R++E GD AA+RLV+S+LRLVVK+AM ++ Y + Sbjct: 36 ALHRYLQEISQYELLSREETEELAVRFQETGDPDAAYRLVSSNLRLVVKVAMDFQKYWMQ 95 Query: 75 -ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++ EGN+GL+QA KKFDP RG + + Y+ +WI+A + ++I+ +W LVKIGTT Q+ Sbjct: 96 NFMDLIQEGNVGLVQATKKFDPYRGVKFSYYAAYWIRAYILKFIMDNWRLVKIGTTQAQR 155 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINS 192 +LFF+L + K L++ KPE V +A++LNV ESEVI M R+ D SL A + S Sbjct: 156 KLFFSLNKEKKLLES---QGFKPE-VKLLAERLNVKESEVIEMGQRMDNWDVSLEAPVRS 211 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ + +++L ++ G E+++ +E R+ +L + LN +E+ I R L + P Sbjct: 212 DSED--EQKNFLPHEGPGIEEMVASQEMRERLAGILADLSTRLNEKEQVILTTRLLSDEP 269 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ ++ EF +SRERVRQIE+ KK+++ +K++ Sbjct: 270 KTLQTIADEFNISRERVRQIESNLLKKLRKQFEKEM 305 >gi|94265020|ref|ZP_01288789.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] gi|94270029|ref|ZP_01291635.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] gi|93450968|gb|EAT01953.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] gi|93454509|gb|EAT04794.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] Length = 337 Score = 197 bits (502), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 117/288 (40%), Positives = 183/288 (63%), Gaps = 10/288 (3%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++N+ ++ G L RY+ EI + +L ++E LA+R++E GD AA++LVT++LRLVV Sbjct: 39 QENLPVV--GNAALHRYLQEISQYRLLSREETDELARRFQESGDPDAAYQLVTANLRLVV 96 Query: 63 KIAMGYRGYGLP-ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 K+AM ++ Y + +++ EGNIGL+QAVKKFDP R + + Y+ +WI+A + ++I+ +W Sbjct: 97 KVAMDFQKYWMQNFLDLIQEGNIGLVQAVKKFDPYRQVKFSYYAAYWIRAYILKFIMDNW 156 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LVKIGTT Q++LFFNL + K L+A +PE + +A++LNV ESE+I M RL Sbjct: 157 RLVKIGTTQAQRKLFFNLNKEKKLLEA---QGFEPEPKL-LAQRLNVKESEIIEMGQRLE 212 Query: 182 -GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SL + + + Q +D+L G EQ + E E R+ ML + LN +E Sbjct: 213 HGDMSLESPLRED--SDEQRKDFLPMLGPGVEQRVAEDEIRQWMAAMLDKLRLTLNEKEL 270 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 I + R L ++P TL+ ++ F +SRERVRQIEA KK++ ++ +V Sbjct: 271 AILDQRLLNDDPRTLQEIADRFTISRERVRQIEANLLKKMRLYLENEV 318 >gi|332142899|ref|YP_004428637.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] gi|332143056|ref|YP_004428794.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] gi|327552921|gb|AEA99639.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] gi|327553078|gb|AEA99796.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] Length = 284 Score = 197 bits (502), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 110/284 (38%), Positives = 166/284 (58%), Gaps = 6/284 (2%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N ++M++ V + YI + I ML +EE LA R RE DL AA +LV SHLR V Sbjct: 4 NLQSMALSVPHSGSIEGYIQAVSSIDMLSAEEERELAVRLREDEDLQAARKLVMSHLRFV 63 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA Y GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + E++L++W Sbjct: 64 VHIAKSYSGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEFVLKNW 123 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT Q++LFFNLR+ K L T ++V +A +L VS EV+ M R++ Sbjct: 124 RIVKVATTKAQRKLFFNLRKAKKRLGWFT-----HDEVQTVANELGVSTKEVLQMEARMS 178 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L D+ + + D E +I + L ++ L+ R + Sbjct: 179 SQDQAFDLSADEDETGNFAPVQFLEDKSSDVETDVINNDWDTAASKRLYSAIKTLDDRSQ 238 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I E R L +N +TL++L+ +++VS ERVRQIE A KK+Q ++ Sbjct: 239 DIIETRWLADNKITLQDLADKYQVSAERVRQIEKNAMKKLQAAM 282 >gi|126734879|ref|ZP_01750625.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] gi|126715434|gb|EBA12299.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] Length = 277 Score = 197 bits (501), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 173/268 (64%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D A HRL+T+++RL + +A ++ YG P+++++ E ++ Sbjct: 2 KAELLDAETELALAYAWRDERDEKALHRLITAYMRLAISMASKFKRYGAPMNDLIQEASV 61 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 62 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 121 Query: 145 HL--QAITDNNLKPEQVV--AIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +A + + +Q + IA ++ V +V M RL+G D SLNA S + + Sbjct: 122 RLEREAAAEGRVMDKQEMRELIAIEVGVPLHDVEMMEGRLSGSDFSLNA-TQSVEDEGRE 180 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D + + + R L ++S LN RE+ I R+L+E+P TLE+L Sbjct: 181 WIDALEDDGPQAAETVEHTHDNDTLRQWLLTALSNLNDREQFIVRERKLREDPRTLESLG 240 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 241 TELGLSKERVRQLEAAAFGKMRKSLESQ 268 >gi|149924702|ref|ZP_01913051.1| sigma 32 (RpoH) [Plesiocystis pacifica SIR-1] gi|149814429|gb|EDM74021.1| sigma 32 (RpoH) [Plesiocystis pacifica SIR-1] Length = 371 Score = 197 bits (501), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 114/275 (41%), Positives = 178/275 (64%), Gaps = 6/275 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 ++ Y+ E+R+ P+L +++E+ LA R+ EHGD AA RLVTS+LRLVVKIA YR + Sbjct: 90 MAAYMAEVRRHPLLTREQEHELAVRWVEHGDQEAAKRLVTSNLRLVVKIANEYRRGYQNL 149 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++V EGN+GL++AV+KFDP RG +L+TYS WWI+A + ++IL +W LVKIGTT NQ++L Sbjct: 150 LDLVQEGNVGLLKAVQKFDPYRGVKLSTYSGWWIRAYVLKHILNNWRLVKIGTTQNQRKL 209 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR+ + +A+ + P IAK+L+VS EV+ M R+ A D SLNA + S + Sbjct: 210 FFNLRKQR---EALIRAGIDP-TAENIAKELDVSTEEVVEMQKRMGAPDASLNAPLGSGE 265 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM-SVLNPRERRIFEARRLQENPV 253 + ++ + ++ D + + EE K + R+ + L+ RE IF R + + P+ Sbjct: 266 EPGARTRLDMLEDETTDPEGEVSGEEFKRLLHDKLRTFGATLSGREAEIFGERLIADEPI 325 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ L + VSRER RQ+E R ++++ +Q ++ Sbjct: 326 TLQALGERWGVSRERARQVEKRMVLRLRKYLQAEL 360 >gi|261250002|ref|ZP_05942579.1| RNA polymerase sigma factor RpoH [Vibrio orientalis CIP 102891] gi|260939506|gb|EEX95491.1| RNA polymerase sigma factor RpoH [Vibrio orientalis CIP 102891] Length = 285 Score = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 107/272 (39%), Positives = 160/272 (58%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSANSYPMLTPEEERDLAERLHYDGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V SEV M RLA ++ + D+ Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAQDATFEMPTDDDE 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + +VY D V E + N L+ ++ L+ R + I +R L +N Sbjct: 191 TGTSYTAPMVYLEDKASDVADHVEASNWEAHTNNRLSLALKSLDDRSQHIVRSRWLDDNK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L+ + VS ER+RQ+E A KK++ ++ Sbjct: 251 STLQELAETYSVSAERIRQLEKNAMKKLKAAV 282 >gi|319775860|ref|YP_004138348.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3047] gi|317450451|emb|CBY86667.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3047] Length = 281 Score = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 111/283 (39%), Positives = 170/283 (60%), Gaps = 14/283 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RLA++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLASFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGADV 179 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERR 241 L +D ++ +Y D E E +N + T + V L+ R + Sbjct: 180 GFDL--PTDDAETETYSPALYLEDKSSNFAAEL-ENENFESQATEQLGVALQSLDARSQD 236 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 237 IIKARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|254673642|emb|CBA09200.1| RNA polymerase sigma-32 factor [Neisseria meningitidis alpha275] Length = 268 Score = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 112/262 (42%), Positives = 167/262 (63%), Gaps = 9/262 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G L +YIH + IPML ++EE LA+R R GDL+AA +L+ SHLR+VV IA Sbjct: 7 LPAIQSGNGSLEQYIHTVNSIPMLSQEEETRLAER-RIKGDLNAAKQLILSHLRVVVSIA 65 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGL ++++ EGNIGLM+AVK+++P RG RL ++++ WIKA + E+ILR+W LV+ Sbjct: 66 RGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVR 125 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR ++ +L N L P++ IA L V SEV+ M R+ G + Sbjct: 126 VATTKPQRKLFFNLRSMRKNL-----NALSPKEAQDIADDLGVKLSEVLEMEQRMTGHDI 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFE 244 NS D++S DWL DHD + + K+ + L +++ L+ R RRI E Sbjct: 181 AIMADNSDDEDSFAPIDWLA-DHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVE 239 Query: 245 ARRLQEN-PVTLENLSSEFEVS 265 +R LQ++ +TL L++E+ VS Sbjct: 240 SRWLQDDGGLTLHQLAAEYGVS 261 >gi|170718627|ref|YP_001783826.1| RNA polymerase factor sigma-32 [Haemophilus somnus 2336] gi|168826756|gb|ACA32127.1| RNA polymerase, sigma 32 subunit, RpoH [Haemophilus somnus 2336] Length = 280 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 105/287 (36%), Positives = 171/287 (59%), Gaps = 12/287 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN++ ++++ + + YIH PML +EE LA+R H DL AA L+ SHLR Sbjct: 1 MNKETQAMMLVPQGSIEGYIHAAYDYPMLTAEEEKELAERLYYHQDLDAAKTLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +D ++V +A +L VS+ +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRLGWFSD-----KEVDMVANELGVSKEDVLEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 G + L D++ + +Y D E E + + +++ L+ Sbjct: 176 TGSDVGFDLPVDDDESYAP----ALYLEDKSSNFAAELENENFETQAADQVANALAELDE 231 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R R I ++R L + TL +L++++ +S ERVRQ+E A KK++ ++ Sbjct: 232 RSRDIIKSRWLDDEKATLHDLAAKYNISAERVRQLETNALKKLKSAV 278 >gi|332969043|gb|EGK08083.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Kingella kingae ATCC 23330] Length = 287 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 119/283 (42%), Positives = 174/283 (61%), Gaps = 8/283 (2%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I +G L +YIH + IPML +EE LA+R + GDL AA +L+ SHLR+VV IA GY Sbjct: 7 IPSGHGSLEQYIHTVNNIPMLSLEEEVGLAER-QIKGDLEAAKKLILSHLRVVVSIARGY 65 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GYGL ++++ EGNIGLM+AVK+++P G RL ++++ WIKA + E+ILR+W LV++ T Sbjct: 66 DGYGLNQADLIQEGNIGLMKAVKRYEPNHGARLFSFAVHWIKAEIHEFILRNWRLVRVAT 125 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 T Q++LFFNLR ++ L A L P++ +IA L V SEV+ M R+ G D L Sbjct: 126 TKPQRKLFFNLRSMRSSLSA-----LSPKEAQSIADDLGVKLSEVMEMEQRMTGRDIGLL 180 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A N D + +WL Q L K + + L +++ L+ R RRI E R Sbjct: 181 ADNNDDDDAAFAPIEWLSDASHEPSQQLERKAHYALQTDGLQAALAQLDERSRRIVETRW 240 Query: 248 LQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 LQ E +TL L++E+ VS ER+RQIE +A +K++ + +Q + Sbjct: 241 LQDEGALTLHELAAEYGVSAERIRQIEVKAMQKLKALLAEQAD 283 >gi|330447179|ref|ZP_08310829.1| alternative sigma factor RpoH [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328491370|dbj|GAA05326.1| alternative sigma factor RpoH [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 286 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 164/273 (60%), Gaps = 8/273 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L YI + + PML + E LA+R D++AA LV SHLR VV IA GY GYGLP Sbjct: 15 SLDSYIQTVNRYPMLTPEREKELAERLHYDDDINAAKALVMSHLRFVVHIARGYSGYGLP 74 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 I++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++ Sbjct: 75 IADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRK 134 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LFFNLR+ K L NN E+V +A++L V EV M RLA + + N D Sbjct: 135 LFFNLRKSKKRLGWF--NN---EEVNMVAEQLGVEPEEVREMESRLAAQDPTFEMQNDDD 189 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + D V + EE + N L+++++ L+ R + I +R L ++ Sbjct: 190 DRDAAPMAPAYFLEDKSSDVALTYEENNWENHANNRLSQALASLDERSQHIVRSRWLDDD 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ + VS ER+RQ+E A KK+++++ Sbjct: 250 KSTLQDLADSYGVSAERIRQLEKNAMKKLKDAV 282 >gi|108757418|ref|YP_634007.1| RNA polymerase sigma-E factor [Myxococcus xanthus DK 1622] gi|108461298|gb|ABF86483.1| RNA polymerase sigma-E factor [Myxococcus xanthus DK 1622] Length = 278 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 111/280 (39%), Positives = 184/280 (65%), Gaps = 9/280 (3%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + E+++ P+L ++EE LA+ Y+E GD++AA+RLV S+LRLVVK+A Y L + ++V Sbjct: 1 MAEVQRHPLLTREEELQLARHYKESGDVNAAYRLVASNLRLVVKLAHEYHRNPLSLLDLV 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 EGNIGLMQAVKK+DPERG +L++Y+ WWI+A + YI+ +W +VK+GTT Q++LFF L Sbjct: 61 QEGNIGLMQAVKKYDPERGVKLSSYAAWWIRAYILRYIMDNWKMVKLGTTEAQRKLFFKL 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA-LINSSDKNS 197 R+ + L A P+ +A++LNV+E +V+ M+ RL DE S++A L N D + Sbjct: 121 RQEQEKLIA-QGFEASPK---LLAERLNVTEQDVVEMDQRLGHDEMSIDAPLGNDDDSRT 176 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 ++ +L + ++ L ++ + R L+ L +ER IFE+R + + P+TL++ Sbjct: 177 TRADRYLPSNSMPADERLGAEQLKALFREKLSEFARTLEGKERFIFESRLVSDEPLTLQD 236 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQV---ELSSSP 294 + ++ VSRER RQIEA ++++ +++Q+ +L +SP Sbjct: 237 IGDKYGVSRERARQIEAALINRMRDFMREQIPDFDLVASP 276 >gi|172087778|ref|YP_205833.2| RNA polymerase, sigma-32 (sigma-H) factor [Vibrio fischeri ES114] gi|197336399|ref|YP_002157235.1| alternative sigma factor RpoH [Vibrio fischeri MJ11] gi|171902364|gb|AAW86945.2| RNA polymerase, sigma-32 (sigma-H) factor [Vibrio fischeri ES114] gi|197317889|gb|ACH67336.1| alternative sigma factor RpoH [Vibrio fischeri MJ11] Length = 286 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 107/287 (37%), Positives = 167/287 (58%), Gaps = 8/287 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+++ S+ V + + Y+ + PML EE LA+R ++ AA L+ SHLR Sbjct: 1 MSKEMYSMAVVSQDSIDSYLRSVNSYPMLTVAEERELAERLHYKEEIEAAKELILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A GY GYGLP+++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARGYSGYGLPLADLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L + +V A+AK L V+ SEV M RL Sbjct: 121 WRIVKVATTKAQRKLFFNLRKNKKRLGWFNNG-----EVEAVAKDLGVAPSEVREMEARL 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A +S D + + Y D Q V EE N L +++ L+ Sbjct: 176 AAQDSTFEAPAEDDDRDMAFTAPVYYLEDKQSDVAYSLEEDNWEDYTNNRLANAIATLDE 235 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I ++R L + TL+ L+ ++VS ER+RQ+E A KK+++++ Sbjct: 236 RSQHIVQSRWLADEKATLQELADTYQVSAERIRQLEKNAMKKLKDAV 282 >gi|227823777|ref|YP_002827750.1| RNA polymerase factor sigma-32 [Sinorhizobium fredii NGR234] gi|227342779|gb|ACP26997.1| RNA polymerase sigma factor, sigma-70 family [Sinorhizobium fredii NGR234] Length = 288 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 106/269 (39%), Positives = 166/269 (61%), Gaps = 3/269 (1%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 R I P LE+ EE+ LA+ +R D A +++ SH+RLV+ +A +R +GLP+ + Sbjct: 9 RLIKIAMDAPYLERDEEHALAEAWRNDHDQEARNKIAMSHMRLVIAMAAKFRSFGLPMGD 68 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +V EG+IGL++A +F+P R R +TY+ WWI+A+MQ+++LR+WS+V+ GT++ QK LFF Sbjct: 69 LVQEGHIGLLEAAARFEPSREVRFSTYATWWIRASMQDFVLRNWSIVRGGTSSAQKALFF 128 Query: 138 NLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDK 195 NLRRL+ L A D L + IA L VS ++V +M+ RL+G D SL A + D Sbjct: 129 NLRRLRARL-AQGDRQLTSLAMHQEIAAALGVSLADVQTMDARLSGNDASLQAPVGHGDS 187 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + D+L D ++ + + + + R L +++ L RE +I ARRL E+ TL Sbjct: 188 DGGARLDFLPSDAPLPDEQVSDMIDGERARRWLQVALTQLTEREMKIIRARRLSEDGATL 247 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESI 284 E L +S+ERVRQIE RA +K++ ++ Sbjct: 248 EELGLALGISKERVRQIETRALEKLRTAL 276 >gi|323699411|ref|ZP_08111323.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio sp. ND132] gi|323459343|gb|EGB15208.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio desulfuricans ND132] Length = 375 Score = 196 bits (499), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 114/278 (41%), Positives = 171/278 (61%), Gaps = 14/278 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR----GY 71 L Y+ EI + PMLE +EEY LAKR +E D AA +LV+SHLRLVVKIAM ++ Sbjct: 95 LQLYLKEIARFPMLEPEEEYALAKRVQEDNDQDAAFKLVSSHLRLVVKIAMDFQRRWMQN 154 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EGN+GL++AV KFDPE+G + + Y+ +WIKA + +YI+ +W +VKIGTT Sbjct: 155 GL---DLIQEGNVGLLKAVTKFDPEKGIKFSYYAAFWIKAYILKYIMDNWRMVKIGTTQT 211 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALI 190 Q++LF+NL + + LQ + P A++++L VSE+E+ M+ RL+ D SLN + Sbjct: 212 QRKLFYNLNKERQRLQTL---GFDP-STEALSERLGVSEAEIDEMDQRLSKNDMSLNTPL 267 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D + + D+L G E+ + + N + + LN +E I + R L + Sbjct: 268 --GDDSDTTRMDFLPSLAPGVEESIANDQIVDLLLNNIREIRASLNDKEVAILDRRLLSD 325 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +PVTL + EF V+RERVRQIEAR K++E + +V Sbjct: 326 DPVTLREIGEEFGVTRERVRQIEARLMAKIREHLTDKV 363 >gi|223041647|ref|ZP_03611844.1| RNA polymerase sigma-32 factor [Actinobacillus minor 202] gi|223017511|gb|EEF15925.1| RNA polymerase sigma-32 factor [Actinobacillus minor 202] Length = 321 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 104/270 (38%), Positives = 163/270 (60%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L +E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 53 LESYIRMANQYPILTADQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 112 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+LR+W +VK+ TT Q++L Sbjct: 113 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLRNWRIVKVATTKAQRKL 172 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A L VSE EV M R+ G + L + D+ Sbjct: 173 FFNLRKNKNRLAWFNE-----EEIKRVAHDLGVSEEEVREMESRMTGQDLGFDLPSGDDE 227 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 + + + D+ +E EE L ++S L+ R + I + R L EN +T Sbjct: 228 DEAYTPSMYLEDNSSNFADELEDEEHTGEATAQLAYALSTLDERSQDIIKTRWLDENKLT 287 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +L++++++S ERVRQ+E A KK++ +I Sbjct: 288 LHDLAAKYQISAERVRQLENAALKKIKNAI 317 >gi|121999080|ref|YP_001003867.1| RNA polymerase sigma-32 subunit RpoH [Halorhodospira halophila SL1] gi|121590485|gb|ABM63065.1| RNA polymerase, sigma 32 subunit, RpoH [Halorhodospira halophila SL1] Length = 287 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 106/268 (39%), Positives = 167/268 (62%), Gaps = 7/268 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 YI + +IP+L+ EEY LA+R + GDL AA +LV SHLR VV +A GYRGYGL + ++ Sbjct: 23 YIQAVSQIPVLDADEEYELARRCQYEGDLDAARQLVLSHLRFVVHVARGYRGYGLALGDL 82 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+FDP+ G RL ++++ WI+A + E+ILR+W +VK+ TT Q++LFFN Sbjct: 83 IQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIRAEIHEFILRNWRIVKVATTKAQRKLFFN 142 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR K L +T E+V A+A+ L V V+ M RL+G D + L++ D+ Sbjct: 143 LRGAKKRLGWMT-----REEVNAVAEDLGVQPETVLEMESRLSGQDLGFDPLVSEEDEEQ 197 Query: 198 SQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 ++ + D ++E + ++ + L +++ L+ R + I AR L+E TL+ Sbjct: 198 ARAPVAYLEDRRFDPAEVVESSDWGTHQDDSLHQALGQLDERSQNILRARWLEEERQTLQ 257 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ + VS ER+RQ+E A K++ ++ Sbjct: 258 ELAERYGVSAERIRQLEKNAISKLRGAV 285 >gi|262273588|ref|ZP_06051402.1| RNA polymerase sigma-32 factor [Grimontia hollisae CIP 101886] gi|262222566|gb|EEY73877.1| RNA polymerase sigma-32 factor [Grimontia hollisae CIP 101886] Length = 287 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 112/276 (40%), Positives = 164/276 (59%), Gaps = 15/276 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ ++ PML EE LA+R DL AA L+ SHLR VV IA GY GYGLPI Sbjct: 16 LDSYLQQVNSYPMLTADEERELAERLHYEEDLDAAKSLILSHLRFVVHIARGYSGYGLPI 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 SDLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L E+V +A++L V +EV M RLA D +A + + Sbjct: 136 FFNLRKSKKRL-----GWFNAEEVNMVAEQLGVDAAEVREMESRLAAQDAGFDAGVGDDE 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEK-----EERKNRRNMLTRSMSVLNPRERRIFEARRL- 248 + + Y D + E+ NRR L ++MS L+ R + I +R L Sbjct: 191 REGGAVAP-VFYLEDKSSDIATNLESQNWEDHTNRR--LAQAMSGLDARSQHIIRSRWLD 247 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +N VTL+ L+ ++VS ER+RQ+E A +K+++++ Sbjct: 248 DDNKVTLQELADHYQVSAERIRQLEKNAMRKLKDAV 283 >gi|240948113|ref|ZP_04752523.1| RNA polymerase factor sigma-32 [Actinobacillus minor NM305] gi|240297593|gb|EER48085.1| RNA polymerase factor sigma-32 [Actinobacillus minor NM305] Length = 321 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 104/270 (38%), Positives = 163/270 (60%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L +E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 53 LESYIRMANQYPILTADQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 112 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+LR+W +VK+ TT Q++L Sbjct: 113 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLRNWRIVKVATTKAQRKL 172 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A L VSE EV M R+ G + L + D+ Sbjct: 173 FFNLRKNKNRLAWFNE-----EEIKRVAHDLGVSEEEVREMESRMTGQDLGFDLPSGDDE 227 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 + + + D+ +E EE L ++S L+ R + I + R L EN +T Sbjct: 228 DEAYTPSMYLEDNSSNFADELEDEEHTGEATAQLAYALSTLDERSQDIIKTRWLDENKLT 287 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +L++++++S ERVRQ+E A KK++ +I Sbjct: 288 LHDLAAKYQISAERVRQLENAALKKIKNAI 317 >gi|300114350|ref|YP_003760925.1| RNA polymerase sigma 32 subunit RpoH [Nitrosococcus watsonii C-113] gi|299540287|gb|ADJ28604.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosococcus watsonii C-113] Length = 287 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 169/271 (62%), Gaps = 13/271 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y IP+L +E LA R R++ DL AA +LV SHLR V++IA GY GYGLP+ Sbjct: 20 LNTYCQNAHSIPVLSADQERSLALRLRQYNDLEAARQLVLSHLRFVIRIARGYNGYGLPL 79 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDPE+G RL ++++ WI+A + E+ILR+W +VK+ TT Q++L Sbjct: 80 ADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHWIRAEIHEFILRNWRIVKVATTKAQRKL 139 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L L ++V +A+ L +S +V+ M RL+ ++ N+ + Sbjct: 140 FFNLRSAKKRL-----GWLNRKEVNEVAQDLGISPKQVMEMEARLSSQDTPFDGTNTEES 194 Query: 196 NSSQWQDWLVYDHD-----GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +S + Y D Q+ L+++E +R L +++ VL+ R R I R LQE Sbjct: 195 ENSLPAP-MAYLADPSADPAQKMELLDQENYYGQR--LRQALEVLDLRSRTIINRRWLQE 251 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N TL L++E+++S ER+RQ+E A KK++ Sbjct: 252 NKSTLHELAAEYQISAERIRQLENNAIKKMR 282 >gi|329123705|ref|ZP_08252265.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus aegyptius ATCC 11116] gi|327469904|gb|EGF15369.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus aegyptius ATCC 11116] Length = 281 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 107/280 (38%), Positives = 168/280 (60%), Gaps = 8/280 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RLA++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLASFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGADV 179 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFE 244 L + + + D +E E +++ L ++ L+ R + I + Sbjct: 180 GFDLPTDDAETETYSPALYLEDKSSNFAAELENENFESQATEQLGAALQSLDARSQDIIK 239 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 240 ARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|283852956|ref|ZP_06370215.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio sp. FW1012B] gi|283571646|gb|EFC19647.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio sp. FW1012B] Length = 342 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 108/279 (38%), Positives = 177/279 (63%), Gaps = 6/279 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI K PML+ +EE LA+R R+ GD AA RL++SHLRLVVKIAM + R + Sbjct: 62 LHLYLREIGKFPMLKPEEEQELARRVRDLGDQKAAFRLISSHLRLVVKIAMDFQRRWMQN 121 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+AV KFDP++G + + Y+ +WIKA + +YI+ +W +VKIGTT Q++ Sbjct: 122 VLDLIQEGNVGLMRAVTKFDPDKGIKFSYYAAYWIKAYILKYIMDNWRMVKIGTTQAQRK 181 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LF+NL + + LQ + P +++ LNV+ES+++ M+ RL+G++ L+ + D Sbjct: 182 LFYNLNKERHRLQTL---GFDP-SASQLSQALNVTESDIVEMDQRLSGND-LSLDMTLGD 236 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 ++S D+L G E++L E + LN +E + + R L ++P T Sbjct: 237 DSTSTRLDFLPALTPGIEEILAGDEISHQLDKHIQTIRPKLNEKELDLLDNRILSDSPAT 296 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 L + +++ ++RERVRQIEAR +K++E + +++E SS Sbjct: 297 LREIGAKYGITRERVRQIEARLLEKLKEHLSRRIEDFSS 335 >gi|226952985|ref|ZP_03823449.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter sp. ATCC 27244] gi|294650567|ref|ZP_06727924.1| RNA polymerase factor sigma-32 [Acinetobacter haemolyticus ATCC 19194] gi|226836306|gb|EEH68689.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter sp. ATCC 27244] gi|292823564|gb|EFF82410.1| RNA polymerase factor sigma-32 [Acinetobacter haemolyticus ATCC 19194] Length = 289 Score = 196 bits (498), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 109/273 (39%), Positives = 162/273 (59%), Gaps = 7/273 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 19 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKLLVMSHLRFVVHIARSYAGYGL 78 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 79 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 138 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + L E+ AIA LNV+ +V+ M RL A D + A + Sbjct: 139 KLFFNLRSLKK-----SSKRLTLEEAQAIANDLNVTAEQVLEMEGRLTAYDAAFEAQGDD 193 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L E+E+ + + L ++M L+ R R I + R L ++ Sbjct: 194 DDDTPHTAPALYLEDNRYDPARLAEEEDYEAQSTAALHQAMDQLDDRSRNILQRRWLDDD 253 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E+ VS ER+RQ+E A +K++ ++ Sbjct: 254 KSTLHELAAEYNVSAERIRQLEKNAMEKIKTAM 286 >gi|145639818|ref|ZP_01795419.1| RNA polymerase sigma factor [Haemophilus influenzae PittII] gi|145271036|gb|EDK10952.1| RNA polymerase sigma factor [Haemophilus influenzae PittII] gi|309750314|gb|ADO80298.1| RNA polymerase sigma-32 factor [Haemophilus influenzae R2866] Length = 281 Score = 196 bits (498), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 106/280 (37%), Positives = 168/280 (60%), Gaps = 8/280 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGADV 179 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFE 244 L + + + D +E E +++ L+ ++ L+ R + I + Sbjct: 180 GFDLPTDDAETETYSPSLYLEDKSSNFAAELENENFESQATEQLSAALQSLDARSQDIIK 239 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 240 ARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|239906748|ref|YP_002953489.1| RNA polymerase sigma factor [Desulfovibrio magneticus RS-1] gi|239796614|dbj|BAH75603.1| RNA polymerase sigma factor [Desulfovibrio magneticus RS-1] Length = 348 Score = 196 bits (498), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 107/279 (38%), Positives = 178/279 (63%), Gaps = 6/279 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI K PML+ +EE LA+R R+ D AA RL++SHLRLVVKIAM + R + Sbjct: 68 LQLYLREIGKFPMLKPEEEQELARRVRDANDQKAAFRLISSHLRLVVKIAMDFQRRWMQN 127 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+AV KFDP++G + + Y+ +WIKA + +YI+ +W +VKIGTT Q++ Sbjct: 128 VLDLIQEGNVGLMRAVTKFDPDKGIKFSYYAAYWIKAYILKYIMDNWRMVKIGTTQAQRK 187 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LF+NL + + LQ++ P +++ LNV+ES+++ M+ RL+G++ L+ ++ D Sbjct: 188 LFYNLNKERQRLQSL---GFDP-SAAQLSQALNVTESDIVEMDQRLSGND-LSLDVSLGD 242 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 +S D+L G E++L E + LN +E + + R L ++PVT Sbjct: 243 DTTSTRLDFLPALTPGIEEILAGDEISHQLDKHIQSIRPKLNEKEIELLDNRILSDSPVT 302 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 L + +++ ++RERVRQIE+R +K+++ + K++E SS Sbjct: 303 LREIGAKYGITRERVRQIESRLLEKLKDHLSKRIEDFSS 341 >gi|262372449|ref|ZP_06065728.1| alternative sigma factor RpoH [Acinetobacter junii SH205] gi|262312474|gb|EEY93559.1| alternative sigma factor RpoH [Acinetobacter junii SH205] Length = 289 Score = 196 bits (498), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 109/270 (40%), Positives = 161/270 (59%), Gaps = 7/270 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 19 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKLLVMSHLRFVVHIARSYAGYGL 78 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 79 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 138 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + L E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 139 KLFFNLRSLKK-----SSKRLTLEEAQSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 193 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ LIE+E+ + + + L +M L+ R R I + R L ++ Sbjct: 194 DDDTPHTAPALYLEDNRYDPARLIEEEDYEEQSTSALHEAMDQLDDRSRNILQRRWLDDD 253 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 254 KSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|332289156|ref|YP_004420008.1| RNA polymerase factor sigma-32 [Gallibacterium anatis UMN179] gi|330432052|gb|AEC17111.1| RNA polymerase factor sigma-32 [Gallibacterium anatis UMN179] Length = 281 Score = 196 bits (498), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 109/285 (38%), Positives = 168/285 (58%), Gaps = 15/285 (5%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +NM ++ G L YI + PML +EE LA+R H D+ AA +L+ SHLR V+ Sbjct: 6 QNMMLVPQG--SLEGYIRAANEYPMLTAEEEKELAERLYYHQDVDAAKKLILSHLRFVIH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA GY GYGLP ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 64 IARGYSGYGLPQADLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 VK+ TT Q++LFFNLR+ K L N +V +A +L VS +V M R++G Sbjct: 124 VKVATTKAQRKLFFNLRKTKQRLGWFNAN-----EVDMVANELGVSAEDVQEMESRMSGI 178 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRE 239 D + + + S++ S +Y D E EE + L+ ++ L+ R Sbjct: 179 DMAFDLPTDDSEETYSP----ALYLEDKSSNFAAELEEENFENQATDQLSEALEQLDERS 234 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R I + R L +N TL+ L+ + VS ER+RQ+E+ A KK++ ++ Sbjct: 235 RHIIQTRWLDDNKATLQELADHYGVSAERIRQLESNALKKLRNAV 279 >gi|209696299|ref|YP_002264230.1| RNA polymerase factor sigma-32 [Aliivibrio salmonicida LFI1238] gi|208010253|emb|CAQ80584.1| RNA polymerase sigma-32 factor [Aliivibrio salmonicida LFI1238] Length = 286 Score = 196 bits (497), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 106/287 (36%), Positives = 169/287 (58%), Gaps = 8/287 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+++ S+ V + + Y+ + + PML ++E LA+R ++ AA L+ SHLR Sbjct: 1 MSKEMYSMAVVSQDSIDSYLRSVNRYPMLTVEKERDLAERLHYKEEIEAAKELILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A GY GYGLP+++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARGYSGYGLPLADLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L + +V A+AK L VS SEV M RL Sbjct: 121 WRIVKVATTKAQRKLFFNLRKNKKRLGWFNNG-----EVEAVAKDLGVSPSEVREMESRL 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A +S D + + Y D Q + EE N L +++ L+ Sbjct: 176 AAQDSTFEAPTEDDDRDMAFTAPVYYLEDKQSDIAHSLEEDNWEDYTNNRLANAIATLDD 235 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I ++R L + TL+ L++ + VS ER+RQ+E A KK+++++ Sbjct: 236 RSQHIVQSRWLTDEKTTLQELANTYSVSAERIRQLEKNAMKKLKDAV 282 >gi|293609550|ref|ZP_06691852.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292828002|gb|EFF86365.1| conserved hypothetical protein [Acinetobacter sp. SH024] Length = 288 Score = 196 bits (497), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 162/273 (59%), Gaps = 7/273 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + +T E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 138 KLFFNLRSLKKSSKKLT-----LEEAQSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M L+ R R I + R L ++ Sbjct: 193 DDDTPHTAPALYLEDNRYDPARLVENEDWEEQSTSALHDAMDQLDDRSRNILQRRWLDDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E+ VS ER+RQ+E A +K++ ++ Sbjct: 253 KSTLHELAAEYNVSAERIRQLEKNAMEKIKTAM 285 >gi|27364575|ref|NP_760103.1| RNA polymerase factor sigma-32 [Vibrio vulnificus CMCP6] gi|37678299|ref|NP_932908.1| RNA polymerase factor sigma-32 [Vibrio vulnificus YJ016] gi|320154977|ref|YP_004187356.1| RNA polymerase sigma factor RpoH [Vibrio vulnificus MO6-24/O] gi|29611852|sp|Q8DD54|RP32_VIBVU RecName: Full=RNA polymerase sigma-32 factor gi|27360694|gb|AAO09630.1| alternative sigma factor RpoH [Vibrio vulnificus CMCP6] gi|37197038|dbj|BAC92879.1| RNA polymerase sigma-32 factor [Vibrio vulnificus YJ016] gi|319930289|gb|ADV85153.1| RNA polymerase sigma factor RpoH [Vibrio vulnificus MO6-24/O] Length = 285 Score = 196 bits (497), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 109/272 (40%), Positives = 163/272 (59%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDGYIRSVNSYPMLTADEERDLAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V +EV M RLA +S L N D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPAEVREMESRLAAVDSTFDLPNEEDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQENP 252 +SS ++Y D V E + + N L +++ L+ R + I +R L ++ Sbjct: 191 SSSVSTAPVLYLEDKSSDVADNLEAQNWEAHTNNRLAMALASLDERSQHIVRSRWLDDDK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ + VS ER+RQ+E A KK++ ++ Sbjct: 251 ATLQDLAEMYGVSAERIRQLEKNAMKKLKMAV 282 >gi|126728120|ref|ZP_01743936.1| RNA polymerase sigma-32 factor [Sagittula stellata E-37] gi|126711085|gb|EBA10135.1| RNA polymerase sigma-32 factor [Sagittula stellata E-37] Length = 277 Score = 196 bits (497), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 105/269 (39%), Positives = 173/269 (64%), Gaps = 8/269 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D +A HRL+ +++RL + +A ++ YG P+++++ E + Sbjct: 2 KAELLDAETELRLAYAWRDEKDEAALHRLIQAYMRLAISMAAKFKRYGAPMNDLIQEAGL 61 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 62 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKALFFNMRRVQA 121 Query: 145 HL----QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSS 198 L QAI L Q+ IA ++ V +V M RL+G D SLNA S + Sbjct: 122 RLEREAQAIG-AQLDSHQLRHMIASEIGVPLRDVEMMEGRLSGSDFSLNA-TQSVEDEGR 179 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 +W D L D +++ + + R+ L ++M LN RER I R+L++ P TLE+L Sbjct: 180 EWIDTLEDDSAHGAEIVENSHDTECLRDWLVQAMGSLNERERFIVRERKLRDEPRTLESL 239 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E +S+ERVRQ+EA AF K++++++ Q Sbjct: 240 GNELGLSKERVRQLEAAAFGKMRKALEAQ 268 >gi|145631055|ref|ZP_01786830.1| RNA polymerase factor sigma-32 [Haemophilus influenzae R3021] gi|148827424|ref|YP_001292177.1| RNA polymerase factor sigma-32 [Haemophilus influenzae PittGG] gi|144983340|gb|EDJ90822.1| RNA polymerase factor sigma-32 [Haemophilus influenzae R3021] gi|148718666|gb|ABQ99793.1| RNA polymerase sigma factor [Haemophilus influenzae PittGG] gi|301168923|emb|CBW28517.1| RNA polymerase, sigma 32 (sigma H) factor [Haemophilus influenzae 10810] Length = 281 Score = 196 bits (497), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 106/280 (37%), Positives = 168/280 (60%), Gaps = 8/280 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGADV 179 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFE 244 L + + + D +E E +++ L+ ++ L+ R + I + Sbjct: 180 GFDLPTDDAETETYSPALYLEDKSSNFAAELENENFESQATEQLSAALQSLDARSQDIIK 239 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 240 ARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|113461681|ref|YP_719750.1| RNA polymerase factor sigma-32 [Haemophilus somnus 129PT] gi|112823724|gb|ABI25813.1| RNA polymerase, sigma 32 subunit, RpoH [Haemophilus somnus 129PT] Length = 280 Score = 195 bits (496), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 104/287 (36%), Positives = 171/287 (59%), Gaps = 12/287 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN++ ++++ + + YIH PML +EE LA+R H DL AA L+ SHLR Sbjct: 1 MNKETQAMMLVPQGSIEGYIHAAYDYPMLTAEEEKELAERLYYHQDLDAAKTLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +D ++V +A +L VS+ +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRLGWFSD-----KEVDMVANELGVSKEDVLEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 G + L D++ + +Y D E E + + +++ L+ Sbjct: 176 TGSDVGFDLPVDDDESYAP----ALYLEDKSSNFAAELENENFETQAADQVANALAELDE 231 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I ++R L + TL +L++++ +S ERVRQ+E A KK++ ++ Sbjct: 232 RSQDIIKSRWLDDEKATLHDLAAKYNISAERVRQLETNALKKLKSAV 278 >gi|154707560|ref|YP_001423635.1| RNA polymerase factor sigma-32 [Coxiella burnetii Dugway 5J108-111] gi|154356846|gb|ABS78308.1| RNA polymerase sigma-32 factor [Coxiella burnetii Dugway 5J108-111] Length = 288 Score = 195 bits (496), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 109/277 (39%), Positives = 169/277 (61%), Gaps = 11/277 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G IG YI + +IP+L +EE+ LA ++R+ DL AA +LV SHLR VV+IA GY GY Sbjct: 16 GSIG--SYISWVNRIPLLSAEEEHDLANKFRQSNDLEAARKLVLSHLRFVVRIARGYSGY 73 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL ++++ EGNIGLM+AVK+FDP+ G RLA++++ WI+A + E+IL++W +VKI TT Sbjct: 74 GLSQADLIQEGNIGLMKAVKRFDPQVGVRLASFAVHWIRAEIHEFILKNWRIVKIATTKA 133 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALI 190 Q++LFFNLR+ +D+ + A+A++LNVS +V M RL + DE+ + Sbjct: 134 QRKLFFNLRKHAKKRGWFSDH-----EAFALAEELNVSTKDVRQMEERLNSYDEAFDGAD 188 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRRNMLTRSMSVLNPRERRIFEARR 247 SD + W Y D + ++ E ++ + L +M L+ R R I R Sbjct: 189 EESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHRLHNAMQSLDDRSRDILYQRW 248 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L E TL L++++ VS ER+RQ+E A +K++ ++ Sbjct: 249 LSEKKSTLHELAAQYAVSAERIRQLEKNAMQKIRTAM 285 >gi|325122820|gb|ADY82343.1| RNA polymerase factor sigma-32 [Acinetobacter calcoaceticus PHEA-2] Length = 276 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 162/273 (59%), Gaps = 7/273 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 6 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 65 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 66 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 125 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + +T E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 126 KLFFNLRSLKKSSKKLT-----LEEAQSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 180 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M L+ R R I + R L ++ Sbjct: 181 DDDTPHTAPALYLEDNRYDPARLVENEDWEEQSTSALHDAMDQLDDRSRNILQRRWLDDD 240 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E+ VS ER+RQ+E A +K++ ++ Sbjct: 241 KSTLHELAAEYNVSAERIRQLEKNAMEKIKTAM 273 >gi|145637130|ref|ZP_01792792.1| RNA polymerase sigma factor [Haemophilus influenzae PittHH] gi|145640200|ref|ZP_01795784.1| RNA polymerase sigma factor [Haemophilus influenzae R3021] gi|229846357|ref|ZP_04466465.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 7P49H1] gi|145269575|gb|EDK09516.1| RNA polymerase sigma factor [Haemophilus influenzae PittHH] gi|145274786|gb|EDK14648.1| RNA polymerase sigma factor [Haemophilus influenzae 22.4-21] gi|229810450|gb|EEP46168.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 7P49H1] gi|309972570|gb|ADO95771.1| RNA polymerase sigma-32 factor [Haemophilus influenzae R2846] Length = 281 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 106/280 (37%), Positives = 167/280 (59%), Gaps = 8/280 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGADV 179 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFE 244 L + + + D +E E +++ L ++ L+ R + I + Sbjct: 180 GFDLPTDDAETETYSPALYLEDKSSNFAAALENENFESQATEQLGAALQSLDARSQDIIK 239 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 240 ARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|299769389|ref|YP_003731415.1| RNA polymerase factor sigma-32 [Acinetobacter sp. DR1] gi|298699477|gb|ADI90042.1| RNA polymerase factor sigma-32 [Acinetobacter sp. DR1] Length = 288 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 159/270 (58%), Gaps = 7/270 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + L E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 138 KLFFNLRSLKK-----SSKKLTLEEAQSIANDLNVTAEQVLEMEGRLTAYDAAFEAQGDD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M L+ R R I + R L ++ Sbjct: 193 DDDTPHTAPALYLEDNRYDPARLVENEDWEEQSTSALHDAMDQLDDRSRNILQRRWLDDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 KSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|89076088|ref|ZP_01162448.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] gi|89048240|gb|EAR53822.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] Length = 286 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 105/273 (38%), Positives = 165/273 (60%), Gaps = 8/273 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L YI + + PML + E LA+R D+++A LV SHLR VV IA GY GYGLP Sbjct: 15 SLDSYIQTVNRYPMLTPEREKELAERLHYDDDINSAKALVMSHLRFVVHIARGYSGYGLP 74 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 I++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++ Sbjct: 75 IADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRK 134 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LFFNLR+ K L + ++V +A++L V S+V M RLA + + N D Sbjct: 135 LFFNLRKSKKRLGWFNN-----DEVNMVAEQLGVEPSDVREMESRLAAQDPTFEMQNDDD 189 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + Y D V + EE + N L+++++ L+ R + I +R L + Sbjct: 190 ERDTTPVAPAYYLEDKSSDVALTYEENNWENHANNRLSQALASLDERSQHIVRSRWLDDE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L++ + VS ER+RQ+E A KK+++++ Sbjct: 250 KSTLQDLANNYGVSAERIRQLEKNAMKKLKDAV 282 >gi|262278444|ref|ZP_06056229.1| EsvH [Acinetobacter calcoaceticus RUH2202] gi|262258795|gb|EEY77528.1| EsvH [Acinetobacter calcoaceticus RUH2202] Length = 288 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 160/270 (59%), Gaps = 7/270 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + +T E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 138 KLFFNLRSLKKSSKKLT-----LEEAQSIANDLNVTAEQVLEMEGRLTAYDAAFEAQGDD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M L+ R R I + R L ++ Sbjct: 193 DDDTPHTAPALYLEDNRYDPARLVENEDWEEQSTSALHNAMDQLDDRSRNILQRRWLDDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 KSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|145628599|ref|ZP_01784399.1| RNA polymerase sigma factor [Haemophilus influenzae 22.1-21] gi|145632513|ref|ZP_01788247.1| RNA polymerase sigma factor [Haemophilus influenzae 3655] gi|148825451|ref|YP_001290204.1| RNA polymerase factor sigma-32 [Haemophilus influenzae PittEE] gi|144979069|gb|EDJ88755.1| RNA polymerase sigma factor [Haemophilus influenzae 22.1-21] gi|144986708|gb|EDJ93260.1| RNA polymerase sigma factor [Haemophilus influenzae 3655] gi|148715611|gb|ABQ97821.1| RNA polymerase sigma factor [Haemophilus influenzae PittEE] Length = 281 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 110/283 (38%), Positives = 170/283 (60%), Gaps = 14/283 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGAD- 178 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERR 241 + + + D + + L Y D E E +N + T + V L+ R + Sbjct: 179 VGFDLPTDDAETETYSPSL-YLEDKSSNFAAEL-ENENFESQATEQLGVALQSLDARSQD 236 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 237 IIKARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|260582846|ref|ZP_05850631.1| alternative sigma factor RpoH [Haemophilus influenzae NT127] gi|260094059|gb|EEW77962.1| alternative sigma factor RpoH [Haemophilus influenzae NT127] Length = 281 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 110/283 (38%), Positives = 170/283 (60%), Gaps = 14/283 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGAD- 178 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERR 241 + + + D + + L Y D E E +N + T + V L+ R + Sbjct: 179 VGFDLPTDDAETETYSPSL-YLEDKSSNFAAEL-ENENFESQATEQLGVALQSLDARSQD 236 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 237 IIKARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|114770145|ref|ZP_01447683.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] gi|114548982|gb|EAU51865.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] Length = 294 Score = 195 bits (496), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 98/263 (37%), Positives = 174/263 (66%), Gaps = 6/263 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K ML+ EY LA +R+H D A HRL+ +++RL + +A +R YG+ +++ E + Sbjct: 17 KAEMLDVDTEYKLAIAWRDHKDEDALHRLINAYMRLAISMASKFRRYGVSQQDLIQEAGM 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP++G R +TY+ WW+KA++Q++++R++S+V+ G+T NQK LFFN++R+K Sbjct: 77 GLMKAADKFDPDKGVRFSTYAQWWVKASIQDFVMRNYSMVRTGSTTNQKSLFFNIKRVKA 136 Query: 145 HLQ--AITDN-NLKPEQVV-AIAKKLNVSESEVISMNCRLA-GDESLNALINSSDKNSSQ 199 L+ A+ +N + P Q++ ++ +L V +V+ MN R++ GD SLNA I S+D + Sbjct: 137 QLERDAVQNNQTVTPAQILEQVSTELGVPMRDVMMMNGRMSGGDMSLNA-IQSNDDEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W + L + G +++ + + + + + +SM VLN RE+ I R++ ++P TLE++ Sbjct: 196 WIETLADEAPGGAEIVEQSFDEEKLKIWIGQSMEVLNEREKYIVIQRKMIDSPRTLESIG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQE 282 E ++S+ER+RQIE A +K+++ Sbjct: 256 VELKLSKERIRQIENAALEKLKK 278 >gi|83953376|ref|ZP_00962098.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83842344|gb|EAP81512.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] Length = 295 Score = 195 bits (495), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 106/287 (36%), Positives = 179/287 (62%), Gaps = 9/287 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M++ + E L+R K +L+ + E LA +R+ D A HRL+T+++RL + +A Sbjct: 4 MTLAQSREFSLTRTAM---KAELLDAETELKLAYAWRDERDEEALHRLITAYMRLAISMA 60 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 ++ YG +++++ E +GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ Sbjct: 61 GKFKRYGASMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVR 120 Query: 126 IGTTANQKRLFFNLRRLKGHL----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 G+T++QK LFFN+RR++ L QA + K + I+ ++ V +V M RL+ Sbjct: 121 TGSTSSQKSLFFNMRRVQARLEREAQAAGETLDKHQLRQMISTEIGVPMHDVEMMEGRLS 180 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 G D SLNA S++ +W D LV D + + E + R+ L +M LN RE+ Sbjct: 181 GSDFSLNA-TQSAEDEGREWIDALVDDSAQAAERIEESHDTLTLRSWLLSAMQALNEREQ 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 I R+L++ P TLE+L +E +S+ERVRQ+EA AF K++++++ Q Sbjct: 240 FIVRERKLRDQPRTLESLGAELSLSKERVRQLEAAAFGKMRKTLETQ 286 >gi|86139299|ref|ZP_01057869.1| RNA polymerase sigma factor [Roseobacter sp. MED193] gi|85824143|gb|EAQ44348.1| RNA polymerase sigma factor [Roseobacter sp. MED193] Length = 292 Score = 195 bits (495), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 104/266 (39%), Positives = 173/266 (65%), Gaps = 8/266 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K ML+ + E LA +R+H D+ A HRL +++RL + +A+ ++ YG P+++++ E + Sbjct: 17 KAEMLDAETEKRLAYAWRDHRDVEALHRLTNAYMRLAISMAVKFKRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAIWWIKASVQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQT 136 Query: 145 HLQAITD---NNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ + L Q+ IA ++ V +V M+ RL+G D SLNA S++ + Sbjct: 137 QLERQANAQGQRLDKHQLHQQIASEIGVPIRDVEMMDGRLSGADFSLNA-ARSTEAEGQE 195 Query: 200 WQDWLVYDHDGQEQVLIEK-EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 W + ++ D Q L+E+ + + R L +M L+ RE+RI AR+L P TLE L Sbjct: 196 WIE-ILEDDSAQAAELVERSHDHRKLRKWLVEAMQGLSGREQRIVVARKLSNPPRTLEAL 254 Query: 259 SSEFEVSRERVRQIEARAFKKVQESI 284 E +S+ERVRQ+EA AF+K+++++ Sbjct: 255 GRELSLSKERVRQLEAGAFQKMRKTL 280 >gi|260550924|ref|ZP_05825130.1| alternative sigma factor RpoH [Acinetobacter sp. RUH2624] gi|260406051|gb|EEW99537.1| alternative sigma factor RpoH [Acinetobacter sp. RUH2624] Length = 288 Score = 195 bits (495), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 160/270 (59%), Gaps = 7/270 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + +T E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 138 KLFFNLRSLKKSSKKLT-----LEEAQSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M L+ R R I + R L ++ Sbjct: 193 DDDTPHTAPALYLEDNRYDPARLVENEDWEEQSTSALHDAMDQLDDRSRNILQRRWLDDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 KSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|188583534|ref|YP_001926979.1| RNA polymerase factor sigma-32 [Methylobacterium populi BJ001] gi|179347032|gb|ACB82444.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium populi BJ001] Length = 290 Score = 195 bits (495), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 110/270 (40%), Positives = 175/270 (64%), Gaps = 1/270 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 +I + P L ++EE LA ++E D A HRL+++H+RLV+ +A +R YGLP++++ Sbjct: 11 FIRTAMEAPFLAREEERGLAVAWKEARDERALHRLISAHMRLVIALAGRFRHYGLPMADL 70 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EG++GLM+A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFN Sbjct: 71 VQEGHVGLMEAAARFEPERDVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFN 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LRRL+ L T+ + E IA + VS +V M+ RL+G D SLNA + + S Sbjct: 131 LRRLRARLMQSTEEQVGSEIHGRIASAIGVSREDVALMDARLSGPDMSLNAPVGEESEAS 190 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 S+ D+LV + ++ + + + R L ++++VL+ RE RI RRL E+ TLE Sbjct: 191 SERMDFLVDNAALPDETVSALVDGERRLVWLRQALTVLSERELRILRERRLAEDQATLEA 250 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L +S+ERVRQIE RA +K++ ++ ++ Sbjct: 251 LGHRLGISKERVRQIENRALEKLRRALAEK 280 >gi|258622821|ref|ZP_05717838.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM573] gi|258584882|gb|EEW09614.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM573] Length = 286 Score = 195 bits (495), Expect = 8e-48, Method: Compositional matrix adjust. Identities = 110/274 (40%), Positives = 164/274 (59%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R GD+ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNGYPMLSADEERELAERLHYKGDIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V SEV M RLA ++ + D+ Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAQDAAFEMSAEDDE 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERRIFEARRL-QE 250 N + ++Y D L + E +N T+ +S+ L+ R + I AR L + Sbjct: 191 NGMAYTAPVLYLEDKHSD-LADNLEAENWEAHTTQRLSMALASLDERSQHIVRARWLDDD 249 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N TL++L+ + VS ER+RQ+E A +K++E++ Sbjct: 250 NKTTLQDLAEMYGVSAERIRQLEKNAMRKLKEAV 283 >gi|153840380|ref|ZP_01993047.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AQ3810] gi|149745954|gb|EDM57084.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AQ3810] Length = 274 Score = 195 bits (495), Expect = 8e-48, Method: Compositional matrix adjust. Identities = 107/262 (40%), Positives = 156/262 (59%), Gaps = 9/262 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTADEERELAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V +A++L V SEV M RLA D + + + D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAVDSTFDMPTDDDD 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +S + ++Y D V E + N L +++ L+ R +RI +R L + Sbjct: 191 SATSSYTAPMLYLEDKSSDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLDDE 250 Query: 252 PVTLENLSSEFEVSRERVRQIE 273 TL++L+ EF VS ER+RQ+E Sbjct: 251 KATLQDLADEFGVSAERIRQLE 272 >gi|83944334|ref|ZP_00956789.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] gi|83844878|gb|EAP82760.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] Length = 295 Score = 195 bits (495), Expect = 8e-48, Method: Compositional matrix adjust. Identities = 106/287 (36%), Positives = 179/287 (62%), Gaps = 9/287 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M++ + E L+R K +L+ + E LA +R+ D A HRL+T+++RL + +A Sbjct: 4 MTLAQSREFSLTRTAM---KAELLDAETELKLAYAWRDERDEEALHRLITAYMRLAISMA 60 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 ++ YG +++++ E +GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ Sbjct: 61 GKFKRYGASMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVR 120 Query: 126 IGTTANQKRLFFNLRRLKGHL----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 G+T++QK LFFN+RR++ L QA + K + I+ ++ V +V M RL+ Sbjct: 121 TGSTSSQKSLFFNMRRVQARLEREAQAAGETLDKHQLRQMISTEIGVPMHDVEMMEGRLS 180 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 G D SLNA S++ +W D LV D + + E + R+ L +M LN RE+ Sbjct: 181 GSDFSLNA-TQSAEDEGREWIDALVDDSAQAAERVEESHDTLTLRSWLLSAMQALNEREQ 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 I R+L++ P TLE+L +E +S+ERVRQ+EA AF K++++++ Q Sbjct: 240 FIVRERKLRDQPRTLESLGAELSLSKERVRQLEAAAFGKMRKTLETQ 286 >gi|301155494|emb|CBW14960.1| RNA polymerase, sigma 32 (sigma H) factor [Haemophilus parainfluenzae T3T1] Length = 280 Score = 194 bits (494), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 108/287 (37%), Positives = 173/287 (60%), Gaps = 10/287 (3%) Query: 1 MNRKN-MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 MN++ M ++ G I YI + PML +EE LA+R GD+ AA +LV SHLR Sbjct: 1 MNKETQMMLVPQGSI--EGYIRAANEYPMLTAEEEKSLAERLYYDGDIEAAKKLVLSHLR 58 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR Sbjct: 59 FVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLR 118 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 +W +VK+ TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R Sbjct: 119 NWRIVKVATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESR 173 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPR 238 + G + + + + D + + + D +E E + + L +++ L+ R Sbjct: 174 MTGAD-VGFDLPTDDDDEAYVPSLYLEDKSSNFAAELESENFEEQATEKLGTALANLDER 232 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I +AR L + TL +L++++ VS ER+RQ+EA A KK++ ++ Sbjct: 233 SQEIIKARWLDDEKATLHDLAAKYNVSAERIRQLEANALKKLKSAVD 279 >gi|229844972|ref|ZP_04465109.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 6P18H1] gi|229812106|gb|EEP47798.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 6P18H1] Length = 281 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 110/283 (38%), Positives = 170/283 (60%), Gaps = 14/283 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGAD- 178 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERR 241 + + + D + + L Y D E E +N + T + V L+ R + Sbjct: 179 VGFDLPTDDAETETYSPSL-YLEDKSSNFAAEL-ENENFESQATEQLGVALQSLDVRSQD 236 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 237 IIKARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|332703233|ref|ZP_08423321.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio africanus str. Walvis Bay] gi|332553382|gb|EGJ50426.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio africanus str. Walvis Bay] Length = 398 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 110/276 (39%), Positives = 172/276 (62%), Gaps = 8/276 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI + P+L+ +EE LA+R R+ GD AA RLVTSHLRLVVKIAM + R + Sbjct: 118 LHMYMQEISRFPILKPEEEVELARRVRDTGDQDAAFRLVTSHLRLVVKIAMDFQRRWMQN 177 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++V EGN+GLM+AV+KFDPE+G + + Y+ +WIKA + ++I+ +W +VKIGTT Q++ Sbjct: 178 VLDLVQEGNVGLMRAVQKFDPEKGIKFSYYAAFWIKAYILKFIMDNWRMVKIGTTQTQRK 237 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSS 193 LF+NL + + LQ+ P ++K L VS ++ M+ RL+ D SL+ I Sbjct: 238 LFYNLNKERQRLQS---QGFDPTSST-LSKSLGVSVEDIEEMDQRLSRSDMSLDITIG-- 291 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D ++ D+L G E+ L E R L + +L+ +E+ I + R L ++PV Sbjct: 292 DDTTATRMDFLPALGPGIEETLANSEISALLREHLASIVPMLSDKEQDILQKRLLSDSPV 351 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 TL + ++ ++RERVRQIEAR +K++E + ++E Sbjct: 352 TLREIGDQYGITRERVRQIEARLLQKIREHLTDKIE 387 >gi|260913469|ref|ZP_05919947.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Pasteurella dagmatis ATCC 43325] gi|260632409|gb|EEX50582.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Pasteurella dagmatis ATCC 43325] Length = 281 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 108/289 (37%), Positives = 174/289 (60%), Gaps = 15/289 (5%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN++ ++++ + L YI + PML +EE LA+R DL AA +L+ SHLR Sbjct: 1 MNKETQTMMLVPQGSLEGYIRAANEYPMLTAEEEKELAERLYYQEDLEAAKKLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +N +V +A +L V+ +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRLGWFNEN-----EVEMVANELGVTPEDVMEMESRM 175 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----L 235 G D + + + S++ S +Y D E E+ +N T +SV L Sbjct: 176 TGSDVAFDLPTDDSEETYSP----ALYLEDKGSNFAAELED-ENYETQATEQLSVALEGL 230 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + R I ++R L +N TL++L++++ +S ERVRQ+E A KK++ ++ Sbjct: 231 DERSLDIIKSRWLDDNKATLQDLAAKYNISAERVRQLETNALKKLKSAV 279 >gi|84515923|ref|ZP_01003284.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] gi|84510365|gb|EAQ06821.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] Length = 277 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 102/268 (38%), Positives = 174/268 (64%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + +L+ + E LA +R+ D A HRL+T+++RL + +A ++ YG P+++++ E ++ Sbjct: 2 RAELLDAETELRLAYAWRDQRDEEALHRLITAYMRLAISMASKFKRYGAPMNDLIQEASV 61 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 62 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 121 Query: 145 HLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ A +L+ ++ IA ++ V +V M+ RL+G D SLNA S + + Sbjct: 122 RLEREAAAEGLHLETHELHEKIAIEVGVPLHDVQMMDGRLSGSDFSLNA-TQSMEDEGRE 180 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D + + + R L +++ LN RE+ I R+L+++P TLE+L Sbjct: 181 WIDALEDDAPQAAEKVENSHDTDTLRQWLVTALTALNDREQFIVRERKLRDDPRTLESLG 240 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 SE +S+ERVRQ+EA AF K+++S++ Q Sbjct: 241 SELGLSKERVRQLEAAAFGKMRKSLEAQ 268 >gi|325579283|ref|ZP_08149239.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus parainfluenzae ATCC 33392] gi|325159518|gb|EGC71652.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus parainfluenzae ATCC 33392] Length = 293 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 108/287 (37%), Positives = 173/287 (60%), Gaps = 10/287 (3%) Query: 1 MNRKN-MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 MN++ M ++ G I YI + PML +EE LA+R GD+ AA +LV SHLR Sbjct: 14 MNKETQMMLVPQGSI--EAYIRAANEYPMLTAEEEKSLAERLYYDGDIEAAKKLVLSHLR 71 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR Sbjct: 72 FVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLR 131 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 +W +VK+ TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R Sbjct: 132 NWRIVKVATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESR 186 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPR 238 + G + + + + D + + + D +E E + + L +++ L+ R Sbjct: 187 MTGAD-VGFDLPTDDDDEAYVPSLYLEDKSSNFAAELESENFEEQATEKLGTALANLDER 245 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I +AR L + TL +L++++ VS ER+RQ+EA A KK++ ++ Sbjct: 246 SQDIIKARWLDDEKATLHDLAAKYNVSAERIRQLEANALKKLKSAVD 292 >gi|52424080|ref|YP_087217.1| RNA polymerase factor sigma-32 [Mannheimia succiniciproducens MBEL55E] gi|52306132|gb|AAU36632.1| RpoD protein [Mannheimia succiniciproducens MBEL55E] Length = 282 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 103/285 (36%), Positives = 168/285 (58%), Gaps = 6/285 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++++ + + YI + PML +EE LA+R DL AA +L+ SHLR Sbjct: 1 MTKETQTMMLVPQGSIEAYIRAANEYPMLSAEEEKELAERLYYQEDLEAAKKLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +DN L +A +L V++ +VI M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRLGWFSDNELD-----LVANELGVTKEDVIEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR-NMLTRSMSVLNPRE 239 G + L + + + D +E E + + + L+ +M L+ R Sbjct: 176 TGADVGFDLPTDDSEEETFAPSMYLEDKSSNFAAELESENFETQAIDQLSNAMENLDERS 235 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + I +AR L + TL L++++ +S ERVRQ+E A KK++ ++ Sbjct: 236 KDIIQARWLDDTKATLHELAAKYNISAERVRQLETNALKKLKSAV 280 >gi|169632997|ref|YP_001706733.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii SDF] gi|169795347|ref|YP_001713140.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AYE] gi|184158784|ref|YP_001847123.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii ACICU] gi|213158666|ref|YP_002319964.1| alternative sigma factor RpoH (EsvH) [Acinetobacter baumannii AB0057] gi|215482881|ref|YP_002325084.1| alternative sigma factor RpoH [Acinetobacter baumannii AB307-0294] gi|239502880|ref|ZP_04662190.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB900] gi|301346949|ref|ZP_07227690.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB056] gi|301513493|ref|ZP_07238730.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB058] gi|301596794|ref|ZP_07241802.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB059] gi|332850459|ref|ZP_08432779.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013150] gi|332871911|ref|ZP_08440323.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013113] gi|169148274|emb|CAM86139.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter baumannii AYE] gi|169151789|emb|CAP00610.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter baumannii] gi|183210378|gb|ACC57776.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Acinetobacter baumannii ACICU] gi|193077812|gb|ABO12685.2| EsvH [Acinetobacter baumannii ATCC 17978] gi|213057826|gb|ACJ42728.1| alternative sigma factor RpoH (EsvH) [Acinetobacter baumannii AB0057] gi|213986534|gb|ACJ56833.1| alternative sigma factor RpoH [Acinetobacter baumannii AB307-0294] gi|322507403|gb|ADX02857.1| rpoH [Acinetobacter baumannii 1656-2] gi|323518699|gb|ADX93080.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii TCDC-AB0715] gi|332730730|gb|EGJ62041.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013150] gi|332731125|gb|EGJ62426.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013113] Length = 288 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 161/270 (59%), Gaps = 7/270 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + +T E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 138 KLFFNLRSLKKSSKKLT-----LEEAQSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M+ L+ R R I + R L ++ Sbjct: 193 DDDTPHTAPVLYLEDNRYDPARLVENEDWEEQSTSALHDAMNQLDDRSRNILQRRWLDDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 KSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|16272227|ref|NP_438438.1| RNA polymerase factor sigma-32 [Haemophilus influenzae Rd KW20] gi|68248876|ref|YP_247988.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 86-028NP] gi|260580848|ref|ZP_05848673.1| alternative sigma factor RpoH [Haemophilus influenzae RdAW] gi|319896604|ref|YP_004134797.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3031] gi|1173123|sp|P44404|RP32_HAEIN RecName: Full=RNA polymerase sigma-32 factor gi|1573235|gb|AAC21935.1| RNA polymerase sigma-32 factor (rpoH) [Haemophilus influenzae Rd KW20] gi|68057075|gb|AAX87328.1| RNA polymerase sigma-32 factor [Haemophilus influenzae 86-028NP] gi|260092471|gb|EEW76409.1| alternative sigma factor RpoH [Haemophilus influenzae RdAW] gi|317432106|emb|CBY80457.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3031] Length = 281 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 106/280 (37%), Positives = 167/280 (59%), Gaps = 8/280 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGADV 179 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFE 244 L + + + D +E E +++ L ++ L+ R + I + Sbjct: 180 GFDLPTDDAETETYSPALYLEDKSSNFAAELENENFESQATEQLGAALQSLDARSQDIIK 239 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 240 ARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|260554461|ref|ZP_05826682.1| alternative sigma factor RpoH [Acinetobacter baumannii ATCC 19606] gi|260411003|gb|EEX04300.1| alternative sigma factor RpoH [Acinetobacter baumannii ATCC 19606] Length = 288 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 161/270 (59%), Gaps = 7/270 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + +T E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 138 KLFFNLRSLKKSSKKLT-----LEEAQSIANDLNVTPEQVMEMEGRLTAYDAAFEAQGDD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M+ L+ R R I + R L ++ Sbjct: 193 DDDTPHTAPVLYLEDNRYDPARLVENEDWEEQSTSALHDAMNQLDDRSRNILQRRWLDDD 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 KSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|85704163|ref|ZP_01035266.1| RNA polymerase sigma-32 factor [Roseovarius sp. 217] gi|85671483|gb|EAQ26341.1| RNA polymerase sigma-32 factor [Roseovarius sp. 217] Length = 277 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 103/268 (38%), Positives = 174/268 (64%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K ML+ + E LA +R+ D A HRL+ +++RL + +A +R YG P+++++ E + Sbjct: 2 KAEMLDAETELALAYAWRDQRDEEALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGL 61 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 62 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 121 Query: 145 HL--QAITDN-NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +A+ + L Q+ IA ++ V +V M RL+G D SLNA S++ + Sbjct: 122 RLEREAMANGQQLDGYQLREMIAHEVGVPLRDVEMMEGRLSGSDFSLNA-TQSAEDEGRE 180 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L + ++++ + R+ L +++ LN RER I R+L+++P TLE+L Sbjct: 181 WIDTLEDEGARGDEIVERHHDMHALRDWLADALARLNERERFIVRERKLRDDPRTLESLG 240 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF+K+++ ++K Sbjct: 241 EELNLSKERVRQLEAAAFQKMRKHLEKH 268 >gi|116749546|ref|YP_846233.1| sigma-70 region 2 domain-containing protein [Syntrophobacter fumaroxidans MPOB] gi|116698610|gb|ABK17798.1| sigma-70 region 2 domain protein [Syntrophobacter fumaroxidans MPOB] Length = 326 Score = 194 bits (493), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 109/273 (39%), Positives = 178/273 (65%), Gaps = 8/273 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP-ISE 77 Y+ EI++ P+L ++EE LA RYRE GD+ A ++L+T++LRLVVKIAM ++ Y + + + Sbjct: 48 YLDEIKRYPLLSREEETDLAIRYREKGDIEAGYKLITANLRLVVKIAMDFQRYWMQNLMD 107 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GLMQAVKKFDP RG++ + Y+ +WIKA + ++I+ +W LVKIGTT Q++LFF Sbjct: 108 LIQEGNVGLMQAVKKFDPYRGYKFSYYASFWIKAYIIKFIMDNWKLVKIGTTQAQRKLFF 167 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKN 196 NLR+ K L+A P+ ++ +L+V ESE+I M+ RL E SL++ + ++ Sbjct: 168 NLRKEKERLEA-QGIEASPK---LLSHRLDVKESEIIEMDQRLNSWEISLDSPLKEDSED 223 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 + + +L D + + ++E + + L L +E IF+ R L E P+TL+ Sbjct: 224 TH--KSFLPSDDLPVDDQIADREAKAILHDKLLLFREQLKGKEAVIFDKRLLTEEPMTLQ 281 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + F +SRERVRQIE+R KK++ +++++E Sbjct: 282 EIGDRFGISRERVRQIESRLKKKLKAYLEEEIE 314 >gi|145635177|ref|ZP_01790882.1| RNA polymerase sigma factor [Haemophilus influenzae PittAA] gi|145267598|gb|EDK07597.1| RNA polymerase sigma factor [Haemophilus influenzae PittAA] Length = 281 Score = 194 bits (493), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 108/282 (38%), Positives = 166/282 (58%), Gaps = 12/282 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M ++ G I YI + PML +EE LA+R H DL AA +L+ SHLR V+ +A Sbjct: 7 MMLVPQGSI--EGYIRAANEYPMLTAEEEKELAERLYYHEDLDAAKKLILSHLRFVIHVA 64 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 65 RGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 124 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR+ K L +N +V +A +L VS+ +VI M R++G + Sbjct: 125 VATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGADV 179 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRI 242 L +D ++ +Y D E E L ++ L+ R + I Sbjct: 180 GFDL--PTDDAETEIYSPSLYLEDKSSNFAAELENENFESQATEQLNTALQSLDARSQDI 237 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 238 IKARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 279 >gi|332875153|ref|ZP_08442986.1| alternative sigma factor RpoH [Acinetobacter baumannii 6014059] gi|332736597|gb|EGJ67591.1| alternative sigma factor RpoH [Acinetobacter baumannii 6014059] Length = 280 Score = 194 bits (493), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 160/270 (59%), Gaps = 7/270 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 10 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 69 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 70 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 129 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + L E+ +IA LNV+ +V+ M RL A D + A + Sbjct: 130 KLFFNLRSLKK-----SSKKLTLEEAQSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 184 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D+ L+E E+ + + L +M+ L+ R R I + R L ++ Sbjct: 185 DDDTPHTAPVLYLEDNRYDPARLVENEDWEEQSTSALHDAMNQLDDRSRNILQRRWLDDD 244 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 245 KSTLHELAAEYNVSAERIRQLEKNAMEKIK 274 >gi|90581423|ref|ZP_01237218.1| RNA polymerase sigma factor [Vibrio angustum S14] gi|90437400|gb|EAS62596.1| RNA polymerase sigma factor [Vibrio angustum S14] Length = 286 Score = 194 bits (493), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 106/273 (38%), Positives = 165/273 (60%), Gaps = 8/273 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L YI + + PML + E LA+R D+++A LV SHLR VV IA GY GYGLP Sbjct: 15 SLDSYIQTVNRYPMLTPEREKELAERLHYDDDINSAKALVMSHLRFVVHIARGYSGYGLP 74 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 I++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++ Sbjct: 75 IADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRK 134 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LFFNLR+ K L NN ++V +A++L V S+V M RLA + + N D Sbjct: 135 LFFNLRKSKKRLGWF--NN---DEVNMVAEQLGVEPSDVREMESRLAAQDPTFEMQNDDD 189 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + Y D + + EE + N L+++++ L+ R + I +R L + Sbjct: 190 ERDTTPVAPAYYLEDKSSDLALTYEENNWENHANNRLSQALASLDERSQHIVRSRWLDDE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ + VS ER+RQ+E A KK+++++ Sbjct: 250 KSTLQDLADNYGVSAERIRQLEKNAMKKLKDAV 282 >gi|13377878|gb|AAK20883.1|AF334761_4 RNA polymerase sigma-32 [Aeromonas hydrophila] Length = 284 Score = 194 bits (493), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 111/288 (38%), Positives = 175/288 (60%), Gaps = 15/288 (5%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++ M++I G L YI + IP+L EE LA+R ++ GDL AA +LV SHLR VV Sbjct: 6 QRTMALIPQG--SLEGYIQAVNSIPVLTADEERELAERLQQGGDLEAARQLVMSHLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP +++V EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+LR+W Sbjct: 64 HVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKADIHEYVLRNWR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L + + +V A+A +L VS ++V M R++ Sbjct: 124 MVKVATTKAQRKLFFNLRKSKKRLGWFSHD-----EVQAVAAELGVSPTDVTEMEARMSN 178 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPR 238 D++ + + + D+ +L D IE ++ RR L+ +++ L+ R Sbjct: 179 YDQAFDLVGDDEDEGGFAPVHYL-EDKSSDLAATIENDNWDDHATRR--LSSALATLDER 235 Query: 239 ERRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L ++ TL+ L+ + VS ERVRQ+E A KK++++++ Sbjct: 236 SQHIIRARWLDDDSKTTLQELADTYGVSAERVRQLEKNALKKLKDAME 283 >gi|254453216|ref|ZP_05066653.1| sigma 32 [Octadecabacter antarcticus 238] gi|198267622|gb|EDY91892.1| sigma 32 [Octadecabacter antarcticus 238] Length = 292 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 101/272 (37%), Positives = 172/272 (63%), Gaps = 14/272 (5%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D A HRL+T+++RL + +A +R YG P+++++ E ++ Sbjct: 17 KAELLDAETELALAYAWRDERDEQALHRLITAYMRLAISMASKFRRYGAPMNDLIQEASL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ G+T++QK LFFNLRR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVRTGSTSSQKSLFFNLRRVQA 136 Query: 145 HL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDK 195 L + + ++++ IA ++ V +V M RL+G D SLNA SS+ Sbjct: 137 RLEREAMKRGETLDRHDMRQ----MIATEVGVPLRDVEMMEGRLSGSDFSLNA-TQSSED 191 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 +W D L D + + + R L +++ L+ RE+ I R+L++ P TL Sbjct: 192 EGREWIDALEDDGEQAADAVQNSHDTDTLRQWLLTALTALSDREQFIVRERKLRDAPRTL 251 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E+L +E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 252 ESLGTELSLSKERVRQLEAAAFGKMRKSLEGQ 283 >gi|171464209|ref|YP_001798322.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171193747|gb|ACB44708.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 307 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 115/277 (41%), Positives = 165/277 (59%), Gaps = 14/277 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML EE LA+ +R ++ AA LV SHLRLVV +A Y GYG+P Sbjct: 36 LDSYIAYVNRVPMLSAAEELHLAQEFRCTENVDAAKTLVLSHLRLVVSVARQYLGYGIPH 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK++DP G RLA+Y++ WIKA + EYIL++W LVK TT Q++L Sbjct: 96 ADLIQEGNIGLMKAVKRYDPSNGARLASYAIHWIKAEIHEYILKNWRLVKTATTKAQRKL 155 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSSD 194 FFNLR K L A+T P +V A+AK L+V S+V M RLA GD +L + SD Sbjct: 156 FFNLRSNKPTLSALT-----PNEVDALAKTLDVKGSDVKEMEMRLAGGDVALEG--DDSD 208 Query: 195 KNSSQWQ-DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 ++S+ WL + E + L +++ L+ R R I ++R L + Sbjct: 209 EDSAYAPIQWLADSSQEPTARIASAEANALQGPKLDQALMALDERSRNIVQSRWLAMDAE 268 Query: 253 ----VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ E+ +S ERVRQIE A KK++ +Q Sbjct: 269 GNGTKTLHDLADEYGISAERVRQIETAALKKMRGLLQ 305 >gi|121602584|ref|YP_988464.1| RNA polymerase factor sigma-32 [Bartonella bacilliformis KC583] gi|120614761|gb|ABM45362.1| RNA polymerase sigma-32 factor [Bartonella bacilliformis KC583] Length = 303 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 107/278 (38%), Positives = 178/278 (64%), Gaps = 6/278 (2%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 +G +G + + P LE+++EY LA R+++ D A H++ +H+RLV+ IA ++ Sbjct: 18 TDGSLGRD-MVRSAMQAPYLERKKEYDLALRWKDKRDDEAMHQIAAAHMRLVISIASRFK 76 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 + +P+ ++V EG +GL++A +F+P+R R +TY+ WWI+A++Q+YILR+WS+V+ GT+ Sbjct: 77 RFKMPLGDLVQEGYVGLLEAAARFEPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTS 136 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAG-DESLN 187 ++QK LFFNLRRL+ L D+ L + + +IA+KL+V S+V M+ R +G D SL+ Sbjct: 137 SSQKALFFNLRRLRAQL-VQEDSTLTKQDIFRSIAEKLSVPVSDVERMDFRFSGADNSLS 195 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEAR 246 I+ ++++ D LV +H + +LIEK RR L ++ +LN RE I R Sbjct: 196 VSISENEESPVTKIDNLVDEHPLPD-ILIEKAIDGQRRTQWLYDALQILNEREMEIIRFR 254 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RL + TLE+L +S+ERVRQIE RA +K++ ++ Sbjct: 255 RLNDESATLESLGERLGISKERVRQIEVRALQKLRRAL 292 >gi|145590108|ref|YP_001156705.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145048514|gb|ABP35141.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 309 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 111/278 (39%), Positives = 164/278 (58%), Gaps = 10/278 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + ++PML EE LA+ +R ++ AA LV SHLRLVV +A Y GYG+P Sbjct: 36 LDSYIAYVNRVPMLSAAEELHLAQEFRRTENVDAAKTLVLSHLRLVVSVARQYLGYGIPH 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK++DP G RL +Y++ WIKA + EYIL++W LVK TT Q++L Sbjct: 96 ADLIQEGNIGLMKAVKRYDPNNGARLVSYAIHWIKAEIHEYILKNWRLVKTATTKAQRKL 155 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L A+T P +V A+AK L+V S+V M RLAG + +S D+ Sbjct: 156 FFNLRSNKPTLSALT-----PSEVDALAKALDVKGSDVKEMEMRLAGGDIALEGDDSDDE 210 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--- 252 ++ WL + + E + L +++ L+ R R I ++R L + Sbjct: 211 SAYAPIQWLADNTQEPTARIASAEADALQGPRLDQALMSLDERSRNIVQSRWLAMDAEGN 270 Query: 253 --VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL +L++E+ +S ERVRQIE A KK++ ++ Q Sbjct: 271 GTKTLHDLAAEYGISAERVRQIETAALKKMRGLLEAQA 308 >gi|15640181|ref|NP_229808.1| RNA polymerase factor sigma-32 [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121591866|ref|ZP_01679036.1| RNA polymerase sigma-32 factor [Vibrio cholerae 2740-80] gi|147674371|ref|YP_001218271.1| RNA polymerase factor sigma-32 [Vibrio cholerae O395] gi|153214854|ref|ZP_01949662.1| RNA polymerase sigma-32 factor [Vibrio cholerae 1587] gi|153803613|ref|ZP_01958199.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-3] gi|153818953|ref|ZP_01971620.1| RNA polymerase sigma-32 factor [Vibrio cholerae NCTC 8457] gi|153824136|ref|ZP_01976803.1| RNA polymerase sigma-32 factor [Vibrio cholerae B33] gi|153826296|ref|ZP_01978963.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-2] gi|153830006|ref|ZP_01982673.1| RNA polymerase sigma-32 factor [Vibrio cholerae 623-39] gi|227080385|ref|YP_002808936.1| RNA polymerase sigma-32 factor [Vibrio cholerae M66-2] gi|229508425|ref|ZP_04397929.1| RNA polymerase sigma factor RpoH [Vibrio cholerae BX 330286] gi|229508894|ref|ZP_04398384.1| RNA polymerase sigma factor RpoH [Vibrio cholerae B33] gi|229515820|ref|ZP_04405278.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TMA 21] gi|229517008|ref|ZP_04406454.1| RNA polymerase sigma factor RpoH [Vibrio cholerae RC9] gi|229520061|ref|ZP_04409489.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TM 11079-80] gi|229527110|ref|ZP_04416504.1| RNA polymerase sigma factor RpoH [Vibrio cholerae 12129(1)] gi|229606698|ref|YP_002877346.1| RNA polymerase factor sigma-32 [Vibrio cholerae MJ-1236] gi|254291956|ref|ZP_04962737.1| RNA polymerase sigma-32 factor [Vibrio cholerae AM-19226] gi|254851536|ref|ZP_05240886.1| RNA polymerase sigma-32 factor [Vibrio cholerae MO10] gi|255743901|ref|ZP_05417856.1| RNA polymerase sigma factor RpoH [Vibrio cholera CIRS 101] gi|262163699|ref|ZP_06031440.1| RNA polymerase sigma factor RpoH [Vibrio mimicus VM223] gi|262172906|ref|ZP_06040584.1| RNA polymerase sigma factor RpoH [Vibrio mimicus MB-451] gi|262190731|ref|ZP_06048960.1| RNA polymerase sigma factor RpoH [Vibrio cholerae CT 5369-93] gi|262404885|ref|ZP_06081439.1| RNA polymerase sigma factor RpoH [Vibrio sp. RC586] gi|297581813|ref|ZP_06943734.1| RNA polymerase sigma-32 factor [Vibrio cholerae RC385] gi|298501088|ref|ZP_07010888.1| alternative sigma factor RpoH [Vibrio cholerae MAK 757] gi|12644296|sp|P50511|RP32_VIBCH RecName: Full=RNA polymerase sigma-32 factor gi|9654552|gb|AAF93327.1| RNA polymerase sigma-32 factor [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121546267|gb|EAX56564.1| RNA polymerase sigma-32 factor [Vibrio cholerae 2740-80] gi|124115097|gb|EAY33917.1| RNA polymerase sigma-32 factor [Vibrio cholerae 1587] gi|124120852|gb|EAY39595.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-3] gi|126510515|gb|EAZ73109.1| RNA polymerase sigma-32 factor [Vibrio cholerae NCTC 8457] gi|126518343|gb|EAZ75566.1| RNA polymerase sigma-32 factor [Vibrio cholerae B33] gi|146316254|gb|ABQ20793.1| RNA polymerase sigma-32 factor [Vibrio cholerae O395] gi|148874491|gb|EDL72626.1| RNA polymerase sigma-32 factor [Vibrio cholerae 623-39] gi|149739964|gb|EDM54143.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-2] gi|150422166|gb|EDN14132.1| RNA polymerase sigma-32 factor [Vibrio cholerae AM-19226] gi|227008273|gb|ACP04485.1| RNA polymerase sigma-32 factor [Vibrio cholerae M66-2] gi|227011849|gb|ACP08059.1| RNA polymerase sigma-32 factor [Vibrio cholerae O395] gi|229335341|gb|EEO00824.1| RNA polymerase sigma factor RpoH [Vibrio cholerae 12129(1)] gi|229342849|gb|EEO07839.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TM 11079-80] gi|229346071|gb|EEO11043.1| RNA polymerase sigma factor RpoH [Vibrio cholerae RC9] gi|229347083|gb|EEO12044.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TMA 21] gi|229354011|gb|EEO18944.1| RNA polymerase sigma factor RpoH [Vibrio cholerae B33] gi|229354698|gb|EEO19620.1| RNA polymerase sigma factor RpoH [Vibrio cholerae BX 330286] gi|229369353|gb|ACQ59776.1| RNA polymerase sigma factor RpoH [Vibrio cholerae MJ-1236] gi|254847241|gb|EET25655.1| RNA polymerase sigma-32 factor [Vibrio cholerae MO10] gi|255738384|gb|EET93774.1| RNA polymerase sigma factor RpoH [Vibrio cholera CIRS 101] gi|261893982|gb|EEY39968.1| RNA polymerase sigma factor RpoH [Vibrio mimicus MB-451] gi|262027915|gb|EEY46579.1| RNA polymerase sigma factor RpoH [Vibrio mimicus VM223] gi|262033375|gb|EEY51884.1| RNA polymerase sigma factor RpoH [Vibrio cholerae CT 5369-93] gi|262348969|gb|EEY98108.1| RNA polymerase sigma factor RpoH [Vibrio sp. RC586] gi|297533907|gb|EFH72747.1| RNA polymerase sigma-32 factor [Vibrio cholerae RC385] gi|297540122|gb|EFH76183.1| alternative sigma factor RpoH [Vibrio cholerae MAK 757] gi|327483048|gb|AEA77455.1| RNA polymerase sigma factor RpoH [Vibrio cholerae LMA3894-4] Length = 286 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 109/274 (39%), Positives = 164/274 (59%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R GD+ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNGYPMLSADEERELAERLHYKGDIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V +EV M RLA ++ + D+ Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDE 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERRIFEARRL-QE 250 N + ++Y D L + E +N T+ +S+ L+ R + I AR L + Sbjct: 191 NGMAYTAPVLYLEDKHSD-LADNLEAENWEAHTTQRLSMALASLDERSQHIVRARWLDDD 249 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N TL++L+ + VS ER+RQ+E A +K++E++ Sbjct: 250 NKTTLQDLAEMYGVSAERIRQLEKNAMRKLKEAV 283 >gi|218710915|ref|YP_002418536.1| RNA polymerase factor sigma-32 [Vibrio splendidus LGP32] gi|218323934|emb|CAV20295.1| RNA polymerase sigma-32 factor [Vibrio splendidus LGP32] Length = 303 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 110/274 (40%), Positives = 162/274 (59%), Gaps = 12/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 34 LDSYIRSANSYPMLTPDEERGLAERLHYKGEIDAAKGLILSHLRFVVHVARGYSGYGLPM 93 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 94 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 153 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V +A++L V SEV M RLA D + A ++ D Sbjct: 154 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAQDATFEAPMDDDD 208 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKN----RRNMLTRSMSVLNPRERRIFEARRLQE 250 S+ VY + + + E E N N L ++ L+ R + I +R L + Sbjct: 209 GGSAYTAP--VYYLEDKASDVAETVEAANWESHTNNRLGLALKSLDERSQHIVRSRWLDD 266 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N TL++L+ + +S ERVRQ+E A KK+++++ Sbjct: 267 NKATLQDLADTYSISAERVRQLEKNAMKKLKQAV 300 >gi|254439883|ref|ZP_05053377.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] gi|198255329|gb|EDY79643.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] Length = 292 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 102/268 (38%), Positives = 172/268 (64%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ D A HRL+T+++RL + +A +R YG P+++++ E ++ Sbjct: 17 KAELLDAETELALAYAWRDERDEQALHRLITAYMRLAISMASKFRRYGAPMNDLIQEASL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ G+T++QK LFFNLRR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVRTGSTSSQKSLFFNLRRVQA 136 Query: 145 HL--QAITDNNL--KPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L +A+ + + IA ++ V +V M RL+G D SLNA SS+ + Sbjct: 137 RLEREAMKRGETLDRHDMRQMIATEVGVPLRDVEMMEGRLSGSDFSLNA-TQSSEDEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D + + + + R L +++ L+ RE+ I R+L++ P TLE+L Sbjct: 196 WIDALEDDGEQAAETVQNSHDTDTLRQWLLTALTALSDREQFIVRERKLRDAPRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 256 TELGLSKERVRQLEAAAFGKMRKSLEGQ 283 >gi|165922507|ref|ZP_02219678.1| alternative sigma factor RpoH [Coxiella burnetii RSA 334] gi|212211687|ref|YP_002302623.1| RNA polymerase factor sigma-32 [Coxiella burnetii CbuG_Q212] gi|165916712|gb|EDR35316.1| alternative sigma factor RpoH [Coxiella burnetii RSA 334] gi|212010097|gb|ACJ17478.1| RNA polymerase sigma-32 factor [Coxiella burnetii CbuG_Q212] Length = 288 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 108/277 (38%), Positives = 168/277 (60%), Gaps = 11/277 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G IG YI + +IP+L +EE+ LA ++R+ DL AA +LV SHLR VV+IA GY GY Sbjct: 16 GSIG--SYISWVNRIPLLSAEEEHDLANKFRQSNDLEAARKLVLSHLRFVVRIARGYSGY 73 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL ++++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A + E+IL++W +VKI TT Sbjct: 74 GLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHWIRAEIHEFILKNWRIVKIATTKA 133 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALI 190 Q++LFFNLR+ +D+ + A+A++LNVS +V M RL + DE+ + Sbjct: 134 QRKLFFNLRKHAKKRGWFSDH-----EAFALAEELNVSTKDVRQMEERLNSYDEAFDGAD 188 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRRNMLTRSMSVLNPRERRIFEARR 247 SD + W Y D + ++ E ++ + L +M L+ R R I R Sbjct: 189 EESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHRLHNAMQSLDDRSRDILYQRW 248 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L E TL L++++ VS ER+RQ+E A +K++ ++ Sbjct: 249 LSEKKSTLHELAAQYAVSAERIRQLEKNAMQKIRTAM 285 >gi|163853281|ref|YP_001641324.1| RNA polymerase factor sigma-32 [Methylobacterium extorquens PA1] gi|218532097|ref|YP_002422913.1| RNA polymerase factor sigma-32 [Methylobacterium chloromethanicum CM4] gi|254563204|ref|YP_003070299.1| RNA polymerase sigma-32 [Methylobacterium extorquens DM4] gi|163664886|gb|ABY32253.1| RNA polymerase sigma factor, sigma-70 family [Methylobacterium extorquens PA1] gi|218524400|gb|ACK84985.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium chloromethanicum CM4] gi|254270482|emb|CAX26482.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens DM4] Length = 290 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 110/270 (40%), Positives = 174/270 (64%), Gaps = 1/270 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 +I + P L + EE LA ++E D A HRL+++H+RLV+ +A +R YGLP++++ Sbjct: 11 FIRTAMEAPFLARDEERGLAVAWKEARDERALHRLISAHMRLVIALAGRFRHYGLPMADL 70 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EG++GLM+A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFN Sbjct: 71 VQEGHVGLMEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFN 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LRRL+ L T+ + E IA + VS +V M+ RL+G D SLNA + + S Sbjct: 131 LRRLRARLMQSTEEQVGSEIHGRIATAIGVSREDVALMDARLSGPDMSLNAPVGEESEAS 190 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 S+ D+LV + ++ + + + R L ++++VL+ RE RI RRL E+ TLE Sbjct: 191 SERMDFLVDNAALPDETVSALVDGERRLIWLRQALTVLSERELRILRERRLAEDQATLEA 250 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L +S+ERVRQIE RA +K++ ++ ++ Sbjct: 251 LGHRLGISKERVRQIENRALEKLRRALAEK 280 >gi|229525043|ref|ZP_04414448.1| RNA polymerase sigma factor RpoH [Vibrio cholerae bv. albensis VL426] gi|229338624|gb|EEO03641.1| RNA polymerase sigma factor RpoH [Vibrio cholerae bv. albensis VL426] Length = 286 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 106/273 (38%), Positives = 163/273 (59%), Gaps = 9/273 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R GD+ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNGYPMLSADEERELAERLHYKGDIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V +EV M RLA ++ + D+ Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDE 190 Query: 196 NSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 N + ++Y D + L + + L+ +++ L+ R + I AR L +N Sbjct: 191 NGMAYTAPVLYLEDKHSDLADNLAAENWEAHTTQRLSMALASLDERSQHIVRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL++L+ + VS ER+RQ+E A +K++E++ Sbjct: 251 KTTLQDLAEMYGVSAERIRQLEKNAMRKLKEAV 283 >gi|153209360|ref|ZP_01947367.1| alternative sigma factor RpoH [Coxiella burnetii 'MSU Goat Q177'] gi|212217703|ref|YP_002304490.1| RNA polymerase factor sigma-32 [Coxiella burnetii CbuK_Q154] gi|120575393|gb|EAX32017.1| alternative sigma factor RpoH [Coxiella burnetii 'MSU Goat Q177'] gi|212011965|gb|ACJ19345.1| RNA polymerase sigma-32 factor [Coxiella burnetii CbuK_Q154] Length = 288 Score = 193 bits (491), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 108/277 (38%), Positives = 168/277 (60%), Gaps = 11/277 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G IG YI + +IP+L +EE+ LA ++R+ DL AA +LV SHLR VV+IA GY GY Sbjct: 16 GSIG--SYISLVNRIPLLSAEEEHDLANKFRQSNDLEAARKLVLSHLRFVVRIARGYSGY 73 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL ++++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A + E+IL++W +VKI TT Sbjct: 74 GLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHWIRAEIHEFILKNWRIVKIATTKA 133 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALI 190 Q++LFFNLR+ +D+ + A+A++LNVS +V M RL + DE+ + Sbjct: 134 QRKLFFNLRKHAKKRGWFSDH-----EAFALAEELNVSTKDVRQMEERLNSYDEAFDGAD 188 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRRNMLTRSMSVLNPRERRIFEARR 247 SD + W Y D + ++ E ++ + L +M L+ R R I R Sbjct: 189 EESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHRLHNAMQSLDDRSRDILYQRW 248 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L E TL L++++ VS ER+RQ+E A +K++ ++ Sbjct: 249 LSEKKSTLHELAAQYAVSAERIRQLEKNAMQKIRTAM 285 >gi|118602568|ref|YP_903783.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] gi|118567507|gb|ABL02312.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] Length = 280 Score = 193 bits (491), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 99/262 (37%), Positives = 171/262 (65%), Gaps = 7/262 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+L ++E+ LA + E+ DLSAA +LV SH+R V IA GY+GYGL +++V EG IGL Sbjct: 23 PILNSEQEHELAVKLYENHDLSAARKLVLSHMRFVAFIAHGYKGYGLEQADLVQEGTIGL 82 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+AVK+F+P R RLA+++++WI+A + E+I ++W +VK+ TT Q++LFF L++ K H+ Sbjct: 83 MKAVKRFNPNRNVRLASFAVYWIRAEIHEFIFKNWKIVKVATTKAQRKLFFKLKQAKAHI 142 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + +L EQ IA L V +V+ M RL ++ + S D++S + +L Sbjct: 143 YS----SLNEEQADKIANDLGVRRKDVLEMESRLQFNDVTFEV--SDDEDSLAPEQYLTN 196 Query: 207 DH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 ++ EQ+L+ + ++N++ L +++S L+ R I ++R L+E TL L+ ++ +S Sbjct: 197 ENVQTPEQLLLINDSKQNQQQQLYKALSSLDERSLDILQSRYLKEEKTTLHTLADKYGIS 256 Query: 266 RERVRQIEARAFKKVQESIQKQ 287 +ERVRQ+E +A +K++ ++Q+Q Sbjct: 257 KERVRQLETKAMQKLKSNLQEQ 278 >gi|50084493|ref|YP_046003.1| RNA polymerase factor sigma-32 [Acinetobacter sp. ADP1] gi|49530469|emb|CAG68181.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter sp. ADP1] Length = 289 Score = 193 bits (491), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 107/271 (39%), Positives = 162/271 (59%), Gaps = 8/271 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 +LFFNLR LK + +T E+ +IA LNV+ +V+ M RL ++ Sbjct: 138 KLFFNLRSLKKSSKKLT-----LEEAQSIANDLNVTPEQVLEMEGRLTAYDAAFETQGDD 192 Query: 194 DKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQE 250 D +SS +Y D + L E ++ + + + L +M+ L+ R R I + R L + Sbjct: 193 DDDSSTHVAPALYLEDNRYDPARLAENDDYEEQSSTALHEAMNQLDDRSRNILQRRWLDD 252 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 DKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|254515828|ref|ZP_05127888.1| alternative sigma factor RpoH [gamma proteobacterium NOR5-3] gi|219675550|gb|EED31916.1| alternative sigma factor RpoH [gamma proteobacterium NOR5-3] Length = 303 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 104/269 (38%), Positives = 160/269 (59%), Gaps = 7/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ + ++P+L + E++LA++ GD+ AA LV SHLR V IA YRGYGL Sbjct: 36 LAAYVQAVARVPVLSPEREHMLAEKLFYDGDVQAARELVMSHLRFVAHIARSYRGYGLSE 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + EYILR+W +VKI TT Q++L Sbjct: 96 ADLIQEGNVGLMKAVKRFDPTKGVRLVSFAVHWIKAEIHEYILRNWRIVKIATTKAQRKL 155 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L L ++ A+A L V EV M RL+ D + +A S D Sbjct: 156 FFNLRSAKKSLAW-----LSADEAQAVANDLGVDVQEVHRMEGRLSSHDVAFDAPAGSDD 210 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 Q + + D + +E E + + + L +++ L+ R R I R L ++ Sbjct: 211 DEGWQAPQYYLEDRSADPAIDVEDSEWQADSQAQLHAAIADLDERSRNILAQRWLTDDKA 270 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TL L++E+ VS ER+RQ+E A KK+++ Sbjct: 271 TLHELAAEYGVSAERIRQLEQAAMKKIRQ 299 >gi|88705470|ref|ZP_01103181.1| RNA polymerase sigma-32 factor [Congregibacter litoralis KT71] gi|88700560|gb|EAQ97668.1| RNA polymerase sigma-32 factor [Congregibacter litoralis KT71] Length = 338 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 104/267 (38%), Positives = 159/267 (59%), Gaps = 7/267 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ + K+P+L E+ LA++ GD+ AA LV SHLR V IA YRGYGL Sbjct: 71 LAAYVQAVAKVPVLSADREHELAEKLFYDGDVQAARELVMSHLRFVAHIARSYRGYGLAE 130 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + EYILR+W +VKI TT Q++L Sbjct: 131 ADLIQEGNVGLMKAVKRFDPTKGVRLVSFAVHWIKAEIHEYILRNWRIVKIATTKAQRKL 190 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L ++ + K A+A L V EV M RL+ D + +A + + D Sbjct: 191 FFNLRSAKKSLAWLSADEAK-----AVADDLGVDVQEVHRMEGRLSSHDVAFDAPVGADD 245 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + Q + + D +E E + + + L +++ L+ R R I R L ++ Sbjct: 246 EEGWQAPQYYLEDQSVDPATNVENSEWQADSQAQLHAAIAELDERSRNILAQRWLTDDKA 305 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKV 280 TL L++E++VS ER+RQ+E A KK+ Sbjct: 306 TLHELAAEYDVSAERIRQLEQAAMKKI 332 >gi|1163231|gb|AAC45341.1| DNA polymerase sigma 32 subunit [Vibrio cholerae] Length = 286 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 108/274 (39%), Positives = 165/274 (60%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R GD+ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNGYPMLSADEERELAERLHYKGDIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V +EV M RLA ++ + D+ Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDE 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERRIFEARRL-QE 250 N + ++Y D L + E +N T+ +S+ L+ + I AR L + Sbjct: 191 NGMAYTAPVLYLEDKHSD-LADNLEAENWEAHTTQRLSMALASLDDGSQHIVRARWLDDD 249 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N TL++L++++ VS ER+RQ+E A +K++E++ Sbjct: 250 NKTTLQDLAAKYGVSAERIRQLEKNAMRKLKEAV 283 >gi|315635212|ref|ZP_07890490.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Aggregatibacter segnis ATCC 33393] gi|315476174|gb|EFU66928.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Aggregatibacter segnis ATCC 33393] Length = 283 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 105/287 (36%), Positives = 176/287 (61%), Gaps = 10/287 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+++ ++++ + L YI + PML +EE LA+R + D+ AA +LV SHLR Sbjct: 2 MDKETQTMMLVPQGSLEAYIRAANEYPMLTAEEEKELAERLYYNEDIEAAKKLVLSHLRF 61 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 62 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 121 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +N +V +A +L VS +V+ M R+ Sbjct: 122 WRIVKVATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSPQDVVEMESRM 176 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQE-QVLIEKEERKNR-RNMLTRSMSVLNP 237 G D + + + + D + + L + G +E E + + + L +++ L+ Sbjct: 177 TGADVAFD--LPTDDHDEETYAPALYLEDKGSNFAAELENENYEAQATDQLVVALNNLDA 234 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I +AR L E TL++L++++ +S ERVRQ+E A KK++ ++ Sbjct: 235 RSQDIIKARWLDETKATLQDLAAKYNISAERVRQLETNALKKLKSAV 281 >gi|258625092|ref|ZP_05720011.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM603] gi|258582643|gb|EEW07473.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM603] Length = 286 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 108/274 (39%), Positives = 164/274 (59%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R GD+ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNGYPMLSADEERELAERLHYKGDIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V +EV M RLA ++ + D+ Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDE 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERRIFEARRL-QE 250 N + ++Y D L + E +N T+ +S+ L+ R + I AR L + Sbjct: 191 NGMAYTAPVLYLEDKHSD-LADNLEAENWEAHTTQRLSMALASLDERSQHIVRARWLDDD 249 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N TL++L+ + VS ER+RQ+E A +K++E++ Sbjct: 250 NKTTLQDLAEMYGVSAERIRQLEKNAMRKLKEAV 283 >gi|284008659|emb|CBA75293.1| RNA polymerase sigma-32 factor [Arsenophonus nasoniae] Length = 292 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 109/282 (38%), Positives = 170/282 (60%), Gaps = 11/282 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +++++I G I Y+ PML +EE AKR HGDL+AA +L+ SHLR V+ Sbjct: 13 QSLALIPQGSI--EAYVRSANAYPMLTAEEEQEYAKRLHYHGDLNAAKQLILSHLRFVIH 70 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 71 IARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 130 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+ TT Q++LFFNLR+ K + N +V +AK+L V+ +V M R+A Sbjct: 131 VKVATTKAQRKLFFNLRKNKKRIGWFNQN-----EVDMVAKELGVTSKDVREMESRMAAQ 185 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRER 240 + + + D + ++Y D IE++ +N + LT+++S L+ R + Sbjct: 186 DMAFDMNDDDDSGENTTIAPVLYLQDKSSDFADSIEEDNWENHATDKLTQALSTLDERSQ 245 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I AR L EN TL++L+ ++ VS ERVRQ+E A KK++ Sbjct: 246 DIIRARWLDDENKTTLQDLADKYSVSAERVRQLEKNAMKKLR 287 >gi|89092456|ref|ZP_01165410.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] gi|89083544|gb|EAR62762.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] Length = 284 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 108/274 (39%), Positives = 165/274 (60%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ + IP+L +EE LA+R GD+ AA +LV SHLR VV +A Y GYGLP+ Sbjct: 17 LDAYVQNVTAIPVLSVEEERSLAERLHFDGDVEAARQLVMSHLRFVVHVAKTYSGYGLPL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP G RL ++++ W+KA M E+ILR+W +VK+ TT Q++L Sbjct: 77 GDLIQEGNVGLMKAVKRFDPTMGVRLVSFAVHWVKAEMHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L +T++ +V AIA+ L V V M R+A D + +A + D Sbjct: 137 FFNLRSKKKSLSWMTND-----EVNAIAEDLGVEAKVVRQMEGRMASVDTAFDAPEGADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + ++ + D + +E+ E+ RR L +MS L+ R + I R L ++ Sbjct: 192 EQAAWAPAHYLEDKSADPSMQLEEANWEQDSQRR--LMSAMSELDERSKDILARRWLTDD 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL L++E+ VS ER+RQ+E A KK++ S++ Sbjct: 250 KATLHELAAEYGVSAERIRQLEKNAMKKIRVSME 283 >gi|161829709|ref|YP_001597727.1| RNA polymerase factor sigma-32 [Coxiella burnetii RSA 331] gi|161761576|gb|ABX77218.1| alternative sigma factor RpoH [Coxiella burnetii RSA 331] Length = 288 Score = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 107/277 (38%), Positives = 168/277 (60%), Gaps = 11/277 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G IG YI + +IP+L +EE+ LA ++R+ DL AA +LV SHLR VV+IA GY GY Sbjct: 16 GSIG--SYISWVNRIPLLSAEEEHDLANKFRQSNDLEAARKLVLSHLRFVVRIARGYSGY 73 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL ++++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A + E+IL++W +VKI TT Sbjct: 74 GLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHWIRAEIHEFILKNWRIVKIATTKA 133 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALI 190 Q++LFFNLR+ +D+ + A+A++LNVS +V M RL + DE+ + Sbjct: 134 QRKLFFNLRKHAKKRGWFSDH-----EAFALAEELNVSTKDVRQMEERLNSYDEAFDGAD 188 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRRNMLTRSMSVLNPRERRIFEARR 247 SD + W Y D + ++ E ++ + L +M ++ R R I R Sbjct: 189 EESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHRLHNAMQSMDDRSRDILYQRW 248 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L E TL L++++ VS ER+RQ+E A +K++ ++ Sbjct: 249 LSEKKSTLHELAAQYSVSAERIRQLEKNAMQKIRTAM 285 >gi|110678526|ref|YP_681533.1| RNA polymerase factor sigma-32 [Roseobacter denitrificans OCh 114] gi|109454642|gb|ABG30847.1| RNA polymerase sigma-32 factor [Roseobacter denitrificans OCh 114] Length = 292 Score = 192 bits (489), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 106/287 (36%), Positives = 180/287 (62%), Gaps = 9/287 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M++ ++ LSR + K +L+ + E LA +R+ + HRL+T+++RL + +A Sbjct: 1 MALDSTRDMALSR---KAMKAELLDAETELELAYAWRDERCEKSLHRLITAYMRLAISMA 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 ++ YG P+++++ E +GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ Sbjct: 58 SKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVR 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLA 181 G+T++QK LFFN+RR++ L+ A + L Q+ I+ ++ V +V M RL+ Sbjct: 118 TGSTSSQKSLFFNMRRVQARLERESAASGEPLDRHQLRQMISTEIGVPLHDVEMMEGRLS 177 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 G D SLNA S++ +W D L D + + + + R L ++M+ LN RER Sbjct: 178 GSDYSLNA-TQSTEDEGREWIDALEDDSAQAAETVEHHHDTEQLRAWLLQAMNDLNERER 236 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 I R+L++ P TLE+L E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 237 FIVRERKLRDAPRTLESLGQELNLSKERVRQLEAAAFGKMRKSLENQ 283 >gi|256823783|ref|YP_003147746.1| RNA polymerase sigma-32 subunit RpoH [Kangiella koreensis DSM 16069] gi|256797322|gb|ACV27978.1| RNA polymerase, sigma 32 subunit, RpoH [Kangiella koreensis DSM 16069] Length = 283 Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 164/268 (61%), Gaps = 7/268 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ + IP+L ++E LA + ++ DL AA +LV +HLR VV IA Y GYGLP +++ Sbjct: 20 YVSTVSAIPVLSVEQEQKLAHEFHDNNDLEAARQLVMAHLRFVVYIARSYSGYGLPQADL 79 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+LR+W +VKI TT Q++LFFN Sbjct: 80 IQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFN 139 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNS 197 LR K L N L ++V A+A+ L VSE EV M RL A D S +A S D ++ Sbjct: 140 LRSKKKTL-----NWLNNDEVNAVAQDLGVSEEEVRRMEGRLNAHDASFDAPNASDDDDA 194 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLE 256 + + IE+E+ +++R + L ++ L+ R + I + R L + TL Sbjct: 195 VYAPIHYLESPNSDPAQAIEQEDWQDQREVRLMSALKTLDERSQDILQQRWLSDQKATLH 254 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 +L+ ++ +S ER+RQ+E A K++ +I Sbjct: 255 DLADKYGISAERIRQLEKNAMNKIKNAI 282 >gi|29655194|ref|NP_820886.1| RNA polymerase factor sigma-32 [Coxiella burnetii RSA 493] gi|6716381|gb|AAF26609.1|AF120928_1 heat-shock sigma factor [Coxiella burnetii] gi|29542466|gb|AAO91400.1| RNA polymerase sigma-32 factor [Coxiella burnetii RSA 493] Length = 288 Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 107/277 (38%), Positives = 168/277 (60%), Gaps = 11/277 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G IG YI + +IP+L +EE+ LA ++R+ DL AA +LV SHLR VV+IA GY GY Sbjct: 16 GSIG--SYISWVNRIPLLSAEEEHDLANKFRQSNDLEAARKLVLSHLRFVVRIARGYSGY 73 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL ++++ EGNIGLM+AVK+FDP+ G RL ++++ WI+A + E+IL++W +VKI TT Sbjct: 74 GLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHWIRAEIHEFILKNWRIVKIATTKA 133 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALI 190 Q++LFFNLR+ +D+ + A+A++LNVS +V M RL + DE+ + Sbjct: 134 QRKLFFNLRKHAKKRGWFSDH-----EAFALAEELNVSTKDVRQMEERLNSYDEAFDGAD 188 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRRNMLTRSMSVLNPRERRIFEARR 247 SD + W Y D + ++ E ++ + L +M ++ R R I R Sbjct: 189 EESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHRLHNAMQSMDDRSRDILYQRW 248 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L E TL L++++ VS ER+RQ+E A +K++ ++ Sbjct: 249 LSEKKSTLHELAAQYAVSAERIRQLEKNAMQKIRTAM 285 >gi|88813090|ref|ZP_01128332.1| RpoH [Nitrococcus mobilis Nb-231] gi|88789723|gb|EAR20848.1| RpoH [Nitrococcus mobilis Nb-231] Length = 292 Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 109/266 (40%), Positives = 160/266 (60%), Gaps = 8/266 (3%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 YI + ++P L +EEY LA+RYR+H DL AA LV SHLR VV IA GY+GYGLP++++ Sbjct: 25 YIQAVNRLPTLSAEEEYQLARRYRDHNDLKAARGLVLSHLRFVVHIARGYKGYGLPLTDL 84 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+FDP G RL ++++ WI+A + E+ILR+W +VK+ TT Q++LFFN Sbjct: 85 IQEGNIGLMKAVKRFDPAVGVRLVSFAVHWIRAEIHEFILRNWRIVKVATTKAQRKLFFN 144 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS-DKN 196 LR K L L +V A+A L V V M RL+G E S + +++ D + Sbjct: 145 LRGAKKRL-----GWLNRAEVDAVANDLGVKPETVQEMELRLSGQEVSFDPGPDAAEDDD 199 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + D IE + + ++ L +++ L+ R R I R L E TL Sbjct: 200 IVRAPAAYLRDQRPNPAEEIESHDWQTHQSESLATALAHLDERSRAIVHERWLNEPKATL 259 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 + L+ + VS ER+RQ+E A KK++ Sbjct: 260 QELAERYAVSAERIRQLEKNALKKLR 285 >gi|293391201|ref|ZP_06635535.1| alternative sigma factor RpoH [Aggregatibacter actinomycetemcomitans D7S-1] gi|290951735|gb|EFE01854.1| alternative sigma factor RpoH [Aggregatibacter actinomycetemcomitans D7S-1] Length = 282 Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 105/287 (36%), Positives = 170/287 (59%), Gaps = 10/287 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+++ ++++ + + YI + PML +EE LA+R D+ AA +LV SHLR Sbjct: 1 MDKETQTMMLVPQGSIEAYIRAANEYPMLTAEEEKELAERLYYKEDIEAAKKLVLSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +N +V +A +L VS +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSPQDVMEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNP 237 G + A D++ + +Y D E E + L ++ L+ Sbjct: 176 TGADV--AFDLPGDEHDEETYAPALYLEDKSSNFAAELENENYEAQATDQLAVALDNLDA 233 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I +AR L E TL++L++++ +S ERVRQ+EA A KK++ ++ Sbjct: 234 RSQDIIKARWLDETKATLQDLAAKYNISAERVRQLEANALKKLKSAV 280 >gi|322513377|ref|ZP_08066496.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Actinobacillus ureae ATCC 25976] gi|322120867|gb|EFX92727.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Actinobacillus ureae ATCC 25976] Length = 318 Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 101/270 (37%), Positives = 161/270 (59%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY DL AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 51 LDSYIRMANQYPILSAEQEKELAERYYYDEDLEAAKQLILSHMRFVIHIARGYLGYGLPL 110 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 111 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVATTKAQRKL 170 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++ +K +A+ L VS EV M R+ G + L D Sbjct: 171 FFNLRKNKNRLAWFNEDEIKK-----VAEDLGVSVEEVREMESRMTGQDLGFDLPAGEDD 225 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 + + + D+ +E EE L +++ L+ R + I + R L E+ T Sbjct: 226 DEAYAPSMYIEDNSSNFADELEDEEHTGEATAQLAYALATLDERSQDIIKTRWLDEDKAT 285 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L++L+ ++ +S ERVRQ+E A KK++++I Sbjct: 286 LQDLADKYGISAERVRQLENAALKKIKDAI 315 >gi|251793696|ref|YP_003008426.1| RNA polymerase factor sigma-32 [Aggregatibacter aphrophilus NJ8700] gi|247535093|gb|ACS98339.1| alternative sigma factor RpoH [Aggregatibacter aphrophilus NJ8700] Length = 282 Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 172/289 (59%), Gaps = 14/289 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+++ ++++ + L YI + PML +EE LA+R D+ AA +LV SHLR Sbjct: 1 MDKETQTMMLVPQGSLEAYIRAANEYPMLTAEEEKELAERLYYQEDIDAAKKLVLSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K ++N +V +A +L VS +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRFGWFSEN-----EVDMVANELGVSPQDVVEMESRM 175 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----L 235 G D + + + + D + + L + G + E +N T ++V L Sbjct: 176 TGADVAFD--LPTDDHDEETYAPALYLEDKGSN--FAAELENENYEAQATDRLAVALDNL 231 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + R + I +AR L E TL++L+ ++ +S ERVRQ+E A KK++ ++ Sbjct: 232 DARSQDIIKARWLDETKATLQDLAEKYNISAERVRQLETNALKKLKSAV 280 >gi|89900482|ref|YP_522953.1| sigma 32 (RpoH) [Rhodoferax ferrireducens T118] gi|89345219|gb|ABD69422.1| sigma 32 (RpoH) [Rhodoferax ferrireducens T118] Length = 313 Score = 192 bits (488), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 108/283 (38%), Positives = 170/283 (60%), Gaps = 14/283 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI ++PML +EE ++++R+ DL+AA +LV SHLRLVV ++ Y GYGLP Sbjct: 27 LDAYISAANRLPMLTLEEEQEFSRKFRQDNDLAAAGKLVLSHLRLVVSVSRQYLGYGLPH 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP+ G RL +Y++ WIKA + EYIL++W +VK+ TT Q++L Sbjct: 87 GDLIQEGNVGLMKAVKRFDPDHGVRLVSYALHWIKAEIHEYILKNWRMVKVATTKAQRKL 146 Query: 136 FFNLRRLKGHLQ---AITD-----NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 FFNLR +K + A D + L +Q+ A+A +L V EV+ M RL+G + L Sbjct: 147 FFNLRSMKQRYKSDDAAADLGTHRDTLNEDQIDAMALELRVKREEVMEMETRLSGGDVLL 206 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK-NRRNMLTRSMSVLNPRERRIFEAR 246 + D + + + D + +IE +R + + ++ L+ R RRI E R Sbjct: 207 DPSPTDDGDDAFGPIAYLTDTRHEPTEMIEAHQRDLLASDGIATALEALDERSRRIVEER 266 Query: 247 RLQENP-----VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ N +TL L++ + VS ER+RQIE A KK+++++ Sbjct: 267 WLKVNDDNSGGMTLHELAAVYGVSAERIRQIEVAAMKKMKKTL 309 >gi|84393530|ref|ZP_00992284.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] gi|84375809|gb|EAP92702.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] Length = 291 Score = 192 bits (488), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 111/273 (40%), Positives = 161/273 (58%), Gaps = 12/273 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSANSYPMLTPEEERGLAERLHYKGEIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR+ K L + +V +A++L V SEV M RLA D + A ++ D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAQDATFEAPMDDDD 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKN----RRNMLTRSMSVLNPRERRIFEARRLQE 250 S+ VY + + + E E N N L ++ L+ R + I +R L + Sbjct: 191 GGSAYTAP--VYYLEDKASDVAETVEAANWESHTNNRLGLALKSLDERSQHIVRSRWLDD 248 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 N TL++L+ + +S ERVRQ+E A KK++ S Sbjct: 249 NKSTLQDLADTYSISAERVRQLEKNAMKKLKAS 281 >gi|153005405|ref|YP_001379730.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] gi|152028978|gb|ABS26746.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] Length = 357 Score = 192 bits (487), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 116/289 (40%), Positives = 184/289 (63%), Gaps = 14/289 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L ++EE+ LA RYRE GD+ AA+RLV S+LRLVVKIA YR + Sbjct: 71 LRAYMAEIARHPLLSREEEHELAVRYRETGDVDAAYRLVASNLRLVVKIAHEYRRTAFQL 130 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++V EGN+GLMQAVKK+DP +G +L++Y+ WWI+A + +I+ +W +VK+GTT Q++L Sbjct: 131 LDLVQEGNMGLMQAVKKYDPWKGVKLSSYAAWWIRAYIIRFIMENWRMVKLGTTQAQRKL 190 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNL + + L A ++P + +AK L+V E +V M R+AG D SL+A + + Sbjct: 191 FFNLAKEREKLLA---RGIEPTPRL-LAKNLDVEEKDVEEMTARMAGEDLSLDAPLRGDE 246 Query: 195 KNSSQWQ-DWLVYDH-DGQEQVLIEKEERKNRRNML-TRSMSVLNPRERRIFEARRLQ-- 249 S Q + D + D D ++ L +++ R+ R L T S ++ + +ER IF+ R L Sbjct: 247 DGSRQTRLDRVAGDGADAPDERLGDEQLRRLFREKLETFSKTIRDEKERYIFDKRLLPAG 306 Query: 250 -ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV---ELSSSP 294 E P+TL+ + F+++RER RQIEA+ ++++ ++ ++ EL P Sbjct: 307 GEAPLTLQEIGDRFKLTRERARQIEAKLTARLRDYLRAEIPDFELLGPP 355 >gi|110835430|ref|YP_694289.1| RNA polymerase sigma-32 factor [Alcanivorax borkumensis SK2] gi|110648541|emb|CAL18017.1| RNA polymerase sigma-32 factor [Alcanivorax borkumensis SK2] Length = 289 Score = 192 bits (487), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 106/281 (37%), Positives = 164/281 (58%), Gaps = 8/281 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +++ V G L Y+ + +P+L +EE L +R DL AA LV SHLR V IA Sbjct: 13 LTLAVPGH-DLDAYMRAVNAVPVLSAEEEQRLGERLYYDQDLDAARSLVLSHLRFVAHIA 71 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP+ ++V EGN+GLM+AVK+FDP +G RL ++++ WIKA + EY++++W +VK Sbjct: 72 RSYTGYGLPLGDLVQEGNVGLMKAVKRFDPTKGVRLVSFAVHWIKAEIHEYVIKNWRIVK 131 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDE 184 + TT Q++LFFNLR K L L E+ +A L V+ ++V M RL A D Sbjct: 132 VATTKAQRKLFFNLRGQKKRL-----GRLTLEEAQRVADDLGVTAAQVKEMEGRLGAYDA 186 Query: 185 SLNALINSSDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 S + N D ++ +L D+ +L E+++++ L+ ++ L+ R R I Sbjct: 187 SFDGPTNDDDDSTVVSPAAYLHSDNSDPADLLAEQDQQQRESRQLSSALMALDERSRDIL 246 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E R L + TL+ L+ E+ VS ER+RQ+E A KK++ +I Sbjct: 247 ERRWLADQKSTLQELADEYSVSAERIRQLENNAIKKLRNAI 287 >gi|254363063|ref|ZP_04979122.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica PHL213] gi|261492837|ref|ZP_05989384.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261494798|ref|ZP_05991276.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. OVINE] gi|153094728|gb|EDN75518.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica PHL213] gi|261309509|gb|EEY10734.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. OVINE] gi|261311519|gb|EEY12675.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 319 Score = 192 bits (487), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 101/270 (37%), Positives = 159/270 (58%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 51 LDSYIRMANQYPILTAEQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 110 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 111 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVATTKAQRKL 170 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A L VS EV M R+ G + L D Sbjct: 171 FFNLRKNKNRLAWFNE-----EEIKKVADDLGVSVEEVREMESRMTGQDLGFDLPAGDDD 225 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 S + D +E E+ + L +++ L+ R + I + R L +N T Sbjct: 226 EDSYAPSMYIEDSSSNFADDLEDEQHNGQATAQLAYALATLDERSQDIIKTRWLDDNKAT 285 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L++L+ ++ +S ERVRQ+E A KK++E+I Sbjct: 286 LQDLADKYNISAERVRQLENAALKKIKEAI 315 >gi|218885581|ref|YP_002434902.1| RNA polymerase, sigma 70 family subunit [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218756535|gb|ACL07434.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 474 Score = 192 bits (487), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 110/280 (39%), Positives = 175/280 (62%), Gaps = 7/280 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI + P+L+ EE+ LA+R +E GD AA RLVTSHLRLVVKIAM + R + Sbjct: 195 LHLYLREISRFPLLKPDEEFDLARRVQEQGDSDAAFRLVTSHLRLVVKIAMDFQRRWMQN 254 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+AV KFDPE+G + + Y+ +WIKA + ++I+ +W +VKIGTT Q++ Sbjct: 255 VLDLIQEGNVGLMRAVNKFDPEKGIKFSYYAAFWIKAYILKFIMDNWRMVKIGTTQAQRK 314 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSS 193 LF+NL + + L A P+ + +++KLNV+ +VI M RL + D SL+ + Sbjct: 315 LFYNLNKERQRLIA---QGYDPDATI-LSEKLNVTVEQVIEMEQRLDSSDMSLDITVG-E 369 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + D+L G E+ L E + ++ + + L+ +E I + R L E PV Sbjct: 370 DSGGATRMDFLPALGPGIEETLANSEIARMVQDRVQTILPKLSDKEAYILQHRLLSEQPV 429 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 TL + +++++RERVRQIEAR +K+++ + K++ SS Sbjct: 430 TLREIGEKYDITRERVRQIEARLLQKLRDHLFKEIRDFSS 469 >gi|212703179|ref|ZP_03311307.1| hypothetical protein DESPIG_01221 [Desulfovibrio piger ATCC 29098] gi|212673445|gb|EEB33928.1| hypothetical protein DESPIG_01221 [Desulfovibrio piger ATCC 29098] Length = 364 Score = 192 bits (487), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 109/277 (39%), Positives = 170/277 (61%), Gaps = 7/277 (2%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY- 68 G L Y+ E+ + PML+ +EE+ LA R R+H D AA RLV+SHLRLVV+IAM + Sbjct: 80 TGGRDSLQLYLREVSRFPMLKPEEEHELAVRVRDHNDPDAAFRLVSSHLRLVVRIAMDFQ 139 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 R + + ++V EGN+GLM+AV KFDP++G + + Y+ +WIKA + ++I+ +W +VKIGT Sbjct: 140 RRWMQNVLDLVQEGNVGLMRAVNKFDPDKGIKFSYYASFWIKAYILKFIMDNWRMVKIGT 199 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 T Q++LF+NL R + Q + P+ + ++++L VSE ++ M+ RLA D SLN Sbjct: 200 TQVQRKLFYNLNRER---QKLIAQGFDPDAAM-LSERLGVSEEQITEMDQRLAANDLSLN 255 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + D + D+L G E L + E + R L + LN +E I + R Sbjct: 256 AQV-GEDAGGATRMDFLPALGPGIEDSLGDSEVAELLREKLKTILPKLNEKELYILQNRL 314 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++PVTL + + V+RERVRQ+EAR +K+++ + Sbjct: 315 LTDDPVTLREIGERYNVTRERVRQLEARLLEKIRQHL 351 >gi|317494584|ref|ZP_07952997.1| alternative sigma factor RpoH [Enterobacteriaceae bacterium 9_2_54FAA] gi|316917514|gb|EFV38860.1| alternative sigma factor RpoH [Enterobacteriaceae bacterium 9_2_54FAA] Length = 283 Score = 192 bits (487), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 107/287 (37%), Positives = 168/287 (58%), Gaps = 7/287 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L Y+ PML +EE L +R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLTLVPQGSLEAYVRAANTYPMLTAEEEKELGERLHYEGDLDAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L VSE +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVSEKDVLEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRE 239 A + + N D++S + D IE + + + LT +M L+ R Sbjct: 176 AAQDMAFDMSNDDDESSPAAPVLFLQDKSSDFANDIEDDNWDSHAADKLTLAMEGLDERS 235 Query: 240 RRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 QHIIRARWLDDDNKATLQELADQYGVSAERVRQLEKNAMKKLRAAIE 282 >gi|260771645|ref|ZP_05880565.1| RNA polymerase sigma-32 factor [Vibrio metschnikovii CIP 69.14] gi|260613422|gb|EEX38621.1| RNA polymerase sigma-32 factor [Vibrio metschnikovii CIP 69.14] Length = 285 Score = 192 bits (487), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 111/272 (40%), Positives = 166/272 (61%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML +EE LA+R GD+ AA L+ SHLR VV +A GY GYGLPI Sbjct: 16 LDSYIRSVSSYPMLTAEEERELAERLHYSGDIEAAKTLILSHLRFVVHVARGYSGYGLPI 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V +EV M RLA +S D Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPAEVREMESRLAALDSTFEFSAEDDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVL--IEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENP 252 N + + ++Y D Q + IE + +N N L+ +++ L+ R + I +R L + Sbjct: 191 NPNAYTAPVLYLEDKQSDLAENIEAQNWENHTNHRLSLALASLDERSQHIVRSRWLDDQK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L+ ++VS ER+RQ+E A KK++E++ Sbjct: 251 ATLQELADLYQVSAERIRQLEKNAMKKLKEAV 282 >gi|160871836|ref|ZP_02061968.1| alternative sigma factor RpoH [Rickettsiella grylli] gi|159120635|gb|EDP45973.1| alternative sigma factor RpoH [Rickettsiella grylli] Length = 290 Score = 192 bits (487), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 107/277 (38%), Positives = 172/277 (62%), Gaps = 14/277 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 YI +++IP+L +EE LA+RY +H DL AA +L+ ++LR VV IA Y GYGL ++++ Sbjct: 20 YITRLKQIPVLSAEEEIELAERYYQHHDLDAAKKLIITNLRFVVHIAQTYMGYGLALADL 79 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+FDP+ G RL ++++ WIKA +QE+ILR+W +VKI TT Q++LFFN Sbjct: 80 IQEGNIGLMKAVKRFDPKVGVRLISFAVHWIKAEIQEFILRNWRIVKIATTKAQRKLFFN 139 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR++K L N ++ A+A L V V M RLA D SL+ I+ D N Sbjct: 140 LRKMKKRLGWFNQN-----EIEAVAHDLGVKPETVREMEFRLASNDMSLD--ISHDDPNE 192 Query: 198 SQWQDWLVYDHDGQE------QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ + + D ++ ++L ++ + L ++++ L+ RE+ I R L E Sbjct: 193 AKSTRYPLLDIHFEDNRYDPARLLEASNSTESNHDNLYKALTQLDEREQNIIRDRWLMEP 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +TL+ L+ + VS ER+RQ+E +A K ++ ++ +Q Sbjct: 253 KMTLQELAQRYHVSAERIRQLEQKAMKALRHTLLQQT 289 >gi|163854463|ref|YP_001628761.1| RNA polymerase factor sigma-32 [Bordetella petrii DSM 12804] gi|163258191|emb|CAP40490.1| RNA polymerase sigma-32 factor [Bordetella petrii] Length = 295 Score = 192 bits (487), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 119/289 (41%), Positives = 179/289 (61%), Gaps = 15/289 (5%) Query: 2 NRKNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N ++I G +G + YI + ++P+L + E L +R R+ DL AA LV SHLRL Sbjct: 13 NALALAIANPGSLGTIEAYISAVNRLPVLTAERETELGRRLRDRDDLDAARELVLSHLRL 72 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + E+I+R+ Sbjct: 73 VVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEFIIRN 132 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR ++ Q L PEQV IA++LNV +V M RL Sbjct: 133 WRMVKVATTKAQRKLFFNLRSMRPDGQ-----TLDPEQVDRIAQELNVRREDVSEMEVRL 187 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQ---VLIEKEERKNRRNMLTRSMSVLN 236 +G D SL D + + +G+++ VL ++ + + L ++ L+ Sbjct: 188 SGRDLSL----EKQDDDEEAFAPISYLSDEGRQEPTRVLDRRDHDELQGAGLAHALQALD 243 Query: 237 PRERRIFEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R RRI EAR LQ++ VTL+ L+ EF VS ER+RQIE+ A KK++ ++ Sbjct: 244 ARSRRIIEARWLQDDGGVTLQELAQEFGVSAERIRQIESAALKKMRGAL 292 >gi|78357159|ref|YP_388608.1| sigma 70 family protein [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|78219564|gb|ABB38913.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 360 Score = 191 bits (486), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 108/281 (38%), Positives = 177/281 (62%), Gaps = 7/281 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGL 73 L Y+ EI + PML+ EE+ LA+R + H D AA RLV+SHLRLVVKIAM + R + Sbjct: 80 SLHLYLREISRFPMLKPDEEFELARRVQLHNDSDAAFRLVSSHLRLVVKIAMDFQRRWMQ 139 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +++ EGN+GLM+AV KFDP++G + + Y+ +WIKA + ++I+ +W LVKIGTT Q+ Sbjct: 140 NVLDLIQEGNVGLMRAVNKFDPDKGIKFSYYAAFWIKAYILKFIMDNWRLVKIGTTQAQR 199 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LF+NL + + L A P+ + ++++L+V+ +V+ M RL A D SL+ + Sbjct: 200 KLFYNLNKERQKLIA---QGYDPDAAM-LSERLDVTTEQVVEMEQRLDASDMSLDVQVGD 255 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + ++S+ D+L G E L E + + + +LN +E I +R L E+P Sbjct: 256 ENGSASR-MDFLPALGPGIEDTLANNEIAAMVQERIRDIVPLLNDKELDILNSRLLSEDP 314 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 VTL + +++++RERVRQIEAR +K+++ + K+++ SS Sbjct: 315 VTLREIGEKYDITRERVRQIEARLLQKIRDHLFKEIKDFSS 355 >gi|307546422|ref|YP_003898901.1| RNA polymerase factor sigma-32 [Halomonas elongata DSM 2581] gi|307218446|emb|CBV43716.1| RNA polymerase factor sigma-32 [Halomonas elongata DSM 2581] Length = 288 Score = 191 bits (486), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 112/273 (41%), Positives = 161/273 (58%), Gaps = 11/273 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ YI + IPML EE LA R + GDL AA RLV SHLR VV IA Y GYGL Sbjct: 17 LNGYIQAVNGIPMLTVDEERELAFRLHDEGDLEAARRLVMSHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + E++LR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFDPNQGVRLVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR K L + N +V AIAK L+V V M RL A D +A + Sbjct: 137 FFNLRGAKKRLAWLNSN-----EVEAIAKDLDVKPEVVREMEGRLSAHDAGFDAA--PGE 189 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S +Q + Y D + + E+ ++ L ++S L+ R R I + R L ++ Sbjct: 190 DEESAYQAPVHYLDDASQDPATQLEDSDWEEDSTQRLQAALSELDERSRDILQRRWLSDD 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ + VS ER+RQ+E A KK+++SI Sbjct: 250 KSTLHDLADVYGVSAERIRQLEKNAMKKIRQSI 282 >gi|323492929|ref|ZP_08098069.1| RNA polymerase factor sigma-32 [Vibrio brasiliensis LMG 20546] gi|323312822|gb|EGA65946.1| RNA polymerase factor sigma-32 [Vibrio brasiliensis LMG 20546] Length = 285 Score = 191 bits (486), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 109/287 (37%), Positives = 167/287 (58%), Gaps = 8/287 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + V + L YI + PML EE LA+R G++ AA L+ SHLR Sbjct: 1 MTNQAYPMAVVTQDSLDSYIRSVNSYPMLTADEERELAERLHYDGEIEAAKGLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A GY GYGLP++++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VKI TT Q++LFFNLR+ K L + +V +A++L V +EV M RL Sbjct: 121 WRIVKIATTKAQRKLFFNLRKSKKRLGWFNNG-----EVETVARELGVEPAEVREMESRL 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A ++ + + D ++S + +VY D V E + N L+ ++ L+ Sbjct: 176 AAQDATFEMPSDDDDSASSYTAPMVYLEDKASDVADNVEAANWEAHTNNRLSLALKTLDD 235 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I +R L +N TL+ L+ + VS ER+RQ+E A KK++ ++ Sbjct: 236 RSQHIVRSRWLDDNKSTLQELAETYSVSAERIRQLEKNAMKKLKAAV 282 >gi|317154823|ref|YP_004122871.1| sigma-70 family RNA polymerase sigma factor [Desulfovibrio aespoeensis Aspo-2] gi|316945074|gb|ADU64125.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio aespoeensis Aspo-2] Length = 397 Score = 191 bits (486), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 109/275 (39%), Positives = 173/275 (62%), Gaps = 8/275 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI + P+L+ +EEY LAKR ++ D AA +LV+SHLRLVV+IAM + R + Sbjct: 117 LQLYLKEIARFPLLDPEEEYALAKRVQDENDQDAAFKLVSSHLRLVVRIAMDFQRRWMQN 176 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++ EGN+GL++AV KFDPE+G + + Y+ +W+KA + +YI+ +W +VK+GTT Q++ Sbjct: 177 ALDLIQEGNVGLLKAVTKFDPEKGIKFSYYAAFWVKAYILKYIMDNWRMVKVGTTQTQRK 236 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALINSS 193 LF+NL + + LQA+ P A++K L VSE+E+ M+ RL+ D SLNA + Sbjct: 237 LFYNLNKERQRLQAM---GFDP-TTEALSKSLGVSEAEIDEMDQRLSRNDMSLNAPLG-E 291 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D ++++ D+L G E+ L + + L LN +E I + R L ++P+ Sbjct: 292 DSDATR-MDFLPSLGPGIEESLASDQIVELLLENLKAIRPTLNDKELAILDHRLLSDDPM 350 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL + FEV+RERVRQIEAR K++E + +++ Sbjct: 351 TLREIGERFEVTRERVRQIEARLIAKIREHMTEKI 385 >gi|153873537|ref|ZP_02002087.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] gi|152069997|gb|EDN67913.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] Length = 288 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 112/283 (39%), Positives = 172/283 (60%), Gaps = 9/283 (3%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N + V G + Y I+ IP+L + E LA+R+ D+ AA LV SHLR V+ I Sbjct: 8 NQQLAVPG-TSIEGYAQAIKAIPLLSIEAERKLAERFIGEDDIEAARTLVMSHLRFVMHI 66 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A YRGYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WI+A + EYILR+W +V Sbjct: 67 AHNYRGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIRAEIHEYILRNWRIV 126 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGD 183 K+ TT +Q++LFFNLR K L +T ++V +AK L VS +V M RL + D Sbjct: 127 KVATTKSQRKLFFNLRSAKKRLGWLTQ-----DEVETVAKDLGVSPKDVREMELRLNSYD 181 Query: 184 ESLNALINSSDKNSSQWQD-WLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERR 241 S + +++ D N+ + D+ L+E+ E K + L ++++ L+ R + Sbjct: 182 LSFDMPVDADDDNAEILSPVGYLEDNRYDPADLVEQSEWKTHGHRQLHQALAKLDVRSQD 241 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I + R L EN TL+ L++ ++VS ER+RQIE A KK++++I Sbjct: 242 ILQKRWLSENKTTLQELANHYKVSAERIRQIENNALKKLKKNI 284 >gi|148244663|ref|YP_001219357.1| DNA-directed RNA polymerase sigma-32 factor [Candidatus Vesicomyosocius okutanii HA] gi|146326490|dbj|BAF61633.1| DNA-directed RNA polymerase sigma-32 factor [Candidatus Vesicomyosocius okutanii HA] Length = 277 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 97/261 (37%), Positives = 167/261 (63%), Gaps = 7/261 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+L +EE+ LA + E+ +LSAA +LV SH+R V IA Y+GYGL +++V EG IGL Sbjct: 23 PILSSEEEHELAVQLYENHNLSAARKLVLSHMRFVAFIAHSYKGYGLEQADLVQEGTIGL 82 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+AVK+F+P R RLA+++++WI+A + E+I ++W +VK+ TT Q++LFF L++ K H+ Sbjct: 83 MKAVKRFNPHRNVRLASFAVYWIRAEIHEFIFKNWKIVKVATTKAQRKLFFKLKQAKAHI 142 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N+L EQ IAK L V +V+ M RL + + + D ++ + +L Sbjct: 143 Y----NSLNEEQADKIAKDLGVRRKDVLEMESRLQFSDVTFEVFDEEDSHAP--EQYLTN 196 Query: 207 DH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 ++ EQ+L+ + +K ++ L +++S L+ R I ++R L+E TL L+ ++ +S Sbjct: 197 ENIQTPEQLLLTDDSKKTQQQRLYKALSSLDERSLDILQSRYLKEEKTTLYTLADKYSIS 256 Query: 266 RERVRQIEARAFKKVQESIQK 286 +ERVRQ+E +A +K++ ++Q+ Sbjct: 257 KERVRQLETKAMQKLKSNLQE 277 >gi|304320154|ref|YP_003853797.1| RNA polymerase sigma-70 factor family protein [Parvularcula bermudensis HTCC2503] gi|303299057|gb|ADM08656.1| RNA polymerase sigma-70 factor family protein [Parvularcula bermudensis HTCC2503] Length = 283 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 97/283 (34%), Positives = 172/283 (60%), Gaps = 7/283 (2%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++++ + L I + P+L +EE L +R+ + D A +L +H+R+ V A+ Sbjct: 1 MVIDNDEYLKATIRQAMSAPLLSIEEERSLMRRWVDDQDERALGKLTRAHMRMAVSTAIK 60 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 +RGYGLP+++++ EG IGL++A K+FDP+R R TY+ WWI+A+MQ+YILR+WS+V++G Sbjct: 61 FRGYGLPLADLIQEGAIGLLEAAKRFDPDREVRFCTYAGWWIRASMQDYILRNWSIVRVG 120 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLA-GDES 185 + + K +FFNL R++ ++ D + P + A++ NVSES++ M RL D+S Sbjct: 121 SKSAHKTIFFNLSRIRSMIE---DADTAPRTARIKAAERFNVSESDIEFMTSRLGRRDQS 177 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA++ +D + QD + + +G + + ++ R++ + +++ L+ RER I E Sbjct: 178 LNAML--TDDGDIERQDLIPDEREGPDSLAEGTLDQARRKSWIGKALKTLSNRERMIIEH 235 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R E +TL L + +S+ERVRQIE +A K++ + + Sbjct: 236 RFFTEEKMTLSRLGDDLSLSKERVRQIEKQAMGKLKACLAAEA 278 >gi|261866928|ref|YP_003254850.1| RNA polymerase factor sigma-32 [Aggregatibacter actinomycetemcomitans D11S-1] gi|261412260|gb|ACX81631.1| alternative sigma factor RpoH [Aggregatibacter actinomycetemcomitans D11S-1] Length = 282 Score = 191 bits (484), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 104/287 (36%), Positives = 169/287 (58%), Gaps = 10/287 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+++ ++++ + + YI + PML +EE LA+R D+ AA +LV SHLR Sbjct: 1 MDKETQTMMLVPQGSIEAYIRAANEYPMLTAEEEKELAERLYYKEDIEAAKKLVLSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A GY GYGLP ++++ EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +N +V +A +L VS +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRLGWFNEN-----EVDMVANELGVSPQDVMEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNP 237 G + A D++ + +Y D E E + L ++ L+ Sbjct: 176 TGADV--AFDLPGDEHDEETYAPALYLEDKSSNFAAELENENYEAQATDQLAVALDNLDA 233 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + I +AR L E TL++L++++ +S ERVRQ+E A KK++ ++ Sbjct: 234 RSQDIIKARWLDETKATLQDLAAKYNISAERVRQLETNALKKLKSAV 280 >gi|149915381|ref|ZP_01903908.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] gi|149810670|gb|EDM70511.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] Length = 292 Score = 191 bits (484), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 102/270 (37%), Positives = 172/270 (63%), Gaps = 10/270 (3%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + +L+ + E LA +R+ D A HRL+T+++RL + +A +R YG P+++++ E + Sbjct: 17 RAELLDAETELKLAYAWRDQRDEEALHRLITAYMRLAISMASKFRRYGAPMNDLIQEAGL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 136 Query: 145 HLQAITDNNLKPEQVVA------IAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 ++ + K EQ+ IA ++ V +V M RL+G D SLNA S + Sbjct: 137 RIE--REAMAKGEQLDGHQLREMIAHEVGVPLRDVEMMEGRLSGTDFSLNA-TQSVEDEG 193 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +W D + + +Q++ + + R L +MS LN RER I R+L++ P TLE+ Sbjct: 194 REWIDTIEDEGPRGDQLVEQDHDLMALREWLGDAMSKLNDRERFIVRERKLRDVPRTLES 253 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L E +S+ERVRQ+EA AF+K+++ +++ Sbjct: 254 LGEELNLSKERVRQLEAAAFQKMRKHLERH 283 >gi|261210147|ref|ZP_05924444.1| RNA polymerase sigma-32 factor [Vibrio sp. RC341] gi|260840687|gb|EEX67236.1| RNA polymerase sigma-32 factor [Vibrio sp. RC341] Length = 286 Score = 191 bits (484), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 109/274 (39%), Positives = 163/274 (59%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R D+ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNGYPMLTADEERELAERLHYKEDIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + +V +A++L V SEV M RLA ++ + D+ Sbjct: 136 FFNLRKSKKRLGWFNNG-----EVETVARELGVEPSEVREMESRLAAQDAAFEMSAEDDE 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERRIFEARRL-QE 250 N + ++Y D L + E +N T+ +S+ L+ R + I AR L + Sbjct: 191 NGMAYTAPVLYLEDKHSD-LADNLEAENWEAHTTQRLSMALASLDERSQHIVRARWLDDD 249 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N TL++L+ + VS ER+RQ+E A +K++E++ Sbjct: 250 NKTTLQDLAEMYGVSAERIRQLEKNAMRKLKEAV 283 >gi|254428104|ref|ZP_05041811.1| alternative sigma factor RpoH [Alcanivorax sp. DG881] gi|196194273|gb|EDX89232.1| alternative sigma factor RpoH [Alcanivorax sp. DG881] Length = 287 Score = 191 bits (484), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 106/281 (37%), Positives = 165/281 (58%), Gaps = 8/281 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +++ V G L Y+ + +P+L +EE L +R DL AA LV SHLR V IA Sbjct: 11 LTLAVPGN-DLDAYMRAVNAVPVLSAEEEQRLGERLYYDQDLDAARSLVLSHLRFVAHIA 69 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGLP+ ++V EGN+GLM+AVK+FDP +G RL ++++ WIKA + EY++++W +VK Sbjct: 70 RSYTGYGLPLGDLVQEGNVGLMKAVKRFDPTKGVRLVSFAVHWIKAEIHEYVIKNWRIVK 129 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDE 184 + TT Q++LFFNLR K L +T E+ +A L V+ ++V M RL A D Sbjct: 130 VATTKAQRKLFFNLRGQKKRLGRLT-----MEEAQRVADDLGVTATQVKEMEGRLGAYDA 184 Query: 185 SLNALINSSDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 S + N D ++ +L D+ +L E+++++ L+ ++ L+ R R I Sbjct: 185 SFDGPTNDDDDSTVVSPAAYLHSDNSDPADLLAEQDKQQRESRQLSSALMALDERSRDIL 244 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E R L + TL+ L+ E+ VS ER+RQ+E A KK++ +I Sbjct: 245 ERRWLADQKSTLQELADEYGVSAERIRQLENNAIKKLRNAI 285 >gi|83950005|ref|ZP_00958738.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] gi|83837904|gb|EAP77200.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] Length = 277 Score = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 101/268 (37%), Positives = 169/268 (63%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + +L+ + E LA +R+ D A HRL+ +++RL + +A YR YG P+++++ E + Sbjct: 2 RAELLDAETELALAYAWRDQRDEEALHRLINAYMRLAISMASKYRRYGAPLNDLIQEAGL 61 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA +Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 62 GLMKAADKFDPDRGVRFSTYAVWWIKAGIQDYVMRNWSMVRTGSTSSQKALFFNMRRVRA 121 Query: 145 HLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 ++ + L Q+ IA ++ V +V M RL+G D SLNA S++ + Sbjct: 122 QIEREAEASGTRLDGHQLREMIATEVGVPLRDVEMMEGRLSGSDLSLNA-TQSTEDEGRE 180 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D E+++ E +++ R L +++ LN RER I R+L E TLE+L Sbjct: 181 WIDALEDDGPRAEEMVEEDHDQRVLRLWLRDALAALNDRERFILRHRKLSEEVRTLESLG 240 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA A K+++ ++++ Sbjct: 241 EELGLSKERVRQLEAAALVKMRKRLERE 268 >gi|163735266|ref|ZP_02142701.1| RNA polymerase sigma-32 factor [Roseobacter litoralis Och 149] gi|161391480|gb|EDQ15814.1| RNA polymerase sigma-32 factor [Roseobacter litoralis Och 149] Length = 284 Score = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 101/268 (37%), Positives = 171/268 (63%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K +L+ + E LA +R+ + HRL+T+++RL + +A ++ YG P+++++ E + Sbjct: 9 KAELLDAETELRLAYAWRDERCEKSLHRLITAYMRLAISMASKFKRYGAPMNDLIQEAGL 68 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFN+RR++ Sbjct: 69 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQA 128 Query: 145 HLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ A + L Q+ I+ ++ V +V M RL+G D SLNA S++ + Sbjct: 129 RLERESAASGEPLDRHQLRQMISTEIGVPLHDVEMMEGRLSGSDYSLNA-TQSTEDEGRE 187 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D + + + + R L ++M+ LN RER I R+L++ P TLE+L Sbjct: 188 WIDALEDDSAQAAETVEHHHDTEQLRAWLLQAMNDLNERERFIVRERKLRDAPRTLESLG 247 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ERVRQ+EA AF K++++++ Q Sbjct: 248 QELSLSKERVRQLEAAAFGKMRKNLENQ 275 >gi|89068061|ref|ZP_01155478.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] gi|89046300|gb|EAR52357.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] Length = 281 Score = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 104/270 (38%), Positives = 175/270 (64%), Gaps = 16/270 (5%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L+ + E LA +R+ D A HRL+T+++RL + +A +R YG P+++++ E ++GLM Sbjct: 10 LLDAETELRLAYAWRDQRDERALHRLITAYMRLAISMAAKFRRYGAPMNDLIQEASLGLM 69 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFNLRR++ L+ Sbjct: 70 KAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNLRRVQARLE 129 Query: 148 AITDNNLKP----EQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQD 202 + P + IA ++ V +V M RL+G D SLNA ++ D+ ++ Sbjct: 130 REAAASGAPIDRQKMREMIAAEVGVPLHDVEMMEGRLSGSDYSLNATQSAEDEG----RE 185 Query: 203 WL-VYDHDGQEQVLIEKEERKNR----RNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 W+ + DG + EK E + R+ L ++S LN RER I + R+L+++P TLE+ Sbjct: 186 WIEALEDDGMQAA--EKVENSHDIDTLRHWLLNALSQLNERERFIVKERKLRDDPRTLES 243 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L E +S+ERVRQ+EA AF K+++ ++ + Sbjct: 244 LGDELGLSKERVRQLEAAAFGKMRKMLETE 273 >gi|109900247|ref|YP_663502.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoalteromonas atlantica T6c] gi|109702528|gb|ABG42448.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoalteromonas atlantica T6c] Length = 289 Score = 190 bits (482), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 103/284 (36%), Positives = 165/284 (58%), Gaps = 6/284 (2%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + + +++ V + Y+ + I ML +EE LA+R ++ DL AA +L+ SHLR V Sbjct: 10 DMRALTLTVPQTGSIETYVQAVSSINMLTAEEERGLAERLQQEDDLLAARKLIMSHLRFV 69 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA Y GYGLP ++++ EGNIGLM+AV++FDP G RL ++++ WIKA + E++LR+W Sbjct: 70 VHIAKSYSGYGLPQADLIQEGNIGLMKAVRRFDPTVGVRLVSFAVHWIKAEIHEFVLRNW 129 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT Q++LFFNLR+ K L T +V +A L VSE EV+ M R++ Sbjct: 130 RIVKVATTKAQRKLFFNLRKNKKRLGWFT-----HAEVQKVASDLGVSEKEVLQMEARMS 184 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L D++ S + D E ++ + L ++ L+ R + Sbjct: 185 SHDQAFDLSADDDESGSFAPVQFLEDKSADVETDVVNADWDATASQKLYSAIKTLDERSQ 244 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I + R L ++ TL++L+ +++VS ERVRQIE A KK+Q ++ Sbjct: 245 HIIQTRWLSDDKTTLQDLADKYQVSAERVRQIEKNAMKKLQSAM 288 >gi|33151352|ref|NP_872705.1| RNA polymerase factor sigma-32 [Haemophilus ducreyi 35000HP] gi|33147572|gb|AAP95094.1| RNA polymerase sigma-32 factor [Haemophilus ducreyi 35000HP] Length = 319 Score = 190 bits (482), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 101/272 (37%), Positives = 164/272 (60%), Gaps = 10/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 51 LDSYIRMANQYPILTAEQEKTLAERYYYDEDVDAAKQLILSHMRFVIHIARGYMGYGLPL 110 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 111 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVATTKAQRKL 170 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++ ++ +A+ L VS EV M R+ G + S+++ Sbjct: 171 FFNLRKNKHRLAWFNEDEIQQ-----VAQDLGVSTEEVREMESRMTGQDV--GFDISANE 223 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM---LTRSMSVLNPRERRIFEARRLQENP 252 + S+ +Y D E EE ++ L +++ L+ R + I + R L EN Sbjct: 224 DESEVYVPSMYLEDNSSNFADELEEEQHTGEATAKLAYALATLDERSQDIIKTRWLDENK 283 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++++ +S ERVRQ+E A KK++++I Sbjct: 284 ATLHELAAKYSISAERVRQLENAALKKIKDTI 315 >gi|332308280|ref|YP_004436131.1| RNA polymerase, sigma 32 subunit, RpoH [Glaciecola agarilytica 4H-3-7+YE-5] gi|332175609|gb|AEE24863.1| RNA polymerase, sigma 32 subunit, RpoH [Glaciecola agarilytica 4H-3-7+YE-5] Length = 283 Score = 190 bits (482), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 102/284 (35%), Positives = 166/284 (58%), Gaps = 6/284 (2%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + + +++ V + Y+ + I ML +EE LA+R ++ DL AA +L+ SHLR V Sbjct: 4 DMRALTLTVPQTGSIETYVQAVSSIDMLSAEEEKGLAERLQQEDDLLAARKLIMSHLRFV 63 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA Y GYGLP ++++ EGNIGLM+AV++FDP G RL ++++ WIKA + E++LR+W Sbjct: 64 VHIAKSYSGYGLPQADLIQEGNIGLMKAVRRFDPTVGVRLVSFAVHWIKAEIHEFVLRNW 123 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT Q++LFFNLR+ K L T +V +A L VSE EV+ M R++ Sbjct: 124 RIVKVATTKAQRKLFFNLRKNKKRLGWFT-----HAEVQKVASDLGVSEKEVLQMEARMS 178 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 D++ + + + S +L E ++ + L ++ L+ R + Sbjct: 179 SHDQAFDLSADDDESGSFAPVQFLEDKSPDVETEVVNADWDATASQKLYSAIKTLDERSQ 238 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I + R L ++ TL++L+ +++VS ERVRQIE A KK+Q ++ Sbjct: 239 HIIQTRWLSDDKTTLQDLADKYQVSAERVRQIEKNAMKKLQSAM 282 >gi|254459542|ref|ZP_05072958.1| sigma 32 [Rhodobacterales bacterium HTCC2083] gi|206676131|gb|EDZ40618.1| sigma 32 [Rhodobacteraceae bacterium HTCC2083] Length = 292 Score = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 101/280 (36%), Positives = 176/280 (62%), Gaps = 14/280 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 G +R+ K ML+ + E LA +R+ ++ HRL+ +++RL + +A +R YG P Sbjct: 7 GDARFSRRAMKAEMLDAETELKLAYAWRDERCEASLHRLINAYMRLAISMASKFRRYGAP 66 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++++ E +GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ G+T++QK Sbjct: 67 LNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVRTGSTSSQKS 126 Query: 135 LFFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 LFFN+RR++ L +A+ + L I+ ++ V ++V M+ RL+G D S Sbjct: 127 LFFNMRRVQARLEREAQQRGEALDRHQLHQ----MISTEIGVPLNDVEMMHGRLSGSDFS 182 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA S + +W D L D E+++ + + R L +M+ LN RER I Sbjct: 183 LNA-TQSVEDEGREWIDALEDDGAQAEEIVENEHDTAQMREWLLGAMNALNERERFIVRE 241 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R+L + P TLE+L +E +S+ER+RQ+EA AF+K++++++ Sbjct: 242 RKLLDEPRTLESLGNELGLSKERIRQLEAAAFQKMRKTLE 281 >gi|119944398|ref|YP_942078.1| RNA polymerase sigma-32 factor RpoH [Psychromonas ingrahamii 37] gi|119863002|gb|ABM02479.1| RNA polymerase sigma-32 factor RpoH [Psychromonas ingrahamii 37] Length = 283 Score = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 110/281 (39%), Positives = 167/281 (59%), Gaps = 8/281 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +MS++ G IG Y+ + + ML + E LA+R GDL+AA +LV SHLR VV I Sbjct: 7 SMSLVPQGSIG--AYVQSVNQFSMLSAEAEKELAERLFHEGDLAAAKKLVMSHLRFVVYI 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y GYGL ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY++R+W +V Sbjct: 65 AKSYAGYGLAQADLIQEGNIGLMKAVKRFDPSVGVRLVSFAVHWIKAEIHEYVIRNWRMV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KI TT Q++LFFNLRR K L + ++V +A+ LNVS +V+ M RL + Sbjct: 125 KIATTKAQRKLFFNLRRAKKRLGWFSH-----DEVATVAENLNVSTKDVLEMESRLNAQD 179 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQE-QVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 L +S D S + D QV+ + + + +N L ++S L+ R + I Sbjct: 180 QSFDLSDSDDDESGFAPVQYLEDKSADVFQVVATENTQLHTKNKLYSALSTLDERSQDIV 239 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +R L E TL +L++ + +S ER+RQ+E A KK+Q ++ Sbjct: 240 SSRWLSEPKATLHDLAARYGISAERIRQLEENAMKKLQSNM 280 >gi|163744692|ref|ZP_02152052.1| RNA polymerase sigma-32 factor [Oceanibulbus indolifex HEL-45] gi|161381510|gb|EDQ05919.1| RNA polymerase sigma-32 factor [Oceanibulbus indolifex HEL-45] Length = 292 Score = 189 bits (480), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 104/287 (36%), Positives = 178/287 (62%), Gaps = 9/287 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 MS+ E L+R K +L+ E LA +R+ D +A HRL+T+++RL + +A Sbjct: 1 MSLQTAREFSLTRTAM---KAELLDADTELKLAYAWRDQRDEAALHRLITAYMRLAISMA 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 ++ YG P+++++ E +GLM+A KFDP+RG R +TY++WWIKA++Q++++R+WS+V+ Sbjct: 58 GKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKASIQDHVMRNWSMVR 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQ----AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 G+T++QK LFFN+RR++ L+ A+ + K + I+ ++ V +V M RL+ Sbjct: 118 TGSTSSQKSLFFNMRRVQARLEREASAVGETLDKHQLRQMISTEIGVPLHDVEMMEGRLS 177 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 G D SLNA S++ +W + L + + + E+ + RN L +M L+ RE+ Sbjct: 178 GSDYSLNA-TQSAEDEGREWIEALADESAQAAERVEEQHDTAQLRNWLLTAMQGLSDREQ 236 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 I R+L++ TLE+L E +S+ERVRQ+EA AF K+++S++ Q Sbjct: 237 FIVRERKLRDPSRTLESLGDELSLSKERVRQLEAAAFGKMRKSLEMQ 283 >gi|152978131|ref|YP_001343760.1| RNA polymerase factor sigma-32 [Actinobacillus succinogenes 130Z] gi|150839854|gb|ABR73825.1| RNA polymerase, sigma 32 subunit, RpoH [Actinobacillus succinogenes 130Z] Length = 281 Score = 189 bits (480), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 105/286 (36%), Positives = 169/286 (59%), Gaps = 9/286 (3%) Query: 1 MNRK-NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 MN++ M ++ G L YI + PML ++E A+R DL AA L+ SHLR Sbjct: 1 MNKEAQMMLVPQG--NLEGYIRAANEYPMLTAEQEKDYAERLYYQDDLDAAKALILSHLR 58 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 V+ +A GY GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+L+ Sbjct: 59 FVIHVARGYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHWIKAEIHEYVLK 118 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 +W +VK+ TT Q++LFFNLR+ K L ++N +V +A +L VS+ +VI M R Sbjct: 119 NWRIVKVATTKAQRKLFFNLRKTKQRLGWFSEN-----EVDLVANELGVSKEDVIEMESR 173 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR-NMLTRSMSVLNPR 238 + G + L + + + D +E E + + + LT +M L+ R Sbjct: 174 MTGADIGFDLPADDAEEETFAPSMYLEDKSSNFAAELENENFETQAVDQLTVAMETLDAR 233 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + I + R L EN TL +L++++ +S ERVRQ+E+ A KK++ ++ Sbjct: 234 SQDIIKTRWLDENKATLHDLAAKYNISAERVRQLESNALKKLKSAV 279 >gi|32423705|gb|AAP81248.1| sigma-32 subunit of RNA polymerase [Candidatus Portiera aleyrodidarum] Length = 280 Score = 189 bits (480), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 110/276 (39%), Positives = 163/276 (59%), Gaps = 12/276 (4%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E + YI + P++ Q+EY LA+R R GDL AA LV S+LR V+ IA Y GYG Sbjct: 7 ETNIEGYIKTVLGFPIISAQDEYDLARRLRNKGDLDAARCLVISNLRFVIHIARSYSGYG 66 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L S+++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY+LR+W +VKI TT +Q Sbjct: 67 LQNSDIIQEGNVGLMKAVKRFDPAHGVRLVSFAIHWIKAEIHEYVLRNWRIVKIATTKSQ 126 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 ++LFF+LR K L N L E++ +IAK LNV + V M CRL+ + N Sbjct: 127 RKLFFSLRCAKTSL-----NWLNREEIKSIAKDLNVKPTVVREMECRLSSTDY--GFDNK 179 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKE----ERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + +++ Y D + ++ E ER + R + +++ L+ R R I + R L Sbjct: 180 QKEEKNNYKNPSNYLEDSRFDPALQFENFDFERYSYRRLYV-ALNKLDERVRDILKQRWL 238 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E TL L+ + VS ER+RQ+E RA KK++ I Sbjct: 239 NEPKATLHELADIYGVSAERIRQLEQRAIKKIKNYI 274 >gi|144899360|emb|CAM76224.1| Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Magnetospirillum gryphiswaldense MSR-1] Length = 291 Score = 189 bits (480), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 105/277 (37%), Positives = 162/277 (58%), Gaps = 4/277 (1%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 MSI+ S Y +R+ +L ++E L +R+++ GD A RL+++HLRLVVK A Sbjct: 1 MSILRPASDTASAYYKAMRETALLSGEDEAELIRRWKDEGDEKARTRLLSAHLRLVVKTA 60 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 ++GYGL +++V+EGN+GL++A++ FDP R R +TY+ WW++AAM EY+L+ + V Sbjct: 61 GQFKGYGLSGADLVAEGNLGLVRALESFDPGRNLRFSTYAQWWVRAAMFEYVLKFSTPVN 120 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDE 184 G +A +K+LFF LR +K L + N L + +A +L V + V M L Sbjct: 121 FGLSAERKKLFFKLRGIKARLTGPSGNALSVAETAQVADELGVRDQRVAEMERLLTQSPR 180 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL+A + S + + L D E+ L E++E RR +L + L RER I Sbjct: 181 SLDAPVGES---GIPFGELLADDRPSVEETLGERQELMYRRELLKHAWEGLTERERDIVA 237 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L+ENP+ LE+L+ + +SRERVRQIE A K++ Sbjct: 238 QRTLRENPLRLEDLAQRYSISRERVRQIEGSALTKLK 274 >gi|84872788|gb|ABC67485.1| RpoH2 [Sinorhizobium sp. BL3] Length = 286 Score = 189 bits (480), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 105/259 (40%), Positives = 159/259 (61%), Gaps = 3/259 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+ EE+ LA+ +R D A +++ SH+RLVV +A +R +GLP+ ++V EG+IGL Sbjct: 18 PYLERDEEHALAEAWRYDHDQEARNKIAMSHMRLVVAMAAKFRSFGLPMGDLVQEGHIGL 77 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+P R R +TY+ WWI+A+MQ+Y+LR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 78 LEAAARFEPSREVRFSTYATWWIRASMQDYVLRNWSIVRGGTSSAQKALFFNLRRLRARL 137 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWL 204 A D L + + IA L VS ++V +M+ RL+G D SL A + D S D+L Sbjct: 138 -AQGDRQLTSQAMHEEIAAALGVSLADVQTMDARLSGNDASLQAPVGHGDAESGARLDFL 196 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D ++ + E + + R L ++ L+ RE +I ARRL E+ TLE L + Sbjct: 197 PSDAPLPDEQVSEMIDGERARRWLHSALRELSEREMKIIRARRLSEDGATLEELGVALGI 256 Query: 265 SRERVRQIEARAFKKVQES 283 S+ERVR R+ V+ S Sbjct: 257 SKERVRSKRGRSKSCVRRS 275 >gi|255262130|ref|ZP_05341472.1| RNA polymerase sigma-32 factor [Thalassiobium sp. R2A62] gi|255104465|gb|EET47139.1| RNA polymerase sigma-32 factor [Thalassiobium sp. R2A62] Length = 292 Score = 189 bits (479), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 100/268 (37%), Positives = 171/268 (63%), Gaps = 6/268 (2%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + +L+ + E LA +R+ + HRL+T+++RL + +A ++ YG P+++++ E ++ Sbjct: 17 RAELLDAETELKLAYAWRDERCEQSLHRLITAYMRLAISMASKFKRYGAPMNDLIQEASL 76 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A KFDP+RG R +TY++WWIKA++Q+Y++R+WS+V+ G+T++QK LFFNLRR++ Sbjct: 77 GLMKAADKFDPDRGVRFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNLRRVQA 136 Query: 145 HLQ---AITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 L+ A L Q+ IA ++ V +V M RL+G D SLNA SS+ + Sbjct: 137 RLEREAATAGEELDRHQMRQMIATEVGVPLHDVEMMEGRLSGSDYSLNA-TQSSEDEGRE 195 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 W D L D D + + + + R+ L ++S L+ RE+ I R++++ TLE+L Sbjct: 196 WIDALEDDSDQAAENVENDHDTETLRSWLVTALSALSHREQYIVTERKIKDQTRTLESLG 255 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +S+ER+RQ+EA AF K+++S++ Q Sbjct: 256 HELGLSKERIRQLEAAAFIKMRKSLEGQ 283 >gi|237809745|ref|YP_002894185.1| RNA polymerase, sigma 32 subunit, RpoH [Tolumonas auensis DSM 9187] gi|237502006|gb|ACQ94599.1| RNA polymerase, sigma 32 subunit, RpoH [Tolumonas auensis DSM 9187] Length = 284 Score = 189 bits (479), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 108/285 (37%), Positives = 168/285 (58%), Gaps = 9/285 (3%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++N+ ++ G L YI + IPML ++E LA++ + GDL AA +LV SHLR VV Sbjct: 6 QRNLVLVPQG--SLEGYIQAVNSIPMLTAEKERALAEQLQNDGDLEAARQLVMSHLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+LR+W Sbjct: 64 HIARTYSGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEYVLRNWR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V A+A++L VS +V M R++G Sbjct: 124 MVKVATTKAQRKLFFNLRKTKKRL-----GWFNQDEVRAVAEELGVSPEDVTEMESRMSG 178 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D S + + +++ +L V + + L ++ L+ R ++ Sbjct: 179 LDHSFDGYDDDDSESNFAPAQYLEDKSSDLATVYENNNWDTHAEHRLAYALQGLDERSQQ 238 Query: 242 IFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L E N TL+ L+ + VS ERVRQ+E A KK+++ ++ Sbjct: 239 IVRARWLDEDNKQTLQELADRYGVSAERVRQLEKNALKKLKDVLE 283 >gi|304415276|ref|ZP_07395971.1| RNA polymerase sigma 32 (sigma H) factor [Candidatus Regiella insecticola LSR1] gi|304282866|gb|EFL91334.1| RNA polymerase sigma 32 (sigma H) factor [Candidatus Regiella insecticola LSR1] Length = 285 Score = 189 bits (479), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 109/286 (38%), Positives = 168/286 (58%), Gaps = 11/286 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + +++I G GL YI PML +EE LA+R HGDLSAA +L+ SHLR V Sbjct: 6 RTLALISQG--GLDAYIRTSNTYPMLTAEEEQELAERLHYHGDLSAAKQLILSHLRFVTH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +A Y GYGLP ++++ EGNIGLM+AV++F+P G RL ++++ WIKA + EY+LR+W + Sbjct: 64 VARNYSGYGLPQADLIQEGNIGLMKAVRRFNPAIGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+ TT Q++LFFNLR+ K L ++V +AK+L VS+ +V M R++ Sbjct: 124 VKVATTKAQRKLFFNLRKSKQRL-----GWFNQDEVEMVAKELGVSKKDVHEMESRMSAQ 178 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRER 240 + L D Q ++Y D + EE + + L+ ++ L+ R + Sbjct: 179 DMTFDLSPDDDTRDGQLVAPVLYLQDRNSDFAGDVEEDNWDNHAVDKLSFALEKLDERSQ 238 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L +N TL+ L++++ VS ERVRQ+E A KK++ +I+ Sbjct: 239 HIIRARWLNDDNKATLQELANQYGVSAERVRQLEKNAMKKLRLAIE 284 >gi|30424475|dbj|BAC76410.1| heat shock sigma-32 factor [Colwellia maris] Length = 285 Score = 189 bits (479), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 103/273 (37%), Positives = 164/273 (60%), Gaps = 15/273 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ IPML ++E+ LA R DLSAA L+ SHLR V+ +A GY GYGLP +++ Sbjct: 18 YMRSAYSIPMLTAEKEHNLATRLYNENDLSAAQELIMSHLRFVIHVAKGYSGYGLPHADL 77 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM+AVK+F+PE G RL ++++ WIKA + EY+L++W +VK+ TT Q++LFFN Sbjct: 78 VQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLKNWRIVKVATTKAQRKLFFN 137 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN-- 196 LR+ K L + E+V +A+ L V+ +V+ M R++ + L D N Sbjct: 138 LRKNKKRLGWFS-----TEEVNTVAENLGVTTKDVMEMESRMSSYDQAFELSKDDDDNLG 192 Query: 197 SSQWQDWLVYDHDGQEQVLIEKE-----ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +S + Y D Q + +E E N+R L+ ++ L+ R + I + R L E+ Sbjct: 193 ASNFSP-AQYLQDKQSDLAVEVENDNWDNHANKR--LSTALVTLDERSQDIIKTRWLTED 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L++++++S ERVRQ+E A K++ ++ Sbjct: 250 KTTLQELANKYQISAERVRQLEKNALSKLKNTM 282 >gi|156936376|ref|YP_001440292.1| RNA polymerase factor sigma-32 [Cronobacter sakazakii ATCC BAA-894] gi|260599762|ref|YP_003212333.1| RNA polymerase factor sigma-32 [Cronobacter turicensis z3032] gi|156534630|gb|ABU79456.1| hypothetical protein ESA_04276 [Cronobacter sakazakii ATCC BAA-894] gi|260218939|emb|CBA34294.1| RNA polymerase sigma-32 factor [Cronobacter turicensis z3032] Length = 285 Score = 189 bits (479), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 111/287 (38%), Positives = 166/287 (57%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA++ GDL AA +L+ SHLR VV Sbjct: 3 KEMQTLALAPVGNLDSYIRAANAWPMLSADEERALAEKLHYQGDLEAAKKLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEE-RKNRRNMLTRSMSVLNPRE 239 + + D SQ +++ D IE + ++ + LT +M L+ R Sbjct: 178 QDMTFDMSPDDDAGDSQPMAPVLFLQDKSSNFADGIEDDNWEEHAADKLTDAMQGLDERS 237 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++I AR L E N TL+ L++ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 QQIIRARWLDEDNKSTLQELANRYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|88858433|ref|ZP_01133075.1| RNA polymerase sigma factor [Pseudoalteromonas tunicata D2] gi|88820050|gb|EAR29863.1| RNA polymerase sigma factor [Pseudoalteromonas tunicata D2] Length = 288 Score = 189 bits (479), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 102/267 (38%), Positives = 162/267 (60%), Gaps = 9/267 (3%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ + I ML ++E LA + ++ GDL AA +L+ SHLR V IA GY GYGLP +++ Sbjct: 22 YLQAVSGIAMLSAEDEQALAVKLQQDGDLDAARQLIMSHLRFVAHIAKGYSGYGLPQADL 81 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+L++W +VK+ TT Q++LFFN Sbjct: 82 IQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEYVLKNWRIVKVATTKAQRKLFFN 141 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR+ K L PE+V +A +L V+E +V M R++ + + L D ++S Sbjct: 142 LRKNKKRL-----GWFNPEEVSTVANELGVTEKDVREMEARMSSQDMVFDLTTDDDDSTS 196 Query: 199 QWQ----DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 Q +L + + E++ + N L ++ L+ R + I + R L ++ T Sbjct: 197 ATQYSPVQYLTDNSVDLADKIEEEQWEEQTHNRLFHALKSLDERSQDIVQTRWLSDDKAT 256 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 L++L+ +++VS ERVRQ+E A KK+Q Sbjct: 257 LQDLAVKYDVSAERVRQLEKTAMKKLQ 283 >gi|255319457|ref|ZP_05360671.1| alternative sigma factor RpoH [Acinetobacter radioresistens SK82] gi|262378519|ref|ZP_06071676.1| alternative sigma factor RpoH [Acinetobacter radioresistens SH164] gi|255303397|gb|EET82600.1| alternative sigma factor RpoH [Acinetobacter radioresistens SK82] gi|262299804|gb|EEY87716.1| alternative sigma factor RpoH [Acinetobacter radioresistens SH164] Length = 289 Score = 188 bits (478), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 162/271 (59%), Gaps = 8/271 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPSMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 +LFFNLR LK + L E+ +IA LNV+ +V+ M RL ++ Sbjct: 138 KLFFNLRSLKK-----SSKKLTLEEARSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 192 Query: 194 DKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQE 250 D +SS ++Y D + L+E E+ + + N L +M L+ R R I + R L + Sbjct: 193 DDDSSSHVAPVLYLEDSRYDPARLVEDEDWEEQSNSALHNAMDQLDDRSRNILQRRWLDD 252 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 DKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|90415296|ref|ZP_01223230.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] gi|90332619|gb|EAS47789.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] Length = 278 Score = 188 bits (478), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 107/269 (39%), Positives = 160/269 (59%), Gaps = 8/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ YI +P+L EE L + DL AA R+V +HLR VV IA Y GYGLP+ Sbjct: 10 LNAYIQGTATVPILTIDEERALGESLYYQEDLDAARRMVMAHLRFVVHIARSYNGYGLPL 69 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AV++F+PE+G RL ++++ WIKA + E+ILR+W +VKI TT Q++L Sbjct: 70 ADLIQEGNVGLMKAVRRFNPEKGVRLVSFAVHWIKAEIHEFILRNWRIVKIATTKAQRKL 129 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K LQ ++ + K A+A L V +V+ M RL D + +A D Sbjct: 130 FFNLRSAKKQLQWLSADEAK-----AVADDLGVQVKDVMEMEMRLTSRDPAFDAPAGEDD 184 Query: 195 KNSS-QWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENP 252 ++SS Q + + D L E ++ + N L ++S L+ R R I + R L + Sbjct: 185 ESSSFQAPVYFLEDKSMDPAQLAENDDWEVDNNTRLIAAVSDLDDRSRDILQRRWLNDAK 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A KKV+ Sbjct: 245 ATLHELAAEYGVSAERIRQLEKNAMKKVR 273 >gi|317046493|ref|YP_004114141.1| RNA polymerase,sigma 32 subunit,RpoH [Pantoea sp. At-9b] gi|316948110|gb|ADU67585.1| RNA polymerase, sigma 32 subunit, RpoH [Pantoea sp. At-9b] Length = 285 Score = 188 bits (478), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 111/287 (38%), Positives = 164/287 (57%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQTLAIAPLGNLESYIRAANVWPMLSAEEEKALAERLHYQGDLDAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRE 239 + + + S+ ++Y D EE + + LT +M L+ R Sbjct: 178 QDMTFDMSADDENGESKTMAPVLYLQDKTSDFADGIEEDNWDAHAADKLTDAMQGLDERS 237 Query: 240 RRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L +EN TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 238 QHIIRARWLDEENKTTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|288942274|ref|YP_003444514.1| RNA polymerase sigma-32 subunit RpoH [Allochromatium vinosum DSM 180] gi|288897646|gb|ADC63482.1| RNA polymerase, sigma 32 subunit, RpoH [Allochromatium vinosum DSM 180] Length = 279 Score = 188 bits (478), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 113/280 (40%), Positives = 170/280 (60%), Gaps = 10/280 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K+ SI+ G I YI+ +IP+L +EE LA R R+ D+ AA RLVTSHLR V++ Sbjct: 3 KDFSILPTGTI--EAYINSAYQIPVLTLEEERSLAVRLRDQNDMEAAKRLVTSHLRFVIR 60 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA GY GYGLP+ +++ EG +GLM+AV++F+P+ G RL ++++ WI+A + EYILR+W + Sbjct: 61 IARGYLGYGLPLPDLIQEGTVGLMKAVRRFEPDMGVRLVSFAVHWIRAEIHEYILRNWRI 120 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 VK+ TT Q++LFFNLR K L +T ++V +A L V V+ M RL+ Sbjct: 121 VKVATTKAQRKLFFNLRSSKKRLGWLT-----KQEVDEVAADLGVKPEVVLQMESRLSNQ 175 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER-KNRRNMLTRSMSVLNPRERR 241 D S + L + D + + +L D + L+E E+ +++R L +++ L+ R + Sbjct: 176 DLSFDGLEDDDDDSPAAPSTYLP-DVRMEPSRLLEHEDTDRDQRERLYAALADLDERSKT 234 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I R L E TL L+ +F VS ER+RQIE A KKV+ Sbjct: 235 ILFERWLSEKKQTLHELAEKFGVSAERIRQIEKNAMKKVR 274 >gi|51246044|ref|YP_065928.1| RNA polymerase sigma-B factor [Desulfotalea psychrophila LSv54] gi|50877081|emb|CAG36921.1| probable RNA polymerase sigma-B factor [Desulfotalea psychrophila LSv54] Length = 332 Score = 188 bits (478), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 111/289 (38%), Positives = 179/289 (61%), Gaps = 10/289 (3%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + +N+ + N L RY+ EI + +L ++E LA RY+E GD AA+ LV+S+LRLV Sbjct: 35 DNENLPAVSNP--ALHRYLQEISQYELLTREETDALATRYKESGDQDAAYTLVSSNLRLV 92 Query: 62 VKIAMGYRGYGLP-ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VK+AM ++ Y + +++ EGN+GL+QA KKFDP RG + + Y+ +WI+A + ++I+ + Sbjct: 93 VKVAMDFQKYWMQNFMDLIQEGNVGLVQATKKFDPYRGVKFSYYAAYWIRAYVLKFIMDN 152 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W LVKIGTT Q++LFF+L + K L++ P+ + +A++LNV E EVI M R+ Sbjct: 153 WRLVKIGTTQAQRKLFFSLNKEKKLLES---QGFDPKPKL-LAERLNVREKEVIEMGQRM 208 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 D SL + + SD + Q + +L + G E V+ KE + ++ LN +E Sbjct: 209 DNWDVSLESPVR-SDSDDEQ-KSFLPSNGPGIESVVAGKEIKVKLTELIDVLKVNLNDKE 266 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R I E R L + P+TL+N++ +F +SRERVRQIE KK+++ + ++ Sbjct: 267 RMILEKRLLTDEPLTLQNIADKFGISRERVRQIEVNLLKKMKKYFEAEM 315 >gi|330719751|gb|EGG98273.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC2047] Length = 283 Score = 188 bits (478), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 114/285 (40%), Positives = 170/285 (59%), Gaps = 12/285 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 M +V G+ L+ Y+ + IP+L ++E LA+R DL AA +L+ SHLR VV I Sbjct: 6 TMDNMVPGQ-NLAAYVTSVSSIPVLTAEQEKELAERLYYQEDLEAARQLIMSHLRFVVHI 64 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y GYGLP +++ EGN+GLM+AVK+FDPERG RL ++++ WIKA + EYILR+W +V Sbjct: 65 AKSYSGYGLPQGDLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEYILRNWRIV 124 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGD 183 K+ TT Q++LFFNLR K L ++++ +V AIA+ L V V M RL A D Sbjct: 125 KVATTKAQRKLFFNLRGAKKSLAWLSND-----EVDAIAEDLGVDAKVVRQMEGRLSAHD 179 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRER 240 + + D ++ Q + D L+E+ +E NR+ L +M+ L+ R + Sbjct: 180 APFDMGADDDDDSAYQAPANYLEDKRCDPVDLLEQQNWQETSNRK--LFEAMADLDERSK 237 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L E TL +L+ ++ VS ER+RQ+E A KK++ ++Q Sbjct: 238 DILNARWLSEQKSTLHDLADKYGVSAERIRQLEKNAMKKIKVAMQ 282 >gi|4103482|gb|AAD01786.1| sigma-E factor [Myxococcus xanthus] Length = 280 Score = 188 bits (477), Expect = 8e-46, Method: Compositional matrix adjust. Identities = 110/282 (39%), Positives = 183/282 (64%), Gaps = 11/282 (3%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + E+++ P+L ++EE LA+ Y+E GD++AA+RLV +LRLVVK+A Y L + ++V Sbjct: 1 MAEVQRHPLLTREEELQLARHYKESGDVNAAYRLVAWNLRLVVKLAHEYHRNPLSLLDLV 60 Query: 80 --SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 EGNIGLMQAVKK+DPERG +L++Y+ WWI+A + YI+ +W +VK+GTT Q++LFF Sbjct: 61 LVQEGNIGLMQAVKKYDPERGVKLSSYAAWWIRAYILRYIMDNWKMVKLGTTEAQRKLFF 120 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA-LINSSDK 195 LR+ + L A P+ +A++LNV+E +V+ M+ RL DE S++A L N D Sbjct: 121 KLRQEQEKLIA-QGFEASPK---LLAERLNVTEQDVVEMDQRLGHDEMSIDAPLGNDDDS 176 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 +++ +L + ++ L ++ + R L+ L +ER IFE+R + + P+TL Sbjct: 177 RTTRADRYLPSNSMPADERLGAEQLKALFREKLSEFARTLEGKERFIFESRLVSDEPLTL 236 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQV---ELSSSP 294 +++ ++ VSRER RQIEA ++++ +++Q+ +L +SP Sbjct: 237 QDIGDKYGVSRERARQIEAALINRMRDFMREQIPDFDLVASP 278 >gi|71280363|ref|YP_266929.1| RNA polymerase factor sigma-32 [Colwellia psychrerythraea 34H] gi|71146103|gb|AAZ26576.1| RNA polymerase sigma-32 factor [Colwellia psychrerythraea 34H] Length = 285 Score = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 102/273 (37%), Positives = 163/273 (59%), Gaps = 15/273 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ IPML ++E+ LA R DL AA L+ SHLR V+ +A GY GYGLP +++ Sbjct: 18 YMQSAYSIPMLTAEKEHDLATRLYNENDLQAAQELIMSHLRFVIHVAKGYSGYGLPHADL 77 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM+AVK+F+PE G RL ++++ WIKA + E++L++W +VK+ TT Q++LFFN Sbjct: 78 VQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQRKLFFN 137 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN-- 196 LR+ K L + E+V +A+ L V+ +V+ M R++ + L D N Sbjct: 138 LRKNKKRLGWFS-----TEEVNTVAENLGVTTKDVMEMESRMSSHDQAFELSKDDDDNLG 192 Query: 197 SSQWQDWLVYDHDGQEQVLIEKE-----ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 SS + Y D Q + +E E N+R L+ ++ L+ R + I + R L E+ Sbjct: 193 SSSFSP-AQYLQDKQSDLAVEVENDNWDNHANKR--LSTALVTLDERSQDIIKTRWLTED 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L++++++S ERVRQ+E A K++ ++ Sbjct: 250 KTTLQELANKYQISAERVRQLEKNALSKLKNTM 282 >gi|311277614|ref|YP_003939845.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter cloacae SCF1] gi|308746809|gb|ADO46561.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter cloacae SCF1] Length = 285 Score = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 113/287 (39%), Positives = 162/287 (56%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA++ GDL AA +L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAEKLHYQGDLEAAKKLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEE-RKNRRNMLTRSMSVLNPRE 239 + L D Q ++Y D IE + + N LT +M L+ R Sbjct: 178 QDMTFDLGPDDDAQDGQPMAPVLYLQDKSSNFADGIEDDNWEEQAANKLTDAMQGLDERS 237 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 QDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|262369666|ref|ZP_06062994.1| RNA polymerase factor sigma-32 [Acinetobacter johnsonii SH046] gi|262315734|gb|EEY96773.1| RNA polymerase factor sigma-32 [Acinetobacter johnsonii SH046] Length = 289 Score = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 108/271 (39%), Positives = 162/271 (59%), Gaps = 8/271 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKLLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LFFNLR LK + +T ++ +IA LNV+ +V+ M RL A D + A + Sbjct: 138 KLFFNLRSLKKSSKKLT-----LKEAQSIANDLNVTPEQVLEMEGRLTAYDAAFEAQGDD 192 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D+ S+ L + + + + +EE + N L +M L+ R R I + R L + Sbjct: 193 DDEGSTHVAPALYLEDNRYDPARLAEEEDYEEQSTNALHDAMEQLDDRSRNILQRRWLDD 252 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 EKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|114776846|ref|ZP_01451889.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] gi|114552932|gb|EAU55363.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] Length = 274 Score = 187 bits (476), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 102/277 (36%), Positives = 163/277 (58%), Gaps = 29/277 (10%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 E+RK P L++ EE LA+ + + GD AA +LV ++L V IA YR +GLP +++ E Sbjct: 16 EMRKTPRLDRAEETRLARLWHDQGDREAARQLVVANLGGVAAIAREYRHFGLPEMDLIQE 75 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G +GLM AVK+FDPERGFRL TY+ WW++AA+ ++IL SWS+VK+GT Q+R+F L++ Sbjct: 76 GTLGLMHAVKRFDPERGFRLMTYASWWVRAAIHDFILHSWSIVKLGTNKLQRRVFAGLQK 135 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEV-----------ISMNCRLAGDESLNALI 190 K + A + +A ++ E +S++C A DE +A++ Sbjct: 136 AKNAIAAFDGSRADD-----VAADFGITAGEYQEAAGAFLQRDLSLDC--ACDEGGDAMV 188 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 ++ + + EQ++ + ++R+ L ++S L R+R I + R L + Sbjct: 189 HNLESMDAS-----------PEQIVTDNNWSEHRQAGLYHALSTLPERDRLILQRRHLSD 237 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TL++LS EF VS ER+RQ+EARA K+++ES+ Q Sbjct: 238 EPATLKDLSEEFGVSMERIRQLEARAMKQLRESLVNQ 274 >gi|220904711|ref|YP_002480023.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219869010|gb|ACL49345.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 433 Score = 187 bits (476), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 107/276 (38%), Positives = 169/276 (61%), Gaps = 7/276 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ E+ + PML+ +EE+ LA R R+H D AA RLV+SHLRLVV+IAM + R + Sbjct: 154 LHLYLREVSRFPMLKPEEEHELAVRVRDHNDADAAFRLVSSHLRLVVRIAMDFQRRWMQN 213 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++V EGN+GLM+AV KFDP++G + + Y+ +WIKA + ++I+ +W +VKIGTT Q++ Sbjct: 214 VLDLVQEGNVGLMRAVNKFDPDKGIKFSYYASFWIKAYILKFIMDNWRMVKIGTTQVQRK 273 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LF+NL R + Q + P+ + ++++L V+E ++ M+ RLA D SLNA + Sbjct: 274 LFYNLNRER---QKLIMQGYDPDAAM-LSERLGVTEEQINEMDQRLASTDMSLNAQVG-E 328 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + D+L G E L E R+ L M LN +E+ I R L + P+ Sbjct: 329 DSGGATRMDFLPALGPGIEDSLASTEIAGIVRSKLKTIMPKLNEKEQYILHNRLLSDEPI 388 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 TL + + ++RERVRQ+EAR +K+ + ++ +E Sbjct: 389 TLREIGERYNITRERVRQLEARLVEKIGQHMKNDIE 424 >gi|197123044|ref|YP_002134995.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] gi|196172893|gb|ACG73866.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] Length = 322 Score = 187 bits (476), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 112/289 (38%), Positives = 176/289 (60%), Gaps = 14/289 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ E+ + P+L + EE+ LA +YRE GD+ AA+RLV S+LRLVVKIA YR + Sbjct: 36 LRAYMAEVARHPVLSRDEEHALAVQYRETGDVDAAYRLVASNLRLVVKIAHEYRRTAFQL 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++V EGN+GLMQAVKK+DP +G +L++Y+ WWI+A + +I+ +W LVK+GTT Q++L Sbjct: 96 LDLVQEGNLGLMQAVKKYDPWKGVKLSSYAAWWIRAYIIRFIMENWRLVKLGTTQAQRKL 155 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 FFNL + + L A ++P + +AK L V E +V M+ R+A D+ SL+A + + Sbjct: 156 FFNLSKEREKLLA---RGIEPTPRL-LAKNLQVEEKDVEEMSARMAADDLSLDAPVGTEG 211 Query: 195 KNSSQWQ-DWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + Q + D L D + E+ R R + S ++ + +ER IFE R L + Sbjct: 212 DDGRQNRLDRLADDGGPSPDAALGDEQLRRIFREKLDAFSGTLTDEKERYIFEHRLLPPD 271 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV---ELSSSP 294 P+TL+ + F ++RER RQIEA+ +++E ++ ++ EL P Sbjct: 272 GTPPLTLQEVGDHFRLTRERARQIEAKLTGRLREFLRAEIPDFELLGPP 320 >gi|90023234|ref|YP_529061.1| RNA polymerase factor sigma-32 [Saccharophagus degradans 2-40] gi|89952834|gb|ABD82849.1| CheW protein [Saccharophagus degradans 2-40] Length = 284 Score = 187 bits (475), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 105/272 (38%), Positives = 164/272 (60%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ YI + + +L +EE LA+ +L AA ++V +HLR VV IA Y GYGL Sbjct: 17 LNAYIQTVNGVAVLTAEEEKALAEDLYYRDNLDAARKMVMAHLRFVVHIAKSYSGYGLSQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+F+PE+G RL ++++ WIKA + E+ILR+W +VKI TT Q++L Sbjct: 77 SDLIQEGNVGLMKAVKRFNPEKGVRLVSFAVHWIKAEIHEFILRNWRIVKIATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L +T++ + A+A+ LNV V M RLA D + +A + D Sbjct: 137 FFNLRGQKKRLAWLTNS-----EAEAVAQDLNVDVKHVREMEGRLASFDATFDAGADEDD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + Q + D L+E E+ +N + LT ++ L+ R R I + R L ++ Sbjct: 192 DTAYQAPANYLEDRRYDPSTLLEDEDWTENSVSGLTTALESLDDRSRDILQQRWLSDDKS 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L++++ VS ER+RQ+E A KKV+ ++ Sbjct: 252 TLHDLAAQYGVSAERIRQLEKNAMKKVKTYLE 283 >gi|220917834|ref|YP_002493138.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] gi|219955688|gb|ACL66072.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] Length = 322 Score = 187 bits (475), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 112/289 (38%), Positives = 176/289 (60%), Gaps = 14/289 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ E+ + P+L + EE+ LA +YRE GD+ AA+RLV S+LRLVVKIA YR + Sbjct: 36 LRAYMAEVARHPVLSRDEEHALAVQYRETGDVDAAYRLVASNLRLVVKIAHEYRRTAFQL 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++V EGN+GLMQAVKK+DP +G +L++Y+ WWI+A + +I+ +W LVK+GTT Q++L Sbjct: 96 LDLVQEGNLGLMQAVKKYDPWKGVKLSSYAAWWIRAYIIRFIMENWRLVKLGTTQAQRKL 155 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 FFNL + + L A ++P + +AK L V E +V M+ R+A D+ SL+A + + Sbjct: 156 FFNLSKEREKLLA---RGIEPTPRL-LAKNLQVEEKDVEEMSARMAADDLSLDAPVGTEG 211 Query: 195 KNSSQWQ-DWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + Q + D L D + E+ R R + S ++ + +ER IFE R L + Sbjct: 212 DDGRQNRLDRLADDGGPSPDAALGDEQLRRIFREKLDAFSGTLTDEKERYIFEHRLLPPD 271 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV---ELSSSP 294 P+TL+ + F ++RER RQIEA+ +++E ++ ++ EL P Sbjct: 272 GTPPLTLQEVGDHFRLTRERARQIEAKLTGRLREFLRAEIPDFELLGPP 320 >gi|319404792|emb|CBI78393.1| RNA polymerase sigma-32 factor [Bartonella rochalimae ATCC BAA-1498] Length = 247 Score = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 96/236 (40%), Positives = 156/236 (66%), Gaps = 3/236 (1%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H++ +H+RLV+ IA ++ + +P+ ++V EG +GL++A +FDP+RG R +TY+ WWI+ Sbjct: 2 HQIAAAHMRLVISIASRFKRFKMPLGDLVQEGYVGLLEAAARFDPDRGVRFSTYATWWIR 61 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVS 169 A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ L A DN L +++ AI++KL VS Sbjct: 62 ASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAKL-AQDDNTLTKQEIFRAISEKLGVS 120 Query: 170 ESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ++V M+ R +G D SL+ I+ + + D L+ DH + V+ + + + R L Sbjct: 121 VNDVEKMDFRFSGTDNSLSLSISENGETPIAKMDSLIDDHPLPDSVIEQAIDGQRRAQWL 180 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++ +LN RE I RRL E TLE L + +S+ERVRQIE RA +K++ ++ Sbjct: 181 HEALQILNERELEIIRFRRLNEEGTTLEVLGEKLGISKERVRQIEVRALQKLRCAL 236 >gi|283787904|ref|YP_003367769.1| RNA polymerase sigma-32 factor [Citrobacter rodentium ICC168] gi|282951358|emb|CBG91057.1| RNA polymerase sigma-32 factor [Citrobacter rodentium ICC168] Length = 284 Score = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 113/287 (39%), Positives = 169/287 (58%), Gaps = 11/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + ++ D++ SQ ++Y D IE++ +++ + LT +M L+ R Sbjct: 178 -QDMTFDMSPDDESDSQPMAPVLYLQDKTSNFADGIEEDNWEDQAASKLTHAMEGLDERS 236 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 237 QAIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|86157650|ref|YP_464435.1| sigma 32 (RpoH) [Anaeromyxobacter dehalogenans 2CP-C] gi|85774161|gb|ABC80998.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-C] Length = 322 Score = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 112/289 (38%), Positives = 180/289 (62%), Gaps = 14/289 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ E+ + P+L + EE+ LA +YRE GD+ AA++LV S+LRLVVKIA YR + Sbjct: 36 LRAYMAEVARHPVLSRDEEHALAVQYRETGDVDAAYKLVASNLRLVVKIAHEYRRTAFQL 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++V EGN+GLMQAVKK+DP +G +L++Y+ WWI+A + +I+ +W LVK+GTT Q++L Sbjct: 96 LDLVQEGNLGLMQAVKKYDPWKGVKLSSYAAWWIRAYIIRFIMENWRLVKLGTTQAQRKL 155 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 FFNL + + L A ++P + +AK L V E +V M+ R+A D+ SL+A + + Sbjct: 156 FFNLSKEREKLLA---RGIEPTPRL-LAKNLQVEEKDVEEMSARMAADDLSLDAPVGTEG 211 Query: 195 KNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRRNMLTR-SMSVLNPRERRIFEARRLQEN 251 + Q + + D GQ + L +++ R+ R L S ++ + +ER IFE R L + Sbjct: 212 DDGRQNRLDRLADDGGQAPDAALGDEQLRRIFREKLDAFSGTLTDEKERYIFEHRLLPPD 271 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV---ELSSSP 294 P+TL+ + F ++RER RQIEA+ +++E ++ ++ EL P Sbjct: 272 GTPPLTLQEVGDHFRLTRERARQIEAKLTGRLREFLRAEIPDFELLGPP 320 >gi|330831381|ref|YP_004394333.1| RNA polymerase sigma factor [Aeromonas veronii B565] gi|328806517|gb|AEB51716.1| RNA polymerase sigma factor [Aeromonas veronii B565] Length = 284 Score = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 112/287 (39%), Positives = 171/287 (59%), Gaps = 13/287 (4%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++ M++I G L YI + IP+L +EE LA+R ++ GDL AA +LV SHLR VV Sbjct: 6 QRTMALIPQG--SLEGYIQAVNSIPVLSAEEERELAERLQQDGDLEAARQLVMSHLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP +++V EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+LR+W Sbjct: 64 HVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEYVLRNWR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L L E+V A+A L VS ++V M R+A Sbjct: 124 MVKVATTKAQRKLFFNLRKSKKRL-----GWLNHEEVQAVAADLGVSAADVTEMEARMAN 178 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRE 239 + L+ ++ + D IE ++ RR L+ +++ L+ R Sbjct: 179 YDQAFDLVGDDEEEGGFAPVHYLEDKSSDLAATIENDNWDDHATRR--LSSALATLDERS 236 Query: 240 RRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L ++ TL+ L+ + VS ERVRQ+E A KK++++++ Sbjct: 237 QHIIRARWLDDDSKTTLQELADTYGVSAERVRQLEKNALKKLKDAME 283 >gi|167854819|ref|ZP_02477597.1| RNA polymerase factor sigma-32 [Haemophilus parasuis 29755] gi|219871694|ref|YP_002476069.1| RNA polymerase factor sigma-32 [Haemophilus parasuis SH0165] gi|167854117|gb|EDS25353.1| RNA polymerase factor sigma-32 [Haemophilus parasuis 29755] gi|219691898|gb|ACL33121.1| RNA polymerase factor sigma-32 [Haemophilus parasuis SH0165] Length = 315 Score = 187 bits (474), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 107/286 (37%), Positives = 168/286 (58%), Gaps = 30/286 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+R+ DL AA +L+ SHLR VV IA GY GYGLP+ Sbjct: 46 LDSYIRMANQYPVLTAEQEKELAERFYYDEDLDAAKQLIMSHLRFVVYIARGYLGYGLPL 105 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+PE G RLA++++ W+KA + EY+L++W +VK+ TT +Q++L Sbjct: 106 ADLIQEGNIGLMKAVKRFNPEIGVRLASFAVHWVKAEIHEYVLKNWRIVKVATTKSQRKL 165 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-----DESLNALI 190 FFNLR+ K L + E++ +A++L VS +V M R+ G D S+ Sbjct: 166 FFNLRKNKQRLAWFNE-----EEIRKVAEELGVSTDDVKEMESRMVGQDIGFDTSVGDDD 220 Query: 191 NSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRI 242 + + + SS + D L Y EE R L +++ L+ R + I Sbjct: 221 DDNYVPSMYLEDESSNFVDELEY------------EEYSGRATAQLAYALAQLDERSQNI 268 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + R L EN TL L++++ +S ERVRQ+E +A KK+++ I + Sbjct: 269 IKTRWLDENKATLHELAAQYNISAERVRQLENQALKKIKDVITYDI 314 >gi|92115102|ref|YP_575030.1| RNA polymerase factor sigma-32 [Chromohalobacter salexigens DSM 3043] gi|91798192|gb|ABE60331.1| RNA polymerase, sigma 32 subunit, RpoH [Chromohalobacter salexigens DSM 3043] Length = 288 Score = 186 bits (473), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 113/274 (41%), Positives = 162/274 (59%), Gaps = 13/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ YI + +I +L +EE L R E GDL AA RLV SHLR VV IA Y GYGLP Sbjct: 17 LNGYIQAVNRIAVLSSEEERELGFRLYEQGDLEAARRLVMSHLRFVVHIARSYSGYGLPQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFDPTQGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR K L + NN ++V AIAK L+V V M RL A D +A + + Sbjct: 137 FFNLRGAKKRLAWL--NN---DEVDAIAKDLDVKPQVVREMEGRLSAFDAGYDATPSEEE 191 Query: 195 KNSSQ----WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 Q + D +D Q + +E+ +R L ++ L+ R R I + R L E Sbjct: 192 DQGYQAPAHYLDDERFDPAAQLEAADWEEDSTHR---LQAALGELDERSRDILQRRWLAE 248 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + TL L+ + VS ER+RQ+E A KK+++ + Sbjct: 249 SKATLHELADVYGVSAERIRQLEKNAMKKIKQQL 282 >gi|83643468|ref|YP_431903.1| RNA polymerase factor sigma-32 [Hahella chejuensis KCTC 2396] gi|83631511|gb|ABC27478.1| RNA polymerase sigma-32 factor RpoH [Hahella chejuensis KCTC 2396] Length = 284 Score = 186 bits (473), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 113/270 (41%), Positives = 165/270 (61%), Gaps = 11/270 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L +EE LA+R+ ++ DL AA +LV +HLR VV IA Y GYGL Sbjct: 17 LEGYVHAVNSIPVLSAEEERELAERFHQNEDLYAARQLVMAHLRFVVHIAKSYSGYGLSQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLVQEGNIGLMKAVKRFNPEFGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L +T++ K A+A+ L V V M RLAG D S +A + D Sbjct: 137 FFNLRSAKKRLAWLTNDEAK-----AVAEDLGVDTHVVREMESRLAGQDTSFDAGADEDD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + + + D +++E EE N R L +++ L+ R + I + R L EN Sbjct: 192 ETAFKAPANYLEDRRYDPAMMLENENWEEDSNSR--LHDALTQLDERSKDIIQKRWLAEN 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L+ E+ VS ER+RQ+E A KKV+ Sbjct: 250 KATLHELADEYGVSAERIRQLEKNAMKKVK 279 >gi|307251409|ref|ZP_07533324.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306856577|gb|EFM88718.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 4 str. M62] Length = 316 Score = 186 bits (473), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 99/270 (36%), Positives = 160/270 (59%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 108 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 109 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAIHWVKAEIHEYVLKNWRIVKVATTKAQRKL 168 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A+ L VS EV M R+ G + L D Sbjct: 169 FFNLRKNKNRLAWFNE-----EEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLPVGEDD 223 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 + + D+ +E E+ + L +++ L+ R + I + R L E T Sbjct: 224 DEVYTPSMYLEDNSSNFADDLEDEQYNGQATAQLAYALATLDERSQDIIKTRWLDEEKAT 283 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L++L+ ++ +S ERVRQ+E A KK++++I Sbjct: 284 LQDLAEKYGISAERVRQLENAALKKIKDAI 313 >gi|303251140|ref|ZP_07337324.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307253519|ref|ZP_07535389.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|302649991|gb|EFL80163.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306859020|gb|EFM91063.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 316 Score = 186 bits (473), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 99/270 (36%), Positives = 160/270 (59%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 108 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 109 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVATTKAQRKL 168 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A+ L VS EV M R+ G + L D Sbjct: 169 FFNLRKNKNRLAWFNE-----EEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLPVGEDD 223 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 + + D+ +E E+ + L +++ L+ R + I + R L E T Sbjct: 224 DEVYTPSMYLEDNSSNFADDLEDEQYNGQATAQLAYALATLDKRSQDIIKTRWLDEEKAT 283 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L++L+ ++ +S ERVRQ+E A KK++++I Sbjct: 284 LQDLAEKYGISAERVRQLENAALKKIKDAI 313 >gi|162457339|ref|YP_001619706.1| RNA polymerase sigma factor rpoD [Sorangium cellulosum 'So ce 56'] gi|161167921|emb|CAN99226.1| RNA polymerase sigma factor rpoD [Sorangium cellulosum 'So ce 56'] Length = 443 Score = 186 bits (473), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 110/285 (38%), Positives = 174/285 (61%), Gaps = 11/285 (3%) Query: 11 NGEIGLSR------YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +G++ LSR Y+ E+++ +L EE L +Y + D++ A RLVT++LRLVVK+ Sbjct: 156 SGDVALSRTDPLQAYLREVQRHALLTPDEEKELTIKYTKTQDVATAARLVTANLRLVVKL 215 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A YR I +++ EGNIGLMQAVK++DP RG +L++Y+ WWI+A + +IL +W LV Sbjct: 216 AYEYRRAYKNIMDLIQEGNIGLMQAVKRYDPYRGVKLSSYAAWWIRAYILRFILNNWRLV 275 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GD 183 K+GTT Q++LFFNL + K L A+ ++P IAK+L+V E EV+ M+ RLA G+ Sbjct: 276 KLGTTQAQRKLFFNLNKEKAKLSAM---GIEP-TAAEIAKRLSVEEKEVVDMDRRLASGE 331 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL+A + + + + LV + E + L++ L ++ IF Sbjct: 332 ASLDAPVGDLEGRTIPRVELLVSSGASPDTAFEASEMGMLVHDRLSKFRETLKGKDVIIF 391 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + R E+P+TL+ L +EF +SRERVRQ+EAR K++ +Q+++ Sbjct: 392 DKRMAAEDPLTLQELGNEFGISRERVRQLEARLQSKLRTYLQEEL 436 >gi|46143484|ref|ZP_00135165.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126209296|ref|YP_001054521.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae L20] gi|126098088|gb|ABN74916.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 316 Score = 186 bits (473), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 99/270 (36%), Positives = 160/270 (59%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 108 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 109 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVATTKAQRKL 168 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A+ L VS EV M R+ G + L D Sbjct: 169 FFNLRKNKNRLAWFNE-----EEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLPVGEDD 223 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 + + D+ +E E+ + L +++ L+ R + I + R L E T Sbjct: 224 DEVYTPSMYLEDNSSNFADDLEDEQYNGQATAQLAYALATLDERSQDIIKTRWLDEEKAT 283 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L++L+ ++ +S ERVRQ+E A KK++++I Sbjct: 284 LQDLAEKYGISAERVRQLENAALKKIKDAI 313 >gi|165977273|ref|YP_001652866.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|190151190|ref|YP_001969715.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|303252711|ref|ZP_07338873.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307248906|ref|ZP_07530917.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307262328|ref|ZP_07543976.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|307264539|ref|ZP_07546123.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|165877374|gb|ABY70422.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|189916321|gb|ACE62573.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|302648450|gb|EFL78644.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|306854601|gb|EFM86793.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306867991|gb|EFM99819.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306870138|gb|EFN01898.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 316 Score = 186 bits (472), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 99/270 (36%), Positives = 160/270 (59%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 108 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 109 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVATTKAQRKL 168 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A+ L VS EV M R+ G + L D Sbjct: 169 FFNLRKNKNRLAWFNE-----EEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLPVGEDD 223 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVT 254 + + D+ +E E+ + L +++ L+ R + I + R L E T Sbjct: 224 DEVYTPSMYLEDNSSNFADDLEDEQYNGQATAQLAYALATLDERSQDIIKTRWLDEEKAT 283 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L++L+ ++ +S ERVRQ+E A KK++++I Sbjct: 284 LQDLAEKYGISAERVRQLENAALKKIKDAI 313 >gi|294638156|ref|ZP_06716412.1| alternative sigma factor RpoH [Edwardsiella tarda ATCC 23685] gi|291088723|gb|EFE21284.1| alternative sigma factor RpoH [Edwardsiella tarda ATCC 23685] Length = 284 Score = 186 bits (472), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 169/289 (58%), Gaps = 10/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+++ ++ + + L Y+ PML +EE L +R GDL AA +L+ SHLR Sbjct: 1 MSKEMQTLTLVPQGSLEAYVRAANAYPMLTAEEERALGERLHYQGDLDAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L VSE +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVSEKDVLEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + L N ++ + +++ D E E+ + + L+ ++ L+ Sbjct: 176 AAQDMAFDLPNDDEQEGAPAAP-VLFLQDKSSDFANEIEDDNWESHAADKLSVALEGLDE 234 Query: 238 RERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L EN TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 235 RSQHIIRARWLDSENKATLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|303327038|ref|ZP_07357480.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Desulfovibrio sp. 3_1_syn3] gi|302863026|gb|EFL85958.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Desulfovibrio sp. 3_1_syn3] Length = 352 Score = 186 bits (472), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 107/271 (39%), Positives = 166/271 (61%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ E+ + PML+ +EE+ LA R R+H D AA RLV+SHLRLVV+IAM + R + Sbjct: 73 LHLYLREVSRFPMLKPEEEHELALRVRDHNDPDAAFRLVSSHLRLVVRIAMDFQRRWMQN 132 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++V EGN+GLM+AV KFDP++G + + Y+ +WIKA + ++I+ +W +VKIGTT Q++ Sbjct: 133 VLDLVQEGNVGLMRAVNKFDPDKGIKFSYYASFWIKAYILKFIMDNWRMVKIGTTQVQRK 192 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LF+NL R + Q + P+ + ++++L V+E ++ M+ RLA D SLN + Sbjct: 193 LFYNLNRER---QKLIAQGYDPDAAM-LSERLGVTEDQINEMDQRLASTDLSLNVQV-GE 247 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + D+L G E L E R+ L M LN +E I + R L + PV Sbjct: 248 DSGGASRMDFLPALGPGIEDTLASDEIAGLVRSRLKTIMPKLNEKEVYILQNRLLTDEPV 307 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL + + V+RERVRQ+EAR +K+++ + Sbjct: 308 TLREIGERYNVTRERVRQLEARLLEKIRQHL 338 >gi|304397877|ref|ZP_07379753.1| RNA polymerase, sigma 32 subunit, RpoH [Pantoea sp. aB] gi|308188475|ref|YP_003932606.1| RNA polymerase sigma-32 factor [Pantoea vagans C9-1] gi|304354588|gb|EFM18959.1| RNA polymerase, sigma 32 subunit, RpoH [Pantoea sp. aB] gi|308058985|gb|ADO11157.1| RNA polymerase sigma-32 factor [Pantoea vagans C9-1] Length = 285 Score = 186 bits (472), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 113/289 (39%), Positives = 167/289 (57%), Gaps = 14/289 (4%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L Y+ PML +EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQTLAIAPLGNLESYVRAANTWPMLSAEEEKALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP +++V EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYSGYGLPQADLVQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDW--LVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNP 237 + + S+D SS+ + ++Y D EE + + L+ +M L+ Sbjct: 178 QDMTFDM--SADDESSEGRSMAPVLYLQDKTSDFADGIEEDNWDAHAADKLSYAMEGLDE 235 Query: 238 RERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L E N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDEDNKTTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|119503515|ref|ZP_01625598.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] gi|119460577|gb|EAW41669.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] Length = 282 Score = 186 bits (472), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 158/273 (57%), Gaps = 11/273 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ + IP+L E LA++ G + +A LV +HLR VV IA Y GYGL Sbjct: 15 LPAYVQAVSGIPILSVDREQALAEKLYYEGCVDSARELVLAHLRFVVHIARSYSGYGLAE 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP +G RL ++++ WIKA M E+ILR+W +VK+ TT Q++L Sbjct: 75 GDLIQEGNVGLMKAVKRFDPNKGVRLVSFAVHWIKAEMHEFILRNWRIVKVATTKAQRKL 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L L E+ AIA L V E+EV M RL+ D + + ++ D Sbjct: 135 FFNLRSAKKSL-----GWLNAEETQAIAADLGVDEAEVQRMEGRLSSRDIAFDLPTDADD 189 Query: 195 KNSSQWQDWLVY--DHDGQEQVLIEKEER-KNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +++ WQ Y D IE E+ ++ N L ++S L+ R R I R L E Sbjct: 190 EDA--WQSPQAYLDDISTDPARCIEAEDSARDGENRLRAALSDLDERSRNIVTQRWLAEQ 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E+ VS ER+RQ+E A KK++ ++ Sbjct: 248 KATLHELAAEYGVSAERIRQLEVNAMKKLKNTL 280 >gi|289207353|ref|YP_003459419.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. K90mix] gi|288942984|gb|ADC70683.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. K90mix] Length = 289 Score = 186 bits (472), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 101/273 (36%), Positives = 169/273 (61%), Gaps = 9/273 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ + +I +L+ + E LA+ E DL AA +L+ +LR VV +A GY+GYGLP+ Sbjct: 20 LDHYMQAVSRIEVLDPEHERELARSLHERNDLDAARQLILHNLRFVVHVARGYQGYGLPL 79 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AV++FDP +G RL ++++ WI+A + E+ILR+W +VK+ TT Q++L Sbjct: 80 GDLIQEGNVGLMKAVRRFDPNQGVRLVSFAVHWIRAEIHEFILRNWRIVKVATTKAQRKL 139 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L ++++ +V A+A+ L VSE++V M RL+ D S + +S D Sbjct: 140 FFNLRSAKQRLGWMSND-----EVSAVARDLGVSENDVWEMERRLSSQDASFDPAPDSDD 194 Query: 195 KNS--SQWQDWLVYD-HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +++ + Q + D D QV +++ ++ + L ++ L+ R R I R + E Sbjct: 195 EHTYLAPAQRLSIEDMSDDPAQVAEDEDWDRHYQERLASTLGELDERSRDILARRYMSEP 254 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E+ VS ER+RQIE A K+++ + Sbjct: 255 KATLHELAAEYGVSAERIRQIENNAIKRIRTAF 287 >gi|119475401|ref|ZP_01615754.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] gi|119451604|gb|EAW32837.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] Length = 282 Score = 186 bits (471), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 108/272 (39%), Positives = 164/272 (60%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ + P+L + E+ LA+ H +L +A LV +HLR VV IA Y GYGLP+ Sbjct: 16 LNAYMQTVNNFPVLTAEREHELAEALYYHENLESARELVMAHLRFVVHIARSYNGYGLPL 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+F+PE+G RL ++++ W+KA M EYILR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKRFNPEKGVRLVSFAVHWVKAEMHEYILRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR K L + + ++ AIA+ LNV EV M RL A D +A + D Sbjct: 136 FFNLRGAKKKLAWLNE-----KEAHAIAEDLNVDVKEVRRMESRLTASDLGFDAGADDED 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 +L DH +L+E + +N L ++ L+ R R I +AR L ++ Sbjct: 191 DGFVAPAHYL-EDHSANPAMLLEDADWEQNSNQHLQLALEQLDERSRDIIQARWLSDSKS 249 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L+ ++ VS ERVRQ+E A KKV+ +++ Sbjct: 250 TLHDLAGKYGVSAERVRQLEKNAMKKVRATME 281 >gi|262376306|ref|ZP_06069536.1| alternative sigma factor RpoH [Acinetobacter lwoffii SH145] gi|262308907|gb|EEY90040.1| alternative sigma factor RpoH [Acinetobacter lwoffii SH145] Length = 289 Score = 186 bits (471), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 107/271 (39%), Positives = 158/271 (58%), Gaps = 8/271 (2%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L YI + +IP+L ++E LA+RY DL AA LV SHLR VV IA Y GYGL Sbjct: 18 VNLGAYISTVNQIPILTAEQEKELAERYYYDQDLDAAKMLVMSHLRFVVHIARSYAGYGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P +++ EGN+GLM+AVK+FDP G RL ++++ WIKA + EY++R+W +VKI TT Q+ Sbjct: 78 PQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAEIHEYVIRNWRIVKIATTKAQR 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 +LFFNLR LK + L + +IA LNV+ +V+ M RL ++ + Sbjct: 138 KLFFNLRSLKK-----SSKKLTLAEAQSIANDLNVTPEQVLEMEGRLTAYDAAFDASSDD 192 Query: 194 DKNSSQWQDWLVYDHDGQEQV--LIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQE 250 D S +Y D + LIE E+ + + + L +M L+ R R I + R L + Sbjct: 193 DDEGSTHVAPALYLEDNRYDPARLIENEDYEEQSTSALHEAMDQLDDRSRNILQRRWLDD 252 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L++E+ VS ER+RQ+E A +K++ Sbjct: 253 EKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|117618742|ref|YP_854903.1| alternative sigma factor RpoH [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117560149|gb|ABK37097.1| alternative sigma factor RpoH [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 284 Score = 186 bits (471), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 112/287 (39%), Positives = 171/287 (59%), Gaps = 13/287 (4%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++ M++I G L YI + IP+L +EE LA+R ++ GDL AA +LV SHLR VV Sbjct: 6 QRTMALIPQGS--LEGYIQAVNSIPVLSAEEERELAERLQQGGDLEAARQLVMSHLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP +++V EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+LR+W Sbjct: 64 HVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPSVGVRLVSFAVHWIKAEIHEYVLRNWR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L L E+V A+A L VS ++V M R++ Sbjct: 124 MVKVATTKAQRKLFFNLRKSKKRL-----GWLNHEEVQAVAADLGVSAADVTEMEARMSN 178 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRE 239 + L+ ++ + D IE ++ RR L+ +++ L+ R Sbjct: 179 YDQAFDLVGDDEEEGGFAPVHYLEDKSSDLAATIENDNWDDHATRR--LSSALATLDERS 236 Query: 240 RRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E+ TL+ L+ + VS ERVRQ+E A KK++++++ Sbjct: 237 QHIIRARWLDDESKTTLQELADTYGVSAERVRQLEKNALKKLKDAME 283 >gi|291619275|ref|YP_003522017.1| RpoH [Pantoea ananatis LMG 20103] gi|291154305|gb|ADD78889.1| RpoH [Pantoea ananatis LMG 20103] gi|327395604|dbj|BAK13026.1| RNA polymerase sigma-32 factor RpoH [Pantoea ananatis AJ13355] Length = 285 Score = 185 bits (470), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 109/287 (37%), Positives = 161/287 (56%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L Y+ PML +EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQTLAIAPLGNLESYVRAANTWPMLSAEEEKALAERLHYQGDLDAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRE 239 + + + + ++Y D EE + + LT +M L+ R Sbjct: 178 QDMTFDMSADDESGEGKSMAPVLYLQDKTSDFADGIEEDNWESHAADKLTYAMEGLDERS 237 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 QHIIRARWLDEDNKTTLQELADRYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|307246764|ref|ZP_07528832.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307255748|ref|ZP_07537551.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307257933|ref|ZP_07539687.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|307260200|ref|ZP_07541909.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306852339|gb|EFM84576.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306861308|gb|EFM93299.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306863580|gb|EFM95509.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306865745|gb|EFM97624.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 316 Score = 185 bits (470), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 99/270 (36%), Positives = 160/270 (59%), Gaps = 6/270 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + P+L ++E LA+RY D+ AA +L+ SH+R V+ IA GY GYGLP+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAERYYYDEDVEAAKQLILSHMRFVIHIARGYLGYGLPL 108 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK+FDP G RL ++++ W+KA + EY+L++W +VK+ TT Q++L Sbjct: 109 ADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVATTKAQRKL 168 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L + E++ +A+ L VS EV M R+ G + L D Sbjct: 169 FFNLRKNKNRLAWFNE-----EEIQKVAEDLGVSLEEVREMESRMTGQDLGFDLPVGEDD 223 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQENPVT 254 + + D+ +E E+ + L +++ L+ R + I + R L E T Sbjct: 224 DEVYTPSMYLEDNSSNFADDLEDEQYNGQATAQLAYALATLDERSQDIIKTRWLDEEKAT 283 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L++L+ ++ +S ERVRQ+E A KK++++I Sbjct: 284 LQDLAEKYGISAERVRQLENAALKKIKDAI 313 >gi|1710646|sp|P50509|RP32_PROMI RecName: Full=RNA polymerase sigma-32 factor gi|1143374|dbj|BAA09441.1| sigma-32 homolog [Proteus mirabilis] Length = 284 Score = 185 bits (470), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 110/285 (38%), Positives = 169/285 (59%), Gaps = 10/285 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 ++++++ G I YI PML +EE LA+R GDL AA L+ SHLR V+ Sbjct: 6 QSLALVPQGSI--EAYIRAANSYPMLTAEEEKELAERLHYEGDLEAAKTLILSHLRFVIH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +A Y GYGLP ++++ EGNIGLM+AV+ F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 64 VARSYSGYGLPQADLIQEGNIGLMKAVRHFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AG 182 VK+ TT +Q++LFFNLR+ K L ++V +AK+L VSES+V M R+ A Sbjct: 124 VKVATTKSQRKLFFNLRKNKKRL-----GWFNQDEVELVAKELGVSESDVREMESRMSAQ 178 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERR 241 D + + + SD + D IE++ N + LT ++ L+ R + Sbjct: 179 DMAFDMSADDSDDPHPVAPVLFLEDKSSDFADGIEEDNWDNHAADRLTLAIKTLDERSQD 238 Query: 242 IFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L+ +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 239 IIRARWLEDDNKSTLQELADKYGVSAERVRQLEKNAMKKLRLAIE 283 >gi|307128894|ref|YP_003880910.1| RNA polymerase sigma-32 (sigma H) factor [Dickeya dadantii 3937] gi|306526423|gb|ADM96353.1| RNA polymerase, sigma 32 (sigma H) factor [Dickeya dadantii 3937] Length = 285 Score = 185 bits (470), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 105/274 (38%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R HGDL AA +L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYHGDLDAAKQLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKTKQRL-----GWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFDPSPEDDA 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 Q ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 QPGQPMAPMLYLQDKSSDFADGIEEDNWETHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADHYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|149909450|ref|ZP_01898105.1| RNA polymerase sigma factor [Moritella sp. PE36] gi|149807560|gb|EDM67509.1| RNA polymerase sigma factor [Moritella sp. PE36] Length = 287 Score = 185 bits (470), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 107/289 (37%), Positives = 171/289 (59%), Gaps = 13/289 (4%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + ++M+++ G I YI + IPML ++E L +R + GD+ AA +L+ SHLR V Sbjct: 4 DMQSMALVPQGSI--EAYIQGVNNIPMLTAEQEKELGERLQNEGDVDAARQLIMSHLRFV 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V +A GY GYGL ++++ EGNIGLM+AVK+F+PE G RL ++++ W+KA + E++LR+W Sbjct: 62 VHVARGYAGYGLAQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWVKAEIHEFVLRNW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT Q++LFFNLR+ K L T +K +A+ L VS +V+ M R++ Sbjct: 122 RVVKVATTKAQRKLFFNLRKSKKRLGWFTSAEVKT-----VAETLGVSTKDVVEMESRMS 176 Query: 182 -GDESLNALINSSDKNSSQWQDW--LVYDHDGQEQVLIEKEER---KNRRNMLTRSMSVL 235 D++ + + S + Y D V ++ E K+ LT ++S L Sbjct: 177 YSDQAFDLYADDDSDKDSGSTSFSPAQYLEDNASDVALQVERENWDKSASLSLTNAISEL 236 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + R + I ++R L E+ TL+ L+ + VS ERVRQ+E A KK++E I Sbjct: 237 DERSQDIVKSRWLAEDKATLQYLADRYGVSAERVRQLEKNAMKKLREFI 285 >gi|317486415|ref|ZP_07945242.1| alternative sigma factor RpoH [Bilophila wadsworthia 3_1_6] gi|316922325|gb|EFV43584.1| alternative sigma factor RpoH [Bilophila wadsworthia 3_1_6] Length = 403 Score = 185 bits (470), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 104/290 (35%), Positives = 178/290 (61%), Gaps = 7/290 (2%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 +++++ + + + L Y+ E+ + PML+ EE+ LA+R ++ GD AA RLV+SHLRLV Sbjct: 110 SQQHLPSLSSSKDSLHLYLREVSRFPMLKPDEEFDLARRVQKTGDSDAAFRLVSSHLRLV 169 Query: 62 VKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VKIAM + R + + +++ EGN+GLM+AV KFDP++G + + Y+ +WI+A + ++I+ + Sbjct: 170 VKIAMDFQRRWMQNVLDLIQEGNVGLMRAVNKFDPDKGIKFSYYAAFWIRAYILKFIMDN 229 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VKIGTT Q++LF+NL R + L A P+ +A++L V E +++ M RL Sbjct: 230 WRMVKIGTTQAQRKLFYNLNRERQKLIA---EGFDPD-AATLAERLGVGEDQIVEMQQRL 285 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 A D SL+A + + S+ D+L G E+ L E + ++ + + L+ +E Sbjct: 286 DASDMSLDATVG-DESGSATRMDFLPALGPGIEESLAGMEIAELLQSKIRDILPSLSEKE 344 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 I E R L ++PVTL + + V+RERVRQ+EAR +K++ + ++ Sbjct: 345 AYILEHRLLTDDPVTLREIGERYNVTRERVRQLEARLLQKLKTHLSTDIQ 394 >gi|312884403|ref|ZP_07744108.1| RNA polymerase factor sigma-32 [Vibrio caribbenthicus ATCC BAA-2122] gi|309367925|gb|EFP95472.1| RNA polymerase factor sigma-32 [Vibrio caribbenthicus ATCC BAA-2122] Length = 285 Score = 185 bits (469), Expect = 8e-45, Method: Compositional matrix adjust. Identities = 105/272 (38%), Positives = 162/272 (59%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ + PML +EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYVRSVNSYPMLTAEEERELAERLHYDGEIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L +V +A++L V SEV M RLA ++ + + D Sbjct: 136 FFNLRKSKKRLGWFNQG-----EVETVARELGVEPSEVREMESRLAAQDATFEVPSDDDD 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + +VY D + E + N L+ ++ L+ R + I +R L +N Sbjct: 191 AHTSYVAPMVYLEDKASDIADNIEAANWEAHTNNRLSLALKSLDERSQHIVRSRWLDDNK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL+ L+ ++VS ER+RQ+E A KK+++++ Sbjct: 251 STLQELAETYQVSAERIRQLEKNAMKKLKDAV 282 >gi|121730259|ref|ZP_01682638.1| RNA polymerase sigma-32 factor [Vibrio cholerae V52] gi|121627991|gb|EAX60548.1| RNA polymerase sigma-32 factor [Vibrio cholerae V52] Length = 259 Score = 184 bits (468), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 105/262 (40%), Positives = 159/262 (60%), Gaps = 11/262 (4%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 ML EE LA+R GD+ AA L+ SHLR VV +A GY GYGLP++++V EGNIGLM Sbjct: 1 MLSADEERELAERLHYKGDIDAAKGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++LFFNLR+ K L Sbjct: 61 KAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLG 120 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +V +A++L V +EV M RLA ++ + D+N + ++Y Sbjct: 121 WFNNG-----EVETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDENGMAYTAPVLYL 175 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERRIFEARRL-QENPVTLENLSSEF 262 D L + E +N T+ +S+ L+ R + I AR L +N TL++L+ + Sbjct: 176 EDKHSD-LADNLEAENWEAHTTQRLSMALASLDERSQHIVRARWLDDDNKTTLQDLAEMY 234 Query: 263 EVSRERVRQIEARAFKKVQESI 284 VS ER+RQ+E A +K++E++ Sbjct: 235 GVSAERIRQLEKNAMRKLKEAV 256 >gi|120556648|ref|YP_960999.1| RNA polymerase factor sigma-32 [Marinobacter aquaeolei VT8] gi|120326497|gb|ABM20812.1| RNA polymerase, sigma 32 subunit, RpoH [Marinobacter aquaeolei VT8] Length = 286 Score = 184 bits (468), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 157/268 (58%), Gaps = 7/268 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI +IP+L EE LA+R HGD+ AA +LV SHLR V+ IA Y GYGL Sbjct: 17 LESYIQAASRIPVLSVDEERELAERLHYHGDVEAARQLVLSHLRFVIHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + + LK A+A L V V M RLA D + + ++ + Sbjct: 137 FFNLRSQKKKLAWLNHDELK-----AVANDLGVEPHVVREMEGRLASQDTAFDGPMDDDE 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 N+ Q + + D V +E + ++ L +++ L+ R + I R L E+ Sbjct: 192 DNAYQAPAYYLEDRRSDPAVQLENADWSEDSNGRLMQALEQLDERSQDILRERWLSESKS 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L+ ++ VS ER+RQ+E A KK++ Sbjct: 252 TLHELADKYGVSAERIRQLEKNAMKKIR 279 >gi|251791618|ref|YP_003006339.1| RNA polymerase factor sigma-32 [Dickeya zeae Ech1591] gi|247540239|gb|ACT08860.1| RNA polymerase, sigma 32 subunit, RpoH [Dickeya zeae Ech1591] Length = 285 Score = 184 bits (468), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 104/274 (37%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R HGDL AA +L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYHGDLDAAKQLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+P+ G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKTKQRL-----GWFNQDEVEMVARELGVTSKDVREMESRMAAQDMTFDPSPEDDA 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 Q ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 QPGQPMAPMLYLQDKSSDFADGIEEDNWETHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADHYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|117926357|ref|YP_866974.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] gi|117610113|gb|ABK45568.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] Length = 297 Score = 184 bits (468), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 114/291 (39%), Positives = 163/291 (56%), Gaps = 35/291 (12%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 GE G R++ + + PML EEY LA YR H DL AAHRLV +HLRLV+KIA Y Sbjct: 18 QGEEGFQRFLKQAAQAPMLSADEEYQLATNYRRHNDLEAAHRLVHAHLRLVLKIAREYLY 77 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 Y + ++V EG+IGLM AVKKFD +RG RLATY++WWI+AA+ ++IL + +VK+ TT Sbjct: 78 YRSSLPDLVQEGSIGLMHAVKKFDAQRGNRLATYAVWWIRAAIHDFILNTAHMVKVATTK 137 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNAL 189 ++ LFF LR+ K L + N + E+ +A K ++ M+ RLAG D SLN Sbjct: 138 LKRHLFFKLRQAKSSLAPL--NQQEAEE---LAVKFATDAQTILEMDSRLAGADSSLNQP 192 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR-------------NMLTRSMSVLN 236 + +D G+ L+E +ER N+ ++ + + LN Sbjct: 193 L---------------FDEGGELIELLE-DERPNQELQLQSAQQQQRLGRLVKQGLKQLN 236 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RE+ I +R + E+ E L+ F++S ERVRQIE RA K++ Q Q Sbjct: 237 EREQAIIISRFMGEHAEPREQLAQRFQISGERVRQIEQRAMAKLRSYFQSQ 287 >gi|53802588|ref|YP_112675.1| RNA polymerase factor sigma-32 [Methylococcus capsulatus str. Bath] gi|53756349|gb|AAU90640.1| RNA polymerase sigma-32 factor [Methylococcus capsulatus str. Bath] Length = 286 Score = 184 bits (468), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 107/272 (39%), Positives = 168/272 (61%), Gaps = 8/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y + ++P L+ EE LA R+R+ DL AA RLV ++LR V IA GY GYGLP+ Sbjct: 16 IDDYFAAVNRLPRLDADEERELAIRFRDEQDLEAARRLVLANLRFVAYIARGYLGYGLPL 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AVK++DP+ G RL ++++ WI+A + E+I+++W +VKI TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVKRYDPDVGVRLVSFAVHWIRAEIHEFIIQNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALI-NSS 193 FFNLR++K L +T PE+ A+A +L V +V M RL D +L A + Sbjct: 136 FFNLRKMKNRLGWLT-----PEEAAAVAAELGVDVEDVYKMENRLNNPDMALEAHGEDDG 190 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQENP 252 D S + G +LIE E +NR+ L ++ L+ R R I +R L E+ Sbjct: 191 DDRESHAPIHYLQQEGGDPALLIEHSEWENRQQEKLQEAIGQLDERSRDIVASRWLSEDK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +TL +L++ + VS ER+RQ+E+ A KK++ ++ Sbjct: 251 LTLHDLAARYNVSAERIRQLESSAMKKLRNAL 282 >gi|300718824|ref|YP_003743627.1| RNA polymerase sigma-32 factor [Erwinia billingiae Eb661] gi|299064660|emb|CAX61780.1| RNA polymerase sigma-32 factor [Erwinia billingiae Eb661] Length = 284 Score = 184 bits (468), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 108/287 (37%), Positives = 164/287 (57%), Gaps = 11/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQTLAIAPLGNLDSYIRAANVWPMLTAEEEKALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L E+V +A++L V+ +V+ M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKAKQRL-----GWFNQEEVEMVARELGVTSKDVLEMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRE 239 + + D+ + ++Y D EE + + L+ +M L+ R Sbjct: 178 -QDMTFDPTPDDEGEGRSMAPMLYLQDKSSDFADGIEEDNWESHAADKLSDAMQGLDERS 236 Query: 240 RRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 237 QNIIRARWLDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLRVAIE 283 >gi|163869170|ref|YP_001610422.1| RNA polymerase factor sigma-32 [Bartonella tribocorum CIP 105476] gi|161018869|emb|CAK02427.1| RNA polymerase sigma-32 factor [Bartonella tribocorum CIP 105476] Length = 303 Score = 184 bits (467), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 101/263 (38%), Positives = 169/263 (64%), Gaps = 5/263 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P LE+Q+E+ LA R+++ D A H++ +H+RLV+ IA ++ + +P+ ++V EG + Sbjct: 32 KAPYLERQKEHDLALRWKDKRDDDAMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYV 91 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A +F+P+R R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ Sbjct: 92 GLLEAAARFEPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRA 151 Query: 145 HLQAITDNNLKPEQVV--AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 L + D++ +Q + IA+KL VS +V +M+ R + ++ ++ S + +S + Sbjct: 152 KL--VQDDSALSKQDIFRTIAEKLGVSVRDVETMDFRFSSSDNSLSVSVSENSDSPVAKM 209 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 ++ D LIE+ RR L ++ +LN RE I RRL E TLE L + Sbjct: 210 DVLVDESPLPDALIEQVIDGQRRTQWLYDALQILNERELEIIRFRRLNEEGATLEVLGEK 269 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ERVRQIEARA +K++ ++ Sbjct: 270 LGISKERVRQIEARALQKLRSAL 292 >gi|254482649|ref|ZP_05095887.1| alternative sigma factor RpoH [marine gamma proteobacterium HTCC2148] gi|214037008|gb|EEB77677.1| alternative sigma factor RpoH [marine gamma proteobacterium HTCC2148] Length = 284 Score = 184 bits (467), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 106/272 (38%), Positives = 163/272 (59%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ + IP+L + E LA+ + +L+AA LV SHLR VV IA Y GYGL Sbjct: 17 LAAYVQAVGSIPVLSPERERELAEDLFYNDNLTAARELVMSHLRFVVHIARSYSGYGLAE 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+A+K+FDPE+G RL ++++ WIKA M EYILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAIKRFDPEKGVRLVSFAVHWIKAEMHEYILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L ++ + K A+A+ L V EV M RL + L +++ Sbjct: 137 FFNLRSKKKSLSWLSADEAK-----AVAEDLGVDVKEVHRMEGRLTSRD-LAYDMSTDSD 190 Query: 196 NSSQWQ--DWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + WQ + + DH Q + E + ++N + L +++ L+ R R I R L E+ Sbjct: 191 DDDAWQAPQYYLEDHSSDPAQTVEEGDWKQNSQAQLHSALADLDERSRNILAQRWLAEDK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+EA A KK++ +I Sbjct: 251 STLHELADQYGVSAERIRQLEANAMKKLKVAI 282 >gi|260767580|ref|ZP_05876516.1| RNA polymerase sigma-32 factor [Vibrio furnissii CIP 102972] gi|260617480|gb|EEX42663.1| RNA polymerase sigma-32 factor [Vibrio furnissii CIP 102972] gi|315178774|gb|ADT85688.1| RNA polymerase sigma-32 factor [Vibrio furnissii NCTC 11218] Length = 258 Score = 184 bits (467), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 100/244 (40%), Positives = 150/244 (61%), Gaps = 10/244 (4%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD+ AA L+ SHLR VV +A GY GYGLP++++V EGNIGLM+AVK+F+PE G RL ++ Sbjct: 18 GDIEAAKGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSF 77 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ WIKA + EY+LR+W +VKI TT Q++LFFNLR+ K L + +V +A+ Sbjct: 78 AVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNG-----EVETVAR 132 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN- 223 +L V SEV M RLA ++ + N D N + + ++Y D Q L E E +N Sbjct: 133 ELGVEPSEVREMESRLAAQDATFEMSNDDDDNPNAYTAPVLYLEDKQSD-LAENVEAQNW 191 Query: 224 ---RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L ++S L+ R + I +R L + TL+ L+ + VS ER+RQ+E A KK+ Sbjct: 192 EAHTNQRLALALSSLDERSQHIVRSRWLDDQKATLQELAEMYNVSAERIRQLEKNAMKKL 251 Query: 281 QESI 284 ++++ Sbjct: 252 KDAV 255 >gi|146410|gb|AAA23991.1| heat shock regulatory protein [Escherichia coli] Length = 284 Score = 184 bits (467), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 114/300 (38%), Positives = 167/300 (55%), Gaps = 32/300 (10%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M K S+ + L YI PML EE LA++ HGDL AA L+ SHLR Sbjct: 1 MTDKMQSLALAPVGNLDSYIRAANAWPMLSADEERALAEKLHYHGDLEAAKTLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVTSKDVREMESRM 175 Query: 181 AGDE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 A + ++ ++ DK SS + D + D + +EQ N Sbjct: 176 AAQDMTFDLASDDDSDSHAMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------N 223 Query: 227 MLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 LT +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 224 RLTDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|240140689|ref|YP_002965169.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|240010666|gb|ACS41892.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] Length = 262 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 104/252 (41%), Positives = 166/252 (65%), Gaps = 1/252 (0%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 +A ++E D A HRL+++H+RLV+ +A +R YGLP++++V EG++GLM+A +F+PE Sbjct: 1 MAVAWKEARDERALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPE 60 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 R R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L T+ + Sbjct: 61 REVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARLMQSTEEQVGS 120 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E IA + VS +V M+ RL+G D SLNA + + SS+ D+LV + ++ + Sbjct: 121 EIHGRIATAIGVSREDVALMDARLSGPDMSLNAPVGEESEASSERMDFLVDNAALPDETV 180 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + + R L ++++VL+ RE RI RRL E+ TLE L +S+ERVRQIE R Sbjct: 181 SALVDGERRLIWLRQALTVLSERELRILRERRLAEDQATLEALGHRLGISKERVRQIENR 240 Query: 276 AFKKVQESIQKQ 287 A +K++ ++ ++ Sbjct: 241 ALEKLRRALAEK 252 >gi|329295846|ref|ZP_08253182.1| RNA polymerase factor sigma-32 [Plautia stali symbiont] Length = 285 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 107/286 (37%), Positives = 164/286 (57%), Gaps = 11/286 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N++I G L Y+ P+L +EE LA+R GDL AA L+ SHLR VV Sbjct: 6 QNLAIAPLG--NLESYVRAANNWPVLTAEEEKALAERLHYQGDLDAAKTLILSHLRFVVH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 64 IARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK TT Q++LFFNLR+ K L ++V +A++L VS +V+ M R+A Sbjct: 124 VKAATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVLEMESRMAAQ 178 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRER 240 + + + D + ++Y D EE + + L+ +M L+ R + Sbjct: 179 DMTFDMSSDDDAGEGKPMAPVLYLQDKTSDFADGIEEDNWDAHAADKLSDAMLSLDERSQ 238 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 239 HIIRARWLDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|271502546|ref|YP_003335572.1| RNA polymerase sigma-32 subunit RpoH [Dickeya dadantii Ech586] gi|270346101|gb|ACZ78866.1| RNA polymerase, sigma 32 subunit, RpoH [Dickeya dadantii Ech586] Length = 285 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 104/274 (37%), Positives = 156/274 (56%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML EE LA+R HGDL AA +L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTADEERALAERLHYHGDLDAAKQLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+P+ G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKTKQRL-----GWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFDPSPEDDA 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 Q ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 QPGQPMAPMLYLQDKSSDFADGIEEDNWETHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADHYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|145300817|ref|YP_001143658.1| RNA polymerase sigma-32 factor [Aeromonas salmonicida subsp. salmonicida A449] gi|142853589|gb|ABO91910.1| RNA polymerase sigma-32 factor [Aeromonas salmonicida subsp. salmonicida A449] Length = 284 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 111/288 (38%), Positives = 176/288 (61%), Gaps = 15/288 (5%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++ M++I G L YI + IP+L +EE LA+R ++ GDL AA +LV SHLR VV Sbjct: 6 QRTMALIPQGS--LEGYIQAVNSIPVLTAEEERELAERLQQGGDLEAARQLVMSHLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP +++V EGNIGLM+AVK+FDP G RL ++++ WIKA + EY+LR+W Sbjct: 64 HVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEYVLRNWR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L + + +V A+A +L VS ++V M R++ Sbjct: 124 MVKVATTKAQRKLFFNLRKSKKRLGWFSHD-----EVQAVAAELGVSPTDVTEMEARMSN 178 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPR 238 D++ + + + D+ +L D IE ++ RR L+ +++ L+ R Sbjct: 179 YDQAFDLVGDDEDEGGFAPVHYL-EDKSSDLAATIENDNWDDHATRR--LSSALATLDER 235 Query: 239 ERRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L ++ TL+ L+ + VS ERVRQ+E A KK++++++ Sbjct: 236 SQHIIRARWLDDDSKTTLQELADTYGVSAERVRQLEKNALKKLKDAME 283 >gi|290473624|ref|YP_003466496.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Xenorhabdus bovienii SS-2004] gi|289172929|emb|CBJ79700.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Xenorhabdus bovienii SS-2004] Length = 285 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 106/289 (36%), Positives = 172/289 (59%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L Y+ PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEGYVRASNAYPMLSAEEEKELAERLHYQGDLDAAKKLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARSYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKAKQRL-----GWFNQDEVDLVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNP 237 + + + ++ D + SQ ++Y D IE++ +N + L+ ++ L+ Sbjct: 176 SAQDMAFDMSSNDDSHDSQPVAPVLYLQDKASDFADGIEEDNWENHAADKLSMAIEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQDIIRARWLDDDNKSTLQELADKYGVSAERVRQLEKNAMKKLRLAIE 284 >gi|262195735|ref|YP_003266944.1| RNA polymerase, sigma 70 family subunit [Haliangium ochraceum DSM 14365] gi|262079082|gb|ACY15051.1| putative RNA polymerase, sigma 70 family subunit [Haliangium ochraceum DSM 14365] Length = 389 Score = 183 bits (465), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 105/276 (38%), Positives = 173/276 (62%), Gaps = 7/276 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS YI E ++ P+L ++EE+ LA + E+ D AA RL+ ++LRLVVKI+ YR + Sbjct: 106 LSAYIQETKRYPLLSREEEHDLAVKLVENEDADAARRLIEANLRLVVKISYEYRRAYRNL 165 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLMQAV+K+DP RG +L++Y+ WWI+A + ++IL +W LVKIGTT Q++L Sbjct: 166 LDLIQEGNIGLMQAVRKYDPYRGVKLSSYAAWWIRAYILKFILNNWRLVKIGTTQAQRKL 225 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR+ + L+ + P + +A+ L+V+E EV+ M RL A D SL+A + + Sbjct: 226 FFNLRKERERLEQL---GFTPTPAL-LAENLDVTEKEVVEMEKRLSAPDASLDAPMQGEE 281 Query: 195 KNSSQWQ-DWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + + D+L + D ++ + + + ++ R L R L RE IF R L + P Sbjct: 282 DGAPRTRMDYLPTEETDRPDRQVAQSQFQELLREKLERFAETLEGREETIFRERWLTDTP 341 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ + ++ VSRER RQ+E R ++++ ++ ++ Sbjct: 342 STLQQIGDQYGVSRERARQLEKRLLGRLRKYLEAEL 377 >gi|253686510|ref|YP_003015700.1| RNA polymerase, sigma 32 subunit, RpoH [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251753088|gb|ACT11164.1| RNA polymerase, sigma 32 subunit, RpoH [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 285 Score = 183 bits (465), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 103/274 (37%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R GDL AA L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYQGDLDAAKHLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKTKTRL-----GWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFDPTPEEDS 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 + + ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 HDGKAMSPMLYLQDKSSDFADGIEEDNWDTHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADQYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|15803973|ref|NP_290009.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 EDL933] gi|15833564|ref|NP_312337.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. Sakai] gi|16131333|ref|NP_417918.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. MG1655] gi|26250076|ref|NP_756116.1| RNA polymerase factor sigma-32 [Escherichia coli CFT073] gi|74314061|ref|YP_312480.1| RNA polymerase factor sigma-32 [Shigella sonnei Ss046] gi|82545824|ref|YP_409771.1| RNA polymerase factor sigma-32 [Shigella boydii Sb227] gi|82778725|ref|YP_405074.1| RNA polymerase factor sigma-32 [Shigella dysenteriae Sd197] gi|89110551|ref|AP_004331.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. W3110] gi|91212950|ref|YP_542936.1| RNA polymerase factor sigma-32 [Escherichia coli UTI89] gi|110643701|ref|YP_671431.1| RNA polymerase factor sigma-32 [Escherichia coli 536] gi|117625739|ref|YP_859062.1| RNA polymerase factor sigma-32 [Escherichia coli APEC O1] gi|157158396|ref|YP_001464926.1| RNA polymerase factor sigma-32 [Escherichia coli E24377A] gi|157162938|ref|YP_001460256.1| RNA polymerase factor sigma-32 [Escherichia coli HS] gi|168747045|ref|ZP_02772067.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4113] gi|168753229|ref|ZP_02778236.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4401] gi|168759499|ref|ZP_02784506.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4501] gi|168765824|ref|ZP_02790831.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4486] gi|168772630|ref|ZP_02797637.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4196] gi|168779560|ref|ZP_02804567.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4076] gi|168785282|ref|ZP_02810289.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC869] gi|168797247|ref|ZP_02822254.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC508] gi|170018307|ref|YP_001723261.1| RNA polymerase factor sigma-32 [Escherichia coli ATCC 8739] gi|170082975|ref|YP_001732295.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. DH10B] gi|170683649|ref|YP_001745710.1| RNA polymerase factor sigma-32 [Escherichia coli SMS-3-5] gi|170766775|ref|ZP_02901228.1| alternative sigma factor RpoH [Escherichia albertii TW07627] gi|187730400|ref|YP_001882152.1| RNA polymerase factor sigma-32 [Shigella boydii CDC 3083-94] gi|188495507|ref|ZP_03002777.1| alternative sigma factor RpoH [Escherichia coli 53638] gi|191169502|ref|ZP_03031234.1| alternative sigma factor RpoH [Escherichia coli B7A] gi|191170346|ref|ZP_03031899.1| alternative sigma factor RpoH [Escherichia coli F11] gi|193061907|ref|ZP_03043004.1| alternative sigma factor RpoH [Escherichia coli E22] gi|193068783|ref|ZP_03049743.1| alternative sigma factor RpoH [Escherichia coli E110019] gi|194427076|ref|ZP_03059628.1| alternative sigma factor RpoH [Escherichia coli B171] gi|194431093|ref|ZP_03063386.1| alternative sigma factor RpoH [Shigella dysenteriae 1012] gi|194435828|ref|ZP_03067931.1| alternative sigma factor RpoH [Escherichia coli 101-1] gi|195934955|ref|ZP_03080337.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. EC4024] gi|208806017|ref|ZP_03248354.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4206] gi|208814463|ref|ZP_03255792.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4045] gi|208821158|ref|ZP_03261478.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4042] gi|209398124|ref|YP_002272905.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4115] gi|209920920|ref|YP_002295004.1| RNA polymerase factor sigma-32 [Escherichia coli SE11] gi|215488736|ref|YP_002331167.1| RNA polymerase factor sigma-32 [Escherichia coli O127:H6 str. E2348/69] gi|217325718|ref|ZP_03441802.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. TW14588] gi|218550723|ref|YP_002384514.1| RNA polymerase factor sigma-32 [Escherichia fergusonii ATCC 35469] gi|218556012|ref|YP_002388925.1| RNA polymerase factor sigma-32 [Escherichia coli IAI1] gi|218560529|ref|YP_002393442.1| RNA polymerase factor sigma-32 [Escherichia coli S88] gi|218691746|ref|YP_002399958.1| RNA polymerase factor sigma-32 [Escherichia coli ED1a] gi|218697144|ref|YP_002404811.1| RNA polymerase factor sigma-32 [Escherichia coli 55989] gi|218702206|ref|YP_002409835.1| RNA polymerase factor sigma-32 [Escherichia coli IAI39] gi|218707055|ref|YP_002414574.1| RNA polymerase factor sigma-32 [Escherichia coli UMN026] gi|227883607|ref|ZP_04001412.1| RNA polymerase factor sigma-32 [Escherichia coli 83972] gi|237703208|ref|ZP_04533689.1| alternative sigma factor RpoH [Escherichia sp. 3_2_53FAA] gi|238902552|ref|YP_002928348.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli BW2952] gi|253771710|ref|YP_003034541.1| RNA polymerase factor sigma-32 [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254038629|ref|ZP_04872685.1| alternative sigma factor RpoH [Escherichia sp. 1_1_43] gi|254163385|ref|YP_003046493.1| RNA polymerase factor sigma-32 [Escherichia coli B str. REL606] gi|254795381|ref|YP_003080218.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. TW14359] gi|256020809|ref|ZP_05434674.1| RNA polymerase factor sigma-32 [Shigella sp. D9] gi|256025815|ref|ZP_05439680.1| RNA polymerase factor sigma-32 [Escherichia sp. 4_1_40B] gi|260846245|ref|YP_003224023.1| RNA polymerase, sigma 32 factor [Escherichia coli O103:H2 str. 12009] gi|260857567|ref|YP_003231458.1| RNA polymerase, sigma 32 factor [Escherichia coli O26:H11 str. 11368] gi|260870186|ref|YP_003236588.1| RNA polymerase, sigma 32 factor [Escherichia coli O111:H- str. 11128] gi|261224744|ref|ZP_05939025.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli O157:H7 str. FRIK2000] gi|261254361|ref|ZP_05946894.1| RNA polymerase, sigma 32 factor [Escherichia coli O157:H7 str. FRIK966] gi|291284801|ref|YP_003501619.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|293407042|ref|ZP_06650966.1| RNA polymerase factor sigma-32 [Escherichia coli FVEC1412] gi|293412884|ref|ZP_06655552.1| alternative sigma factor RpoH [Escherichia coli B354] gi|293416865|ref|ZP_06659502.1| alternative sigma factor RpoH [Escherichia coli B185] gi|293453766|ref|ZP_06664185.1| alternative sigma factor RpoH [Escherichia coli B088] gi|297517521|ref|ZP_06935907.1| RNA polymerase factor sigma-32 [Escherichia coli OP50] gi|298382788|ref|ZP_06992383.1| RNA polymerase sigma-32 factor [Escherichia coli FVEC1302] gi|300815334|ref|ZP_07095559.1| alternative sigma factor RpoH [Escherichia coli MS 107-1] gi|300822733|ref|ZP_07102870.1| alternative sigma factor RpoH [Escherichia coli MS 119-7] gi|300898837|ref|ZP_07117141.1| alternative sigma factor RpoH [Escherichia coli MS 198-1] gi|300907388|ref|ZP_07125036.1| alternative sigma factor RpoH [Escherichia coli MS 84-1] gi|300917205|ref|ZP_07133887.1| alternative sigma factor RpoH [Escherichia coli MS 115-1] gi|300930998|ref|ZP_07146356.1| alternative sigma factor RpoH [Escherichia coli MS 187-1] gi|300936478|ref|ZP_07151398.1| alternative sigma factor RpoH [Escherichia coli MS 21-1] gi|300946790|ref|ZP_07161034.1| alternative sigma factor RpoH [Escherichia coli MS 116-1] gi|300956796|ref|ZP_07169063.1| alternative sigma factor RpoH [Escherichia coli MS 175-1] gi|300985247|ref|ZP_07177344.1| alternative sigma factor RpoH [Escherichia coli MS 45-1] gi|300987360|ref|ZP_07178168.1| alternative sigma factor RpoH [Escherichia coli MS 200-1] gi|301018548|ref|ZP_07182926.1| alternative sigma factor RpoH [Escherichia coli MS 69-1] gi|301021811|ref|ZP_07185775.1| alternative sigma factor RpoH [Escherichia coli MS 196-1] gi|301050314|ref|ZP_07197203.1| alternative sigma factor RpoH [Escherichia coli MS 185-1] gi|301302348|ref|ZP_07208480.1| alternative sigma factor RpoH [Escherichia coli MS 124-1] gi|301645904|ref|ZP_07245818.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] gi|306816195|ref|ZP_07450333.1| RNA polymerase factor sigma-32 [Escherichia coli NC101] gi|307140144|ref|ZP_07499500.1| RNA polymerase factor sigma-32 [Escherichia coli H736] gi|307311872|ref|ZP_07591510.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli W] gi|309794740|ref|ZP_07689162.1| alternative sigma factor RpoH [Escherichia coli MS 145-7] gi|312968227|ref|ZP_07782437.1| alternative sigma factor RpoH [Escherichia coli 2362-75] gi|331644161|ref|ZP_08345290.1| alternative sigma factor RpoH [Escherichia coli H736] gi|331649268|ref|ZP_08350354.1| alternative sigma factor RpoH [Escherichia coli M605] gi|331655044|ref|ZP_08356043.1| alternative sigma factor RpoH [Escherichia coli M718] gi|331659757|ref|ZP_08360695.1| alternative sigma factor RpoH [Escherichia coli TA206] gi|331665070|ref|ZP_08365971.1| alternative sigma factor RpoH [Escherichia coli TA143] gi|331670287|ref|ZP_08371126.1| alternative sigma factor RpoH [Escherichia coli TA271] gi|331674946|ref|ZP_08375703.1| alternative sigma factor RpoH [Escherichia coli TA280] gi|331679529|ref|ZP_08380199.1| alternative sigma factor RpoH [Escherichia coli H591] gi|331685107|ref|ZP_08385693.1| alternative sigma factor RpoH [Escherichia coli H299] gi|332282016|ref|ZP_08394429.1| RNA polymerase sigma 32 (sigma H) factor [Shigella sp. D9] gi|84028120|sp|P0AGB5|RP32_ECO57 RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein F33.4 gi|84028121|sp|P0AGB4|RP32_ECOL6 RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein F33.4 gi|84028122|sp|P0AGB3|RP32_ECOLI RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein F33.4 gi|12518117|gb|AAG58570.1|AE005569_10 RNA polymerase, sigma(32) factor; regulation of proteins induced at high temperatures [Escherichia coli O157:H7 str. EDL933] gi|26110505|gb|AAN82690.1|AE016768_108 RNA polymerase sigma-32 factor [Escherichia coli CFT073] gi|147732|gb|AAA24587.1| RNA polymerase sigma-32 subunit [Escherichia coli] gi|466597|gb|AAB18436.1| RNA polymerase sigma-32 subunit [Escherichia coli str. K-12 substr. MG1655] gi|1789871|gb|AAC76486.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. MG1655] gi|13363784|dbj|BAB37733.1| RNA polymerase sigma32 factor [Escherichia coli O157:H7 str. Sakai] gi|73671328|gb|AAZ80075.1| RpoH [Escherichia coli LW1655F+] gi|73857538|gb|AAZ90245.1| RNA polymerase, sigma(32) factor [Shigella sonnei Ss046] gi|81242873|gb|ABB63583.1| RNA polymerase, sigma(32) factor [Shigella dysenteriae Sd197] gi|81247235|gb|ABB67943.1| RNA polymerase sigma(32) factor [Shigella boydii Sb227] gi|85676582|dbj|BAE77832.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K12 substr. W3110] gi|91074524|gb|ABE09405.1| component of RNA polymerase, sigma 32 factor [Escherichia coli UTI89] gi|110345293|gb|ABG71530.1| RNA polymerase sigma-32 factor [Escherichia coli 536] gi|115514863|gb|ABJ02938.1| RNA polymerase sigma factor [Escherichia coli APEC O1] gi|157068618|gb|ABV07873.1| alternative sigma factor RpoH [Escherichia coli HS] gi|157080426|gb|ABV20134.1| alternative sigma factor RpoH [Escherichia coli E24377A] gi|169753235|gb|ACA75934.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli ATCC 8739] gi|169890810|gb|ACB04517.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. DH10B] gi|170124213|gb|EDS93144.1| alternative sigma factor RpoH [Escherichia albertii TW07627] gi|170521367|gb|ACB19545.1| alternative sigma factor RpoH [Escherichia coli SMS-3-5] gi|187427392|gb|ACD06666.1| alternative sigma factor RpoH [Shigella boydii CDC 3083-94] gi|187771635|gb|EDU35479.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4196] gi|188018405|gb|EDU56527.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4113] gi|188490706|gb|EDU65809.1| alternative sigma factor RpoH [Escherichia coli 53638] gi|189002511|gb|EDU71497.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4076] gi|189359084|gb|EDU77503.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4401] gi|189364663|gb|EDU83082.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4486] gi|189369524|gb|EDU87940.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4501] gi|189374649|gb|EDU93065.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC869] gi|189380077|gb|EDU98493.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC508] gi|190900463|gb|EDV60280.1| alternative sigma factor RpoH [Escherichia coli B7A] gi|190909154|gb|EDV68740.1| alternative sigma factor RpoH [Escherichia coli F11] gi|192932697|gb|EDV85294.1| alternative sigma factor RpoH [Escherichia coli E22] gi|192957859|gb|EDV88302.1| alternative sigma factor RpoH [Escherichia coli E110019] gi|194415037|gb|EDX31307.1| alternative sigma factor RpoH [Escherichia coli B171] gi|194420548|gb|EDX36624.1| alternative sigma factor RpoH [Shigella dysenteriae 1012] gi|194425371|gb|EDX41355.1| alternative sigma factor RpoH [Escherichia coli 101-1] gi|208725818|gb|EDZ75419.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4206] gi|208735740|gb|EDZ84427.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4045] gi|208741281|gb|EDZ88963.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4042] gi|209159524|gb|ACI36957.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4115] gi|209756038|gb|ACI76331.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756040|gb|ACI76332.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756042|gb|ACI76333.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756044|gb|ACI76334.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756046|gb|ACI76335.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209914179|dbj|BAG79253.1| RNA polymerase sigma-32 factor [Escherichia coli SE11] gi|215266808|emb|CAS11249.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli O127:H6 str. E2348/69] gi|217321939|gb|EEC30363.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. TW14588] gi|218353876|emb|CAV00268.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli 55989] gi|218358264|emb|CAQ90911.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia fergusonii ATCC 35469] gi|218362780|emb|CAR00406.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli IAI1] gi|218367298|emb|CAR05076.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli S88] gi|218372192|emb|CAR20054.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli IAI39] gi|218429310|emb|CAR10124.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli ED1a] gi|218434152|emb|CAR15069.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli UMN026] gi|222035167|emb|CAP77912.1| RNA polymerase sigma-32 factor [Escherichia coli LF82] gi|226839135|gb|EEH71158.1| alternative sigma factor RpoH [Escherichia sp. 1_1_43] gi|226902472|gb|EEH88731.1| alternative sigma factor RpoH [Escherichia sp. 3_2_53FAA] gi|227839486|gb|EEJ49952.1| RNA polymerase factor sigma-32 [Escherichia coli 83972] gi|238863499|gb|ACR65497.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli BW2952] gi|242378982|emb|CAQ33780.1| RNA polymerase, sigma 32 (sigma H) factor, subunit of RNA polymerase sigma 32 [Escherichia coli BL21(DE3)] gi|253322754|gb|ACT27356.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253975286|gb|ACT40957.1| RNA polymerase sigma factor [Escherichia coli B str. REL606] gi|253979442|gb|ACT45112.1| RNA polymerase sigma factor [Escherichia coli BL21(DE3)] gi|254594781|gb|ACT74142.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli O157:H7 str. TW14359] gi|257756216|dbj|BAI27718.1| RNA polymerase, sigma 32 factor [Escherichia coli O26:H11 str. 11368] gi|257761392|dbj|BAI32889.1| RNA polymerase, sigma 32 factor [Escherichia coli O103:H2 str. 12009] gi|257766542|dbj|BAI38037.1| RNA polymerase, sigma 32 factor [Escherichia coli O111:H- str. 11128] gi|260447523|gb|ACX37945.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli DH1] gi|281180490|dbj|BAI56820.1| RNA polymerase sigma-32 factor [Escherichia coli SE15] gi|284923451|emb|CBG36546.1| RNA polymerase sigma-32 factor [Escherichia coli 042] gi|290764674|gb|ADD58635.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|291321892|gb|EFE61323.1| alternative sigma factor RpoH [Escherichia coli B088] gi|291425853|gb|EFE98887.1| RNA polymerase factor sigma-32 [Escherichia coli FVEC1412] gi|291431441|gb|EFF04426.1| alternative sigma factor RpoH [Escherichia coli B185] gi|291468531|gb|EFF11024.1| alternative sigma factor RpoH [Escherichia coli B354] gi|294492777|gb|ADE91533.1| alternative sigma factor RpoH [Escherichia coli IHE3034] gi|298276624|gb|EFI18142.1| RNA polymerase sigma-32 factor [Escherichia coli FVEC1302] gi|299881444|gb|EFI89655.1| alternative sigma factor RpoH [Escherichia coli MS 196-1] gi|300297943|gb|EFJ54328.1| alternative sigma factor RpoH [Escherichia coli MS 185-1] gi|300306228|gb|EFJ60748.1| alternative sigma factor RpoH [Escherichia coli MS 200-1] gi|300316435|gb|EFJ66219.1| alternative sigma factor RpoH [Escherichia coli MS 175-1] gi|300357522|gb|EFJ73392.1| alternative sigma factor RpoH [Escherichia coli MS 198-1] gi|300399667|gb|EFJ83205.1| alternative sigma factor RpoH [Escherichia coli MS 69-1] gi|300400897|gb|EFJ84435.1| alternative sigma factor RpoH [Escherichia coli MS 84-1] gi|300408118|gb|EFJ91656.1| alternative sigma factor RpoH [Escherichia coli MS 45-1] gi|300415544|gb|EFJ98854.1| alternative sigma factor RpoH [Escherichia coli MS 115-1] gi|300453547|gb|EFK17167.1| alternative sigma factor RpoH [Escherichia coli MS 116-1] gi|300458400|gb|EFK21893.1| alternative sigma factor RpoH [Escherichia coli MS 21-1] gi|300461176|gb|EFK24669.1| alternative sigma factor RpoH [Escherichia coli MS 187-1] gi|300524733|gb|EFK45802.1| alternative sigma factor RpoH [Escherichia coli MS 119-7] gi|300532226|gb|EFK53288.1| alternative sigma factor RpoH [Escherichia coli MS 107-1] gi|300842511|gb|EFK70271.1| alternative sigma factor RpoH [Escherichia coli MS 124-1] gi|301075893|gb|EFK90699.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] gi|305850591|gb|EFM51048.1| RNA polymerase factor sigma-32 [Escherichia coli NC101] gi|306908016|gb|EFN38516.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli W] gi|307555555|gb|ADN48330.1| component of RNA polymerase [Escherichia coli ABU 83972] gi|307628534|gb|ADN72838.1| RNA polymerase factor sigma-32 [Escherichia coli UM146] gi|308121790|gb|EFO59052.1| alternative sigma factor RpoH [Escherichia coli MS 145-7] gi|309703867|emb|CBJ03208.1| RNA polymerase sigma-32 factor [Escherichia coli ETEC H10407] gi|312287052|gb|EFR14962.1| alternative sigma factor RpoH [Escherichia coli 2362-75] gi|312948014|gb|ADR28841.1| RNA polymerase factor sigma-32 [Escherichia coli O83:H1 str. NRG 857C] gi|315062740|gb|ADT77067.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli W] gi|315138035|dbj|BAJ45194.1| RNA polymerase sigma factor [Escherichia coli DH1] gi|315256058|gb|EFU36026.1| alternative sigma factor RpoH [Escherichia coli MS 85-1] gi|315286128|gb|EFU45566.1| alternative sigma factor RpoH [Escherichia coli MS 110-3] gi|315291684|gb|EFU51040.1| alternative sigma factor RpoH [Escherichia coli MS 153-1] gi|315295969|gb|EFU55278.1| alternative sigma factor RpoH [Escherichia coli MS 16-3] gi|320175708|gb|EFW50796.1| RNA polymerase sigma factor RpoH [Shigella dysenteriae CDC 74-1112] gi|320187771|gb|EFW62446.1| RNA polymerase sigma factor RpoH [Shigella flexneri CDC 796-83] gi|320191521|gb|EFW66171.1| RNA polymerase sigma factor RpoH [Escherichia coli O157:H7 str. EC1212] gi|320194037|gb|EFW68670.1| RNA polymerase sigma factor RpoH [Escherichia coli WV_060327] gi|320199638|gb|EFW74228.1| RNA polymerase sigma factor RpoH [Escherichia coli EC4100B] gi|320639745|gb|EFX09339.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. G5101] gi|320645244|gb|EFX14260.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H- str. 493-89] gi|320650555|gb|EFX19021.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H- str. H 2687] gi|320655748|gb|EFX23671.1| RNA polymerase factor sigma-32 [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320661531|gb|EFX28946.1| RNA polymerase factor sigma-32 [Escherichia coli O55:H7 str. USDA 5905] gi|320666554|gb|EFX33537.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. LSU-61] gi|323154300|gb|EFZ40503.1| alternative sigma factor RpoH [Escherichia coli EPECa14] gi|323174100|gb|EFZ59728.1| alternative sigma factor RpoH [Escherichia coli LT-68] gi|323376672|gb|ADX48940.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli KO11] gi|323934553|gb|EGB30953.1| sigma protein RpoH [Escherichia coli E1520] gi|323939321|gb|EGB35532.1| sigma proteinRpoH [Escherichia coli E482] gi|323944315|gb|EGB40390.1| sigma protein RpoH [Escherichia coli H120] gi|323950129|gb|EGB46012.1| sigma proteinRpoH [Escherichia coli H252] gi|323954785|gb|EGB50566.1| sigma proteinRpoH [Escherichia coli H263] gi|323959687|gb|EGB55338.1| sigma proteinRpoH [Escherichia coli H489] gi|323966125|gb|EGB61562.1| sigma proteinRpoH [Escherichia coli M863] gi|323970059|gb|EGB65334.1| sigma proteinRpoH [Escherichia coli TA007] gi|323974898|gb|EGB70009.1| sigma proteinRpoH [Escherichia coli TW10509] gi|324009349|gb|EGB78568.1| alternative sigma factor RpoH [Escherichia coli MS 57-2] gi|324014559|gb|EGB83778.1| alternative sigma factor RpoH [Escherichia coli MS 60-1] gi|324018638|gb|EGB87857.1| alternative sigma factor RpoH [Escherichia coli MS 117-3] gi|324111782|gb|EGC05762.1| sigma proteinRpoH [Escherichia fergusonii B253] gi|324116341|gb|EGC10260.1| sigma proteinRpoH [Escherichia coli E1167] gi|325499010|gb|EGC96869.1| RNA polymerase factor sigma-32 [Escherichia fergusonii ECD227] gi|326337569|gb|EGD61404.1| RNA polymerase sigma factor RpoH [Escherichia coli O157:H7 str. 1044] gi|326344680|gb|EGD68429.1| RNA polymerase sigma factor RpoH [Escherichia coli O157:H7 str. 1125] gi|330909502|gb|EGH38016.1| RNA polymerase sigma factor RpoH [Escherichia coli AA86] gi|331036455|gb|EGI08681.1| alternative sigma factor RpoH [Escherichia coli H736] gi|331041766|gb|EGI13910.1| alternative sigma factor RpoH [Escherichia coli M605] gi|331047059|gb|EGI19137.1| alternative sigma factor RpoH [Escherichia coli M718] gi|331052972|gb|EGI25005.1| alternative sigma factor RpoH [Escherichia coli TA206] gi|331057580|gb|EGI29566.1| alternative sigma factor RpoH [Escherichia coli TA143] gi|331062349|gb|EGI34269.1| alternative sigma factor RpoH [Escherichia coli TA271] gi|331067855|gb|EGI39253.1| alternative sigma factor RpoH [Escherichia coli TA280] gi|331072701|gb|EGI44026.1| alternative sigma factor RpoH [Escherichia coli H591] gi|331077478|gb|EGI48690.1| alternative sigma factor RpoH [Escherichia coli H299] gi|332085344|gb|EGI90516.1| alternative sigma factor RpoH [Shigella boydii 5216-82] gi|332085690|gb|EGI90854.1| alternative sigma factor RpoH [Shigella dysenteriae 155-74] gi|332090225|gb|EGI95323.1| alternative sigma factor RpoH [Shigella boydii 3594-74] gi|332104368|gb|EGJ07714.1| RNA polymerase sigma 32 (sigma H) factor [Shigella sp. D9] gi|332345416|gb|AEE58750.1| alternative sigma factor RpoH [Escherichia coli UMNK88] Length = 284 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 114/300 (38%), Positives = 166/300 (55%), Gaps = 32/300 (10%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M K S+ + L YI PML EE LA++ HGDL AA L+ SHLR Sbjct: 1 MTDKMQSLALAPVGNLDSYIRAANAWPMLSADEERALAEKLHYHGDLEAAKTLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVTSKDVREMESRM 175 Query: 181 AGDE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 A + + ++ DK SS + D + D + +EQ N Sbjct: 176 AAQDMTFDLSSDDDSDSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------N 223 Query: 227 MLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 LT +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 224 RLTDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|301059188|ref|ZP_07200126.1| putative alternative sigma factor RpoH [delta proteobacterium NaphS2] gi|300446678|gb|EFK10505.1| putative alternative sigma factor RpoH [delta proteobacterium NaphS2] Length = 329 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 110/279 (39%), Positives = 177/279 (63%), Gaps = 16/279 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP- 74 L Y+ EI++ +L ++EE LA R +E+ D AA RLVTS+LRLVVKIAM + Y Sbjct: 49 LQIYLLEIKQYHLLTREEEIELATRIQENNDDDAAFRLVTSNLRLVVKIAMDFHRYWTKN 108 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GL+QAV+KFDP RG + + Y+ +WIKA + ++I+ +W +VKIGTT +Q++ Sbjct: 109 LLDLIQEGNLGLLQAVRKFDPYRGIKFSYYASFWIKAYILKFIMDNWKMVKIGTTQSQRK 168 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 LFFNL + + L A PE + +A+KL+V ESEV+ M RL G E SL+A + Sbjct: 169 LFFNLAKERDKLIA---QGFTPEPRL-LAEKLDVKESEVVEMTQRLGGWEISLSAPVGED 224 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM----SVLNPRERRIFEARRLQ 249 + S + D L+ +E K N+LT+S+ L+ +E IF+ R L Sbjct: 225 SRES---YGSFLPDPAMAADDLLSNDESK---NVLTKSLQEFRKTLSGKEADIFDNRILA 278 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E P+TL++L ++++SRER+RQI+ + K +++ +++++ Sbjct: 279 EKPLTLQDLGDKYKISRERIRQIQEKIIKNIRKWLKEKI 317 >gi|300926841|ref|ZP_07142609.1| alternative sigma factor RpoH [Escherichia coli MS 182-1] gi|301329786|ref|ZP_07222521.1| alternative sigma factor RpoH [Escherichia coli MS 78-1] gi|300417191|gb|EFK00502.1| alternative sigma factor RpoH [Escherichia coli MS 182-1] gi|300844135|gb|EFK71895.1| alternative sigma factor RpoH [Escherichia coli MS 78-1] Length = 284 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 114/300 (38%), Positives = 166/300 (55%), Gaps = 32/300 (10%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M K S+ + L YI PML EE LA++ HGDL AA L+ SHLR Sbjct: 1 MTDKMQSLALAPVGNLDSYIRAANAWPMLSADEERALAEKLHYHGDLEAAKTLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVTSKDVREMESRM 175 Query: 181 AGDE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 A + + ++ DK SS + D + D + +EQ N Sbjct: 176 AAQDMTFDQSSDDDSDSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------N 223 Query: 227 MLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 LT +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 224 RLTDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|94676476|ref|YP_588537.1| alternative sigma factor RpoH [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] gi|94219626|gb|ABF13785.1| alternative sigma factor RpoH [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] Length = 286 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 103/283 (36%), Positives = 163/283 (57%), Gaps = 8/283 (2%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +I++ + L Y+ PML +EE LA++ GD+ AA L+ SHLR V+ IA Sbjct: 9 VIIDKKGSLEDYVKAANAYPMLTAEEELKLAEKLHYQGDIEAAKLLILSHLRFVINIART 68 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GY LP ++++ EGNIGLM+AV+KF+PE G RL ++++ WIKA + EY+LR+W +VK+ Sbjct: 69 YSGYNLPQADLIQEGNIGLMKAVRKFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 128 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 TT Q+RLFFNLR++K L E+V +AK+L V+ +V M R+A + Sbjct: 129 TTKAQRRLFFNLRKIKQRL-----GWFNQEEVEMVAKELGVTSKDVREMESRMAAQDIAF 183 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFE 244 I + + ++Y D EE+ + + L ++ L+ R + I Sbjct: 184 DPIPNDEVPDKLLMAPILYLQDKGSDFADRIEEQNWEYHAADKLNIALDKLDERSKNIIA 243 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 AR L TL++L++++ VS ER+RQ+E A KK++ +I+ Q Sbjct: 244 ARWLDNKKSTLQDLANKYGVSAERIRQLEKNAMKKIRMAIEAQ 286 >gi|24114721|ref|NP_709231.1| RNA polymerase factor sigma-32 [Shigella flexneri 2a str. 301] gi|30065262|ref|NP_839433.1| RNA polymerase factor sigma-32 [Shigella flexneri 2a str. 2457T] gi|110807289|ref|YP_690809.1| RNA polymerase factor sigma-32 [Shigella flexneri 5 str. 8401] gi|24053937|gb|AAN44938.1| sigma(32) factor of RNA polymerase [Shigella flexneri 2a str. 301] gi|30043524|gb|AAP19244.1| sigma(32) factor of RNA polymerase [Shigella flexneri 2a str. 2457T] gi|110616837|gb|ABF05504.1| RNA polymerase sigma factor [Shigella flexneri 5 str. 8401] gi|281602809|gb|ADA75793.1| Sigma(32) factor of RNA polymerase [Shigella flexneri 2002017] gi|313647240|gb|EFS11692.1| alternative sigma factor RpoH [Shigella flexneri 2a str. 2457T] gi|332749439|gb|EGJ79856.1| alternative sigma factor RpoH [Shigella flexneri K-671] gi|332750286|gb|EGJ80697.1| alternative sigma factor RpoH [Shigella flexneri 4343-70] gi|332751371|gb|EGJ81774.1| alternative sigma factor RpoH [Shigella flexneri 2747-71] gi|332996248|gb|EGK15875.1| alternative sigma factor RpoH [Shigella flexneri VA-6] gi|332996590|gb|EGK16215.1| alternative sigma factor RpoH [Shigella flexneri K-272] gi|332997356|gb|EGK16972.1| alternative sigma factor RpoH [Shigella flexneri K-218] gi|333012512|gb|EGK31893.1| alternative sigma factor RpoH [Shigella flexneri K-304] gi|333012998|gb|EGK32374.1| alternative sigma factor RpoH [Shigella flexneri K-227] Length = 284 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 114/300 (38%), Positives = 166/300 (55%), Gaps = 32/300 (10%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M K S+ + L YI PML EE LA++ HGDL AA L+ SHLR Sbjct: 1 MTDKMQSLALAPVGNLDSYIRAANAWPMLSADEERALAEKLHYHGDLEAAKTLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVTSKDVREMESRM 175 Query: 181 AGDE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 A + + ++ DK SS + D + D + +EQ N Sbjct: 176 AAQDMTFDLSSDDDSDSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------N 223 Query: 227 MLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 LT +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 224 RLTDAMHGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|261819465|ref|YP_003257571.1| RNA polymerase factor sigma-32 [Pectobacterium wasabiae WPP163] gi|261603478|gb|ACX85964.1| RNA polymerase, sigma 32 subunit, RpoH [Pectobacterium wasabiae WPP163] Length = 285 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 103/274 (37%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R GDL AA L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYQGDLEAAKHLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKTKTRL-----GWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFDPTPEEDS 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 + + ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 HDGKAMSPMLYLQDKSSDFAGGIEEDNWDTHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADQYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|50123263|ref|YP_052430.1| RNA polymerase factor sigma-32 [Pectobacterium atrosepticum SCRI1043] gi|49613789|emb|CAG77240.1| RNA polymerase sigma-32 factor [Pectobacterium atrosepticum SCRI1043] Length = 285 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 103/274 (37%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R GDL AA L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYQGDLEAAKHLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKAKTRL-----GWFNQDEVELVARELGVTTKDVREMESRMAAQDMTFDPTPEEDS 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 + + ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 HDGKAMSPMLYLQDKSSDFADGIEEDNWDTHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADQYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|108760621|ref|YP_631554.1| RNA polymerase sigma-B factor [Myxococcus xanthus DK 1622] gi|108464501|gb|ABF89686.1| RNA polymerase sigma-B factor [Myxococcus xanthus DK 1622] Length = 246 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 100/233 (42%), Positives = 147/233 (63%), Gaps = 4/233 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +VT++LR VVK+A YR YG+ +S+++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A Sbjct: 1 MVTANLRFVVKVAYEYRSYGIKMSDLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAY 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +Q YIL+SWSLVK+GTT Q++LFF+L R + L+ + V IA++L+V E Sbjct: 61 IQNYILKSWSLVKLGTTQAQRKLFFSLARTRRELEKFGSGD-AAVNVDDIARRLHVKPGE 119 Query: 173 VISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V M R+ G D SL+A + NS D++V Q+ +KEE + + Sbjct: 120 VREMEQRMGGRDLSLDAPMGEDGGNSH--VDFVVSAAAPQDDEFADKEEAGLINARVRTA 177 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+PRER I E R + E P+TL+ L F SRER RQ+E RA K++ + Sbjct: 178 LMRLDPRERFIIEQRVMNERPMTLKELGEHFGFSRERARQLEIRAKDKLKSEL 230 >gi|292489953|ref|YP_003532845.1| RNA polymerase sigma-32 factor [Erwinia amylovora CFBP1430] gi|292900984|ref|YP_003540353.1| RNA polymerase sigma-32 factor [Erwinia amylovora ATCC 49946] gi|291200832|emb|CBJ47966.1| RNA polymerase sigma-32 factor [Erwinia amylovora ATCC 49946] gi|291555392|emb|CBA23800.1| RNA polymerase sigma-32 factor [Erwinia amylovora CFBP1430] gi|312174141|emb|CBX82394.1| RNA polymerase sigma-32 factor [Erwinia amylovora ATCC BAA-2158] Length = 284 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 108/286 (37%), Positives = 165/286 (57%), Gaps = 9/286 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQTLAIAPLGNLDSYIRAANAWPMLTAEEEKALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKAKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRER 240 D + + + + S + D IE++ ++ + L+ +M L+ R + Sbjct: 178 QDMTFDPTPDDEGEGRSMAPMLYLQDKSSDFANGIEEDNWEDHAADKLSDAMQGLDERSQ 237 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 238 HIIRARWLDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLRVAIE 283 >gi|149916583|ref|ZP_01905097.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] gi|149809510|gb|EDM69370.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] Length = 189 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 95/189 (50%), Positives = 134/189 (70%), Gaps = 4/189 (2%) Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 +A++QEYILRSWS+VK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V+ Sbjct: 1 RASIQEYILRSWSMVKLGTTSAQKKLFFNLRKAKAKIGALEEGDLRPENVKQIAHDLGVT 60 Query: 170 ESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E+EVISMN R++G D SLNA I S + S +WQDWL + Q ++E + RR ML Sbjct: 61 ETEVISMNRRMSGGDASLNAQIGSDGEGSMEWQDWLEDEDADQASDYERRDELEARREML 120 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +M VLN RER I RRL + VTLE+LS++++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 121 ALAMDVLNERERDILTQRRLSDETVTLEDLSTQYDVSRERIRQIEVRAFEKLQDRMR--- 177 Query: 289 ELSSSPPLL 297 EL++ +L Sbjct: 178 ELAAEKGML 186 >gi|298529795|ref|ZP_07017198.1| putative RNA polymerase, sigma 70 family subunit [Desulfonatronospira thiodismutans ASO3-1] gi|298511231|gb|EFI35134.1| putative RNA polymerase, sigma 70 family subunit [Desulfonatronospira thiodismutans ASO3-1] Length = 336 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 95/272 (34%), Positives = 173/272 (63%), Gaps = 6/272 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISE 77 Y+ ++ P + +EE+ LA+++R+ G+ AA L+TS+LRLVVKIAM + R + + + Sbjct: 60 YLRQVGNFPTMSAEEEFELARKFRDEGNQDAAFMLITSNLRLVVKIAMEFQRKWMKNVLD 119 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GLM+A+KKFDP++G + + Y+ +WI+A + ++I+ +W +VK+GTT Q++LF+ Sbjct: 120 LIQEGNVGLMKALKKFDPDKGIKFSYYASFWIRAYILKFIMDNWRMVKVGTTQAQRKLFY 179 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 NL + K L+++ AI++ L+VSE++V+ M RL G L+ + ++ + Sbjct: 180 NLSKEKQRLESMGIT----ADADAISQSLDVSETDVVEMGQRL-GQHDLSLDMPYNEDSD 234 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 + + DG E++L++ E + + + M L+ +E+ I E R L E+PVTL Sbjct: 235 VTPMNVIPALGDGAEEILLQGETAQLLQQNIKELMPKLSDKEKDIIEMRLLAESPVTLRE 294 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + ++ ++RERVRQIE+R K++ IQ+ ++ Sbjct: 295 IGEKYGITRERVRQIESRLLGKIKAHIQENID 326 >gi|70733139|ref|YP_262912.1| RNA polymerase factor sigma-32 [Pseudomonas fluorescens Pf-5] gi|68347438|gb|AAY95044.1| transcription initiation factor sigma 32 [Pseudomonas fluorescens Pf-5] Length = 284 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 106/272 (38%), Positives = 159/272 (58%), Gaps = 7/272 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 16 NLEAYVHTVNSIPLLTPEQERELAESLYYEQDLEAARQMVLAHLRFVVHIARSYSGYGLA 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++ Sbjct: 76 QADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR K L + NN E+V +A+ L V EV M RL G D + + + Sbjct: 136 LFFNLRSQKKRLAWL--NN---EEVHRVAESLGVEPREVREMESRLTGQDMAFDPAAEAD 190 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 D ++ Q + DH + +E + N + L ++ VL+ R R I R L E Sbjct: 191 DDSAFQSPANYLEDHRYDPALQLEDADWSDNSTSNLHEALEVLDERSRDILYQRWLAEEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 251 ATLHDLAQKYNVSAERIRQLEKSAMNKLKLSI 282 >gi|255020686|ref|ZP_05292748.1| RNA polymerase sigma factor RpoH [Acidithiobacillus caldus ATCC 51756] gi|254969922|gb|EET27422.1| RNA polymerase sigma factor RpoH [Acidithiobacillus caldus ATCC 51756] Length = 285 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 110/268 (41%), Positives = 167/268 (62%), Gaps = 10/268 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 G++ Y+ + P+L +EE LA+R R+ D+ AA +LV SHLR VV++A YRGYGLP Sbjct: 16 GMAAYLRFVHAQPVLSVEEERRLARRLRDEDDVDAAKQLVLSHLRFVVRVARAYRGYGLP 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGNIGLM+AVK+FDPE+G RL ++++ WIKA M E+ILR+W +VK+ TT Q++ Sbjct: 76 EADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHWIKAEMHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LFFNLR + + L E+ AIA+ L VS+ V+ M R+AG + +L SD Sbjct: 136 LFFNLRSARQ-----SSGWLGQEESAAIAEDLGVSQEAVLEMEGRMAGQD--YSLQYESD 188 Query: 195 KNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + L + G+ V LI+++ + R+ L ++ L+ R+R I + R L ++P Sbjct: 189 DEEGHGRT-LELEDPGESSVEALIDRDWDQQRQRGLRAALQSLSERDRYIIQNRWLSDDP 247 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKV 280 TL+ L E VS ERVRQ+E +K+ Sbjct: 248 KTLQALGEELGVSAERVRQLEKSGMEKL 275 >gi|227113845|ref|ZP_03827501.1| RNA polymerase factor sigma-32 [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 285 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 103/274 (37%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R GDL AA L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYQGDLEAAKHLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKSKTRL-----GWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFDPTPEEDS 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 + + ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 HDGKAMSPMLYLQDKSSDFADGIEEDNWETHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADQYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|328952031|ref|YP_004369365.1| putative RNA polymerase, sigma 70 family subunit [Desulfobacca acetoxidans DSM 11109] gi|328452355|gb|AEB08184.1| putative RNA polymerase, sigma 70 family subunit [Desulfobacca acetoxidans DSM 11109] Length = 328 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 113/290 (38%), Positives = 178/290 (61%), Gaps = 11/290 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL- 73 L RY+ EI + P+L+ +EE LA Y E D AA+ L+TS+LRLVVKIA+ ++ + + Sbjct: 45 ALQRYMGEINRYPLLQPEEEKRLATLYHETADQDAAYTLITSNLRLVVKIALDFQKFWMR 104 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +++ EGNIGLMQA+KKFDP RG +L+ Y+ +WIKA + ++I+ +W LVKIGTT Q+ Sbjct: 105 NLLDLIQEGNIGLMQAIKKFDPYRGIKLSYYASFWIKAYILKFIMDNWKLVKIGTTQAQR 164 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 +LFF+L++ K L+A P+ I+ +LNV E+EVI M+ RL E SL+A + S Sbjct: 165 KLFFSLKKEKERLRA-QGYEADPK---LISTRLNVKEAEVIEMDQRLGSWEFSLDAPLKS 220 Query: 193 SDKNSSQWQ-DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +S + ++L ++ L +E + L + L ER I + R L E+ Sbjct: 221 ---DSEELHINFLTSGETAADEHLAREEMKDIFLMRLAEFRNTLKDNERDILDLRLLAEH 277 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV-ELSSSPPLLQKP 300 P+TL+ + + +SRERVRQIE R KK+++ + ++ + S L+ +P Sbjct: 278 PLTLQEIGARHNISRERVRQIEERLLKKLRQFMHNEIPDFQSYQTLVNEP 327 >gi|322834883|ref|YP_004214910.1| RNA polymerase, sigma 32 subunit, RpoH [Rahnella sp. Y9602] gi|321170084|gb|ADW75783.1| RNA polymerase, sigma 32 subunit, RpoH [Rahnella sp. Y9602] Length = 285 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 103/286 (36%), Positives = 168/286 (58%), Gaps = 11/286 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + ++++ G L Y+ PML +EE LA+R +GDL AA L+ SHLR V Sbjct: 6 RTLALVPQG--SLEAYVRAANAYPMLTAEEERALAERLHYNGDLEAAKELILSHLRFVAH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 64 IARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 VK+ TT Q++LFFNLR+ K L + + +V +A++L V+ +V+ M R+A Sbjct: 124 VKVATTKAQRKLFFNLRKNKQRLGWFSHD-----EVEHVARELGVTSKDVLEMESRMAAQ 178 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQE--QVLIEKEERKNRRNMLTRSMSVLNPRER 240 D + + + ++ + L + + + E ++ + L+ +M L+ R + Sbjct: 179 DMTFDPTPDDEPRDGAAMAPMLYLQDKSSDFAETIEEDNWDQDATDKLSSAMEGLDERSQ 238 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L EN TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 239 DIIRARWLDDENKSTLQELADKYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|126664542|ref|ZP_01735526.1| RNA polymerase sigma factor [Marinobacter sp. ELB17] gi|126630868|gb|EBA01482.1| RNA polymerase sigma factor [Marinobacter sp. ELB17] Length = 286 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 109/285 (38%), Positives = 163/285 (57%), Gaps = 12/285 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M +V G L YI +IP+L EE L++R GD+ AA +L+ SHLR V+ IA Sbjct: 8 MDKLVPG-ANLESYIQAASRIPILTVDEERALSERLYYEGDVDAARQLILSHLRFVIHIA 66 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGL S++V EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK Sbjct: 67 RSYSGYGLNQSDLVQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIVK 126 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 + TT Q++LFFNLR K L ++ + L A+A L V V M RL+ D Sbjct: 127 VATTKAQRKLFFNLRGQKKKLAWLSHDELN-----AVAADLGVEARVVREMEGRLSSHDT 181 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE---ERKNRRNMLTRSMSVLNPRERR 241 + + +N + ++ Q + + DH +E+ E N R L +++S L+ R + Sbjct: 182 AFDGPMNDDEDSAYQAPAYYLEDHRSNPATQLERSNWTEDSNGR--LMQALSSLDDRSQD 239 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I R L E TL L+ + VS ER+RQ+E A KK++ +Q+ Sbjct: 240 ILRERWLSETKSTLHQLADRYGVSAERIRQLEKNAMKKIRLQMQE 284 >gi|227329284|ref|ZP_03833308.1| RNA polymerase factor sigma-32 [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 285 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 103/274 (37%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R GDL AA L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYQGDLDAAKHLILSHLRFVIHVARNYSGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKSKTRL-----GWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFDPTPEEDS 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 + + ++Y D EE + + LT ++ L+ R + I AR L +N Sbjct: 191 HDGKAMSPMLYLQDKSSDFADGIEEDNWETHAADKLTYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADKYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|269140667|ref|YP_003297368.1| RNA polymerase factor sigma-32 [Edwardsiella tarda EIB202] gi|267986328|gb|ACY86157.1| RNA polymerase factor sigma-32 [Edwardsiella tarda EIB202] gi|304560452|gb|ADM43116.1| RNA polymerase sigma factor RpoH [Edwardsiella tarda FL6-60] Length = 284 Score = 182 bits (463), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 103/289 (35%), Positives = 167/289 (57%), Gaps = 10/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L Y+ PML +EE L +R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLTLVPQGSLEAYVRAANAYPMLTAEEERALGERLHYKGDLDAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L VSE +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVSEKDVLEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + L ++ + +++ D E E+ + + L+ ++ L+ Sbjct: 176 AAQDMAFDLPGDDEQEGAPTAP-VLFLQDKSSDFANEIEDDNWESHAADKLSVALEGLDE 234 Query: 238 RERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 235 RSQHIIRARWLDSDNKATLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|242241268|ref|YP_002989449.1| RNA polymerase factor sigma-32 [Dickeya dadantii Ech703] gi|242133325|gb|ACS87627.1| RNA polymerase, sigma 32 subunit, RpoH [Dickeya dadantii Ech703] Length = 285 Score = 182 bits (462), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 103/274 (37%), Positives = 156/274 (56%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE LA+R HGDL AA +L+ SHLR V+ +A Y GYGLP Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHYHGDLDAAKQLILSHLRFVIHVARNYAGYGLPQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+P+ G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L ++V +A++L V+ +V M R+A + D Sbjct: 136 FFNLRKTKRRL-----GWFNQDEVELVARELGVTSKDVREMESRMAAQDMTYDPTPDDDA 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 Q ++Y D EE + + L ++ L+ R + I AR L +N Sbjct: 191 QPGQPMAPMLYLQDKSSDFADGIEEDNWETHAADKLAYALEGLDERSQHIIRARWLDDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 251 KSTLQELADYYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|332763556|gb|EGJ93795.1| alternative sigma factor RpoH [Shigella flexneri 2930-71] Length = 280 Score = 182 bits (462), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 111/285 (38%), Positives = 161/285 (56%), Gaps = 32/285 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML EE LA++ HGDL AA L+ SHLR VV IA Y GYGLP Sbjct: 12 LDSYIRAANAWPMLSADEERALAEKLHYHGDLEAAKTLILSHLRFVVHIARNYAGYGLPQ 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++L Sbjct: 72 ADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKL 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE----------- 184 FFNLR+ K L ++V +A++L V+ +V M R+A + Sbjct: 132 FFNLRKTKQRL-----GWFNQDEVEMVARELGVTSKDVREMESRMAAQDMTFDLSSDDDS 186 Query: 185 ---SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 + ++ DK SS + D + D + +EQ N LT +M L+ R + Sbjct: 187 DSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------NRLTDAMHGLDERSQD 234 Query: 242 IFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 235 IIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 279 >gi|297569322|ref|YP_003690666.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfurivibrio alkaliphilus AHT2] gi|296925237|gb|ADH86047.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfurivibrio alkaliphilus AHT2] Length = 363 Score = 182 bits (462), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 109/284 (38%), Positives = 175/284 (61%), Gaps = 8/284 (2%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ V G L RY+ EI + +L + E LA+ ++E GD AA++LVT++LRLVVK+AM Sbjct: 71 NLPVVGNAALHRYLQEISQYRLLSRAETDELARLFKETGDPEAAYKLVTANLRLVVKVAM 130 Query: 67 GYRGYGLP-ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 ++ Y + +++ EGNIGL+QAVKKFDP R + + Y+ +WI+A + ++I+ +W LVK Sbjct: 131 DFQKYWMQNFLDLIQEGNIGLVQAVKKFDPYRQVKFSYYAAYWIRAYILKFIMDNWRLVK 190 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 IGTT Q++LFF+L + K L++ KPE + +A++LNV ESEVI M+ R+ D Sbjct: 191 IGTTQAQRKLFFSLNKEKKLLES---QGFKPEPKL-LAQRLNVKESEVIEMSQRMDNWDM 246 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL + + + + + +D+L E+ + E R+ +L + LN +E I Sbjct: 247 SLESPMR--EDSGDERKDFLPVAGPSVEERVAADEVREWMAGILDKMRRTLNEKELAILR 304 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R L + P TL+ ++ F +SRERVRQIEA KK++ ++ +V Sbjct: 305 ERLLSDEPATLQEIADRFAISRERVRQIEANLLKKMRTYLENEV 348 >gi|240851254|ref|YP_002972657.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] gi|240268377|gb|ACS51965.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] Length = 303 Score = 182 bits (461), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 100/261 (38%), Positives = 168/261 (64%), Gaps = 5/261 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+Q+E+ LA R+++ D A H++ +H+RLV+ IA ++ + +P+ ++V EG +GL Sbjct: 34 PYLERQKEHDLALRWKDKRDDDAMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYVGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+P+R R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 94 LEAAARFEPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAKL 153 Query: 147 QAITDNNLKPEQVV--AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 I D++ +Q + IA+KL VS +V +M+ R + ++ ++ S + ++ + + Sbjct: 154 --IQDDSALSKQDIFRTIAEKLGVSVRDVETMDFRFSSSDNSLSVSVSENSDNPIAKMDV 211 Query: 205 VYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + D LIE+ RR L ++ +LN RE I RRL E TLE L + Sbjct: 212 LVDDSPLPDALIEQVIDGQRRTQWLYDALQILNERELEIIRFRRLNEEGATLEVLGEKLG 271 Query: 264 VSRERVRQIEARAFKKVQESI 284 +S+ERVRQIEARA +K++ ++ Sbjct: 272 ISKERVRQIEARALQKLRSAL 292 >gi|229593148|ref|YP_002875267.1| RNA polymerase factor sigma-32 [Pseudomonas fluorescens SBW25] gi|312963636|ref|ZP_07778117.1| RNA polymerase sigma-32 factor [Pseudomonas fluorescens WH6] gi|229365014|emb|CAY53168.1| RNA polymerase sigma-32 factor [Pseudomonas fluorescens SBW25] gi|311282145|gb|EFQ60745.1| RNA polymerase sigma-32 factor [Pseudomonas fluorescens WH6] Length = 284 Score = 182 bits (461), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 108/272 (39%), Positives = 160/272 (58%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTPEQERELAESLYYEQDLGAARQMVLAHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN E+V +A+ L V EV M RL G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---EEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ Q + DH D Q L + + N + L ++ VL+ R R I R L E Sbjct: 192 DSAFQSPANYLEDHRYDPARQ-LEDADWSDNSNHNLHEALEVLDDRSRDILYQRWLAEEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 251 ATLHDLAQKYNVSAERIRQLEKSAMNKLKLSI 282 >gi|114776576|ref|ZP_01451621.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] gi|114553406|gb|EAU55804.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] Length = 281 Score = 182 bits (461), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 164/268 (61%), Gaps = 11/268 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L R+ E+R+IP L+++EE LA++++ DL++ +L+ ++L +V IA YR +GLP Sbjct: 13 LDRFYQELRRIPKLDREEEDALARKWQRDHDLASVQQLINANLHVVAAIAREYRHFGLPE 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EG +GLMQAVK+FDP+RGFRL TY+ +WI+A++ ++ILRSWS+VK+GT Q+R+ Sbjct: 73 EDLIQEGTLGLMQAVKRFDPDRGFRLKTYAAYWIRASIHDFILRSWSIVKMGTNKLQRRI 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS-ESEVISMNCRLAGDESLNALINSSD 194 F L++ + + A+ L+ +A + VS ES L D S+++ + D Sbjct: 133 FAGLQKAECAIAALEGRGLE-----GVASQYGVSGESYQQIAASFLRRDYSIDS-DATED 186 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 N + L D EQ L+ K+ + L ++M L+ R+R I R L E P T Sbjct: 187 GNIIE----LPAPGDTPEQALVAKDWQSFTTMQLKQAMEALSERDRNIIRQRYLVEPPST 242 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQE 282 L+ LS + +S ERVRQ+EARA KK+ E Sbjct: 243 LKELSEDLGISIERVRQLEARAMKKIGE 270 >gi|71737989|ref|YP_276878.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. phaseolicola 1448A] gi|257482996|ref|ZP_05637037.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tabaci ATCC 11528] gi|289624653|ref|ZP_06457607.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289648492|ref|ZP_06479835.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aesculi str. 2250] gi|289672442|ref|ZP_06493332.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. syringae FF5] gi|298485264|ref|ZP_07003357.1| RNA polymerase sigma factor RpoH [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|302187226|ref|ZP_07263899.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. syringae 642] gi|71558542|gb|AAZ37753.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. phaseolicola 1448A] gi|298160252|gb|EFI01280.1| RNA polymerase sigma factor RpoH [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|320326376|gb|EFW82429.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. glycinea str. B076] gi|320331634|gb|EFW87572.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. glycinea str. race 4] gi|330871135|gb|EGH05844.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330872356|gb|EGH06505.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. glycinea str. race 4] gi|330891333|gb|EGH23994.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. mori str. 301020] gi|330898959|gb|EGH30378.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. japonica str. M301072PT] gi|330954977|gb|EGH55237.1| RNA polymerase factor sigma-32 [Pseudomonas syringae Cit 7] gi|330982560|gb|EGH80663.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aptata str. DSM 50252] gi|330985905|gb|EGH84008.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. lachrymans str. M301315] gi|331011765|gb|EGH91821.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 284 Score = 182 bits (461), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 107/273 (39%), Positives = 160/273 (58%), Gaps = 9/273 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 16 NLEAYVHTVNSIPLLTPEQERELAESLYYEQDLDAARQMVLAHLRFVVHIARSYSGYGLA 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++ Sbjct: 76 QADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR K L + NN ++V +A+ L V EV M RL G D + + + Sbjct: 136 LFFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEAD 190 Query: 194 DKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D ++ Q + DH D Q L + + N L +++ VL+ R R I R L E Sbjct: 191 DDSAFQSPANYLEDHRYDPARQ-LEDSDWTDNSTANLHQALDVLDERSRDILYQRWLAEE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 250 KATLHDLAQKYNVSAERIRQLEKSAMNKLKTSI 282 >gi|16762736|ref|NP_458353.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16766854|ref|NP_462469.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29144223|ref|NP_807565.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62182067|ref|YP_218484.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|161616616|ref|YP_001590580.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167549215|ref|ZP_02342974.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|167990783|ref|ZP_02571882.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168232714|ref|ZP_02657772.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168241719|ref|ZP_02666651.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168260704|ref|ZP_02682677.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168465152|ref|ZP_02699044.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168818616|ref|ZP_02830616.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194443524|ref|YP_002042813.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194449082|ref|YP_002047593.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194469731|ref|ZP_03075715.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|197250526|ref|YP_002148491.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197265856|ref|ZP_03165930.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|198244039|ref|YP_002217526.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200387614|ref|ZP_03214226.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204928638|ref|ZP_03219837.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205354814|ref|YP_002228615.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|207858806|ref|YP_002245457.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213426834|ref|ZP_03359584.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213619347|ref|ZP_03373173.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] gi|213649997|ref|ZP_03380050.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213857359|ref|ZP_03384330.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|224585360|ref|YP_002639159.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|238910431|ref|ZP_04654268.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|289829445|ref|ZP_06547057.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|25288476|pir||AB0992 RNA polymerase sigma-32 factor [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16422128|gb|AAL22428.1| sigma H factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16505042|emb|CAD08062.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhi] gi|29139860|gb|AAO71425.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62129700|gb|AAX67403.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock proteins induced by cytoplasmic stress [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|161365980|gb|ABX69748.1| hypothetical protein SPAB_04433 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194402187|gb|ACF62409.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194407386|gb|ACF67605.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194456095|gb|EDX44934.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|195632472|gb|EDX50956.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197214229|gb|ACH51626.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197244111|gb|EDY26731.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197938555|gb|ACH75888.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199604712|gb|EDZ03257.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204322071|gb|EDZ07269.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205274595|emb|CAR39645.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205325609|gb|EDZ13448.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205330694|gb|EDZ17458.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205333102|gb|EDZ19866.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205338892|gb|EDZ25656.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205344405|gb|EDZ31169.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205350317|gb|EDZ36948.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206710609|emb|CAR34967.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224469888|gb|ACN47718.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261248721|emb|CBG26559.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267995798|gb|ACY90683.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301160107|emb|CBW19627.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312914591|dbj|BAJ38565.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320087978|emb|CBY97740.1| RNA polymerase sigma-32 factor Heat shock regulatory protein F33.4 [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321226618|gb|EFX51668.1| RNA polymerase sigma factor RpoH [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322614066|gb|EFY11002.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322617958|gb|EFY14851.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322625428|gb|EFY22254.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322629893|gb|EFY26666.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322632218|gb|EFY28969.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322636431|gb|EFY33138.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322643092|gb|EFY39666.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322644713|gb|EFY41249.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322651265|gb|EFY47649.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322652822|gb|EFY49161.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322659124|gb|EFY55376.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322663174|gb|EFY59378.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322668661|gb|EFY64814.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322674536|gb|EFY70629.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322678259|gb|EFY74320.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322682485|gb|EFY78506.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322684198|gb|EFY80204.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|322716555|gb|EFZ08126.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] gi|323131927|gb|ADX19357.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323192247|gb|EFZ77479.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323196326|gb|EFZ81478.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323201872|gb|EFZ86935.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323206415|gb|EFZ91376.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323212008|gb|EFZ96835.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323216913|gb|EGA01636.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323222313|gb|EGA06696.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323224327|gb|EGA08616.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323228255|gb|EGA12386.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323233477|gb|EGA17570.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323237061|gb|EGA21128.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323243724|gb|EGA27740.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323246034|gb|EGA30021.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323250810|gb|EGA34688.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323255821|gb|EGA39571.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323261903|gb|EGA45470.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323267705|gb|EGA51187.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323268585|gb|EGA52052.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326625307|gb|EGE31652.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|326629958|gb|EGE36301.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] gi|332990419|gb|AEF09402.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 284 Score = 182 bits (461), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 115/298 (38%), Positives = 165/298 (55%), Gaps = 33/298 (11%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + ++ DK SS + D + D + +EQ N L Sbjct: 178 QDMTFDMSSDDESDSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------NRL 225 Query: 229 TRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 226 TDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|161505889|ref|YP_001573001.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160867236|gb|ABX23859.1| hypothetical protein SARI_04068 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 284 Score = 182 bits (461), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 115/298 (38%), Positives = 165/298 (55%), Gaps = 33/298 (11%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKAKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + ++ DK SS + D + D + +EQ N L Sbjct: 178 QDMTFDMSSDDESDSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------NRL 225 Query: 229 TRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 226 TDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|170719544|ref|YP_001747232.1| RNA polymerase factor sigma-32 [Pseudomonas putida W619] gi|169757547|gb|ACA70863.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas putida W619] Length = 284 Score = 182 bits (461), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 106/271 (39%), Positives = 158/271 (58%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+R DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTVEQERDLAERLYYEQDLEAARQMVMAHLRFVVHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL+G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLSGQDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH V +E + N + L ++ L+ R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHEALQGLDERSRDILYQRWLAEEKA 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+E A KV+ I Sbjct: 252 TLHELADKYSVSAERIRQLEKNAMNKVKALI 282 >gi|77461555|ref|YP_351062.1| RNA polymerase factor sigma-32 [Pseudomonas fluorescens Pf0-1] gi|77385558|gb|ABA77071.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas fluorescens Pf0-1] Length = 284 Score = 182 bits (461), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 106/272 (38%), Positives = 159/272 (58%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTPEQERELAESLYYEQDLGAARQMVLAHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + + E+V +A+ L V EV M RL G D + + + D Sbjct: 137 FFNLRSQKKRLAWLNN-----EEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ Q + DH D Q L + + N + L ++ VL+ R R I R L E Sbjct: 192 DSAFQSPANYLEDHRYDPARQ-LEDADWSDNSNHNLHEALEVLDERSRDILYQRWLAEEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 251 ATLHDLAQKYNVSAERIRQLEKSAMNKLKLSI 282 >gi|330812379|ref|YP_004356841.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327380487|gb|AEA71837.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 284 Score = 181 bits (460), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 108/273 (39%), Positives = 159/273 (58%), Gaps = 9/273 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 16 NLEAYVHTVNSIPLLTPEQERELAESLYYEQDLEAARQMVLAHLRFVVHIARSYSGYGLA 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++ Sbjct: 76 QADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR K L + NN E+V +A+ L V EV M RL G D + + + Sbjct: 136 LFFNLRSQKKRLAWL--NN---EEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEAD 190 Query: 194 DKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D ++ Q + DH D Q L + + N L ++ VL+ R R I R L E Sbjct: 191 DDSAFQSPANYLEDHRYDPARQ-LEDADWSDNSNTNLHEALEVLDERSRDILYQRWLAEE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 250 KATLHDLAQKYNVSAERIRQLEKSAMNKLKVSI 282 >gi|330944706|gb|EGH46637.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. pisi str. 1704B] Length = 284 Score = 181 bits (460), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 107/273 (39%), Positives = 160/273 (58%), Gaps = 9/273 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 16 NLEAYVHTVNSIPLLTPEQERELAESLYYEQDLDAARQMVLAHLRFVVHIARSYSGYGLA 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++ Sbjct: 76 QADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR K L + NN ++V +A+ L V EV M RL G D + + + Sbjct: 136 LFFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEAD 190 Query: 194 DKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D ++ Q + DH D Q L + + N L +++ VL+ R R I R L E Sbjct: 191 DDSAFQSPANYLEDHRYDPARQ-LEDSDWTDNSPANLHQALDVLDERSRDILYQRWLAEE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 250 KATLHDLAQKYNVSAERIRQLEKSAMNKLKTSI 282 >gi|238921550|ref|YP_002935065.1| RNA polymerase factor sigma-32 [Edwardsiella ictaluri 93-146] gi|238871119|gb|ACR70830.1| alternative sigma factor RpoH, putative [Edwardsiella ictaluri 93-146] Length = 284 Score = 181 bits (460), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 103/289 (35%), Positives = 167/289 (57%), Gaps = 10/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L Y+ PML +EE L +R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLTLVPQGSLEAYVRAANAYPMLTAEEERALGERLHYKGDLDAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L VSE +V+ M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVSEKDVLEMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + L ++ + +++ D E E+ + + L+ ++ L+ Sbjct: 176 AAQDMAFDLPGDDEQEGAPAAP-VLFLQDKSSDFANEIEDDNWESHAADKLSVALEGLDE 234 Query: 238 RERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 235 RSQHIIRARWLDSDNKATLQELADRYGVSAERVRQLEKNAMKKLRMAIE 283 >gi|146313497|ref|YP_001178571.1| RNA polymerase factor sigma-32 [Enterobacter sp. 638] gi|145320373|gb|ABP62520.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter sp. 638] Length = 285 Score = 181 bits (460), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 113/287 (39%), Positives = 167/287 (58%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA++ GDL AA L+ SHLR VV Sbjct: 3 KEMQTLALAPVGNLESYIRAANTWPMLTAEEEKELAEKLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L E+V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKAKQRL-----GWFNQEEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + + D SQ ++Y D IE++ +++ N LT +M L+ R Sbjct: 178 QDMTFDMSSDDDAQDSQPMAPVLYLQDKTSNFADGIEEDNWEDQAANKLTHAMEGLDERS 237 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 QAIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|152972335|ref|YP_001337481.1| RNA polymerase factor sigma-32 [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206580698|ref|YP_002236168.1| alternative sigma factor RpoH [Klebsiella pneumoniae 342] gi|238896924|ref|YP_002921669.1| RNA polymerase factor sigma-32 [Klebsiella pneumoniae NTUH-K2044] gi|262040527|ref|ZP_06013768.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288933158|ref|YP_003437217.1| RNA polymerase, sigma 32 subunit, RpoH [Klebsiella variicola At-22] gi|290511960|ref|ZP_06551328.1| alternative sigma factor RpoH [Klebsiella sp. 1_1_55] gi|329999131|ref|ZP_08303332.1| alternative sigma factor RpoH [Klebsiella sp. MS 92-3] gi|150957184|gb|ABR79214.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206569756|gb|ACI11532.1| alternative sigma factor RpoH [Klebsiella pneumoniae 342] gi|238549251|dbj|BAH65602.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259042120|gb|EEW43150.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288887887|gb|ADC56205.1| RNA polymerase, sigma 32 subunit, RpoH [Klebsiella variicola At-22] gi|289775750|gb|EFD83750.1| alternative sigma factor RpoH [Klebsiella sp. 1_1_55] gi|328538425|gb|EGF64546.1| alternative sigma factor RpoH [Klebsiella sp. MS 92-3] Length = 284 Score = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 113/298 (37%), Positives = 166/298 (55%), Gaps = 33/298 (11%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA++ GDL AA +L+ SHLR VV Sbjct: 3 KEMQTLALAPVGNLESYIRAANTWPMLSADEERELAEKLHYQGDLEAAKKLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + ++ DK +S + D + D + +EQ N L Sbjct: 178 QDMTFDMSSDDESDSQPMAPVLYLQDK-TSNFADG-IEDDNWEEQAA----------NKL 225 Query: 229 TRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 226 TDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|326797246|ref|YP_004315066.1| RNA polymerase, sigma 32 subunit, RpoH [Marinomonas mediterranea MMB-1] gi|326548010|gb|ADZ93230.1| RNA polymerase, sigma 32 subunit, RpoH [Marinomonas mediterranea MMB-1] Length = 288 Score = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 112/271 (41%), Positives = 161/271 (59%), Gaps = 13/271 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ + IP+L +EE LA+R GDL AA LV SHLR VV IA Y GYGL Sbjct: 17 LESYVQGVSTIPILTAEEEQKLAERLYYDGDLEAARALVMSHLRFVVHIAKSYSGYGLSQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++V EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+IL++W +VK+ TT Q+++ Sbjct: 77 GDLVQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFILKNWRIVKVATTKAQRKM 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L + ++ +V A+A L VS V M R++ + + + D Sbjct: 137 FFNLRSAKKTLSWLNNS-----EVDAVANDLGVSPDVVRQMEGRMSSTD-MAFDATTDDD 190 Query: 196 NSSQWQDWLVYDHDGQ--EQVLIEK---EERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + S +Q Y DG+ +L+E E NRR L ++MS L+ R R I R L E Sbjct: 191 DDSAFQAPASYLEDGRYDPAMLLEDGNWEADSNRR--LQQAMSDLDERSRNILVQRWLSE 248 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N TL +L+ E+ VS ER+RQ+E A KK++ Sbjct: 249 NKSTLHDLADEYGVSAERIRQLEKNAMKKIR 279 >gi|56415467|ref|YP_152542.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197364396|ref|YP_002144033.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|56129724|gb|AAV79230.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197095873|emb|CAR61447.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] Length = 284 Score = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 115/298 (38%), Positives = 165/298 (55%), Gaps = 33/298 (11%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + ++ DK SS + D + D + +EQ N L Sbjct: 178 QDMTFDMSSDDESDSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------NRL 225 Query: 229 TRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 226 TDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSVERVRQLEKNAMKKLRAAIE 283 >gi|49476176|ref|YP_034217.1| RNA polymerase factor sigma-32 [Bartonella henselae str. Houston-1] gi|49238984|emb|CAF28284.1| RNA polymerase sigma-32 factor [Bartonella henselae str. Houston-1] Length = 303 Score = 181 bits (458), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 99/261 (37%), Positives = 169/261 (64%), Gaps = 5/261 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+Q+E+ LA R+++ D A H++ +H+RLV+ IA ++ + +P+ ++V EG +GL Sbjct: 34 PYLERQKEHDLALRWKDKRDDEAMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYVGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+P+R R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 94 LEAAARFEPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAKL 153 Query: 147 QAITDNNLKPEQVV--AIAKKLNVSESEVISMNCRLAGDESLNALINSSD-KNSSQWQDW 203 + D++ +Q + +IA+KL VS +V +M+ R + ++ ++ S + N D Sbjct: 154 --VQDDSALSKQDIFRSIAEKLGVSVRDVETMDFRFSSSDNSLSVSVSENSDNPVAKMDA 211 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 LV D + ++ + + + R L ++ +LN RE I RRL E TLE L + Sbjct: 212 LVDDSPLPDALIEQVIDGQRRTQWLYDALQILNERELEIIRFRRLNEEGATLEVLGEKLG 271 Query: 264 VSRERVRQIEARAFKKVQESI 284 +S+ERVRQIEARA +K++ ++ Sbjct: 272 ISKERVRQIEARALQKLRSAL 292 >gi|85058065|ref|YP_453767.1| RNA polymerase factor sigma-32 [Sodalis glossinidius str. 'morsitans'] gi|84778585|dbj|BAE73362.1| RNA polymerase sigma-32 factor RpoH [Sodalis glossinidius str. 'morsitans'] Length = 285 Score = 181 bits (458), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 108/287 (37%), Positives = 161/287 (56%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 KNM ++ G L Y+ PML +EE LA+R GDL AA +L+ SHLR VV Sbjct: 3 KNMQVLAYVPQGSLEAYVRAANAYPMLTAEEERALAERLHYQGDLEAAKKLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVAKELGVTSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRE 239 + + Q ++Y D EE + + L+ ++ L+ R Sbjct: 178 QDMTFDPTPEDEAREGQPMAPMLYLQDKSSDFADGIEEDNWDDHAADKLSAALEGLDERS 237 Query: 240 RRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L +N TL+ L+ + VS ERVRQ+E A KK++ I+ Sbjct: 238 QDIIRARWLDDDNKSTLQELADRYGVSAERVRQLEKNAMKKMRLVIE 284 >gi|28867660|ref|NP_790279.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213967796|ref|ZP_03395943.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato T1] gi|301382433|ref|ZP_07230851.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tomato Max13] gi|302061175|ref|ZP_07252716.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tomato K40] gi|302132032|ref|ZP_07258022.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tomato NCPPB 1108] gi|28850895|gb|AAO53974.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213927572|gb|EEB61120.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato T1] gi|330965442|gb|EGH65702.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. actinidiae str. M302091] gi|331014973|gb|EGH95029.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 284 Score = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 107/273 (39%), Positives = 159/273 (58%), Gaps = 9/273 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+H + IP+L + E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 16 NLEAYVHTVNSIPLLTPERERELAESLYYEQDLDAARQMVLAHLRFVVHIARSYSGYGLA 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++ Sbjct: 76 QADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR K L + NN ++V +A+ L V EV M RL G D + + + Sbjct: 136 LFFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEAD 190 Query: 194 DKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D ++ Q + DH D Q L + + N L +++ VL+ R R I R L E Sbjct: 191 DDSAFQSPANYLEDHRYDPARQ-LEDADWTDNSTANLHQALDVLDERSRDILYQRWLAEE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 250 KATLHDLAQKYNVSAERIRQLEKSAMNKLKTSI 282 >gi|188535384|ref|YP_001909181.1| RNA polymerase factor sigma-32 [Erwinia tasmaniensis Et1/99] gi|188030426|emb|CAO98320.1| RNA polymerase sigma-32 factor [Erwinia tasmaniensis Et1/99] Length = 284 Score = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 108/286 (37%), Positives = 163/286 (56%), Gaps = 9/286 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQTLAIAPLGNLDSYIRAANARPMLTAEEEKALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKAKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRER 240 D + + + + S + D IE++ ++ + L +M L+ R + Sbjct: 178 QDMTFDPAPDDEGEGRSMAPMLYLQDKSSDFANGIEEDNWEDHAADKLNDAMQGLDERSQ 237 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L +N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 HIIRARWLDDDNKTTLQELADRYGVSAERVRQLEKNAMKKLRVAIE 283 >gi|168235161|ref|ZP_02660219.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|194737973|ref|YP_002116503.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|194713475|gb|ACF92696.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197291332|gb|EDY30684.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] Length = 284 Score = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 114/298 (38%), Positives = 165/298 (55%), Gaps = 33/298 (11%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + ++ DK SS + D + D + +EQ N L Sbjct: 178 QDMTFDMSSDDESDSQPMAPVLYLQDK-SSNFADG-IEDDNWEEQAA----------NRL 225 Query: 229 TRSMSVLNPRERRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T +M L+ R + I AR L E+ TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 226 TDAMQGLDERSQDIIRARWLDEDTKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|49474699|ref|YP_032741.1| RNA polymerase factor sigma-32 [Bartonella quintana str. Toulouse] gi|49240203|emb|CAF26671.1| RNA polymerase sigma-32 factor [Bartonella quintana str. Toulouse] Length = 303 Score = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 99/261 (37%), Positives = 167/261 (63%), Gaps = 5/261 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+Q+E+ LA R+++ D A H++ +H+RLV+ IA ++ + +P+ ++V EG +GL Sbjct: 34 PYLERQKEHDLALRWKDKRDDDAMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYVGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+P+R R +TY+ WWI+A++Q+YILR+WS+V+ GT+++QK LFFNLRRL+ L Sbjct: 94 LEAAARFEPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAKL 153 Query: 147 QAITDNNLKPEQVV--AIAKKLNVSESEVISMNCRLAGDESLNALINSSD-KNSSQWQDW 203 + D+N +Q + IA++L VS +V +M+ R + ++ ++ S + N D Sbjct: 154 --VQDDNALTKQDIFRTIAERLGVSVRDVETMDFRFSSSDNSLSVSVSENSDNPIAKMDA 211 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 LV D + ++ + + + R L ++ LN RE I RRL E TLE L + Sbjct: 212 LVDDSPLPDALIEQVIDSQRRTQWLHDALQSLNERELEIIRFRRLNEEGATLEVLGEKLG 271 Query: 264 VSRERVRQIEARAFKKVQESI 284 +S+ERVRQIEARA +K++ ++ Sbjct: 272 ISKERVRQIEARALQKLRSAL 292 >gi|288287|emb|CAA39117.1| unnamed protein product [Myxococcus xanthus] Length = 246 Score = 180 bits (456), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 99/233 (42%), Positives = 145/233 (62%), Gaps = 4/233 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +VT++LR VVK+A YR YG+ +S+++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A Sbjct: 1 MVTANLRFVVKVAYEYRSYGIKMSDLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAY 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +Q YIL+SWSLVK+GTT +LFF+L R + L+ + V IA++L+V E Sbjct: 61 IQNYILKSWSLVKLGTTQAHGKLFFSLARTRRELEKFGSGD-AAVNVDDIARRLHVKPGE 119 Query: 173 VISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V M R+ G D SL+A + NS D++V Q+ +KEE + + Sbjct: 120 VREMEQRMGGRDLSLDAPMGEDGGNSH--VDFVVSAAAPQDDEFADKEEAGLINARVRTA 177 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+PRER I E R + E P+TL+ L F SRER RQ+E RA K++ + Sbjct: 178 LMRLDPRERFIIEQRVMNERPMTLKELGEHFGFSRERARQLEIRAKDKLKSEL 230 >gi|320539367|ref|ZP_08039036.1| RNA polymerase, sigma 32 (sigma H) factor [Serratia symbiotica str. Tucson] gi|320030492|gb|EFW12502.1| RNA polymerase, sigma 32 (sigma H) factor [Serratia symbiotica str. Tucson] Length = 285 Score = 180 bits (456), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 104/289 (35%), Positives = 163/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ +HLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANTYPMLTAEEERDLAERLHYQGDLGAAKQLILAHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + + Q ++Y D + EE N + L ++ L+ Sbjct: 176 AAQDMTFDPAPDDETRDGQSLAPVLYLQDKSSDFAEDIEEDNWESNAADKLAYALEGLDE 235 Query: 238 RERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDNDNKSTLQELADQYGVSAERVRQLEKNAMKKLKMAIE 284 >gi|237728776|ref|ZP_04559257.1| RNA polymerase factor sigma-32 [Citrobacter sp. 30_2] gi|283835854|ref|ZP_06355595.1| alternative sigma factor RpoH [Citrobacter youngae ATCC 29220] gi|226909398|gb|EEH95316.1| RNA polymerase factor sigma-32 [Citrobacter sp. 30_2] gi|291068027|gb|EFE06136.1| alternative sigma factor RpoH [Citrobacter youngae ATCC 29220] Length = 284 Score = 180 bits (456), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 113/287 (39%), Positives = 170/287 (59%), Gaps = 11/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA++ GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAEKLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + ++S D++ SQ ++Y D IE++ +++ N LT +M L+ R Sbjct: 178 -QDMTFDMSSDDESDSQPMAPVLYLQDKSSNFADGIEEDNWEDQAANKLTHAMEGLDERS 236 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 237 QDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|253991200|ref|YP_003042556.1| RNA polymerase factor sigma-32 [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253782650|emb|CAQ85814.1| component of rna polymerase, sigma 32 factor [Photorhabdus asymbiotica] Length = 285 Score = 179 bits (455), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 105/286 (36%), Positives = 166/286 (58%), Gaps = 11/286 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + ++++ G L YI PML +EE LA+R GDL AA +L+ SHLR VV Sbjct: 6 QTLALVPQG--SLEGYIRASNAYPMLTAEEEKELAERLHYQGDLDAAKKLILSHLRFVVH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 64 VARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R++ Sbjct: 124 VKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVAKELGVTSKDVREMESRMSAQ 178 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRER 240 + + D Q ++Y D IE++ +N + L+ ++ L+ R + Sbjct: 179 DMAFDMSADDDNQEGQSVAPVLYLQDKASDFAGGIEEDNWENHAADKLSVAIEGLDERSQ 238 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I R L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 239 DIIRCRWLDDDNKSTLQELADKYGVSAERVRQLEKNAMKKLRVAIE 284 >gi|37527948|ref|NP_931293.1| RNA polymerase factor sigma-32 [Photorhabdus luminescens subsp. laumondii TTO1] gi|36787384|emb|CAE16473.1| RNA polymerase sigma-32 factor [Photorhabdus luminescens subsp. laumondii TTO1] Length = 285 Score = 179 bits (455), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 107/288 (37%), Positives = 171/288 (59%), Gaps = 15/288 (5%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + ++++ G L Y+ PML +EE LA+R GDL AA +L+ SHLR VV Sbjct: 6 QTLALVPQG--SLEGYVRASNTYPMLTAEEEKELAERLHYQGDLDAAKKLILSHLRFVVH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 64 VARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R++ Sbjct: 124 VKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVAKELGVTSKDVREMESRMSAQ 178 Query: 184 ESLNALINSSDKNSSQWQDW--LVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPR 238 + A S+D +S + Q ++Y D IE++ +N + L+ ++ L+ R Sbjct: 179 DM--AFDMSADDDSQEGQPVAPVLYLQDKASDFADGIEEDNWENHAADKLSVAIESLDER 236 Query: 239 ERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I R L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 237 SQDIIRCRWLDDDNKSTLQELADKYGVSAERVRQLEKNAMKKLRVAIE 284 >gi|197287411|ref|YP_002153283.1| RNA polymerase factor sigma-32 [Proteus mirabilis HI4320] gi|227358346|ref|ZP_03842687.1| RNA polymerase sigma-32 factor [Proteus mirabilis ATCC 29906] gi|194684898|emb|CAR47059.1| RNA polymerase sigma-32 factor [Proteus mirabilis HI4320] gi|227161682|gb|EEI46719.1| RNA polymerase sigma-32 factor [Proteus mirabilis ATCC 29906] Length = 284 Score = 179 bits (455), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 110/288 (38%), Positives = 171/288 (59%), Gaps = 8/288 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ S+ + + + YI PML +EE LA+R GDL AA L+ SHLR Sbjct: 1 MTKEMQSLALVPQGSIEAYIRAANSYPMLTAEEEKELAERLHYEGDLEAAKTLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VIHVARSYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT +Q++LFFNLR+ K L ++V +AK+L VSES+V M R+ Sbjct: 121 WRIVKVATTKSQRKLFFNLRKNKKRL-----GWFNQDEVELVAKELGVSESDVREMESRM 175 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPR 238 A D + + + SD + + D IE++ N + LT ++ L+ R Sbjct: 176 SAQDMAFDMSADDSDDSHPVAPVLFLEDKSSDFADGIEEDNWDNHAADRLTLAIKTLDER 235 Query: 239 ERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L+ +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 SQDIIRARWLEDDNKSTLQELADKYGVSAERVRQLEKNAMKKLRLAIE 283 >gi|302343327|ref|YP_003807856.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] gi|301639940|gb|ADK85262.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] Length = 346 Score = 179 bits (455), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 109/276 (39%), Positives = 168/276 (60%), Gaps = 8/276 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL- 73 L RY+ E R+ P+L ++EE LA+R+ E D AA LVTS+LRLVVKIAM ++ Y + Sbjct: 63 ALQRYLWEARQYPLLSREEEDALARRFVEEQDPEAAAMLVTSNLRLVVKIAMEHQRYWMR 122 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +++ EGN+GL+QAV+KFDP RG + + Y+ +WIKA + ++I+ +W LV++GTT Q+ Sbjct: 123 NLLDLIQEGNMGLLQAVQKFDPFRGIKFSYYASFWIKAYILKFIMDNWRLVRVGTTQAQR 182 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 +LF+ LRR K LQA + P + + ++L VSE +V+ M RL E SL+A + Sbjct: 183 KLFYKLRREKEKLQA---QGVTPGPRL-LGQRLGVSEKDVVDMEQRLDSWELSLDAPVR- 237 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 D + ++ L EQ L + E R+ L L+ +E+ I + R L ENP Sbjct: 238 -DDSDDTHKNLLPSPRPTAEQDLADSELRQLFHRKLMEFRQTLDDKEQDILDNRLLAENP 296 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL + VSRER+RQ++ R +K+ E +Q+Q+ Sbjct: 297 QTLSEVGDRHGVSRERIRQLQVRLMEKLGEFMQEQI 332 >gi|87121174|ref|ZP_01077065.1| sigma factor RpoH [Marinomonas sp. MED121] gi|86163666|gb|EAQ64940.1| sigma factor RpoH [Marinomonas sp. MED121] Length = 291 Score = 179 bits (454), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 109/273 (39%), Positives = 161/273 (58%), Gaps = 11/273 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + IP+L ++E LA+R GDL AA +LV SHLR VV IA Y GYGL Sbjct: 17 LESYIQAVSTIPILTAEDENKLAERLYYDGDLEAARQLVMSHLRFVVHIAKSYSGYGLNQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+IL++W +VK+ TT Q+++ Sbjct: 77 GDLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFILKNWRIVKVATTKAQRKM 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR K L ++ ++V ++A L VS V M R+ + D + +A + D Sbjct: 137 FFNLRSAKKTLSWFSN-----DEVESVAGDLGVSPEVVRQMEGRMSSSDTTFDASSDDDD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ Q + DH L E EE NRR L +MS L+ R R I R L ++ Sbjct: 192 DSAYQAPANYLEDHRYDPASLTENGNWEEDSNRR--LQEAMSELDERSRNILVQRWLSDS 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ E+ VS ER+RQ+E A K++ S+ Sbjct: 250 KSTLHDLADEYGVSAERIRQLEKNAMAKIRTSM 282 >gi|162454145|ref|YP_001616512.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161164727|emb|CAN96032.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 283 Score = 179 bits (454), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 103/274 (37%), Positives = 166/274 (60%), Gaps = 7/274 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 +SRYI +R+IP L ++EE LA+R+R+HGD AA L ++LR VV IA+ YR YG+P Sbjct: 10 AVSRYITHVRQIPELSREEEVELARRWRDHGDEQAAAALALANLRHVVSIAISYRRYGIP 69 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++++EGN G++ A++K+DP+RG R TY+ +WI+A + +++ SWSLV +G+ + + Sbjct: 70 LADLIAEGNFGIVHAIRKYDPDRGNRFVTYAAYWIRAYILNHVIHSWSLVGVGSGPLRSK 129 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSS 193 +FF LRR + + + + +++ +A+K +V+ M RL A D SL+ + Sbjct: 130 MFFRLRRERARIAGLVGEGEEGDRL--LAEKFGAPAEKVLEMAHRLEARDVSLDTKVFED 187 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ--EN 251 S D L D QE+ EE R LT+++ L+PRER I E R + E Sbjct: 188 GARS--LVDTLPADDQDQEERFSRAEEGALLRERLTQAVENLDPRERYIVETRMMADPEE 245 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++L + VSRER RQ+EARA KK+++ +Q Sbjct: 246 ELSLAEIGRRLGVSRERARQLEARAKKKLRDRLQ 279 >gi|192362020|ref|YP_001983950.1| RNA polymerase factor sigma-32 [Cellvibrio japonicus Ueda107] gi|190688185|gb|ACE85863.1| alternative sigma factor RpoH [Cellvibrio japonicus Ueda107] Length = 286 Score = 179 bits (454), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 103/267 (38%), Positives = 158/267 (59%), Gaps = 6/267 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ + +L +EE LA+ ++G+L AA +LV +HLR VV IA Y GYGLP+ Sbjct: 19 LNAYVQAVSSFAILSVEEEQQLARDLHDNGNLDAARKLVMAHLRFVVHIARSYNGYGLPL 78 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDP++G RL ++++ WIKA + E+ILR+W +VKI TT Q++L Sbjct: 79 GDLIQEGNVGLMKAVKRFDPDKGVRLVSFAVHWIKAEIHEFILRNWRIVKIATTKAQRKL 138 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L +++ ++ A+A L V +V M RLA D +A + D Sbjct: 139 FFNLRGAKKRLAWLSN-----DEAEAVALDLGVDVKQVREMEGRLASYDAGFDASDDDED 193 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 N ++L + L E + N L +M L+ R R I + R L ++ T Sbjct: 194 DNYVAPANYLEDNRYDPAARLEEANWEEASVNGLEMAMEKLDDRSRVILQRRWLNDDKAT 253 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 L +L++E+ VS ER+RQ+E A KV+ Sbjct: 254 LHDLAAEYGVSAERIRQLEKNAMNKVK 280 >gi|325275633|ref|ZP_08141532.1| RNA polymerase factor sigma-32 [Pseudomonas sp. TJI-51] gi|313501084|gb|ADR62450.1| RpoH [Pseudomonas putida BIRD-1] gi|324099220|gb|EGB97167.1| RNA polymerase factor sigma-32 [Pseudomonas sp. TJI-51] Length = 284 Score = 179 bits (454), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 104/271 (38%), Positives = 157/271 (57%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E L +R D+ AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTVEQERDLGERLYYQQDVEAARQMVMAHLRFVVHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL+G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLSGQDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH V +E + N + L ++ L+ R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHEALQGLDERSRDILYQRWLAEEKA 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+E A KV+ I Sbjct: 252 TLHELADKYSVSAERIRQLEKNAMNKVKALI 282 >gi|157149048|ref|YP_001456366.1| RNA polymerase factor sigma-32 [Citrobacter koseri ATCC BAA-895] gi|157086253|gb|ABV15931.1| hypothetical protein CKO_04887 [Citrobacter koseri ATCC BAA-895] Length = 284 Score = 179 bits (454), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 112/287 (39%), Positives = 170/287 (59%), Gaps = 11/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA++ GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAEKLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVTSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + ++S D++ SQ ++Y D IE++ +++ N LT +M L+ R Sbjct: 178 -QDMTFDMSSDDESDSQPMAPVLYLQDKTSNFADGIEEDNWEDQAANKLTHAMEGLDERS 236 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 237 QDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|104779584|ref|YP_606082.1| RNA polymerase factor sigma-32 [Pseudomonas entomophila L48] gi|95108571|emb|CAK13265.1| sigma H (sigma 32) factor of RNA polymerase RpoH [Pseudomonas entomophila L48] Length = 284 Score = 179 bits (453), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 104/271 (38%), Positives = 157/271 (57%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E L +R DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTPEQERDLGERLYYEQDLEAARQMVMAHLRFVVHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL+G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLSGQDMAFDPASEADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH + +E + N + L ++ L+ R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPALQLEDADWSDNSSSNLHEALQGLDDRSRDILYQRWLAEEKA 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+E A KV+ I Sbjct: 252 TLHELAEKYSVSAERIRQLEKNAMNKVKALI 282 >gi|148550183|ref|YP_001270285.1| RNA polymerase factor sigma-32 [Pseudomonas putida F1] gi|148514241|gb|ABQ81101.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas putida F1] Length = 284 Score = 179 bits (453), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 104/271 (38%), Positives = 157/271 (57%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E L +R D+ AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTVEQERDLGERLYYEQDVEAARQMVMAHLRFVVHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL+G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLSGQDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH V +E + N + L ++ L+ R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHEALQGLDERSRDILYQRWLAEEKA 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+E A KV+ I Sbjct: 252 TLHELADKYSVSAERIRQLEKNAMNKVKALI 282 >gi|167036147|ref|YP_001671378.1| RNA polymerase factor sigma-32 [Pseudomonas putida GB-1] gi|166862635|gb|ABZ01043.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas putida GB-1] Length = 284 Score = 179 bits (453), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 104/271 (38%), Positives = 157/271 (57%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E L +R D+ AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTVEQERDLGERLYYEQDVEAARQMVMAHLRFVVHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL+G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLSGQDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH V +E + N + L ++ L+ R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPAVQLEDADWSDNSASNLHEALQGLDERSRDILYQRWLAEEKA 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+E A KV+ I Sbjct: 252 TLHELADKYSVSAERIRQLEKNAMNKVKALI 282 >gi|26991784|ref|NP_747209.1| RNA polymerase factor sigma-32 [Pseudomonas putida KT2440] gi|8885996|gb|AAF80334.1|AF157048_1 heat shock sigma factor RpoH [Pseudomonas putida] gi|24986895|gb|AAN70673.1|AE016711_1 RNA polymerase sigma-32 factor [Pseudomonas putida KT2440] Length = 284 Score = 179 bits (453), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 104/271 (38%), Positives = 157/271 (57%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E L +R D+ AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTVEQERDLGERLYYEQDVEAARQMVMAHLRFVVHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL+G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLSGQDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH V +E + N + L ++ L+ R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHEALQGLDERSRDILYQRWLAEEKA 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+E A KV+ I Sbjct: 252 TLHELADKYSVSAERIRQLEKNAMNKVKALI 282 >gi|94987055|ref|YP_594988.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] gi|94731304|emb|CAJ54667.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] Length = 385 Score = 178 bits (452), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 102/276 (36%), Positives = 171/276 (61%), Gaps = 7/276 (2%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGL 73 L Y+ E+ + PML+ +EE LA+ ++ G AA RL++SHLRLVVKIAM + R + Sbjct: 105 SLQLYLREVSRFPMLKPEEELRLAQDVQKKGCSKAAFRLISSHLRLVVKIAMDFQRRWMQ 164 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +++ EGN+GLM+AV KFDP++G + + Y+ +WI+A + ++I+ +W +VKIGTT Q+ Sbjct: 165 NVLDLIQEGNVGLMRAVNKFDPDKGIKFSYYAAFWIRAYILKFIMDNWRMVKIGTTQAQR 224 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINS 192 +LF+NL R + L A P+ ++A +L V E ++I M RL A D SL+ + Sbjct: 225 KLFYNLNRERQKLLA---EGFDPD-TSSLALRLGVGEEQIIEMQQRLDASDMSLDVTVGE 280 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 N+S+ D+L + G E+ L +E ++ + + +L+ +E I R L ++P Sbjct: 281 ETGNASRI-DFLPAINPGIEESLAGQEIAILLQDRIKDILPLLSEKEVYILHNRLLTDDP 339 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 VTL + ++ V+RERVRQ+EAR +K++ + +Q+ Sbjct: 340 VTLREIGEKYSVTRERVRQLEARLLQKLRTHLSRQI 375 >gi|259910110|ref|YP_002650466.1| RNA polymerase factor sigma-32 [Erwinia pyrifoliae Ep1/96] gi|224965732|emb|CAX57264.1| RNA polymerase sigma-32 factor [Erwinia pyrifoliae Ep1/96] gi|283480207|emb|CAY76123.1| RNA polymerase sigma-32 factor [Erwinia pyrifoliae DSM 12163] gi|310765698|gb|ADP10648.1| RNA polymerase factor sigma-32 [Erwinia sp. Ejp617] Length = 284 Score = 178 bits (452), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 107/286 (37%), Positives = 163/286 (56%), Gaps = 9/286 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA+R G L AA L+ SHLR VV Sbjct: 3 KEMQTLAIAPLGNLDSYIRAANAWPMLTAEEEKALAERLHYQGCLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKAKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRER 240 D + + + + S + D IE++ ++ + L +M L+ R + Sbjct: 178 QDMTFDPTPDDEGEGRSMAPMLYLQDKSSDFANGIEEDNWEDHAADKLNDAMQGLDERSQ 237 Query: 241 RIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 238 HIIRARWLDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLRVAIE 283 >gi|301644085|ref|ZP_07244098.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] gi|301077566|gb|EFK92372.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] Length = 283 Score = 178 bits (452), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 103/286 (36%), Positives = 164/286 (57%), Gaps = 12/286 (4%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K MS++ +G L YI PML ++EE LA + H DL AA +L+ SHLR V+ Sbjct: 3 KEMSVL--APVGNLDSYIRAAYACPMLSQEEEQQLASNLQIHDDLDAAKQLILSHLRFVI 60 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+P+ G RL ++++ W+K+ + EY+LR+W Sbjct: 61 HIARQYSGYGLPQADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHWVKSEIHEYVLRNWR 120 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R++ Sbjct: 121 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVDMVARELGVSVKDVREMESRMSA 175 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEE-RKNRRNMLTRSMSVLNPRE 239 + + + ++ +Y D +IE++ + L +M L+PR Sbjct: 176 QDMAYDIYPDDETDTHHPVSPSLYLQDKSSDFAGMIEEDNWDAQATDHLVAAMETLDPRS 235 Query: 240 RRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + I AR L +N TL L+ + +S ERVRQ+E A KK++ +I Sbjct: 236 QDIIRARWLDDDNKATLHELAERYGISAERVRQLENNAMKKLRSAI 281 >gi|94499830|ref|ZP_01306366.1| RNA polymerase sigma-32 factor RpoH [Oceanobacter sp. RED65] gi|94428031|gb|EAT13005.1| RNA polymerase sigma-32 factor RpoH [Oceanobacter sp. RED65] Length = 288 Score = 177 bits (450), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 105/272 (38%), Positives = 156/272 (57%), Gaps = 7/272 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y++ I I +L +EE LA R DL AA RLV SHLR VV IA Y GYGL Sbjct: 19 LDGYLNAIGGIAVLSAEEERELADRLYYESDLEAARRLVLSHLRFVVHIAKSYNGYGLNQ 78 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+IL++W +VK+ TT Q++L Sbjct: 79 SDLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFILKNWRIVKVATTKAQRKL 138 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K + L + IA+ L VS EV M RL+ D + ++ + + Sbjct: 139 FFNLRSAKKR-----NGWLNEAEAHKIAEDLGVSAKEVYEMEGRLSSHDSTFDSPVADDE 193 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH + +E E ++ L ++ L+ R + I R L E+ Sbjct: 194 DSAYQAPANYLEDHSFDPALAVENENYEQDSTARLQDALVQLDDRSKDILMRRWLGEHKA 253 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL L+ E+ VS ER+RQ+E A KK++ I+ Sbjct: 254 TLHELADEYGVSAERIRQLEKNAMKKIKGMIE 285 >gi|256829638|ref|YP_003158366.1| RNA polymerase sigma-32 subunit RpoH [Desulfomicrobium baculatum DSM 4028] gi|256578814|gb|ACU89950.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfomicrobium baculatum DSM 4028] Length = 356 Score = 177 bits (450), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 102/279 (36%), Positives = 168/279 (60%), Gaps = 6/279 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI+K LE+ EE+ LA+RYR+ + AA L+TS+LRLVVKIAM + R + Sbjct: 76 LHIYLQEIKKFKPLEQDEEFDLARRYRDEKEEQAAFILITSNLRLVVKIAMDFQRRWMKN 135 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+AV+KFDP++G + + Y+ +WIKA + ++I+ +W +VKIGTT Q++ Sbjct: 136 VLDLIQEGNVGLMKAVQKFDPDKGIKFSYYASFWIKAYILKFIMDNWRMVKIGTTQAQRK 195 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LF+NL + + LQA P ++K L VSE++++ M RL G ++ + D Sbjct: 196 LFYNLGKERQRLQA---QGFDP-TTSTLSKNLQVSEADIVEMGQRL-GQHDVSLDMKIGD 250 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 +S D++ G E+ + E + + LN +E I E R L ++P+T Sbjct: 251 DSSFTPMDFIPALEAGIEEQMAADEISVLIHDNIDAIRDGLNEKELDILEQRLLADSPIT 310 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 L + ++ ++RERVRQIEAR +K++ + ++ SS Sbjct: 311 LREIGDKYGITRERVRQIEARLLQKIKAQMSSTIQDFSS 349 >gi|66047972|ref|YP_237813.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. syringae B728a] gi|237802354|ref|ZP_04590815.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. oryzae str. 1_6] gi|63258679|gb|AAY39775.1| Sigma-70 region 2:Sigma-70 region 4 [Pseudomonas syringae pv. syringae B728a] gi|330957082|gb|EGH57342.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. maculicola str. ES4326] gi|330970950|gb|EGH71016.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aceris str. M302273PT] gi|331025211|gb|EGI05267.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. oryzae str. 1_6] Length = 284 Score = 177 bits (450), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 106/273 (38%), Positives = 158/273 (57%), Gaps = 9/273 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+ + IP+L + E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 16 NLEAYVQTVNSIPLLTPERERELAESLYYEQDLDAARQMVLAHLRFVVHIARSYSGYGLA 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++ Sbjct: 76 QADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR K L + NN ++V +A+ L V EV M RL G D + + + Sbjct: 136 LFFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEAD 190 Query: 194 DKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D ++ Q + DH D Q L + + N L +++ VL+ R R I R L E Sbjct: 191 DDSAFQSPANYLEDHRYDPARQ-LEDSDWTDNSTANLHQALDVLDERSRDILYQRWLAEE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 250 KATLHDLAQKYNVSAERIRQLEKSAMNKLKTSI 282 >gi|5821404|dbj|BAA83808.1| sigma factor 32 [Pseudomonas putida] Length = 284 Score = 177 bits (449), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 104/271 (38%), Positives = 156/271 (57%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E L +R D+ AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTVEQERDLGERLYYEQDVEAARQMVMAHLRFVVHIARSYAGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIPEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL+G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLSGQDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + DH V +E + N + L ++ N R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHEALQGWNERSRDILYQRWLAEEKA 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L+ ++ VS ER+RQ+E A KV+ I Sbjct: 252 TLHELADKYSVSAERIRQLEKNAMNKVKALI 282 >gi|133470|sp|P19433|RPSB_MYXXA RecName: Full=RNA polymerase sigma-B factor Length = 246 Score = 177 bits (449), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 98/233 (42%), Positives = 144/233 (61%), Gaps = 4/233 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +VT++LR VVK+A YR YG+ +S+++ EGNIGLM+AV+KFDP++G RL +Y++WWI+A Sbjct: 1 MVTANLRFVVKVAYEYRSYGIKMSDLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAY 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +Q YIL+SWSLVK+GTT +LFF+L R + L+ + V IA++L+V E Sbjct: 61 IQNYILKSWSLVKLGTTQAHGKLFFSLARTRRELEKFGSGD-AAVNVDDIARRLHVKPGE 119 Query: 173 VISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V M R+ G D SL+A + NS D++V Q+ +KEE + + Sbjct: 120 VREMEQRMGGRDLSLDAPMGEDGGNSH--VDFVVSAAAPQDDEFADKEEAGLINARVRAA 177 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+PRE I E R + E P+TL+ L F SRER RQ+E RA K++ + Sbjct: 178 LMRLDPREPFIIEQRVMNERPMTLKELGEHFGFSRERARQLEIRAKDKLKSEL 230 >gi|146344240|ref|YP_001202096.1| putative RNA polymerase sigma-32 factor [Pseudomonas fluorescens SBW25] gi|146188052|emb|CAM96382.1| putative RNA polymerase sigma-32 factor [Pseudomonas fluorescens SBW25] Length = 291 Score = 177 bits (448), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 106/281 (37%), Positives = 159/281 (56%), Gaps = 13/281 (4%) Query: 1 MNRKNMSIIVNGEI------GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLV 54 MN +S +I L Y+ I IP + +EE L++R EH D+ AA LV Sbjct: 1 MNTSTLSTKAAAQIPMVPGSNLDAYLTVIHSIPNMSAEEERRLSERLVEHNDMDAARELV 60 Query: 55 TSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQ 114 TS LR VV IA Y GYGLP+S+++ EGNIGL++AVK+F+P RL T+ + WI+A + Sbjct: 61 TSQLRFVVHIARSYSGYGLPLSDLIQEGNIGLIKAVKRFNPAAQVRLITFGVHWIRAEIN 120 Query: 115 EYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 E+I+R+ +V++ TT Q++LFFNLR+ Q + N L ++ IA LNVS +V Sbjct: 121 EFIIRNGRMVRLATTKAQRKLFFNLRK-----QPRSRNWLTADETRHIADTLNVSVLDVK 175 Query: 175 SMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE-ERKNRRNMLTRSM 232 M R+AG D S + ++ D+++ + DH E E + + L ++ Sbjct: 176 EMETRMAGNDTSFDPAADADDESAYITPSHQIGDHRYDPAYQYETEADAGTSTDDLHAAL 235 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + L+ R R I R L E+ TL +L+S++ VS ER+RQIE Sbjct: 236 NNLDERSRDILAQRFLSESKATLNDLASKYNVSAERIRQIE 276 >gi|309785782|ref|ZP_07680413.1| alternative sigma factor RpoH [Shigella dysenteriae 1617] gi|308926902|gb|EFP72378.1| alternative sigma factor RpoH [Shigella dysenteriae 1617] gi|315614730|gb|EFU95370.1| alternative sigma factor RpoH [Escherichia coli 3431] gi|323162701|gb|EFZ48540.1| alternative sigma factor RpoH [Escherichia coli E128010] gi|323164790|gb|EFZ50582.1| alternative sigma factor RpoH [Shigella sonnei 53G] gi|323179012|gb|EFZ64586.1| alternative sigma factor RpoH [Escherichia coli 1180] gi|323182926|gb|EFZ68327.1| alternative sigma factor RpoH [Escherichia coli 1357] gi|323188948|gb|EFZ74232.1| alternative sigma factor RpoH [Escherichia coli RN587/1] gi|327251097|gb|EGE62790.1| alternative sigma factor RpoH [Escherichia coli STEC_7v] Length = 257 Score = 176 bits (447), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 107/273 (39%), Positives = 157/273 (57%), Gaps = 32/273 (11%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 ML EE LA++ HGDL AA L+ SHLR VV IA Y GYGLP ++++ EGNIGLM Sbjct: 1 MLSADEERALAEKLHYHGDLEAAKTLILSHLRFVVHIARNYAGYGLPQADLIQEGNIGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++LFFNLR+ K L Sbjct: 61 KAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRL- 119 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--------------SLNALINSS 193 ++V +A++L V+ +V M R+A + + ++ Sbjct: 120 ----GWFNQDEVEMVARELGVTSKDVREMESRMAAQDMTFDLSSDDDSDSQPMAPVLYLQ 175 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-NP 252 DK SS + D + D + +EQ N LT +M L+ R + I AR L E N Sbjct: 176 DK-SSNFADG-IEDDNWEEQAA----------NRLTDAMQGLDERSQDIIRARWLDEDNK 223 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 224 STLQELADRYGVSAERVRQLEKNAMKKLRAAIE 256 >gi|226946813|ref|YP_002801886.1| RNA polymerase factor sigma-32 [Azotobacter vinelandii DJ] gi|226721740|gb|ACO80911.1| RNA polymerase sigma-32 factor [Azotobacter vinelandii DJ] Length = 284 Score = 176 bits (447), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 111/284 (39%), Positives = 165/284 (58%), Gaps = 14/284 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +S +V G L Y+H + IP+L ++E LA R DL AA ++V +HLR VV IA Sbjct: 8 VSALVPG-ANLEAYVHAVNSIPLLTAEQERELADRLYYQQDLDAARQMVLAHLRFVVHIA 66 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGL S+++ EGN+GLM+AVK+F+PE G RL ++++ WI+A + E+ILR+W +VK Sbjct: 67 RSYSGYGLAQSDLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIRAEIHEFILRNWRIVK 126 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 I TT Q++LFFNLR K L + NN E+V A+A+ L V EV M RL+G + Sbjct: 127 IATTKAQRKLFFNLRSQKKRLAWL--NN---EEVDAVAESLGVEPHEVREMESRLSGQDM 181 Query: 186 LNALINSSDKNS-----SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +D +S + + + YD Q L E + + L ++ L+ R R Sbjct: 182 AFDPAADADDDSVFQAPAHYLEDQRYDPARQ---LEEADWSDSAAANLHEALEGLDERSR 238 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I R L E TL +L+++++VS ER+RQ+E A K++ SI Sbjct: 239 DILYQRWLAEEKATLHDLAAKYKVSAERIRQLEKSALNKLKGSI 282 >gi|220936149|ref|YP_002515048.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. HL-EbGR7] gi|219997459|gb|ACL74061.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. HL-EbGR7] Length = 281 Score = 176 bits (446), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 161/271 (59%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI I ++P+L+ +EE LA+ R+ DL AA +LV +LR VV IA GY GYGL + Sbjct: 14 LDGYIQAITRLPVLDAEEEQRLARDLRDRQDLEAARKLVMHNLRFVVHIARGYSGYGLGL 73 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AVK+FDPE G RL ++++ WI+A + E+ILR+W +VK+ TT Q++L Sbjct: 74 GDLIQEGNIGLMKAVKRFDPEMGVRLISFAVHWIRAEIHEFILRNWRIVKVATTKAQRKL 133 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L E+V A+A L V+ ++V+ M RLAG D S + S + Sbjct: 134 FFNLRSAKQRL-----GWFNSEEVNAVADDLGVTPAQVLEMESRLAGQDVSFDPAPASDE 188 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 S + D G +E ++ + L + L+PR R I R L E Sbjct: 189 DGPSLSPAETLIDESGDPAERLEADDWAAHHETRLHSGLEALDPRSRDIVARRWLTEQKA 248 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E+ +S ERVRQ+E+ A +K++ S+ Sbjct: 249 TLHELAAEYGISAERVRQLESNAMRKLRASL 279 >gi|15616654|ref|NP_239866.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219681412|ref|YP_002467797.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|219681968|ref|YP_002468352.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|257471086|ref|ZP_05635085.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] gi|7994684|sp|O05385|RP32_BUCAI RecName: Full=RNA polymerase sigma-32 factor gi|25288470|pir||H84932 DNA-directed RNA polymerase (EC 2.7.7.6) sigma-32 factor [imported] - Buchnera sp. (strain APS) gi|1929472|gb|AAB51433.1| heat shock sigma factor 32 [Buchnera aphidicola] gi|10038717|dbj|BAB12752.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219621701|gb|ACL29857.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|219624255|gb|ACL30410.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|311085774|gb|ADP65856.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] gi|311086927|gb|ADP67007.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] Length = 284 Score = 176 bits (446), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 110/277 (39%), Positives = 166/277 (59%), Gaps = 16/277 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE L KR R +GDL AA L+ SHLR V+ I+ Y GYGL Sbjct: 16 LDAYIRIANLWPMLSIEEEKKLTKRLRYNGDLDAAKTLILSHLRFVIHISRNYSGYGLLQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGNIGLM+AV++F+PE G RL ++++ WIK+ + EY+LR+W +VK+ TT +Q++L Sbjct: 76 SDLIQEGNIGLMKAVRRFNPEIGVRLVSFAVHWIKSEIHEYVLRNWRIVKVATTKSQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNAL----I 190 FFNLR+ K L + E++ +A++L VS +V M R+ A D + N Sbjct: 136 FFNLRKTKKRLGWFNE-----EEIQIVARELGVSSRDVREMESRMSAQDVAFNPSPEEHC 190 Query: 191 NSSDKNSSQW-QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 +S +S Q+ QD +G EQ E+ N L+ ++ L+ R R I AR L Sbjct: 191 DSKTNSSIQYLQDKTSNFANGVEQDNWEEHA----ANKLSSALLRLDERSRHIIHARWLD 246 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +N TL+N+++ + +S ERVRQ+E A KK++ +I+ Sbjct: 247 KNKKNTLQNIANNYGISAERVRQLEKNAMKKLKLAIE 283 >gi|312972274|ref|ZP_07786448.1| alternative sigma factor RpoH [Escherichia coli 1827-70] gi|310334651|gb|EFQ00856.1| alternative sigma factor RpoH [Escherichia coli 1827-70] Length = 257 Score = 176 bits (446), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 107/273 (39%), Positives = 157/273 (57%), Gaps = 32/273 (11%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 ML EE LA++ HGDL AA L+ SHLR VV IA Y GYGLP ++++ EGNIGLM Sbjct: 1 MLSADEERALAEKLHYHGDLEAAKTLILSHLRFVVHIARNYAGYGLPQADLIQEGNIGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +AV++F+PE G RL ++++ WIKA + EY+LR+W +VK+ TT Q++LFFNLR+ K L Sbjct: 61 KAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRL- 119 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--------------SLNALINSS 193 ++V +A++L V+ +V M R+A + + ++ Sbjct: 120 ----GWFNQDEVEMVARELGVTSKDVREMESRMAAQDMTFDLSSNDDSDSQPMAPVLYLQ 175 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-NP 252 DK SS + D + D + +EQ N LT +M L+ R + I AR L E N Sbjct: 176 DK-SSNFADG-IEDDNWEEQAA----------NRLTDAMQGLDERSQDIIRARWLDEDNK 223 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 224 STLQELADRYGVSAERVRQLEKNAMKKLRAAIE 256 >gi|183598031|ref|ZP_02959524.1| hypothetical protein PROSTU_01387 [Providencia stuartii ATCC 25827] gi|188022810|gb|EDU60850.1| hypothetical protein PROSTU_01387 [Providencia stuartii ATCC 25827] Length = 292 Score = 176 bits (446), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 108/307 (35%), Positives = 172/307 (56%), Gaps = 36/307 (11%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + ++++++ G I Y+ PML +EE LA+R HGDL AA +L+ SHLR V Sbjct: 4 DMQSLALVPQGSI--EAYMRAANAYPMLTAEEEKELAERLHYHGDLDAAKQLILSHLRFV 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 62 IHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEIGVRLVSFAVHWIKAEIHEYVLRNW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VKI TT +Q++LFFNLR+ K L ++V +AK+L VS +V M R+A Sbjct: 122 RIVKIATTKSQRKLFFNLRKNKKRL-----GWFNQDEVDMVAKELGVSTKDVREMESRMA 176 Query: 182 GD----------------ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 + + ++ DK+S D G + E + Sbjct: 177 AQDMAFDMSDDDDSGDLGQPIAPVLFLQDKSS---------DFAGS---IEEDNWESHAT 224 Query: 226 NMLTRSMSVLNPRERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L ++ L+ R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ ++ Sbjct: 225 DRLADALDSLDERSQDIIRARWLDDDNKTTLQELADKYGVSAERVRQLEKNAMKKLRAAM 284 Query: 285 QKQVELS 291 ++ E S Sbjct: 285 EEGEEES 291 >gi|71892394|ref|YP_278128.1| RNA polymerase factor sigma-32 [Candidatus Blochmannia pennsylvanicus str. BPEN] gi|71796500|gb|AAZ41251.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia pennsylvanicus str. BPEN] Length = 282 Score = 176 bits (445), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 107/292 (36%), Positives = 168/292 (57%), Gaps = 25/292 (8%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 +KN+++I G L YI ML +EE LAKR +GDL AA +L+ SHLR VV Sbjct: 6 QKNVTLIPQG--NLEAYIKVANAYTMLTAEEEKTLAKRLYYNGDLDAAKKLIVSHLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 ++ Y GYGLP ++++ EGNIGLM+AV++F+PE RL ++++ WIK+ + EY+L++W Sbjct: 64 HVSRNYSGYGLPQADLIQEGNIGLMKAVRRFNPELDVRLVSFAVHWIKSEIHEYVLKNWR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VKI TT Q++LFFNLR+ K L ++ +AK LNV+ +V M R++ Sbjct: 124 IVKIATTKAQRKLFFNLRKTKQRLGW-----FNAGEIEIVAKALNVTSKDVREMESRMSA 178 Query: 183 DESLNALINSSDKNSS--------QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 + SSD+++ QD +V ++ +E + + L ++ Sbjct: 179 QDM--TFEQSSDEDNRGITIAPILYLQDKIVSSNEEEEWI-------DQVSDKLNAAIKT 229 Query: 235 LNPRERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+ R + I AR L +N TL+ L++++ VS ERVRQ+E A KK++ IQ Sbjct: 230 LDERSQHIIRARWLNVDNKSTLQELANQYGVSAERVRQLEKNAMKKMKLIIQ 281 >gi|133286|sp|P11539|RP32_CITFR RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein gi|40469|emb|CAA33083.1| unnamed protein product [Citrobacter freundii] Length = 284 Score = 176 bits (445), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 112/287 (39%), Positives = 169/287 (58%), Gaps = 11/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA++ GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAEKLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGL ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYAGYGLRQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + ++S D++ SQ ++Y D IE++ +++ N LT +M L+ R Sbjct: 178 -QDMTFDMSSDDESDSQPMAPVLYLQDKSSNFADGIEEDNWEDQAANKLTHAMEGLDERS 236 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 237 QDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 283 >gi|146284301|ref|YP_001174454.1| RNA polymerase factor sigma-32 [Pseudomonas stutzeri A1501] gi|145572506|gb|ABP81612.1| sigma factor RpoH [Pseudomonas stutzeri A1501] gi|327482685|gb|AEA85995.1| RNA polymerase factor sigma-32 [Pseudomonas stutzeri DSM 4166] Length = 284 Score = 175 bits (444), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 106/274 (38%), Positives = 162/274 (59%), Gaps = 11/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ + +P+L ++E LA+R H DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVQTVNSLPLLTVEQERELAERLFYHQDLEAARQMVLAHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WI+A + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIRAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L + NN ++V A+A L V EV M RL G + + Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVTAVADSLGVEPHEVREMESRLTG-HDMAFDPAADAD 190 Query: 196 NSSQWQDWLVY--DH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + S +Q Y DH D Q L + + + + L ++ L+ R R I + R L E+ Sbjct: 191 DDSAYQSPAHYLEDHRYDPARQ-LEDADWSDSSTSSLHAALEGLDERSRDILQQRWLNED 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL +L++++ VS ER+RQ+E A K++ SIQ Sbjct: 250 KATLHDLAAKYNVSAERIRQLEKNAMNKLKGSIQ 283 >gi|152998320|ref|YP_001343155.1| RNA polymerase factor sigma-32 [Marinomonas sp. MWYL1] gi|150839244|gb|ABR73220.1| RNA polymerase, sigma 32 subunit, RpoH [Marinomonas sp. MWYL1] Length = 288 Score = 175 bits (444), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 107/269 (39%), Positives = 156/269 (57%), Gaps = 11/269 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +IP+L EE LA+R DL AA LV SHLR VV IA Y GYGL Sbjct: 17 LESYIQAVSRIPILTADEEKALAERLYYQEDLEAARTLVMSHLRFVVHIAKSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+IL++W +VK+ TT Q+++ Sbjct: 77 GDLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFILKNWRIVKVATTKAQRKM 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSD 194 FFNLR K L +++ +V ++A L V+ V M RL + D + +A + D Sbjct: 137 FFNLRSAKKSLSWFSNS-----EVESVASDLGVTPEVVRQMEGRLSSSDMAFDASADDDD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ Q + DH L+E EE N+R L +M+ L+ R R I R L + Sbjct: 192 DSAFQAPSQYLEDHRSDPATLLENGNWEEDSNQR--LEVAMADLDERSRNILVQRWLSDA 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKV 280 TL L+ E+ VS ER+RQ+E A KK+ Sbjct: 250 KSTLHELADEYGVSAERIRQLEKNAMKKI 278 >gi|42524684|ref|NP_970064.1| RNA polymerase sigma-32 factor [Bdellovibrio bacteriovorus HD100] gi|39576894|emb|CAE78123.1| RNA polymerase sigma-32 factor [Bdellovibrio bacteriovorus HD100] Length = 373 Score = 175 bits (444), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 99/278 (35%), Positives = 170/278 (61%), Gaps = 14/278 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y++EIR+ +L ++EE LAK+Y E D AA LV ++LR VVK+A Y +G + Sbjct: 103 LVMYLNEIRRYKVLTREEEMALAKKYFESKDPEAAQALVKANLRFVVKVAAEYSKFGSKM 162 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM AV++F+P +G RL TY++WWI+ +QE+++R +S+V+IGTT NQ++L Sbjct: 163 IDLIQEGNVGLMHAVREFNPYKGARLITYAVWWIRGYIQEFLMRQYSMVRIGTTQNQRKL 222 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 F+ L++ K L A+ ++P + I+ +L + E EV M R++G D SL+ ++ D Sbjct: 223 FYQLQKEKEALDAM---GIEP-NIGLISSRLGIPEDEVRDMTMRMSGRDVSLDRPVD--D 276 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP----RERRIFEARRLQE 250 ++ + D D Q L E + +L + + + P RE+ I + R L + Sbjct: 277 ESGTTLGDLQRGPSD---QPLDEALAHNEQLEILKQKIEEIRPELSEREKIILDERILND 333 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +P+TL+ + + ++RE VRQ+EAR KK++ +++ Sbjct: 334 DPLTLQEIGEKHGITREAVRQMEARLMKKIKAKMEEDA 371 >gi|300721688|ref|YP_003710964.1| sigma H (sigma 32) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|297628181|emb|CBJ88736.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Xenorhabdus nematophila ATCC 19061] Length = 285 Score = 175 bits (443), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 108/289 (37%), Positives = 170/289 (58%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEGYIRASNTYPMLSAEEERELAERLHYQGDLDAAKKLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VVHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +++ +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKAKQRL-----GWFNQDEIELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNP 237 + + + D + SQ ++Y D IE++ +N + L+ +M L+ Sbjct: 176 SAQDMAFDMSADDDNHDSQPVAPVLYLQDKASDFADGIEEDNWENHAADKLSVAMEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L EN TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQDIIRARWLDDENKTTLQELADKYGVSAERVRQLEKNAMKKLRLAIE 284 >gi|27904539|ref|NP_777665.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. Bp (Baizongia pistaciae)] gi|31340406|sp|Q89B27|RP32_BUCBP RecName: Full=RNA polymerase sigma-32 factor gi|27903936|gb|AAO26770.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Bp (Baizongia pistaciae)] Length = 287 Score = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 98/276 (35%), Positives = 161/276 (58%), Gaps = 10/276 (3%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L YI E PML QEE L+++ HGDL+AA L+ SHLR V+ ++ Y GYGL Sbjct: 16 NLDSYIREANSWPMLSSQEEKYLSEKLFYHGDLNAAKTLILSHLRFVIHVSRNYSGYGLL 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGNIGLM+AV++F+P+ G RL ++++ WIK+ + EY+LR+W +VK+ TT +Q++ Sbjct: 76 QADLIQEGNIGLMKAVRRFNPKIGVRLVSFAVHWIKSEIHEYVLRNWRIVKVATTKSQRK 135 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LFFNLR+ K L D+ L+ +A++L V +V M R++ + + + Sbjct: 136 LFFNLRKTKQRLGWFNDHELE-----LVAQELGVKREDVREMESRMSAQDIALHHVPDNF 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNPRERRIFEARRLQ-- 249 + + + Y D EE ++ N L+ ++S L+ R R I AR L Sbjct: 191 REEQNFSYTIPYLKDSLSDFANHVEEDNWEAHKTNKLSNALSSLDERSRNIIHARWLDDS 250 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ +TL ++ + +S ERVRQ+E A KK++ +I+ Sbjct: 251 DHKMTLREIAHNYGISAERVRQLEKNAMKKLKVAIE 286 >gi|311696378|gb|ADP99251.1| RNA polymerase, sigma 32 subunit, RpoH [marine bacterium HP15] Length = 286 Score = 174 bits (441), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 103/267 (38%), Positives = 153/267 (57%), Gaps = 7/267 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI +IP+L EE LA+R GD+ AA +LV SHLR V+ IA Y GYGL Sbjct: 17 LESYIQAASRIPVLTVDEERELAERLHYEGDVEAARQLVMSHLRFVIHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L ++ + L A+A+ L V V M RLA D + + + D Sbjct: 137 FFNLRSQKKKLAWLSHDELN-----AVAEDLGVEPRVVREMEGRLASQDTAFDGPQDDDD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQENPV 253 N+ Q + + D +E + + N L +++ L+ R + I R L E+ Sbjct: 192 DNAYQAPAYYLEDARSNPATQLENADWSDDSNGRLMQALGQLDERSQDILRERWLSESKS 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKV 280 TL L+ + VS ER+RQ+E A KK+ Sbjct: 252 TLHELADRYGVSAERIRQLEKNAMKKI 278 >gi|301166786|emb|CBW26363.1| RNA polymerase sigma-32 factor [Bacteriovorax marinus SJ] Length = 350 Score = 174 bits (440), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 110/280 (39%), Positives = 167/280 (59%), Gaps = 17/280 (6%) Query: 11 NGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 + +IG L+ Y+ EI K +L +EE L ++ E GD+ A +LV ++LRLVVKIAM Y Sbjct: 71 DSKIGDPLTAYLREISKYELLTIEEERELTQKLVETGDIEVAKKLVAANLRLVVKIAMEY 130 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 R + +++ EGNIGLM+AV K+DP++G +L+ Y+ WWIK+ + +YIL ++ LVKIGT Sbjct: 131 RSSFQNVMDLIQEGNIGLMKAVSKYDPDKGAKLSYYASWWIKSYILKYILDNFRLVKIGT 190 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---GDES 185 T QK+LF+NL + K L ++P+ + +++ L VSE V M+ R++ G+ S Sbjct: 191 TNEQKKLFYNLMKEKDRLAK---QGIEPDHKL-LSENLGVSEKAVALMDGRMSSSGGELS 246 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM----SVLNPRERR 241 L + D S D LV D E + EK +L ++ S L R+R Sbjct: 247 LETPL-GHDSGSGVLSDILV---DQDESDISEKIADAQGLEILQENLRDFVSGLKERDRD 302 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 IF+ R L E P +L+N++ E+ VSRER+RQIE R K ++ Sbjct: 303 IFKKRLLSEVPPSLQNIADEYGVSRERIRQIEERLLKNLK 342 >gi|33520062|ref|NP_878894.1| RNA polymerase factor sigma-32 [Candidatus Blochmannia floridanus] gi|33504408|emb|CAD83301.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia floridanus] Length = 283 Score = 173 bits (438), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 103/282 (36%), Positives = 167/282 (59%), Gaps = 12/282 (4%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 RKN+++ G L YI PML +EE LAK +GDL+AA +L+ SHLR V+ Sbjct: 6 RKNVTLASQG--TLEAYIRAANLYPMLTVEEEQKLAKNLYYNGDLNAAKKLIVSHLRFVI 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGL ++++ EGNIGLM+++++F+PE RL ++++ WIK+ + EY+L++W Sbjct: 64 HVARNYSGYGLSQADLIQEGNIGLMKSIRRFNPELDVRLVSFAVHWIKSEIHEYVLKNWR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VKI TT Q++LFFNLR+ K L + ++ +AK L+V+ +V M R+A Sbjct: 124 IVKIATTKAQRKLFFNLRKTKQRLGWFNEG-----EIEMVAKTLHVTCKDVREMESRMAA 178 Query: 183 -DESL-NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 D +L ++ DKN ++Y D + E+E N L +++ L+ R + Sbjct: 179 QDMTLEQPYLDEDDKNILSIP--MLYLQDKITIIDDEEEWIDQVSNKLNIALNTLDKRSQ 236 Query: 241 RIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I AR L +N TL+ L++++ +S ER+RQ+E A KK++ Sbjct: 237 HIIRARWLNADNKTTLQELANQYGISAERIRQLEKNAMKKMK 278 >gi|158522485|ref|YP_001530355.1| RNA polymerase sigma 70 family subunit [Desulfococcus oleovorans Hxd3] gi|158511311|gb|ABW68278.1| putative RNA polymerase, sigma 70 family subunit [Desulfococcus oleovorans Hxd3] Length = 321 Score = 173 bits (438), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 102/275 (37%), Positives = 169/275 (61%), Gaps = 7/275 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L RY+ E+ + +L +++E L KR +E GD AA+ L TS+LRLVVKIA+ + R + Sbjct: 41 LQRYLKEVSRYNLLTREQEIELGKRVQEEGDEEAAYILATSNLRLVVKIALEFQRVWMQN 100 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGNIGLM AV+KFDP + + + Y+ +WIKA + ++++ +W LVKIGTT NQ++ Sbjct: 101 LLDLIQEGNIGLMHAVQKFDPYKNVKFSYYASFWIKAYILKFVMDNWRLVKIGTTQNQRK 160 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSS 193 LFF RLK QA+ D +P + +A++L V + EVI+M RL D SL+ + S Sbjct: 161 LFF---RLKKEKQALIDQGFEPRPKL-LAERLGVPQKEVINMEQRLDMWDLSLDEPV-SH 215 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D ++ + + + ++ + +K R+ L L PRER IF+ R + P+ Sbjct: 216 DSDTQKGDLLDINNTQPVDEQVGDKALRQLVGEHLVEFKKTLTPRERDIFKTRIYTDQPM 275 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+++ + +SRERVRQ+E KK+++ ++++ Sbjct: 276 TLQDIGERYAISRERVRQLEVNIIKKMRDFFKEKI 310 >gi|261344963|ref|ZP_05972607.1| alternative sigma factor RpoH [Providencia rustigianii DSM 4541] gi|282567106|gb|EFB72641.1| alternative sigma factor RpoH [Providencia rustigianii DSM 4541] Length = 291 Score = 173 bits (438), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 105/303 (34%), Positives = 173/303 (57%), Gaps = 38/303 (12%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + ++++++ G I YI PML +EE LA+R GDL AA +L+ SHLR V Sbjct: 4 DMQSLALVPQGSI--EAYIRAANTYPMLSAEEEKELAERLHYDGDLEAAKQLILSHLRFV 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 62 IHIARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT +Q++LFFNLR+ K L ++V +A++L VS +V+ M R+A Sbjct: 122 RIVKVATTKSQRKLFFNLRKNKKRL-----GWFNQDEVDMVAQELGVSTKDVLEMESRMA 176 Query: 182 GDES----------------LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNR 224 + + ++ DK+S D G IE + + Sbjct: 177 AQDMAFDMSDDDDSGDFGGPIAPVLYLQDKSS---------DFAGS----IEDDNWESHA 223 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L+ +++ L+ R + I AR L ++ TL+ L+ ++ VS ERVRQ+E A KK++ + Sbjct: 224 TDRLSDALASLDERSQDIIRARWLDDDSKTTLQELADKYGVSAERVRQLEKNAMKKLRLA 283 Query: 284 IQK 286 +++ Sbjct: 284 MEE 286 >gi|78486471|ref|YP_392396.1| sigma 32 (RpoH) [Thiomicrospira crunogena XCL-2] gi|78364757|gb|ABB42722.1| sigma 32 (RpoH) [Thiomicrospira crunogena XCL-2] Length = 283 Score = 172 bits (437), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 96/267 (35%), Positives = 157/267 (58%), Gaps = 7/267 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ ++ +P L EE LA++ DL+AA +L+ S LR VV IA Y GYGLP++++ Sbjct: 21 YLRTVQTLPQLSADEERELAEKLYHDKDLNAARQLILSSLRYVVPIARSYNGYGLPLNDL 80 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AVK+F+P RL T+++ W++A + EY++++W +VK TT Q++LFF Sbjct: 81 IQEGNIGLMKAVKRFNPAEKVRLMTFAVHWVRAEINEYVIKNWRIVKTATTKAQRKLFFK 140 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR K L+ + D + IAK+L V+ +V+ M RL G D S++ + + NS Sbjct: 141 LRSTKKSLEWLGDKDAD-----TIAKELGVTRKDVLEMETRLYGQDMSVDLSPDEEEANS 195 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 + + + D + Q L + + + +++ L+ R R I + R L E+ L+ Sbjct: 196 KTYPVLVSQELDPETQ-LANDSQSDHELGKMHQALKQLDQRSRDILQQRWLSEDKTGLKA 254 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESI 284 LS ++ VS ER+RQIE +A K + S+ Sbjct: 255 LSEKYGVSMERIRQIEQQAIKTLHASM 281 >gi|296105152|ref|YP_003615298.1| RNA polymerase factor sigma-32 [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295059611|gb|ADF64349.1| RNA polymerase factor sigma-32 [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 285 Score = 172 bits (437), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 112/287 (39%), Positives = 169/287 (58%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA++ GDL AA +L+ SHLR VV Sbjct: 3 KEMQTLALAPVGNLESYIRAANTWPMLTAEEEKELAEKLHYQGDLEAAKKLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + + D + SQ ++Y D IE++ +++ N L+ +M L+ R Sbjct: 178 QDMTFDMSSDDDASDSQPMAPVLYLQDKTSNFADGIEEDNWEDQAANKLSYAMEGLDERS 237 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 QDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|149378434|ref|ZP_01896128.1| RNA polymerase sigma-32 factor RpoH [Marinobacter algicola DG893] gi|149357284|gb|EDM45812.1| RNA polymerase sigma-32 factor RpoH [Marinobacter algicola DG893] Length = 289 Score = 172 bits (437), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 102/268 (38%), Positives = 154/268 (57%), Gaps = 7/268 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI +IP+L +EE LA+R GD+ AA LV SHLR V+ IA Y GYGL Sbjct: 17 LESYIQAASRIPVLSVEEERKLAERLHYDGDVDAARELVLSHLRFVIHIARSYAGYGLSQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L ++ + +V A+A L V V M RLA D + + + D Sbjct: 137 FFNLRSQKKRLAWLSHD-----EVNAVASDLGVEPRVVREMEGRLASHDTAFDGPQDDDD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQENPV 253 N+ Q + + D +E+ + + N L ++ L+ R + I R L ++ Sbjct: 192 DNAYQAPAYYLEDKRSNPATQLEQSDWTDDSNGRLMAALEQLDERSQDILRERWLSDSKS 251 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L+ + VS ER+RQ+E A KK++ Sbjct: 252 TLHELADRYGVSAERIRQLEKNAMKKIR 279 >gi|157368473|ref|YP_001476462.1| RNA polymerase factor sigma-32 [Serratia proteamaculans 568] gi|157320237|gb|ABV39334.1| RNA polymerase, sigma 32 subunit, RpoH [Serratia proteamaculans 568] Length = 285 Score = 172 bits (436), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 107/289 (37%), Positives = 162/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANTYPMLTAEEERELAERLHYQGDLEAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + D Q ++Y D EE N + L +M L+ Sbjct: 176 AAQDMTFDPTPDDDAREGQSMAPVLYLQDKSSDFAEGIEEDNWESNAADKLAYAMEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLKMAIE 284 >gi|268590799|ref|ZP_06125020.1| alternative sigma factor RpoH [Providencia rettgeri DSM 1131] gi|291313578|gb|EFE54031.1| alternative sigma factor RpoH [Providencia rettgeri DSM 1131] Length = 292 Score = 172 bits (436), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 105/303 (34%), Positives = 170/303 (56%), Gaps = 38/303 (12%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + ++++++ G I Y+ PML +EE LA+R HGDL AA +L+ SHLR V Sbjct: 4 DMQSLALVPQGSI--EAYVRAANSYPMLTAEEEKELAERLHYHGDLDAAKQLILSHLRFV 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 62 IHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT +Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 122 RIVKVATTKSQRKLFFNLRKNKKRL-----GWFNQDEVDMVAQELGVSTKDVREMESRMA 176 Query: 182 GDES----------------LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNR 224 + + ++ DK S D G IE + + Sbjct: 177 AQDMAFDMSDDDDSSDFGGPVAPVLYLQDKAS---------DFAGS----IEDDNWESHA 223 Query: 225 RNMLTRSMSVLNPRERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L ++ L+ R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ + Sbjct: 224 TDRLADALDSLDERSQDIIRARWLDDDNKTTLQELADKYGVSAERVRQLEKNAMKKLRLA 283 Query: 284 IQK 286 +++ Sbjct: 284 MEE 286 >gi|224369499|ref|YP_002603663.1| RpoH [Desulfobacterium autotrophicum HRM2] gi|223692216|gb|ACN15499.1| RpoH [Desulfobacterium autotrophicum HRM2] Length = 322 Score = 172 bits (436), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 105/276 (38%), Positives = 166/276 (60%), Gaps = 10/276 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L Y+ EI + +L ++EE L + +E D AA+ +VTS+LRLVVKIA+ + R + Sbjct: 43 LQSYLAEINRYRLLTREEEVNLGTKIQEENDSDAAYVMVTSNLRLVVKIALDFQRIWMQN 102 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGNIGL++AVKKFDP + + + Y+ +WIKA + ++I+ +W LVKIGTT Q++ Sbjct: 103 LLDLIQEGNIGLVKAVKKFDPYKNVKFSYYASFWIKAYILKFIMDNWRLVKIGTTQGQRK 162 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN-ALINS 192 LFF RLK Q + D P + +++++ VSE E+I M+ RL G D SL+ L N Sbjct: 163 LFF---RLKKEKQKLIDEGFDPGPKL-LSERMGVSEQEIIEMDQRLDGWDLSLDEPLRND 218 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD ++ +++ + D E + KE + + + LNPRE IF R + P Sbjct: 219 SD---TERIEFINVESDSTEDRVARKEIEDILHVRVKKFTATLNPREMEIFSKRIFSDEP 275 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ + E+ +SRERVRQIE KK++E + ++ Sbjct: 276 RTLQEIGEEYNISRERVRQIENNIIKKMKEYFKNEM 311 >gi|260220134|emb|CBA27368.1| RNA polymerase sigma-32 factor [Curvibacter putative symbiont of Hydra magnipapillata] Length = 354 Score = 172 bits (435), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 87/180 (48%), Positives = 119/180 (66%), Gaps = 10/180 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI ++PML +EE A++++ DL AA +LV SHLRLVV +A Y GYGLP Sbjct: 36 LDAYISAANRLPMLTLEEEQEFARKFKNENDLEAAGKLVLSHLRLVVSVARQYLGYGLPH 95 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AVK+FDPE+G RL +Y++ WIKA + EYIL++W +VK+ TT Q++L Sbjct: 96 GDLIQEGNVGLMKAVKRFDPEQGVRLVSYALHWIKAEIHEYILKNWRMVKVATTKAQRKL 155 Query: 136 FFNLR----RLKGHLQAITD-----NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 FFNLR R KG A D + L EQV +A++LNV EV+ M RLAG + L Sbjct: 156 FFNLRSMKQRFKGE-DAAADLDTHRDTLNSEQVNTMARELNVKPEEVLEMEARLAGGDVL 214 >gi|146309186|ref|YP_001189651.1| RNA polymerase factor sigma-32 [Pseudomonas mendocina ymp] gi|145577387|gb|ABP86919.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas mendocina ymp] Length = 284 Score = 172 bits (435), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 102/272 (37%), Positives = 159/272 (58%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHAVNSIPLLTPEQERELAESLYYQQDLEAARQMVLAHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WI+A + E+IL++W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIRAEIHEFILKNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + ++ +V A+A+ L V EV M RL G D + + ++ D Sbjct: 137 FFNLRSQKKRLAWLNND-----EVTAVAESLGVEPHEVREMESRLTGQDMAFDPASDADD 191 Query: 195 KNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ Q + DH D Q+ + N L ++ L+ R R I R L E Sbjct: 192 DSAFQSPAHYLEDHRYDPARQLEDADWSDSSSSN-LHEALESLDERSRDILYQRWLAEEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L++++ VS ER+RQ+E A K++ SI Sbjct: 251 ATLHDLAAKYNVSAERIRQLEKNAMNKLKGSI 282 >gi|329896515|ref|ZP_08271573.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC3088] gi|328921732|gb|EGG29105.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC3088] Length = 286 Score = 172 bits (435), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 104/267 (38%), Positives = 158/267 (59%), Gaps = 8/267 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ YI + IP+L + E LA+ + +L AA +LV SHLR VV IA Y GYGL Sbjct: 17 LAAYIQTVSSIPVLSVERERELAEDLYYNDNLEAARQLVMSHLRFVVHIARSYSGYGLAE 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE+G RL ++++ WIKA M E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEKGVRLVSFAVHWIKAEMHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L L E+ A+A L V EV +M R++ D + +A +S D Sbjct: 137 FFNLRSSKKALAW-----LSAEEAQAVADDLGVDVREVATMEARMSSRDVAFDAPSDSDD 191 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + Q +L DH +E +++ + L ++ L+ R R I R L + Sbjct: 192 DDVYAPQYYL-EDHRADPAQQVESTNWQEDSESRLHYALEQLDERSRDILAQRWLNDEKA 250 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKV 280 TL +L++++ VS ER+RQ+E A +KV Sbjct: 251 TLHDLAAQYGVSAERIRQLEQNAMQKV 277 >gi|254449115|ref|ZP_05062567.1| alternative sigma factor RpoH [gamma proteobacterium HTCC5015] gi|198261307|gb|EDY85600.1| alternative sigma factor RpoH [gamma proteobacterium HTCC5015] Length = 227 Score = 172 bits (435), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 87/193 (45%), Positives = 122/193 (63%), Gaps = 5/193 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 NM+ + L Y+ ++ IP+L +EE LA+R GDL AA +LV SHLR V I Sbjct: 34 NMAPVALSNDTLDAYMQQVSSIPVLGAEEEQELAQRLHREGDLDAARQLVFSHLRFVTHI 93 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A GY+GYGLP+++V+ EGNIGLM+AVK+FDP G RL ++++ WI+A + EYILR+W +V Sbjct: 94 ARGYKGYGLPLADVIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWIRAEIHEYILRNWRIV 153 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K+ TT Q++LFF LR K L L E+V +AK L V S+V+ M RLAG + Sbjct: 154 KVATTKAQRKLFFKLRSNKKSL-----GWLNHEEVKTVAKDLGVEASDVMEMESRLAGSD 208 Query: 185 SLNALINSSDKNS 197 L + D ++ Sbjct: 209 MAYDLPGNDDDDA 221 >gi|195940831|ref|ZP_03086213.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. EC4024] gi|1710645|sp|P50508|RP32_ENTCL RecName: Full=RNA polymerase sigma-32 factor gi|1143326|dbj|BAA09440.1| sigma-32 homolog [Enterobacter cloacae] gi|295097059|emb|CBK86149.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 285 Score = 172 bits (435), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 112/287 (39%), Positives = 167/287 (58%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA++ GDL AA L+ SHLR VV Sbjct: 3 KEMQTLALAPVGNLESYIRAANTWPMLTAEEEKELAEKLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + D + SQ ++Y D IE++ +++ N LT +M L+ R Sbjct: 178 QDMTFDMSADDDASDSQPMAPVLYLQDKTSNFADGIEEDNWEDQAANKLTFAMEGLDERS 237 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 QDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|262195942|ref|YP_003267151.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] gi|262079289|gb|ACY15258.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] Length = 298 Score = 172 bits (435), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 108/299 (36%), Positives = 169/299 (56%), Gaps = 13/299 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+ ++ E G Y+ + +I LE++EE LA+R+REHGD +AA LV+S LR V+KIA Sbjct: 1 MARYISEEPGFQTYVDSVERIAALEREEELALARRWREHGDRAAADALVSSQLRSVLKIA 60 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 YRGYG+ +S++V+EGN+GL++AV +F+PERG R TY+ W++A + ++L+ WS+V Sbjct: 61 RKYRGYGIYLSDLVAEGNLGLLEAVNRFEPERGLRFFTYARHWVRAFILAHVLKHWSIVD 120 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLA-GD 183 +GTTA Q ++FF L+ H + +T + +QV +A S +V + RLA D Sbjct: 121 LGTTAQQSKMFFRLQ--SEHARLLTTLGDQSDQVERQLADTFKTSPEQVRANLQRLARRD 178 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL+ + + D L D QE E RN ++ L+ RER I Sbjct: 179 ASLDVPVVD---GGITFLDMLQADTTDQETQTAAAELSSVVRNAVSELWPTLDCRERLIV 235 Query: 244 EARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK----QVELSSSPPL 296 + R L +P TL L + ++RERVRQ+EA +++ + + +VE + PL Sbjct: 236 DERLLPADGDPRTLAALGRQLGLTRERVRQLEAGVKDRLRAVLDRLLGGEVEHAQPAPL 294 >gi|270264290|ref|ZP_06192557.1| RNA polymerase sigma-32 factor [Serratia odorifera 4Rx13] gi|270041939|gb|EFA15036.1| RNA polymerase sigma-32 factor [Serratia odorifera 4Rx13] Length = 285 Score = 171 bits (433), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 106/289 (36%), Positives = 162/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANTYPMLTAEEERELAERLHYQGDLEAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + D Q ++Y D EE N + L ++ L+ Sbjct: 176 AAQDMTFDPTPDDDARDGQSMAPVLYLQDKSSDFAEGIEEDNWESNAADKLAYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLKMAIE 284 >gi|212711019|ref|ZP_03319147.1| hypothetical protein PROVALCAL_02088 [Providencia alcalifaciens DSM 30120] gi|212686187|gb|EEB45715.1| hypothetical protein PROVALCAL_02088 [Providencia alcalifaciens DSM 30120] Length = 291 Score = 171 bits (433), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 103/291 (35%), Positives = 170/291 (58%), Gaps = 12/291 (4%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + ++++++ G I Y+ PML +EE LA+R GDL AA +L+ SHLR V Sbjct: 4 DMQSLALVPQGSI--EAYMRAANAYPMLTAEEEKELAERLHYDGDLEAAKQLILSHLRFV 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 62 IHIARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +VK+ TT +Q++LFFNLR+ K L ++V +A++L VS +V+ M R+A Sbjct: 122 RIVKVATTKSQRKLFFNLRKNKKRL-----GWFNQDEVNMVAQELGVSTKDVLEMESRMA 176 Query: 182 GDESLNALINSSDKNSSQWQ-DWLVYDHDGQEQV--LIEKEE-RKNRRNMLTRSMSVLNP 237 + + + D ++Y D IE + + + L +++ L+ Sbjct: 177 AQDMAFDMSDDDDSGDFGGPVAPVLYLQDKASDFANTIEDDNWESHATDRLADALASLDE 236 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +++ + Sbjct: 237 RSQDIIRARWLDDDNKTTLQELADKYGVSAERVRQLEKNAMKKLRLAMEDE 287 >gi|254283645|ref|ZP_04958613.1| alternative sigma factor RpoH [gamma proteobacterium NOR51-B] gi|219679848|gb|EED36197.1| alternative sigma factor RpoH [gamma proteobacterium NOR51-B] Length = 291 Score = 171 bits (432), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 104/271 (38%), Positives = 158/271 (58%), Gaps = 7/271 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + IPML + E LA++ +++A LV +HLR VV IA Y GYGL Sbjct: 24 LPAYIQAVGTIPMLSAEREQALAEKLYYGECVASARELVLAHLRFVVHIARSYSGYGLAE 83 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+FDP +G RL ++++ WIKA M E+ILR+W +VK+ TT Q++L Sbjct: 84 ADLIQEGNVGLMKAVKRFDPNKGVRLVSFAVHWIKAEMHEFILRNWRIVKVATTKAQRKL 143 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K +L +T + + AIA+ L V E+EV M RL+ D + +A ++ D Sbjct: 144 FFNLRSAKKNLSWLTHSETQ-----AIAEDLGVPEAEVQRMEGRLSCRDMAFDAPSDADD 198 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ Q + D V +E + L +++ L+ R + I R L E Sbjct: 199 DDAWQAPQHYLQDLSSDPAVAVEAANSSADDETRLHAALAQLDARSQDILARRWLAEKKA 258 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL L++E VS ER+RQ+EA A KK++ + Sbjct: 259 TLHELAAEHGVSAERIRQLEANAMKKLRTGL 289 >gi|254473016|ref|ZP_05086414.1| RNA polymerase sigma factor [Pseudovibrio sp. JE062] gi|211957737|gb|EEA92939.1| RNA polymerase sigma factor [Pseudovibrio sp. JE062] Length = 289 Score = 171 bits (432), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 102/266 (38%), Positives = 163/266 (61%), Gaps = 10/266 (3%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 RK P L K+EEY L + + D A +L SH RLV+ A+ ++ YG+P+S+++ EG+ Sbjct: 18 RKAPYLSKEEEYKLLEGWITKRDHRALDKLSLSHSRLVIAQALRFKSYGVPLSDLIQEGH 77 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGLM+A +F + R +TY+ WWIK+ +Q+Y+LR+ S+V+ GT++ QK LFF +R++ Sbjct: 78 IGLMEAANRFKLSKDVRFSTYASWWIKSFIQDYVLRNQSIVRGGTSSRQKMLFFGFKRMR 137 Query: 144 GHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLA-GDESLNALINSSDKNSSQWQ 201 L A L +Q+ I+ + + ++ M+ RL D SLNA + S+ N Q Q Sbjct: 138 AEL-ASKHPELSEDQLHQQISNQTGANMRDIKMMSSRLGRSDTSLNATLKGSETN-LQLQ 195 Query: 202 DWLVYDHDGQEQVLIE---KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D L D +++ +E ER RR L ++ L PRE+R+ R+L+E+ VTLE L Sbjct: 196 DTLAADEPLPDEI-VEVHLDSERAERR--LFDAIKTLPPREQRVIRDRKLREDGVTLEAL 252 Query: 259 SSEFEVSRERVRQIEARAFKKVQESI 284 + VS+ERVRQIE+RA +K+++++ Sbjct: 253 GKKLGVSKERVRQIESRAMQKLKDAM 278 >gi|261341953|ref|ZP_05969811.1| alternative sigma factor RpoH [Enterobacter cancerogenus ATCC 35316] gi|288315861|gb|EFC54799.1| alternative sigma factor RpoH [Enterobacter cancerogenus ATCC 35316] Length = 285 Score = 170 bits (431), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 111/287 (38%), Positives = 168/287 (58%), Gaps = 10/287 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML +EE LA++ GDL AA L+ SHLR VV Sbjct: 3 KEMQTLALAPVGNLESYIRAANTWPMLTAEEEKELAEKLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNPRE 239 + + + D + SQ ++Y D IE++ +++ N L+ +M L+ R Sbjct: 178 QDMTFDMSSDDDASDSQPMAPVLYLQDKTSNFADGIEEDNWEDQAANKLSFAMEGLDERS 237 Query: 240 RRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I+ Sbjct: 238 QDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAIE 284 >gi|238755238|ref|ZP_04616583.1| RNA polymerase sigma-32 factor [Yersinia ruckeri ATCC 29473] gi|238706579|gb|EEP98951.1| RNA polymerase sigma-32 factor [Yersinia ruckeri ATCC 29473] Length = 285 Score = 170 bits (431), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 163/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKKLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L E+V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQEEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 + + D Q ++Y D EE + + L+ ++ L+ Sbjct: 176 SAQDMTFDPTPDDDVRDGQSMAPVLYLQDKTSDFADGIEEDNWESHAADKLSYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLRIAIE 284 >gi|308273291|emb|CBX29894.1| RNA polymerase sigma-32 factor [uncultured Desulfobacterium sp.] Length = 298 Score = 170 bits (431), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 100/275 (36%), Positives = 169/275 (61%), Gaps = 8/275 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L RY+ E+ +L ++ EY LA + +H D AA+ +VTS+LRLVVKIA+ + R + Sbjct: 22 LQRYMMEVSNHNLLSREREYALAVKVFDHDDKDAAYEIVTSNLRLVVKIALEFQRIWMQN 81 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGNIGLMQAV+KFDP + + + Y+ +WIKA + ++I+ +W LVKIGTT Q++ Sbjct: 82 LLDLIQEGNIGLMQAVRKFDPYKNVKFSYYASFWIKAYILKFIMDNWRLVKIGTTQGQRK 141 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 +LK Q + D P+ + ++++L V+E E++ M+ RL G D SLN + S Sbjct: 142 ---LFFKLKKEKQDLIDQGFDPKPKL-LSERLGVTEKEIVDMDQRLDGWDVSLNTPL--S 195 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + S+ +++ YD D E+ + +K+ + + ++ RE IF+ R +NPV Sbjct: 196 DDSDSEKIEFISYDSDSAEEQVAKKQMDNLIYSKIDEFRKLMTKRENEIFDLRIFSDNPV 255 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ + + +SRERVRQ+E K++E I++++ Sbjct: 256 TLQEIGDRYGISRERVRQLEKNIITKMREFIKEEL 290 >gi|88797598|ref|ZP_01113187.1| RNA polymerase sigma factor [Reinekea sp. MED297] gi|88779770|gb|EAR10956.1| RNA polymerase sigma factor [Reinekea sp. MED297] Length = 290 Score = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 149/269 (55%), Gaps = 7/269 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + +L +EE LA+R H DL +A RLV SHLR VV IA Y GYGL Sbjct: 21 LEAYITTVNGFELLSAEEEKDLAERLYYHDDLESARRLVMSHLRFVVHIAKSYSGYGLNQ 80 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+A+++F+PE G RL ++++ WIKA + EYIL++W +VKI TT Q++L Sbjct: 81 GDLIQEGNVGLMKAIRRFNPEVGVRLVSFAVHWIKAEIHEYILKNWRIVKIATTKAQRKL 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L L + AIA L V + V M RL ++ N D Sbjct: 141 FFNLRSSKKRL-----GWLNEREAQAIADDLGVEKKIVYDMEGRLTASDAAFDGFNDDDD 195 Query: 196 NSSQWQ--DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + + + D+L+ + D + + + L ++ L+ R R I + R L E Sbjct: 196 DGAAFHPSDYLMNEADDPAAAVEQANYTDDAHGQLFSALEDLDDRSRDIIQQRWLNEEKA 255 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TL L+ ++ VS ER+RQ+E A KV++ Sbjct: 256 TLHELADKYGVSAERIRQLEKNAMNKVKK 284 >gi|15595573|ref|NP_249067.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa PAO1] gi|116054106|ref|YP_788549.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa UCBPP-PA14] gi|152989115|ref|YP_001345866.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa PA7] gi|218889117|ref|YP_002437981.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa LESB58] gi|254243475|ref|ZP_04936797.1| sigma factor RpoH [Pseudomonas aeruginosa 2192] gi|296386874|ref|ZP_06876373.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa PAb1] gi|313112005|ref|ZP_07797792.1| RNA polymerase sigma-32 factor [Pseudomonas aeruginosa 39016] gi|2507390|sp|P42378|RP32_PSEAE RecName: Full=RNA polymerase sigma-32 factor gi|9946228|gb|AAG03765.1|AE004475_7 sigma factor RpoH [Pseudomonas aeruginosa PAO1] gi|765096|dbj|BAA08769.1| heat-shock sigma factor [Pseudomonas aeruginosa] gi|998760|gb|AAB33935.1| heat-shock sigma factor sigma 32 [Pseudomonas aeruginosa] gi|115589327|gb|ABJ15342.1| RNA polymerase sigma-32 factor [Pseudomonas aeruginosa UCBPP-PA14] gi|126196853|gb|EAZ60916.1| sigma factor RpoH [Pseudomonas aeruginosa 2192] gi|150964273|gb|ABR86298.1| alternative sigma factor RpoH [Pseudomonas aeruginosa PA7] gi|218769340|emb|CAW25100.1| sigma factor RpoH [Pseudomonas aeruginosa LESB58] gi|310884294|gb|EFQ42888.1| RNA polymerase sigma-32 factor [Pseudomonas aeruginosa 39016] Length = 284 Score = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 102/272 (37%), Positives = 156/272 (57%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+R DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHSVNSIPLLSPEQERELAERLFYQQDLEAARQMVLAHLRFVVHIAKSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L + + E+V +A+ L V EV M RL G + + + Sbjct: 137 FFNLRSQKKRLAWLNN-----EEVHRVAESLGVEPREVREMESRLTG-QDMAFDPAADAD 190 Query: 196 NSSQWQDWLVY--DHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENP 252 + S +Q Y DH +E + + + L ++ L+ R R I + R L E Sbjct: 191 DESAYQSPAHYLEDHRYDPARQLEDADWSDSSSANLHEALEGLDERSRDILQQRWLSEEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ I Sbjct: 251 ATLHDLAEKYNVSAERIRQLEKNAMSKLKGRI 282 >gi|493078|gb|AAA92723.1| RpoH (sigma 32) [Pseudomonas aeruginosa] Length = 284 Score = 169 bits (429), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 102/272 (37%), Positives = 156/272 (57%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+R DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHSVNSIPLLSPEQERELAERLFYQQDLEAARQMVLAHLRFVVHIAKSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L + + E+V +A+ L V EV M RL G + + + Sbjct: 137 FFNLRSQKKRLAWLNN-----EEVHRVAESLGVEPREVREMESRLTG-QDMAFDPAADAD 190 Query: 196 NSSQWQDWLVY--DHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENP 252 + S +Q Y DH +E + + + L ++ L+ R R I + R L E Sbjct: 191 DESAYQSPAHYLEDHRYDPARQLEDADWSDSSSANLHEALEGLDERSRDILQQRWLSEEK 250 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ I Sbjct: 251 ATLHDLAEKYNVSAERIRQLEKNAMSKLKGRI 282 >gi|107099361|ref|ZP_01363279.1| hypothetical protein PaerPA_01000373 [Pseudomonas aeruginosa PACS2] Length = 274 Score = 169 bits (429), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 102/272 (37%), Positives = 156/272 (57%), Gaps = 9/272 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+R DL AA ++V +HLR VV IA Y GYGL Sbjct: 7 LEAYVHSVNSIPLLSPEQERELAERLFYQQDLEAARQMVLAHLRFVVHIAKSYSGYGLAQ 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 67 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 126 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L + + E+V +A+ L V EV M RL G + + + Sbjct: 127 FFNLRSQKKRLAWLNN-----EEVHRVAESLGVEPREVREMESRLTG-QDMAFDPAADAD 180 Query: 196 NSSQWQDWLVY--DHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENP 252 + S +Q Y DH +E + + + L ++ L+ R R I + R L E Sbjct: 181 DESAYQSPAHYLEDHRYDPARQLEDADWSDSSSANLHEALEGLDERSRDILQQRWLSEEK 240 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L+ ++ VS ER+RQ+E A K++ I Sbjct: 241 ATLHDLAEKYNVSAERIRQLEKNAMSKLKGRI 272 >gi|1710647|sp|P50510|RP32_SERMA RecName: Full=RNA polymerase sigma-32 factor gi|1143376|dbj|BAA09442.1| sigma-32 homolog [Serratia marcescens] Length = 285 Score = 169 bits (428), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 162/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLDAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + + Q ++Y D EE N + L ++ L+ Sbjct: 176 AAQDMTFDPTPDDEARDGQSMAPVLYLQDKSSDFAEGIEEDNWESNAADKLAYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLKMAIE 284 >gi|293393954|ref|ZP_06638260.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Serratia odorifera DSM 4582] gi|291423514|gb|EFE96737.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Serratia odorifera DSM 4582] Length = 285 Score = 169 bits (427), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 162/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLEAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +A++L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVARELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 A + + Q ++Y D EE N + L ++ L+ Sbjct: 176 AAQDMTFDPTPDDEARDGQSMAPVLYLQDKTSDFAEGIEEDNWESNAADKLAYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLKMAIE 284 >gi|22124334|ref|NP_667757.1| RNA polymerase factor sigma-32 [Yersinia pestis KIM 10] gi|45442990|ref|NP_994529.1| RNA polymerase factor sigma-32 [Yersinia pestis biovar Microtus str. 91001] gi|51594579|ref|YP_068770.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis IP 32953] gi|108806209|ref|YP_650125.1| RNA polymerase factor sigma-32 [Yersinia pestis Antiqua] gi|108810319|ref|YP_646086.1| RNA polymerase factor sigma-32 [Yersinia pestis Nepal516] gi|145600678|ref|YP_001164754.1| RNA polymerase factor sigma-32 [Yersinia pestis Pestoides F] gi|153997132|ref|ZP_02022265.1| RNA polymerase sigma-32 factor [Yersinia pestis CA88-4125] gi|162418961|ref|YP_001605171.1| RNA polymerase factor sigma-32 [Yersinia pestis Angola] gi|165926363|ref|ZP_02222195.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. F1991016] gi|165939186|ref|ZP_02227737.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. IP275] gi|166011667|ref|ZP_02232565.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. E1979001] gi|166213537|ref|ZP_02239572.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. B42003004] gi|167401873|ref|ZP_02307361.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167420986|ref|ZP_02312739.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167426241|ref|ZP_02317994.1| alternative sigma factor RpoH [Yersinia pestis biovar Mediaevalis str. K1973002] gi|170026187|ref|YP_001722692.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis YPIII] gi|186893581|ref|YP_001870693.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis PB1/+] gi|218930813|ref|YP_002348688.1| RNA polymerase factor sigma-32 [Yersinia pestis CO92] gi|229837138|ref|ZP_04457303.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Pestoides A] gi|229839498|ref|ZP_04459657.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229900061|ref|ZP_04515198.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229900493|ref|ZP_04515622.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Nepal516] gi|270488848|ref|ZP_06205922.1| alternative sigma factor RpoH [Yersinia pestis KIM D27] gi|294505476|ref|YP_003569538.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|21957109|gb|AAM84008.1|AE013642_9 RNA polymerase, sigma(32) factor [Yersinia pestis KIM 10] gi|45437857|gb|AAS63406.1| RNA polymerase sigma-32 factor [Yersinia pestis biovar Microtus str. 91001] gi|51587861|emb|CAH19464.1| RNA polymerase sigma-32 factor [Yersinia pseudotuberculosis IP 32953] gi|108773967|gb|ABG16486.1| RNA polymerase sigma-32 factor [Yersinia pestis Nepal516] gi|108778122|gb|ABG12180.1| RNA polymerase sigma-32 factor [Yersinia pestis Antiqua] gi|115349424|emb|CAL22397.1| RNA polymerase sigma-32 factor [Yersinia pestis CO92] gi|145212374|gb|ABP41781.1| RNA polymerase sigma-32 factor [Yersinia pestis Pestoides F] gi|149289438|gb|EDM39516.1| RNA polymerase sigma-32 factor [Yersinia pestis CA88-4125] gi|162351776|gb|ABX85724.1| alternative sigma factor RpoH [Yersinia pestis Angola] gi|165912959|gb|EDR31585.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. IP275] gi|165921887|gb|EDR39084.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. F1991016] gi|165989436|gb|EDR41737.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. E1979001] gi|166205210|gb|EDR49690.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. B42003004] gi|166961115|gb|EDR57136.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167048766|gb|EDR60174.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167054760|gb|EDR64564.1| alternative sigma factor RpoH [Yersinia pestis biovar Mediaevalis str. K1973002] gi|169752721|gb|ACA70239.1| RNA polymerase, sigma 32 subunit, RpoH [Yersinia pseudotuberculosis YPIII] gi|186696607|gb|ACC87236.1| RNA polymerase, sigma 32 subunit, RpoH [Yersinia pseudotuberculosis PB1/+] gi|229682512|gb|EEO78599.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Nepal516] gi|229686841|gb|EEO78920.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229695864|gb|EEO85911.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229706081|gb|EEO92090.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Pestoides A] gi|262363541|gb|ACY60262.1| RNA polymerase sigma factor [Yersinia pestis D106004] gi|262367470|gb|ACY64027.1| RNA polymerase sigma factor [Yersinia pestis D182038] gi|270337352|gb|EFA48129.1| alternative sigma factor RpoH [Yersinia pestis KIM D27] gi|294355935|gb|ADE66276.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|320013591|gb|ADV97162.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 285 Score = 169 bits (427), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 104/289 (35%), Positives = 164/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 + + + Q+ ++Y D EE + + L+ ++ L+ Sbjct: 176 SAQDMTFDPSPDDEARDGQFMAPVLYLQDKTSDFADGIEEDNWDSHAADKLSYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L EN TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDENKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|330959691|gb|EGH59951.1| putative RNA polymerase sigma-32 factor [Pseudomonas syringae pv. maculicola str. ES4326] Length = 291 Score = 169 bits (427), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 109/292 (37%), Positives = 165/292 (56%), Gaps = 13/292 (4%) Query: 1 MNRKNMSIIVNGEI------GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLV 54 MN +S +I L Y+ I +P + +EE L++R+ EH D+ AA +LV Sbjct: 1 MNTPTLSTKAAAQIPMAPGSNLDAYLTVIHSLPKMSAEEERRLSERHFEHNDMDAARQLV 60 Query: 55 TSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQ 114 TS LR VV IA Y GYGLP+S+++ EGNIGL++AVK+F+P RL T+++ IKA + Sbjct: 61 TSQLRFVVHIARRYSGYGLPLSDLIQEGNIGLIKAVKRFNPAAQVRLITFAVHGIKAEIN 120 Query: 115 EYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 EYILR+ +V++ TT Q++L FNLR+ Q + L ++ IA LNVS +V Sbjct: 121 EYILRNCRMVRMATTKAQRKLLFNLRK-----QPRSRTWLTADETKHIADILNVSVRDVK 175 Query: 175 SMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSM 232 M R+AG D S + ++ D ++ + DH L E E + + L ++ Sbjct: 176 EMETRMAGNDTSFDPAADADDDSALLTPAHQLGDHRYDPAHLYETENDADTSSYDLHTAL 235 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+ R R I R L E TL +L+++++VS ER+RQIE A K++ SI Sbjct: 236 NSLDERSRDILAQRFLSERKATLHDLATKYKVSAERIRQIEKLALAKLKVSI 287 >gi|153947554|ref|YP_001399239.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis IP 31758] gi|152959049|gb|ABS46510.1| alternative sigma factor RpoH [Yersinia pseudotuberculosis IP 31758] Length = 285 Score = 169 bits (427), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 104/289 (35%), Positives = 164/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 + + + Q+ ++Y D EE + + L+ ++ L+ Sbjct: 176 SAQDMTFDPSPDDEARDGQFMAPVLYLQDKTSDFADGIEEDNWDTHAADKLSYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L EN TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDENKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|123440620|ref|YP_001004614.1| RNA polymerase factor sigma-32 [Yersinia enterocolitica subsp. enterocolitica 8081] gi|332159850|ref|YP_004296427.1| RNA polymerase factor sigma-32 [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|122087581|emb|CAL10362.1| RNA polymerase sigma-32 factor [Yersinia enterocolitica subsp. enterocolitica 8081] gi|318607604|emb|CBY29102.1| RNA polymerase sigma factor RpoH [Yersinia enterocolitica subsp. palearctica Y11] gi|325664080|gb|ADZ40724.1| RNA polymerase factor sigma-32 [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330862604|emb|CBX72757.1| RNA polymerase sigma-32 factor [Yersinia enterocolitica W22703] Length = 285 Score = 168 bits (425), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 165/289 (57%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLEAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNP 237 + + + Q ++Y D IE++ N + LT ++ L+ Sbjct: 176 SAQDMTFDPTPDDEVRDGQSMAPVLYLQDKTSDFADGIEEDNWDNHAADKLTYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|330505413|ref|YP_004382282.1| RNA polymerase factor sigma-32 [Pseudomonas mendocina NK-01] gi|328919699|gb|AEB60530.1| RNA polymerase factor sigma-32 [Pseudomonas mendocina NK-01] Length = 284 Score = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 101/273 (36%), Positives = 156/273 (57%), Gaps = 11/273 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHAVNSIPLLTPEQERELAENLFYQQDLEAARQMVLAHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WI+A + E+IL++W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIRAEIHEFILKNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L + ++ +V A+A+ L V EV M RL G + + + Sbjct: 137 FFNLRSQKKRLAWLNND-----EVTAVAESLGVEPHEVREMESRLTG-QDMAFDPAADAD 190 Query: 196 NSSQWQDWLVY--DH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + S +Q Y DH D Q+ + N L ++ L+ R R I R L E Sbjct: 191 DDSAFQSPAHYLEDHRYDPARQLEDADWSDSSSSN-LHEALESLDERSRDILYQRWLAEE 249 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L++++ VS ER+RQ+E A K++ I Sbjct: 250 KATLHDLAAKYNVSAERIRQLEKNAMNKLKGCI 282 >gi|295698248|ref|YP_003602903.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] gi|295698251|ref|YP_003602906.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] gi|291157186|gb|ADD79631.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] gi|291157289|gb|ADD79734.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] Length = 286 Score = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 103/291 (35%), Positives = 165/291 (56%), Gaps = 18/291 (6%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 KN S + LS YI P+L +EE + H DL AA +L+ SHLR V+ Sbjct: 3 KNKSFSLAISNNLSAYIKTAYSYPVLTMEEEKKYINLFYHHQDLRAAKKLILSHLRFVIH 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 I+ Y GYGL ++++ EGN+GLM+AV+KF+P RL ++++ WIKA + EYILR+W + Sbjct: 63 ISKNYSGYGLLQADLIQEGNVGLMKAVQKFNPNASVRLVSFAIHWIKAEIHEYILRNWRI 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+ TT Q++LFFNLRR K + ++ ++AKKL VS+ +V M R+ Sbjct: 123 VKVATTKAQRKLFFNLRRNKKKIGWFDQT-----EIDSVAKKLGVSKKDVREMESRMVAK 177 Query: 184 ESLNALINSSDKNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNM----LTRSMSVL 235 + + + +++ + D+ +Y D + E E+ N N LT+++S L Sbjct: 178 D---MVFDINEEENRMKDDFFLIPALYLED-KSSTFFESLEKDNWENHTIKRLTQALSKL 233 Query: 236 NPRERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + R + I + R L Q TL++L+ +++VS ER+RQ+E A KK++ I+ Sbjct: 234 DKRSQEIIKKRWLNQSGRETLQDLAKQYKVSAERIRQLEKNAMKKIRSLIE 284 >gi|126642303|ref|YP_001085287.1| EsvH [Acinetobacter baumannii ATCC 17978] Length = 233 Score = 167 bits (424), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 93/231 (40%), Positives = 138/231 (59%), Gaps = 7/231 (3%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV SHLR VV IA Y GYGLP +++ EGN+GLM+AVK+FDP G RL ++++ WIKA Sbjct: 2 LVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAE 61 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + EY++R+W +VKI TT Q++LFFNLR LK + L E+ +IA LNV+ + Sbjct: 62 IHEYVIRNWRIVKIATTKAQRKLFFNLRSLKK-----SSKKLTLEEAQSIANDLNVTPEQ 116 Query: 173 VISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTR 230 V+ M RL A D + A + D + D+ L+E E+ + + L Sbjct: 117 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPVLYLEDNRYDPARLVENEDWEEQSTSALHD 176 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +M+ L+ R R I + R L ++ TL L++E+ VS ER+RQ+E A +K++ Sbjct: 177 AMNQLDDRSRNILQRRWLDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 227 >gi|32490821|ref|NP_871075.1| RNA polymerase factor sigma-32 [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] gi|25166027|dbj|BAC24218.1| rpoH [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] Length = 281 Score = 167 bits (424), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 101/289 (34%), Positives = 167/289 (57%), Gaps = 13/289 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ VN + L YI + ML +EE +L +R +GDL AA +L+ SHLR Sbjct: 1 MKKINILTCVN-QSSLESYIKKANSYSMLSIEEEKILTERLHYNGDLLAAKKLILSHLRF 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV I+ Y GYGL ++++ EGN+GLM+AVK+F+P G RL ++++ WIKA + EY+LR+ Sbjct: 60 VVHISRNYSGYGLQRADLIQEGNVGLMKAVKRFNPAIGVRLVSFAVHWIKAEIHEYVLRN 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L +V +AK L V+ +V M R+ Sbjct: 120 WRIVKVATTKAQRKLFFNLRKAKKKLGWFN-----QYEVDMLAKSLGVTSKDVREMESRM 174 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNP 237 + + + DK+ + + ++Y D EE + + L+ ++S L+ Sbjct: 175 SAKDMAFDFNSEEDKHKN---NAILYLKDKTSDFADTIEEDNWDIHATDKLSAALSNLDL 231 Query: 238 RERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I +R L+ +N TL+ L+ ++ +S ER+RQ+E A KK++ +++ Sbjct: 232 RSQEIIRSRWLRYDNKSTLKELAKKYGISAERIRQLEKNAMKKIRFAVE 280 >gi|238763647|ref|ZP_04624607.1| RNA polymerase sigma-32 factor [Yersinia kristensenii ATCC 33638] gi|238789414|ref|ZP_04633200.1| RNA polymerase sigma-32 factor [Yersinia frederiksenii ATCC 33641] gi|238793542|ref|ZP_04637166.1| RNA polymerase sigma-32 factor [Yersinia intermedia ATCC 29909] gi|238698125|gb|EEP90882.1| RNA polymerase sigma-32 factor [Yersinia kristensenii ATCC 33638] gi|238722557|gb|EEQ14211.1| RNA polymerase sigma-32 factor [Yersinia frederiksenii ATCC 33641] gi|238727132|gb|EEQ18662.1| RNA polymerase sigma-32 factor [Yersinia intermedia ATCC 29909] Length = 285 Score = 167 bits (422), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 104/289 (35%), Positives = 165/289 (57%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNP 237 + + + Q ++Y D IE++ N + L+ ++ L+ Sbjct: 176 SAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADGIEEDNWDNHAADKLSYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|238750715|ref|ZP_04612214.1| RNA polymerase sigma-32 factor [Yersinia rohdei ATCC 43380] gi|238711105|gb|EEQ03324.1| RNA polymerase sigma-32 factor [Yersinia rohdei ATCC 43380] Length = 285 Score = 167 bits (422), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 103/289 (35%), Positives = 163/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLNP 237 + + + Q ++Y D EE + + L+ ++ L+ Sbjct: 176 SAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADSIEEDNWDDHAADKLSYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|254784503|ref|YP_003071931.1| RNA polymerase factor sigma-32 [Teredinibacter turnerae T7901] gi|237687248|gb|ACR14512.1| alternative sigma factor RpoH [Teredinibacter turnerae T7901] Length = 284 Score = 166 bits (421), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 102/283 (36%), Positives = 161/283 (56%), Gaps = 10/283 (3%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + ++ G+ L+ Y+ + +L +EE LA+ DL AA RLV +HLR VV IA Sbjct: 8 LDVLAPGQ-NLNAYMQAVNNFAVLSAEEEKQLAEDLYYRQDLDAARRLVMAHLRFVVHIA 66 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GYGL +++ EGN+GLM+AVK+F+PE+G RL ++++ WIKA + E+ILR+W +VK Sbjct: 67 KSYAGYGLAQGDLIQEGNVGLMKAVKRFNPEKGVRLVSFAVHWIKAEIHEFILRNWRIVK 126 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + TT Q++LFFNLR K L +T+ ++ A+A+ LNV V M RL+ Sbjct: 127 VATTKAQRKLFFNLRGQKKRLAWLTN-----DEANAVAQDLNVDVKNVREMESRLSA-YD 180 Query: 186 LNALINSSDKNSSQWQDWLVYDHD---GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 + D + + +Q Y D +L + +N L R+M L+ R R I Sbjct: 181 AAFDAGADDDDETAYQAPANYLEDRRYDPSTMLENADWTENSVAGLERAMDQLDDRSRDI 240 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + R L ++ TL L+ ++ VS ER+RQ+E A KK++ +++ Sbjct: 241 LQQRWLSDSKATLHELADKYGVSAERIRQLEKNAMKKMRVAME 283 >gi|21672319|ref|NP_660386.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|25091196|sp|Q8KA76|RP32_BUCAP RecName: Full=RNA polymerase sigma-32 factor gi|21622919|gb|AAM67597.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 285 Score = 166 bits (421), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 98/274 (35%), Positives = 157/274 (57%), Gaps = 9/274 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML +EE +L KR R H DL AA L+ SHLR V+ I+ Y GYGL Sbjct: 16 LDAYIRIANLWPMLSIKEEKLLTKRLRYHDDLDAAKTLILSHLRFVIHISRNYSGYGLLQ 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGNIGLM+AV++F+P+ G RL ++++ WIK+ + EY+LR+W +VK+ TT +Q++L Sbjct: 76 ADLIQEGNIGLMKAVRRFNPDIGVRLVSFAVHWIKSEIHEYVLRNWRIVKVATTKSQRKL 135 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L E++ +A++L VS +V M R++ + D Sbjct: 136 FFNLRKNKKRLGWFN-----QEEIEIVARELGVSSEDVREMESRMSAQDITFNPFPEEDL 190 Query: 196 NSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 + + Y D L + K+ + L+ ++ L+ R R I AR L ++ Sbjct: 191 KDGKINGNMFYLQDKTSNFANGLEQDNWNKHTTSKLSNALLRLDERSRNIIRARWLDKKE 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ +++ + +S ERVRQ+E A KK++ +I+ Sbjct: 251 KNTLQKIANNYGISAERVRQLEKNAMKKLKIAIE 284 >gi|238784413|ref|ZP_04628423.1| RNA polymerase sigma-32 factor [Yersinia bercovieri ATCC 43970] gi|238714705|gb|EEQ06707.1| RNA polymerase sigma-32 factor [Yersinia bercovieri ATCC 43970] Length = 285 Score = 166 bits (421), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 104/289 (35%), Positives = 164/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNR-RNMLTRSMSVLNP 237 + + + Q ++Y D IE++ N + L ++ L+ Sbjct: 176 SAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADGIEEDNWDNHAADKLAYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|319760734|ref|YP_004124672.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia vafer str. BVAF] gi|318039448|gb|ADV33998.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia vafer str. BVAF] Length = 284 Score = 166 bits (420), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 168/284 (59%), Gaps = 10/284 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 KN+S++ G L YI PML +EE LA+R + DL+AA +L+ SHLR VV Sbjct: 8 KNISLVPQG--TLEAYIRATNLYPMLTAEEERELAERLYYNSDLNAAKKLIVSHLRFVVH 65 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GYGL ++++ EGNIGLM++V++F+PE RL ++++ WIK+ + EY+L++W + Sbjct: 66 IARNYSGYGLAQADLIQEGNIGLMKSVRRFNPELDVRLVSFAVHWIKSEIHEYVLKNWRI 125 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VKI TT Q++LFFNLR+ K L + E++ +AK L+V+ +V M R+A Sbjct: 126 VKIATTKAQRKLFFNLRKTKQRLGWFNE-----EEIEMVAKTLHVTCKDVREMESRMAA- 179 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + + +S D + ++Y D + E+E N L +++ L+ R + I Sbjct: 180 QDMTFEQSSDDDEKNILSIPMLYLQDKVTMIDEEEEWINQVSNKLNIALNSLDKRSQHII 239 Query: 244 EARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 AR L +N TL+ L++++ VS ER+RQ+E A KK++ IQ Sbjct: 240 RARWLNTNDNKTTLQELANQYGVSAERIRQLEKNAMKKMKLIIQ 283 >gi|14530750|emb|CAC42416.1| RpoH protein [Ralstonia metallidurans CH34] Length = 317 Score = 166 bits (420), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 97/248 (39%), Positives = 142/248 (57%), Gaps = 9/248 (3%) Query: 6 MSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 ++ G +G L YI + +IPML +EE LA+ R++ + AA R+V SHLRLVV I Sbjct: 47 FALTFPGTLGNLDSYIQAVHRIPMLTPEEELSLARDLRDNDSVDAARRMVMSHLRLVVSI 106 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y GYGLP ++++ EGNIGLM+AVK+FDPE+ + + EY+L++W +V Sbjct: 107 ARQYLGYGLPHADLIQEGNIGLMKAVKRFDPEQACAWCRTRCTGSRPEIHEYVLKNWRMV 166 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GD 183 K+ TT Q++LFFNLR H Q + PEQ+ A+A++LNV EV+ M R++ GD Sbjct: 167 KVATTKAQRKLFFNLR---SHKQG--SHTFTPEQIEAVARELNVKPEEVMEMETRMSGGD 221 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +L I ++ + +L +H+ QVL E + R + R P +RRI Sbjct: 222 MALEGQIEDGEEEFAPIA-YLADNHNEPTQVL-EAKRRPSAGRGPGRGADEAGPAQRRII 279 Query: 244 EARRLQEN 251 EAR L N Sbjct: 280 EARWLDVN 287 >gi|238798006|ref|ZP_04641495.1| RNA polymerase sigma-32 factor [Yersinia mollaretii ATCC 43969] gi|238718109|gb|EEQ09936.1| RNA polymerase sigma-32 factor [Yersinia mollaretii ATCC 43969] Length = 285 Score = 166 bits (420), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 103/289 (35%), Positives = 162/289 (56%), Gaps = 9/289 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNP 237 + + + Q ++Y D EE + + L ++ L+ Sbjct: 176 SAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADSIEEDNWDGHAADKLAYALEGLDE 235 Query: 238 RERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 236 RSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|331007677|ref|ZP_08330813.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC1989] gi|330418520|gb|EGG93050.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC1989] Length = 288 Score = 166 bits (420), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 104/277 (37%), Positives = 160/277 (57%), Gaps = 10/277 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 ++ Y+ + +L +EE L +R H DL AA LV +HLR VV IA Y GYGL Sbjct: 17 INAYMQAVNSFAVLTVEEEKDLGERLYYHEDLDAARGLVMAHLRFVVHIAKSYAGYGLSQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S+++ EGN+GLM+AVK+F+PE+G RL ++++ WIKA M E+ILR+W +VK+ TT Q++L Sbjct: 77 SDLIQEGNVGLMKAVKRFNPEKGVRLVSFAVHWIKAEMHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR K L L ++ A+A LNV V M RL+ + ++ D Sbjct: 137 FFNLRGQKKRL-----GWLSYDEATAVAADLNVEVKHVHEMESRLSA-YDASFDADNDDD 190 Query: 196 NSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-QEN 251 + S ++ Y D + Q L + + + L +++ L+ R + I + R L +N Sbjct: 191 DESAYKAPANYLEDHRYNPAQELEASDWSDDNASRLRTALATLDERSQVIIQRRWLNDDN 250 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL L++EF VS ER+RQ+E A KKV+ +++ +V Sbjct: 251 KSTLHELAAEFGVSAERIRQLEKNAMKKVKTAMETEV 287 >gi|238759635|ref|ZP_04620796.1| RNA polymerase sigma-32 factor [Yersinia aldovae ATCC 35236] gi|238702178|gb|EEP94734.1| RNA polymerase sigma-32 factor [Yersinia aldovae ATCC 35236] Length = 285 Score = 166 bits (419), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 105/290 (36%), Positives = 166/290 (57%), Gaps = 11/290 (3%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ + + L YI PML +EE LA+R GDL AA +L+ SHLR Sbjct: 1 MTKEMQTLALVPQGSLEAYIRAANAYPMLTAEEERELAERLHYQGDLGAAKQLILSHLRF 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 61 VAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 W +VK+ TT Q++LFFNLR+ K L ++V +AK+L V+ +V M R+ Sbjct: 121 WRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVELVAKELGVTSKDVREMESRM 175 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNRRNMLTRSMSVLN 236 A D + + + ++ ++Y D EE + + L+ +M L+ Sbjct: 176 SAQDMTFDPSPDDEARDGHSMAP-VLYLQDKSSDFADGIEEDNWDSHAADKLSYAMEGLD 234 Query: 237 PRERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + I AR L +N TL+ L+ ++ VS ERVRQ+E A KK++ +I+ Sbjct: 235 ERSQHIIRARWLDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLRMAIE 284 >gi|149923127|ref|ZP_01911542.1| RNA polymerase sigma-C factor [Plesiocystis pacifica SIR-1] gi|149816035|gb|EDM75549.1| RNA polymerase sigma-C factor [Plesiocystis pacifica SIR-1] Length = 304 Score = 166 bits (419), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 99/281 (35%), Positives = 152/281 (54%), Gaps = 25/281 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 RY+ + ++ + E LA+ Y E GD A RL+ +HLR VV IA GYR YG P+ Sbjct: 21 FERYVAHVSSFEEIDGERERELARAYHE-GDRLAGQRLIEAHLRDVVAIARGYRNYGHPM 79 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +E+V+EGN+GL++A++ FDPERG R TY +W++A + ++ RSWSLV++G+++ RL Sbjct: 80 AELVAEGNVGLVRALESFDPERGLRFMTYGRYWVRARILAHVQRSWSLVRVGSSSAHTRL 139 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN-----AL 189 F+ L R +G QA + A+A+ SE+ V +M R+ G D SL+ AL Sbjct: 140 FYGLHRARGRFQATAGERDGAAERAALAEYFGCSEAHVEAMAARIDGRDLSLDHPSSAAL 199 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 ++ S E + E+E + R + + L+PRER I R L Sbjct: 200 VSESTV----------------EATIFEREVGELVRERIAAVIRELDPRERVILRRRLLD 243 Query: 250 E--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E +P +L + E +SRER RQ+E R K++ + V Sbjct: 244 ESGSPPSLVEVGRELGLSRERTRQLEQRVKTKLRRRLHDVV 284 >gi|149188340|ref|ZP_01866634.1| RNA polymerase sigma factor [Vibrio shilonii AK1] gi|148837929|gb|EDL54872.1| RNA polymerase sigma factor [Vibrio shilonii AK1] Length = 285 Score = 164 bits (414), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 100/286 (34%), Positives = 164/286 (57%), Gaps = 12/286 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ N +I N LS Y+ + +L++ EE LA + + +LV HLR Sbjct: 1 MSHSNAAISFNNSQNLSYYMQYVNSHSILKECEERQLANDLYYNNNEDVISKLVLPHLRY 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA G+ GYGLP+ +++ GNIGL++AVKKF+PE GFRL ++++ WIK+ + ++I+++ Sbjct: 61 VVYIAKGFAGYGLPLVDMIQSGNIGLLKAVKKFNPELGFRLVSFAVHWIKSEITDFIIKN 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WS+VKI TT +Q++LFFNL++ K + ++++ + +A KL VS+ +V+SM+ RL Sbjct: 121 WSIVKIATTKSQRKLFFNLKKYKQSQEWMSES-----EAENLASKLKVSKKDVLSMDGRL 175 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM---LTRSMSVLN 236 + D ++ I + + + Q V IE E + R++ L ++ L+ Sbjct: 176 SARDSYIDPKIGEDEDQVISTGEVFA---EPQLDVAIEYETQDWDRHINDELNAGLAKLD 232 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R R I +R L VTL L+ VS ERVRQIE +K+++ Sbjct: 233 ARSRDIIVSRWLLSEKVTLNELAERHRVSAERVRQIELMTLEKLKD 278 >gi|153876074|ref|ZP_02003579.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] gi|152067462|gb|EDN66421.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] Length = 242 Score = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 150/240 (62%), Gaps = 7/240 (2%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L +LV SHLR V+ IA GYRGYGLP+++++ EGNIGLM+AVK+F+P G RL ++++ Sbjct: 4 LKPPKKLVISHLRFVLYIAHGYRGYGLPLADLIQEGNIGLMKAVKRFNPNVGVRLVSFAV 63 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WI+A + E+ILR+W +VK+ TT Q++LFFNLR +K L L +V +A+ L Sbjct: 64 HWIRAEIHEFILRNWRIVKVVTTKAQRKLFFNLRSMKKRL-----GWLSQAEVDKVAQDL 118 Query: 167 NVSESEVISMNCRLA-GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNR 224 VS +V+ M RL+ D + +A ++S D + + D+ L+E++E + Sbjct: 119 GVSSKDVLEMEKRLSMQDVAFDAPVDSDDDDEVFAPAAYLEDNRYDPAALVEQDEWEAHG 178 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L+ R + I + R L E+ TL+ L++ ++VS ER+RQIE+ A KK+++++ Sbjct: 179 HKQLLHAFKKLDVRSQDILQQRWLSEDKATLQELANHYKVSAERIRQIESNALKKLKKNM 238 >gi|238899138|ref|YP_002924820.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229466898|gb|ACQ68672.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 285 Score = 162 bits (411), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 96/246 (39%), Positives = 144/246 (58%), Gaps = 11/246 (4%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HGDL+AA +L+ SHLR V IA Y GYGLP ++++ EGNIGLM+AV++F+P G RL + Sbjct: 44 HGDLNAARQLILSHLRFVAHIARHYSGYGLPQADLIQEGNIGLMKAVRRFNPNMGVRLVS 103 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 +++ WIKA + EY+LR+W +VK+ TT Q++LFFNLR+ K L + N +V +A Sbjct: 104 FAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKAKQRLGWFSQN-----EVDMVA 158 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 K+L V+ +V M R++ + L + Q ++Y D + E+ N Sbjct: 159 KELGVTSKDVREMESRMSAQDMAFELPLEDESREGQSPAPVMYLEDKNSD-FADNIEKNN 217 Query: 224 RRNMLTRSMSV----LNPRERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAFK 278 + S+ V L+ R + I AR L +N TL+ L+ + VS ERVRQ+E A K Sbjct: 218 WGDHAADSLWVALKGLDERSQDIIRARWLDDDNKSTLQELADRYGVSAERVRQLEKNAMK 277 Query: 279 KVQESI 284 K++ SI Sbjct: 278 KLRLSI 283 >gi|46204236|ref|ZP_00050286.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 182 Score = 161 bits (407), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 77/166 (46%), Positives = 115/166 (69%), Gaps = 1/166 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L + EE LA ++E D A HRL+++H+RLV+ +A +R YGLP++++V EG++GL Sbjct: 4 PFLARDEERGLAVAWKEERDERALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGL 63 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 64 MEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARL 123 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALIN 191 T+ + E IA + VS +V M+ RL+G D SLNA + Sbjct: 124 MQSTEEQVGSEIHGRIATAIGVSREDVALMDARLSGPDMSLNAPVG 169 >gi|218777994|ref|YP_002429312.1| RNA polymerase, sigma 70 family subunit [Desulfatibacillum alkenivorans AK-01] gi|218759378|gb|ACL01844.1| putative RNA polymerase, sigma 70 family subunit [Desulfatibacillum alkenivorans AK-01] Length = 328 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 104/275 (37%), Positives = 162/275 (58%), Gaps = 8/275 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLP 74 L RY+ EI K P+L ++EE LA R +E D AA+RLVT++LRLVVKIA+ + R + Sbjct: 42 LQRYLSEISKYPLLTREEERELAVRVQEFDDPDAAYRLVTANLRLVVKIALEFQRVWMQN 101 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGNIGLMQA +KFDP + + + YS +WIKA + ++I+ +W LVKIGTT Q R Sbjct: 102 LLDLIQEGNIGLMQAARKFDPYKNVKFSYYSSFWIKAYILKFIMDNWRLVKIGTTQAQ-R 160 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 F + + + KP+ +++KL VSE ++I M+ RL D SL+A + Sbjct: 161 KLFFKLKKEKQKLLEEGFDPKPK---LLSEKLGVSERDIIDMDQRLNNWDLSLDAPVK-- 215 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + S+ ++L + E + KE R + L RE IF+ R ++PV Sbjct: 216 DDSDSERIEFLSTPSESAEDQVARKEMETILREKIDIFRKTLKERELEIFDERVFSDSPV 275 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ + +SRERVRQ+E+ KK++ ++K++ Sbjct: 276 TLQQIGDRHGISRERVRQVESGVVKKLKAFLEKEI 310 >gi|306841478|ref|ZP_07474178.1| RNA polymerase factor sigma-32 [Brucella sp. BO2] gi|306288442|gb|EFM59798.1| RNA polymerase factor sigma-32 [Brucella sp. BO2] Length = 198 Score = 159 bits (402), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 86/195 (44%), Positives = 128/195 (65%), Gaps = 1/195 (0%) Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 R +TY+ WWI+A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L DN K E Sbjct: 1 MRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKLAQTDDNMTKAEI 60 Query: 159 VVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I+ +L VS S+V M+ RL+G D SL+A +N + +S+ D+LV DH Q+++ Sbjct: 61 YREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIAES 120 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + R LTR++ LN RE I RRL ++ VTLE L + +S+ERVRQIE+RA Sbjct: 121 SIDMERRNRWLTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGISKERVRQIESRAM 180 Query: 278 KKVQESIQKQVELSS 292 +K++ ++ Q EL++ Sbjct: 181 EKLKIALLSQHELAA 195 >gi|213027483|ref|ZP_03341930.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 253 Score = 157 bits (398), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 99/263 (37%), Positives = 142/263 (53%), Gaps = 32/263 (12%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DE--------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + ++ DK SS + D + D + +EQ N L Sbjct: 178 QDMTFDMSSDDESDSQPMAPVLYLQDK-SSNFAD-GIEDDNWEEQAA----------NRL 225 Query: 229 TRSMSVLNPRERRIFEARRLQEN 251 T +M L+ R + I AR L E+ Sbjct: 226 TDAMQGLDERSQDIIRARWLDED 248 >gi|308273000|emb|CBX29604.1| hypothetical protein N47_J05850 [uncultured Desulfobacterium sp.] Length = 326 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 96/275 (34%), Positives = 166/275 (60%), Gaps = 14/275 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY-GLPISE 77 Y+ EI + +L ++EE LA ++ D +A +L+TS+LRLVVKIA ++ Y + + Sbjct: 49 YLREISQYRLLSREEEIELAINVKDKDDKESASKLITSNLRLVVKIAFNFQHYLANNVPD 108 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGNIGL+ AVKK+DP +G + + Y+ +WI+A + ++I+ +W ++KIGTT Q++LFF Sbjct: 109 LIQEGNIGLIHAVKKYDPYKGVKFSYYAAFWIRAYIFKFIMNNWDMLKIGTTQKQRKLFF 168 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 NL + + + IT L PE + +A++L V E++++ M RL D S +L ++S Sbjct: 169 NLNKER---RQITAEGLNPEPKL-LAERLGVQENDIVQMIPRL--DYSPLSLNQPLSEDS 222 Query: 198 SQWQDWLVYDHDG----QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + + V D + Q VL E + N L + +L + IF+ R + ENPV Sbjct: 223 KECLEERVQDKNASTIDQLSVL---ESKTNLERELKKFRKLLKGIKADIFDMRIMAENPV 279 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +L+++ +++SRERVRQI+ K+ + ++KQ+ Sbjct: 280 SLQSIGDRYQISRERVRQIQEMIINKIGKWLKKQI 314 >gi|218677311|ref|ZP_03525208.1| RNA polymerase factor sigma-32 [Rhizobium etli CIAT 894] Length = 171 Score = 156 bits (394), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 77/170 (45%), Positives = 119/170 (70%), Gaps = 3/170 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 3 PYLARQEEHDLAIRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 62 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A +F+P+R R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L Sbjct: 63 LEAAARFEPDRDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL 122 Query: 147 QAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 A D L + + IA L VS ++V +M+ RL+G D SL A S D Sbjct: 123 -AKGDTQLTLQSIHQEIAAALGVSLADVQTMDARLSGNDASLQAPSVSGD 171 >gi|68171972|ref|ZP_00545278.1| Sigma-70 region 4 [Ehrlichia chaffeensis str. Sapulpa] gi|67998602|gb|EAM85349.1| Sigma-70 region 4 [Ehrlichia chaffeensis str. Sapulpa] Length = 205 Score = 155 bits (392), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 87/192 (45%), Positives = 125/192 (65%), Gaps = 3/192 (1%) Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 P GFRL+TY++WWIKA +++YIL+SWS +KIGTT Q++LFF+LR++K L ++N+ Sbjct: 1 PTLGFRLSTYAIWWIKAFIKDYILKSWSCIKIGTTQAQRKLFFSLRKIKKKLFKY-NHNI 59 Query: 155 KPEQVVAIAKKLNVSESEVISMN-CRLAGDESLNALINSSD-KNSSQWQDWLVYDHDGQE 212 E + IA K + SE EV MN L D SLN L+ S+D +N + Q+ + D QE Sbjct: 60 TKEDIKLIANKCSTSEQEVEQMNRYFLYRDRSLNELVFSNDNQNGVELQEIIKCDTPNQE 119 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 + EE ++ ++++++S LN R R IF RRL E P TL+ LS E+ +S+ERVRQI Sbjct: 120 DTYLLNEELNIKKALISQALSTLNERYRDIFIRRRLIEEPDTLDKLSQEYNISKERVRQI 179 Query: 273 EARAFKKVQESI 284 E AF KV+ I Sbjct: 180 EMHAFTKVKNFI 191 >gi|116514965|ref|YP_802594.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Cc (Cinara cedri)] gi|116256819|gb|ABJ90501.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Cc (Cinara cedri)] Length = 291 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 92/284 (32%), Positives = 162/284 (57%), Gaps = 24/284 (8%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L YI +L ++E LAK+ + D+ +A L+ S+LR V+ +A Y GYGLP Sbjct: 18 SLEAYIRLANSFSILTSEKEKSLAKKLFFYSDIESAKLLILSNLRFVIHVAKNYSGYGLP 77 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ EGNIGLM+A+++F+P RL ++++ WIK+ + EY+LR+W +VKI TT Q++ Sbjct: 78 QADLIQEGNIGLMKAIRRFNPNINVRLVSFAVHWIKSEIHEYVLRNWRIVKIATTKAQRK 137 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL----------AGDE 184 LFFNLR+ K L ++ ++++L VS EV M R+ A D Sbjct: 138 LFFNLRKSKKRLGW-----FNRHEIDTVSQELGVSTQEVKEMEARMSAQDITFDLSAKDS 192 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK-NRRNMLTRSMSVLNPRERRIF 243 L+++ N+ + + + D + IEK+ + N LT ++ +L+ R ++I Sbjct: 193 HLDSITNNLRTS------FHLEDKKSNFSIKIEKDNWALHATNKLTNALLILDKRSQQII 246 Query: 244 EARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + R L ++ +TL+ ++ ++ +S ERVRQ+E A KK++ +I+ Sbjct: 247 KRRWLDDDKPKITLQAIARDYGISAERVRQLEKNAMKKLKIAIE 290 >gi|213421295|ref|ZP_03354361.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 191 Score = 154 bits (390), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 80/182 (43%), Positives = 112/182 (61%), Gaps = 6/182 (3%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +VK+ TT Q++LFFNLR+ K L ++V +A++L VS +V M R+A Sbjct: 123 IVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDEVEMVARELGVSSKDVREMESRMAA 177 Query: 183 DE 184 + Sbjct: 178 QD 179 >gi|302036735|ref|YP_003797057.1| RNA polymerase, sigma 32 (sigma H) factor [Candidatus Nitrospira defluvii] gi|300604799|emb|CBK41131.1| RNA polymerase, sigma 32 (sigma H) factor [Candidatus Nitrospira defluvii] Length = 340 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 97/274 (35%), Positives = 159/274 (58%), Gaps = 7/274 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EIR+ P L K+EE L + Y+ G AA +L+ ++LR+ V IA Y G Sbjct: 65 LQQYLTEIRRYPYLSKEEELRLFEEYQLRGSRDAAMKLILANLRVSVSIASEYLHTGADH 124 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL+QA+KKFDP + R Y+ WW +A + Y+L ++ L+K+GTT +Q++L Sbjct: 125 MDLIQEGNVGLLQAIKKFDPTKNVRFYAYAAWWARAYILRYLLNTYRLIKVGTTQDQRKL 184 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 F+NL++ K L+ P+ + +A +LNV E +VI M+ RL E SL+ I Sbjct: 185 FYNLKKEKAKLER---EGFAPDSKL-LADRLNVRERDVIEMDQRLGSWELSLDQPIGQ-- 238 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 +N D L ++ L + + + R L L+ RE I R L E P+T Sbjct: 239 ENDGTLMDILPAHEQPADERLADTQLKALFRRKLAEFTKTLDEREEDILRNRILSETPLT 298 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 LE++ +++ +++ER RQ+EAR K++++ I+K V Sbjct: 299 LEDMGAKYGITKERTRQLEARIIKRLRDYIKKDV 332 >gi|330980004|gb|EGH78270.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 214 Score = 149 bits (377), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 80/194 (41%), Positives = 119/194 (61%), Gaps = 6/194 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L ++E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTPEQERELAESLYYEQDLDAARQMVLAHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEADD 191 Query: 195 KNSSQWQDWLVYDH 208 ++ Q + DH Sbjct: 192 DSAFQSPANYLEDH 205 >gi|149188355|ref|ZP_01866649.1| RNA polymerase sigma factor [Vibrio shilonii AK1] gi|148837944|gb|EDL54887.1| RNA polymerase sigma factor [Vibrio shilonii AK1] Length = 290 Score = 149 bits (375), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 88/272 (32%), Positives = 147/272 (54%), Gaps = 13/272 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 LS Y+ I K P+L +++E LA + + + L+ HLR V IA + GYG+ Sbjct: 15 SLSHYLGSISKYPLLSEEKERTLANKVVTENCSQSLNELILPHLRYVAYIAKNFVGYGMS 74 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++ GN+GL++A+KKF+P RG RL ++++ WIK+ + EYI+++WS+VK+ TT Q++ Sbjct: 75 TLDIIQAGNVGLIKAIKKFNPARGIRLVSFAIHWIKSEINEYIIKNWSMVKVATTKEQRK 134 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 LFFNLR+ K +++ EQ IAK L V +V M+ RL+ D+ L + Sbjct: 135 LFFNLRKHKNDSGWVSE-----EQAKDIAKNLKVRVRDVFVMDGRLSNKDKQLESHNYDE 189 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV----LNPRERRIFEARRLQ 249 + + +D +H + E +N N L+ + + L+ R + I R L Sbjct: 190 EFHCPYTEDNYFREHRDD---FADNHEEENWSNHLSSELKIAIQKLDERSKDIIFHRWLT 246 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL L+ + ++S ER+RQIE K++ Sbjct: 247 NEKATLSELADKHQLSAERIRQIEVATLAKLK 278 >gi|251771333|gb|EES51914.1| RNA polymerase, sigma 70 subunit, RpoD family [Leptospirillum ferrodiazotrophum] Length = 307 Score = 149 bits (375), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 98/294 (33%), Positives = 158/294 (53%), Gaps = 15/294 (5%) Query: 10 VNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 V+G+IG L+ Y+ +R P+L EE LA+R GD A R++ S+LRLVV IA Y Sbjct: 23 VSGDIGSLALYLRTLRDYPLLSASEEVDLARRI-ATGDAEARERMILSNLRLVVMIAKRY 81 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 G GLP +++ EGN+GLM+AV ++DPE+GFR +TY+ WWI+ +++ ++ ++++ Sbjct: 82 AGRGLPFPDLIEEGNLGLMKAVDRYDPEKGFRFSTYASWWIRQSIERAVINLGHMIRLPV 141 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 +K + R ++ + +P+ A A+K ++ E S+ +A SL+A Sbjct: 142 HMREK-----VNRYLAAVEQMVSTGREPDPSEA-ARKAGLTVEEFESLYPLIAATISLDA 195 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-- 246 + D+N+ +D L D + +E R+ L ++SVL PRER I R Sbjct: 196 PVGEQDENT--LKDVL---GDPEADSPLEVVSRREEGRELEAALSVLRPRERDILFLRFG 250 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 E+P TL+ + ++RERVRQIEA A K++ I +S L P Sbjct: 251 LSGEDPKTLDEIGRRLGITRERVRQIEAVALSKMRAYIDDARPFASHHSPLPPP 304 >gi|330874700|gb|EGH08849.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 202 Score = 147 bits (372), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 78/185 (42%), Positives = 115/185 (62%), Gaps = 6/185 (3%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+H + IP+L + E LA+ DL AA ++V +HLR VV IA Y GYGL Sbjct: 17 LEAYVHTVNSIPLLTPERERELAESLYYEQDLDAARQMVLAHLRFVVHIARSYSGYGLAQ 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++ EGN+GLM+AVK+F+PE G RL ++++ WIKA + E+ILR+W +VK+ TT Q++L Sbjct: 77 ADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSD 194 FFNLR K L + NN ++V +A+ L V EV M RL G D + + + D Sbjct: 137 FFNLRSQKKRLAWL--NN---DEVHRVAESLGVEPREVREMESRLTGHDMAFDPAAEADD 191 Query: 195 KNSSQ 199 ++ Q Sbjct: 192 DSAFQ 196 >gi|260361298|ref|ZP_05774403.1| RNA polymerase sigma-32 factor [Vibrio parahaemolyticus K5030] gi|308111826|gb|EFO49366.1| RNA polymerase sigma-32 factor [Vibrio parahaemolyticus K5030] Length = 158 Score = 147 bits (370), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 69/131 (52%), Positives = 93/131 (70%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTADEERELAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VKI TT Q++L Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKL 135 Query: 136 FFNLRRLKGHL 146 FFNLR+ K L Sbjct: 136 FFNLRKSKKRL 146 >gi|223936758|ref|ZP_03628668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] gi|223894609|gb|EEF61060.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] Length = 352 Score = 145 bits (365), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 97/278 (34%), Positives = 148/278 (53%), Gaps = 13/278 (4%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 +G+ + Y+ EI ++ +L Q+E LA R ++ GD A ++ ++LRLVVKIA Y G Sbjct: 80 DGDTAIKLYLREIGQVQLLTPQQEIELAARIKK-GDKKARELMIKANLRLVVKIARDYEG 138 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GLP+ +++SEGNIGLM+AV++FDP +G +L+TY WWIK +++ + +++ Sbjct: 139 IGLPLLDLISEGNIGLMKAVERFDPAKGGKLSTYGSWWIKQSIKRALANQSKTIRLPVHL 198 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 K +RR LQ I E+ +A +LN+S V M SL+A I Sbjct: 199 VDK--ISKMRRTALKLQEILGREPSDEE---LADELNISAMRVSQMRTAAIRPASLDAPI 253 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D N ++ D E+ E K ML + L+PRE I AR + Sbjct: 254 GDEDSN-----NFAEVVQDENADTPYEQLEEKTVTKMLQELVKTLDPREATILRARFGLD 308 Query: 251 --NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 N TLE + +F V+RERVRQI+ A KK+++ I+K Sbjct: 309 GGNQKTLEEVGQKFGVTRERVRQIQNIALKKLRKMIEK 346 >gi|189218244|ref|YP_001938886.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] gi|189185102|gb|ACD82287.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] Length = 287 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 92/281 (32%), Positives = 161/281 (57%), Gaps = 16/281 (5%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 N + L Y+ EI +IP+L K++E LAKR + GD A +++ ++LRLVVKIA Y Sbjct: 3 NNDSALKLYLREISQIPLLTKEKEVELAKRI-QQGDQEARRQMIQANLRLVVKIAHDYAN 61 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GLP+ +++SEGNIGLM+AV +FDP +G +L+TY+ WWIK +++ + +++ Sbjct: 62 SGLPLPDLISEGNIGLMKAVDRFDPSKGGKLSTYAAWWIKQSIKRALANQSKTIRLPVHL 121 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 K +RR+ L I + E+ +A++L +S ++V + SL+A + Sbjct: 122 VDK--IAKMRRVAMQLSEILGRDPTDEE---LAEELGMSTTKVAELRTIAIRPASLDATV 176 Query: 191 NSSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-R 247 + ++ + LV D +Q +++ +N +N + + L+ RER+I R Sbjct: 177 GEEEDGTALGE--LVKDESAASPDQSVLD----QNLKNTIMELLPKLDERERKILSLRFG 230 Query: 248 LQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L+ N +TLE + EF V+RER+RQ++ A +K+++ ++KQ Sbjct: 231 LEGNEQMTLEEIGKEFHVTRERIRQLQNIALRKIRKELEKQ 271 >gi|213580121|ref|ZP_03361947.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 143 Score = 144 bits (362), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 70/141 (49%), Positives = 94/141 (66%), Gaps = 1/141 (0%) Query: 4 KNMSIIVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 K M + +G L YI PML EE LA+R GDL AA L+ SHLR VV Sbjct: 3 KEMQNLALAPVGNLESYIRAANAWPMLSADEERALAERLHYQGDLEAAKTLILSHLRFVV 62 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W Sbjct: 63 HIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWR 122 Query: 123 LVKIGTTANQKRLFFNLRRLK 143 +VK+ TT Q++LFFNLR+ K Sbjct: 123 IVKVATTKAQRKLFFNLRKTK 143 >gi|162449128|ref|YP_001611495.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161159710|emb|CAN91015.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 275 Score = 144 bits (362), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 92/273 (33%), Positives = 150/273 (54%), Gaps = 17/273 (6%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 S Y E+ L + E LA R+R GD A RL+ + L V+ IA+ YR +GLP Sbjct: 9 AFSAYRTELANYATLSPEAERELALRWR-AGDRDAGRRLIEACLPFVMTIALEYRRWGLP 67 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++V EGNIGL++A ++FDP+RG RLATY+ +WI+A ++E++ R + +V++G++ +++R Sbjct: 68 MEDIVQEGNIGLLKAAERFDPDRGCRLATYAAYWIRAEIREHVARGYRIVRLGSSKSERR 127 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS-MNCRLAGDESLNALINSS 193 R+ A+ +A+ +SE + +A D SL S Sbjct: 128 ALRIYRKTHEKDPAV------------LAELSGLSEERAAELLPLLMARDVSLE---RSP 172 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ + L E + +ER L + ++ L+PRER I R L ++PV Sbjct: 173 TEDGIAPVERLASSAHTPEDEACDADERAQLSRALLQVVNELSPRERSIMNQRWLTDSPV 232 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE L ++F VS+ERVRQIE RA K+++ I++ Sbjct: 233 TLEQLGADFGVSKERVRQIEERAKKRMRARIEE 265 >gi|254698073|ref|ZP_05159901.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] Length = 188 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 80/185 (43%), Positives = 121/185 (65%), Gaps = 1/185 (0%) Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++A+MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L DN K E I+ +L V Sbjct: 1 MRASMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKLAQTDDNMTKAEIYREISDQLGV 60 Query: 169 SESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 S S+V M+ RL+G D SL+A +N + +S+ D+LV DH Q+++ + + R Sbjct: 61 STSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIAESSIDMERRNRW 120 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LTR++ LN RE I RRL ++ VTLE L + +S+ERVRQIE+RA +K++ ++ Q Sbjct: 121 LTRALDTLNERELHIIRERRLDDDGVTLEALGEKLGISKERVRQIESRAMEKLKIALLSQ 180 Query: 288 VELSS 292 EL++ Sbjct: 181 HELAA 185 >gi|257126034|ref|YP_003164148.1| RNA polymerase, sigma 32 subunit, RpoH [Leptotrichia buccalis C-1013-b] gi|257049973|gb|ACV39157.1| RNA polymerase, sigma 32 subunit, RpoH [Leptotrichia buccalis C-1013-b] Length = 273 Score = 142 bits (358), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 91/273 (33%), Positives = 159/273 (58%), Gaps = 15/273 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +I+K +L K+EEY L +R RE D A L+ S+LRLV+ A G GLP+ Sbjct: 9 MSLYLSDIQKFDLLSKEEEYELLRRIREDNDEQARQLLILSNLRLVISTAKKSLGNGLPL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGNIGL++A+ KFD E+G R +TY++WWIK A+++ I+ ++I + Sbjct: 69 IDLISEGNIGLIKAINKFDYEKGHRFSTYAVWWIKQAIKKAIINIGRDIRIPSYK----- 123 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + L ++ ++ T + + IAKK+++ ES++I + SLN I Sbjct: 124 YEQLSKVNKAIKDYTAIHGEAPSTEYIAKKVDLKESKIILLLGEFQDIMSLNETI----- 178 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV- 253 + + + ++ +D E +I++++ R +L R +LN RER+I E R L +N + Sbjct: 179 GDNIYLEDVIGKNDDVEDKIIKEDQLLEMRELLER---ILNERERKILEYRYGLYDNKIH 235 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TL+ + + ++RERVRQIE +A K++E +++ Sbjct: 236 TLKEIGEQMGITRERVRQIEKKAITKLKEHLEE 268 >gi|260889708|ref|ZP_05900971.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] gi|260860314|gb|EEX74814.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] Length = 273 Score = 140 bits (352), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 91/273 (33%), Positives = 159/273 (58%), Gaps = 15/273 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +I+K +L K+EEY L KR RE D A L+ S+LRLV+ A G GLP+ Sbjct: 9 MSLYLSDIQKFDLLSKEEEYELLKRIREDDDEQARQLLILSNLRLVISTAKKSLGNGLPL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGNIGL++A+ KFD E+G R +TY++WWIK ++++ I+ ++I + Sbjct: 69 IDLISEGNIGLIKAINKFDYEKGHRFSTYAVWWIKQSIKKAIINIGRDIRIPSYK----- 123 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + L ++ ++ T + + IAK++++ ES+VI + SLN I Sbjct: 124 YEQLSKVNKVIKDYTAIHGEAPSTEYIAKEVDLKESKVILLLGEFQDIMSLNETI----- 178 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV- 253 + + + ++ +D E +I++++ +++L R VLN RER I E R L +N + Sbjct: 179 GDNIYLEDIIGKNDDVEDKIIKEDQLIEMKDLLER---VLNERERAILEYRYGLYDNKIH 235 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TL+ + + ++RERVRQIE +A K++E +++ Sbjct: 236 TLKEIGEQMGITRERVRQIEKKAITKLKEHLEE 268 >gi|260762513|ref|ZP_05874850.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260672939|gb|EEX59760.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] Length = 184 Score = 139 bits (351), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 79/181 (43%), Positives = 117/181 (64%), Gaps = 1/181 (0%) Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L DN K E I+ +L VS S+ Sbjct: 1 MQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKLAQTDDNMTKAEIYREISDQLGVSTSD 60 Query: 173 VISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V M+ RL+G D SL+A +N + +S+ D+LV DH Q+++ + + R LTR+ Sbjct: 61 VEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIAESSIDMERRNRWLTRA 120 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELS 291 + LN RE I RRL ++ VTLE L + +S+ERVRQIE+RA +K++ ++ Q EL+ Sbjct: 121 LDTLNERELHIIRERRLDDDGVTLEALGEKLGISKERVRQIESRAMEKLKIALLSQHELA 180 Query: 292 S 292 + Sbjct: 181 A 181 >gi|222832154|gb|EEE70631.1| predicted protein [Populus trichocarpa] Length = 299 Score = 138 bits (348), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 87/239 (36%), Positives = 136/239 (56%), Gaps = 29/239 (12%) Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+AVK+FDP++ RL +Y+M WIKA + EYIL++W +VK+ TT Q++LFFNLR +K L Sbjct: 1 MKAVKRFDPDQNVRLVSYAMHWIKAEIHEYILKNWRMVKVATTKAQRKLFFNLRSMKQGL 60 Query: 147 Q---------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 + A+ + L ++ A+A+KLNV EV+ M RLAG + L L S + Sbjct: 61 KSDAAMAEDGAMLRDTLTSGEIDAVAEKLNVKREEVMEMETRLAGGDVL--LDPSPSDDG 118 Query: 198 SQWQDWLVYDHDGQEQ--VLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQENP-- 252 Q + Y DG + +IE +R + + + ++ L+ R RRI E R L+ N Sbjct: 119 EQAFGPIAYLADGAHEPTAMIESRQRDHLATDGIAMALDSLDDRSRRIVEERWLKVNDDG 178 Query: 253 ---VTLENLSSEFEVSRERVRQIEARAFKKVQESI----------QKQVELSSSPPLLQ 298 +TL L++ + VS ER+RQIE A KK+++++ +Q L+++PPL Q Sbjct: 179 SGGMTLHELAAVYGVSAERIRQIEVAAMKKMKKALADLCGPHAPHARQRHLATTPPLRQ 237 >gi|225159269|ref|ZP_03725570.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] gi|224802166|gb|EEG20437.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] Length = 373 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 91/276 (32%), Positives = 154/276 (55%), Gaps = 16/276 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI K P+L EE LA+R R GD +A +++++LRLVVKIAM Y+ +GLP+ Sbjct: 61 LQLYLQEIGKTPLLTLDEEVTLARRIR-RGDKAARDHMISANLRLVVKIAMDYKDFGLPL 119 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGNIGL++AV++FDP +G +L+TY+ WWIK +++ + +++ L Sbjct: 120 LDLISEGNIGLVKAVERFDPRKGGKLSTYAAWWIKQSIKRALANQSKTIRLPV-----HL 174 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + R++ A+T+ + IA +L + S+V + SL+A + D Sbjct: 175 VDKIARMRRTAMALTEQLGREPSDEEIAMELQIPTSKVAHLKSVSVRPASLDAPVG-EDG 233 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSM-SVLNPRERRIFEARRLQE--N 251 +SS + + + G E + E K R RN + M L PRE I R + + Sbjct: 234 DSSTFGELV-----GDENAVSPFESLKERSRNADLKEMVDSLEPREAEIIRYRFGLDGRD 288 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +TLE + +F+V+RERVRQ++ A K+++++ + Sbjct: 289 ELTLEEVGQKFKVTRERVRQLQNLALSKMRKAMSRH 324 >gi|223937956|ref|ZP_03629855.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] gi|223893357|gb|EEF59819.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] Length = 353 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 90/278 (32%), Positives = 151/278 (54%), Gaps = 13/278 (4%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 +G + Y+ E+ + +L QEE LAKR ++ GD A +++ ++LRLVVKIA Y Sbjct: 79 DGNTAFNLYLREVGQTKLLTPQEEVDLAKRIKK-GDKKAREQMIKANLRLVVKIAREYED 137 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YG+P+ ++++EGN+GLM+AV++FDP +G +L+TYS WWIK +++ + +++ Sbjct: 138 YGMPLLDLINEGNMGLMKAVERFDPAKGAKLSTYSAWWIKQSIKRALANQSKTIRLPVHV 197 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 K F++R+ LQ + E+ + +L S +V + SL A + Sbjct: 198 VDK--LFHMRQASVKLQEVLGREPTDEE---LGDELGFSAQKVAQLRTAAIRPASLEAPL 252 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D +S+ D + D E+ E K +ML ++ L+PRE I R L Sbjct: 253 G--DDETSRIADVV---RDETADTPYEQLEEKTNTSMLRELVATLDPREAEILRYRFGLD 307 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +P TLE + +F V+RER+RQI+ A K+++ I+K Sbjct: 308 GDPERTLEEVGQKFGVTRERIRQIQNVALNKLRKQIEK 345 >gi|108803849|ref|YP_643786.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765092|gb|ABG03974.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 289 Score = 136 bits (343), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 95/267 (35%), Positives = 144/267 (53%), Gaps = 12/267 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y I K +L QEE L++R ++ GD A +L+ +LRLVV +A YRGYGLP ++ Sbjct: 22 YFARIDKGELLTHQEEIELSRRAKK-GDRKARQKLIEKNLRLVVSVAKKYRGYGLPFEDL 80 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KFDPERGFR +TY+ WWI+ A+Q + +++ +K Sbjct: 81 IQEGNIGLMKAVEKFDPERGFRFSTYATWWIRQAVQRAVADKGRTIRVPVHMTEK--IRK 138 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + R L A + E+V A+ L + EV + + SLN + SSD++SS Sbjct: 139 MARTYNELSAQLEREPTDEEV---AEALGWTPEEVREVKGAMPDATSLNQPL-SSDEDSS 194 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 + ++ V D + + +N L +++ L R R + R ++ P TL Sbjct: 195 EIGEF-VEDERASDTAGAVARDIEN--AALRKAIERLPERNRHVLVRRYGLDDREPATLA 251 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQES 283 LS E VSRERVRQ++ A + +QES Sbjct: 252 ELSEELGVSRERVRQLQREAERMIQES 278 >gi|226329393|ref|ZP_03804911.1| hypothetical protein PROPEN_03298 [Proteus penneri ATCC 35198] gi|225202579|gb|EEG84933.1| hypothetical protein PROPEN_03298 [Proteus penneri ATCC 35198] Length = 137 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 62/134 (46%), Positives = 93/134 (69%), Gaps = 2/134 (1%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 ++++++ G I YI PML +EE LA+R GDL AA L+ SHLR V+ Sbjct: 6 QSLALVPQGSI--EAYIRAANSYPMLTAEEEKELAERLHYEGDLDAARTLILSHLRFVIH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +A Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA + EY+LR+W + Sbjct: 64 VARSYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRI 123 Query: 124 VKIGTTANQKRLFF 137 VK+ TT +Q++LFF Sbjct: 124 VKVATTKSQRKLFF 137 >gi|221134005|ref|ZP_03560310.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Glaciecola sp. HTCC2999] Length = 326 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 100/275 (36%), Positives = 155/275 (56%), Gaps = 20/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE VL R GD A R++ S+LRLVVKIA Y+ GL + ++ Sbjct: 53 YLNEIGFSPLLSAEEE-VLHGRKALKGDKDARERMIVSNLRLVVKIARRYKDRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ V++ K L Sbjct: 112 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTVRLPIHV-VKELNIY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR + Q + D+ E+ IA KL+VS +V + +N R+ +S L + SD Sbjct: 171 LRTARNLAQEL-DHEPTAEE---IADKLDVSTEDVNKMLRLNERIKSVDSY--LSHESDG 224 Query: 196 NSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENP 252 NS D L +H G E EK + + +N + + LNP++R + R + P Sbjct: 225 NS--LLDILPDSNHSGPE----EKNQEDDIKNNIVMWLQELNPKQREVLSRRFGLMGFEP 278 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLEN+ +E ++RERVRQI+ A +++++ + Q Sbjct: 279 DTLENVGAEIGLTRERVRQIQVEALRRLKDMLGLQ 313 >gi|298244288|ref|ZP_06968094.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297551769|gb|EFH85634.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 334 Score = 135 bits (340), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 95/275 (34%), Positives = 150/275 (54%), Gaps = 29/275 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + +Y+ EI P+L ++E LA+R GD A RL+ ++LRLVV IA Y GLP+ Sbjct: 64 VKQYLKEIGMYPLLTAEQELQLAERV-ARGDQYARQRLIEANLRLVVSIAKRYSNQGLPL 122 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+A +KFD +RGFR +TY+ WWI+ A+ I + I + L Sbjct: 123 LDLIQEGNIGLMRATQKFDYKRGFRFSTYATWWIRQAISRAIAEHSRSIHIPVHVVE--L 180 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLN 187 + ++R+ L PEQV A + + LNVSE + IS++ +A DE + Sbjct: 181 IYKIKRITRRLYQEQGVEPLPEQVAAELGLPRERVVELLNVSE-QPISLDAPMADDEEYH 239 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 D L D I+ ++ +R + ++M+VLNPRER I E R Sbjct: 240 ------------LSDML---EDTSMAPTIDVVSQQLQREHIEQAMTVLNPRERTIIEMRY 284 Query: 248 -LQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L++ + ++L+ +S F ++RER+RQIE +A +K+ Sbjct: 285 GLKDGHSLSLDEVSVLFHLTRERIRQIEVKALRKL 319 >gi|171909626|ref|ZP_02925096.1| RNA polymerase sigma factor [Verrucomicrobium spinosum DSM 4136] Length = 298 Score = 135 bits (340), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 95/280 (33%), Positives = 160/280 (57%), Gaps = 23/280 (8%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 G+ Y+ EI K +L Q+E LA+R ++ GD A ++ ++LRLVVKIA Y YGLP Sbjct: 9 GIKIYLREIGKTDLLTPQQEVELAERIKK-GDPEARSHMIRANLRLVVKIAQDYANYGLP 67 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++SEGNIGLM+AV++FDP +G +L+TY+ WWIK +++ + +++ K Sbjct: 68 LLDLISEGNIGLMKAVERFDPNKGGKLSTYAAWWIKQSIKRALANQSKTIRLPVHMVDK- 126 Query: 135 LFFNLRRLKGHL-----QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 +RR+ + + TD+ L E + K +S+ +V SM SL+A Sbjct: 127 -ISKMRRVAMAMSEELGREPTDDELSEEIGIDRGK---LSQLKVASMRP-----ASLDAP 177 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL- 248 I+ D S+++ + +V D + Q + KN + L ++VL+ RER+I +AR Sbjct: 178 ISEDD--STEFGE-IVGDENA--QTPFDLLSHKNMHSQLDGLLTVLDERERKIIDARFGL 232 Query: 249 -QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + TLE + EF V+RER+RQ++ A +K++ ++QK+ Sbjct: 233 NGQKARTLEEVGQEFGVTRERIRQLQNIALRKLRRALQKK 272 >gi|46204564|ref|ZP_00049813.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 132 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 69/127 (54%), Positives = 92/127 (72%), Gaps = 2/127 (1%) Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E +VI MN RL+GD SLNA + ++ +WQDWLV + QE VL +EE +NR + Sbjct: 1 MPEQDVIDMNRRLSGDTSLNAPLR--EEGEGEWQDWLVDNSPSQETVLAREEEGRNRLSA 58 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L ++ VLNPRERRIFEARRL ++P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ Sbjct: 59 LRDALGVLNPRERRIFEARRLADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRN 118 Query: 288 VELSSSP 294 + P Sbjct: 119 LATRELP 125 >gi|269104472|ref|ZP_06157168.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] gi|268161112|gb|EEZ39609.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] Length = 294 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 90/273 (32%), Positives = 147/273 (53%), Gaps = 15/273 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I P+L K EE +L R GD + ++ S+LRLVV IA YRG G+ +S++ Sbjct: 21 YLKDIALKPLLTKDEE-ILYSRKALVGDAKSKKVMIESNLRLVVSIAKKYRGSGMQLSDM 79 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL+ AV+KFDPERGFR +TY+ WWIK ++ I +++ +++ Sbjct: 80 IDEGNIGLITAVEKFDPERGFRFSTYATWWIKQTIERAIHNQARTIRLPVHVSKEINTI- 138 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L+ H Q + NN +P +A +L+ S ++ ++ A S + I+S D NS Sbjct: 139 ---LRTHKQLMKTNNSEPTH-EEVADELDKSVEDISALLSYDAPVMSFDQTISSEDSNSQ 194 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM-SVLNPRERRIFEARR---LQENPVT 254 ++ D D I+ KN LT +M LNPR+R I RR + T Sbjct: 195 TMASFISDDSDNGPDAQID----KNDIQKLTLTMLEGLNPRDREIL-CRRFGLMGYEAQT 249 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L+ ++ E ++RER+RQ++ + K++ +Q++ Sbjct: 250 LQQVAEEVGLTRERIRQLQVSSLNKLKNVLQRE 282 >gi|260219679|emb|CBA26524.1| RNA polymerase sigma factor rpoS [Curvibacter putative symbiont of Hydra magnipapillata] Length = 340 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 89/293 (30%), Positives = 153/293 (52%), Gaps = 32/293 (10%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 ++ S + G LS Y+ +R+ P+ ++E+ +A R R GD +A ++ +LRLV+ Sbjct: 51 EDPSTLEQGPDALSVYLRGVRRTPLFTPEQEFEVATRAR-AGDFAARQSMIEHNLRLVIS 109 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA GY G G+P+S+++ EGN+GLM A+ KF+PERGFR +TY+ WWI+ ++ ++ Sbjct: 110 IAKGYAGRGVPMSDLIEEGNLGLMHAIDKFEPERGFRFSTYATWWIRQSVDRALMYQGRA 169 Query: 124 VKIGT-TANQKRLFFNLRRL---KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM--- 176 V++ + + RRL L A ++ E + A+ + V +++++M Sbjct: 170 VRLPVNVVREVQQVLRARRLLENDAVLLAQRPEGIRVEDIAALLGRDAVDVTDLLAMAEA 229 Query: 177 ----NCR--LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + R GDE ++L +S + D H+ +L + Sbjct: 230 PRSLDARNDAGGDE--HSLGDSLADTLAAAPDSTALAHEVDA--------------LLEQ 273 Query: 231 SMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ LNPRE+ + EAR L + +P TLE LS ++RERVRQI+ A K++ Sbjct: 274 WIATLNPREQEVLEARFGLHDRDPETLETLSERLGLTRERVRQIQNEALFKLK 326 >gi|257438255|ref|ZP_05614010.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] gi|257199332|gb|EEU97616.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] Length = 359 Score = 133 bits (334), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 88/266 (33%), Positives = 146/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L ++E LA R + GD A +L ++LRLVV +A Y G GLP ++ Sbjct: 92 YLKEIGRVPLLTMEQELELA-RAAQAGDADARRKLSEANLRLVVSVAKRYAGRGLPFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+A +KF+P+RGFR +TY+ WWI+ ++ I +++I L + Sbjct: 151 IQEGNLGLMKAAEKFEPDRGFRFSTYATWWIRQSITRAIADQGRVIRIPV-----HLVES 205 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 + R+K + N + IA +L++ V + +LA D SL + ++ Sbjct: 206 INRVKKTAGELLRKNGREPTAEEIAVRLDMEPDRVREL-LQLAQDPISLETPVG--EEED 262 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 + +D++ D + V +++ R+ R L + L PRE R+ R E+ TL Sbjct: 263 AHLEDFI---QDEEAGVPVDEAGRELLRRELANVLKSLTPREERVLTLRFGLEDGQARTL 319 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E L EF V+RER+RQIEA+A +K++ Sbjct: 320 EELGKEFNVTRERIRQIEAKALRKLR 345 >gi|56459854|ref|YP_155135.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina loihiensis L2TR] gi|56178864|gb|AAV81586.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina loihiensis L2TR] Length = 322 Score = 133 bits (334), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 99/278 (35%), Positives = 150/278 (53%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE ++R + GD +A R++ S+LRLVVKIA Y GLP+ ++ Sbjct: 52 YLGEIGFSPLLTAEEEVFYSRRALK-GDKAARRRMIESNLRLVVKIARRYSNRGLPLLDL 110 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 111 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 169 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD---- 194 LR + L D+ E IAK LN ++ M LN I S D Sbjct: 170 LRAAR-ELAHKLDHEPTAED---IAKSLNKPVGDITKML-------RLNERIGSVDTPIG 218 Query: 195 -KNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQ 249 N D L D D G E VL + +N + +T + LN ++R + ARR + Sbjct: 219 GDNDKALLDILTDDADTGPEGVL----QDENLKGNITEWLQSLNQKQREVL-ARRFGLMG 273 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE++ E ++RERVRQI+ A +K+++S+++Q Sbjct: 274 YEPSTLEDVGREIGLTRERVRQIQVEALRKLRDSLKQQ 311 >gi|298242664|ref|ZP_06966471.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297555718|gb|EFH89582.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 394 Score = 132 bits (333), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 152/273 (55%), Gaps = 13/273 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + +Y+ EI + P+L ++E +A R +GD+ A RLV ++LRLVV IA Y G+ Sbjct: 125 AIRQYLAEIGRFPLLTSEQELTIAWRV-ANGDMEAQKRLVEANLRLVVSIAKRYNNQGIS 183 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GL++AV+KFDP+RGFR +TY+ WWI+ A+ + + + + Sbjct: 184 LLDLIQEGNLGLIRAVQKFDPQRGFRFSTYATWWIRQAISRAVAEHTRTIHVPVHVVE-- 241 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L + ++R+ L + PE+ IA+ +N+++ V+ + SL+A + + Sbjct: 242 LIYKMKRITRQLYQDLGRDPFPEE---IAQAINLTKERVVELQSIAEAPISLDAPLIEDE 298 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV 253 + D L H ++ + R+ ++R++ L+ RER++ E R L + Sbjct: 299 QY--HLADMLEDTHAAAPAEVVTHQ---VLRDHISRALETLSQRERQVIELRYGLYDGYC 353 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TLE LS+ F+++RER+RQIE +A + ++ IQ Sbjct: 354 HTLEELSAYFKLTRERIRQIEVKALRTLRHPIQ 386 >gi|225849737|ref|YP_002729971.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Persephonella marina EX-H1] gi|225645950|gb|ACO04136.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Persephonella marina EX-H1] Length = 285 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 96/277 (34%), Positives = 149/277 (53%), Gaps = 19/277 (6%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E G++ Y++ I KIP+L +EE +AK+ +E GD A +L+ S+LR VV +A Y GYG Sbjct: 7 EEGITYYLNSISKIPLLSPEEEKEIAKKAKE-GDKEALEKLIKSNLRFVVNVAKNYTGYG 65 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 +P E++S GNIGL++A K+FDPERG R +Y++WWIK ++ + I ++KI Q Sbjct: 66 IPFQELISAGNIGLIEAAKRFDPERGVRFISYAIWWIKQSILQTIQSQKDIIKIP----Q 121 Query: 133 KRLFFNLRRLKGHLQAITDNNLKP---EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K +++ +L+ N +P E + + N+ E N L S+ +L Sbjct: 122 KTQNLSMKIDTAYLELKERLNREPKYSEIKEYLKEHENIDIDEETIENYLLIKRHSV-SL 180 Query: 190 INSSDKNSSQWQDWLVYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 D + + L+ H D +E ++ E E++ + +S L+ RER I R Sbjct: 181 DTPVDMDEGTFFIDLISKHSTKDIEENIVRESIEKE-----IEYILSHLSERERFIIVNR 235 Query: 247 RL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P TL + E +SRERVRQIE RA KK++ Sbjct: 236 FGLNGEEPKTLREIGKELGISRERVRQIEIRALKKIR 272 >gi|85712119|ref|ZP_01043172.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina baltica OS145] gi|85694109|gb|EAQ32054.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina baltica OS145] Length = 333 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 94/283 (33%), Positives = 153/283 (54%), Gaps = 37/283 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE ++R + GD++A R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLSEIGFSPLLTAEEEIFYSRRALK-GDIAARKRMIESNLRLVVKIARRYCNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 122 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDES---LN 187 LR + L D+ E + A I K L ++E V S++ + GD L+ Sbjct: 181 LRAAR-ELAHKLDHEPTAEDIAASLNKPVEDITKMLRLNE-RVTSVDTPIGGDNDKALLD 238 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 L + +D DG E VL + + + +T + LNP+++ + ARR Sbjct: 239 ILTDEAD--------------DGPEGVL----QDGDLKERITEWLDALNPKQKEVL-ARR 279 Query: 248 ---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ E ++RERVRQI+ A +K+++ +++Q Sbjct: 280 FGLLGYEPSTLEDVGHEIGLTRERVRQIQVEALRKLRDFLRQQ 322 >gi|262038022|ref|ZP_06011434.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] gi|261747975|gb|EEY35402.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] Length = 258 Score = 130 bits (328), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 90/267 (33%), Positives = 152/267 (56%), Gaps = 25/267 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +I+K +L K+EEY L +R RE D A L+ S+LRLV+ A G GLP+ Sbjct: 9 ISLYLSDIQKFNLLSKEEEYELLRRIREENDEQARQLLILSNLRLVISTAKKLLGNGLPL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGNIGL++A+ KFD E+G R +TY++WWIK ++++ I+ + ++I + Sbjct: 69 IDLISEGNIGLIKAINKFDYEKGHRFSTYAVWWIKQSIKKAIINTGRDIRIPS------- 121 Query: 136 FFNLRRLKGHLQAITDNNLK-----PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + +L + ITD K P + IAK++++ ES+VI + SLN I Sbjct: 122 -YKYEQLSKVNKVITDYVAKYGESPPTE--YIAKEVDLKESKVILLLNEFQDVISLNETI 178 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQ 249 + + + +V + D E+ +I++++ R +L ++L RER I E R L Sbjct: 179 -----GDNIYLEDIVGNTDDVEEKIIKEDQLSEMRELLE---NILTDREREILELRYGLY 230 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEAR 275 N + TL+ + ++ ++RERVRQIE + Sbjct: 231 NNKIHTLKEIGAKLNITRERVRQIEKK 257 >gi|313113550|ref|ZP_07799138.1| RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] gi|310624065|gb|EFQ07432.1| RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] Length = 377 Score = 130 bits (327), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 90/266 (33%), Positives = 145/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L ++E LA R + GD A +L ++LRLVV +A Y G GLP ++ Sbjct: 110 YLKEIGRVPLLTAEQETELA-RAAQAGDEDARRKLSEANLRLVVSVAKRYAGRGLPFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+A +KF+PERGF+ +TY+ WWI+ ++ I ++I L + Sbjct: 169 IQEGNLGLMKAAEKFEPERGFKFSTYATWWIRQSITRAIADQGRTIRIPV-----HLVES 223 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 + R+K + N + IA +L++ V + +LA D SL + ++ Sbjct: 224 INRVKKMTGDLLRKNGREPTAEEIAVQLDMEPDRVREL-LQLAQDPISLETPVG--EEED 280 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 + +D+ + D D V +++ R+ R L + L PRE R+ R E+ TL Sbjct: 281 AHLEDF-IQDEDA--GVPVDEAGRQLLRRELFSVLKSLTPREERVIALRFGLEDGRAHTL 337 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E L EF V+RERVRQIEA+A +K++ Sbjct: 338 EELGKEFNVTRERVRQIEAKALRKLR 363 >gi|297614550|gb|ADI48581.1| putative DNA-directed RNA polymerase sigma 38 subunit [uncultured bacterium fss6] Length = 322 Score = 130 bits (326), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 94/279 (33%), Positives = 158/279 (56%), Gaps = 28/279 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE ++ R+ GD A R++ S+LRLVVKIA Y GL + ++ Sbjct: 51 YLSEIGYSPLLSAEEEVHFSRLARK-GDAKARARMIESNLRLVVKIARRYTNRGLALLDL 109 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 110 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-------- 161 Query: 139 LRRLKGHLQAITD--NNLKPEQVVA-IAKKLNVSESEV---ISMNCRLAGDESLNALINS 192 ++ L +L+A + + L E IA+KL+VS ++V + +N R+ S++ + Sbjct: 162 VKELNSYLRAARELAHTLDHEPTAEDIAEKLDVSVADVSRMLRLNERVT---SVDTPMGG 218 Query: 193 SDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---L 248 SD N D L D+D G E + E ++ R+ + + LN ++R + ARR L Sbjct: 219 SD-NDKTLVDMLTDDNDYGPEGDMQE----EDVRDHIMTWLENLNEKQREVL-ARRFGLL 272 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE++ E ++RERVRQI+ A +++++ +++Q Sbjct: 273 GYEPATLEDVGREIGLTRERVRQIQVEALRRLRDMLRQQ 311 >gi|269120610|ref|YP_003308787.1| RNA polymerase, sigma 32 subunit, RpoH [Sebaldella termitidis ATCC 33386] gi|268614488|gb|ACZ08856.1| RNA polymerase, sigma 32 subunit, RpoH [Sebaldella termitidis ATCC 33386] Length = 270 Score = 130 bits (326), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 87/265 (32%), Positives = 150/265 (56%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I+K +L ++EEY L +R +E A H L+ S+LRLV+ IA G GLP+ ++ Sbjct: 11 YLKDIQKYELLNREEEYELFRRIKEDDSQDARHELILSNLRLVISIAKKSLGNGLPLIDL 70 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +SEGNIGL++A+ KFD +G R +TY++WWIK ++++ I+ ++I + ++ N Sbjct: 71 ISEGNIGLIKAINKFDYTKGHRFSTYAVWWIKQSIKKAIINKGRDIRIPSYKYEQLAKVN 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 K + I D+ P V IA++L + E +V + SLN +I + Sbjct: 131 ----KVMVNYINDHGETP-SVAYIAEQLEIKEYKVSLLINEFQDIISLNDVI-----GDN 180 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLE 256 + + ++ + D E+ +I+ ++ R +L ++L+ RER I E R L N + TL+ Sbjct: 181 IFLEDVIGNEDNIEEKIIKNDQINKMRELLD---NILSEREREIIELRYGLYNNKMHTLK 237 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + E ++RERVRQIE +A K++ Sbjct: 238 EIGDELNITRERVRQIEKKAITKLK 262 >gi|124266448|ref|YP_001020452.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Methylibium petroleiphilum PM1] gi|124259223|gb|ABM94217.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Methylibium petroleiphilum PM1] Length = 343 Score = 129 bits (325), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 90/278 (32%), Positives = 144/278 (51%), Gaps = 15/278 (5%) Query: 12 GEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 GE+G L Y+ EIR+ P+ EE+ +A R R GD +A +++ +LRLVV IA Y Sbjct: 59 GEVGNTLQTYLREIRRAPLFTPDEEFAMATRARA-GDFAARQQMIERNLRLVVSIAKSYL 117 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GLP+++++ EGN+GLM A+ KF+PERGFR +TY+ WWI+ +++ I+ LV++ Sbjct: 118 SRGLPMTDLIEEGNLGLMHAIGKFEPERGFRFSTYASWWIRQSIERAIMHQARLVRLPVH 177 Query: 130 ANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 ++ ++ R L+G A D + +V IA L +EV + SL+ Sbjct: 178 VVRELNQVLKARRALEGEAAASADG--RTVRVDEIAAALGRPVTEVSELLRFAEQPTSLD 235 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR--NMLTRSMSVLNPRERRIFEA 245 A + N ++ +V D EQ N +L + L+ RER + Sbjct: 236 APLERQAGNGAETLGDMVAD----EQATDPLGHTLNHELDVLLEHGLGELSEREREVLAG 291 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + P TLE L+ ++RER+RQI+ A K++ Sbjct: 292 RYGLHDREPETLEVLAERLGLTRERIRQIQQEALLKLK 329 >gi|124514327|gb|EAY55841.1| RNA polymerase, sigma 70 subunit, RpoD family [Leptospirillum rubarum] Length = 499 Score = 129 bits (323), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 93/283 (32%), Positives = 149/283 (52%), Gaps = 23/283 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ +++K +L +EE LAKR R GD SA ++ S+LRLVV IA Y G GL + Sbjct: 49 LGSYLKKLQKSHLLTFEEEQDLAKRVRA-GDESARQAMIQSNLRLVVSIAKRYIGRGLLL 107 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AV KFDP++GFR +TY+ WWI+ A++ I+ ++++ +K Sbjct: 108 EDLIEEGNLGLMKAVSKFDPDKGFRFSTYASWWIRQAIERGIINQGHMIRLPVHMMEK-- 165 Query: 136 FFNLRRLKGHLQAI---TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 + +L AI + +P+ + +A+K + ++ + L SL+ I Sbjct: 166 ------VNAYLNAIERQVADGQQPD-IETLARKNGLKVRDLQEIQALLKNTVSLDTPIG- 217 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-----R 247 D+ S +D LV IE E +R L S+++L +ERR+ R Sbjct: 218 -DREDSTLKDILVDPTSFSPISTIESREEGDR---LRESLALLKDKERRVIHLRFGLPGE 273 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 E +TLE + V+RERVRQIEA A K++ ++ E Sbjct: 274 GPEEGMTLEAIGQMLGVTRERVRQIEASAMAKLRAYMEDPSEF 316 >gi|268315720|ref|YP_003289439.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodothermus marinus DSM 4252] gi|262333254|gb|ACY47051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodothermus marinus DSM 4252] Length = 279 Score = 129 bits (323), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 88/278 (31%), Positives = 158/278 (56%), Gaps = 31/278 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI KIP+L +EE LA+R ++ GD A H+L ++LR VV +A Y+G GL + Sbjct: 10 LDQYLQEIGKIPLLTPEEEVELARRIKQ-GDEEALHKLTRANLRFVVSVAKKYQGQGLSL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV-----KIGTTA 130 +++++EGN GL++A ++FD RGF+ +Y++WWI+ A+ + + +V +IGT + Sbjct: 69 ADLINEGNYGLIKAAQRFDETRGFKFISYAVWWIRQAILQALAEQSRVVRLPLNRIGTIS 128 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +++ + R + H +A + L A++LN+ ++ S++A Sbjct: 129 KIRKV--SARLAQEHERAPSAEEL--------AEELNIDVEKIREALQHTGRALSMDAPF 178 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL- 248 D NS D L + D ++ L+E+ + + + R++S L+PRE I RL Sbjct: 179 TDDDDNS--LLDVLPNEEDTSPDEGLMEESLKID----IERALSTLHPREAEII---RLY 229 Query: 249 ----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +E+P+TLE + F ++RERVRQI+ +A +K+++ Sbjct: 230 FGIGREHPLTLEEIGQRFGLTRERVRQIKEKALRKLRQ 267 >gi|294055548|ref|YP_003549206.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] gi|293614881|gb|ADE55036.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] Length = 342 Score = 128 bits (322), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 153/269 (56%), Gaps = 13/269 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 GL Y+ EI K +L QEE LAKR ++ G+ +A +++++LRLVVKIA Y +GLP Sbjct: 46 GLRAYMQEIGKTALLTPQEEVELAKRIQK-GNKAARDHMISANLRLVVKIAHDYNNFGLP 104 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++SEGNIGL++AV++FDP +G +L+TY+ WWIK +++ + +++ K Sbjct: 105 LMDLISEGNIGLVKAVERFDPSKGGKLSTYAAWWIKQSIKRALANQSKTIRLPVHLVDKI 164 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + +R++ L D E+ IA + + ++V + SL+A + D Sbjct: 165 AY--MRKITAELADELDREPTDEE---IAYTMGMPVNKVAHLKSVSVRPSSLDAPVG-ED 218 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENP 252 ++S + LV D + + +E + K+ N + +++L+ RE I R E+P Sbjct: 219 GDTSFGE--LVGDEN--QATPLENLQEKSLSNDMHSMIALLDQREAEIIRLRFGLDGEHP 274 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TLE + +F+++RERVRQI+ A K++ Sbjct: 275 LTLEEVGEQFKITRERVRQIQNIAIHKMR 303 >gi|206602787|gb|EDZ39268.1| RNA polymerase, RpoD-like sigma subunit [Leptospirillum sp. Group II '5-way CG'] Length = 499 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 93/283 (32%), Positives = 149/283 (52%), Gaps = 23/283 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ +++K +L +EE LAKR R GD SA ++ S+LRLVV IA Y G GL + Sbjct: 49 LGSYLKKLQKSHLLTFEEEQDLAKRVRA-GDESARQAMIQSNLRLVVSIAKRYIGRGLLL 107 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM+AV KFDP++GFR +TY+ WWI+ A++ I+ ++++ +K Sbjct: 108 EDLIEEGNLGLMKAVSKFDPDKGFRFSTYASWWIRQAIERGIINQGHMIRLPVHMMEK-- 165 Query: 136 FFNLRRLKGHLQAI---TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 + +L AI + +P+ + +A+K + ++ + L SL+ I Sbjct: 166 ------VNAYLNAIERQVADGQQPD-IENLARKNGLKVRDLQEIQALLKNTVSLDTPIG- 217 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-----R 247 D+ S +D LV IE E +R L S+++L +ERR+ R Sbjct: 218 -DREDSTLKDILVDPTSFSPISTIESREEGDR---LRESLALLKDKERRVIHLRFGLPGE 273 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 E +TLE + V+RERVRQIEA A K++ ++ E Sbjct: 274 GPEEGMTLEAIGQMLGVTRERVRQIEASAMAKLRAYMEDPSEF 316 >gi|254455073|ref|ZP_05068509.1| RNA polymerase, sigma 32 subunit, RpoH [Octadecabacter antarcticus 238] gi|198263775|gb|EDY88046.1| RNA polymerase, sigma 32 subunit, RpoH [Octadecabacter antarcticus 238] Length = 249 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 80/210 (38%), Positives = 124/210 (59%), Gaps = 15/210 (7%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 NIGL++A +FDP++GFR +TY+ WWI+A +Q+Y L+ WSLVK+ +A ++LF+NL+R Sbjct: 4 ANIGLLKAADRFDPDKGFRFSTYAAWWIRAEIQDYKLQGWSLVKLPNSAFGRKLFYNLKR 63 Query: 142 LKGHLQAITDNNLKPEQVVA-IAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQ 199 ++ L + + + PE +V IA L V+ +V+ M RLA D SLN + S D ++Q Sbjct: 64 VETRL--VAEGEVPPEHLVDRIATDLGVTPEQVVLMQQRLAAPDGSLNRPV-SDDGGTAQ 120 Query: 200 WQDWLVYDHDGQEQVLIEKE--ERKNRR---NMLTRSMSVLNPRERRIFEARRLQENPVT 254 QD L+ D D +EKE R + R L+ ++ L+ RE+ I + + P T Sbjct: 121 LQD-LLEDPDAD----VEKEVSARLDSRAFWTTLSFHLNRLSKREQEIIIEIYVSDTPKT 175 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L L +F VS ER+RQI A +++ S Sbjct: 176 LYELGEQFSVSHERIRQIREAALTRLRASF 205 >gi|196232822|ref|ZP_03131672.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] gi|196223021|gb|EDY17541.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] Length = 296 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 88/284 (30%), Positives = 162/284 (57%), Gaps = 23/284 (8%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 + + G+ Y+ EI +IP+L ++E LA + ++ GD +A ++ S+LRLVVKIA Y Sbjct: 8 DSDSGIKIYLREIGQIPLLTPEQEIELAAKIKK-GDKAARSLMIRSNLRLVVKIAHDYAN 66 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK----- 125 GLP+ +++SEGNIGLM+AV++FDP +G +L+TY+ WWIK +++ + ++ Sbjct: 67 LGLPLLDLISEGNIGLMKAVERFDPAKGGKLSTYAAWWIKQSIKRALANQSKTIRLPVHL 126 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + +R+ + G + TD+ L E ++ K +S+ + +S+ S Sbjct: 127 VDKISKMRRVALQMSEELG--REPTDDELAEEVGLSSGK---ISQLKTVSIRP-----AS 176 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+A I SD +S+++ + + D + E+ KN R+ + + VL+ RE++I + Sbjct: 177 LDAPI--SDDDSTEFGEIV---GDLEALTPFERLRDKNLRDEVGDLLEVLDEREKKIIFS 231 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R + TLE + +F V+RER+RQ++ A K++ ++QK+ Sbjct: 232 RFGLDGGKAKTLEEVGKKFGVTRERIRQLQNIALMKLRRALQKK 275 >gi|54302639|ref|YP_132632.1| DNA-directed RNA polymerase sigma factor [Photobacterium profundum SS9] gi|90412658|ref|ZP_01220660.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium profundum 3TCK] gi|46916063|emb|CAG22832.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium profundum SS9] gi|90326466|gb|EAS42878.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium profundum 3TCK] Length = 291 Score = 127 bits (320), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 87/271 (32%), Positives = 149/271 (54%), Gaps = 14/271 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L K EE +L R GD A ++ S+LRLVV IA YRG G+ +S++ Sbjct: 19 YLREIALKPLLTKHEE-ILYSRKSLTGDKEAKKVMIESNLRLVVSIAKKYRGSGMQLSDL 77 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL+ +V+KFDPERGFR +TY+ WWIK ++ I +++ +++ Sbjct: 78 IDEGNIGLITSVEKFDPERGFRFSTYATWWIKQTIERCIHNQARTIRLPVHVSKEINTI- 136 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++ H Q + NN +P + +A+KL S ++ S+ A S + IN D NS Sbjct: 137 ---IRTHKQLMKKNNQEPTR-EEVAEKLERSVDDISSVLAYDAPIVSFDQTIN-DDANSQ 191 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 ++ D + + ++K++ K + + LN R+R I RR L TL Sbjct: 192 SISVFIADDSSDKPESQVDKDDIK---GLALAMLENLNQRDREIL-CRRFGLLGYEVQTL 247 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + +++E ++RER+RQ++ + KK++ ++++ Sbjct: 248 QQVANEVGLTRERIRQLQVSSLKKLKNTLER 278 >gi|325971114|ref|YP_004247305.1| RNA polymerase, sigma 70 family subunit [Spirochaeta sp. Buddy] gi|324026352|gb|ADY13111.1| putative RNA polymerase, sigma 70 family subunit [Spirochaeta sp. Buddy] Length = 293 Score = 127 bits (320), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 163/277 (58%), Gaps = 13/277 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EI +IP+L QEE VLAKR ++ GD A R++ S+LR VV +A Y+ G+P+ Sbjct: 23 LSMYLKEINQIPLLTPQEELVLAKRAQK-GDEFARKRMIESNLRFVVNVAKKYQNQGMPL 81 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGNIGLM A++KFDP++G+ +Y++WWI+ ++ + I V++ + L Sbjct: 82 VDLINEGNIGLMTALEKFDPDKGYHFISYAVWWIRQSIMKAINEKSRAVRLPLNRTNELL 141 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + + ++ ++ ++ E++ + S ++S++ L SL+A + +D Sbjct: 142 QMH-KAQRSLMKDLSTDDPSMEEIGTLTGFDPKHVSNLLSISRDLI---SLDAPV-FTDG 196 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPV 253 ++S D++ + EQ L++ +++ R++L + L+ +ER I E R E P+ Sbjct: 197 SASNIGDFIEDESQNPEQSLLDASLKEDVRSLL----ATLSDKERDIIELRFGLEGKTPM 252 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE-SIQKQVE 289 +L+ + + +++ER+RQIE +A ++++ S K VE Sbjct: 253 SLKEIGELYNLTKERIRQIEKKALERLRNPSKSKMVE 289 >gi|237809473|ref|YP_002893913.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tolumonas auensis DSM 9187] gi|237501734|gb|ACQ94327.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tolumonas auensis DSM 9187] Length = 324 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 91/281 (32%), Positives = 146/281 (51%), Gaps = 34/281 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +E Y + R GD +A +R++ S+LRLVVKIA Y GL + ++ Sbjct: 55 YLGEIGFSPLLTAEEVYFARRALR--GDDAARNRMIESNLRLVVKIARRYNNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 113 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTVERAIMNQTRTIRLPIHV-VKELNVY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---------GDESLNAL 189 LR + Q + D+ E + ++ K S ++ +N R+ GD+SL + Sbjct: 172 LRTARELAQRL-DHEPTAEDIASLLDKPVEEVSRMLKLNERICSVDTPIAGDGDKSLIDI 230 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 + N + Q D D Q ++I E+ LNP++R + ARR Sbjct: 231 LTDDRINCPEDQ---TQDDDMQHSIVIWLEQ--------------LNPKQREVL-ARRFG 272 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + +Q Sbjct: 273 LLGYEPATLEEVGEEIGLTRERVRQIQVEGLRRMKEMLTQQ 313 >gi|91792562|ref|YP_562213.1| RNA polymerase sigma factor RpoS [Shewanella denitrificans OS217] gi|91714564|gb|ABE54490.1| RNA polymerase sigma factor RpoS [Shewanella denitrificans OS217] Length = 327 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 95/282 (33%), Positives = 148/282 (52%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 58 YLGEIGFSPLLSAEEE-VFFSRKALKGCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 117 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA KL+VS S+V S++ L GD A Sbjct: 176 LRTARQLAQKL-DHEPTAEE---IAAKLDVSTSDVSRMLKLNEKITSVDTPLGGDNE-KA 230 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + S D+ V D D N + ++ LN ++R + ARR Sbjct: 231 LLDVIADDDSVGPDYQVQDED--------------LSNSIVGWLNELNTKQREVL-ARRF 275 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ +E ++RERVRQI+ A K++++ + Q Sbjct: 276 GLLGYEPSTLENVGAEIGLTRERVRQIQVEALKRLKDLLSSQ 317 >gi|255282119|ref|ZP_05346674.1| RNA polymerase sigma factor RpoD [Bryantella formatexigens DSM 14469] gi|255267438|gb|EET60643.1| RNA polymerase sigma factor RpoD [Bryantella formatexigens DSM 14469] Length = 374 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 97/284 (34%), Positives = 151/284 (53%), Gaps = 33/284 (11%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E + Y+ EI +P+L +EE LAKR E GD A RL+ ++LRLVV IA Y Sbjct: 99 VSTEDPVRMYLKEIGNVPLLTTEEEVELAKRV-EAGDEEAKKRLIEANLRLVVSIAKKYV 157 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT- 128 G G+P +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I + +++ Sbjct: 158 GRGMPFLDLIQEGNMGLMKAVDKFDYAKGFKFSTYATWWIRQAITRGIADTGRTIRVPVH 217 Query: 129 ---TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE- 184 T N+ LR + LQ + PE+V A++LNV S V + +++ D Sbjct: 218 MVETINK-----TLRMTRTLLQELG-REPTPEEV---AERLNVPVSRVREV-LKISRDPV 267 Query: 185 SLNALINSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 SL+ I D S D++ D D ++ +E L ++ L RE Sbjct: 268 SLDTPIGEED--DSHLGDFIEDDSALSPSDSAAFSMLREE--------LGTALESLTDRE 317 Query: 240 RRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++ + R + TLE + EF V+RER+RQIEA+A +K++ Sbjct: 318 RQVVQLRFGLIDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 361 >gi|164688099|ref|ZP_02212127.1| hypothetical protein CLOBAR_01744 [Clostridium bartlettii DSM 16795] gi|164602512|gb|EDQ95977.1| hypothetical protein CLOBAR_01744 [Clostridium bartlettii DSM 16795] Length = 385 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 94/266 (35%), Positives = 147/266 (55%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ EE AKR E GD A RLV ++LRLVV IA Y G G+ ++ Sbjct: 119 YLKEIGKIPLLKPHEEIEYAKRMLE-GDEIAKQRLVEANLRLVVSIAKRYVGRGMLFLDL 177 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ERGF+ +TY+ WWI+ A+ I ++I + Sbjct: 178 IQEGNLGLIKAVEKFDYERGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 235 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L + KPE+ IAK++++SE +V + ++A D SL I ++ Sbjct: 236 LIRVSRQLLQELGRDPKPEE---IAKEMDMSEEKVREI-MKIAQDPVSLETPI--GEEED 289 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D E ++ + + LN RE+++ + R E+ TL Sbjct: 290 SHLGDFI---PDEDALAPAEAAAYSLLKDQIEEVLGSLNEREQKVLKLRFGLEDGRARTL 346 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 347 EEVGKEFDVTRERIRQIEAKALRKLR 372 >gi|225388598|ref|ZP_03758322.1| hypothetical protein CLOSTASPAR_02334 [Clostridium asparagiforme DSM 15981] gi|225045346|gb|EEG55592.1| hypothetical protein CLOSTASPAR_02334 [Clostridium asparagiforme DSM 15981] Length = 405 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 90/276 (32%), Positives = 149/276 (53%), Gaps = 23/276 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI I +L +EE LAKR E GD A RLV ++LRLVV IA Y G G+ ++ Sbjct: 139 YLKEIGAIALLTPEEEAGLAKRCAE-GDEEAGKRLVEANLRLVVSIAKRYTGRGMSFLDL 197 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGNIGLM+AV+KFD E+G+RL+TY+ WW+K A+ + +++ + Sbjct: 198 VQEGNIGLMKAVEKFDYEKGYRLSTYATWWVKQAITRALADQARTIRL--PVHMVEAVNK 255 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +RR + L + + +A+ + ++E V + + +GD +++ D++ S Sbjct: 256 IRRTQRDLSVQLGRDPSNRE---LAEAVGMTEKRVEEL-IQTSGD-TVSLETPVGDEDGS 310 Query: 199 QWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D++ + D E VL+ +E + + LN RER++ + R EN Sbjct: 311 SLGDFVADNAGDSTEDQAENVLLREE--------IDSMLQGLNERERQVIKLRFGLENGR 362 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P+TLE + +F V+RER+RQIE A +K++ ++ + Sbjct: 363 PLTLEEVGRQFNVTRERIRQIETAALRKLRNPVRSK 398 >gi|109900163|ref|YP_663418.1| RNA polymerase, sigma 28 subunit [Pseudoalteromonas atlantica T6c] gi|109702444|gb|ABG42364.1| RNA polymerase, sigma 38 subunit, RpoS [Pseudoalteromonas atlantica T6c] Length = 327 Score = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 88/269 (32%), Positives = 151/269 (56%), Gaps = 19/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE ++R + GD ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 56 YLGEIGFSPLLSAEEEVYFSRRALK-GDEASRQRMIVSNLRLVVKIARRYNNRGLALLDL 114 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 115 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E++ +K ++++ +N R+ S++ I S +N + Sbjct: 174 LRTSRELAQKL-DHEPTAEEIAEAVQKPVADVTKMLRLNERIT---SVDTPIGS--ENDN 227 Query: 199 QWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPV 253 D + D HD +E + + KN + + + LNP++R + ARR L P Sbjct: 228 VLLDIIADDNGHDPEEDL-----QDKNVKLSIVGWLEDLNPKQREVL-ARRFGLLGYEPS 281 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ E ++RERVRQI+ A +++++ Sbjct: 282 TLEDVGVEIGLTRERVRQIQVEALRRLKD 310 >gi|108804071|ref|YP_644008.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765314|gb|ABG04196.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 294 Score = 126 bits (317), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 144/265 (54%), Gaps = 16/265 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L++Y+ I + +L QEE L++R ++ GD A +L+ +LRLVV +A YRGYGLP Sbjct: 24 LAKYLAHIGQGELLTHQEEIELSRRAKK-GDRKARQKLIEKNLRLVVSVAKKYRGYGLPF 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AV+KFDPERGFR +TY+ WWI+ A+Q + +++ +K Sbjct: 83 EDLIQEGNIGLMKAVEKFDPERGFRFSTYATWWIRQAVQRAVADKGRTIRVPVHMTEK-- 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 +R++ ++ + IA++L +V + SL+ + SS++ Sbjct: 141 ---IRKVSRTFNELSLELEREPTDEEIARRLEWDVEDVRLTISAMPDATSLDQPV-SSEE 196 Query: 196 NSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 ++S+ D++ + D + VL E E + L ++ L R R + R ++ Sbjct: 197 SASELGDFIEDERTSDTPDTVLKELES-----SQLKEAIERLPERARYVLVRRYGLDDRE 251 Query: 252 PVTLENLSSEFEVSRERVRQIEARA 276 P TL L E ++SRERVRQ++ A Sbjct: 252 PATLAELGDELKISRERVRQLQREA 276 >gi|281357500|ref|ZP_06243988.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Victivallis vadensis ATCC BAA-548] gi|281316103|gb|EFB00129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Victivallis vadensis ATCC BAA-548] Length = 432 Score = 126 bits (316), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 92/272 (33%), Positives = 149/272 (54%), Gaps = 21/272 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-----LVTSHLRLVVKIAMGYRGYGL 73 Y+ EI +IP++ K+EE LA HGD H L+ ++LRLVVKIA ++G GL Sbjct: 163 YMGEIARIPLVNKKEEAELADAI--HGDNEDRHEDARSTLIKANLRLVVKIAHDFKGLGL 220 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P+ +++SEGNIGLM+AV+KFDP +G + ++Y+ WWIK +M+ + ++I + K Sbjct: 221 PLLDLISEGNIGLMRAVEKFDPAKGAKFSSYAAWWIKQSMRRALANQSRTIRIPVQSAGK 280 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + ++K + + + IA+ L+ SE V + SL+ I Sbjct: 281 -----INKIKSVRMKLAEELGREPSDAEIAEHLDFSERTVAGLRLADLRTFSLHDPIQQG 335 Query: 194 DKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN 251 ++ ++QD + H +Q+L + E ++L + L RERRI E R L+ N Sbjct: 336 EEG--EFQDIIPDRHAMTPDQILGDVESVFRLMDLLEK----LEERERRILEMRFGLRGN 389 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 P+TLE +S E +RERVRQI+ +A K+++ Sbjct: 390 RPLTLEEVSQEIGRTRERVRQIQNQALAKLKQ 421 >gi|212634213|ref|YP_002310738.1| RNA polymerase sigma-38 factor [Shewanella piezotolerans WP3] gi|212555697|gb|ACJ28151.1| RNA polymerase sigma-38 factor [Shewanella piezotolerans WP3] Length = 322 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 94/281 (33%), Positives = 150/281 (53%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 53 YLGEIGFSPLLSAEEE-VFFSRKSLKGCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLA------GDESLNAL 189 LR + L D+ E+ IA+KL++S S+V + +N R+ G ES AL Sbjct: 171 LRTAR-ELAHKLDHEPTAEE---IAEKLDLSSSDVSRMLKLNERITSVDTPLGGESDKAL 226 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 ++ + + D+ V D D + V+ + + LN ++R + ARR Sbjct: 227 LDVLADDDNVGPDYKVQDEDMSKSVV--------------KWLDELNTKQREVL-ARRFG 271 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 272 LLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLKDLLGAQ 312 >gi|256425191|ref|YP_003125844.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] gi|256040099|gb|ACU63643.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] Length = 285 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 84/276 (30%), Positives = 149/276 (53%), Gaps = 25/276 (9%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + +Y+ EI KIP+L +EE VLA+R + GD A RL T +LR VV +A Y+ GL Sbjct: 17 AVEKYLQEISKIPLLTPEEETVLAQRIK-MGDQKALERLTTGNLRFVVSVAKQYQHQGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV-----KIGTT 129 +S++++EGN+GL++A ++FD +GF+ +Y++WWI+ ++ + + LV KIGT Sbjct: 76 LSDLINEGNLGLIKAAQRFDETKGFKFISYAVWWIRQSILQALAEQGRLVRLPQNKIGTY 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + + A N + +A+ L +SESE+ ++ SL+A Sbjct: 136 NKANKAYM----------AFEQENEREPSTEELAEILEMSESEINNIFQSNTRHMSLDAP 185 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA--RR 247 ++ ++ + D L + V+ R + R + R + L+PRE I A Sbjct: 186 VHEAEDVA--MGDLLEGGDITDDDVM-----RDSLREEIRRVLKSLSPREAEIVNAYFGL 238 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 EN T+E + ++++++ER+RQI+ RA K++Q++ Sbjct: 239 DGENGATIEQIGQKYDLTKERIRQIKERAIKRLQKA 274 >gi|332308186|ref|YP_004436037.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Glaciecola agarilytica 4H-3-7+YE-5] gi|332175515|gb|AEE24769.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Glaciecola agarilytica 4H-3-7+YE-5] Length = 327 Score = 125 bits (315), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 150/269 (55%), Gaps = 19/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE ++R + GD ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 56 YLGEIGFSPLLSAEEEVYFSRRALK-GDEASRQRMIVSNLRLVVKIARRYNNRGLALLDL 114 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 115 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E++ ++ ++++ +N R+ S++ I S + N Sbjct: 174 LRTSRELAQKL-DHEPTAEEIAEAVQRPVADVTKMLRLNERIT---SVDTPIGSDNDNV- 228 Query: 199 QWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPV 253 D + D HD +E + + KN + + + LNP++R + ARR L P Sbjct: 229 -LLDIIADDNGHDPEEDL-----QDKNVKLSIVGWLEDLNPKQREVL-ARRFGLLGYEPS 281 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ E ++RERVRQI+ A +++++ Sbjct: 282 TLEDVGVEIGLTRERVRQIQVEALRRLKD 310 >gi|149911320|ref|ZP_01899941.1| DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] gi|149805635|gb|EDM65637.1| DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] Length = 294 Score = 125 bits (314), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 145/273 (53%), Gaps = 12/273 (4%) Query: 15 GLSRYIHEIRKIP-MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 L Y E+++ +L KQEEY A +GD +A ++ S+LRLV+ +A Y+ Y L Sbjct: 8 ALDVYFDELQRFSQLLSKQEEYDTAVA-AANGDKAARDTMIQSNLRLVLMVAKKYQNYSL 66 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +E++ EGN GLM AV KFDPERG R +TY++WWI+ +++YI+ ++I Sbjct: 67 DWAEIIQEGNTGLMHAVDKFDPERGCRFSTYAVWWIRNNIEQYIMNHSRTIRIPIHVT-- 124 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R++ + + L D N E + IA++L +S +V+++ + SL+ I+S Sbjct: 125 RVYKQILKASSELGLDVDTN---EGITKIAQELKISPRKVLNILGHYFNEGSLDKEIHSG 181 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQEN 251 D + +D + + D Q + EK + + L + V R + I R ++ Sbjct: 182 DNLLATLKDLVAAEVDCQPDIRYEKCDYYEYMDALLEYLPV---RSQNIIRLRFGFKGQD 238 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P++L+ ++ ++SRERVRQI +V+E + Sbjct: 239 PMSLQAIAQLMDISRERVRQIIRNGLSQVREQL 271 >gi|210620870|ref|ZP_03292287.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275] gi|210155082|gb|EEA86088.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275] Length = 388 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 92/266 (34%), Positives = 146/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ EE AKR E GD A RLV ++LRLVV IA Y G G+ ++ Sbjct: 122 YLKEIGKIPLLKPHEEVEYAKRMHE-GDELAKQRLVEANLRLVVSIAKRYVGRGMLFLDL 180 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 181 IQEGNLGLIKAVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 238 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L + KPE+ IAK++++S +V + ++A D SL I ++ Sbjct: 239 LMRVSRQLLQELGRDAKPEE---IAKEMDLSVEKVREI-MKIAQDPVSLETPI--GEEED 292 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D + K + + + LN RE+++ + R E+ TL Sbjct: 293 SHLGDFIPDDDAPAPDISAAYSLLKEQ---IDEVLGSLNEREQKVLKLRFGLEDGRARTL 349 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 350 EEVGKEFDVTRERIRQIEAKALRKLR 375 >gi|160947542|ref|ZP_02094709.1| hypothetical protein PEPMIC_01477 [Parvimonas micra ATCC 33270] gi|158446676|gb|EDP23671.1| hypothetical protein PEPMIC_01477 [Parvimonas micra ATCC 33270] Length = 382 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 89/270 (32%), Positives = 141/270 (52%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE +LA+ E GD+ A +L ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGKIPLLSADEERILAENM-EAGDIEAKKKLAETNLRLVVSIAKRYVGRGMQFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 + EGN+GLM+AV+KFD RGF+ +TY+ WWI+ A+ I ++I +L Sbjct: 175 IQEGNMGLMKAVEKFDFRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINKLV 234 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 R+L L N E + K+N R E ++ +++ Sbjct: 235 RIERQLVQELGREPTNEEISEHMGIEVDKVN---------EIRKIAQEPVSLETPIGEED 285 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKN---RRNMLTRSMSVLNPRERRIFEAR-RLQE-N 251 S D++ +++ I +E N + L + +S L+ RE+++ E R L + Sbjct: 286 DSHLGDFI------EDETAIAPDEAANFSMLKEQLNQVLSTLSDREKKVLELRFGLNDGT 339 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + EFEV+RER+RQIEA+A +K++ Sbjct: 340 PRTLEEVGKEFEVTRERIRQIEAKALRKLK 369 >gi|149911458|ref|ZP_01900075.1| sigma S (sigma 38) factor of RNA polymerase, major sigmafactorduring stationary phase [Moritella sp. PE36] gi|149805489|gb|EDM65496.1| sigma S (sigma 38) factor of RNA polymerase, major sigmafactorduring stationary phase [Moritella sp. PE36] Length = 319 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 50 YLGEIGFSPLLTAEEEVFYARRAL-RGDASSRKRMIESNLRLVVKIARRYNNRGLALLDL 108 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 109 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYL 168 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I D KP V ++K L ++E + S++ + GD L Sbjct: 169 RAARELAHELDHEPTAEDIADKLDKP--VADVSKMLRLNE-RISSVDTPIGGDSEKALLD 225 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD+ DG E + + + + + R + LNP++R + ARR Sbjct: 226 IISDEKG-----------DGPES----RTQNDDIKFSIIRWLEELNPKQREVL-ARRFGL 269 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L + TLE++ E ++RERVRQI+ A ++++E + +Q Sbjct: 270 LGYDASTLEDVGREIGLTRERVRQIQVEALRRLREVLAQQ 309 >gi|225011103|ref|ZP_03701566.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-3C] gi|225004737|gb|EEG42696.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-3C] Length = 287 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 93/287 (32%), Positives = 152/287 (52%), Gaps = 47/287 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I KI ++ QEE LA+R + GD A RL T++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKIDLINAQEEVELAQRIKA-GDAVALERLTTANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ A+ Q I+R L KIG+ Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQAILQALAEQARIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + F +L+ PE+ IAK+L ++ S+V +SM+ Sbjct: 136 NKINKAF-------SYLEQAHQRPPSPEE---IAKELEMTVSDVKQSLKNSGRHVSMDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 L E NSS + D L Y D +Q LI+ + +TR++ L+PR Sbjct: 186 LIDGE-----------NSSLY-DVLDYGDSPRPDQALIQ----SSLHTEITRALDTLSPR 229 Query: 239 ERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E + + ++ P+TL + F+++RERVRQI +A +K++ S Sbjct: 230 EADVIKLFYGIGEQPPMTLAEIGLTFDLTRERVRQIREKAIRKLRHS 276 >gi|89901551|ref|YP_524022.1| sigma-70 region 2 [Rhodoferax ferrireducens T118] gi|89346288|gb|ABD70491.1| sigma-70 region 2 [Rhodoferax ferrireducens T118] Length = 350 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 87/283 (30%), Positives = 152/283 (53%), Gaps = 26/283 (9%) Query: 12 GEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 GE G L+ Y+ ++R+ + QEE+ LA R R GD +A ++ +LRLVV IA Y Sbjct: 67 GESGDALTVYLRQVRRTTLFTPQEEFELAGRARA-GDFAARQSMIEHNLRLVVSIAKAYM 125 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+P+ +++ EGN+GLM A+ KF+PERGFR +TY+ WWI+ ++ ++ +V++ Sbjct: 126 GRGVPLLDLIEEGNLGLMHAIDKFEPERGFRFSTYATWWIRQSVDRALMCQGRVVRL--P 183 Query: 130 ANQKRLFFNLRRLKGHLQAIT------DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 N R + R + L++ + ++ E V A+ + V ++++ + Sbjct: 184 VNVVRELQQVLRARRALESDAAFVVSRPDGIRVEDVAALLGRDPVHVADLLGLA---EAP 240 Query: 184 ESLNALINSSDKNSS---QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 SL+A ++ S + + D + D G QV + ER +L + L+ RE+ Sbjct: 241 RSLDAALDRSGETQTFGDSLVDEITADPSGVTQV--HEVER-----LLEEWVGTLSEREK 293 Query: 241 RIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + E R L + P TL+ LS+ +++RERVRQ++ A K++ Sbjct: 294 EVLEGRFGLHDREPETLDVLSARLDLTRERVRQVQNEALAKLK 336 >gi|182415180|ref|YP_001820246.1| RpoD family RNA polymerase sigma factor [Opitutus terrae PB90-1] gi|177842394|gb|ACB76646.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutus terrae PB90-1] Length = 353 Score = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 85/280 (30%), Positives = 152/280 (54%), Gaps = 12/280 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI K +L EE LAKR R+ GD +A ++ ++LRLVVKIAM Y+ +GLP+ Sbjct: 51 LQLYLQEIGKTALLTIDEEISLAKRIRK-GDKAARDHMIKANLRLVVKIAMDYKDFGLPL 109 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGNIGL++AV++FDP +G +L+TY+ WWIK +++ + +++ L Sbjct: 110 LDLISEGNIGLIKAVERFDPRKGGKLSTYAAWWIKQSIKRALANQSKTIRLPV-----HL 164 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + +++ A+T+ + +A +L + S+V + SL+A + Sbjct: 165 VDKISKMRRTAMALTEELGREPTDEELAIELQIPTSKVAHLKSVSVRPASLDAPVGEEGD 224 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPV 253 +++ + +V D + E KN + L ++ L+ RE I R + + + Sbjct: 225 SATFGE--IVGDDNAVSP--FEGLREKNLNSDLHAMVASLDEREAEIIRLRFGLDGKDEL 280 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 TLE + F V+RER+RQ+E A K+++++ K + +S Sbjct: 281 TLEEVGRRFHVTRERIRQLEYLALSKMRKAMAKHEAIRTS 320 >gi|218961053|ref|YP_001740828.1| putative RNA polymerase, sigma S (sigma 38) factor [Candidatus Cloacamonas acidaminovorans] gi|167729710|emb|CAO80622.1| putative RNA polymerase, sigma S (sigma 38) factor [Candidatus Cloacamonas acidaminovorans] Length = 292 Score = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 84/282 (29%), Positives = 154/282 (54%), Gaps = 18/282 (6%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V + L Y++EI K L ++EE+ LA + + +GD+ A ++L+ ++L+ VVKIA Y+ Sbjct: 7 VFADKALQNYLNEISKFKTLSREEEHDLAIKAK-NGDMDAMNKLIQANLKFVVKIASRYQ 65 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI--G 127 GL +SE++SEGNIGL++A++KFDP++ +L +Y++WWIK + + SL+++ G Sbjct: 66 NRGLSLSELISEGNIGLIKAIEKFDPDKDIKLISYAIWWIKQRIMLAVSEKSSLIRVPMG 125 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 ++ R+ R I P++ +++K+N++E + + +L S + Sbjct: 126 KSSAAHRVKLTQDRYFTETGKIA----TPDE---LSEKMNIAEKTIEQLQNKLPETSSFD 178 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE----RRIF 243 +I +SD +D L+ D D + + +ER + + ++S L+ RE R F Sbjct: 179 DIITTSDSQDFTAKD-LLEDKDTLDPQSLYYQERMQEK--IQNAISKLDAREAEIIRNYF 235 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 E+ ++ + +SRERVRQI+ A KK+ I+ Sbjct: 236 GLNESHESR-NFAQIAEKLGLSRERVRQIQKEALKKIMREIK 276 >gi|304439790|ref|ZP_07399688.1| DNA-directed RNA polymerase sigma subunit RpoD [Peptoniphilus duerdenii ATCC BAA-1640] gi|304371777|gb|EFM25385.1| DNA-directed RNA polymerase sigma subunit RpoD [Peptoniphilus duerdenii ATCC BAA-1640] Length = 370 Score = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 93/276 (33%), Positives = 138/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE V+AKR E GD AA L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKIPLLTADEEVVIAKRM-EKGDREAARELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNLGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LN 187 Q++L +L R + + N+ E+V I K E +S+ + +E L Sbjct: 223 RIQRQLVQDLGRDPSPEEIAEEMNIDVERVREIQK----IAQEPVSLETPIGEEEDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S Q D L+ R L + L RE+++ R Sbjct: 279 DFIPDEEIQSPQ---------DAATFTLL--------REQLGDVLDTLTDREKKVLTLRF 321 Query: 248 LQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 322 GLEDGRNRTLEEVGKEFDVTRERIRQIEAKALRKLR 357 >gi|323144152|ref|ZP_08078788.1| RNA polymerase sigma factor [Succinatimonas hippei YIT 12066] gi|322416060|gb|EFY06758.1| RNA polymerase sigma factor [Succinatimonas hippei YIT 12066] Length = 311 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 87/264 (32%), Positives = 147/264 (55%), Gaps = 17/264 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI +R+ P+L +++E L R + GD+ A + ++TS+LRLV+K+A YR G+P+ Sbjct: 43 LVSYISSVRRYPLLSQEDEVRLG-RLVQQGDVKARNSMITSNLRLVIKVARDYRTRGVPM 101 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI--GTTANQK 133 +++ EGN+GL+ AV KFDPERGFR +TY+ WWI+ ++ ++ LV++ + Sbjct: 102 LDLIEEGNLGLIHAVNKFDPERGFRFSTYATWWIRQGIEHAVMNQSRLVRLPFHVIKDLN 161 Query: 134 RLFFNLRRL--KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 ++ ++L K H QA+ V IAK+L++ E +V SM +A S++ L N Sbjct: 162 QVLKVKKKLQEKAHGQAVA--------VKDIAKELDIDEDKVRSM-LVVAEGISISDL-N 211 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE 250 +K+S + L D + L E+ +L + LN R++ I R + + Sbjct: 212 VKNKDSEKNVSLLDLLADEKTPTLEEQFGNTEIEKLLRSWIDSLNERQKIIVIHRFGIND 271 Query: 251 NPV-TLENLSSEFEVSRERVRQIE 273 N + TLE + ++RERVRQ++ Sbjct: 272 NDIKTLEEIGEMLHLTRERVRQLQ 295 >gi|160941150|ref|ZP_02088487.1| hypothetical protein CLOBOL_06043 [Clostridium bolteae ATCC BAA-613] gi|158435711|gb|EDP13478.1| hypothetical protein CLOBOL_06043 [Clostridium bolteae ATCC BAA-613] Length = 406 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 87/265 (32%), Positives = 143/265 (53%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI I +L +EE LA+R E GD+ A +LV ++LRLVV IA Y G G+ ++ Sbjct: 140 YLKEIGSIALLTPEEESDLARRKSE-GDVEAGRKLVEANLRLVVSIAKRYTGRGMSFLDL 198 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM+AV+KFD +G+RL+TY+ WW+K ++ + +++ + Sbjct: 199 VQEGNLGLMKAVEKFDYAKGYRLSTYATWWVKQSITRSLADQSRTIRL--PVHMVEAVNK 256 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +RR + L E+V A+++N+S V + + +GD +++ D+ S Sbjct: 257 IRRAQRSLSVKLGREPSMEEV---AEEVNMSGKRVAEL-IQASGD-TVSLETPVGDEEGS 311 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLE 256 D++ D + + +K E R + + LNPRER + R E +P+TLE Sbjct: 312 NLGDFVADDANASTE---DKAESFLLREEIDSMLQGLNPREREVIILRFGLETGHPLTLE 368 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIE A +K++ Sbjct: 369 EVGKRFNVTRERIRQIETAALRKLR 393 >gi|261345855|ref|ZP_05973499.1| RNA polymerase sigma factor RpoS [Providencia rustigianii DSM 4541] gi|282566345|gb|EFB71880.1| RNA polymerase sigma factor RpoS [Providencia rustigianii DSM 4541] Length = 328 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 86/280 (30%), Positives = 152/280 (54%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 59 YLSEIGFSPLLTAEEEVFYARRAL-RGDIASRQRMIESNLRLVVKISRRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNIY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ PE++ +++ L ++E + S++ +AGD + L Sbjct: 177 LRTARELAQKL-DHEPSPEEIAEQLDKPVEDVSRMLRLNER-ITSVDTPIAGDSEKSLLE 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD N S G E + + + ++N + + + LNP++R + ARR Sbjct: 235 VLSDDNDS-----------GPENTIQDNDLKEN----IVKWLYELNPKQREVL-ARRFGL 278 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE + E ++RERVRQI+ +++++ +Q + Sbjct: 279 LGYEAETLEEVGREIGLTRERVRQIQVEGLRRLKDILQGE 318 >gi|227872476|ref|ZP_03990816.1| DNA-directed RNA polymerase sigma subunit SigA [Oribacterium sinus F0268] gi|227841677|gb|EEJ51967.1| DNA-directed RNA polymerase sigma subunit SigA [Oribacterium sinus F0268] Length = 385 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 88/283 (31%), Positives = 146/283 (51%), Gaps = 43/283 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EEY LA + +E GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 119 YLKEIGTVPLLTAEEEYALAMKKQE-GDEYAKQRLIEANLRLVVSIAKRYTGRGMSFLDL 177 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFDPE+GF+L+TY+ WWI+ ++ + +++ T N Sbjct: 178 VQEGNLGLIKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 237 Query: 132 --QKRLFFNL------RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 Q++L L + L HL + K ++++ IA++ E+ + + GD Sbjct: 238 KMQRKLTLELGYEPSVKELAEHLDMTEE---KVQEIMQIAREPASLETPIGEEDDSNLGD 294 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + + S + N E V++ R + + L RER++ Sbjct: 295 FVADTNVLSPEGNV--------------ESVML--------REHIDTLLGDLKERERQVI 332 Query: 244 EARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R E+ P TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 333 VLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPV 375 >gi|291458966|ref|ZP_06598356.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] gi|291418220|gb|EFE91939.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] Length = 388 Score = 124 bits (310), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 88/286 (30%), Positives = 149/286 (52%), Gaps = 43/286 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + +L +EEY LA R ++ GD +A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 122 YLKEIGTVSLLSAEEEYALAIR-KQQGDEAAKQRLIEANLRLVVSIAKRYTGRGMSFLDL 180 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFDPE+GF+L+TY+ WWI+ ++ + +++ T N Sbjct: 181 VQEGNLGLIKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 240 Query: 132 --QKRLFFNL------RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 Q++L L + L HL D K ++++ IA++ E+ + + GD Sbjct: 241 KMQRKLTLELGYEPSVKELAEHLDMSED---KVQEIMQIAREPASLETPIGEEDDSNLGD 297 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +A + + + N E V++ R + + L RER++ Sbjct: 298 FVADANVLTPESNV--------------EAVML--------REHIDSLLGDLKERERQVI 335 Query: 244 EARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 336 VLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 381 >gi|149200267|ref|ZP_01877288.1| RNA polymerase sigma-A factor [Lentisphaera araneosa HTCC2155] gi|149136631|gb|EDM25063.1| RNA polymerase sigma-A factor [Lentisphaera araneosa HTCC2155] Length = 274 Score = 124 bits (310), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 88/271 (32%), Positives = 143/271 (52%), Gaps = 13/271 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+H I ++ K+EE LA + D A +L+ S+LRLVVKIA ++G GLP+S++ Sbjct: 11 YMHNISDYSLVTKEEEVDLAADIKLGSD-KAREKLIVSNLRLVVKIAHDFKGLGLPLSDL 69 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +SEGNIGLM+AV+KFDP +G + ++Y+ WWIK +M+ + ++I + K Sbjct: 70 ISEGNIGLMRAVEKFDPAKGAKFSSYAAWWIKQSMRRGLANQSRTIRIPVQSAGK----- 124 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + +++ + + ++ IA L S+ V ++ SL A + D Sbjct: 125 INKIRNARIELKEKLMREPTDQEIATYLEFSKRTVSGLSTVGGSTISLQAKLQ--DGEDG 182 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLE 256 + QD +V D Q I E N + + + L RE+ + E R L P TLE Sbjct: 183 EIQD-IVADKASQTASDIIGEAESI--NSMMKFIVYLTDREKLVLELRFGLLSGRPKTLE 239 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +S +RERVRQI+ +A KK++E +Q++ Sbjct: 240 EVSQAIGRTRERVRQIQNQALKKLRERMQRE 270 >gi|325103187|ref|YP_004272841.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pedobacter saltans DSM 12145] gi|324972035|gb|ADY51019.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pedobacter saltans DSM 12145] Length = 286 Score = 124 bits (310), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 81/275 (29%), Positives = 155/275 (56%), Gaps = 14/275 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+HEI K+ ++ +EE +LA++ RE GD +A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLHEIGKVDLITAEEEVILAQKIRE-GDQAALERLTKTNLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD +GF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 GDLINEGNLGLIKAAKRFDETKGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + L+ + PE++ I + S+ +S + R S++A ++ Sbjct: 135 LSKISKAFSKLEQEYEREPSPEELADILETTVDKISDTLSNSGRHV---SMDAPFVQGEE 191 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN-PV 253 N+ D L D+ + +LI++ + + RS+S L RER I L N P+ Sbjct: 192 NT--LLDVLENDNPNTDSMLIDESLSEE----IKRSLSTLTEREREIIVLFFGLGSNHPL 245 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +LE + +F ++RERVRQI+ +A ++++ + + ++ Sbjct: 246 SLEEIGEKFNLTRERVRQIKDKALQRLRHTSRSKI 280 >gi|169838629|ref|ZP_02871817.1| RNA polymerase sigma factor RpoD [candidate division TM7 single-cell isolate TM7a] Length = 323 Score = 124 bits (310), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 91/270 (33%), Positives = 146/270 (54%), Gaps = 22/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LA R + GD A ++ +++RLVV IA Y G GL ++ Sbjct: 54 YLREIGKIPLLSAEEEMELAHRVVQ-GDKKAKDKMAEANMRLVVSIAKRYSGRGLDFLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN GL++AV+KFDP++GF+ +TY+ WWI+ A+ I +++I T N + Sbjct: 113 IQEGNTGLLRAVEKFDPDKGFKFSTYATWWIRQAITRAIADQARVIRIPVHMVETIN--K 170 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD-ESLNALIN-S 192 L RR+ L N +P + ++K+L++ E + I ++ D SL+A + Sbjct: 171 LLRTQRRMTQEL------NREP-TIEELSKELDM-EPDKIEYVMKIKQDIHSLDAGVGRD 222 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 D+ S D++ D E + + + +S L+ RE++I + R EN Sbjct: 223 GDEEDSVLGDFI---EDEDTATPEESASSQLLKEQVQGILSSLSDREQKIIKMRFGLENG 279 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + EF V+RER+RQIEA+A K+ Sbjct: 280 KSHTLEEVGQEFAVTRERIRQIEAKALAKL 309 >gi|170727680|ref|YP_001761706.1| RpoD family RNA polymerase sigma factor [Shewanella woodyi ATCC 51908] gi|169813027|gb|ACA87611.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella woodyi ATCC 51908] Length = 322 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 149/282 (52%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + D S +R++ S+LRLVVKIA Y GL + ++ Sbjct: 53 YLSEIGFSPLLSAEEEVYFSRKALKGCDKSR-NRMIESNLRLVVKIARRYNNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + L D+ E+ IA+KL++ ++V S++ L GD A Sbjct: 171 LRTAR-ELAHKLDHEPTAEE---IAEKLDLPSADVSRMLKLNERITSVDTPLGGDND-KA 225 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + + D+ V D D + V+ + + LN ++R + ARR Sbjct: 226 LLDVLADDDNVGPDYKVQDEDMSKSVV--------------KWLDELNTKQREVL-ARRF 270 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 271 GLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLKDLLSAQ 312 >gi|167469361|ref|ZP_02334065.1| RNA polymerase sigma factor RpoS [Yersinia pestis FV-1] Length = 277 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 88/277 (31%), Positives = 141/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 8 YLGEIGYSPLLSAEEEVYFARRAL-RGDVSSRRRMIESNLRLVVKIARRYSNRGLALLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 126 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 127 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 183 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 184 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 232 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 233 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 267 >gi|253583872|ref|ZP_04861070.1| RpoD family RNA polymerase sigma factor [Fusobacterium varium ATCC 27725] gi|251834444|gb|EES63007.1| RpoD family RNA polymerase sigma factor [Fusobacterium varium ATCC 27725] Length = 260 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 80/273 (29%), Positives = 146/273 (53%), Gaps = 16/273 (5%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + +S YI +I P+L +EE +A + R GD A +LVTS+LRLV+ IA Y G+ Sbjct: 2 LDISEYIKDISTYPLLTPKEEREIAVKAR-SGDREAQEKLVTSNLRLVISIARKYTNMGI 60 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 PI +++ EGN+GL++AV+K++P++ R +TYS +WIK ++ YI S L++ + Sbjct: 61 PILDLIQEGNMGLIRAVEKYEPDKNIRFSTYSTFWIKQSILRYITSSRGLIRFPSY---- 116 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 ++ + R+K ++Q + N + I + L++ + E L E N + N Sbjct: 117 -VYDGISRMKKYVQDYKNKNSHCPSIDEICRSLDMKKKEAERYIDVL---EKGNGIGNEM 172 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQEN 251 ++ ++YD +++V+ K+ L + ++ L PRER + R L E Sbjct: 173 YGEMVEYCSSIIYDDTFEDEVIA-----KSSNIDLMKKVNKLPPREREVLIYRYGLLDEK 227 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +TL + +++ER+RQI+ A +++E + Sbjct: 228 VLTLGEIGQRMNLTKERIRQIQLEAIDRLREKL 260 >gi|149191506|ref|ZP_01869755.1| RNA polymerase sigma factor [Vibrio shilonii AK1] gi|148834694|gb|EDL51682.1| RNA polymerase sigma factor [Vibrio shilonii AK1] Length = 125 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 57/110 (51%), Positives = 78/110 (70%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDGYIRSVNSYPMLTADEERELAERLHYDGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+W +VK Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVK 125 >gi|153001641|ref|YP_001367322.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS185] gi|160876377|ref|YP_001555693.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS195] gi|217972427|ref|YP_002357178.1| RNA polymerase sigma 70 subunit RpoD subfamily [Shewanella baltica OS223] gi|151366259|gb|ABS09259.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella baltica OS185] gi|160861899|gb|ABX50433.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella baltica OS195] gi|217497562|gb|ACK45755.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS223] gi|315268567|gb|ADT95420.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS678] Length = 326 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 151/282 (53%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLSAEEEVYFSRKALK-GCAKSRNRMIESNLRLVVKIARRYNNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA+KL VS ++V S++ L GD A Sbjct: 175 LRTARELAQKL-DHEPTAEE---IAEKLQVSSADVSRMLKLNEKITSVDTPLGGDND-KA 229 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + + D+ V D D N + + ++ LN ++R + ARR Sbjct: 230 LLDILADDDNVGPDYKVQDEDIS--------------NSVVKWLNELNTKQREVL-ARRF 274 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ +E ++RERVRQI+ A K++++ + Q Sbjct: 275 GLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLRDLLGSQ 316 >gi|167623164|ref|YP_001673458.1| RpoD family RNA polymerase sigma factor [Shewanella halifaxensis HAW-EB4] gi|167353186|gb|ABZ75799.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella halifaxensis HAW-EB4] Length = 321 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 91/281 (32%), Positives = 152/281 (54%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 52 YLGEIGFSPLLSAEEEVYFSRKSLK-GCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 110 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 111 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 169 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLA------GDESLNAL 189 LR + L D+ E+ IA++L++S S+V + +N R+ G ES AL Sbjct: 170 LRTAR-ELAHKLDHEPTAEE---IAEQLDLSSSDVSRMLKLNERITSVDTPLGGESDKAL 225 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 ++ + + D+ V D D + V+ + + LN ++R + ARR Sbjct: 226 LDVLADDDNVGPDYKVQDEDISKSVV--------------KWLDELNTKQREVL-ARRFG 270 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 271 LLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLKDLLGAQ 311 >gi|268591356|ref|ZP_06125577.1| RNA polymerase sigma factor RpoS [Providencia rettgeri DSM 1131] gi|291313333|gb|EFE53786.1| RNA polymerase sigma factor RpoS [Providencia rettgeri DSM 1131] Length = 328 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 149/275 (54%), Gaps = 31/275 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 59 YLSEIGFSPLLTAEEEVFYARRAL-RGDIASRQRMIESNLRLVVKISRRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNIY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ PE++ +++ L ++E + S++ +AGD + L Sbjct: 177 LRTARELAQKL-DHEPSPEEIAEQLDKPVEDVSRMLRLNER-ITSVDTPIAGDSEKSLLE 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD N S G E + + + ++N + + + LNP++R + ARR Sbjct: 235 VLSDDNDS-----------GPENTIQDNDLKEN----IVKWLYELNPKQREVL-ARRFGL 278 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L TLE + E ++RERVRQI+ K++++ Sbjct: 279 LGYEAETLEEVGREIGLTRERVRQIQVEGLKRLKD 313 >gi|261749591|ref|YP_003257277.1| RNA polymerase sigma factor rpoD [Blattabacterium sp. (Periplaneta americana) str. BPLAN] gi|261497684|gb|ACX84134.1| RNA polymerase sigma factor rpoD [Blattabacterium sp. (Periplaneta americana) str. BPLAN] Length = 287 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 90/278 (32%), Positives = 149/278 (53%), Gaps = 19/278 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+HEI KIP+L +EE A+R RE GD SA +LV ++LR VV +A Y+ GL + Sbjct: 18 LDKYLHEIGKIPLLTPEEEVEYARRARE-GDSSAIEKLVNANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT--ANQK 133 ++++EGN+GL++ + +FD RGF+ +Y +WWI+ A+ + I ++ T A Sbjct: 77 CDLINEGNLGLIKGILRFDETRGFKCISYVVWWIRQAILQAIAEQSRSIRQPTNKLALLN 136 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA-LINS 192 ++ L +L+ LQ + IA+ L+++E +V S++A LI Sbjct: 137 KILKTLAQLEQELQ-------RTPSAREIAEHLDMNEKDVEESIKNSGRHVSMDAPLIEG 189 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR--IFEARRLQE 250 D N D + D + E ER++ R + R + L+ RERR I Sbjct: 190 EDSN---LYDLVRSDESPRPD---EHLERESLRKDIKRILETLSERERRVIILHFGLNGS 243 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P+TLE + +++RERVRQIE+ A K+++ S + ++ Sbjct: 244 PPMTLEEVGQSCDLTRERVRQIESIALKRLKHSSRSKI 281 >gi|22124745|ref|NP_668168.1| RNA polymerase sigma factor RpoS [Yersinia pestis KIM 10] gi|45440189|ref|NP_991728.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Microtus str. 91001] gi|108808779|ref|YP_652695.1| RNA polymerase sigma factor RpoS [Yersinia pestis Antiqua] gi|108810903|ref|YP_646670.1| RNA polymerase sigma factor RpoS [Yersinia pestis Nepal516] gi|145600262|ref|YP_001164338.1| RNA polymerase sigma factor RpoS [Yersinia pestis Pestoides F] gi|153997601|ref|ZP_02022701.1| RNA polymerase sigma factor RpoS [Yersinia pestis CA88-4125] gi|162420853|ref|YP_001605522.1| RNA polymerase sigma factor RpoS [Yersinia pestis Angola] gi|165925871|ref|ZP_02221703.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. F1991016] gi|165936700|ref|ZP_02225267.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. IP275] gi|166010016|ref|ZP_02230914.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. E1979001] gi|166212931|ref|ZP_02238966.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. B42003004] gi|167398742|ref|ZP_02304266.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167421704|ref|ZP_02313457.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167423190|ref|ZP_02314943.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Mediaevalis str. K1973002] gi|218930373|ref|YP_002348248.1| RNA polymerase sigma factor RpoS [Yersinia pestis CO92] gi|229838982|ref|ZP_04459141.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229896462|ref|ZP_04511630.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Pestoides A] gi|229899549|ref|ZP_04514690.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229901116|ref|ZP_04516239.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Nepal516] gi|270489294|ref|ZP_06206368.1| RNA polymerase sigma factor RpoS [Yersinia pestis KIM D27] gi|294505063|ref|YP_003569125.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|21957564|gb|AAM84419.1|AE013686_2 RNA polymerase, sigma S (sigma38) factor [Yersinia pestis KIM 10] gi|45435045|gb|AAS60605.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Microtus str. 91001] gi|108774551|gb|ABG17070.1| RNA polymerase sigma factor RpoS [Yersinia pestis Nepal516] gi|108780692|gb|ABG14750.1| RNA polymerase sigma factor RpoS [Yersinia pestis Antiqua] gi|115348984|emb|CAL21944.1| RNA polymerase sigma factor RpoS [Yersinia pestis CO92] gi|145211958|gb|ABP41365.1| RNA polymerase sigma factor RpoS [Yersinia pestis Pestoides F] gi|149289238|gb|EDM39318.1| RNA polymerase sigma factor RpoS [Yersinia pestis CA88-4125] gi|162353668|gb|ABX87616.1| RNA polymerase sigma factor RpoS [Yersinia pestis Angola] gi|165915349|gb|EDR33959.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. IP275] gi|165922483|gb|EDR39660.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. F1991016] gi|165990923|gb|EDR43224.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. E1979001] gi|166205718|gb|EDR50198.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. B42003004] gi|166960623|gb|EDR56644.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167051246|gb|EDR62654.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167057360|gb|EDR67106.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Mediaevalis str. K1973002] gi|224483372|gb|ACN50513.1| RpoS [Yersinia pestis] gi|229681841|gb|EEO77934.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Nepal516] gi|229687041|gb|EEO79116.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229695348|gb|EEO85395.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229700536|gb|EEO88567.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Pestoides A] gi|262363123|gb|ACY59844.1| RNA polymerase sigma factor [Yersinia pestis D106004] gi|262367053|gb|ACY63610.1| RNA polymerase sigma factor [Yersinia pestis D182038] gi|270337798|gb|EFA48575.1| RNA polymerase sigma factor RpoS [Yersinia pestis KIM D27] gi|294355522|gb|ADE65863.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|320016550|gb|ADW00122.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 332 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 88/277 (31%), Positives = 141/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVSSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|260767191|ref|ZP_05876133.1| RNA polymerase sigma factor RpoS [Vibrio furnissii CIP 102972] gi|260617799|gb|EEX42976.1| RNA polymerase sigma factor RpoS [Vibrio furnissii CIP 102972] gi|315181178|gb|ADT88092.1| RNA polymerase sigma factor RpoS [Vibrio furnissii NCTC 11218] Length = 329 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 89/284 (31%), Positives = 148/284 (52%), Gaps = 39/284 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 57 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---------GDESLNAL 189 LR + Q + E V + K ++ S+++ +N R++ GD++L + Sbjct: 175 LRTARELSQKLDHEPTAEEIAVELDKPVD-DVSKMLRLNERISSVDTPIGGDGDKALLDI 233 Query: 190 ---INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 IN+SD S D + R+ L + LNP+++ + AR Sbjct: 234 IPDINNSDPEVSTQDDDI--------------------RDSLVAWLDELNPKQKEVL-AR 272 Query: 247 R---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 273 RFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILMKQ 316 >gi|120598086|ref|YP_962660.1| RpoD family RNA polymerase sigma factor [Shewanella sp. W3-18-1] gi|146293843|ref|YP_001184267.1| RpoD family RNA polymerase sigma factor [Shewanella putrefaciens CN-32] gi|120558179|gb|ABM24106.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella sp. W3-18-1] gi|145565533|gb|ABP76468.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella putrefaciens CN-32] Length = 326 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 91/282 (32%), Positives = 150/282 (53%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLSAEEEVYFSRKALK-GCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA+KL V ++V S++ L GD A Sbjct: 175 LRTARELAQKL-DHEPTAEE---IAEKLQVPSADVSRMLKLNEKITSVDTPLGGDND-KA 229 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 LI+ + S D+ V D D N + + ++ LN ++R + ARR Sbjct: 230 LIDILADDDSVGPDYKVQDEDIS--------------NSVVKWLNELNTKQREVL-ARRF 274 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ +E ++RERVRQI+ A K++++ + Q Sbjct: 275 GLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLRDLLGSQ 316 >gi|315185379|gb|EFU19152.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta thermophila DSM 6578] Length = 292 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 157/277 (56%), Gaps = 16/277 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EI +IP+L ++EE A R GD A +LVT++LR VV +A Y+ GLP+ Sbjct: 21 LSLYLKEINRIPLLSREEEDHYA-RLAAQGDQDAKEKLVTANLRFVVNVAKKYQNQGLPL 79 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT-ANQKR 134 ++++SEGNIGL+ A+++FDP++G+ +Y++WWI+ A+ + I ++++ AN+ Sbjct: 80 ADLISEGNIGLLNAIERFDPDKGYHFISYAVWWIRQAILKAISEKSRMIRLPLNRANELV 139 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 R+L + + + ++ +A+ L+ E V ++ SL+ + D Sbjct: 140 QIEKARKL------VQTESGEHNEIKKVAETLDYDEDHVANLLNLSKEYVSLDTPV-YED 192 Query: 195 KNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QEN 251 ++S+ D+L + E V++EK ++ + +L + L +E I + R + Sbjct: 193 RDSAMLGDYLKDEASRPPEDVVLEKTLQEEIQEVL----ATLTEKEAEIIQYRFGLNGRH 248 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P++L+ + + +++ER+RQIE +A KK+Q+S + +V Sbjct: 249 PMSLKEIGDMYNLTKERIRQIEKKALKKIQQSEKAKV 285 >gi|15606622|ref|NP_214002.1| RNA polymerase sigma factor RpoS [Aquifex aeolicus VF5] gi|2983844|gb|AAC07398.1| RNA polymerase sigma factor RpoS [Aquifex aeolicus VF5] Length = 310 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 91/299 (30%), Positives = 157/299 (52%), Gaps = 44/299 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +++Y+ +I KIP+L +EE LA+R ++ GD A +LV S+LR VV +A Y GYGLP Sbjct: 10 INQYLKKISKIPLLTPEEEKELARRAKQ-GDKEALKKLVESNLRFVVSVAKQYIGYGLPF 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 SE+++ GN+GL++A K+FDP+RG + +Y++WWI+ A+ + + + V+I Q + Sbjct: 69 SELIAAGNLGLLEAAKRFDPDRGVKFISYAVWWIRQAIMQALSQQTGAVRI--PLKQSHI 126 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVV------AIAK------------------------K 165 + + G L + PE++ IAK K Sbjct: 127 INKISHIYGELSKKLEREPSPEEIAEELSKQMIAKELEKELGREPTEEEIEERFKKEGYK 186 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNR 224 + E E CR+ SL+A + ++ + + D+L + E+ +I++ +K Sbjct: 187 ITPEEVEKYLQVCRVPL--SLDAPVGENE--DTFFIDFLSKHGTAEVEEKVIQEVIQKEI 242 Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++L++ L +ER++ E R L+ N P TL + +SRERVRQ+E RA +K++ Sbjct: 243 DDLLSK----LTDKERKVIELRFGLKGNEPKTLREIGEILGLSRERVRQLETRALRKLR 297 >gi|294141938|ref|YP_003557916.1| RNA polymerase sigma-38 factor [Shewanella violacea DSS12] gi|293328407|dbj|BAJ03138.1| RNA polymerase sigma-38 factor [Shewanella violacea DSS12] Length = 328 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 91/282 (32%), Positives = 148/282 (52%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 59 YLGEIGFSPLLSAEEEVYFSRKSLK-GCGKSRNRMIESNLRLVVKIARRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + L D+ E+ IA KL++ S+V S++ L GD A Sbjct: 177 LRTAR-ELAHKLDHEPTAEE---IAAKLDLPSSDVSRMLKLNERITSVDTPLGGDND-KA 231 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + S D+ V D D + V+ + + LN ++R + ARR Sbjct: 232 LLDVLAADDSVGPDYKVQDEDMSKSVV--------------KWLDELNTKQREVL-ARRF 276 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 277 GLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLKDLLGAQ 318 >gi|297617785|ref|YP_003702944.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297145622|gb|ADI02379.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 361 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 89/276 (32%), Positives = 137/276 (49%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E+GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGRVPLLSAEEEIELAKRI-ENGDEDAKRKLVEANLRLVVSIAKRYVGRGMLFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 154 IQEGNLGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLS 213 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L L R + + ++ E+V+ I K E +S+ + D L Sbjct: 214 RIQRALLQKLGREPTPAEVAEEMDIPVERVMEIMK----VAQEPVSLETPIGEEDDSHLG 269 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + V R L +S L RE ++ R Sbjct: 270 DFITDEDAESPEESASFVL-----------------LREHLDGILSTLTDREEKVLRLRF 312 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 313 GLDDGRPRTLEEVGQEFGVTRERIRQIEAKALRKLR 348 >gi|300812193|ref|ZP_07092635.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496829|gb|EFK31909.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 378 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 93/272 (34%), Positives = 144/272 (52%), Gaps = 22/272 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG--LPIS 76 Y+ EI K+P+L + EE +AKR E+GD SA L ++LRLVV IA Y + + I Sbjct: 107 YLKEIGKVPLLSRDEEVEVAKRI-ENGDESAKDELAAANLRLVVSIAKRYAKHNGKMGIL 165 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGNIGLM+AV KFD +GF+ +TY+ WWI+ A+ + +++I + Sbjct: 166 DLIQEGNIGLMKAVDKFDYSKGFKFSTYATWWIRQAITRALADQDRMIRIPVHVVES--I 223 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + R++ LQ D + KPE++ A + E+I++ D SL+ + ++ Sbjct: 224 NKMNRIQRTLQQDLDRDAKPEELAAEMNEPLQKVQEIITVAKNQETD-SLDKPV--GEEG 280 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV-----LNPRERRIFEARRLQEN 251 SQ D L ++ I EE ML +S+ L RE ++ + R EN Sbjct: 281 DSQLGDLL------EDNKAINPEEY-TASEMLKDQLSIMMGEFLTDREAKVLKLRFGLEN 333 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + V+RERVRQIEA+A KK++ Sbjct: 334 DEPHTLEEVGRSLGVTRERVRQIEAKAVKKLK 365 >gi|262340892|ref|YP_003283747.1| RNA polymerase sigma-70 factor [Blattabacterium sp. (Blattella germanica) str. Bge] gi|262272229|gb|ACY40137.1| RNA polymerase sigma-70 factor [Blattabacterium sp. (Blattella germanica) str. Bge] Length = 287 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 90/278 (32%), Positives = 149/278 (53%), Gaps = 19/278 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+HEI KIP+L +EE A+R RE GD SA +LV ++LR VV +A Y+ GL + Sbjct: 18 LDKYLHEIGKIPLLTPEEEVEYARRARE-GDASAIDKLVNANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT--ANQK 133 ++++EGN+GL++ + +FD RGF+ +Y +WWI+ A+ + I ++ T A Sbjct: 77 CDLINEGNLGLIKGILRFDETRGFKCISYVVWWIRQAILQAIAEQSRSIRQPTNKLALLN 136 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA-LINS 192 ++ L +L+ LQ + IA+ L+++E +V S++A LI Sbjct: 137 KILKTLAQLEQELQ-------RTPSAREIAEYLDMNEKDVEESIKNSGRHVSMDAPLIEG 189 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR--IFEARRLQE 250 D N D + D + +EKE + R + R + L+ RERR I Sbjct: 190 EDSN---LYDLVRSDESPRPDEHLEKE---SLRKDIKRILETLSERERRVIILHFGLNGS 243 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P+TLE + +++RERVRQIE+ A K+++ S + ++ Sbjct: 244 PPMTLEEVGQSCDLTRERVRQIESIALKRLKHSSRSKI 281 >gi|330836598|ref|YP_004411239.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta coccoides DSM 17374] gi|329748501|gb|AEC01857.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta coccoides DSM 17374] Length = 293 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 79/269 (29%), Positives = 155/269 (57%), Gaps = 13/269 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EI +IPML +EEY +AK E G+ A +RLV S+LR VV IA Y+ GLP+ Sbjct: 24 LSIYLKEINRIPMLTHEEEYKVAKLAAE-GNQKARNRLVESNLRFVVNIAKKYQNQGLPL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGNIGLM A++KFD ++G+ +Y++WWI+ A+ + I V++ N+ Sbjct: 83 GDLINEGNIGLMNAIEKFDVDKGYHFISYAVWWIRQAILKAISEKSRTVRL--PLNRANE 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 +++ + L + E++ + + +++I+++ + SL+A + + Sbjct: 141 LMQIQKAQKSLMNESGAEPTMEEIGRLTQLDPSHVADLIAISKEMV---SLDAPVFTDSG 197 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPV 253 NSS D++ D + V+I+ +++ + + ++ L+ +E I E R ++P+ Sbjct: 198 NSS-VGDFIQDGADSPDDVIIDSALKED----INKVLATLSEKEMEILEFRFGLNGQHPM 252 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L+ + + +++ER+RQIE +A +++Q+ Sbjct: 253 SLKEIGELYNLTKERIRQIEKKAIERLQQ 281 >gi|304410159|ref|ZP_07391778.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS183] gi|307302130|ref|ZP_07581888.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica BA175] gi|304351568|gb|EFM15967.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS183] gi|306914168|gb|EFN44589.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica BA175] Length = 326 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 151/282 (53%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLSAEEEVYFSRKALK-GCAKSRNRMIESNLRLVVKIARRYNNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA+KL VS ++V S++ L GD A Sbjct: 175 LRTARELAQKL-DHEPTAEE---IAEKLQVSSADVSRMLKLNEKITSVDMPLGGDND-KA 229 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + + D+ V D D N + + ++ LN ++R + ARR Sbjct: 230 LLDILADDDNVGPDYKVQDEDIS--------------NSVVKWLNELNTKQREVL-ARRF 274 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ +E ++RERVRQI+ A K++++ + Q Sbjct: 275 GLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLRDLLGSQ 316 >gi|157374437|ref|YP_001473037.1| RpoD family RNA polymerase sigma factor [Shewanella sediminis HAW-EB3] gi|157316811|gb|ABV35909.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella sediminis HAW-EB3] Length = 323 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 149/282 (52%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 54 YLSEIGFSPLLSAEEEVYFSRKALK-GCGKSRNRMIESNLRLVVKIARRYNNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 113 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + L D+ E+ IA+KL++ ++V S++ L GD A Sbjct: 172 LRTAR-ELAHKLDHEPTAEE---IAEKLDLPSADVSRMLKLNERITSVDTPLGGDND-KA 226 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + S D+ V D D + V+ + + LN ++R + ARR Sbjct: 227 LLDVLADDDSVGPDYKVQDEDMSKSVV--------------KWLDELNTKQREVL-ARRF 271 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 272 GLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLKDLLGSQ 313 >gi|326794473|ref|YP_004312293.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinomonas mediterranea MMB-1] gi|326545237|gb|ADZ90457.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinomonas mediterranea MMB-1] Length = 329 Score = 122 bits (307), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 90/275 (32%), Positives = 151/275 (54%), Gaps = 20/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 57 YLSEIGFSPLLTAEEEVYFA-RLALKGDEAARKRMIESNLRLVVKISRRYLNRGLSLLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR + Q + D+ PE+ IA KL+ +V +S+N R++ S+++ + S+ Sbjct: 175 LRAARELTQQL-DHEPSPEE---IADKLDRPVEDVQKMLSLNERIS---SIDSPLGGSEG 227 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENP 252 + S + H E ++ + + N + + LN ++R + ARR P Sbjct: 228 DKSLVEVIPDTQHSNPE----DERQEGDVLNSIDGWLDALNEKQREVI-ARRFGLRGYEP 282 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ +E ++RERVRQI+ A +K++ + KQ Sbjct: 283 STLEDVGAEIGLTRERVRQIQVEALRKLRLMLDKQ 317 >gi|237738339|ref|ZP_04568820.1| RNA polymerase [Fusobacterium mortiferum ATCC 9817] gi|229420219|gb|EEO35266.1| RNA polymerase [Fusobacterium mortiferum ATCC 9817] Length = 273 Score = 122 bits (307), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 89/274 (32%), Positives = 153/274 (55%), Gaps = 17/274 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +IRK +LEK EE L K+ + GD+ A ++L+ +LRLVV IA Y GL + Sbjct: 8 ISYYLEDIRKYKVLEKDEETELLKKAK-AGDIEAKNKLILCNLRLVVNIAKNYVNRGLSL 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGN GL+ A++KFD ++GFR +TY++WWIK ++ + I+ ++I + + L Sbjct: 67 IDLISEGNFGLIYAIEKFDMKKGFRFSTYAVWWIKQSITKAIICKGRGIRI--PSYKYDL 124 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + R L + + + P V I++ LNV++ ++ + SL+A I Sbjct: 125 LSKVNRY--VLNRVREEGIYP-TVEEISEDLNVNKEKIEEIMVAFQDPMSLSASIG---- 177 Query: 196 NSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENP 252 + Q +D + + + E +IE+ R+ R + + VL+ RE++I + R E Sbjct: 178 DDIQLEDIIANNSETSIEDDIIEEMGREQVRQI----VKVLDEREKQILKLRFGLDGEEI 233 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + F ++RERVRQIE + KK++ +K Sbjct: 234 HTLEEIGQTFNITRERVRQIEKKTLKKLKMQCEK 267 >gi|163783667|ref|ZP_02178655.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] gi|159881072|gb|EDP74588.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] Length = 309 Score = 122 bits (307), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 94/298 (31%), Positives = 153/298 (51%), Gaps = 44/298 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +++Y+ I KIP+L +EE LA++ +E GD + +LV S+LR VV +A Y GYGLP Sbjct: 9 INQYLKRISKIPLLSPEEEKELARKAKE-GDEESLKKLVESNLRFVVSVAKQYIGYGLPF 67 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 SE+++ GN+GL++A K+FDPERG + +Y++WWI+ A+ + + + V+I Q L Sbjct: 68 SELIAAGNLGLLEAAKRFDPERGVKFISYAVWWIRQAIMQALSQQTGAVRI--PLKQSHL 125 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVV------AIAK------------------------K 165 + + L + PE+V IAK K Sbjct: 126 ISKIGTIYAELAKELEREPTPEEVAEQLSKEMIAKELTKELGREPTDEEVQKKFKKEGYK 185 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNR 224 ++ E E CR+ SL+A + ++ + + D+L + E+ +I++ K Sbjct: 186 ISPEEVEKYLQVCRIPL--SLDAPVGENE--DTFFVDFLSKHGTAEVEESVIQEVLEKEI 241 Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++L + L +ERR+ E R L+ N P TL + VSRERVRQ+E RA +K+ Sbjct: 242 YDLLDK----LPEKERRVVELRFGLKGNEPKTLREIGDILGVSRERVRQLETRALRKL 295 >gi|262164038|ref|ZP_06031777.1| RNA polymerase sigma factor RpoS [Vibrio mimicus VM223] gi|262027566|gb|EEY46232.1| RNA polymerase sigma factor RpoS [Vibrio mimicus VM223] Length = 336 Score = 122 bits (307), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD L Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDKPVDDVTKMLRLNER-ISSVDTPIGGDGDKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N++ ++ D D +E +L N L LNP+++ + ARR Sbjct: 238 ILPDSNNAD-PEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREVLVKQ 321 >gi|89073765|ref|ZP_01160279.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] gi|89050540|gb|EAR56032.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] Length = 291 Score = 122 bits (306), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 90/303 (29%), Positives = 161/303 (53%), Gaps = 41/303 (13%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN+K G+I + Y+ +I + P+L K +E +L R GD + + L+ S+LRL Sbjct: 3 MNKKEEQFSHGGDI-VHLYLKDISEKPLLTKDDE-ILYSRKSLSGDAYSKNVLIESNLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA YRG + IS+++ EGNIGLM AV+KFDPE+GFR +TY+ WWIK ++ I Sbjct: 61 VVSIAKKYRGSSIHISDLIDEGNIGLMTAVEKFDPEKGFRFSTYATWWIKQTIERAIHNQ 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS----------E 170 +++ +++ ++ H Q + NN +P + +A+ LN + + Sbjct: 121 GRTIRLPVHVSKEINTI----IRTHKQLVKKNNQEPSTEL-VAEVLNKTLDDISTTLSYD 175 Query: 171 SEVISMNCRL---AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + ++S + + A +S+ LI +D+NS++ D + + + I+K + Sbjct: 176 TPIVSYDQSITSEASSQSIAVLI--ADENSAKPDDLV-------DDLAIQK--------I 218 Query: 228 LTRSMSVLNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ LN R++ I RR L TL+ ++ E ++RER+RQ++ + K++ S+ Sbjct: 219 TTNVLNCLNNRDKEII-CRRFGLLGYEAQTLQEVADEVGLTRERIRQLQVTSLAKLKNSL 277 Query: 285 QKQ 287 + Sbjct: 278 SRD 280 >gi|258623793|ref|ZP_05718750.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM603] gi|258583916|gb|EEW08708.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM603] Length = 336 Score = 122 bits (306), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD L Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDKPVDDVTKMLRLNER-ISSVDTPIGGDGDKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N++ ++ D D +E +L N L LNP+++ + ARR Sbjct: 238 ILPDSNNAD-PEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|261210105|ref|ZP_05924403.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC341] gi|260840870|gb|EEX67412.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC341] Length = 336 Score = 122 bits (306), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD L Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGDKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N++ ++ D D +E +L N L LNP+++ + ARR Sbjct: 238 ILPDSNNAD-PEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|262401766|ref|ZP_06078332.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC586] gi|262352183|gb|EEZ01313.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC586] Length = 336 Score = 122 bits (306), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 88/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L M LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL--------------GWMDELNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|319792729|ref|YP_004154369.1| RNA polymerase, sigma 70 family subunit [Variovorax paradoxus EPS] gi|315595192|gb|ADU36258.1| putative RNA polymerase, sigma 70 family subunit [Variovorax paradoxus EPS] Length = 340 Score = 122 bits (306), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 81/281 (28%), Positives = 142/281 (50%), Gaps = 13/281 (4%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L+ Y+ ++R+ + EE+ A R GD +A ++ +LRLVV IA GY G Sbjct: 58 GADALTIYLRQVRRTELFTPDEEFQAACAAR-SGDFAARQSMIEHNLRLVVNIAKGYLGR 116 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK--IGTT 129 G+P+S+++ EGN+GLM A+ KF+PERGFR +TY+ WWI+ +++ ++ ++ + Sbjct: 117 GVPLSDLIEEGNLGLMHAITKFEPERGFRFSTYATWWIRQSVERAVMTQARAIRLPVHVV 176 Query: 130 ANQKRLFFNLRRLKGHLQAIT--DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 +++ R L+G + + + ++ E + A+ L EV + SL+ Sbjct: 177 RELQQVLRARRALEGDAEFVARRPDGVRVEDIAAL---LGRDVQEVADLLALSEAPRSLD 233 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A D+ + D G + + E + +L + + L+ RER + E R Sbjct: 234 AGDARGDEGFTLADTVASDDEQGNPSGVTQAHEVE---RLLDQWIHALDAREREVLEGRY 290 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + P TLE LS ++RERVRQI+ A K++ + + Sbjct: 291 GLHDREPETLEVLSVRLGLTRERVRQIQNEALAKMRRQLAR 331 >gi|1350861|sp|P47765|RPOS_YEREN RecName: Full=RNA polymerase sigma factor rpoS gi|687583|gb|AAC43391.1| RpoS [Yersinia enterocolitica] Length = 331 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 88/287 (30%), Positives = 143/287 (49%), Gaps = 25/287 (8%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 + +G Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y Sbjct: 52 VTSGADATQLYLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRY 110 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 111 SNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPI 170 Query: 129 -TANQKRLFFNLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 + ++ R H + I + KP V+ +LN + S++ L Sbjct: 171 HIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPL 227 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD L SD+N + +D D Q V E +R +L R +L Sbjct: 228 GGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG---- 283 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +EA TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 284 --YEA-------ATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQ 321 >gi|212711364|ref|ZP_03319492.1| hypothetical protein PROVALCAL_02436 [Providencia alcalifaciens DSM 30120] gi|212686093|gb|EEB45621.1| hypothetical protein PROVALCAL_02436 [Providencia alcalifaciens DSM 30120] Length = 328 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 86/280 (30%), Positives = 151/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 59 YLSEIGFSPLLTAEEEVFYARRAL-RGDVASRQRMIESNLRLVVKISRRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNIY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ PE++ +++ L ++E + S++ +AGD + L Sbjct: 177 LRTARELAQKL-DHEPSPEEIAERLDKPVEDVSRMLRLNER-ITSVDTPIAGDSEKSLLE 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD N S G E + + ++N + + + LNP++R + ARR Sbjct: 235 VLSDDNES-----------GPENTIQDNNLKEN----IVKWLYELNPKQREVL-ARRFGL 278 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE + E ++RERVRQI+ +++++ +Q + Sbjct: 279 LGYEAETLEEVGREIGLTRERVRQIQVEGLRRLKDILQGE 318 >gi|7416823|dbj|BAA94072.1| rpoS [Rubrivivax gelatinosus] Length = 322 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 90/283 (31%), Positives = 147/283 (51%), Gaps = 29/283 (10%) Query: 12 GEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 GE G L Y+ +IR+ P++ +EE+ A R R GD +A ++ +LRLVV IA Y Sbjct: 42 GEHGNTLQSYLRDIRRAPLMSAEEEHATAVRARA-GDFAARQAMIERNLRLVVSIAKHYV 100 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+P+ +++ EGN+GLM A KF+PERGFR +TY+ WWI+ +++ I+ L+++ Sbjct: 101 GRGMPMIDLIEEGNLGLMHATGKFEPERGFRFSTYASWWIRQSIERAIMHQARLIRLPVH 160 Query: 130 A----NQ----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 NQ +R + RR + +P V +A L EV + +LA Sbjct: 161 VVRELNQVLKARRALESARRGEAE---------RPVSVDEVAAALQRPVEEVAEL-LKLA 210 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 E +L ++ S + V D D + + + + ++L ++ LN RER Sbjct: 211 --EQPTSLDMPLERESGESMLDTVADEDAIDPLGLTLS--REAVHLLDNGLAELNERERE 266 Query: 242 IFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R R +E P TLE L++ ++RER+RQI+ A K++ Sbjct: 267 VLAGRFGLRDRE-PETLEELAARLGLTRERIRQIQQEALLKLK 308 >gi|258623525|ref|ZP_05718526.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM573] gi|262172378|ref|ZP_06040056.1| RNA polymerase sigma factor RpoS [Vibrio mimicus MB-451] gi|258584187|gb|EEW08935.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM573] gi|261893454|gb|EEY39440.1| RNA polymerase sigma factor RpoS [Vibrio mimicus MB-451] Length = 336 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD L Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDKPVDDVTKMLRLNER-ISSVDTPIGGDGDKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N++ ++ D D +E +L N L LNP+++ + ARR Sbjct: 238 ILPDSNNAD-PEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|37524720|ref|NP_928064.1| RNA polymerase sigma factor RpoS [Photorhabdus luminescens subsp. laumondii TTO1] gi|36784145|emb|CAE13014.1| RNA polymerase sigma factor (sigma-38) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 332 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 88/280 (31%), Positives = 150/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 63 YLGEIGFSPLLTAEEEVFFARRAL-RGDVLARQRMIESNLRLVVKISRRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNVY 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ +++ L ++E +IS++ ++GD L Sbjct: 181 LRTAR-ELAHKLDHEPSPEEIAEQLDKPVDDVSRMLRLNER-IISVDTPISGDSDKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD+N + G E E + +K+ + + + LN ++R + ARR Sbjct: 239 VLSDENET-----------GPEGTTQEDDMKKS----IVKWLFELNSKQREVL-ARRFGL 282 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ +++++ +Q Q Sbjct: 283 LGYEAETLEDVGKEIGLTRERVRQIQVEGLRRLKDIMQTQ 322 >gi|222100016|ref|YP_002534584.1| RNA polymerase sigma factor rpoD [Thermotoga neapolitana DSM 4359] gi|221572406|gb|ACM23218.1| RNA polymerase sigma factor rpoD [Thermotoga neapolitana DSM 4359] Length = 392 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 89/275 (32%), Positives = 140/275 (50%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LA+R + GD A +L+TS+LRLVV IA Y G GL ++ Sbjct: 119 YLKEIGKIPLLTPAQERELARRA-QMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDL 177 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGNIGL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 178 IQEGNIGLLKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLN 237 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +R ++ + ++ + KP + + K++ + E IS+ + DE Sbjct: 238 RLRREYYQKYGEEPSVEELAKMMGKPPEKI---KEILEAAKETISLESPIGEDE------ 288 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARR- 247 D + D E V K+E R R L + + L+PRE + R Sbjct: 289 -----------DSSIEDFVADESVPSPKKEAMRMLMREELEKVLKTLSPREAMVLRMRYG 337 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L P TLE + F V+RER+RQIE +A +K++ Sbjct: 338 LLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLR 372 >gi|108804647|ref|YP_644584.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765890|gb|ABG04772.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 304 Score = 122 bits (305), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 147/275 (53%), Gaps = 16/275 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ I + +L + E L++R + GD A +L+ +LRLVV +A YRGYGLP Sbjct: 35 LAGYLDRIGRWRLLTRDGEIELSRRAK-KGDRKARQKLIEKNLRLVVSVAKKYRGYGLPF 93 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AV+KFDPERGFR +TY+ WWI+ A+Q + +++ +K Sbjct: 94 EDLIQEGNIGLMKAVEKFDPERGFRFSTYATWWIRQAVQRAVADKGRTIRVPVHMTEK-- 151 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 +R++ ++ + IA++L +V + SL+ + SS++ Sbjct: 152 ---IRKVSRTFNELSLELEREPTDEEIARRLEWDVEDVRLTISAMPDATSLDQPV-SSEE 207 Query: 196 NSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 ++S+ D++ + D + VL E E + L ++ L R R + R ++ Sbjct: 208 SASELGDFIEDERTSDTPDTVLKELES-----SQLKEAIERLPERARYVLVRRYGLDDRE 262 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 P TL L E ++SRERVRQ++ A + ++ I++ Sbjct: 263 PATLAELGDELKISRERVRQLQREAERLLKAGIRR 297 >gi|238761664|ref|ZP_04622639.1| RNA polymerase sigma factor rpoS [Yersinia kristensenii ATCC 33638] gi|238700178|gb|EEP92920.1| RNA polymerase sigma factor rpoS [Yersinia kristensenii ATCC 33638] Length = 332 Score = 122 bits (305), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 141/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVSSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + +P V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDRPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQ 322 >gi|157961021|ref|YP_001501055.1| RpoD family RNA polymerase sigma factor [Shewanella pealeana ATCC 700345] gi|157846021|gb|ABV86520.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella pealeana ATCC 700345] Length = 322 Score = 122 bits (305), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 90/281 (32%), Positives = 150/281 (53%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 53 YLGEIGFSPLLSAEEEVYFSRKSLK-GCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLA------GDESLNAL 189 LR + L D+ E+ IA KL++ ++V + +N R+ G ES AL Sbjct: 171 LRTAR-ELAHKLDHEPTAEE---IADKLDLPSADVSRMLKLNERITSVDTPLGGESDKAL 226 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 ++ + + D+ V D D + V+ + + LN ++R + ARR Sbjct: 227 LDVLADDDNVGPDYKVQDEDMSKSVV--------------KWLDELNTKQREVL-ARRFG 271 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 272 LLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLKDLLGAQ 312 >gi|127512145|ref|YP_001093342.1| RpoD family RNA polymerase sigma factor [Shewanella loihica PV-4] gi|126637440|gb|ABO23083.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella loihica PV-4] Length = 324 Score = 122 bits (305), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 148/282 (52%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 55 YLSEIGFSPLLSAEEEVYFSRKALK-GCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 113 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 114 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 172 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + L D+ E+ IA++L++ S+V S++ L GD A Sbjct: 173 LRTAR-ELAHKLDHEPTAEE---IAEQLDLPSSDVSKMLKLNERITSVDTPLGGDND-KA 227 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + D+ V D D + V+ R + LN ++R + ARR Sbjct: 228 LLDVLADDDCVGPDYKVQDDDMSKSVV--------------RWLDELNSKQREVL-ARRF 272 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 273 GLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLRDLLSAQ 314 >gi|15644200|ref|NP_229250.1| RNA polymerase sigma-A factor [Thermotoga maritima MSB8] gi|6831649|sp|P77994|RPOD_THEMA RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|4982015|gb|AAD36519.1|AE001796_11 RNA polymerase sigma-A factor [Thermotoga maritima MSB8] Length = 399 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 141/273 (51%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LA+R + GD A +L+TS+LRLVV IA Y G GL ++ Sbjct: 126 YLKEIGKIPLLTPAQERELARRA-QMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDL 184 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGNIGL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 185 IQEGNIGLLKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLN 244 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +R ++ + ++ + KP + + K++ + E IS+ + DE Sbjct: 245 RLRREYYQKHGEEPSIEELAKMMGKPPEKI---KEILEAAKETISLESPIGEDE------ 295 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 S +D++ D + ++ R R L + + L+PRE + R L Sbjct: 296 ------DSSIEDFVADDSIASPK---KEAMRMLMREELEKVLKTLSPREAMVLRMRYGLL 346 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F V+RER+RQIE +A +K++ Sbjct: 347 DGKPKTLEEVGQYFNVTRERIRQIEVKALRKLR 379 >gi|226328647|ref|ZP_03804165.1| hypothetical protein PROPEN_02542 [Proteus penneri ATCC 35198] gi|225203380|gb|EEG85734.1| hypothetical protein PROPEN_02542 [Proteus penneri ATCC 35198] Length = 327 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKI+ Y GL + ++ Sbjct: 58 YLGEIGYSPLLTAEEEVFFARRAL-RGDIPSRQRMIESNLRLVVKISRRYTNRGLALLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 117 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 176 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H ++ I ++ KP V ++K L ++E + S++ + GD L Sbjct: 177 RTARELAHKLDHEPSVEEIAESLDKP--VEDVSKMLRLNER-ITSVDTPIGGDSDKALLD 233 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD+N +G E + + N + + + + LNP++R + ARR Sbjct: 234 IISDEN-----------EEGPEATI----QNNNLKENIIKWLFELNPKQREVL-ARRFGL 277 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ +++++ +Q Q Sbjct: 278 LGYEAETLEDVGREIGLTRERVRQIQVEGLRRLKDILQSQ 317 >gi|281412780|ref|YP_003346859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga naphthophila RKU-10] gi|281373883|gb|ADA67445.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga naphthophila RKU-10] Length = 407 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 141/273 (51%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LA+R + GD A +L+TS+LRLVV IA Y G GL ++ Sbjct: 134 YLKEIGKIPLLTPAQERELARRA-QMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDL 192 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGNIGL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 193 IQEGNIGLLKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLN 252 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +R ++ + ++ + KP + + K++ + E IS+ + DE Sbjct: 253 RLRREYYQKHGEEPSIEELAKMMGKPPEKI---KEILEAAKETISLESPIGEDE------ 303 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 S +D++ D + ++ R R L + + L+PRE + R L Sbjct: 304 ------DSSIEDFVADDSIASPK---KEAMRMLMREELEKVLKTLSPREAMVLRMRYGLL 354 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F V+RER+RQIE +A +K++ Sbjct: 355 DGKPKTLEEVGQYFNVTRERIRQIEVKALRKLR 387 >gi|149177995|ref|ZP_01856592.1| RNA polymerase sigma factor rpoS [Planctomyces maris DSM 8797] gi|148843188|gb|EDL57554.1| RNA polymerase sigma factor rpoS [Planctomyces maris DSM 8797] Length = 279 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 89/277 (32%), Positives = 143/277 (51%), Gaps = 25/277 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + +L +EE L+ R EHGD A R+V ++LRLVV IA Y G GLP+ Sbjct: 17 LETYLKEINETALLSAEEERELSNRI-EHGDKEARDRMVRANLRLVVNIARAYSGKGLPL 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDPE G R +TY+ +WIK +++ ++ S ++I A L Sbjct: 76 QDLIEEGNLGLLRAVEGFDPEMGTRFSTYASYWIKQSIKRALVNSAKTIRI--PAYMVEL 133 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 RR LQ D E+V A++L++ ++ + + L NSS + Sbjct: 134 LTKWRRATAQLQDTLDRTPTTEEV---ARELDLPPKKLKIVKKAI-------QLYNSSPQ 183 Query: 196 NSSQWQDW----LVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--R 247 + W ++ D G + L+E + K+ + R + + RE I R Sbjct: 184 SEQHDAGWSLGEMIPDDRLKGPDDELVENDNLKH----VFRLLKEIPEREANILRMRFGL 239 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + P TL+ + ++RERVRQIE+ A KK+ + I Sbjct: 240 DGDEPKTLKEIGQALGLTRERVRQIESEALKKLAKEI 276 >gi|2618586|dbj|BAA23365.1| sigma factor [Vibrio cholerae] Length = 335 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYTTWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L N L LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|114562238|ref|YP_749751.1| RNA polymerase, sigma 28 subunit [Shewanella frigidimarina NCIMB 400] gi|114333531|gb|ABI70913.1| RNA polymerase, sigma 28 subunit [Shewanella frigidimarina NCIMB 400] Length = 323 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 92/282 (32%), Positives = 149/282 (52%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R G + +R++ S+LRLVVKI+ Y GL + ++ Sbjct: 54 YLGEIGFSPLLTAEEE-VFFSRKSLKGCEKSRNRMIESNLRLVVKISRRYNNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 113 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNVY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA+KL+VS +V S++ L+GD A Sbjct: 172 LRTARQLAQKL-DHEPTAEE---IAEKLDVSTGDVSRMLKLNERITSVDSPLSGDNE-KA 226 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + S D+ V + D N + ++ LN ++R + ARR Sbjct: 227 LLDVIADDDSVGPDYRVQNED--------------LSNSIVGWLNELNTKQREVL-ARRF 271 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ +E ++RERVRQI+ A K++++ + Q Sbjct: 272 GLLGYEPSTLENVGAEIGLTRERVRQIQVEALKRLKDLLGSQ 313 >gi|309389374|gb|ADO77254.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium praevalens DSM 2228] Length = 310 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 89/273 (32%), Positives = 149/273 (54%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ K+ +L+K+EE LAKR E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 41 YLKEMGKVDLLDKEEEVELAKRI-EQGDQRAREQLTEANLRLVVSIAKKYIGQGMSFLDL 99 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN GLM+AV+KFD +G++ +TY+ WWI+ ++ + ++I T N Sbjct: 100 IQEGNKGLMKAVEKFDYTKGYKFSTYATWWIRQSITRALADQARTIRIPVHMVETMNKLR 159 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 +KRL +L R + + N++PE+V+ I K ++MN + SL+ Sbjct: 160 RIEKRLKKDLEREPTLEEIGEEMNMEPEKVLEIQK---------LAMNQQPT---SLDTP 207 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S +D+ + D D ++ E ++ L + L RE+RI + R Sbjct: 208 IG--EEKDSHLKDF-IEDQDAPAPEMLASSEL--LKDQLETVLDTLTDREKRIIKLRFGL 262 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E+ TL+ + S+F V+RER+RQI+A+A +K+ Sbjct: 263 EDGRQRTLKEVGSQFGVTRERIRQIQAKALRKL 295 >gi|153802558|ref|ZP_01957144.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-3] gi|124121921|gb|EAY40664.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-3] Length = 335 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L N L LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|297184127|gb|ADI20246.1| hypothetical protein [uncultured Sphingobacterium sp. EB080_L08E11] Length = 287 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 87/296 (29%), Positives = 157/296 (53%), Gaps = 55/296 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ +EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVELITAEEEVELAQRIKA-GDQIALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + + L + + +P I+K L +SES+V +SM+ Sbjct: 136 NKINKAYAYLEQ----------EHERPPSAAEISKHLEMSESDVKESMRNSGRHVSMDAP 185 Query: 180 L--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L D +L ++NSSD S + L+ D + R + RS++ L P Sbjct: 186 LVEGEDSNLYDVLNSSD--SPHPDEDLMMD---------------SLRTEIERSLATLTP 228 Query: 238 RERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE + RL ++P+TLE + +F+++RERVRQI+ +A ++++ + + ++ Sbjct: 229 REGDVI---RLYFGLGGQHPMTLEEIGEKFDLTRERVRQIKEKAIRRMKHTSRSKI 281 >gi|307718169|ref|YP_003873701.1| RNA polymerase sigma-70 factor family protein [Spirochaeta thermophila DSM 6192] gi|306531894|gb|ADN01428.1| RNA polymerase sigma-70 factor family protein [Spirochaeta thermophila DSM 6192] Length = 303 Score = 122 bits (305), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 81/272 (29%), Positives = 154/272 (56%), Gaps = 16/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ EI +IP+L ++EE A R GD A +LVT++LR VV +A Y+ GLP+ Sbjct: 32 LSLYLKEINRIPLLTREEEDHYA-RLAAQGDQHAKEKLVTANLRFVVNVAKKYQNQGLPL 90 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT-ANQKR 134 ++++SEGNIGL+ A+++FDP++G+ +Y++WWI+ A+ + I ++++ AN+ Sbjct: 91 ADLISEGNIGLLNAIERFDPDKGYHFISYAVWWIRQAILKAISEKSRMIRLPLNRANELV 150 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 R+L + + + ++ +A+ L+ E V ++ SL+ + D Sbjct: 151 QIEKARKL------VQTESGEHNEIKKVAETLDYDEDHVANLLNLSKEYVSLDTPV-YED 203 Query: 195 KNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QEN 251 ++S+ D+L + E V++EK ++ + +L + L +E I + R + Sbjct: 204 RDSAMLGDYLKDEASRPPEDVVLEKTLQEEIQEVL----ATLTEKEAEIIQYRFGLNGRH 259 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 P++L+ + + +++ER+RQIE +A KK+Q+S Sbjct: 260 PMSLKEIGDLYNLTKERIRQIEKKALKKIQQS 291 >gi|147674644|ref|YP_001216035.1| RNA polymerase sigma factor RpoS [Vibrio cholerae O395] gi|262169845|ref|ZP_06037535.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC27] gi|146316527|gb|ABQ21066.1| RNA polymerase sigma factor RpoS [Vibrio cholerae O395] gi|227012360|gb|ACP08570.1| RNA polymerase sigma factor RpoS [Vibrio cholerae O395] gi|262021579|gb|EEY40290.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC27] Length = 335 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L N L LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|148270473|ref|YP_001244933.1| RpoD family RNA polymerase sigma factor [Thermotoga petrophila RKU-1] gi|170289132|ref|YP_001739370.1| RpoD family RNA polymerase sigma factor [Thermotoga sp. RQ2] gi|147736017|gb|ABQ47357.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga petrophila RKU-1] gi|170176635|gb|ACB09687.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga sp. RQ2] Length = 407 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 141/273 (51%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LA+R + GD A +L+TS+LRLVV IA Y G GL ++ Sbjct: 134 YLKEIGKIPLLTPAQERELARRA-QMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDL 192 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGNIGL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 193 IQEGNIGLLKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLN 252 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +R ++ + ++ + KP + + K++ + E IS+ + DE Sbjct: 253 RLRREYYQKHGEEPSIEELAKMMGKPPEKI---KEILEAAKETISLESPIGEDE------ 303 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 S +D++ D + ++ R R L + + L+PRE + R L Sbjct: 304 ------DSSIEDFVADDSIASPK---KEAMRMLMREELEKVLKTLSPREAMVLRMRYGLL 354 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F V+RER+RQIE +A +K++ Sbjct: 355 DGKPKTLEEVGQYFNVTRERIRQIEVKALRKLR 387 >gi|5030433|gb|AAC44889.2| sigma 70-type sigma factor SigA [Thermotoga maritima] Length = 407 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 141/273 (51%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LA+R + GD A +L+TS+LRLVV IA Y G GL ++ Sbjct: 134 YLKEIGKIPLLTPAQERELARRA-QMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDL 192 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGNIGL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 193 IQEGNIGLLKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLN 252 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +R ++ + ++ + KP + + K++ + E IS+ + DE Sbjct: 253 RLRREYYQKHGEEPSIEELAKMMGKPPEKI---KEILEAAKETISLESPIGEDE------ 303 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 S +D++ D + ++ R R L + + L+PRE + R L Sbjct: 304 ------DSSIEDFVADDSIASPK---KEAMRMLMREELEKVLKTLSPREAMVLRMRYGLL 354 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F V+RER+RQIE +A +K++ Sbjct: 355 DGKPKTLEEVGQYFNVTRERIRQIEVKALRKLR 387 >gi|229512804|ref|ZP_04402271.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TMA 21] gi|229350053|gb|EEO15006.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TMA 21] gi|327483355|gb|AEA77762.1| RNA polymerase sigma factor RpoS [Vibrio cholerae LMA3894-4] Length = 335 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L N L LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|153214922|ref|ZP_01949705.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 1587] gi|153826929|ref|ZP_01979596.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-2] gi|153829928|ref|ZP_01982595.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 623-39] gi|229530348|ref|ZP_04419736.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 12129(1)] gi|254226840|ref|ZP_04920411.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V51] gi|254291219|ref|ZP_04962015.1| RNA polymerase sigma factor RpoS [Vibrio cholerae AM-19226] gi|262190768|ref|ZP_06048995.1| RNA polymerase sigma factor RpoS [Vibrio cholerae CT 5369-93] gi|124114995|gb|EAY33815.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 1587] gi|125620637|gb|EAZ49000.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V51] gi|148874616|gb|EDL72751.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 623-39] gi|149739232|gb|EDM53500.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-2] gi|150422913|gb|EDN14864.1| RNA polymerase sigma factor RpoS [Vibrio cholerae AM-19226] gi|229332121|gb|EEN97609.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 12129(1)] gi|262033353|gb|EEY51864.1| RNA polymerase sigma factor RpoS [Vibrio cholerae CT 5369-93] Length = 335 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L N L LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|15640556|ref|NP_230185.1| RNA polymerase sigma-38 factor [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121590676|ref|ZP_01678009.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 2740-80] gi|121728563|ref|ZP_01681585.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V52] gi|153819103|ref|ZP_01971770.1| RNA polymerase sigma factor RpoS [Vibrio cholerae NCTC 8457] gi|153823615|ref|ZP_01976282.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|227080717|ref|YP_002809268.1| RNA polymerase sigma factor RpoS [Vibrio cholerae M66-2] gi|229507145|ref|ZP_04396651.1| RNA polymerase sigma factor RpoS [Vibrio cholerae BX 330286] gi|229508992|ref|ZP_04398480.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|229519660|ref|ZP_04409103.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC9] gi|229606176|ref|YP_002876824.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MJ-1236] gi|254850774|ref|ZP_05240124.1| RNA polymerase sigma factor rpoS [Vibrio cholerae MO10] gi|255744238|ref|ZP_05418191.1| RNA polymerase sigma factor RpoS [Vibrio cholera CIRS 101] gi|262149032|ref|ZP_06028176.1| RNA polymerase sigma factor RpoS [Vibrio cholerae INDRE 91/1] gi|6094129|sp|O51804|RPOS_VIBCH RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 factor gi|2897902|gb|AAC38175.1| sigma S [Vibrio cholerae] gi|9654961|gb|AAF93702.1| RNA polymerase sigma-38 factor [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121547462|gb|EAX57570.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 2740-80] gi|121629175|gb|EAX61616.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V52] gi|126510335|gb|EAZ72929.1| RNA polymerase sigma factor RpoS [Vibrio cholerae NCTC 8457] gi|126518864|gb|EAZ76087.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|227008605|gb|ACP04817.1| RNA polymerase sigma factor RpoS [Vibrio cholerae M66-2] gi|229344349|gb|EEO09324.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC9] gi|229353917|gb|EEO18851.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|229355890|gb|EEO20810.1| RNA polymerase sigma factor RpoS [Vibrio cholerae BX 330286] gi|229368831|gb|ACQ59254.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MJ-1236] gi|254846479|gb|EET24893.1| RNA polymerase sigma factor rpoS [Vibrio cholerae MO10] gi|255738178|gb|EET93570.1| RNA polymerase sigma factor RpoS [Vibrio cholera CIRS 101] gi|262031177|gb|EEY49797.1| RNA polymerase sigma factor RpoS [Vibrio cholerae INDRE 91/1] Length = 335 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 LRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L N L LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|317493947|ref|ZP_07952364.1| RNA polymerase sigma factor RpoS [Enterobacteriaceae bacterium 9_2_54FAA] gi|316918274|gb|EFV39616.1| RNA polymerase sigma factor RpoS [Enterobacteriaceae bacterium 9_2_54FAA] Length = 328 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 143/277 (51%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 59 YLGEIGYSPLLTAEEEVFFARRAL-RGDDASRRRMIESNLRLVVKIARRYSNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 177 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + +P V +++ L ++E + S++ L GD L Sbjct: 178 RTARELSHKLDHEPSAEEIAEQLDRP--VTDVSRMLRLNER-ITSVDTPLGGDSEKALLD 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+N S +D D Q V E +R +L R +L +EA Sbjct: 235 ILTDENESGPEDTTQSDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 283 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 284 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQ 318 >gi|238797130|ref|ZP_04640632.1| RNA polymerase sigma factor rpoS [Yersinia mollaretii ATCC 43969] gi|238718977|gb|EEQ10791.1| RNA polymerase sigma factor rpoS [Yersinia mollaretii ATCC 43969] Length = 332 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|239626174|ref|ZP_04669205.1| DNA-directed RNA polymerase sigma subunit [Clostridiales bacterium 1_7_47_FAA] gi|239520404|gb|EEQ60270.1| DNA-directed RNA polymerase sigma subunit [Clostridiales bacterium 1_7_47FAA] Length = 409 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 141/265 (53%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI I +L +EE LA+R E GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 142 YLKEIGSISLLTPEEETDLARRKSE-GDAEAGRQLVEANLRLVVSIAKRYTGRGMGFLDL 200 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM+AV+KFD +G+RL+TY+ WW+K ++ + +++ + Sbjct: 201 VQEGNLGLMKAVEKFDYSKGYRLSTYATWWVKQSITRSLADQSRTIRL--PVHMVEAVNK 258 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +RR + L E+ IA+++ + E V + + +GD +++ D+ S Sbjct: 259 IRRAQRSLSVRLGREPSTEE---IAEEVGMPEKRVTEL-IQASGD-TVSLETPVGDEEGS 313 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLE 256 D++ D + + +K E R + + LNPRER + R E +P+TLE Sbjct: 314 NLGDFVADDANASTE---DKAESFLLREEIDAMLQGLNPREREVIILRFGLETGHPLTLE 370 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIE A +K++ Sbjct: 371 EVGRRFNVTRERIRQIETAALRKLR 395 >gi|238754524|ref|ZP_04615879.1| RNA polymerase sigma factor rpoS [Yersinia ruckeri ATCC 29473] gi|238707353|gb|EEP99715.1| RNA polymerase sigma factor rpoS [Yersinia ruckeri ATCC 29473] Length = 332 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|51595126|ref|YP_069317.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis IP 32953] gi|153948385|ref|YP_001402250.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis IP 31758] gi|170025640|ref|YP_001722145.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis YPIII] gi|186894139|ref|YP_001871251.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis PB1/+] gi|51588408|emb|CAH20016.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Yersinia pseudotuberculosis IP 32953] gi|152959880|gb|ABS47341.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis IP 31758] gi|169752174|gb|ACA69692.1| RNA polymerase, sigma 70 subunit, RpoD family [Yersinia pseudotuberculosis YPIII] gi|186697165|gb|ACC87794.1| RNA polymerase, sigma 70 subunit, RpoD family [Yersinia pseudotuberculosis PB1/+] Length = 332 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|119774181|ref|YP_926921.1| RNA polymerase sigma-38 factor [Shewanella amazonensis SB2B] gi|119766681|gb|ABL99251.1| RNA polymerase sigma-38 factor [Shewanella amazonensis SB2B] Length = 327 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 93/282 (32%), Positives = 145/282 (51%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 58 YLSEIGFSPLLTAEEE-VYYSRKALRGCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 117 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + L D+ E+ IA KLN+ EV S++ L GD A Sbjct: 176 LRTAR-ELAHKLDHEPTAEE---IAAKLNLPSVEVSRMLKLNEKITSVDVPLGGDND-KA 230 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + S D+ V D D N + ++ LN ++R + ARR Sbjct: 231 LLDVLPDDDSVGPDYKVQDEDIS--------------NSVVNWLNELNTKQREVL-ARRF 275 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ +E ++RERVRQI+ A K++++ + Q Sbjct: 276 GLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLRDILSAQ 317 >gi|24374942|ref|NP_718985.1| RNA polymerase sigma-38 factor [Shewanella oneidensis MR-1] gi|24349657|gb|AAN56429.1|AE015779_6 RNA polymerase sigma-38 factor [Shewanella oneidensis MR-1] Length = 326 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 150/282 (53%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLSAEEEVYFSRKALK-GCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA+KL VS +V S++ L GD A Sbjct: 175 LRTARELAQKL-DHEPTAEE---IAEKLQVSSVDVSRMLKLNEKITSVDVPLGGDND-KA 229 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + + D+ V D D N + + ++ LN ++R + ARR Sbjct: 230 LLDVLADDDNVGPDYKVQDEDIS--------------NSVVKWLNELNTKQREVL-ARRF 274 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ +E ++RERVRQI+ A K++++ + Q Sbjct: 275 GLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLRDLLGAQ 316 >gi|238791265|ref|ZP_04634904.1| RNA polymerase sigma factor rpoS [Yersinia intermedia ATCC 29909] gi|238729398|gb|EEQ20913.1| RNA polymerase sigma factor rpoS [Yersinia intermedia ATCC 29909] Length = 332 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|332667453|ref|YP_004450241.1| RpoD subfamily RNA polymerase sigma-70 subunit [Haliscomenobacter hydrossis DSM 1100] gi|332336267|gb|AEE53368.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliscomenobacter hydrossis DSM 1100] Length = 288 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 82/285 (28%), Positives = 152/285 (53%), Gaps = 38/285 (13%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + L +Y+++I KIPML +E LA+R R+ GD A +L ++LR VV +A Y+ GL Sbjct: 16 LALDKYLNDIGKIPMLTADDEAELARRIRQ-GDDDAMAKLTRANLRFVVSVAKQYQNQGL 74 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +S++++EGN+GLM+A K+FD +GF+ +Y++WWI+ ++ + I+ +V++ Sbjct: 75 SLSDLINEGNVGLMKAAKRFDETKGFKFISYAVWWIRQSILQAIVEYSRIVRL------- 127 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL-----NVSESEVISMNCRLAGDE---- 184 L + N E +A ++ N E++ MN R G+ Sbjct: 128 -----------PLNKVGSYNKVNEAYLAFIQQFEREPSNEELGELLEMNPREVGNMLKGN 176 Query: 185 ----SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 S++A ++ + +S+ D G + L+E ++ ++ + + +S+LN RE Sbjct: 177 GRHVSVDAPLSGEEGDSTMLDVITDEDDMGPDFRLME----QSLKDEVKQGLSILNIREV 232 Query: 241 RIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + A E P+TLE + + ++RERVRQI+ RA +++++S Sbjct: 233 EVLSAYYGLEGQKPLTLEEIGEMYGLTRERVRQIKERAIRRLRKS 277 >gi|126175320|ref|YP_001051469.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS155] gi|125998525|gb|ABN62600.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella baltica OS155] Length = 326 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 151/282 (53%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLSAEEEVYFSRKALK-GCAKSRNRMIESNLRLVVKIARRYNNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA+KL VS ++V S++ L GD A Sbjct: 175 LRTARELAQKL-DHEPTAEE---IAEKLQVSSADVSRMLKLNEKITSVDTPLWGDND-KA 229 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + + D+ V D D N + + ++ LN ++R + ARR Sbjct: 230 LLDILADDDNVGPDYKVQDEDIS--------------NSVVKWLNELNTKQREVL-ARRF 274 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ +E ++RERVRQI+ A K++++ + Q Sbjct: 275 GLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLRDLLGSQ 316 >gi|238786006|ref|ZP_04629967.1| RNA polymerase sigma factor rpoS [Yersinia bercovieri ATCC 43970] gi|238713067|gb|EEQ05118.1| RNA polymerase sigma factor rpoS [Yersinia bercovieri ATCC 43970] Length = 332 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|238750591|ref|ZP_04612091.1| RNA polymerase sigma factor rpoS [Yersinia rohdei ATCC 43380] gi|238711239|gb|EEQ03457.1| RNA polymerase sigma factor rpoS [Yersinia rohdei ATCC 43380] Length = 332 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 322 >gi|238758207|ref|ZP_04619386.1| RNA polymerase sigma factor rpoS [Yersinia aldovae ATCC 35236] gi|238703537|gb|EEP96075.1| RNA polymerase sigma factor rpoS [Yersinia aldovae ATCC 35236] Length = 332 Score = 121 bits (303), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|123441128|ref|YP_001005116.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. enterocolitica 8081] gi|332160357|ref|YP_004296934.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|122088089|emb|CAL10877.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. enterocolitica 8081] gi|318604409|emb|CBY25907.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. palearctica Y11] gi|325664587|gb|ADZ41231.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330859888|emb|CBX70219.1| RNA polymerase sigma factor rpoS [Yersinia enterocolitica W22703] Length = 332 Score = 121 bits (303), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 239 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQ 322 >gi|113969467|ref|YP_733260.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-4] gi|114046700|ref|YP_737250.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-7] gi|117919573|ref|YP_868765.1| RNA polymerase, sigma 38 subunit, RpoS [Shewanella sp. ANA-3] gi|113884151|gb|ABI38203.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-4] gi|113888142|gb|ABI42193.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-7] gi|117611905|gb|ABK47359.1| RNA polymerase, sigma 38 subunit, RpoS [Shewanella sp. ANA-3] Length = 326 Score = 121 bits (303), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 90/282 (31%), Positives = 150/282 (53%), Gaps = 35/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLSAEEEVYFSRKALK-GCEKSRNRMIESNLRLVVKIARRYNNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 LR + Q + D+ E+ IA+KL VS +V S++ L GD A Sbjct: 175 LRTARELAQKL-DHEPTAEE---IAEKLQVSSVDVSRMLKLNEKITSVDIPLGGDND-KA 229 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 L++ + + D+ V D D N + + ++ LN ++R + ARR Sbjct: 230 LLDVLADDDNVGPDYKVQDEDIS--------------NSVVKWLNELNTKQREVL-ARRF 274 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ +E ++RERVRQI+ A K++++ + Q Sbjct: 275 GLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLRDLLGAQ 316 >gi|197302434|ref|ZP_03167489.1| hypothetical protein RUMLAC_01162 [Ruminococcus lactaris ATCC 29176] gi|197298332|gb|EDY32877.1| hypothetical protein RUMLAC_01162 [Ruminococcus lactaris ATCC 29176] Length = 283 Score = 121 bits (303), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 89/267 (33%), Positives = 146/267 (54%), Gaps = 18/267 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI +IP+L+ +EE L +R + GD A RL +LRLVV IA Y G G+P+ ++ Sbjct: 24 YLNEIGQIPLLDAEEEKELGRRSVD-GDEEARRRLEEGNLRLVVSIAKHYTGRGIPLMDL 82 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+K+D + R +TY+ WWIK A+Q I + +++ + Sbjct: 83 IQEGNIGLMRAVEKYDFTKENRFSTYASWWIKEAIQRAIDQQSREIRVPVHVAEA--MKK 140 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKL-NVSESEVISMNCRLAGDESLNALINSSDKNS 197 ++R+ LQ PE+ IA+KL + S +V ++ L SL + +N+ Sbjct: 141 VQRISKELQQSLGREATPEE---IAEKLGDKSTEDVKNILSYLQNPVSLETPVGEDGENN 197 Query: 198 --SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV-- 253 +D + +L++KEE ++ ++ LN RE+++ R E+ Sbjct: 198 LGDMVEDKASPTPEEAMNLLVQKEE-------VSELLNALNDREKQVIRLRYGLEDGKTH 250 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + E +V+RERVRQIE+RA +K+ Sbjct: 251 TLEEIGEELKVTRERVRQIESRAMEKL 277 >gi|225026959|ref|ZP_03716151.1| hypothetical protein EUBHAL_01215 [Eubacterium hallii DSM 3353] gi|224955724|gb|EEG36933.1| hypothetical protein EUBHAL_01215 [Eubacterium hallii DSM 3353] Length = 422 Score = 121 bits (303), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 90/276 (32%), Positives = 146/276 (52%), Gaps = 21/276 (7%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 N E + Y+ EI +IP+L +EE LAKR E GD A +L ++LRL V IA Y G Sbjct: 147 NAEDPVRMYLKEIGRIPLLSSEEEIELAKRM-EEGDEEAKKKLSEANLRLTVSIAKRYSG 205 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-- 128 G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ ++ I ++I Sbjct: 206 RGMQFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQSITRAIADQARTIRIPVHM 265 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 R+ RRL LQ PE+ IA+ +N+ V+ ++ SL Sbjct: 266 VETMNRVNRTSRRL---LQEYG-REPTPEE---IAEAMNLPVERVLEISKISQEPVSLET 318 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEAR 246 I ++ S D++ +H + + +E + R L + M L+ RE+++ R Sbjct: 319 PI--GEEEDSHLGDFIQDEH-----IPVPADEAAHTLLREQLEKVMDTLSEREQKVLALR 371 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E+ P TLE + EF+V+RER+RQIEA+A +K+ Sbjct: 372 FGLEDGKPHTLEEVGREFQVTRERIRQIEAKALRKL 407 >gi|289549268|ref|YP_003474256.1| RNA polymerase, sigma 70 family subunit [Thermocrinis albus DSM 14484] gi|289182885|gb|ADC90129.1| putative RNA polymerase, sigma 70 family subunit [Thermocrinis albus DSM 14484] Length = 310 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 96/296 (32%), Positives = 150/296 (50%), Gaps = 40/296 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L++Y+ ++ KIP+L +EE LA+R +E GD A +LV S+LR V+ IA Y+GYGLP+ Sbjct: 10 LAQYLKKVSKIPLLTPEEEKELARRAKE-GDTEALRKLVESNLRFVISIAKQYQGYGLPL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-------- 127 SE+++ GN GL++A K+FDP+RG + +Y++WWI+ A+ + + + V+I Sbjct: 69 SELIAAGNYGLVEAAKRFDPDRGVKFISYAVWWIRQAIMQALSQQSGAVRIPLKQSHVIN 128 Query: 128 ----------------TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK--LNVS 169 TA + + L+ ++ E++ KK L +S Sbjct: 129 RIASIYSKLYKEQEKEPTAEEVAYEYTKEILQKEMERELGRPPTEEEIERRIKKEGLKIS 188 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH---DGQEQVLIEKEERKNRRN 226 EV SL+A I + + + D L+ H D +E+VL E E K Sbjct: 189 PQEVEKCLQICKAPLSLDAPIGEDE--DTFFVD-LLSKHGSADVEEKVLTEFLE-KEIEE 244 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ML + L +ERR+ E R E P TL + +SRERVRQ+E RA +K+ Sbjct: 245 MLDK----LPEKERRVIELRFGLRGEEPRTLREIGEILNISRERVRQLETRALRKL 296 >gi|284046131|ref|YP_003396471.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283950352|gb|ADB53096.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 367 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 144/275 (52%), Gaps = 15/275 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L ++ +I K+ +L QEE LAKR E GDL A ++V S+LRLVV IA YR GLP Sbjct: 99 LQLFLKDIGKVRLLTAQEEVDLAKRI-ERGDLDAKQKMVESNLRLVVSIAKNYRNQGLPF 157 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EG +GL++A +KFD +GF+ +TY+ WWI+ A+ + ++I +K Sbjct: 158 LDLIQEGTLGLVRAAEKFDYRKGFKFSTYATWWIRQAIARALADKARTIRIPVHVVEK-- 215 Query: 136 FFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L ++ + + +T+ +P IA + EV S+ SL + D Sbjct: 216 ---LNKIGRAERKLVTELGREP-TAEEIADVTGIDPEEVDSIKRSAQAPVSLEKPVG--D 269 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENP 252 + S++ ++ D + + E+ + L ++ L+ RERR+ E R E+P Sbjct: 270 EEESEFGQFIA---DERAESPYERAAEILTKEALREALENLSYRERRVLELRYGLGGEHP 326 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TL+ + F V+RER+RQIE ++ KK+Q + Q Sbjct: 327 RTLDEVGRTFNVTRERIRQIENQSLKKLQSLAEAQ 361 >gi|297588502|ref|ZP_06947145.1| DNA-directed RNA polymerase sigma subunit RpoD [Finegoldia magna ATCC 53516] gi|297573875|gb|EFH92596.1| DNA-directed RNA polymerase sigma subunit RpoD [Finegoldia magna ATCC 53516] Length = 389 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 88/278 (31%), Positives = 143/278 (51%), Gaps = 21/278 (7%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 +N + + Y+ EI KIP+L +EE LA+ E+G A +L ++LRLVV IA Y Sbjct: 114 INVDDPVKMYLKEIGKIPLLSAEEEVKLAQEM-ENGSKRAKKKLAEANLRLVVSIAKRYV 172 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GLM+AV KFD RGF+ +TY+ WWI+ A+ I ++I Sbjct: 173 GRGMSFLDLIQEGNLGLMKAVDKFDYTRGFKFSTYATWWIRQAITRAIADQARTIRIPV- 231 Query: 130 ANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + + RL + Q + D P IAK++ + +V R E ++ Sbjct: 232 ----HMVETINRLVRIERQLLQDLGRDPTN-EEIAKEMGIEVEKV--REVRKIAQEPVSL 284 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN---RRNMLTRSMSVLNPRERRIFEA 245 ++ S D++ ++ I +E N R L ++ LN RER++ Sbjct: 285 ETPIGEEEDSHLGDFI------EDDTAIAPDEAANFTMLREELEGILNTLNERERKVLAL 338 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + P TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 339 RFGLVDGTPRTLEEVGKDFDVTRERIRQIEAKALRKLK 376 >gi|166078602|gb|ABY81278.1| alternative sigma factor S [Listonella anguillarum] Length = 332 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 90/284 (31%), Positives = 146/284 (51%), Gaps = 40/284 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L QEE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 61 YLSEIGFSPLLTAQEEVLYARRSL-RGDEAARKRMIESNLRLVVKISRRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 178 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---------GDESLNAL 189 LR + Q + E + K +V S+++ +N R++ GD++L + Sbjct: 179 LRTARELSQKLDHEPTAEEIAFQLDKPEDV--SKMLRLNERISSVDTPIGGDGDKALLDI 236 Query: 190 I---NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I N+SD S D + R L + LNP+++ + AR Sbjct: 237 IPDTNNSDPEISTQDDDI--------------------RESLLNWLDELNPKQKEVL-AR 275 Query: 247 R---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 276 RFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 319 >gi|323493642|ref|ZP_08098763.1| RNA polymerase sigma factor RpoS [Vibrio brasiliensis LMG 20546] gi|323312165|gb|EGA65308.1| RNA polymerase sigma factor RpoS [Vibrio brasiliensis LMG 20546] Length = 326 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 89/285 (31%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 54 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 113 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNAL- 189 LR + Q + D+ E++ ++K L ++E + S++ + GD L Sbjct: 172 LRTARELSQKL-DHEPTAEEIATQLDKPVDDVSKMLRLNE-RISSVDTPIGGDGEKALLD 229 Query: 190 ----INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 IN+SD S D + +N L + LNP+++ + A Sbjct: 230 IIPDINNSDPEVSTQDDDI--------------------KNSLIHWLDELNPKQKEVL-A 268 Query: 246 RR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 269 RRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILIKQ 313 >gi|225174152|ref|ZP_03728151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiobacter alkaliphilus AHT 1] gi|225169937|gb|EEG78732.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiobacter alkaliphilus AHT 1] Length = 372 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 90/266 (33%), Positives = 137/266 (51%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKIPLLSSDEEIALAKRM-EAGDEEAKRRLAEANLRLVVSIAKKYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L P++ IA +N+SE V + ++A + SL I D Sbjct: 223 LIRVSRQLVQELGREPAPDE---IAHVMNISEERVREI-LKIAQEPVSLETPIGEED--D 276 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D Q E + + L + L PRE+++ R E+ TL Sbjct: 277 SHLGDFI---EDQDVQAPAEAAAFELLKEQLDDVLETLTPREKKVLTLRFGLEDGRSRTL 333 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + F V+RER+RQIEA+A +K++ Sbjct: 334 EEVGQVFGVTRERIRQIEAKALRKLR 359 >gi|291459241|ref|ZP_06598631.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] gi|291418495|gb|EFE92214.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] Length = 398 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 92/279 (32%), Positives = 141/279 (50%), Gaps = 43/279 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI IP+L +EE LA+R +E GD A RLV ++LRLVV IA Y G G+ I ++ Sbjct: 130 YLKEIGTIPLLSPEEEKELARRSKE-GDPLARQRLVEANLRLVVSIAKRYTGRGMSILDL 188 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI---------GTT 129 + EGN+GLM+ V+KF+P++GF+L+TY+ WWI+ + + +++ T Sbjct: 189 IQEGNLGLMKGVEKFEPDKGFKLSTYATWWIRQGITRALADQSRTIRVPVHMVESINKVT 248 Query: 130 ANQKRLFFNL------RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 Q+RL L + L L +T+ LK +++ ++K+ E+ V GD Sbjct: 249 RTQRRLTLELGYEPSPKELAASLN-MTEEKLK--EILDVSKQPTSLETPV--------GD 297 Query: 184 ESLNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 E D N S + + ++ V++ +E K N+ R VL Sbjct: 298 E--------EDSNLSDFVADEKMISPEQNAANVMLREEIDKLLENLKDRERDVL------ 343 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 I E TLE + F V+RERVRQIEA+A KK+ Sbjct: 344 IHRFGLHGEESHTLEEVGQMFGVTRERVRQIEAKALKKI 382 >gi|269123355|ref|YP_003305932.1| RNA polymerase, sigma 32 subunit, RpoH [Streptobacillus moniliformis DSM 12112] gi|268314681|gb|ACZ01055.1| RNA polymerase, sigma 32 subunit, RpoH [Streptobacillus moniliformis DSM 12112] Length = 280 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 83/283 (29%), Positives = 148/283 (52%), Gaps = 35/283 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S YI +++ +L +EE L KR RE D A H L+ S+LRLVV A G G+P+ Sbjct: 16 ISLYISDLQNHELLTSEEEVELFKRVREENDEQAKHLLILSNLRLVVSEAKKLLGNGMPL 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGN+GL++++ KFD +G R +TY++WWIK +++ I+ ++I + ++ Sbjct: 76 IDLISEGNLGLIKSIDKFDYTKGLRFSTYAVWWIKQTIKKSIVNLGRDIRIPSYKYEQLS 135 Query: 136 FFNLRRLKGHLQAITDN----------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 N + ++ + D +KP +VV + + E+IS+N + + Sbjct: 136 KVN-KVIESYQNEFGDIPTAEYIAEVLGMKPSKVVLLQNEF----QEIISLNDAIGDNIF 190 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L +I S D E +I ++ N+ ++ LNPRE+ I E Sbjct: 191 LEDVIGQS---------------DNVEDDIIRNDQLSEMYNLFDKT---LNPREKEILEL 232 Query: 246 RR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R L N + TL+ + + ++RERVRQIE +A K+++++++ Sbjct: 233 RYGLANNKIHTLKEIGEKLSITRERVRQIEKKAITKLKKNLEE 275 >gi|283797719|ref|ZP_06346872.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|291074616|gb|EFE11980.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|295092057|emb|CBK78164.1| RNA polymerase, sigma 70 subunit, RpoD [Clostridium cf. saccharolyticum K10] Length = 372 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 90/268 (33%), Positives = 143/268 (53%), Gaps = 19/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E GD SA RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKVPLLTPEEEIDLAKRM-EMGDESAKKRLAEANLRLVVSIAKRYVGRGMQFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 + EGN+GL++AV+K+D +GF+ +TY+ WWI+ A+ I ++I RL Sbjct: 165 IQEGNLGLIKAVEKYDYSKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINRLI 224 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 R+L LQ + + +A+KL++ V + +++ D SL I ++ Sbjct: 225 RTSRQL---LQELG----REPSAEELAEKLDMPVERVREI-MKISQDPVSLETPI--GEE 274 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PV 253 S D++ DH QV ++ L + L RE+++ R ++ P Sbjct: 275 EDSHLGDFIQDDH---VQVPVDAATYTLLHEQLMEVLDTLTDREQKVLRLRFGLDDGRPR 331 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 332 TLEEVGREFNVTRERIRQIEAKALRKLR 359 >gi|104774138|ref|YP_619118.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|103423219|emb|CAI98047.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|325125917|gb|ADY85247.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 378 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 92/274 (33%), Positives = 145/274 (52%), Gaps = 24/274 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG--LPIS 76 Y+ EI K+P+L + EE +AKR + +GD SA L ++LRLVV IA Y + + I Sbjct: 107 YLKEIGKVPLLSRDEEVEVAKRIK-NGDESAKDELAAANLRLVVSIAKRYAKHNGKMGIL 165 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGNIGLM+AV KFD +GF+ +TY+ WWI+ A+ + +++I + Sbjct: 166 DLIQEGNIGLMKAVDKFDYSKGFKFSTYATWWIRQAITRALADQDRMIRIPVHVVES--I 223 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS-SDK 195 + R++ LQ D N KPE++ A + E+I+ +A ++ ++L S ++ Sbjct: 224 NKMNRIQRTLQQDLDRNAKPEELAAEMNEPLQKVQEIIT----VAKNQETDSLDKSVGEE 279 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-----VLNPRERRIFEARRLQE 250 SQ D L ++ I EE ML +S L RE ++ + R E Sbjct: 280 GDSQLGDLL------EDNKAINPEEY-TAFEMLKDQLSGMMGEFLTDREAKVLKLRFGLE 332 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 N P TLE + V+RERVRQIE +A KK+++ Sbjct: 333 NYEPHTLEEVGRSLGVTRERVRQIEDKAVKKLKQ 366 >gi|188996015|ref|YP_001930266.1| RNA polymerase, sigma 32 subunit, RpoH [Sulfurihydrogenibium sp. YO3AOP1] gi|188931082|gb|ACD65712.1| RNA polymerase, sigma 32 subunit, RpoH [Sulfurihydrogenibium sp. YO3AOP1] Length = 285 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 87/270 (32%), Positives = 140/270 (51%), Gaps = 17/270 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ I KIP+L K+EE L K+ +E GD A +L+ S+LR V+ IA Y GYG+P S++ Sbjct: 13 YLKSIYKIPLLSKEEEESLLKKVKE-GDKEALQKLIISNLRFVINIAKRYAGYGIPFSDL 71 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +S GNIGL++A KKFD RG R +Y++WWI+ ++ I ++K R++ Sbjct: 72 ISAGNIGLIEAAKKFDTSRGVRFISYAVWWIRQSIINTIQHESEIIK-----KPNRMYAY 126 Query: 139 LRRLKGHLQAITDN-NLKP--EQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSS 193 ++ + D N +P +++++ K + + + N L SL+ I + Sbjct: 127 ASKINNAYSYLKDTLNREPSIDEIISFLKTQGIKVEKEMVENYFLFKSVFLSLDTPIEGT 186 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QEN 251 D + VY+ E+ + E++ ++ +L L+PRER I R E Sbjct: 187 DNDLVLEDTISVYNTLDIEKDINEEDLKRAIEALL----DTLSPRERTILIHRFGLNGEE 242 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TL + +SRERVRQIE R KK++ Sbjct: 243 PKTLNEVGEMVGLSRERVRQIENRILKKLR 272 >gi|77359643|ref|YP_339218.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas haloplanktis TAC125] gi|76874554|emb|CAI85775.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas haloplanktis TAC125] Length = 324 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 88/273 (32%), Positives = 151/273 (55%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 53 YLGEIGFSPLLSAEEE-VFFSRKSLKGCEASRKRMIESNLRLVVKIARRYNNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E++ A K ++++ +N ++A S++ I +N + Sbjct: 171 LRTARELTQKL-DHEPTAEEIAACLDKPVEDVTKMLRLNEKIA---SVDMPIGG--ENDT 224 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARR---LQENPVT 254 D + D++ V E E + N N + + LNP++R + ARR L P T Sbjct: 225 ALLDIIADDNN----VGPEGEVQNNDMNKHIVDWLGELNPKQREVL-ARRFGLLGYEPST 279 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE++ E ++RERVRQI+ A +++++ +Q++ Sbjct: 280 LEDVGREIGLTRERVRQIQVEALRRLKDILQQE 312 >gi|56267933|gb|AAV85439.1| RpoS [Listonella anguillarum] gi|56267935|gb|AAV85440.1| RpoS [Listonella anguillarum] gi|167987243|gb|ACA13292.1| RpoS [Listonella anguillarum] gi|222101826|gb|ACM44037.1| RNA polymerase sigma factor [Listonella anguillarum] Length = 333 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 90/284 (31%), Positives = 147/284 (51%), Gaps = 39/284 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L QEE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 61 YLSEIGFSPLLTAQEEVLYARRSL-RGDEAARKRMIESNLRLVVKISRRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 178 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---------GDESLNAL 189 LR + Q + D+ E++ K S+++ +N R++ GD++L + Sbjct: 179 LRTARELSQKL-DHEPTAEEIAFQLDKPVEDVSKMLRLNERISSVDTPIGGDGDKALLDI 237 Query: 190 I---NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I N+SD S D + R L + LNP+++ + AR Sbjct: 238 IPDTNNSDPEISTQDDDI--------------------RESLLNWLDELNPKQKEVL-AR 276 Query: 247 R---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 277 RFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 320 >gi|83747939|ref|ZP_00944970.1| RpoS [Ralstonia solanacearum UW551] gi|83725357|gb|EAP72504.1| RpoS [Ralstonia solanacearum UW551] Length = 381 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 144/276 (52%), Gaps = 21/276 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE + R + G+ +A ++ +LRLVV IA GY G+P+ ++ Sbjct: 112 YLNRISIKPLLTPAEELHFSTRAKA-GEFAARQVMIERNLRLVVSIAKGYLNRGVPLLDL 170 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 171 IEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQ 228 Query: 139 LRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + R K HL+ I + E + + K +V+S+N E +L D + Sbjct: 229 VLRAKRHLEKSGIDGRDASIEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPFDLD 282 Query: 197 S-SQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--- 251 S + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 283 SGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLNHIE 337 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 338 PATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 373 >gi|294634769|ref|ZP_06713298.1| RNA polymerase sigma factor RpoS [Edwardsiella tarda ATCC 23685] gi|291091828|gb|EFE24389.1| RNA polymerase sigma factor RpoS [Edwardsiella tarda ATCC 23685] Length = 328 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD ++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 60 YLGEIGYAPLLTAEEEVFFARRAL-RGDEASRKRMIESNLRLVVKISRRYSNRGLALLDL 118 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 119 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 178 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 179 RTARELSHKLDHEPSAEEIAEQLEKPVHDVSRMLRLN---ERITSVDTPLGGDSEKALLD 235 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+N S +D D Q V E +R +L R +L +EA Sbjct: 236 ILTDENESGPEDCTQNDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 284 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 285 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 319 >gi|168768834|ref|ZP_02793841.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4486] gi|189362139|gb|EDU80558.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4486] Length = 329 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 143/277 (51%), Gaps = 26/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D D ++ ++ E +R +L R +L +EA Sbjct: 237 ILADEKENGPED-TTQDDDMKQSIVKWLFENAKQREVLARRFGLLG------YEA----- 284 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 285 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 319 >gi|116514228|ref|YP_813134.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|116093543|gb|ABJ58696.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] Length = 378 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 92/274 (33%), Positives = 145/274 (52%), Gaps = 24/274 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG--LPIS 76 Y+ EI K+P+L + EE +AKR + +GD SA L ++LRLVV IA Y + + I Sbjct: 107 YLKEIGKVPLLSRDEEVEVAKRIK-NGDESAKDELAAANLRLVVSIAKRYAKHNGKMGIL 165 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGNIGLM+AV KFD +GF+ +TY+ WWI+ A+ + +++I + Sbjct: 166 DLIQEGNIGLMKAVDKFDYSKGFKFSTYATWWIRQAITRALADQDRMIRIPVHVVES--I 223 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS-SDK 195 + R++ LQ D N KPE++ A + E+I+ +A ++ ++L S ++ Sbjct: 224 NKMNRIQRTLQQDLDRNAKPEELAAEMNEPLQKVQEIIT----VAKNQETDSLDKSVGEE 279 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-----VLNPRERRIFEARRLQE 250 SQ D L ++ I EE ML +S L RE ++ + R E Sbjct: 280 GDSQLGDLL------EDNKAINPEEY-TAFEMLKDQLSGMMGEFLTDREAKVLKLRFGLE 332 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 N P TLE + V+RERVRQIE +A KK+++ Sbjct: 333 NYEPHTLEEVGRSLGVTRERVRQIEDKAVKKLKQ 366 >gi|300724640|ref|YP_003713965.1| sigma S (sigma 38) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|6643920|gb|AAF20816.1|AF198628_2 RpoS [Xenorhabdus nematophila] gi|297631182|emb|CBJ91877.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Xenorhabdus nematophila ATCC 19061] Length = 331 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 83/277 (29%), Positives = 144/277 (51%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD++A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLGEIGFSPLLTAEEEVLFARRAL-RGDIAARQRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 180 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H ++ I + KP + ++ +LN + S++ ++GD L Sbjct: 181 RTARELAHKLDHEPTVEEIAERLDKPVEDISRMMRLN---ERITSVDTPISGDSDKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N S + + D Q V E +R +L R +L +EA Sbjct: 238 ILSDENDSGPETTIQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEAE---- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ +++++ + Q Sbjct: 288 ---TLEDVGREIGLTRERVRQIQVEGLRRLRDILHTQ 321 >gi|90407885|ref|ZP_01216060.1| putative RNA polymerase sigma-38 factor [Psychromonas sp. CNPT3] gi|90310976|gb|EAS39086.1| putative RNA polymerase sigma-38 factor [Psychromonas sp. CNPT3] Length = 313 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 91/274 (33%), Positives = 153/274 (55%), Gaps = 19/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L QEE A+R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 44 YLGEIGFSPLLTAQEEVYYARRSL-RGDDVARKRMIESNLRLVVKISRRYTNRGLSLLDL 102 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ K+L Sbjct: 103 VEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKKLNVY 161 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE-SEVISMNCRLAGDESLNALI-NSSDKN 196 LR + ++T + +A+A + + S+++ +N R++ S++ I N+SDK Sbjct: 162 LRTARELSHSLTHEPTAED--IALALDIPAKDVSKILKLNERIS---SVDIPIGNNSDK- 215 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPV 253 + L D +E + + E ++ + + + LNP++R + ARR L Sbjct: 216 -----ELLDIIPDRKEIIPENELENEDMKLRIVEWLEDLNPKQREVL-ARRFGLLGYEAA 269 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLEN+ E ++RERVRQI+ A K ++E + +Q Sbjct: 270 TLENVGKEIGLTRERVRQIQVEALKCLREVLSQQ 303 >gi|2624188|emb|CAA05499.1| rpoS gene [Kluyvera cryocrescens] Length = 345 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 141/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 76 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 134 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 135 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 194 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 195 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 251 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+N + +D D Q V E +R +L R +L +EA Sbjct: 252 ILADENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 300 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 301 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 335 >gi|238898782|ref|YP_002924464.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229466542|gb|ACQ68316.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 335 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 147/272 (54%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 70 YLGEIGYSPLLTAAEEIYFARRVL-CGDESSRRRMIESNLRLVVKISRRYINRGLPLLDL 128 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 129 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 187 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + L D++ PE++ K S ++ +N R++ ++ + N+++K Sbjct: 188 LRAAR-ELSHKLDHDPSPEEIAEQLNKPVDYVSRMLRLNERISSVDT--SFGNAAEKG-- 242 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 D L + D + + ++ K + + + L+ ++R + ARR L P TL Sbjct: 243 -LLDVLSDETDNDPENTTQNDDMKKS---VVKWLFELSTKQREVL-ARRFGLLGYEPATL 297 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E + E ++RERVRQI+ +++E +Q Q Sbjct: 298 EEVGCEIGLTRERVRQIQVEGLLRLKEMLQTQ 329 >gi|169830688|ref|YP_001716670.1| RNA polymerase sigma factor RpoD [Candidatus Desulforudis audaxviator MP104C] gi|169637532|gb|ACA59038.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Desulforudis audaxviator MP104C] Length = 360 Score = 120 bits (301), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 87/265 (32%), Positives = 140/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LA+R E GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 94 YLKEIGRIPLLTPEEEVSLARRM-EAGDDEAKRRLIEANLRLVVSIAKRYVGRGMLFLDL 152 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++G++ +TY+ WWI+ A+ I ++I + Sbjct: 153 IQEGNLGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 210 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA+++++SE +V + SL I ++ S Sbjct: 211 LIRISRQLLQELGREPLPEE---IAREMDISEDKVREIQKIAQEPVSLETPIG--EEEDS 265 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + D D Q E+ R L + L RE+R+ R ++ TLE Sbjct: 266 HLGDF-IEDQDAQAPA--EEASFTLLREQLDDVLKTLTEREQRVLRLRFGLDDGRARTLE 322 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+ +K++ Sbjct: 323 EVGQEFGVTRERIRQIEAKTLRKLR 347 >gi|238921111|ref|YP_002934626.1| RNA polymerase sigma factor RpoS [Edwardsiella ictaluri 93-146] gi|238870680|gb|ACR70391.1| RNA polymerase sigma factor RpoS, putative [Edwardsiella ictaluri 93-146] Length = 328 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD ++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 60 YLSEIGYAPLLTAEEEVFFARRAL-RGDEASRKRMIESNLRLVVKISRRYSNRGLALLDL 118 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 119 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 178 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 179 RTARELAHKLDHEPSAEEIAERLEKPVHDVSRMLRLN---ERITSVDTPLGGDSEKALLD 235 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+N S +D D Q V E +R +L R +L +EA Sbjct: 236 ILTDENESGPEDCTQNDDMKQSIVNWLFELNAKQREVLARRFGLLG------YEA----- 284 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 285 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQMQ 319 >gi|169824520|ref|YP_001692131.1| RNA polymerase sigma A factor [Finegoldia magna ATCC 29328] gi|302380672|ref|ZP_07269137.1| RNA polymerase sigma factor RpoD [Finegoldia magna ACS-171-V-Col3] gi|303233690|ref|ZP_07320344.1| RNA polymerase sigma factor RpoD [Finegoldia magna BVS033A4] gi|167831325|dbj|BAG08241.1| RNA polymerase sigma A factor [Finegoldia magna ATCC 29328] gi|302311615|gb|EFK93631.1| RNA polymerase sigma factor RpoD [Finegoldia magna ACS-171-V-Col3] gi|302495124|gb|EFL54876.1| RNA polymerase sigma factor RpoD [Finegoldia magna BVS033A4] Length = 388 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 88/278 (31%), Positives = 142/278 (51%), Gaps = 21/278 (7%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 +N + + Y+ EI KIP+L EE LA+ E+G A +L ++LRLVV IA Y Sbjct: 113 INVDDPVKMYLKEIGKIPLLSADEEVQLAQEM-ENGSKRAKKKLAEANLRLVVSIAKRYV 171 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GLM+AV KFD RGF+ +TY+ WWI+ A+ I ++I Sbjct: 172 GRGMSFLDLIQEGNLGLMKAVDKFDYTRGFKFSTYATWWIRQAITRAIADQARTIRIPV- 230 Query: 130 ANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + + RL + Q + D P IAK++ + +V R E ++ Sbjct: 231 ----HMVETINRLVRIERQLLQDLGRDPTN-EEIAKEMGIEVEKV--REVRKIAQEPVSL 283 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN---RRNMLTRSMSVLNPRERRIFEA 245 ++ S D++ ++ I +E N R L ++ LN RER++ Sbjct: 284 ETPIGEEEDSHLGDFI------EDDTAIAPDEAANFTMLREELEGILNTLNERERKVLAL 337 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + P TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 338 RFGLVDGTPRTLEEVGKDFDVTRERIRQIEAKALRKLK 375 >gi|145300341|ref|YP_001143182.1| RNA polymerase, sigma factor RpoS [Aeromonas salmonicida subsp. salmonicida A449] gi|142853113|gb|ABO91434.1| RNA polymerase, sigma factor RpoS [Aeromonas salmonicida subsp. salmonicida A449] Length = 327 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 93/274 (33%), Positives = 144/274 (52%), Gaps = 19/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD +A R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVYYARRAL-RGDKAARKRMIESNLRLVVKIACRYNNRGLVLLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + L D+ E IA L+ S +V M LN I S D Sbjct: 175 LRTAR-ELSHRLDHEPTAED---IAFALDRSVDDVNRML-------KLNEKITSVDTPIG 223 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEARR---LQENPV 253 +D + D E+ + + E ++ R + + LNP++R + ARR L P Sbjct: 224 GDRDKALLDVLSDERGMGPELESQDDDMRASIVHWLEELNPKQREVL-ARRFGLLGYEPA 282 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ SE ++RERVRQI+ ++++E + Q Sbjct: 283 TLEDVGSEIGLTRERVRQIQVEGLRRLREILLGQ 316 >gi|229520830|ref|ZP_04410252.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TM 11079-80] gi|229342063|gb|EEO07059.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TM 11079-80] Length = 335 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 88/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 +R + L D+ PE++ + K L ++E + S++ + GD AL+ Sbjct: 180 VRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER-ISSVDTPIGGDGD-KALL 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + ++ D D +E +L N L LNP+++ + ARR Sbjct: 237 DILPDSHNADPEFSTQDDDIRESLL----------NWLDE----LNPKQKEVL-ARRFGL 281 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 282 LGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 321 >gi|269140216|ref|YP_003296917.1| RNA polymerase sigma factor [Edwardsiella tarda EIB202] gi|228204742|gb|ACP74149.1| RNA polymerase sigma factor [Edwardsiella tarda] gi|267985877|gb|ACY85706.1| RNA polymerase sigma factor [Edwardsiella tarda EIB202] gi|304560047|gb|ADM42711.1| RNA polymerase sigma factor RpoS [Edwardsiella tarda FL6-60] Length = 328 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD ++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 60 YLGEIGYAPLLTAEEEVFFARRAL-RGDEASRKRMIESNLRLVVKISRRYSNRGLALLDL 118 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 119 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 178 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 179 RTARELSHKLDHEPSAEEIAERLEKPVHDVSRMLRLN---ERITSVDTPLGGDSEKALLD 235 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+N S +D D Q V E +R +L R +L +EA Sbjct: 236 ILTDENESGPEDCTQNDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 284 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 285 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQMQ 319 >gi|37680992|ref|NP_935601.1| DNA-directed RNA polymerase, sigma subunit [Vibrio vulnificus YJ016] gi|37199742|dbj|BAC95572.1| DNA-directed RNA polymerase, sigma subunit [Vibrio vulnificus YJ016] Length = 330 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 58 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 117 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 176 LRTARELSQKL-DHEPTAEEIAAQLDIPVDDVSKMLRLNER-ISSVDTPIGGDGEKALLD 233 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D ++ R L + LNP+++ + ARR Sbjct: 234 IIPDANNS---DPEVSTQD------------EDMRVSLIHWLEELNPKQKEVL-ARRFGL 277 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 278 LGYEPSTLEEVGQEIGLTRERVRQIQVEGLRRLREVLIKQ 317 >gi|269925789|ref|YP_003322412.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789449|gb|ACZ41590.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 363 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LAKR E GD A R V ++LRLVV IA Y G GLP+ ++ Sbjct: 95 YLREIGSVPLLTPKEEVELAKRI-EKGDTEALQRFVLANLRLVVSIAKRYVGRGLPLLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KFD +G R +TY+ WWI+ A+ I +++ N++ Sbjct: 154 IQEGNIGLMRAVQKFDWRKGHRFSTYATWWIRQAITRAIGDKSREIRLPAHINEE--LNR 211 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN-SSDKNS 197 + R++ L + PE+ IA+K S V + L SL+ + +D Sbjct: 212 INRIRQQLSQTVNREPTPEE---IAEKAGTSPERVRELLGYLQQPVSLDTPVGEEADSTL 268 Query: 198 SQWQDWLVY--DHDGQEQVLIEKEERKNRRNMLTRSMS-VLNPRERRIFEARR--LQENP 252 ++ + + + ++VL + + R + VL PRE+R+ + R + Sbjct: 269 GEFVPDVRANPEEEATDEVL---------KTEMDRVLDEVLTPREKRVLQLRYGLGDGHT 319 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +LE + E V+RERVRQ+E +A +K++ Sbjct: 320 YSLEKVGRELGVTRERVRQLEKQALEKLR 348 >gi|239814806|ref|YP_002943716.1| RNA polymerase, sigma 70 family subunit [Variovorax paradoxus S110] gi|239801383|gb|ACS18450.1| putative RNA polymerase, sigma 70 family subunit [Variovorax paradoxus S110] Length = 331 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 138/279 (49%), Gaps = 13/279 (4%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 G L+ Y+ ++R+ + +EEY A R GD +A ++ +LRLVV IA Y G Sbjct: 49 GADALTIYLRQVRRTELFTPEEEYQAACAARA-GDFAARQSMIEHNLRLVVNIAKAYLGR 107 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK--IGTT 129 G+P+S+++ EGN+GLM A+ KF+PERGFR +TY+ WWI+ +++ +L ++ + Sbjct: 108 GVPLSDLIEEGNLGLMHAITKFEPERGFRFSTYATWWIRQSVERAVLTQARAIRLPVHVV 167 Query: 130 ANQKRLFFNLRRLKGHLQAIT--DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 +++ R L+G + + + ++ E V A L + V + SL+ Sbjct: 168 RELQQVLRARRTLEGDAEFLAHRPDGVRVEDVAAF---LGLEVQAVAELLALAEAPRSLD 224 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A D+ + D G + E +L + + L+ RER + E R Sbjct: 225 AGDAHGDEGFTLADTVASEDEQGDPTDVTHTHEVA---RLLDQWVHALDAREREVLEGRY 281 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + P TLE LS ++RERVRQI+ A K++ + Sbjct: 282 GLHDREPETLEVLSVRLGLTRERVRQIQNEALAKMRRQL 320 >gi|323495851|ref|ZP_08100919.1| RNA polymerase sigma factor RpoS [Vibrio sinaloensis DSM 21326] gi|323319067|gb|EGA72010.1| RNA polymerase sigma factor RpoS [Vibrio sinaloensis DSM 21326] Length = 331 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 88/285 (30%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 59 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNAL- 189 LR + Q + D+ E++ ++K L ++E + S++ + GD L Sbjct: 177 LRTARELSQKL-DHEPTAEEIATKLDKPVDDVSKMLRLNE-RISSVDTPIGGDGEKALLD 234 Query: 190 ----INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 +N+SD S D + +N L + LNP+++ + A Sbjct: 235 IIPDVNNSDPEVSTQDDDI--------------------KNSLIHWLDELNPKQKEVL-A 273 Query: 246 RR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 274 RRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILIKQ 318 >gi|163802977|ref|ZP_02196864.1| protein-L-isoaspartate O-methyltransferase [Vibrio sp. AND4] gi|159173267|gb|EDP58095.1| protein-L-isoaspartate O-methyltransferase [Vibrio sp. AND4] Length = 328 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 56 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 114 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 115 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 174 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 231 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S + D D + +++ EE LNP+++ + ARR Sbjct: 232 IIPDANNSD-PEVSTQDDDIKSSLILWLEE--------------LNPKQKEVL-ARRFGL 275 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 276 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQ 315 >gi|147677242|ref|YP_001211457.1| RNA polymerase sigma factor RpoD [Pelotomaculum thermopropionicum SI] gi|146273339|dbj|BAF59088.1| DNA-directed RNA polymerase, sigma subunit [Pelotomaculum thermopropionicum SI] Length = 363 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 144/265 (54%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 97 YLKEIGRVPLLTPEEEVELAKRM-EKGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 155 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 156 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 213 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ IAK++N++E +V + ++A E ++ ++ S Sbjct: 214 LVRVQRQLLQELGRDPSPEE---IAKEMNITEDKVREI-LKIA-QEPVSLETPIGEEEDS 268 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + DH+ + E+ R L + L RE+R+ R ++ TLE Sbjct: 269 HLGDF-IEDHEARAPA--EEASFTLLREQLDEVLKTLTEREQRVLRLRFGLDDGRARTLE 325 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F V+RER+RQIEA+ +K++ Sbjct: 326 EVGQKFGVTRERIRQIEAKTLRKLR 350 >gi|330828425|ref|YP_004391377.1| RNA polymerase sigma factor [Aeromonas veronii B565] gi|328803561|gb|AEB48760.1| RNA polymerase sigma factor [Aeromonas veronii B565] Length = 327 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 93/275 (33%), Positives = 146/275 (53%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD +A R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVYYARRAL-RGDKAARKRMIESNLRLVVKIARRYNNRGLVLLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + L D+ E IA L+ S +V M LN I S D Sbjct: 175 LRTAR-ELSHRLDHEPTAED---IAFALDRSVDDVNRML-------KLNEKITSVDTPIG 223 Query: 199 QWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENP 252 +D + D E+ + +E +E + R+ + + LNP++R + ARR L P Sbjct: 224 GDRDKALLDVLSDERGMGPELESQE-DDMRSSIVHWLEELNPKQREVL-ARRFGLLGYEP 281 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ +E ++RERVRQI+ ++++E + Q Sbjct: 282 ATLEDVGAEIGLTRERVRQIQVEGLRRLREILLSQ 316 >gi|297518365|ref|ZP_06936751.1| RNA polymerase sigma factor RpoS [Escherichia coli OP50] Length = 327 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 141/274 (51%), Gaps = 22/274 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF- 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ ++ + Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 -NLRRLKGH---LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R L H + I + KP V+ +LN + S++ L GD L + Sbjct: 180 RTARELSDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLDILA 236 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 DEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA-------A 283 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 284 TLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 317 >gi|197286082|ref|YP_002151954.1| RNA polymerase sigma factor RpoS [Proteus mirabilis HI4320] gi|227356592|ref|ZP_03840979.1| RNA polymerase sigma factor RpoS [Proteus mirabilis ATCC 29906] gi|194683569|emb|CAR44440.1| RNA polymerase sigma factor RpoS [Proteus mirabilis HI4320] gi|227163348|gb|EEI48275.1| RNA polymerase sigma factor RpoS [Proteus mirabilis ATCC 29906] Length = 329 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 147/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKI+ Y GL + ++ Sbjct: 59 YLGEIGYSPLLSAEEEVFFARRAL-RGDIPSRQRMIESNLRLVVKISRRYTNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 118 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 177 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H ++ I KP V ++K L ++E + S++ + GD L Sbjct: 178 RTARELAHKLDHEPSVEEIAQTLDKP--VDDVSKMLRLNER-ISSVDTPIGGDSDKALLD 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD+N +G E + + N + + + + LNP++R + ARR Sbjct: 235 IISDEN-----------EEGPEATI----QNNNLKENIVKWLFELNPKQREVL-ARRFGL 278 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ +++++ +Q Q Sbjct: 279 LGYEAETLEDVGREIGLTRERVRQIQVEGLRRLKDILQGQ 318 >gi|291522892|emb|CBK81185.1| RNA polymerase, sigma 70 subunit, RpoD [Coprococcus catus GD/7] Length = 366 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 146/281 (51%), Gaps = 45/281 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + +L +EE L+KR E GD A R++ ++LRLVV IA Y G G+P ++ Sbjct: 99 YLKEIGSVKLLSPEEEVELSKRA-EAGDQKAKDRIIEANLRLVVSIAKKYVGRGIPFLDL 157 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ ++ I +++ T N+ Sbjct: 158 IQEGNMGLIKAVEKFDYAKGFKFSTYATWWIRQSITRGIADKGKTIRVPVHMVETINK-- 215 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLA--G 182 LR + LQ + E IA++L ++ +V +SM+ + Sbjct: 216 ---TLRMSRNLLQELGREPTSEE----IAERLGTTKQKVEEALEISRDPVSMDSPIGEEE 268 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D SL I D+N ++ D + +++KE L ++ L RER++ Sbjct: 269 DSSLGDFI--EDEN-------MLSPSDSADYQMLKKE--------LVNALDTLTDRERKV 311 Query: 243 FEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E R + TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 312 IELRFGLIDGQARTLEEVGKEFKVTRERIRQIEAKALRKLR 352 >gi|27364956|ref|NP_760484.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus CMCP6] gi|320155343|ref|YP_004187722.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus MO6-24/O] gi|27361102|gb|AAO10011.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus CMCP6] gi|319930655|gb|ADV85519.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus MO6-24/O] Length = 330 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 58 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 117 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 176 LRTARELSQKL-DHEPTAEEIAAQLDIPVDDVSKMLRLNER-ISSVDTPIGGDGEKALLD 233 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D ++ R L + LNP+++ + ARR Sbjct: 234 IIPDANNS---DPEVSTQD------------EDMRVSLIHWLEELNPKQKEVL-ARRFGL 277 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 278 LGYEPSTLEEVGQEIGLTRERVRQIQVEGLRRLREVLIKQ 317 >gi|82778108|ref|YP_404457.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae Sd197] gi|81242256|gb|ABB62966.1| RNA polymerase, sigma S factor [Shigella dysenteriae Sd197] Length = 330 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 141/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E +++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIDLTRERVRQIQVEGLRRLREILQTQ 320 >gi|209695924|ref|YP_002263854.1| RNA polymerase sigma subunit RpoS (sigma-38) [Aliivibrio salmonicida LFI1238] gi|208009877|emb|CAQ80190.1| RNA polymerase sigma subunit RpoS (sigma-38) [Aliivibrio salmonicida LFI1238] Length = 321 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 96/276 (34%), Positives = 151/276 (54%), Gaps = 23/276 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R GD++A R++ S+LRLVVKIA Y GL + ++ Sbjct: 49 YLSEIGFSPLLTAEEE-VYFSRLALKGDVAARSRMIESNLRLVVKIARRYNHRGLALLDL 107 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 108 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR + Q + D+ PE+ IA+KL+ S+V + +N R+A +S+ A SDK Sbjct: 167 LRAARELSQKL-DHEPTPEE---IAEKLDKPVSDVSRMLRLNERVASVDSMVA--GDSDK 220 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARR---LQEN 251 ++ D + E E + N N L + LNP+++ + ARR L Sbjct: 221 ALLD----IIPDTKHADP---ESETQTNDINESLVGWLGQLNPKQKEVV-ARRFGLLGYE 272 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ ++++E + +Q Sbjct: 273 ASTLEQVGREIGLTRERVRQIQVEGLRRLREIMTQQ 308 >gi|28200488|gb|AAO31615.1| RNA polymerase subunit sigma factor S [Vibrio vulnificus] Length = 343 Score = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 58 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 117 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 176 LRTARELSQKL-DHEPTAEEIAAQLDIPVDDVSKMLRLNER-ISSVDTPIGGDGEKALLD 233 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D ++ R L + LNP+++ + ARR Sbjct: 234 IIPDANNS---DPEVSTQD------------EDMRVSLIHWLEELNPKQKEVL-ARRFGL 277 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 278 LGYEPSTLEEVGQEIGLTRERVRQIQVEGLRRLREVLIKQ 317 >gi|86146341|ref|ZP_01064665.1| DNA-directed RNA polymerase, sigma subunit [Vibrio sp. MED222] gi|85835820|gb|EAQ53954.1| DNA-directed RNA polymerase, sigma subunit [Vibrio sp. MED222] Length = 326 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 54 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 113 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ + ++K L ++E V S++ + GD L Sbjct: 172 LRTARELSQKL-DHEPTAEEIASKLDKPVGDVSKMLRLNE-RVSSVDTPIGGDGEKALLD 229 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + +N L + LNP+++ + ARR Sbjct: 230 IIPDINNS---DPEVSTQDS------------DIKNSLIFWLDELNPKQKEVL-ARRFGL 273 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 274 LGYEPSTLEEVGREISLTRERVRQIQVEGLRRLREILIKQ 313 >gi|148978207|ref|ZP_01814737.1| DNA-directed RNA polymerase, sigma subunit [Vibrionales bacterium SWAT-3] gi|145962629|gb|EDK27905.1| DNA-directed RNA polymerase, sigma subunit [Vibrionales bacterium SWAT-3] Length = 326 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 54 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 113 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ + ++K L ++E V S++ + GD L Sbjct: 172 LRTARELSQKL-DHEPTAEEIASKLDKPVGDVSKMLRLNE-RVSSVDTPIGGDGEKALLD 229 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + +N L + LNP+++ + ARR Sbjct: 230 IIPDINNS---DPEVSTQDS------------DIKNSLIFWLDELNPKQKEVL-ARRFGL 273 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 274 LGYEPSTLEEVGREISLTRERVRQIQVEGLRRLREILIKQ 313 >gi|332999494|gb|EGK19079.1| RNA polymerase sigma factor RpoS [Shigella flexneri VA-6] Length = 359 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 89/290 (30%), Positives = 146/290 (50%), Gaps = 26/290 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ-VELSSSPPLLQK 299 TLE++ E ++RERVRQI+ ++++E +Q Q E S+ P + K Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGAEYRSAVPRVSK 333 >gi|84390122|ref|ZP_00991384.1| DNA-directed RNA polymerase, sigma subunit [Vibrio splendidus 12B01] gi|84376776|gb|EAP93651.1| DNA-directed RNA polymerase, sigma subunit [Vibrio splendidus 12B01] Length = 326 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 54 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 113 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ + ++K L ++E V S++ + GD L Sbjct: 172 LRTARELSQKL-DHEPTAEEIASKLDKPVGDVSKMLRLNE-RVSSVDTPIGGDGEKALLD 229 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + +N L + LNP+++ + ARR Sbjct: 230 IIPDINNS---DPEVSTQDS------------DIKNSLIFWLDELNPKQKEVL-ARRFGL 273 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 274 LGYEPSTLEEVGREISLTRERVRQIQVEGLRRLREILIKQ 313 >gi|183600216|ref|ZP_02961709.1| hypothetical protein PROSTU_03759 [Providencia stuartii ATCC 25827] gi|188022512|gb|EDU60552.1| hypothetical protein PROSTU_03759 [Providencia stuartii ATCC 25827] Length = 328 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 88/284 (30%), Positives = 154/284 (54%), Gaps = 32/284 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 59 YLSEIGFSPLLTAEEEVFYARRAL-RGDVASRQRMIESNLRLVVKISRRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNIY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ +++ L ++E + S++ +AGD + L Sbjct: 177 LRTARELAQKL-DHEPSAEEIAEQLDKPVEDVSRMLRLNER-ITSVDTPIAGDSEKSLLE 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD+N S G E + + ++N + + + LNP++R + ARR Sbjct: 235 VLSDENES-----------GPEHTIQDNNLKEN----IVKWLFELNPKQREVL-ARRFGL 278 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELS 291 L TLE + E ++RERVRQI+ +++++ +Q + ELS Sbjct: 279 LGYEAETLEEVGREIGLTRERVRQIQVEGLRRLKDILQGE-ELS 321 >gi|282882556|ref|ZP_06291177.1| RNA polymerase sigma factor RpoD [Peptoniphilus lacrimalis 315-B] gi|281297698|gb|EFA90173.1| RNA polymerase sigma factor RpoD [Peptoniphilus lacrimalis 315-B] Length = 361 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 88/267 (32%), Positives = 140/267 (52%), Gaps = 17/267 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE +AKR E+GD SA L ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGKIPLLTGDEEVEIAKRM-ENGDNSAKKELAEANLRLVVSIAKRYVGRGMSFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 154 IQEGNLGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 211 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ IAK++N+ +V + SL I ++ S Sbjct: 212 LVRVQRQLVQELGRDPLPEE---IAKEMNIEVEKVREIQKIAQEPVSLETPI--GEEEDS 266 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEARRLQEN--PVT 254 D++ E++L ++ R L+ + L RE+++ R ++ T Sbjct: 267 HLGDFI-----PDEEILSPQDAATFTLLREQLSTVLETLTDREKKVLTLRFGLDDGRART 321 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 LE + EF V+RER+RQIEA+A +K++ Sbjct: 322 LEEVGKEFAVTRERIRQIEAKAIRKLR 348 >gi|251788478|ref|YP_003003199.1| RNA polymerase sigma factor RpoS [Dickeya zeae Ech1591] gi|247537099|gb|ACT05720.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dickeya zeae Ech1591] Length = 330 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 90/281 (32%), Positives = 146/281 (51%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GDLS+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDLSSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V +LN + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAERLDKPVDDVNRMLRLN---ERITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQVQ 320 >gi|218710550|ref|YP_002418171.1| RNA polymerase sigma factor RpoS [Vibrio splendidus LGP32] gi|218323569|emb|CAV19793.1| RNA polymerase sigma factor rpoS (Sigma-38 factor) [Vibrio splendidus LGP32] Length = 335 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 90/280 (32%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 63 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ + ++K L ++E V S++ + GD L Sbjct: 181 LRTARELSQKL-DHEPTAEEIASKLDKPVGDVSKMLRLNE-RVSSVDTPIGGDGEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + +N L + LNP+++ + ARR Sbjct: 239 IIPDINNS---DPEVSTQD------------SDIKNSLIFWLDELNPKQKEVL-ARRFGL 282 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 283 LGYEPSTLEEVGREISLTRERVRQIQVEGLRRLREILIKQ 322 >gi|283795510|ref|ZP_06344663.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|291077175|gb|EFE14539.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] Length = 377 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 84/271 (30%), Positives = 141/271 (52%), Gaps = 13/271 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LAKR E GD+SA RL+ ++LRLVV IA Y G G+ ++ Sbjct: 112 YLKEIGTVPLLSAEEELRLAKRKAE-GDVSAKERLIEANLRLVVSIAKRYTGRGMSFLDL 170 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ + Sbjct: 171 VQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPV-----HMVET 225 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + ++ + +T V ++ L++SE +V+ + SL I D S Sbjct: 226 INKMSKMQRKLTLELGYEPSVAELSAALDMSEDKVMEIMQIAREPASLETPIGEED--DS 283 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ DG E R + + L RER++ R E+ P TLE Sbjct: 284 NLGDFVA---DGNVVTPEGNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLE 340 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 341 EVGKEFNVTRERIRQIEAKALRKLRNPVRSK 371 >gi|41855|emb|CAA78689.1| KatF [Escherichia coli] Length = 377 Score = 119 bits (299), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 88/290 (30%), Positives = 145/290 (50%), Gaps = 26/290 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 TLE++ E ++RERVRQI+ ++++E +Q Q L+ P + P Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ-GLNIEAPFARNP 344 >gi|90577776|ref|ZP_01233587.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] gi|90440862|gb|EAS66042.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] Length = 291 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 92/300 (30%), Positives = 156/300 (52%), Gaps = 35/300 (11%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 +N+K G+I + Y+ EI + P+L K++E +L R GD + + L+ S+LRL Sbjct: 3 INKKEEQFSHGGDI-VHLYLKEISEKPLLTKEDE-ILYSRKSLCGDACSKNVLIESNLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA YRG + IS+++ EGNIGLM AV+KFDPE+GFR +TY+ WWIK ++ I Sbjct: 61 VVSIAKKYRGSSIHISDLIDEGNIGLMTAVEKFDPEKGFRFSTYATWWIKQTIERAIHNQ 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVISMNC 178 +++ +++ ++ H Q + NN +P E V + K S +S + Sbjct: 121 GRTIRLPVHVSKEINTI----IRTHKQLVKKNNQEPSTELVAEVLNKTLDDVSTTLSYDT 176 Query: 179 RLAG-DESLNALINS-------SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + D+S+ + S +D+NS++ D LV D + I+K + Sbjct: 177 PIVSYDQSITSEATSQSIAVLIADENSAK-PDELVDD------LAIQK--------ITAN 221 Query: 231 SMSVLNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + LN R++ I RR L TL+ ++ E ++RER+RQ++ + K++ S+ + Sbjct: 222 VLKCLNNRDKEII-CRRFGLLGYEAQTLQEVAEEVGLTRERIRQLQVTSLAKLKNSLSRD 280 >gi|158320313|ref|YP_001512820.1| RpoD family RNA polymerase sigma factor [Alkaliphilus oremlandii OhILAs] gi|158140512|gb|ABW18824.1| RNA polymerase, sigma 70 subunit, RpoD family [Alkaliphilus oremlandii OhILAs] Length = 372 Score = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 148/274 (54%), Gaps = 13/274 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 VN + + Y+ EI K+P+L +EE LAKR + GD A RLV ++LRLVV IA Y Sbjct: 97 VNIDDPVRMYLKEIGKVPLLSAEEEIELAKRM-DAGDEEAKKRLVEANLRLVVSIAKRYV 155 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I Sbjct: 156 GRGMLFLDLIQEGNLGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRI--P 213 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L + KPE+ IA ++++SE +V + ++A E ++ Sbjct: 214 VHMVETINKLIRVSRQLLQELGRDPKPEE---IAAEMDLSEEKVREI-LKIA-QEPVSLE 268 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 ++ S D++ + K + L + L PRE+++ R Sbjct: 269 TPIGEEEDSHLGDFIPDEDAPAPAEAAAFSLLKEQ---LVEVLDTLTPREQKVLRLRFGL 325 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 326 DDGRARTLEEVGKKFDVTRERIRQIEAKALRKLR 359 >gi|225412271|ref|ZP_03761460.1| hypothetical protein CLOSTASPAR_05493 [Clostridium asparagiforme DSM 15981] gi|225042189|gb|EEG52435.1| hypothetical protein CLOSTASPAR_05493 [Clostridium asparagiforme DSM 15981] Length = 376 Score = 119 bits (298), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 87/270 (32%), Positives = 138/270 (51%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ + E LA R E GD AA RL S+LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGKIPLLDMEAEIRLA-RQMEEGDREAAKRLAESNLRLVVSIAKRYVGRGMQFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I N RL Sbjct: 168 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRSIADQARTIRIPVHMVENINRLV 227 Query: 137 FNLRRL---KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R+L G + + E V ++ E +S+ + +E + Sbjct: 228 RTSRQLLQELGREPTTEEIAARAEMSVERVSEILKMSQEPVSLETPIGEEEDSHLGDFIQ 287 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D N + QD Y L+ ++ L ++ L RE+++ R ++ Sbjct: 288 DDNVTVPQDAATY-------TLLHEQ--------LMEVLTTLTEREQKVLRLRFGLDDGR 332 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 333 PRTLEEVGREFKVTRERIRQIEAKALRKLR 362 >gi|325686024|gb|EGD28082.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 378 Score = 119 bits (298), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 91/268 (33%), Positives = 143/268 (53%), Gaps = 14/268 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG--LPIS 76 Y+ EI K+P+L + EE +AKR E+GD SA L ++LRLVV IA Y + + I Sbjct: 107 YLKEIGKVPLLSRDEEVEVAKRI-ENGDESAKDELAAANLRLVVSIAKRYAKHNGKMGIL 165 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGNIGLM+AV KFD +GF+ +TY+ WWI+ A+ + +++I + Sbjct: 166 DLIQEGNIGLMKAVDKFDYSKGFKFSTYATWWIRQAITRALADQDRMIRIPVHVVES--I 223 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + R++ LQ D + KPE++ A + E+I++ D SL+ + ++ Sbjct: 224 NKMNRIQRILQQDLDRDAKPEELAAEMNEPLQKVQEIITVAKNQETD-SLDKPV--GEEG 280 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-VLNPRERRIFEARRLQEN--PV 253 SQ D L D + E + ++ L+ M L RE ++ + R EN P Sbjct: 281 DSQLGDLL---EDNKATNPEEYTAFEMLKDQLSSMMGEFLTNREAKVLKLRFGLENDEPH 337 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + V+RERVRQIEA+A KK++ Sbjct: 338 TLEEVGRSLGVTRERVRQIEAKAVKKLK 365 >gi|254794681|ref|YP_003079518.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. TW14359] gi|254594081|gb|ACT73442.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O157:H7 str. TW14359] Length = 330 Score = 119 bits (298), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWPFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|260893571|ref|YP_003239668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ammonifex degensii KC4] gi|260865712|gb|ACX52818.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ammonifex degensii KC4] Length = 369 Score = 119 bits (298), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 86/264 (32%), Positives = 137/264 (51%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LAKR E GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRIPLLTPEEEIELAKRM-EQGDEEAKRRLIEANLRLVVSIAKRYVGRGMLFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNLGLIKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA+K+ +S +V + SL I ++ S Sbjct: 220 LVRVSRQLVQELGREPTPEE---IAEKMGISPEKVREIMKVAQEPVSLETPIG--EEEDS 274 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + Q E+ R L + L PRE+++ R ++ TLE Sbjct: 275 HLGDFI---EDQEAQAPAEEASYALLREQLNEVLQSLTPREQKVLRLRFGLDDGRARTLE 331 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + +F V+RER+RQIEA+ +K+ Sbjct: 332 EVGQKFGVTRERIRQIEAKTLRKL 355 >gi|6010724|gb|AAF01228.1|AF184097_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 326 Score = 119 bits (298), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 139/276 (50%), Gaps = 27/276 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ + I N ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIHIVKELN---VYLR 176 Query: 139 LRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 R H + I + KP V+ +LN + S++ L GD L Sbjct: 177 TARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLDI 233 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 234 LADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA------ 281 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 282 -ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 316 >gi|298244164|ref|ZP_06967970.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297551645|gb|EFH85510.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 316 Score = 119 bits (298), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 146/265 (55%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L E LA+R E+G+ A + L+ ++LRLVV IA Y G GL + ++ Sbjct: 50 YLREISRIPLLSAVSESRLAERA-ENGEKEARNHLIEANLRLVVSIAKKYVGQGLSLEDL 108 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL++AV KFD +GFR +TY+ WWIK A+ IL +V++ ++ Sbjct: 109 IGEGNIGLIRAVTKFDYRKGFRFSTYATWWIKQAITRAILEGTRVVRLPVYIMEE--VMR 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++R L PE I ++L ++ V + SL+A ++ ++N+ Sbjct: 167 VKRTTRQLYQELGREPTPE---IIGERLGMTAERVSELLIWAEKVFSLDAPLSEEEENT- 222 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLE 256 D + D +E+ +E +++ R + + + L RER++ E R + ++ TLE Sbjct: 223 -LGDII---EDVRERGPMEITDQQLLREEIRKVLGQLTVRERQVIELRFGLIDDHDHTLE 278 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + + +V+RERVRQIE RA +K++ Sbjct: 279 EVGKKLKVTRERVRQIEERAIRKLR 303 >gi|289805024|ref|ZP_06535653.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 145 Score = 119 bits (298), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 53/95 (55%), Positives = 74/95 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ SHLR VV IA Y GYGLP ++++ EGNIGLM+AV++F+PE G RL ++++ WIKA Sbjct: 40 RLILSHLRFVVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKA 99 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 + EY+LR+W +VK+ TT Q++LFFNLR+ K L Sbjct: 100 EIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRL 134 >gi|315652381|ref|ZP_07905370.1| RNA polymerase sigma factor rpoD [Eubacterium saburreum DSM 3986] gi|315485355|gb|EFU75748.1| RNA polymerase sigma factor rpoD [Eubacterium saburreum DSM 3986] Length = 410 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 89/285 (31%), Positives = 149/285 (52%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LAKR ++ GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 144 YLKEIGTVPLLTANEELELAKR-KQDGDEYAKQRLIEANLRLVVSIAKRYTGRGMSFLDL 202 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFD +GF+L+TY+ WWI+ ++ + +++ T N Sbjct: 203 VQEGNLGLIKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 262 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L G+ ++T+ +A L+++E +V+ + SL Sbjct: 263 KMQRKLTLEL----GYEPSVTE----------LANALDMTEEKVMEIMQIAREPASLETP 308 Query: 190 INSSDKNSSQWQDWL----VYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D S D++ V +G E V++ R + + L RER++ Sbjct: 309 IGEED--DSNLGDFVADSNVLTPEGNVESVML--------REHIDTLLGDLKERERQVIV 358 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF+V+RER+RQIEA+A +K++ ++ + Sbjct: 359 LRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403 >gi|253988173|ref|YP_003039529.1| RNA polymerase sigma factor RpoS [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253779623|emb|CAQ82784.1| rna polymerase sigma factor (sigma-38) [Photorhabdus asymbiotica] Length = 332 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 87/280 (31%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 63 YLGEIGFSPLLTAEEEVFFARRAL-RGDVLARRRMIESNLRLVVKISRRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNVY 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ PE++ +++ L ++E +IS++ ++ D L Sbjct: 181 LRTAR-ELAHKLDHEPSPEEIAEQLDKPVDDVSRMLRLNER-IISVDTPISSDSDKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD+N + G E E + +K+ + + + LN ++R + ARR Sbjct: 239 VLSDENET-----------GPEGTTQEDDMKKS----IVKWLFELNSKQREVL-ARRFGL 282 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ +++++ +Q Q Sbjct: 283 LGYEAETLEDVGKEIGLTRERVRQIQVEGLRRLKDIMQTQ 322 >gi|289450258|ref|YP_003475183.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3 str. UPII9-5] gi|289184805|gb|ADC91230.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3 str. UPII9-5] Length = 353 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 92/293 (31%), Positives = 145/293 (49%), Gaps = 35/293 (11%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 +N + S ++N + + Y+ EI K+P+L +EE LA+ +E G A RL ++LRL Sbjct: 69 LNIDDSSDVMNVDDPVRMYLKEIGKVPLLNAEEEKDLARAMKE-GSQEAKDRLCEANLRL 127 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y G G+ +++ EGN+GL++AV KFD E+GF+ +TY+ WWI+ A+ I Sbjct: 128 VVSIAKRYVGRGMQFLDLIQEGNLGLIKAVDKFDYEKGFKFSTYATWWIRQAITRAIADQ 187 Query: 121 WSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++I T N Q++L L R + + + PE+V I K +S+ Sbjct: 188 ARTIRIPVHMVETINKLIRVQRQLLQELGREPEVEELAQEMGISPEKVREIQK---ISQ- 243 Query: 172 EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E +S+ + +E L I D S Q + L Sbjct: 244 EPVSLEKPIGEEEDSHLGDFIPDDDAPSPADQAAFTL-----------------LKEQLL 286 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 +S L PRE ++ R ++ TLE + EF V+RER+RQIEA+A +K+ Sbjct: 287 EILSGLTPREEKVLRLRFGLDDGRSRTLEEVGREFNVTRERIRQIEAKALRKM 339 >gi|91227834|ref|ZP_01262007.1| DNA-directed RNA polymerase, sigma subunit [Vibrio alginolyticus 12G01] gi|269965239|ref|ZP_06179373.1| RNA polymerase sigma-38 factor [Vibrio alginolyticus 40B] gi|91188344|gb|EAS74640.1| DNA-directed RNA polymerase, sigma subunit [Vibrio alginolyticus 12G01] gi|269830225|gb|EEZ84452.1| RNA polymerase sigma-38 factor [Vibrio alginolyticus 40B] Length = 328 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 56 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 114 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 115 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 174 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 231 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 232 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 275 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 276 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREVLIKQ 315 >gi|329296050|ref|ZP_08253386.1| RNA polymerase sigma factor RpoS [Plautia stali symbiont] Length = 330 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDIPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|310779070|ref|YP_003967403.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] gi|309748393|gb|ADO83055.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] Length = 275 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 88/280 (31%), Positives = 145/280 (51%), Gaps = 25/280 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +IR +L K+EE L R + G A H+L+ S+LRLVV IA Y G+ Sbjct: 8 VSLYLEDIRSYNILTKEEELDLLIRAK-SGCEDAKHKLILSNLRLVVNIAKSYVHKGMGF 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN 131 +++SEGN GLM A++KFD E+GFR +TY++WWIK ++ + I+ ++I + N Sbjct: 67 IDLISEGNFGLMHAIEKFDVEKGFRFSTYAVWWIKQSISKAIISKGREIRIPSYKHDLLN 126 Query: 132 QKRLFFNLRRLKGHLQA-ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + F +K + I D L E +K+ + +++S+N + D L I Sbjct: 127 KVNKFIMEFVMKNSVYPNIEDIALGLEITPKKVQKVMLEFQDLLSLNASIGDDIFLEDTI 186 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQ 249 + D+ S +++VL E RN + + VL PRE+ I + R L Sbjct: 187 SQPDEESL------------EDEVLGEI-----GRNEINDILEVLKPREKEILKLRYGLD 229 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + TLE + F ++RERVRQIE + +K++ +++ Sbjct: 230 GYEIHTLEEIGKSFSITRERVRQIEKKTLQKLRNKFSEEL 269 >gi|291618595|ref|YP_003521337.1| RpoS [Pantoea ananatis LMG 20103] gi|291153625|gb|ADD78209.1| RpoS [Pantoea ananatis LMG 20103] gi|327394975|dbj|BAK12397.1| RNA polymerase sigma factor RpoS [Pantoea ananatis AJ13355] Length = 330 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVLFARRAL-RGDIPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|119944449|ref|YP_942129.1| RNA polymerase sigma-38 factor RpoS [Psychromonas ingrahamii 37] gi|119863053|gb|ABM02530.1| RNA polymerase sigma-38 factor RpoS [Psychromonas ingrahamii 37] Length = 322 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 92/276 (33%), Positives = 152/276 (55%), Gaps = 23/276 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD + R++ S+LRLVVKI+ Y GL + ++ Sbjct: 53 YLGEIGFSPLLTAEEEVYYARRLL-RGDQVSRKRMIESNLRLVVKISRRYNNRGLSLLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ K+L Sbjct: 112 VEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKKLNVY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALI-NSSD 194 LR + +T E IA+ L VS EV + +N R++ S++ I N+SD Sbjct: 171 LRTARELTHTLTHEPTAEE----IAEVLGVSAKEVSKILKLNERIS---SVDIPIGNNSD 223 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQEN 251 K + D + + + +++ + K R + + + LNP++R + ARR L Sbjct: 224 K---ELLDIIPDRKEASPENELQEADMKLR---IVKWLEDLNPKQREVL-ARRFGLLGYE 276 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLEN+ E ++RERVRQI+ A K +++ + +Q Sbjct: 277 AATLENVGKEIGLTRERVRQIQVEALKYLRDVLSEQ 312 >gi|300704422|ref|YP_003746025.1| RNA polymerase sigma factor rpos [Ralstonia solanacearum CFBP2957] gi|299072086|emb|CBJ43418.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum CFBP2957] Length = 376 Score = 119 bits (297), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 143/276 (51%), Gaps = 21/276 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE + R + G+ +A ++ +LRLVV IA GY G+P+ ++ Sbjct: 107 YLNRISIKPLLTPAEELHFSTRAKA-GEFAARQVMIERNLRLVVSIAKGYLNRGVPLLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 166 IEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQ 223 Query: 139 LRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + R K HL+ I + E + + K +V+S+N E +L D + Sbjct: 224 VLRAKRHLEKSGIDGRDASIEDIAHLLGKTTDEVQDVLSLN------EHTTSLDTPFDLD 277 Query: 197 -SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--- 251 + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 278 PGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLNHIE 332 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 333 PATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 368 >gi|145284374|gb|ABP51953.1| RpoS [Vibrio alginolyticus] Length = 328 Score = 119 bits (297), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 56 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 114 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 115 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 174 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 231 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 232 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 275 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 276 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREVLIKQ 315 >gi|260878982|ref|ZP_05891337.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AN-5034] gi|260895455|ref|ZP_05903951.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus Peru-466] gi|157674653|gb|ABV60415.1| RpoS [Vibrio parahaemolyticus] gi|308088215|gb|EFO37910.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus Peru-466] gi|308090442|gb|EFO40137.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AN-5034] gi|328474140|gb|EGF44945.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus 10329] Length = 329 Score = 119 bits (297), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 175 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 232 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 233 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 276 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 277 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQ 316 >gi|260902364|ref|ZP_05910759.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ4037] gi|308110564|gb|EFO48104.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ4037] Length = 329 Score = 119 bits (297), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 175 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 232 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 233 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 276 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 277 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQ 316 >gi|254230502|ref|ZP_04923875.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] gi|262393289|ref|YP_003285143.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] gi|151936974|gb|EDN55859.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] gi|262336883|gb|ACY50678.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] Length = 328 Score = 119 bits (297), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 56 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 114 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 115 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 174 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 231 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 232 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 275 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 276 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREVLIKQ 315 >gi|317049278|ref|YP_004116926.1| RpoD subfamily RNA polymerase sigma-70 factor [Pantoea sp. At-9b] gi|316950895|gb|ADU70370.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pantoea sp. At-9b] Length = 330 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDIPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|300718097|ref|YP_003742900.1| RNA polymerase sigma factor [Erwinia billingiae Eb661] gi|299063933|emb|CAX61053.1| RNA polymerase sigma factor [Erwinia billingiae Eb661] Length = 330 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP + V+ +LN + S++ L GD L Sbjct: 180 RTARELTHKLDHEPSAEEIAEQLDKPVEDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQ 320 >gi|290476558|ref|YP_003469463.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Xenorhabdus bovienii SS-2004] gi|289175896|emb|CBJ82699.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Xenorhabdus bovienii SS-2004] Length = 331 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 83/277 (29%), Positives = 143/277 (51%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD++A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLGEIGFSPLLTAEEEVLFARRAL-RGDIAARQRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 180 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H ++ I + +P V+ +LN + S++ ++GD L Sbjct: 181 RTARELAHKLDHEPSVEEIAEKLDRPIDDVSRMMRLN---ERITSVDTPISGDSDKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N S + + D Q V E +R +L R +L +EA Sbjct: 238 ILSDENDSGPETTIQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEAE---- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ +++++ + Q Sbjct: 288 ---TLEDVGREIGLTRERVRQIQVEGLRRLRDILHTQ 321 >gi|225849654|ref|YP_002729888.1| RNA polymerase sigma-70 factor [Persephonella marina EX-H1] gi|225646208|gb|ACO04394.1| RNA polymerase sigma-70 factor [Persephonella marina EX-H1] Length = 281 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 84/268 (31%), Positives = 147/268 (54%), Gaps = 12/268 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ YI ++ + P+L +EE LAKR ++ GD A +LV +LR VV +A + G+G+P+ Sbjct: 11 LNLYIQKMAEHPLLTPEEEKELAKRAKK-GDKEALKKLVEGNLRFVVNVAKNFMGWGVPL 69 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++++ GN+GL++A K+FDPER + +Y++WWI+ A+ + I + V+I ++ L Sbjct: 70 TDLIAAGNLGLIEAAKRFDPERDVKFISYAVWWIRQAIMQTIFQQTGAVRIPV---KESL 126 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 F + ++K + + + + + IA+K+ S +V + + SL+ + + Sbjct: 127 FIS--KVKETYEKLKEELKREPTIEEIAEKVGASPKKVKNALQVVRMPYSLDKPLGEEGE 184 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPV 253 + + V G E V E E + + T ++VL+ RER I E R E P Sbjct: 185 DLTLLD---VLSKKGTEDVEKEIVEESLHKELNT-LLNVLDERERAIIEHRFGLNGEEPK 240 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TL + +SRERVRQ+E RA KK++ Sbjct: 241 TLTEVGEILGISRERVRQLEQRALKKLR 268 >gi|2792523|gb|AAC38577.1| alternative RNA sigma factor RpoS [Ralstonia solanacearum] Length = 376 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 143/276 (51%), Gaps = 21/276 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE + R + G+ +A ++ +LRLVV IA GY G+P+ ++ Sbjct: 107 YLNRISIKPLLTPAEELHFSTRAKA-GEFAARQVMIERNLRLVVSIAKGYLNRGVPLLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 166 IEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQ 223 Query: 139 LRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + R K HL+ I + E + + K +V+S+N E +L D + Sbjct: 224 VLRAKRHLEKSGIDGRDASIEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPFDLD 277 Query: 197 -SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--- 251 + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 278 PGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLNHIE 332 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 333 PATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 368 >gi|331003577|ref|ZP_08327074.1| hypothetical protein HMPREF0491_01936 [Lachnospiraceae oral taxon 107 str. F0167] gi|330412418|gb|EGG91809.1| hypothetical protein HMPREF0491_01936 [Lachnospiraceae oral taxon 107 str. F0167] Length = 409 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 89/285 (31%), Positives = 149/285 (52%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LAKR ++ GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 143 YLKEIGTVPLLTANEELELAKR-KQDGDEYAKQRLIEANLRLVVSIAKRYTGRGMSFLDL 201 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFD +GF+L+TY+ WWI+ ++ + +++ T N Sbjct: 202 VQEGNLGLIKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 261 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L G+ ++T+ +A +L ++E +V+ + SL Sbjct: 262 KMQRKLTLEL----GYEPSVTE----------LANELGMTEEKVMEIMQIAREPASLETP 307 Query: 190 INSSDKNSSQWQDWL----VYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D S D++ V +G E V++ R + + L RER++ Sbjct: 308 IGEED--DSNLGDFVADANVLTPEGNVESVML--------REHIDTLLGDLKERERQVIV 357 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF+V+RER+RQIEA+A +K++ ++ + Sbjct: 358 LRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 402 >gi|308187918|ref|YP_003932049.1| RNA polymerase sigma factor rpoD [Pantoea vagans C9-1] gi|308058428|gb|ADO10600.1| RNA polymerase sigma factor rpoD [Pantoea vagans C9-1] Length = 330 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDIPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQ 320 >gi|12958587|gb|AAK09363.1|AF321124_1 RpoS [Vibrio harveyi] Length = 327 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 147/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 55 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 113 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 114 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 172 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ E++ A ++K L ++E + S++ + GD L Sbjct: 173 LRTAR-ELSQKLDHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 230 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 231 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 274 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 275 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQ 314 >gi|82545186|ref|YP_409133.1| RNA polymerase sigma factor RpoS [Shigella boydii Sb227] gi|81246597|gb|ABB67305.1| RNA polymerase sigma S factor [Shigella boydii Sb227] gi|332092174|gb|EGI97252.1| RNA polymerase sigma factor RpoS [Shigella boydii 3594-74] Length = 331 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 24/277 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEEVYFARRALRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 180 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 181 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 238 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 286 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 287 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 321 >gi|218133123|ref|ZP_03461927.1| hypothetical protein BACPEC_00985 [Bacteroides pectinophilus ATCC 43243] gi|217991996|gb|EEC58000.1| hypothetical protein BACPEC_00985 [Bacteroides pectinophilus ATCC 43243] Length = 448 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 87/267 (32%), Positives = 140/267 (52%), Gaps = 17/267 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E+GD+ A +RL ++LRLVV IA Y G G+ ++ Sbjct: 182 YLKEIGKVPLLSAEEEIELAKRM-ENGDVEAKNRLAEANLRLVVSIAKRYVGRGMLFLDL 240 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 241 IQEGNLGLIKAVDKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 298 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++++ V + SL I ++ S Sbjct: 299 LLRVSRQLLQELGREPTPEE---IAKEMDIPVERVREIQKISQEPVSLETPI--GEEEDS 353 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEARRLQEN--PVT 254 D++ D+ V + EE + + L + L RE+++ R ++ T Sbjct: 354 HLGDFIQDDN-----VPVPAEEAASTILKEQLVEVLGTLTEREQKVLRLRFGLDDGRART 408 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 LE + EF V+RER+RQIEA+A +K++ Sbjct: 409 LEEVGREFNVTRERIRQIEAKALRKLR 435 >gi|160945279|ref|ZP_02092505.1| hypothetical protein FAEPRAM212_02798 [Faecalibacterium prausnitzii M21/2] gi|158443010|gb|EDP20015.1| hypothetical protein FAEPRAM212_02798 [Faecalibacterium prausnitzii M21/2] gi|295105509|emb|CBL03053.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 360 Score = 119 bits (297), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 88/265 (33%), Positives = 142/265 (53%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAK R D A L ++LRLVV +A Y G GLP ++ Sbjct: 93 YLKEIGRVPLLTAGQEMALAKAARAG-DADARRALSEANLRLVVSVAKRYAGRGLPFLDL 151 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+A +KF+PERGF+ +TY+ WWI+ ++ I ++I L + Sbjct: 152 IQEGNLGLMKAAEKFEPERGFKFSTYATWWIRQSITRAIADQGRTIRIPV-----HLVES 206 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + R+K + N + V IA L++ +V + +L+ E ++ ++ + Sbjct: 207 INRVKKTAGDLLHKNGREPTVEEIAAALDMEPDKVREL-LQLS-QEPISLETPVGEEEDA 264 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 +D+ + D D V +++ R+ R L + L PRE R+ R E+ TLE Sbjct: 265 HLEDF-IQDEDA--GVPVDEAGRQLLRRELLHVLKSLTPREERVITLRFGLEDGRARTLE 321 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 L EF V+RERVRQIEA+A +K++ Sbjct: 322 ELGKEFNVTRERVRQIEAKALRKLR 346 >gi|197335185|ref|YP_002156867.1| RNA polymerase sigma factor RpoS [Vibrio fischeri MJ11] gi|197316675|gb|ACH66122.1| RNA polymerase sigma factor RpoS [Vibrio fischeri MJ11] Length = 321 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 97/276 (35%), Positives = 149/276 (53%), Gaps = 23/276 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R GD +A R++ S+LRLVVKIA Y GL + ++ Sbjct: 49 YLGEIGFSPLLTAEEE-VYFSRLALKGDEAARARMIESNLRLVVKIARRYNHRGLALLDL 107 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 108 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR + Q + D+ PE+ IA+KL+ S+V + +N R+A +S+ A SDK Sbjct: 167 LRAARELSQKL-DHEPTPEE---IAEKLDKPVSDVSRMLRLNERVASVDSMVA--GESDK 220 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARR---LQEN 251 D L + E E +K+ N L + LNP+++ + ARR L Sbjct: 221 ---ALLDILPDTKNSDP----ESETQKDDINTSLVGWLGQLNPKQKEVV-ARRFGLLGYE 272 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ ++++E + Q Sbjct: 273 AATLEQVGVEIGLTRERVRQIQVEGLRRLREIMTNQ 308 >gi|195938492|ref|ZP_03083874.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4024] Length = 279 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 10 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 68 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 69 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 128 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 129 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 185 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 186 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 234 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 235 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 269 >gi|153835750|ref|ZP_01988417.1| RNA polymerase sigma factor RpoS [Vibrio harveyi HY01] gi|156975773|ref|YP_001446680.1| hypothetical protein VIBHAR_03517 [Vibrio harveyi ATCC BAA-1116] gi|148867581|gb|EDL66895.1| RNA polymerase sigma factor RpoS [Vibrio harveyi HY01] gi|156527367|gb|ABU72453.1| hypothetical protein VIBHAR_03517 [Vibrio harveyi ATCC BAA-1116] Length = 328 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 56 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 114 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 115 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 174 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 231 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 232 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 275 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 276 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQ 315 >gi|254444043|ref|ZP_05057519.1| RNA polymerase sigma factor, sigma-70 family [Verrucomicrobiae bacterium DG1235] gi|198258351|gb|EDY82659.1| RNA polymerase sigma factor, sigma-70 family [Verrucomicrobiae bacterium DG1235] Length = 377 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 80/265 (30%), Positives = 143/265 (53%), Gaps = 12/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +I +L +E LA+R + G+ A ++ S+LRLVVKIA Y+ +GLP+ ++ Sbjct: 84 YLQEIGRIDLLTPAQEVTLARRI-QAGEKEARDLMIKSNLRLVVKIAHDYKDFGLPVLDL 142 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +SEGNIGL++AV++FDP++G +L+TY+ WWIK +++ + +++ L Sbjct: 143 ISEGNIGLVKAVERFDPDKGGKLSTYAAWWIKQSIKRALANQSKTIRLPV-----HLVDK 197 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + R++ +T+ + +A+ L + ++V + SLNA + D NS+ Sbjct: 198 ISRMRKMALMLTEELGREPTDQELAEMLEMPVNKVSHLKSVSVRPTSLNAPV-GEDGNST 256 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLE 256 ++ + + D E K+ R L + L RE I R ++P+TLE Sbjct: 257 EFGEIV---GDDNAPTPYENLHEKSLRGDLHEMIDGLEDREAEIIRLRFGLNGDSPLTLE 313 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F+++RERVRQ++ A K++ Sbjct: 314 EVGQVFDITRERVRQLQNIALSKMR 338 >gi|89109528|ref|AP_003308.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. W3110] gi|218547743|ref|YP_002381534.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia fergusonii ATCC 35469] gi|85675562|dbj|BAE76818.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K12 substr. W3110] gi|218355284|emb|CAQ87891.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia fergusonii ATCC 35469] gi|320645931|gb|EFX14912.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H- str. 493-89] Length = 291 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 22 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 80 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 81 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 140 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 141 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 197 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 198 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 246 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 247 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 281 >gi|311278284|ref|YP_003940515.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Enterobacter cloacae SCF1] gi|308747479|gb|ADO47231.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Enterobacter cloacae SCF1] Length = 330 Score = 118 bits (296), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|261250229|ref|ZP_05942805.1| RNA polymerase sigma factor RpoS [Vibrio orientalis CIP 102891] gi|260939345|gb|EEX95331.1| RNA polymerase sigma factor RpoS [Vibrio orientalis CIP 102891] Length = 323 Score = 118 bits (296), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 88/285 (30%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 51 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 109 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 110 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 168 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNAL- 189 LR + Q + D+ E++ ++K L ++E + S++ + GD L Sbjct: 169 LRTARELSQKL-DHEPTAEEIATQLDKPVDDVSKMLRLNER-ISSVDTPIGGDGEKALLD 226 Query: 190 ----INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 IN+SD S D + ++ L + LNP+++ + A Sbjct: 227 IIPDINNSDPEVSTQDDDI--------------------KSSLIHWLDELNPKQKEVL-A 265 Query: 246 RR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 266 RRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILIKQ 310 >gi|2961260|emb|CAA73683.1| rpoS [Enterobacter cloacae] Length = 346 Score = 118 bits (296), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 77 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 135 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 136 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 195 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 196 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 252 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 253 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 301 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 302 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 336 >gi|23306706|gb|AAN15274.1| N-terminal truncated RNA polymerase sigma factor S [Escherichia coli] gi|23306708|gb|AAN15270.1| N-terminal truncated RNA polymerase sigma factor S [Escherichia coli] gi|23306710|gb|AAN15272.1| N-terminal truncated RNA polymerase sigma factor S [Escherichia coli] Length = 277 Score = 118 bits (296), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 8 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 126 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 127 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 183 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 184 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 232 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 233 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 267 >gi|163749990|ref|ZP_02157234.1| RNA polymerase sigma-38 factor [Shewanella benthica KT99] gi|161330264|gb|EDQ01245.1| RNA polymerase sigma-38 factor [Shewanella benthica KT99] Length = 323 Score = 118 bits (296), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 86/280 (30%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 54 YLGEIGFSPLLSAEEEVYFSRKSLK-GCGKSRNRMIESNLRLVVKIARRYNNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 113 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 171 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ E++ A +++ L ++E + S++ L GD AL+ Sbjct: 172 LRTAR-ELAHKLDHEPTAEEIAAKLDLPCSDVSRMLKLNE-RITSVDTPLGGDND-KALL 228 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + D+ V + D + V+ + + LN ++R + ARR Sbjct: 229 DVLAADDNVGPDYKVQNEDMSKSVV--------------KWLDELNTKQREVL-ARRFGL 273 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLEN+ E ++RERVRQI+ A K++++ + Q Sbjct: 274 LGYEPSTLENVGKEIGLTRERVRQIQVEALKRLKDLLGAQ 313 >gi|146312853|ref|YP_001177927.1| RNA polymerase sigma factor RpoS [Enterobacter sp. 638] gi|145319729|gb|ABP61876.1| RNA polymerase, sigma 38 subunit, RpoS [Enterobacter sp. 638] Length = 330 Score = 118 bits (296), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|298209056|ref|YP_003717235.1| RNA polymerase sigma factor rpoD (Sigma-A) [Croceibacter atlanticus HTCC2559] gi|83848983|gb|EAP86852.1| RNA polymerase sigma factor rpoD (Sigma-A) [Croceibacter atlanticus HTCC2559] Length = 287 Score = 118 bits (296), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 85/287 (29%), Positives = 157/287 (54%), Gaps = 37/287 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ +EE LA+R R GD A +L ++LR VV ++ Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITAEEEVELAQRIR-AGDNRALEKLTKANLRFVVSVSKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 +++ L + +N +P IA++L ++ SEV S++A Sbjct: 136 NKINKMYAYLEQ----------SNQRPPTPEEIAQELEMTISEVKESLKNSGRHLSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L++ D N D L + + ++ +L+E + + + R++ L PRE + Sbjct: 186 LVDGEDSN---LYDVLKFGESPNPEKDLLVE-----SLQTEIDRALETLTPREADVI--- 234 Query: 247 RL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL Q+ P+TLE + FE++RERVRQI+ +A ++++ + + ++ Sbjct: 235 RLYFGLGQQQPLTLEEIGETFELTRERVRQIKEKATRRLKHTSRSKI 281 >gi|307128696|ref|YP_003880726.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri CARI] gi|306483158|gb|ADM90028.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri CARI] Length = 288 Score = 118 bits (296), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 81/276 (29%), Positives = 146/276 (52%), Gaps = 13/276 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y++EI KIP+L +EE AK R+ ++ A + L+ ++LR VV +A Y+ GL Sbjct: 17 SLDKYLYEIGKIPLLNNEEEIQFAKFARKTYNIKAINFLIKANLRFVVSVAKQYQNQGLN 76 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +S++++EGN+GL++ + +FD +GF+ +YS+WWI+ ++ + I V+ T K Sbjct: 77 LSDLINEGNLGLIKGIFRFDERKGFKCISYSVWWIRQSILQAIADKSRCVRCPTN---KL 133 Query: 135 LFFN-LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 F+N + + L+ I P + I + LN +E E+ SL+A I Sbjct: 134 AFYNKVNKKYSELEQIYQ---IPPSIKQIGEYLNSNEKEIEEALKNSVKHTSLDAPIIEG 190 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENP 252 + +S D + YD + +EKE K + R + L+ +E +I L+ + Sbjct: 191 E--NSNLYDIIKYDESPHPDLDLEKESLKKD---IKRLLDTLSEKEAQIITLHYGLESST 245 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + LE +S ++RER RQIE +++++S +K + Sbjct: 246 INLEEISFLLNLTRERCRQIEIYGLRRLKQSSRKNI 281 >gi|27735253|sp|P35540|RPOS_SHIFL RecName: Full=RNA polymerase sigma factor rpoS gi|332753598|gb|EGJ83977.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-671] gi|333000355|gb|EGK19938.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-218] gi|333015759|gb|EGK35097.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-304] Length = 330 Score = 118 bits (296), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|149278388|ref|ZP_01884525.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|255532892|ref|YP_003093264.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|149230758|gb|EDM36140.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|255345876|gb|ACU05202.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 286 Score = 118 bits (296), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 80/275 (29%), Positives = 151/275 (54%), Gaps = 14/275 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+HEI K+ ++ +EE +LA++ RE GD +A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLHEIGKVDLITAEEEVILARKIRE-GDQAALERLTKTNLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD +GF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 GDLINEGNLGLIKAAKRFDETKGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + L+ + PE++ I + S+ +S + R S++A ++ Sbjct: 135 LSKISKAFSKLEQEYEREPSPEELADILETTVDKISDTLSNSGRHV---SMDAPFVQGEE 191 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN-PV 253 N+ D L + LI ++ + RS+S L RER I L N P+ Sbjct: 192 NT--LLDVLENHEPNTDSSLI----NESLSEEIKRSLSTLTEREREIIVLFFGLSTNHPL 245 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +LE + +F ++RERVRQI+ +A ++++ + + ++ Sbjct: 246 SLEEIGEKFNLTRERVRQIKDKALQRLRHTSRSKI 280 >gi|188534815|ref|YP_001908612.1| RNA polymerase sigma factor RpoS [Erwinia tasmaniensis Et1/99] gi|188029857|emb|CAO97741.1| RNA polymerase sigma factor RpoS [Erwinia tasmaniensis Et1/99] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEKLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|312888769|ref|ZP_07748333.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] gi|311298769|gb|EFQ75874.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] Length = 286 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 81/285 (28%), Positives = 151/285 (52%), Gaps = 34/285 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+HEI K+ ++ +EE +LA++ RE GD +A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLHEIGKVDLITAEEEVILAQKIRE-GDQAALERLTKTNLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD +GF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 GDLINEGNLGLIKAAKRFDETKGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--------LAGDESLN 187 + + L+ + PE++ I + S+ +S + R + G+E N Sbjct: 135 LSKISKAFSKLEQEYEREPSPEELADILETTVDKISDTLSNSGRHVSMDAPFVQGEE--N 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FE 244 L++ D + L+ + +E + RS+S L RER I F Sbjct: 193 TLLDVLDNHEPNTDFHLINESLAEE---------------IKRSLSTLTEREREIVVLFF 237 Query: 245 ARRLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L N P +LE + +F ++RERVRQI+ +A ++++ + + ++ Sbjct: 238 G--LGSNSPFSLEEIGEKFNLTRERVRQIKDKALQRLRHTSRSKI 280 >gi|283786707|ref|YP_003366572.1| RNA polymerase sigma factor (sigma-38) [Citrobacter rodentium ICC168] gi|282950161|emb|CBG89797.1| RNA polymerase sigma factor (sigma-38) [Citrobacter rodentium ICC168] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|238896221|ref|YP_002920957.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae NTUH-K2044] gi|238548539|dbj|BAH64890.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] Length = 366 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 97 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYSNRGLALLDL 155 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 156 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 215 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 216 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 272 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 273 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 321 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 322 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 356 >gi|73671310|gb|AAZ80066.1| RpoS variant [Escherichia coli LW1655F+] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|83272624|gb|ABC00797.1| RpoS [Escherichia coli] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNPTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|225026302|ref|ZP_03715494.1| hypothetical protein EUBHAL_00543 [Eubacterium hallii DSM 3353] gi|224956366|gb|EEG37575.1| hypothetical protein EUBHAL_00543 [Eubacterium hallii DSM 3353] Length = 367 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 91/274 (33%), Positives = 146/274 (53%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI IP+L +EE LA+R E GD A +L+ ++LRLVV IA Y G G+ ++ Sbjct: 101 YLKEIGNIPLLTAEEEVFLAQRI-EKGDEQARKQLIEANLRLVVSIAKKYVGRGMSFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV+KFD ++G + +TYS WWI+ A+ I + +++ T N+ Sbjct: 160 IQEGNMGLMKAVEKFDYKKGNKFSTYSTWWIRQAITRGIADTAKTIRVPVHMVETINK-- 217 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LR + LQ + E IAKK+N+ +++ + SL+ I + Sbjct: 218 ---TLRTSRMLLQELGREPTNEE----IAKKMNMPVAKIDEILKTSRDPVSLDTPI--GE 268 Query: 195 KNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RL 248 + SQ D+ L+ D ++++E L +M+ L RER + + R L Sbjct: 269 EEDSQLGDFIEDESLLSPVDSASFSMLKEE--------LEEAMASLTERERNVIKLRFGL 320 Query: 249 QENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + EF V+RER+RQIEA+A +K++ Sbjct: 321 DDGKTRTLEEVGKEFNVTRERIRQIEAKALRKLR 354 >gi|59712674|ref|YP_205450.1| RNA polymerase, sigma-S (sigma-38) factor [Vibrio fischeri ES114] gi|59480775|gb|AAW86562.1| RNA polymerase, sigma-S (sigma-38) factor [Vibrio fischeri ES114] Length = 321 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 97/276 (35%), Positives = 149/276 (53%), Gaps = 23/276 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R GD +A R++ S+LRLVVKIA Y GL + ++ Sbjct: 49 YLGEIGFSPLLTAEEE-VYFSRLALKGDEAARARMIESNLRLVVKIARRYNHRGLALLDL 107 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 108 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR + Q + D+ PE+ IA+KL+ S+V + +N R+A +S+ A SDK Sbjct: 167 LRAARELSQKL-DHEPTPEE---IAEKLDKPVSDVSRMLRLNERVASVDSMVA--GESDK 220 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARR---LQEN 251 D L + E E +K+ N L + LNP+++ + ARR L Sbjct: 221 ---ALLDILPDTKNSDP----ESETQKDDINTSLVGWLGQLNPKQKEVV-ARRFGLLGYE 272 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ ++++E + Q Sbjct: 273 AATLEQVGIEIGLTRERVRQIQVEGLRRLREIMTNQ 308 >gi|292487251|ref|YP_003530123.1| RNA polymerase sigma factor rpoS [Erwinia amylovora CFBP1430] gi|292900377|ref|YP_003539746.1| RNA polymerase sigma subunit RpoS (sigma-38) [Erwinia amylovora ATCC 49946] gi|3183703|emb|CAA10959.1| RpoS [Erwinia amylovora] gi|291200225|emb|CBJ47353.1| RNA polymerase sigma subunit RpoS (sigma-38) [Erwinia amylovora ATCC 49946] gi|291552670|emb|CBA19715.1| RNA polymerase sigma factor rpoS [Erwinia amylovora CFBP1430] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEKLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|290511076|ref|ZP_06550445.1| RNA polymerase sigma factor RpoS [Klebsiella sp. 1_1_55] gi|289776069|gb|EFD84068.1| RNA polymerase sigma factor RpoS [Klebsiella sp. 1_1_55] Length = 347 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 78 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYSNRGLALLDL 136 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 137 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 196 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 197 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 253 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 254 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 302 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 303 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 337 >gi|41861|emb|CAA78692.1| KatF [Escherichia coli] Length = 342 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 332 >gi|332765694|gb|EGJ95907.1| RNA polymerase sigma factor RpoS [Shigella flexneri 2930-71] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 141/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EG++GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGDLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E++Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLRETLQTQ 320 >gi|216659|dbj|BAA02747.1| RNA polymerase sigma subunit, sigma-38 [Escherichia coli] gi|23306698|gb|AAN15268.1| RNA polymerase sigma factor S variant [Escherichia coli] gi|260448208|gb|ACX38630.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli DH1] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|320640384|gb|EFX09923.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. G5101] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHQLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|117617733|ref|YP_855373.1| RNA polymerase sigma factor RpoS [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117559140|gb|ABK36088.1| RNA polymerase sigma factor RpoS [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 327 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 92/274 (33%), Positives = 144/274 (52%), Gaps = 19/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD +A R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVYYARRAL-RGDKAARKRMIESNLRLVVKIARRYNNRGLVLLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + L D+ E IA L+ S +V M LN I S D Sbjct: 175 LRTAR-ELSHRLDHEPTAED---IAFALDRSVDDVNRML-------KLNEKITSVDTPIG 223 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEARR---LQENPV 253 +D + D E+ + + E ++ R + + LNP++R + ARR L P Sbjct: 224 GDRDKALLDVLSDERGMGPELESQDDDMRASIVHWLEELNPKQREVL-ARRFGLLGYEPA 282 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ +E ++RERVRQI+ ++++E + Q Sbjct: 283 TLEDVGAEIGLTRERVRQIQVEGLRRLREILLGQ 316 >gi|23306702|gb|AAN15269.1| RNA polymerase sigma factor S variant [Escherichia coli] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|322831414|ref|YP_004211441.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rahnella sp. Y9602] gi|321166615|gb|ADW72314.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rahnella sp. Y9602] Length = 328 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 59 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 177 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 178 RTARELAHKLDHEPSAEEIAEQLDKPVHDVSRMLRLN---ERITSVDTPLGGDSEKALLD 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 235 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 283 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 284 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 318 >gi|307243281|ref|ZP_07525452.1| RNA polymerase sigma factor RpoD [Peptostreptococcus stomatis DSM 17678] gi|306493409|gb|EFM65391.1| RNA polymerase sigma factor RpoD [Peptostreptococcus stomatis DSM 17678] Length = 384 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 88/266 (33%), Positives = 146/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ EE AKR E GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 118 YLKEIGKIPLLKPHEEVEYAKRMAE-GDEFAKQKLVEANLRLVVSIAKRYVGRGMLFLDL 176 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++G++ +TY+ WWI+ A+ I ++I + Sbjct: 177 IQEGNLGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 234 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L + KP++ IAK++N++E +V + ++A D SL I ++ Sbjct: 235 LIRVSRQLLQELGRDPKPDE---IAKEMNMTEEKVREI-MKIAQDPVSLETPI--GEEED 288 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ + K + + ++ LN RE+ + + R E+ TL Sbjct: 289 SHLGDFIPDEDAPAPAEAAAYSLLKEQ---IEDVLNTLNDREQNVLKLRFGLEDGRARTL 345 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 346 EEVGKEFDVTRERIRQIEAKALRKLR 371 >gi|15803258|ref|NP_289290.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 EDL933] gi|12517195|gb|AAG57848.1|AE005502_2 RNA polymerase, sigma S (sigma38) factor; synthesis of many growth phase related proteins [Escherichia coli O157:H7 str. EDL933] Length = 330 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|260599105|ref|YP_003211676.1| RNA polymerase sigma factor RpoS [Cronobacter turicensis z3032] gi|260218282|emb|CBA33240.1| RNA polymerase sigma factor rpoS [Cronobacter turicensis z3032] Length = 351 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 82 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYSNRGLALLDL 140 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 141 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 200 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 201 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 257 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 258 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 306 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 307 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 341 >gi|157364824|ref|YP_001471591.1| RpoD family RNA polymerase sigma factor [Thermotoga lettingae TMO] gi|157315428|gb|ABV34527.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga lettingae TMO] Length = 400 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 90/275 (32%), Positives = 140/275 (50%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LA+R + G+ A +L+ S+LRLVV IA Y G GLP ++ Sbjct: 128 YLREIGKIPLLTPSQERELARRA-QIGNKRAKEKLIESNLRLVVSIAKRYIGRGLPFLDL 186 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGNIGL++AV+KFD ++G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 187 IQEGNIGLLKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLN 246 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R ++ + L+ + KP V + + L S+ E +S+ + DE Sbjct: 247 RITREYYQKHGEQPSLEELAKLMDKP--VDKVEEILQASK-ETVSLEAPVGEDE------ 297 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARR- 247 D V D E + K+E R R L + + LNPRE + + R Sbjct: 298 -----------DSTVGDFVADENITSPKKEAMRMLMREELEKVLKTLNPREAMVLKMRYG 346 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L TLE + F V+RER+RQIE +A +K++ Sbjct: 347 LLDGKAKTLEEVGQYFNVTRERIRQIEVKALRKLR 381 >gi|152971625|ref|YP_001336734.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206580660|ref|YP_002236889.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae 342] gi|262041489|ref|ZP_06014687.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288933843|ref|YP_003437902.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Klebsiella variicola At-22] gi|330008320|ref|ZP_08306195.1| RNA polymerase sigma factor RpoS [Klebsiella sp. MS 92-3] gi|150956474|gb|ABR78504.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206569718|gb|ACI11494.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae 342] gi|259041148|gb|EEW42221.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288888572|gb|ADC56890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Klebsiella variicola At-22] gi|328535178|gb|EGF61679.1| RNA polymerase sigma factor RpoS [Klebsiella sp. MS 92-3] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|15832849|ref|NP_311622.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. Sakai] gi|74313307|ref|YP_311726.1| RNA polymerase sigma factor RpoS [Shigella sonnei Ss046] gi|110642882|ref|YP_670612.1| RNA polymerase sigma factor RpoS [Escherichia coli 536] gi|110806628|ref|YP_690148.1| RNA polymerase sigma factor RpoS [Shigella flexneri 5 str. 8401] gi|157157336|ref|YP_001464064.1| RNA polymerase sigma factor RpoS [Escherichia coli E24377A] gi|157162189|ref|YP_001459507.1| RNA polymerase sigma factor RpoS [Escherichia coli HS] gi|168749933|ref|ZP_02774955.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4113] gi|168755487|ref|ZP_02780494.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4401] gi|168778725|ref|ZP_02803732.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4076] gi|168787997|ref|ZP_02813004.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC869] gi|170019013|ref|YP_001723967.1| RNA polymerase sigma factor RpoS [Escherichia coli ATCC 8739] gi|170684160|ref|YP_001744890.1| RNA polymerase sigma factor RpoS [Escherichia coli SMS-3-5] gi|191166775|ref|ZP_03028601.1| RNA polymerase sigma factor RpoS [Escherichia coli B7A] gi|191171134|ref|ZP_03032684.1| RNA polymerase sigma factor RpoS [Escherichia coli F11] gi|193065048|ref|ZP_03046123.1| RNA polymerase sigma factor RpoS [Escherichia coli E22] gi|193069671|ref|ZP_03050623.1| RNA polymerase sigma factor RpoS [Escherichia coli E110019] gi|194431745|ref|ZP_03064036.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1012] gi|194438995|ref|ZP_03071079.1| RNA polymerase sigma factor RpoS [Escherichia coli 101-1] gi|208812039|ref|ZP_03253368.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4045] gi|209395891|ref|YP_002272204.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4115] gi|209920184|ref|YP_002294268.1| RNA polymerase sigma factor RpoS [Escherichia coli SE11] gi|217326648|ref|ZP_03442731.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. TW14588] gi|218559734|ref|YP_002392647.1| RNA polymerase sigma factor RpoS [Escherichia coli S88] gi|218696339|ref|YP_002404006.1| RNA polymerase sigma factor RpoS [Escherichia coli 55989] gi|218706235|ref|YP_002413754.1| RNA polymerase sigma factor RpoS [Escherichia coli UMN026] gi|253772403|ref|YP_003035234.1| RNA polymerase sigma factor RpoS [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254162672|ref|YP_003045780.1| RNA polymerase sigma factor RpoS [Escherichia coli B str. REL606] gi|256019474|ref|ZP_05433339.1| RNA polymerase sigma factor RpoS [Shigella sp. D9] gi|256024751|ref|ZP_05438616.1| RNA polymerase sigma factor RpoS [Escherichia sp. 4_1_40B] gi|260845388|ref|YP_003223166.1| RNA polymerase, sigma S factor [Escherichia coli O103:H2 str. 12009] gi|260869420|ref|YP_003235822.1| RNA polymerase, sigma S factor [Escherichia coli O111:H- str. 11128] gi|261226035|ref|ZP_05940316.1| RNA polymerase sigma factor [Escherichia coli O157:H7 str. FRIK2000] gi|261256708|ref|ZP_05949241.1| RNA polymerase, sigma S factor [Escherichia coli O157:H7 str. FRIK966] gi|291284068|ref|YP_003500886.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|293406233|ref|ZP_06650159.1| RNA polymerase sigma factor RpoS [Escherichia coli FVEC1412] gi|293412096|ref|ZP_06654819.1| RNA polymerase sigma factor RpoS [Escherichia coli B354] gi|293415987|ref|ZP_06658627.1| RNA polymerase sigma factor RpoS [Escherichia coli B185] gi|293449062|ref|ZP_06663483.1| RNA polymerase sigma factor RpoS [Escherichia coli B088] gi|298381970|ref|ZP_06991567.1| RNA polymerase sigma factor rpoS [Escherichia coli FVEC1302] gi|300899982|ref|ZP_07118185.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 198-1] gi|301027336|ref|ZP_07190677.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 196-1] gi|306812377|ref|ZP_07446575.1| RNA polymerase sigma factor RpoS [Escherichia coli NC101] gi|307139429|ref|ZP_07498785.1| RNA polymerase sigma factor RpoS [Escherichia coli H736] gi|307312831|ref|ZP_07592461.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli W] gi|312973048|ref|ZP_07787221.1| RNA polymerase sigma factor RpoS [Escherichia coli 1827-70] gi|331658855|ref|ZP_08359797.1| RNA polymerase sigma factor RpoS [Escherichia coli TA206] gi|331664297|ref|ZP_08365203.1| RNA polymerase sigma factor RpoS [Escherichia coli TA143] gi|331669480|ref|ZP_08370326.1| RNA polymerase sigma factor RpoS [Escherichia coli TA271] gi|331684360|ref|ZP_08384952.1| RNA polymerase sigma factor RpoS [Escherichia coli H299] gi|10197692|gb|AAG14975.1|AF242208_8 alternative sigma factor [Escherichia coli] gi|10197707|gb|AAG14988.1|AF242210_7 alternative sigma factor [Escherichia coli] gi|10197712|gb|AAG14992.1|AF242211_4 alternative sigma factor [Escherichia coli] gi|15529697|gb|AAL01412.1|AF410776_1 RpoS [Escherichia coli] gi|15529700|gb|AAL01414.1|AF410777_1 RpoS [Escherichia coli] gi|4887559|emb|CAB43502.1| alternative sigma factor, sigma 38 [Escherichia coli] gi|13363066|dbj|BAB37018.1| sigma factor RpoS [Escherichia coli O157:H7 str. Sakai] gi|37924617|gb|AAP59881.1| sigma S [Shigella boydii] gi|73856784|gb|AAZ89491.1| RNA polymerase, sigma S (sigma38) factor [Shigella sonnei Ss046] gi|83272618|gb|ABC00794.1| RpoS [Escherichia coli] gi|83272620|gb|ABC00795.1| RpoS [Escherichia coli] gi|83272622|gb|ABC00796.1| RpoS [Escherichia coli] gi|83272626|gb|ABC00798.1| RpoS [Escherichia coli] gi|110344474|gb|ABG70711.1| RNA polymerase sigma factor RpoS [Escherichia coli 536] gi|110616176|gb|ABF04843.1| RNA polymerase sigma factor [Shigella flexneri 5 str. 8401] gi|134036992|gb|ABO47833.1| sigma 38 factor [Escherichia coli] gi|134037004|gb|ABO47841.1| sigma 38 factor [Escherichia coli] gi|134037007|gb|ABO47843.1| sigma 38 factor [Escherichia coli] gi|134037010|gb|ABO47845.1| sigma 38 factor [Escherichia coli] gi|134037013|gb|ABO47847.1| sigma 38 factor [Escherichia coli] gi|157067869|gb|ABV07124.1| RNA polymerase sigma factor RpoS [Escherichia coli HS] gi|157079366|gb|ABV19074.1| RNA polymerase sigma factor RpoS [Escherichia coli E24377A] gi|169753941|gb|ACA76640.1| RNA polymerase, sigma 70 subunit, RpoD family [Escherichia coli ATCC 8739] gi|170521878|gb|ACB20056.1| RNA polymerase sigma factor RpoS [Escherichia coli SMS-3-5] gi|188015788|gb|EDU53910.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4113] gi|189003307|gb|EDU72293.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4076] gi|189357252|gb|EDU75671.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4401] gi|189372241|gb|EDU90657.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC869] gi|190903146|gb|EDV62869.1| RNA polymerase sigma factor RpoS [Escherichia coli B7A] gi|190908434|gb|EDV68023.1| RNA polymerase sigma factor RpoS [Escherichia coli F11] gi|192927345|gb|EDV81964.1| RNA polymerase sigma factor RpoS [Escherichia coli E22] gi|192957034|gb|EDV87485.1| RNA polymerase sigma factor RpoS [Escherichia coli E110019] gi|194420101|gb|EDX36179.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1012] gi|194422116|gb|EDX38119.1| RNA polymerase sigma factor RpoS [Escherichia coli 101-1] gi|208733316|gb|EDZ82003.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4045] gi|209157291|gb|ACI34724.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4115] gi|209747660|gb|ACI72137.1| sigma factor RpoS [Escherichia coli] gi|209747662|gb|ACI72138.1| sigma factor RpoS [Escherichia coli] gi|209747664|gb|ACI72139.1| sigma factor RpoS [Escherichia coli] gi|209913443|dbj|BAG78517.1| RNA polymerase sigma factor S RpoS [Escherichia coli SE11] gi|217319015|gb|EEC27440.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. TW14588] gi|218353071|emb|CAU98896.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli 55989] gi|218366503|emb|CAR04255.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli S88] gi|218433332|emb|CAR14232.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli UMN026] gi|222034438|emb|CAP77180.1| RNA polymerase sigma factor rpoS [Escherichia coli LF82] gi|242378296|emb|CAQ33073.1| RNA polymerase, sigma S (sigma 38) factor, subunit of RNA polymerase sigma 38 [Escherichia coli BL21(DE3)] gi|253323447|gb|ACT28049.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253974573|gb|ACT40244.1| RNA polymerase sigma factor [Escherichia coli B str. REL606] gi|253978740|gb|ACT44410.1| RNA polymerase sigma factor [Escherichia coli BL21(DE3)] gi|257760535|dbj|BAI32032.1| RNA polymerase, sigma S factor [Escherichia coli O103:H2 str. 12009] gi|257765776|dbj|BAI37271.1| RNA polymerase, sigma S factor [Escherichia coli O111:H- str. 11128] gi|281179747|dbj|BAI56077.1| RNA polymerase sigma factor S RpoS [Escherichia coli SE15] gi|290763941|gb|ADD57902.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|291322152|gb|EFE61581.1| RNA polymerase sigma factor RpoS [Escherichia coli B088] gi|291426239|gb|EFE99271.1| RNA polymerase sigma factor RpoS [Escherichia coli FVEC1412] gi|291432176|gb|EFF05158.1| RNA polymerase sigma factor RpoS [Escherichia coli B185] gi|291468867|gb|EFF11358.1| RNA polymerase sigma factor RpoS [Escherichia coli B354] gi|298277110|gb|EFI18626.1| RNA polymerase sigma factor rpoS [Escherichia coli FVEC1302] gi|299879329|gb|EFI87540.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 196-1] gi|300356491|gb|EFJ72361.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 198-1] gi|305854415|gb|EFM54853.1| RNA polymerase sigma factor RpoS [Escherichia coli NC101] gi|306907266|gb|EFN37772.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli W] gi|307554720|gb|ADN47495.1| sigma factor RpoS [Escherichia coli ABU 83972] gi|307625683|gb|ADN69987.1| RNA polymerase sigma factor RpoS [Escherichia coli UM146] gi|309703100|emb|CBJ02432.1| RNA polymerase sigma factor (sigma-38) [Escherichia coli ETEC H10407] gi|310332990|gb|EFQ00204.1| RNA polymerase sigma factor RpoS [Escherichia coli 1827-70] gi|312947273|gb|ADR28100.1| RNA polymerase sigma factor RpoS [Escherichia coli O83:H1 str. NRG 857C] gi|315062022|gb|ADT76349.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli W] gi|315615130|gb|EFU95767.1| RNA polymerase sigma factor RpoS [Escherichia coli 3431] gi|320186525|gb|EFW61253.1| RNA polymerase sigma factor RpoS [Shigella flexneri CDC 796-83] gi|320189070|gb|EFW63729.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC1212] gi|320194880|gb|EFW69509.1| RNA polymerase sigma factor RpoS [Escherichia coli WV_060327] gi|320202392|gb|EFW76962.1| RNA polymerase sigma factor RpoS [Escherichia coli EC4100B] gi|320651231|gb|EFX19666.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H- str. H 2687] gi|320656781|gb|EFX24669.1| RNA polymerase sigma factor RpoS [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320667375|gb|EFX34333.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. LSU-61] gi|323159951|gb|EFZ45921.1| RNA polymerase sigma factor RpoS [Escherichia coli E128010] gi|323167243|gb|EFZ52960.1| RNA polymerase sigma factor RpoS [Shigella sonnei 53G] gi|323172966|gb|EFZ58597.1| RNA polymerase sigma factor RpoS [Escherichia coli LT-68] gi|323180167|gb|EFZ65719.1| RNA polymerase sigma factor RpoS [Escherichia coli 1180] gi|323183273|gb|EFZ68670.1| RNA polymerase sigma factor RpoS [Escherichia coli 1357] gi|323188842|gb|EFZ74127.1| RNA polymerase sigma factor RpoS [Escherichia coli RN587/1] gi|323935702|gb|EGB32016.1| RNA polymerase sigma protein RpoS [Escherichia coli E1520] gi|323941428|gb|EGB37611.1| RNA polymerase sigma proteinRpoS [Escherichia coli E482] gi|323946373|gb|EGB42401.1| RNA polymerase sigma protein RpoS [Escherichia coli H120] gi|323951037|gb|EGB46913.1| RNA polymerase sigma proteinRpoS [Escherichia coli H252] gi|323957044|gb|EGB52769.1| RNA polymerase sigma proteinRpoS [Escherichia coli H263] gi|323960599|gb|EGB56225.1| RNA polymerase sigma proteinRpoS [Escherichia coli H489] gi|323966893|gb|EGB62322.1| RNA polymerase sigma proteinRpoS [Escherichia coli M863] gi|323971530|gb|EGB66763.1| RNA polymerase sigma proteinRpoS [Escherichia coli TA007] gi|323978651|gb|EGB73733.1| RNA polymerase sigma proteinRpoS [Escherichia coli TW10509] gi|324111374|gb|EGC05356.1| RNA polymerase sigma proteinRpoS [Escherichia fergusonii B253] gi|324119995|gb|EGC13873.1| RNA polymerase sigma proteinRpoS [Escherichia coli E1167] gi|325496210|gb|EGC94069.1| sigma factor RpoS [Escherichia fergusonii ECD227] gi|326339191|gb|EGD63006.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. 1044] gi|326342926|gb|EGD66694.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. 1125] gi|330908777|gb|EGH37291.1| RNA polymerase sigma factor RpoS [Escherichia coli AA86] gi|331053437|gb|EGI25466.1| RNA polymerase sigma factor RpoS [Escherichia coli TA206] gi|331058228|gb|EGI30209.1| RNA polymerase sigma factor RpoS [Escherichia coli TA143] gi|331063148|gb|EGI35061.1| RNA polymerase sigma factor RpoS [Escherichia coli TA271] gi|331077975|gb|EGI49181.1| RNA polymerase sigma factor RpoS [Escherichia coli H299] gi|332344623|gb|AEE57957.1| RNA polymerase sigma factor RpoS [Escherichia coli UMNK88] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|260775503|ref|ZP_05884400.1| RNA polymerase sigma factor RpoS [Vibrio coralliilyticus ATCC BAA-450] gi|260608684|gb|EEX34849.1| RNA polymerase sigma factor RpoS [Vibrio coralliilyticus ATCC BAA-450] Length = 327 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 55 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 113 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 114 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 172 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNAL- 189 LR + Q + D+ E++ ++K L ++E + S++ + GD L Sbjct: 173 LRTARELSQKL-DHEPTAEEIATQLDKPVDDVSKMLRLNE-RISSVDTPIGGDGEKALLD 230 Query: 190 ----INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 +N+SD S D + ++ L + LNP+++ + A Sbjct: 231 IIPDVNNSDPEVSTQDDDI--------------------KSSLIHWLDELNPKQKEVL-A 269 Query: 246 RR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 270 RRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILIKQ 314 >gi|87118598|ref|ZP_01074497.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Marinomonas sp. MED121] gi|86166232|gb|EAQ67498.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Marinomonas sp. MED121] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 83/272 (30%), Positives = 151/272 (55%), Gaps = 14/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A++ + GD S+ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 58 YLSEIGFSPLLSAEEEVYYARKSLK-GDESSRKRMIESNLRLVVKISRRYLNRGLSLLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 117 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E + + + +++S+N R++ S+++ + D + S Sbjct: 176 LRAARELTQKL-DHEPSAEDIADMLDRPVEDVQKMLSLNERIS---SIDSPVGGMDTDKS 231 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTL 255 + H G E ++ + + + + ++ LN ++R + ARR P TL Sbjct: 232 LVEIIADEQHAGPE----DERQFSDVVHNIDHWLNDLNEKQREVI-ARRFGLRGYEPSTL 286 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E++ +E ++RERVRQI+ A +K++ ++KQ Sbjct: 287 EDVGAEIGLTRERVRQIQVEALRKLKLMMEKQ 318 >gi|320662323|gb|EFX29720.1| RNA polymerase sigma factor RpoS [Escherichia coli O55:H7 str. USDA 5905] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|320180825|gb|EFW55748.1| RNA polymerase sigma factor RpoS [Shigella boydii ATCC 9905] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|271501815|ref|YP_003334841.1| RpoD subfamily RNA polymerase sigma-70 subunit [Dickeya dadantii Ech586] gi|270345370|gb|ACZ78135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dickeya dadantii Ech586] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/281 (31%), Positives = 146/281 (51%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVSSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V +LN + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAERLDKPVDDVNRMLRLN---ERITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQVQ 320 >gi|6010726|gb|AAF01229.1|AF184098_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVQKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|220932077|ref|YP_002508985.1| RNA polymerase, sigma 70 subunit, RpoD family [Halothermothrix orenii H 168] gi|219993387|gb|ACL69990.1| RNA polymerase, sigma 70 subunit, RpoD family [Halothermothrix orenii H 168] Length = 358 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 136/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E GD A LV ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGKVPLLTAEEEVDLAKRI-EQGDEQAKRELVEANLRLVVSIAKKYVGRGMSFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 151 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 208 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ I +++ + +E + ++A E ++ ++ S Sbjct: 209 LIRVSRQLLQEKGREPTPEE---IGEEMGMP-AEKVREILKIA-QEPVSLETPIGEEEDS 263 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D R L + L RE+R+ E R E+ P TLE Sbjct: 264 HLGDFI---EDEDAPAPASAASFTLLREQLDDVLDTLTDREKRVLELRFGLEDGRPRTLE 320 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 321 EVGKEFGVTRERIRQIEAKALRKLR 345 >gi|170765845|ref|ZP_02900656.1| RNA polymerase sigma factor RpoS [Escherichia albertii TW07627] gi|170124991|gb|EDS93922.1| RNA polymerase sigma factor RpoS [Escherichia albertii TW07627] Length = 434 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 165 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 223 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 224 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 283 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 284 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 340 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 341 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 389 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 390 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 424 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 60/156 (38%), Positives = 101/156 (64%), Gaps = 13/156 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL---RSWSLVKIGTT---ANQ 132 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ R++ L +IG + + Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTY-LGEIGYSPLLTAE 178 Query: 133 KRLFFNLRRLKGHLQA---ITDNNLKPEQVVAIAKK 165 + ++F R L+G + + + ++NL+ VV IA++ Sbjct: 179 EEVYFARRALRGDVASRRRMIESNLR--LVVKIARR 212 >gi|312171353|emb|CBX79612.1| RNA polymerase sigma factor rpoS [Erwinia amylovora ATCC BAA-2158] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEKLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|192358973|ref|YP_001982681.1| RNA polymerase sigma factor RpoS [Cellvibrio japonicus Ueda107] gi|190685138|gb|ACE82816.1| RNA polymerase sigma factor RpoS [Cellvibrio japonicus Ueda107] Length = 335 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 91/277 (32%), Positives = 153/277 (55%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L EE A++ + GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 66 YLNEIGFSPLLLSAEEVFFARKALK-GDEAARKRMIESNLRLVVKISRRYVNRGLALLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN-SSDKNS 197 LR + Q + D+ PE++ + +K ++S+N R+ S++A I SSD+ Sbjct: 184 LRAARELSQKL-DHEPTPEEIANLLEKPVADVEHMLSLNERVT---SIDAPIGASSDRTV 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS----VLNPRERRIFEARR--LQEN 251 + D + H L++ + LT S+ L ++R + ARR L+ Sbjct: 240 A---DTIADTHVSDPAALLQDSD-------LTASLDHWLEELTEKQREVL-ARRFGLRGY 288 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 V TLE + E ++RERVRQI+ A K++++ ++KQ Sbjct: 289 EVSTLEEVGHEIGLTRERVRQIQVEALKRLRDIMEKQ 325 >gi|91212108|ref|YP_542094.1| RNA polymerase sigma factor RpoS [Escherichia coli UTI89] gi|117624976|ref|YP_853964.1| RNA polymerase sigma factor RpoS [Escherichia coli APEC O1] gi|227888284|ref|ZP_04006089.1| RNA polymerase sigma factor RpoS [Escherichia coli 83972] gi|237706630|ref|ZP_04537111.1| sigma factor RpoS [Escherichia sp. 3_2_53FAA] gi|254037782|ref|ZP_04871840.1| sigma factor RpoS [Escherichia sp. 1_1_43] gi|300815849|ref|ZP_07096073.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 107-1] gi|300820522|ref|ZP_07100673.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 119-7] gi|300906754|ref|ZP_07124436.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 84-1] gi|300919222|ref|ZP_07135745.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 115-1] gi|300922264|ref|ZP_07138390.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 182-1] gi|300930600|ref|ZP_07145992.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 187-1] gi|300941124|ref|ZP_07155636.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 21-1] gi|300946980|ref|ZP_07161206.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 116-1] gi|300954984|ref|ZP_07167395.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 175-1] gi|300976231|ref|ZP_07173328.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 200-1] gi|300976795|ref|ZP_07173612.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 45-1] gi|301027157|ref|ZP_07190526.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 69-1] gi|301306156|ref|ZP_07212232.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 124-1] gi|301326219|ref|ZP_07219602.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 78-1] gi|301645276|ref|ZP_07245227.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 146-1] gi|309795208|ref|ZP_07689627.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 145-7] gi|331643427|ref|ZP_08344558.1| RNA polymerase sigma factor RpoS [Escherichia coli H736] gi|331648464|ref|ZP_08349552.1| RNA polymerase sigma factor RpoS [Escherichia coli M605] gi|331654219|ref|ZP_08355219.1| RNA polymerase sigma factor RpoS [Escherichia coli M718] gi|331674247|ref|ZP_08375007.1| RNA polymerase sigma factor RpoS [Escherichia coli TA280] gi|331678721|ref|ZP_08379395.1| RNA polymerase sigma factor RpoS [Escherichia coli H591] gi|332280596|ref|ZP_08393009.1| sigma factor RpoS [Shigella sp. D9] gi|11036547|gb|AAG27177.1|AF270497_2 RpoS [Escherichia coli] gi|91073682|gb|ABE08563.1| sigma factor RpoS [Escherichia coli UTI89] gi|115514100|gb|ABJ02175.1| sigma factor RpoS [Escherichia coli APEC O1] gi|120538764|emb|CAM07120.1| sigma factor S [Escherichia coli] gi|226839406|gb|EEH71427.1| sigma factor RpoS [Escherichia sp. 1_1_43] gi|226899670|gb|EEH85929.1| sigma factor RpoS [Escherichia sp. 3_2_53FAA] gi|227834553|gb|EEJ45019.1| RNA polymerase sigma factor RpoS [Escherichia coli 83972] gi|300308576|gb|EFJ63096.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 200-1] gi|300318076|gb|EFJ67860.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 175-1] gi|300395189|gb|EFJ78727.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 69-1] gi|300401448|gb|EFJ84986.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 84-1] gi|300409981|gb|EFJ93519.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 45-1] gi|300413667|gb|EFJ96977.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 115-1] gi|300421394|gb|EFK04705.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 182-1] gi|300453367|gb|EFK16987.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 116-1] gi|300454167|gb|EFK17660.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 21-1] gi|300461542|gb|EFK25035.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 187-1] gi|300526786|gb|EFK47855.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 119-7] gi|300531778|gb|EFK52840.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 107-1] gi|300838588|gb|EFK66348.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 124-1] gi|300847064|gb|EFK74824.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 78-1] gi|301076441|gb|EFK91247.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 146-1] gi|308121179|gb|EFO58441.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 145-7] gi|315254525|gb|EFU34493.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 85-1] gi|315289257|gb|EFU48652.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 110-3] gi|315293697|gb|EFU53049.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 153-1] gi|315298766|gb|EFU58020.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 16-3] gi|323377395|gb|ADX49663.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli KO11] gi|324005707|gb|EGB74926.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 57-2] gi|324015519|gb|EGB84738.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 60-1] gi|324017012|gb|EGB86231.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 117-3] gi|331036898|gb|EGI09122.1| RNA polymerase sigma factor RpoS [Escherichia coli H736] gi|331042211|gb|EGI14353.1| RNA polymerase sigma factor RpoS [Escherichia coli M605] gi|331047601|gb|EGI19678.1| RNA polymerase sigma factor RpoS [Escherichia coli M718] gi|331068341|gb|EGI39736.1| RNA polymerase sigma factor RpoS [Escherichia coli TA280] gi|331073551|gb|EGI44872.1| RNA polymerase sigma factor RpoS [Escherichia coli H591] gi|332102948|gb|EGJ06294.1| sigma factor RpoS [Shigella sp. D9] Length = 342 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 332 >gi|307132339|ref|YP_003884355.1| RNA polymerase sigma-S (sigma 38) factor [Dickeya dadantii 3937] gi|306529868|gb|ADM99798.1| RNA polymerase, sigma S (sigma 38) factor [Dickeya dadantii 3937] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/281 (31%), Positives = 146/281 (51%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVSSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V +LN + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAERLDKPVDDVNRMLRLN---ERITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQVQ 320 >gi|254509205|ref|ZP_05121302.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus 16] gi|219547863|gb|EED24891.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus 16] Length = 331 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 59 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNAL- 189 LR + Q + D+ E++ ++K L ++E + S++ + GD L Sbjct: 177 LRTARELSQKL-DHEPTAEEIATQLDKPVDDVSKMLRLNE-RISSVDTPIGGDGEKALLD 234 Query: 190 ----INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 +N+SD S D + ++ L + LNP+++ + A Sbjct: 235 IIPDVNNSDPEVSTQDDDI--------------------KSSLVHWLDELNPKQKEVL-A 273 Query: 246 RR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 274 RRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILIKQ 318 >gi|205353865|ref|YP_002227666.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205273646|emb|CAR38635.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|326628975|gb|EGE35318.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|16130648|ref|NP_417221.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. MG1655] gi|170082316|ref|YP_001731636.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. DH10B] gi|238901878|ref|YP_002927674.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli BW2952] gi|1710676|sp|P13445|RPOS_ECOLI RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|882634|gb|AAA69251.1| RNA polymerase sigma subunit RpoS (sigma-38) [Escherichia coli str. K-12 substr. MG1655] gi|1789098|gb|AAC75783.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. MG1655] gi|23306700|gb|AAN15267.1| RNA polymerase sigma factor S [Escherichia coli] gi|23306712|gb|AAN15273.1| RNA polymerase sigma factor S [Escherichia coli] gi|169890151|gb|ACB03858.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. DH10B] gi|238863502|gb|ACR65500.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli BW2952] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|24114036|ref|NP_708546.1| RNA polymerase sigma factor RpoS [Shigella flexneri 2a str. 301] gi|24053158|gb|AAN44253.1| similar to sigmaD(70) factor of RNA polymerase [Shigella flexneri 2a str. 301] gi|281602111|gb|ADA75095.1| RNA polymerase sigma factor [Shigella flexneri 2002017] Length = 342 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 332 >gi|312143990|ref|YP_003995436.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium sp. 'sapolanicus'] gi|311904641|gb|ADQ15082.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium sp. 'sapolanicus'] Length = 360 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 139/274 (50%), Gaps = 33/274 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L EE +LAKR E GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 94 YLKEIGKVDLLTADEEVMLAKRM-EQGDEWAKQQLVEANLRLVVSIAKKYVGRGMLFLDL 152 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I +++ + Sbjct: 153 IQEGNMGLMKAVEKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRV--PVHMVETINK 210 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 L R+ L KPE+ I +++++S +V +S+ + +E + Sbjct: 211 LIRVSRQLLQEKGREPKPEE---IGEEMDISAEKVREIMKIAQEPVSLETPIGEEEDSHL 267 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 D++S Y +L+ + L + L RE+R+ E R Sbjct: 268 GDFIEDEDSPAPASAASY-------ILL--------KEQLDGVLDTLTEREKRVLELRFG 312 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E+ P TLE + EF V+RER+RQIEA+A +K+ Sbjct: 313 IEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKL 346 >gi|313123887|ref|YP_004034146.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280450|gb|ADQ61169.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 378 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 92/272 (33%), Positives = 142/272 (52%), Gaps = 22/272 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG--LPIS 76 Y+ EI K+P+L + EE +AKR E+GD A L ++LRLVV IA Y + + I Sbjct: 107 YLKEIGKVPLLSRDEEVEVAKRI-ENGDELAKDELAAANLRLVVSIAKRYAKHNGKMGIL 165 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGNIGLM+AV KFD +GF+ +TY+ WWI+ A+ + +++I + Sbjct: 166 DLIQEGNIGLMKAVDKFDYSKGFKFSTYATWWIRQAITRALADQDRMIRIPVHVVES--I 223 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + R++ LQ D + KPE++ A + E+I++ D SL+ + ++ Sbjct: 224 NKMNRIQRILQQDLDRDAKPEELAAEMNEPLQKVQEIITVAKNQETD-SLDKPV--GEEG 280 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-----VLNPRERRIFEARRLQEN 251 SQ D L ++ I EE ML +S L RE ++ + R EN Sbjct: 281 DSQLGDLL------EDNKAINPEEY-TASEMLKDQLSSMMGEFLTDREAKVLKLRFGLEN 333 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + V+RERVRQIEA+A KK++ Sbjct: 334 DEPHTLEEVGRSLGVTRERVRQIEAKAVKKLK 365 >gi|296104425|ref|YP_003614571.1| RNA polymerase nonessential primary-like sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295058884|gb|ADF63622.1| RNA polymerase nonessential primary-like sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295097322|emb|CBK86412.1| RNA polymerase sigma factor RpoS [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|289805538|ref|ZP_06536167.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 321 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|126699059|ref|YP_001087956.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile 630] gi|115250496|emb|CAJ68320.1| RNA polymerase sigma factor SigA1 (sigma-43) [Clostridium difficile] Length = 390 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/266 (33%), Positives = 144/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ EE A+R E GD A RLV ++LRLVV IA Y G G+ ++ Sbjct: 124 YLKEIGKIPLLKPHEEVEFARRMHE-GDEIAKQRLVEANLRLVVSIAKRYVGRGMLFLDL 182 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 183 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 240 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L + KPE+ IAK++ ++E +V + ++A D SL I ++ Sbjct: 241 LIRVSRQLLQELGRDPKPEE---IAKEMEMTEDKVREI-MKIAQDPVSLETPIG--EEED 294 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D K + + + LN RE+++ + R E+ TL Sbjct: 295 SHLGDFIPDDDAPAPAEAAAYSLLKEQ---IEDVLGSLNDREQKVLKLRFGLEDGRARTL 351 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 352 EEVGKEFDVTRERIRQIEAKALRKLR 377 >gi|320173409|gb|EFW48608.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae CDC 74-1112] Length = 342 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 332 >gi|10197699|gb|AAG14981.1|AF242209_6 alternative sigma factor [Escherichia coli] Length = 360 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|16761696|ref|NP_457313.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16766230|ref|NP_461845.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|56414872|ref|YP_151947.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|62181426|ref|YP_217843.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|157148284|ref|YP_001455603.1| RNA polymerase sigma factor RpoS [Citrobacter koseri ATCC BAA-895] gi|167550225|ref|ZP_02343982.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|168230998|ref|ZP_02656056.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168235962|ref|ZP_02661020.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168242664|ref|ZP_02667596.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168261948|ref|ZP_02683921.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168463936|ref|ZP_02697853.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168820376|ref|ZP_02832376.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194442500|ref|YP_002042165.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194451079|ref|YP_002046882.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194470798|ref|ZP_03076782.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194738113|ref|YP_002115873.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197263839|ref|ZP_03163913.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197363800|ref|YP_002143437.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198243199|ref|YP_002216890.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200388856|ref|ZP_03215468.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204928102|ref|ZP_03219302.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|207858184|ref|YP_002244835.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213052392|ref|ZP_03345270.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213648321|ref|ZP_03378374.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|224584701|ref|YP_002638499.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|237729723|ref|ZP_04560204.1| RNA polymerase sigma factor RpoS [Citrobacter sp. 30_2] gi|238909692|ref|ZP_04653529.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|283835495|ref|ZP_06355236.1| RNA polymerase sigma factor RpoS [Citrobacter youngae ATCC 29220] gi|61236740|sp|P0A2E5|RPOS_SALTY RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|61236751|sp|P0A2E6|RPOS_SALTI RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|61236761|sp|P0A2E7|RPOS_SALDU RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|1073666|pir||S49471 transcription initiation factor sigma kaltF - Salmonella choleraesuis gi|6010738|gb|AAF01235.1|AF184104_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|558645|emb|CAA57640.1| katF (rpoS) [Salmonella enterica] gi|602087|emb|CAA54798.1| KatF [Salmonella enterica subsp. enterica serovar Typhimurium] gi|16421473|gb|AAL21804.1| sigma S (sigma 38) factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16503997|emb|CAD06030.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Typhi] gi|56129129|gb|AAV78635.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|62129059|gb|AAX66762.1| sigma S (sigma 38) factor of RNA polymerase, major sigmafactor during stationary phase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|157085489|gb|ABV15167.1| hypothetical protein CKO_04101 [Citrobacter koseri ATCC BAA-895] gi|194401163|gb|ACF61385.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194409383|gb|ACF69602.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194457162|gb|EDX46001.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194713615|gb|ACF92836.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195633598|gb|EDX52012.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197095277|emb|CAR60830.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197242094|gb|EDY24714.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197290706|gb|EDY30060.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197937715|gb|ACH75048.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199605954|gb|EDZ04499.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204322424|gb|EDZ07621.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205324779|gb|EDZ12618.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205334505|gb|EDZ21269.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205338030|gb|EDZ24794.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205342988|gb|EDZ29752.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205349304|gb|EDZ35935.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206709987|emb|CAR34342.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224469228|gb|ACN47058.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|226908329|gb|EEH94247.1| RNA polymerase sigma factor RpoS [Citrobacter sp. 30_2] gi|261248060|emb|CBG25894.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267995054|gb|ACY89939.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|291068697|gb|EFE06806.1| RNA polymerase sigma factor RpoS [Citrobacter youngae ATCC 29220] gi|301159483|emb|CBW19002.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312913942|dbj|BAJ37916.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320087327|emb|CBY97092.1| RNA polymerase sigma factor rpoS [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321225598|gb|EFX50652.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322614255|gb|EFY11186.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322621681|gb|EFY18534.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322624542|gb|EFY21375.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322628873|gb|EFY25656.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322633400|gb|EFY30142.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322636024|gb|EFY32732.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322639617|gb|EFY36303.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322646916|gb|EFY43419.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322652217|gb|EFY48576.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322654704|gb|EFY51023.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322658925|gb|EFY55178.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322664508|gb|EFY60702.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322668243|gb|EFY64400.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322673777|gb|EFY69878.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322677838|gb|EFY73901.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322681332|gb|EFY77364.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322683734|gb|EFY79744.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|322715910|gb|EFZ07481.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] gi|323131276|gb|ADX18706.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323193878|gb|EFZ79081.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323200347|gb|EFZ85429.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323202369|gb|EFZ87413.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323205603|gb|EFZ90568.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323210115|gb|EFZ95018.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323216417|gb|EGA01144.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323220766|gb|EGA05207.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323226390|gb|EGA10598.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323230730|gb|EGA14848.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323234919|gb|EGA19005.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323238958|gb|EGA23008.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323241658|gb|EGA25689.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323248195|gb|EGA32131.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323251221|gb|EGA35094.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323257395|gb|EGA41091.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323263241|gb|EGA46779.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323264257|gb|EGA47763.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323271083|gb|EGA54511.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326624653|gb|EGE30998.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|332989795|gb|AEF08778.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|261883762|ref|ZP_06007801.1| RNA polymerase factor sigma-32 [Campylobacter fetus subsp. venerealis str. Azul-94] Length = 165 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 67/156 (42%), Positives = 97/156 (62%), Gaps = 1/156 (0%) Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 +MQ+YILR+WS+V+ GT++ QK LFFNLRRL+ L DN K E I+ +L VS S Sbjct: 1 SMQDYILRNWSIVRGGTSSAQKALFFNLRRLRSKLAQTDDNMTKAEIYREISDQLGVSTS 60 Query: 172 EVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 +V M+ RL+G D SL+A +N + +S+ D+LV DH Q+++ + + R LTR Sbjct: 61 DVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIAESSIDMERRNRWLTR 120 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 ++ LN RE I RRL ++ VTLE L + +SR Sbjct: 121 ALDTLNERELHIIRERRLDDDGVTLEALGEKLGISR 156 >gi|259909441|ref|YP_002649797.1| RNA polymerase sigma factor [Erwinia pyrifoliae Ep1/96] gi|224965063|emb|CAX56595.1| RNA polymerase sigma factor [Erwinia pyrifoliae Ep1/96] Length = 277 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 138/277 (49%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 8 YLGEIGYSPLLTAEEEVFFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 126 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I KP V+ +LN + S++ L GD L Sbjct: 127 RTARELSHKLDHEPSAEEIAQKLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 183 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 184 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 232 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 233 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 267 >gi|320538977|ref|ZP_08038652.1| RNA polymerase, sigma S (sigma 38) factor [Serratia symbiotica str. Tucson] gi|320030910|gb|EFW12914.1| RNA polymerase, sigma S (sigma 38) factor [Serratia symbiotica str. Tucson] Length = 332 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 143/280 (51%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA+ Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVLSRRRMIESNLRLVVKIALRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD S AL+ Sbjct: 182 RTARELSHRLDHEPSAEEIAEQLDKPVGDVSHMLRLN---ERITSVDTPLGGD-SEKALL 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + D D ++ ++ + + LN ++R + ARR Sbjct: 238 DILADEKDNGPEGTTQDDDMKQSIV--------------KWLFELNAKQREVL-ARRFGL 282 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 283 LGYESATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|332799075|ref|YP_004460574.1| RpoD subfamily RNA polymerase sigma-70 [Tepidanaerobacter sp. Re1] gi|332696810|gb|AEE91267.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tepidanaerobacter sp. Re1] Length = 374 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 141/265 (53%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE +L+KR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGKVPLLSAEEEIMLSKRI-EEGDKEAKRRLAEANLRLVVSIAKKYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD ++G++ +TY+ WWI+ A+ I ++I + Sbjct: 167 IQEGNLGLMKAVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 224 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ IA+++ + +V + ++A E ++ ++ S Sbjct: 225 LIRIQRQLLQELGRDPLPEE---IAEEMELPVEKVREI-MKIA-QEPVSLATPIGEEEDS 279 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + L + L PRE ++ R ++ P TLE Sbjct: 280 FLGDFI---PDDEALAPADAAAYLLLKEQLEDVLETLTPREEKVLRLRFGLDDGRPRTLE 336 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 337 EVGQVFGVTRERIRQIEAKALRKLR 361 >gi|315127432|ref|YP_004069435.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas sp. SM9913] gi|315015946|gb|ADT69284.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas sp. SM9913] Length = 323 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 91/274 (33%), Positives = 147/274 (53%), Gaps = 19/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A++ + G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 52 YLGEIGFSPLLSAEEEVFFARKSLK-GCEASRKRMIESNLRLVVKIARRYNNRGLALLDL 110 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 111 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 169 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E+ IA+ L+ +V M LN I S D Sbjct: 170 LRTARELTQKL-DHEPTAEE---IAESLDRPVEDVTKML-------RLNEKIASVDMPIG 218 Query: 199 QWQDWLVYDHDGQEQ-VLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARR---LQENPV 253 D + D E+ V E E + N N + + LNP++R + ARR L P Sbjct: 219 SENDSALLDVIADEKNVGPEGEVQNNDMNTHIIDWLGELNPKQREVL-ARRFGLLGYEPS 277 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ A +++++ +Q++ Sbjct: 278 TLEDVGREIGLTRERVRQIQVEALRRLKDILQQE 311 >gi|6010728|gb|AAF01230.1|AF184099_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|4100838|gb|AAD01001.1| RpoS [Escherichia coli] gi|4100840|gb|AAD01002.1| RpoS [Escherichia coli] gi|4100842|gb|AAD01003.1| RpoS [Escherichia coli] Length = 328 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|188997117|ref|YP_001931368.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] gi|188932184|gb|ACD66814.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] Length = 281 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 143/274 (52%), Gaps = 35/274 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ ++ K PML +EE LA R + GD A +LV +LR VV IA + G+G+P+ Sbjct: 10 LQLYMQQMGKHPMLSPEEEKELAIRAK-QGDKEALKKLVEGNLRFVVSIAKNFMGWGVPL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++++ GN+GL++A K+FDP++ + +Y++WWI+ A+ + I + V+I ++ L Sbjct: 69 TDLIAAGNLGLIEAAKRFDPDKNVKFISYAVWWIRQAIMQTIFQQTGAVRIPV---KESL 125 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL--AGD 183 F + ++K + + + + IAK+LN S +V IS++ L G+ Sbjct: 126 F--IAKVKETYEKLKEELGREPTEEEIAKRLNTSVKKVKNALSIVRLPISLDMPLGEGGE 183 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E L S K + E+ LIE+ K +ML VL+ RE+ I Sbjct: 184 EDFTLLDVLSKKGTEDI-----------EKELIEETIHKELESML----DVLDEREKEII 228 Query: 244 EARRL--QENPVTLENLSSEFEVSRERVRQIEAR 275 + R E P TLE + + +SRERVRQ+E R Sbjct: 229 KMRYGLDGEEPKTLEEVGEKLGISRERVRQLEQR 262 >gi|255655465|ref|ZP_05400874.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-23m63] gi|296451458|ref|ZP_06893195.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP08] gi|296880193|ref|ZP_06904159.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP07] gi|296259725|gb|EFH06583.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP08] gi|296428782|gb|EFH14663.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP07] Length = 388 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/266 (33%), Positives = 144/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ EE A+R E GD A RLV ++LRLVV IA Y G G+ ++ Sbjct: 122 YLKEIGKIPLLKPHEEVEFARRMHE-GDEIAKQRLVEANLRLVVSIAKRYVGRGMLFLDL 180 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 181 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 238 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L + KPE+ IAK++ ++E +V + ++A D SL I ++ Sbjct: 239 LIRVSRQLLQELGRDPKPEE---IAKEMEMTEDKVREI-MKIAQDPVSLETPIG--EEED 292 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D K + + + LN RE+++ + R E+ TL Sbjct: 293 SHLGDFIPDDDAPAPAEAAAYSLLKEQ---IEDVLGSLNDREQKVLKLRFGLEDGRARTL 349 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 350 EEVGKEFDVTRERIRQIEAKALRKLR 375 >gi|153839213|ref|ZP_01991880.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ3810] gi|149747278|gb|EDM58264.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ3810] Length = 274 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 146/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 2 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 60 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ ++ K L Sbjct: 61 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTTRLPIHV-VKELNIY 119 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ E++ A ++K L ++E + S++ + GD L Sbjct: 120 LRTAR-ELSQKLDHEPTAEEIAAQLDIPVEDVSKMLRLNER-ISSVDTPIGGDGEKALLD 177 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 178 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 221 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 222 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQ 261 >gi|441116|gb|AAA61628.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium] gi|1090521|prf||2019251A RNA polymerase sigma factor Length = 330 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRDL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|301049496|ref|ZP_07196454.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 185-1] gi|300298727|gb|EFJ55112.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 185-1] Length = 342 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAKEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 332 >gi|12483895|gb|AAG53883.1|AF275947_2 sigma factor RpoS [Escherichia coli] Length = 366 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 332 >gi|302391478|ref|YP_003827298.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] gi|302203555|gb|ADL12233.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] Length = 358 Score = 117 bits (294), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 138/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L +EE LAKR E GD+ A LV ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGKVDLLTAEEEVELAKRM-EEGDMEAKRMLVEANLRLVVSIAKKYVGRGMLFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 151 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMVETINK 208 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + R+ HL PE+ IA+++++SE +V E ++ ++ S Sbjct: 209 VIRVSRHLLQELGREPTPEE---IAEEMDLSEEKV--REVLKISQEPVSLETPIGEEEDS 263 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D V + L + L+ RE+R+ E R E+ TLE Sbjct: 264 HLGDFIEDDDAPAPSV---AASHMMLQEQLDEVLDTLSDREKRVLELRFGVEDGRSRTLE 320 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 321 EVGKEFGVTRERIRQIEAKALRKLR 345 >gi|254975009|ref|ZP_05271481.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-66c26] gi|255092397|ref|ZP_05321875.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile CIP 107932] gi|255100481|ref|ZP_05329458.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-63q42] gi|255306421|ref|ZP_05350592.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile ATCC 43255] gi|255314137|ref|ZP_05355720.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-76w55] gi|255516815|ref|ZP_05384491.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-97b34] gi|255649917|ref|ZP_05396819.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-37x79] gi|260683071|ref|YP_003214356.1| RNA polymerase factor sigma-43 [Clostridium difficile CD196] gi|260686669|ref|YP_003217802.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile R20291] gi|306520001|ref|ZP_07406348.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-32g58] gi|260209234|emb|CBA62522.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile CD196] gi|260212685|emb|CBE03759.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile R20291] Length = 388 Score = 117 bits (294), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/266 (33%), Positives = 144/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ EE A+R E GD A RLV ++LRLVV IA Y G G+ ++ Sbjct: 122 YLKEIGKIPLLKPHEEVEFARRMHE-GDEIAKQRLVEANLRLVVSIAKRYVGRGMLFLDL 180 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 181 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 238 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L + KPE+ IAK++ ++E +V + ++A D SL I ++ Sbjct: 239 LIRVSRQLLQELGRDPKPEE---IAKEMEMTEDKVREI-MKIAQDPVSLETPIG--EEED 292 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D K + + + LN RE+++ + R E+ TL Sbjct: 293 SHLGDFIPDDDAPAPAEAAAYSLLKEQ---IEDVLGSLNDREQKVLKLRFGLEDGRARTL 349 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 350 EEVGKEFDVTRERIRQIEAKALRKLR 375 >gi|300813859|ref|ZP_07094164.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 836 str. F0141] gi|300512046|gb|EFK39241.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 361 Score = 117 bits (294), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 87/267 (32%), Positives = 140/267 (52%), Gaps = 17/267 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE +AKR E+GD SA L ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGKIPLLTGDEEVEIAKRM-ENGDNSAKKELAEANLRLVVSIAKRYVGRGMSFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 154 IQEGNLGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 211 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ IAK++++ +V + SL I ++ S Sbjct: 212 LVRVQRQLVQELGRDPLPEE---IAKEMSIDVEKVREIQKIAQEPVSLETPI--GEEEDS 266 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEARRLQEN--PVT 254 D++ E++L ++ R L+ + L RE+++ R ++ T Sbjct: 267 HLGDFI-----PDEEILSPQDAATFTLLREQLSTVLETLTDREKKVLTLRFGLDDGRART 321 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 LE + EF V+RER+RQIEA+A +K++ Sbjct: 322 LEEVGKEFAVTRERIRQIEAKAIRKLR 348 >gi|266625476|ref|ZP_06118411.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] gi|288862622|gb|EFC94920.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] Length = 381 Score = 117 bits (294), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 88/285 (30%), Positives = 145/285 (50%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LAKR + GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGTVPLLSADEELRLAKR-KADGDEDAKERLIEANLRLVVSIAKRYTGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ T N Sbjct: 175 VQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 234 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L G+ ++T+ +A L++SE +V+ + SL Sbjct: 235 KMQRKLTLEL----GYEPSVTE----------LADALDMSEDKVMEIMQIAREPASLETP 280 Query: 190 INSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D S D+ +V E V++ R + + L RER++ Sbjct: 281 IGEED--DSNLGDFVADNNVVTPEGNVESVML--------REHIDALLGDLKERERQVIV 330 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 331 LRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375 >gi|168704138|ref|ZP_02736415.1| RNA polymerase sigma factor rpoS [Gemmata obscuriglobus UQM 2246] Length = 280 Score = 117 bits (294), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/297 (29%), Positives = 143/297 (48%), Gaps = 37/297 (12%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K M I G +S Y+ EI + P+L EE L R + GD +A R+V ++LRLVV Sbjct: 9 KPMGISAPGGTAMSAYLREIDRTPLLSATEERELGGRILD-GDPAARDRMVRANLRLVVN 67 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +A GY G GL + ++V+EGN+GL++AV+ FDP R +TY+ +WIK ++Q I+ + Sbjct: 68 LARGYTGRGLSLDDLVAEGNMGLLRAVEGFDPGMSTRFSTYASFWIKQSIQRAIVNTART 127 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--ISMNCRLA 181 +++ T L RR L PE+V A L +S ++ + + ++A Sbjct: 128 IRVPT--YMAALVARWRRATAALGDELGRAPAPEEV---AGHLGLSRRKLAMVQLALKVA 182 Query: 182 G--------DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 G + L LI + + S D D EQ+ + E+ + Sbjct: 183 GAGTQADDAEGGLEGLIPDTRDSGS--------DADAAEQLKLVFEQ-----------LD 223 Query: 234 VLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 LNPR+ + R E P TL+ + +++ERVRQIE+ A + + +V Sbjct: 224 RLNPRDADVLRLRFGLSGEEPKTLKEVGEALGLTKERVRQIESAALSALATGLVDRV 280 >gi|333001093|gb|EGK20663.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-272] gi|333015402|gb|EGK34741.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-227] Length = 330 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 140/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTVRELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|83589488|ref|YP_429497.1| RNA polymerase sigma factor RpoD [Moorella thermoacetica ATCC 39073] gi|83572402|gb|ABC18954.1| RNA polymerase, sigma 70 subunit, RpoD [Moorella thermoacetica ATCC 39073] Length = 361 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 87/264 (32%), Positives = 136/264 (51%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGRVPLLTPEEEIELAKRM-EAGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 154 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 211 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L PE+ IA ++++ V + SL I ++ S Sbjct: 212 LIRVQRQLLQELGREPTPEE---IAHEMDIPVERVREIQKIAQEPVSLETPIG--EEEDS 266 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + D D Q E R L ++ L PRE+R+ R ++ TLE Sbjct: 267 HLGDF-IEDEDAQAPA--EAASFMLLREQLEEVLNSLTPREKRVLRLRFGLDDGRARTLE 323 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + EF V+RER+RQIEA+A +K+ Sbjct: 324 EVGQEFGVTRERIRQIEAKALRKL 347 >gi|315137348|dbj|BAJ44507.1| RNA polymerase sigma factor RpoS [Escherichia coli DH1] Length = 330 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL +AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLTRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|71278347|ref|YP_267823.1| RNA polymerase sigma factor RpoS [Colwellia psychrerythraea 34H] gi|71144087|gb|AAZ24560.1| RNA polymerase sigma factor RpoS [Colwellia psychrerythraea 34H] Length = 296 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 92/280 (32%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R GD + R++ S+LRLVVKIA Y GLP+ ++ Sbjct: 27 YLSEIGFSPLLTAEEE-VYFSRLALKGDEPSRKRMIESNLRLVVKIARRYNNRGLPLLDL 85 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 86 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNIY 144 Query: 139 LRRLKGHLQAITDNNLKPEQV-------VAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 LR + +Q + D+ E + VA K+ + S++ AG ES AL++ Sbjct: 145 LRASRELIQKL-DHEPTAEDIAQHLDRPVADVNKMLRLNERIASVDTPFAG-ESDKALLD 202 Query: 192 S-SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 +D+ S+ G E L + ++ N + ++ LN ++R + ARR Sbjct: 203 VIADEKST-----------GPESDL----QSEDMSNNIIHWLNELNTKQREVL-ARRFGL 246 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLEN+ E ++RERVRQI+ A K++++ + +Q Sbjct: 247 LGYEASTLENVGREIGLTRERVRQIQVEALKRLRDILSQQ 286 >gi|332140079|ref|YP_004425817.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] gi|332143123|ref|YP_004428861.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] gi|327550101|gb|AEA96819.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] gi|327553145|gb|AEA99863.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] Length = 330 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 147/275 (53%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R + G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 59 YLGEIGFSPLLTAEEEVYFARRSLK-GCEASRKRMIVSNLRLVVKIARRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + L D+ E++ A K ++++ +N R I S D Sbjct: 177 LRASR-ELSQKLDHEPTAEEIAAALDKPVEDVTKMLRLNER----------ITSVDTPIG 225 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKN---RRNMLTRSMSVLNPRERRIFEARR---LQENP 252 D + D E+ +E ++ + N++T + LNP++R + ARR + P Sbjct: 226 GENDKALLDIIADEKEFSPEESLQDSDIKSNIIT-WLEELNPKQREVL-ARRFGLMGYEP 283 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ +E ++RERVRQI+ A +++++ + Q Sbjct: 284 STLEDVGAEIGLTRERVRQIQVEALRRLRDMLGHQ 318 >gi|295101750|emb|CBK99295.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii L2-6] Length = 359 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 80/240 (33%), Positives = 128/240 (53%), Gaps = 14/240 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A RL ++LRLVV +A Y G GLP +++ EGN+GLM+A +KF+P+RGF+ +TY Sbjct: 117 GDEDARRRLSEANLRLVVSVAKRYAGRGLPFLDLIQEGNLGLMKAAEKFEPDRGFKFSTY 176 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ ++ I ++I L ++ R+K + + IA Sbjct: 177 ATWWIRQSITRAIADQGRTIRIPV-----HLVESINRVKKTAGELLRRTGREPTAEEIAA 231 Query: 165 KLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +L++ + V + +LA D SL + ++ + +D++ D G V ++ R+ Sbjct: 232 QLDMEPARVREL-IQLAQDPISLETPVG--EEEDAHLEDFIQDDEAG---VPADEAGRQL 285 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + L PRE R+ R E+ TLE L EF V+RERVRQIEA+A +K++ Sbjct: 286 LRRELMNVLKSLTPREERVIALRFGLEDGRARTLEELGREFNVTRERVRQIEAKALRKLR 345 >gi|242238323|ref|YP_002986504.1| RNA polymerase sigma factor RpoS [Dickeya dadantii Ech703] gi|242130380|gb|ACS84682.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dickeya dadantii Ech703] Length = 330 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 91/276 (32%), Positives = 149/276 (53%), Gaps = 23/276 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVSSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNVY 178 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR + L D+ E+ IA++L+ +V + +N R+ ++ L SDK Sbjct: 179 LRTAR-ELSHKLDHEPSAEE---IAERLDRPVDDVNRMLRLNERITSVDT--PLGGDSDK 232 Query: 196 NSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQEN 251 D L + D G E + ++N + + + LN ++R + ARR L Sbjct: 233 ---ALLDILADEKDNGPEDTTQNNDMKQN----IVKWLFELNAKQREVL-ARRFGLLGYE 284 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 285 AATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|312883942|ref|ZP_07743659.1| hypothetical protein VIBC2010_01628 [Vibrio caribbenthicus ATCC BAA-2122] gi|309368400|gb|EFP95935.1| hypothetical protein VIBC2010_01628 [Vibrio caribbenthicus ATCC BAA-2122] Length = 325 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 53 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNAL- 189 LR + Q + D+ E++ ++K L ++E + S++ + GD L Sbjct: 171 LRTARELSQKL-DHEPTAEEIALQLDKPVDDVSKMLRLNE-RISSVDTPIGGDGEKALLD 228 Query: 190 ----INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 +N+SD S D + ++ L + LNP+++ + A Sbjct: 229 IIPDVNNSDPEVSTQDDDI--------------------KSSLIDWLDELNPKQKEVL-A 267 Query: 246 RR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 268 RRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 312 >gi|288819153|ref|YP_003433501.1| RNA polymerase sigma factor RpoS [Hydrogenobacter thermophilus TK-6] gi|288788553|dbj|BAI70300.1| RNA polymerase sigma factor RpoS [Hydrogenobacter thermophilus TK-6] gi|308752737|gb|ADO46220.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hydrogenobacter thermophilus TK-6] Length = 310 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 95/298 (31%), Positives = 153/298 (51%), Gaps = 42/298 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +++Y+ ++ KIP+L +EE +A+R +E GD A +LV S+LR V+ IA Y GYGLP+ Sbjct: 10 INQYLKKVAKIPLLTPEEEKEVARRAKE-GDQEAFRKLVESNLRFVINIAKQYLGYGLPL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--- 132 SE+++ GN GL++A K+FDP+RG + +Y++WWI+ A+ + + + V+I Sbjct: 69 SELIAAGNHGLIEAAKRFDPDRGVKFISYAVWWIRQAIMQALSQQTGAVRIPLKQAHVIN 128 Query: 133 ------KRLFFNLRR---------------LKGHLQAITDNNLKPEQVVAIAK----KLN 167 RLF L R L L+ ++V K K++ Sbjct: 129 RIGSIYSRLFRELEREPTPEEVAIEYSKEILSRELERELGRKPTKDEVEQRFKKEGFKIS 188 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY--DHDGQEQVLIEKEERKNRR 225 E E CR+ SL+A + ++ + + D+L D +E+++ E E K Sbjct: 189 PEEVEKCLQVCRIPL--SLDAPVGENE--DTFFVDFLSQHGTADVEERIINEVLE-KEIG 243 Query: 226 NMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +ML R L +ERR+ E R E P TL + +SRERVRQ+E RA +K++ Sbjct: 244 DMLDR----LPEKERRVIELRFGLRGEEPRTLREIGDILNISRERVRQLETRALRKLR 297 >gi|260361829|ref|ZP_05774845.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus K5030] gi|308114475|gb|EFO52015.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus K5030] Length = 329 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 147/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R+ S+LRLVVKI+ Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMFESNLRLVVKISRRYSNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 175 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 232 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 233 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 276 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 277 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQ 316 >gi|319955411|ref|YP_004166678.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Cellulophaga algicola DSM 14237] gi|319424071|gb|ADV51180.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga algicola DSM 14237] Length = 286 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 93/298 (31%), Positives = 150/298 (50%), Gaps = 59/298 (19%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y EI K+ M+ EE LA + RE GD A + LV ++LR VV +A Y+G GL + Sbjct: 18 LEKYFQEISKLDMITANEEVELAIKIRE-GDQVALNTLVNANLRFVVSVAKQYQGSGLRL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-----LRSWSLVKIGTTA 130 S++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + I + L KIG Sbjct: 77 SDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQAISELSRMVRLPLNKIGEIG 136 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL 180 ++F L + LQ +P + IA++L++S S+V +SM+ Sbjct: 137 KINKVFSYLEQ---SLQ-------RPPNAIEIARELDMSTSQVKLAMKNTGKHLSMDAPF 186 Query: 181 AGDESLNA--LINSSDKNSSQ---WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 A ES N ++ S + NS Q+ L D + +S L Sbjct: 187 AEGESSNLYNVVQSKEANSPDTNLMQESLSSD--------------------IGDLLSTL 226 Query: 236 NPRERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE I RL ++ P++L + F++SRERVRQI +A + ++ QK+V Sbjct: 227 PSRESDII---RLYYGIGEKAPMSLTEIGEIFDISRERVRQIREKAIRVLRRKSQKEV 281 >gi|157369077|ref|YP_001477066.1| RNA polymerase sigma factor RpoS [Serratia proteamaculans 568] gi|157320841|gb|ABV39938.1| RNA polymerase, sigma 70 subunit, RpoD family [Serratia proteamaculans 568] Length = 332 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 239 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQMQ 322 >gi|221633247|ref|YP_002522472.1| RNA polymerase sigma factor rpoD [Thermomicrobium roseum DSM 5159] gi|221156052|gb|ACM05179.1| RNA polymerase sigma factor rpoD [Thermomicrobium roseum DSM 5159] Length = 340 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 93/266 (34%), Positives = 140/266 (52%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I + P+L +EE LAKR +E GD A R V S+LRLVV IA Y G GL + ++ Sbjct: 73 YLRDIAEAPLLTPEEEVELAKRIKE-GDTEALQRFVRSNLRLVVSIAKRYVGRGLSLLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KFD RG+R +TY+ WWI+ A+ I +++ ++ Sbjct: 132 IQEGNIGLMRAVEKFDWRRGYRFSTYATWWIRQAITRAIADQGRTIRLPVHMTDSITRYH 191 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 R L PE+ IA+ ++V + E I+ R A SL+ ++ D+ S Sbjct: 192 --RTTTQLAQELGRQPTPEE---IAEAMSV-QPEKIAQIVRAAQRAVSLDQPLSEEDETS 245 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 D L+ D Q + EE RR+ + + +L PRER + + R + P TL Sbjct: 246 --LGD-LIADELAQSPEEL-AEESLMRRD-IAEILEMLTPRERLVLQLRYGLSDGEPRTL 300 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 + +SRERVRQIE A +K++ Sbjct: 301 AEVGDLLGISRERVRQIENEALRKLR 326 >gi|310766652|gb|ADP11602.1| RNA polymerase sigma factor RpoS [Erwinia sp. Ejp617] Length = 330 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 138/277 (49%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAQKLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 320 >gi|54294183|ref|YP_126598.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Lens] gi|54297202|ref|YP_123571.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Paris] gi|53750987|emb|CAH12398.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Paris] gi|53754015|emb|CAH15486.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Lens] gi|307609996|emb|CBW99528.1| RNA polymerase sigma factor RpoS [Legionella pneumophila 130b] Length = 341 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 82/275 (29%), Positives = 147/275 (53%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A + GD+ A +++ S+LRLVVKIA Y GLP+ ++ Sbjct: 74 YLGEIGFSPLLTAEEEIHYATLALK-GDMEARKKMIESNLRLVVKIARRYLNRGLPLLDL 132 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM++V+KFDP+RGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 133 IEEGNLGLMKSVEKFDPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 191 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-------DESLNALIN 191 LR + Q + D+ PE++ + K +++ +N ++A DE+ + L Sbjct: 192 LRAARQLTQKL-DHEPSPEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDT 250 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D+NS + L ++ Q + + +N++ ++ R + R FE Sbjct: 251 IADENSLNPAELLTNENLRQHIESLLDKLTENQQQVIARRFGL------RGFEK------ 298 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E +++RERVRQI+ A K ++ +++ Sbjct: 299 -ATLEDVGKEIDLTRERVRQIQVEALKTLRTLLER 332 >gi|5771430|gb|AAD51396.1|AF117715_5 stationary phase specific sigma factor homolog [Legionella pneumophila] Length = 341 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 82/275 (29%), Positives = 147/275 (53%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A + GD+ A +++ S+LRLVVKIA Y GLP+ ++ Sbjct: 74 YLGEIGFSPLLTAEEEIHYATLALK-GDMEARKKMIESNLRLVVKIARRYLNRGLPLLDL 132 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM++V+KFDP+RGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 133 IEEGNLGLMKSVEKFDPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 191 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-------DESLNALIN 191 LR + Q + D+ PE++ + K +++ +N ++A DE+ + L Sbjct: 192 LRAARQLTQKL-DHEPSPEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDT 250 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D+NS + L ++ Q + + +N++ ++ R + R FE Sbjct: 251 IADENSLNPAELLTNENLRQHIESLLDKLTENQQQVIARRFGL------RGFEK------ 298 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E +++RERVRQI+ A K ++ +++ Sbjct: 299 -ATLEDVGKEIDLTRERVRQIQVEALKTLRTLLER 332 >gi|327399101|ref|YP_004339970.1| putative RNA polymerase, sigma 70 family subunit [Hippea maritima DSM 10411] gi|327181730|gb|AEA33911.1| putative RNA polymerase, sigma 70 family subunit [Hippea maritima DSM 10411] Length = 289 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 91/298 (30%), Positives = 149/298 (50%), Gaps = 44/298 (14%) Query: 4 KNMSIIVNGEI------GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSH 57 KN + +N E+ L+ Y+ EI KIP+L +EE L +R ++ GD A +LV + Sbjct: 8 KNEQLAINDEVDLAESSALTSYLKEISKIPVLSAEEEKELGRRIKK-GDKEALKKLVKHN 66 Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LR VV +A Y+ G+P+ ++++EGN+GL++A KKFDP+R + +Y+ WWIK ++ +YI Sbjct: 67 LRFVVSVAKKYKNLGIPLLDLINEGNLGLIKAAKKFDPDRNTKFISYAAWWIKQSIMKYI 126 Query: 118 ----------LRSWSLV-KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 L++ S + KI T R F+ + G + I+D Sbjct: 127 TEQSTPIRIPLKAKSRISKIDTIKEDYRQKFDEEPMNGEISEISD--------------- 171 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRR 225 +SE E+ N LA +S D S +D L D ++ IE E +K+ Sbjct: 172 -LSEREI--KNAELA-----RFYFDSLDDYVSDDKDILKGDLISLKEQSIEDEHIQKSLI 223 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + +S L RE+ I + R P TL + ++ +S+ERVRQ+E K++ Sbjct: 224 EEVNKFLSELPEREQDIIKLRYGLYDGRPRTLREIGEKYGISKERVRQLENNILNKLK 281 >gi|302871329|ref|YP_003839965.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574188|gb|ADL41979.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 417 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 89/265 (33%), Positives = 139/265 (52%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 151 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 209 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 210 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 267 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L PE+ IAK++N+ +V + ++A + SL I ++ Sbjct: 268 LVRVSRQLLQEKGREPTPEE---IAKEMNMPVEKVREI-LKIAQEPVSLETPI--GEEED 321 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D E + L + LN RE+++ + R E+ TL Sbjct: 322 SHLGDFI---PDDDALAPSEAAAYSMLKEQLLEVLDSLNEREKKVLKLRFGLEDGRARTL 378 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + EF V+RER+RQIEA+A +K+ Sbjct: 379 EEVGKEFNVTRERIRQIEAKALRKL 403 >gi|226226116|ref|YP_002760222.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] gi|226089307|dbj|BAH37752.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] Length = 295 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 147/276 (53%), Gaps = 25/276 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y++E+ P+L+ EE LAK+ R GD A LV +LR V+ +A Y+ GLP+ Sbjct: 26 LDQYLYEVSTYPLLKAAEEIELAKKIR-AGDQDALQELVKRNLRFVISVAKKYQNRGLPL 84 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI--GTTANQK 133 +++ EGN+GL+ A +KFDP++G + +Y++WWI+ A+ + R V++ TA+ Sbjct: 85 IDLIGEGNVGLLTAARKFDPDQGVKFISYAVWWIRQAILSSLARQGRTVRVPLNRTADLS 144 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R+ L+ L+ PE+ +A+ +S V S+ GD L+A ++ Sbjct: 145 RIIKASEILRQKLR----REPSPEE---LAQVTGLSVDVVQSLAALNTGDVRLDAPMD-P 196 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRI----FEARR 247 D + S + ++ + E EE NR + + +++S L PR+ ++ F Sbjct: 197 DGDRSLIERFVADEMPDTE------EEAMNRFLTDEIEQALSTLPPRDAKVLRLYFGLEG 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +E+ TLE + S V+RERVRQ+ RA K+++E Sbjct: 251 GREH--TLEEIGSMLGVTRERVRQLRDRALKRLREG 284 >gi|134094484|ref|YP_001099559.1| RNA polymerase sigma factor RpoS [Herminiimonas arsenicoxydans] gi|133738387|emb|CAL61432.1| RNA polymerase sigma factor rpoS (Sigma-38) [Herminiimonas arsenicoxydans] Length = 344 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I P+L EE A ++ G+ +A +++ +LRLVV IA Y G+ + ++ Sbjct: 75 YLNQIGARPLLTVPEEVHFATLAKQ-GNFAARQKMIEHNLRLVVSIAKHYINRGVVLLDL 133 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+A+ KF+PERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 134 IEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVVRELNQ 191 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 R K HL+A ++ K IA + S +V + SL+A ++ ++S Sbjct: 192 TLRAKFHLEA-QHHDGKDATAEDIAHLVERSVEDVQDILALSEHASSLDAPLDGDPQSS- 249 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEARRL---QENPVT 254 D L DH VL E +E +L R + L+ ++R + RR ++P T Sbjct: 250 -LMDLLQGDHANDPDVLAEHQEMI----VLVRDWLDKLSDKQRLVI-TRRFGLDNDDPAT 303 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE L++E V+RERVRQI+ A K++ S+ + Sbjct: 304 LEELATEMHVTRERVRQIQQEALVKLKRSLAR 335 >gi|23428544|gb|AAL11451.1| RNA polymerase sigma-38 subunit [Serratia plymuthica] Length = 331 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 62 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 180 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 181 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 238 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 286 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 287 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQLQ 321 >gi|91217671|ref|ZP_01254628.1| putative sigma factor A [Psychroflexus torquis ATCC 700755] gi|91184175|gb|EAS70561.1| putative sigma factor A [Psychroflexus torquis ATCC 700755] Length = 288 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 79/284 (27%), Positives = 152/284 (53%), Gaps = 44/284 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I K+ ++ +EE LA+R RE GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKVDLITAEEEVELAQRIRE-GDQAALEKLTNANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ N+ + Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRVVRL--PLNKIGV 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLA---G 182 + + HL+ + N +P + IAK+L++SE++V +SM+ Sbjct: 135 INKINKTFSHLEQV---NERPPSAIEIAKELDMSEAQVKVALKNSGRHLSMDAPFKEGEN 191 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D +L +++S++ S D L+ D E + R++ L+ RE + Sbjct: 192 DSNLYDVLSSAE--SPTPDDQLMRDSLSIE---------------INRALETLSQREADV 234 Query: 243 FEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RL + +TL+ + F++SRERVRQI + ++++ Sbjct: 235 I---RLNYGIGNQPAMTLQEIGDTFDLSRERVRQIREKGIRRLK 275 >gi|330447824|ref|ZP_08311472.1| RNA polymerase sigma factor, sigma-70 family protein [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328492015|dbj|GAA05969.1| RNA polymerase sigma factor, sigma-70 family protein [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 286 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 88/284 (30%), Positives = 146/284 (51%), Gaps = 38/284 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I P+L K++E ++++ GD +A LV S+LRLVV IA YR L +S++ Sbjct: 14 YLNDISNKPLLTKEDEIQYSRKFL-MGDTNAKKILVESNLRLVVSIAKKYRASKLSLSDL 72 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM AV KFDPE+GFR +TY+ WWIK ++ I +++ +++ Sbjct: 73 IDEGNIGLMTAVDKFDPEKGFRFSTYASWWIKQTIERAIHNQNRTIRLPVHVSKEINTL- 131 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN----------VSESEVISMNCRLAGDESLNA 188 L+ H + + NN +P Q IA+ LN SE V+S+ L DE+ N Sbjct: 132 ---LRTHRELMKVNNNEPTQ-DDIARVLNRDINEISSLLASEVNVVSLEQTLGDDENSNT 187 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV--LNPRERRIFEAR 246 + +LV D EQ+ E + M +M + L R+R I R Sbjct: 188 VA------------YLVAD----EQIASPSAEVDSDDIMKVTNMILHKLPSRDREIM-CR 230 Query: 247 R---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R + P TL+ ++ ++RER+RQ++ + ++ S++++ Sbjct: 231 RYGLMGYEPHTLQEVADSVGLTRERIRQLQIKTLNTLKRSLERE 274 >gi|326324968|dbj|BAJ84180.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Oranienburg] Length = 330 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + + Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLNL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|167993163|ref|ZP_02574258.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205328726|gb|EDZ15490.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] Length = 330 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ + ++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRPLREILQTQ 320 >gi|146295919|ref|YP_001179690.1| RpoD family RNA polymerase sigma factor [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409495|gb|ABP66499.1| RNA polymerase, sigma 70 subunit, RpoD [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 411 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 89/265 (33%), Positives = 139/265 (52%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 145 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 203 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 204 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 261 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L PE+ IAK++N+ +V + ++A + SL I ++ Sbjct: 262 LVRVSRQLLQEKGREPTPEE---IAKEMNMPVEKVREI-LKIAQEPVSLETPI--GEEED 315 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D E + L + LN RE+++ + R E+ TL Sbjct: 316 SHLGDFI---PDDDALAPSEAAAYSMLKEQLLEVLDSLNEREKKVLKLRFGLEDGRARTL 372 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + EF V+RER+RQIEA+A +K+ Sbjct: 373 EEVGKEFNVTRERIRQIEAKALRKL 397 >gi|52841515|ref|YP_095314.1| stationary phase specific sigma factor RpoS [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52628626|gb|AAU27367.1| stationary phase specific sigma factor RpoS [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 359 Score = 117 bits (292), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 82/275 (29%), Positives = 147/275 (53%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A + GD+ A +++ S+LRLVVKIA Y GLP+ ++ Sbjct: 92 YLGEIGFSPLLTAEEEIHYATLALK-GDMEARKKMIESNLRLVVKIARRYLNRGLPLLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM++V+KFDP+RGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 151 IEEGNLGLMKSVEKFDPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 209 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-------DESLNALIN 191 LR + Q + D+ PE++ + K +++ +N ++A DE+ + L Sbjct: 210 LRAARQLTQKL-DHEPSPEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDT 268 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D+NS + L ++ Q + + +N++ ++ R + R FE Sbjct: 269 IADENSLNPAELLTNENLRQHIESLLDKLTENQQQVIARRFGL------RGFEK------ 316 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E +++RERVRQI+ A K ++ +++ Sbjct: 317 -ATLEDVGKEIDLTRERVRQIQVEALKTLRTLLER 350 >gi|148358826|ref|YP_001250033.1| stationary phase specific sigma factor RpoS [Legionella pneumophila str. Corby] gi|296106871|ref|YP_003618571.1| stationary phase specific sigma factor RpoS [Legionella pneumophila 2300/99 Alcoy] gi|148280599|gb|ABQ54687.1| stationary phase specific sigma factor RpoS [Legionella pneumophila str. Corby] gi|295648772|gb|ADG24619.1| stationary phase specific sigma factor RpoS [Legionella pneumophila 2300/99 Alcoy] Length = 341 Score = 117 bits (292), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 82/275 (29%), Positives = 147/275 (53%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A + GD+ A +++ S+LRLVVKIA Y GLP+ ++ Sbjct: 74 YLGEIGFSPLLTAEEEIHYATLALK-GDMEARKKMIESNLRLVVKIARRYLNRGLPLLDL 132 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM++V+KFDP+RGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 133 IEEGNLGLMKSVEKFDPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 191 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-------DESLNALIN 191 LR + Q + D+ PE++ + K +++ +N ++A DE+ + L Sbjct: 192 LRAARQLTQKL-DHEPSPEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDT 250 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D+NS + L ++ Q + + +N++ ++ R + R FE Sbjct: 251 IADENSLNPAELLTNENLRQHIESLLDKLTENQQQVIARRFGL------RGFEK------ 298 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E +++RERVRQI+ A K ++ +++ Sbjct: 299 -ATLEDVGKEIDLTRERVRQIQVEALKTLRTLLER 332 >gi|270264030|ref|ZP_06192298.1| RNA polymerase sigma factor RpoS [Serratia odorifera 4Rx13] gi|270042223|gb|EFA15319.1| RNA polymerase sigma factor RpoS [Serratia odorifera 4Rx13] Length = 332 Score = 117 bits (292), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 239 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQLQ 322 >gi|312128161|ref|YP_003993035.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor hydrothermalis 108] gi|312134621|ref|YP_004001959.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor owensensis OL] gi|312792985|ref|YP_004025908.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|311774672|gb|ADQ04159.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor owensensis OL] gi|311778180|gb|ADQ07666.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor hydrothermalis 108] gi|312180125|gb|ADQ40295.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 417 Score = 117 bits (292), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 89/265 (33%), Positives = 139/265 (52%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 151 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 209 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 210 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 267 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L PE+ IAK++N+ +V + ++A + SL I ++ Sbjct: 268 LVRVSRQLLQEKGREPTPEE---IAKEMNMPVEKVREI-LKIAQEPVSLETPI--GEEED 321 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D E + L + LN RE+++ + R E+ TL Sbjct: 322 SHLGDFI---PDDDALAPSEAAAYSMLKEQLLEVLDSLNEREKKVLKLRFGLEDGRARTL 378 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + EF V+RER+RQIEA+A +K+ Sbjct: 379 EEVGKEFNVTRERIRQIEAKALRKL 403 >gi|261822742|ref|YP_003260848.1| RNA polymerase sigma factor RpoS [Pectobacterium wasabiae WPP163] gi|5912456|emb|CAB56153.1| RpoS protein [Pectobacterium carotovorum] gi|261606755|gb|ACX89241.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pectobacterium wasabiae WPP163] Length = 330 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 145/281 (51%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDIPSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V +LN + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVNRMLRLN---ERITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQVQ 320 >gi|312876451|ref|ZP_07736435.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311796809|gb|EFR13154.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 419 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 89/265 (33%), Positives = 139/265 (52%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 153 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 211 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 212 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 269 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L PE+ IAK++N+ +V + ++A + SL I ++ Sbjct: 270 LVRVSRQLLQEKGREPTPEE---IAKEMNMPVEKVREI-LKIAQEPVSLETPI--GEEED 323 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D E + L + LN RE+++ + R E+ TL Sbjct: 324 SHLGDFI---PDDDALAPSEAAAYSMLKEQLLEVLDSLNEREKKVLKLRFGLEDGRARTL 380 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + EF V+RER+RQIEA+A +K+ Sbjct: 381 EEVGKEFNVTRERIRQIEAKALRKL 405 >gi|302386858|ref|YP_003822680.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] gi|302197486|gb|ADL05057.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] Length = 380 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LAKR + GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 115 YLKEIGTVPLLNAEEELRLAKR-KADGDDDAKERLIEANLRLVVSIAKRYTGRGMSFLDL 173 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ T N Sbjct: 174 VQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 233 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L G+ ++++ +A+ L++SE +V+ + SL Sbjct: 234 KMQRKLTLEL----GYEPSVSE----------LAEALDMSEDKVMEIMQIAREPASLETP 279 Query: 190 INSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D S D+ +V E V++ R + + L RER++ Sbjct: 280 IGEED--DSNLGDFVADNNVVTPEGNVESVML--------REHIDALLGDLKERERQVIV 329 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 330 LRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 374 >gi|299140647|ref|ZP_07033785.1| RNA polymerase sigma-70 factor [Prevotella oris C735] gi|298577613|gb|EFI49481.1| RNA polymerase sigma-70 factor [Prevotella oris C735] Length = 287 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 83/274 (30%), Positives = 148/274 (54%), Gaps = 28/274 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +EE LA++ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGHEDLISVEEEVELAQKIK-RGDRRALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-----IGTTA 130 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V+ +G+ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVN 136 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLK---PEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 KR+ L + I + K PE VA A K S +S++ LA E N Sbjct: 137 KIKRVLNKLEQENEQFPTIEEIAAKVDIPEDKVADAIK---SNGRHVSVDAPLAEGEE-N 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-R 246 +L++ N++Q D ++ QE + R+ + ++ LN RER I EA Sbjct: 193 SLLDILPNNNAQMADSMLV----QESL----------RDEVANALQSLNERERNIIEAFF 238 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ +TLE + +F ++RERVRQI+ +A +++ Sbjct: 239 GINQSEMTLEEIGDKFGLTRERVRQIKEKAIRRL 272 >gi|326800649|ref|YP_004318468.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] gi|326551413|gb|ADZ79798.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] Length = 286 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 79/275 (28%), Positives = 151/275 (54%), Gaps = 14/275 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+HEI K+ ++ +EE +LA++ RE GD +A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLHEIGKVDLITAEEEVILAQKIRE-GDQAALERLTKTNLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD +GF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 GDLINEGNLGLIKAAKRFDETKGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + L+ + PE++ I + S+ +S + R S++A ++ Sbjct: 135 LSKISKAFSRLEQEYEREPSPEELADILETTVDKISDTLSNSGRHV---SMDAPFVQGEE 191 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN-PV 253 N+ D L + LI++ + + RS++ L RER I L N P+ Sbjct: 192 NT--LLDVLENHDPNTDSNLIDESLSEE----IKRSLATLTEREREIIVLFFGLGSNHPL 245 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +LE + F ++RERVRQI+ +A ++++ + + ++ Sbjct: 246 SLEEIGETFNLTRERVRQIKDKALQRLRHTSRSKI 280 >gi|317502748|ref|ZP_07960858.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] gi|315666141|gb|EFV05698.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] Length = 287 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 85/282 (30%), Positives = 153/282 (54%), Gaps = 29/282 (10%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I N E L +Y+ EI ++ +EE LA++ + GD A +L ++LR VV +A Sbjct: 10 ITNRECASLDKYLQEIGHEDLISVEEEVELAQKIK-RGDRRALEKLTRANLRFVVSVAKQ 68 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-- 125 Y+ GL + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V+ Sbjct: 69 YQNQGLSLPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLP 128 Query: 126 ---IGTTANQKRLFFNLRRLKGHLQAITDNNLK---PEQVVAIAKKLNVSESEVISMNCR 179 +G+ KR+ L + H I + K PE+ VA A K S +S++ Sbjct: 129 LNQVGSVNKIKRVLNKLEQENEHFPTIEEIAAKVDIPEEKVADAIK---SNGRHVSVDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 A E N+L++ +++Q D VL++ ++ R+ ++ ++ LN RE Sbjct: 186 FAEGEE-NSLLDVLPNSNAQMAD----------NVLVQ----ESLRDEISSALKSLNERE 230 Query: 240 RRIFEA-RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R I EA + + +TLE + +F ++RERVRQI+ +A +++ Sbjct: 231 RNIIEAFFGINQAEMTLEEIGDKFGLTRERVRQIKEKAIRRL 272 >gi|300777898|ref|ZP_07087756.1| DNA-directed RNA polymerase sigma subunit RpoD [Chryseobacterium gleum ATCC 35910] gi|57471279|gb|AAW50925.1| RpoD [Chryseobacterium indologenes] gi|300503408|gb|EFK34548.1| DNA-directed RNA polymerase sigma subunit RpoD [Chryseobacterium gleum ATCC 35910] Length = 288 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 81/289 (28%), Positives = 157/289 (54%), Gaps = 41/289 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R R GD +A +L+ ++LR VV ++ Y+ GL + Sbjct: 18 LDKYLQEIGKVELITADEEVELAQRIR-AGDRAALEKLIKANLRFVVSVSKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GLM+A K++D RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 PDLINEGNLGLMKAAKRYDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNKIGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 + + HL+ + PE+ +A+ L++SE ++ +SM+ L E Sbjct: 135 INKINKAYAHLEQENERPPSPEE---LAEVLDMSEEDIKESMKNSGRHLSMDAPLVEGED 191 Query: 186 LNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 N + S ++ S +D ++ E + IE E R+++ L PRE + Sbjct: 192 SNLYDVLRSGESPSPDKDLML------ESLQIEIE----------RALNTLTPREADLV- 234 Query: 245 ARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++P+TLE + F+++RERVRQI+ +A K+++ + + ++ Sbjct: 235 --RLYFGLNGKHPMTLEEIGETFDLTRERVRQIKEKAIKRLKHNTRSKI 281 >gi|291531112|emb|CBK96697.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum 70/3] Length = 358 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/271 (32%), Positives = 140/271 (51%), Gaps = 25/271 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA R + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGRVPLLTAEEEIELATRMAQ-GDKYARKRLSEANLRLVVSIAKRYVGRGMQFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQK 133 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T K Sbjct: 151 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRIPVHMVETITKVK 210 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 ++ L GH P++ IA +L ++ V + R++ D SL I Sbjct: 211 KVSSQLLHENGH-------EPTPQE---IADRLGITVDRVREI-LRISQDPVSLETPIG- 258 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 ++ S D++ E R + L+ + L PRE ++ R E+ Sbjct: 259 -EEEDSHLGDFIPD---EDAPAPAEAASRTLLKEQLSEILGTLTPREEKVLRLRFGLEDG 314 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 315 RPRTLEEVGKEFDVTRERIRQIEAKALRKLR 345 >gi|167750934|ref|ZP_02423061.1| hypothetical protein EUBSIR_01919 [Eubacterium siraeum DSM 15702] gi|167656113|gb|EDS00243.1| hypothetical protein EUBSIR_01919 [Eubacterium siraeum DSM 15702] gi|291557421|emb|CBL34538.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum V10Sc8a] Length = 358 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/271 (32%), Positives = 140/271 (51%), Gaps = 25/271 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA R + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGRVPLLTAEEEIELATRMAQ-GDKYARKRLSEANLRLVVSIAKRYVGRGMQFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQK 133 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T K Sbjct: 151 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRIPVHMVETITKVK 210 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 ++ L GH P++ IA +L ++ V + R++ D SL I Sbjct: 211 KVSSQLLHENGH-------EPTPQE---IADRLGITVDRVREI-LRISQDPVSLETPIG- 258 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 ++ S D++ E R + L+ + L PRE ++ R E+ Sbjct: 259 -EEEDSHLGDFIPD---EDAPAPAEAASRTLLKEQLSEILGTLTPREEKVLRLRFGLEDG 314 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 315 RPRTLEEVGKEFDVTRERIRQIEAKALRKLR 345 >gi|50122451|ref|YP_051618.1| RNA polymerase sigma factor RpoS [Pectobacterium atrosepticum SCRI1043] gi|227114060|ref|ZP_03827716.1| RNA polymerase sigma factor RpoS [Pectobacterium carotovorum subsp. brasiliensis PBR1692] gi|227327750|ref|ZP_03831774.1| RNA polymerase sigma factor RpoS [Pectobacterium carotovorum subsp. carotovorum WPP14] gi|49612977|emb|CAG76428.1| RNA polymerase sigma factor [Pectobacterium atrosepticum SCRI1043] Length = 330 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 145/281 (51%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V +LN + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVNRMLRLN---ERITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQVQ 320 >gi|157169065|ref|YP_258338.2| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens Pf-5] gi|1000294|gb|AAB02846.1| RpoS [Pseudomonas fluorescens Pf-5] gi|157061761|gb|AAY90494.2| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens Pf-5] Length = 335 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|152980760|ref|YP_001353824.1| RNA polymerase sigma factor RpoS [Janthinobacterium sp. Marseille] gi|151280837|gb|ABR89247.1| RNA polymerase nonessential primary-like sigma factor [Janthinobacterium sp. Marseille] Length = 345 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 84/271 (30%), Positives = 141/271 (52%), Gaps = 13/271 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I P+L EE A ++ G+ +A +++ +LRLVV IA Y G+ + ++ Sbjct: 76 YLNQIGTRPLLTVPEEVHFATLAKQ-GNFAARQKMIEHNLRLVVSIAKHYINRGVILLDL 134 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+A+ KF+PERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 135 IEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVVRELNQ 192 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 R K HL+A ++ K IA ++ S +V + SL+A ++ ++S Sbjct: 193 TLRAKFHLEA-QHHDGKDATAEDIAHLVDRSVEDVQDILALSEHATSLDAPLDGDPQSS- 250 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTL 255 D L DH L E N +L P ++R+ RR ++P TL Sbjct: 251 -LMDLLQGDHANDPDALAE----HNEMTVLVHDWLEKLPDKQRLVITRRFGLDNDDPATL 305 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E L++E V+RERVRQI+ A K++ S+ + Sbjct: 306 EALAAEMHVTRERVRQIQQEALVKLKRSLMR 336 >gi|41853|emb|CAA34435.1| katF [Escherichia coli K-12] Length = 362 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H I + KP V+ +LN + S++ L GD L Sbjct: 192 RTARELSHKLDHEPSAVEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 332 >gi|253689710|ref|YP_003018900.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251756288|gb|ACT14364.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 330 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 145/281 (51%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V +LN + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVNRMLRLN---ERITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQVQ 320 >gi|78044024|ref|YP_359316.1| RNA polymerase sigma factor RpoD [Carboxydothermus hydrogenoformans Z-2901] gi|77996139|gb|ABB15038.1| RNA polymerase sigma factor RpoD [Carboxydothermus hydrogenoformans Z-2901] Length = 370 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/265 (32%), Positives = 140/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR +E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLLTPEEEIELAKR-KEEGDEEAKRKLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ +L PE+ IAK++ +SE +V + SL I ++ S Sbjct: 221 LIRVSRNLLQELGREPTPEE---IAKEMGISEDKVREIMKIAQEPVSLETPI--GEEEDS 275 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ V D D + V E+ R L + L RE+++ R ++ TLE Sbjct: 276 HLGDF-VEDPDAKAPV--EEASYTLLREQLDEVLKTLTEREQKVLRLRFGLDDGRARTLE 332 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 333 EVGQIFGVTRERIRQIEAKALRKLR 357 >gi|222528719|ref|YP_002572601.1| RpoD subfamily RNA polymerase sigma-70 factor [Caldicellulosiruptor bescii DSM 6725] gi|222455566|gb|ACM59828.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 417 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 89/265 (33%), Positives = 139/265 (52%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 151 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 209 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 210 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 267 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L PE+ IAK++N+ +V + ++A + SL I ++ Sbjct: 268 LVRVSRQLLQEKGREPTPEE---IAKEMNMPVEKVREI-LKIAQEPVSLETPI--GEEED 321 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D E + L + LN RE+++ + R E+ TL Sbjct: 322 SHLGDFI---PDDDALAPSEAAAYSMLKEQLLEVLDSLNEREKKVLKLRFGLEDGRARTL 378 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + EF V+RER+RQIEA+A +K+ Sbjct: 379 EEVGKEFNVTRERIRQIEAKALRKL 403 >gi|160881641|ref|YP_001560609.1| RpoD family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160430307|gb|ABX43870.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium phytofermentans ISDg] Length = 372 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 140/274 (51%), Gaps = 13/274 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ E + Y+ EI K+P+L EE VLA+R E GD +A RL ++LRLVV IA Y Sbjct: 97 ISTEDPVRMYLKEIGKVPLLSADEEIVLAQRM-EQGDKNAKKRLAEANLRLVVSIAKRYV 155 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 156 GRGMQFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--P 213 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R++ L PE+V AK++N+ V + SL Sbjct: 214 VHMVETINKLIRVQRQLLQELGREPFPEEV---AKEMNIPVERVREIQKISQEPVSLETP 270 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V E + L + L RE+++ R Sbjct: 271 I--GEEEDSHLGDFI---QDDNVPVPAEAAAFTLLKEQLMEVLGTLTDREQKVLRLRFGL 325 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 326 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 359 >gi|304413872|ref|ZP_07395289.1| RNA polymerase sigma S (sigma 38) factor [Candidatus Regiella insecticola LSR1] gi|304283592|gb|EFL91987.1| RNA polymerase sigma S (sigma 38) factor [Candidatus Regiella insecticola LSR1] Length = 332 Score = 116 bits (291), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 141/280 (50%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-CGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + +P V+ +LN + S++ L GD L Sbjct: 182 RTARELAHKLDHEPSAEEIAEQLDRPVDDVSRMLRLN---ERITSVDSPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 SD + + +D D + ++ + + + LN ++R + ARR Sbjct: 239 ILSDDSENGPEDTTQND---------------DMKHSIVKWLFELNAKQREVL-ARRFGL 282 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLEN+ E ++RERVRQI+ ++++E +Q Q Sbjct: 283 LGYEAATLENVGKEIGLTRERVRQIQVEGLRRLREILQTQ 322 >gi|225388546|ref|ZP_03758270.1| hypothetical protein CLOSTASPAR_02282 [Clostridium asparagiforme DSM 15981] gi|225045391|gb|EEG55637.1| hypothetical protein CLOSTASPAR_02282 [Clostridium asparagiforme DSM 15981] Length = 381 Score = 116 bits (291), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 147/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LA+R E GD +A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGTVPLLTADEELQLAQRKAE-GDEAAKERLIEANLRLVVSIAKRYTGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ T N Sbjct: 175 VQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 234 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L G+ ++T+ +A+ L+++E +V+ + SL Sbjct: 235 KMQRKLTLEL----GYEPSVTE----------LAEALDMTEDKVMEIMQIAREPASLETP 280 Query: 190 INSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D S D+ +V E V++ R + + L RER++ Sbjct: 281 IGEED--DSNLGDFVADNNVVTPEGNVESVML--------REHIDALLGDLKERERQVIV 330 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 331 LRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375 >gi|237757189|ref|ZP_04585608.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium yellowstonense SS-5] gi|237690651|gb|EEP59840.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium yellowstonense SS-5] Length = 285 Score = 116 bits (291), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 86/278 (30%), Positives = 142/278 (51%), Gaps = 17/278 (6%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 N E + Y+ I KIP+L K+EE L K+ +E GD A +L+ S+LR V+ IA Y G Sbjct: 5 NHEENVDFYLKSIYKIPLLSKEEEESLLKKVKE-GDKEALQKLIISNLRFVINIAKRYAG 63 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YG+P S+++S GN+GL++A KKFD +G R +Y++WWI+ ++ I ++K Sbjct: 64 YGIPFSDLISAGNVGLIEAAKKFDTSKGVRFISYAVWWIRQSIINTIQHESEIIK----- 118 Query: 131 NQKRLFFNLRRLKGHLQAITDN-NLKP--EQVVAIAKKLNVSESEVISMNCRLAGDE--S 185 R++ ++ + D N +P +++++ K + + + N L S Sbjct: 119 KPNRMYAYASKINNAYSYLKDTLNREPSIDEIISFLKTQGIKVEKEMVENYFLFKSVFLS 178 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I +D + VY+ E+ + E++ ++ +L L+ RER I Sbjct: 179 LDTPIEGTDNDLVLEDTISVYNTLDIEKDINEEDLKRAIETLL----DTLSQRERTILIH 234 Query: 246 RRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E P TL + +SRERVRQIE R KK++ Sbjct: 235 RFGLNGEEPKTLNEVGEIVGLSRERVRQIENRVLKKLR 272 >gi|213859421|ref|ZP_03385125.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 319 Score = 116 bits (291), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 139/275 (50%), Gaps = 25/275 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TLE++ E ++RERVRQI+ ++++E +Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQ 318 >gi|332087476|gb|EGI92604.1| RNA polymerase sigma factor RpoS [Shigella boydii 5216-82] Length = 330 Score = 116 bits (291), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 144/280 (51%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 +D+ + +D D D ++ ++ + + LN ++R + ARR Sbjct: 237 ILADEKENGPED-TTQDDDMKQSIV--------------KWLFELNSKQREV-PARRFGL 280 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 281 LGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|104783164|ref|YP_609662.1| RNA polymerase sigma factor RpoS [Pseudomonas entomophila L48] gi|95112151|emb|CAK16878.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudomonas entomophila L48] Length = 335 Score = 116 bits (291), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ ++ +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIASLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|312622967|ref|YP_004024580.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312203434|gb|ADQ46761.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 417 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 89/265 (33%), Positives = 139/265 (52%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 151 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 209 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 210 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 267 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L PE+ IAK++N+ +V + ++A + SL I ++ Sbjct: 268 LVRVSRQLLQEKGREPTPEE---IAKEMNMPVEKVREI-LKIAQEPVSLETPI--GEEED 321 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D E + L + LN RE+++ + R E+ TL Sbjct: 322 SHLGDFI---PDDDALAPSEAAAYSMLKEQLLEVLDSLNEREKKVLKLRFGLEDGRARTL 378 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + EF V+RER+RQIEA+A +K+ Sbjct: 379 EEVGREFNVTRERIRQIEAKALRKL 403 >gi|153840560|ref|ZP_01993227.1| RpoS [Vibrio parahaemolyticus AQ3810] gi|149745777|gb|EDM56907.1| RpoS [Vibrio parahaemolyticus AQ3810] Length = 415 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 88/280 (31%), Positives = 146/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 2 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 60 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ ++ K L Sbjct: 61 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTTRLPIHV-VKELNIY 119 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ E++ A ++K L ++E + S++ + GD L Sbjct: 120 LRTAR-ELSQKLDHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 177 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 178 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 221 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E +K+ Sbjct: 222 LGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREMKEKK 261 >gi|289423762|ref|ZP_06425557.1| RNA polymerase sigma factor RpoD [Peptostreptococcus anaerobius 653-L] gi|289155801|gb|EFD04471.1| RNA polymerase sigma factor RpoD [Peptostreptococcus anaerobius 653-L] Length = 385 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 87/266 (32%), Positives = 144/266 (54%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L+ EE A R GD + +LV ++LRLVV IA Y G G+ ++ Sbjct: 119 YLKEIGKIPLLKPHEEVEFA-RLMSEGDERSKQKLVEANLRLVVSIAKRYVGRGMLFLDL 177 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++G++ +TY+ WWI+ A+ I ++I + Sbjct: 178 IQEGNLGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 235 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L + KPE+ IAK +N+SE +V + ++A D SL I ++ Sbjct: 236 LIRVSRQLLQELGRDPKPEE---IAKVMNMSEDKVREI-MKIAQDPVSLETPI--GEEED 289 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ + K + + ++ LN RE+++ + R E+ TL Sbjct: 290 SHLGDFIPDEDAPAPAEAAAYSLLKEQ---IEEVLNTLNDREQKVLKLRFGLEDGRARTL 346 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 347 EEVGKEFDVTRERIRQIEAKALRKLR 372 >gi|260899647|ref|ZP_05908042.1| RNA polymerase sigma-C factor [Vibrio parahaemolyticus AQ4037] gi|308106738|gb|EFO44278.1| RNA polymerase sigma-C factor [Vibrio parahaemolyticus AQ4037] Length = 120 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 54/105 (51%), Positives = 74/105 (70%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI + PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSVNSYPMLTADEERELAERLHYKGEIEAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 +++V EGNIGLM+AVK+F+PE G RL ++++ WIKA + EY+LR+ Sbjct: 76 ADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRN 120 >gi|239995277|ref|ZP_04715801.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii ATCC 27126] Length = 330 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 146/275 (53%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R + G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 59 YLGEIGFSPLLTAEEEVYFARRSLK-GCEASRKRMIVSNLRLVVKIARRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + E +A+ K + E ++ R LN I S D Sbjct: 177 LRASRELSQKLDHEPTAEEIALALDKPV-----EDVTKMLR------LNERITSVDTPIG 225 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKN---RRNMLTRSMSVLNPRERRIFEARR---LQENP 252 D + D E+ +E ++ + N++T + LNP++R + ARR + P Sbjct: 226 GENDKALLDIIADEKEFSPEESLQDSDIKSNIVT-WLEELNPKQREVL-ARRFGLMGYEP 283 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ +E ++RERVRQI+ A +++++ + Q Sbjct: 284 STLEDVGAEIGLTRERVRQIQVEALRRLRDMLGHQ 318 >gi|116668483|gb|ABK15514.1| sigma factor [Pseudomonas alkylphenolia] Length = 335 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 147/272 (54%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ ++ +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIASLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|18073320|emb|CAC81021.1| mutant RpoS sigma factor [Escherichia coli] Length = 302 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 33 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 91 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 92 IEEGNQGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 151 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 152 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 208 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 209 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 257 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 258 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 292 >gi|149370109|ref|ZP_01889960.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] gi|149356600|gb|EDM45156.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] Length = 287 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 85/286 (29%), Positives = 150/286 (52%), Gaps = 45/286 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ E+ KI ++ +EE LA++ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEVGKIDLITAEEEVELAQKIK-AGDQRALEKLTNANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A +FD RGF+ +Y++WWI+ A+ Q I+R L KIG+ Sbjct: 77 PDLINEGNVGLIKAASRFDETRGFKFISYAVWWIRQAILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + F HL+ PE+ IAK+L+++ ++V ISM+ Sbjct: 136 NKINKAF-------THLEQAHQRPPSPEE---IAKELDMTINDVKESIKNSGRSISMDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 L E N L + + S D + +L+E + R + R++ L PRE Sbjct: 186 LTEGEDYN-LYDVLNTGESPNPD---------QALLLE-----SLRTEIERALETLTPRE 230 Query: 240 RRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + + P+TLE + S F+++RERVRQI+ +A ++++ + Sbjct: 231 SDVIKLYFGLSDQRPMTLEEIGSTFDLTRERVRQIKEKAVRRLKHT 276 >gi|90577256|ref|ZP_01233067.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] gi|90440342|gb|EAS65522.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] Length = 286 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 147/275 (53%), Gaps = 20/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I P+L K +E + R GDL++ L+ S+LRLVV IA YR L +S++ Sbjct: 14 YLNDISNKPLLNKDDE-IQYSRKSLTGDLASKKILIESNLRLVVSIAKKYRASNLSLSDL 72 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM AV+KFDPE+GFR +TY+ WWIK ++ I +++ +++ Sbjct: 73 IDEGNIGLMTAVEKFDPEKGFRFSTYASWWIKQTIERAIHNQNRTIRLPVHISKEINTL- 131 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L+ H + + NN +P IA+ LN E+ ++ SL+ I ++K S Sbjct: 132 ---LRTHRELMKLNNNEPTH-EDIAQALNKDSKEISALFSNEVNVISLDQTIGDTEK--S 185 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL---NPRERRIFEARR---LQENP 252 Q +LV D EQ+ E N +M+ + +L N R++ I RR + P Sbjct: 186 QTIAYLVAD----EQITSPSAEVDN-DDMVKITNLILNGINARDKEII-CRRFGLMGYEP 239 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TL+ ++ ++RER+RQ++ ++ ++ S+ ++ Sbjct: 240 HTLQEVADAVGLTRERIRQLQIKSLSSLKRSLARE 274 >gi|229588834|ref|YP_002870953.1| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens SBW25] gi|229360700|emb|CAY47558.1| RNA polymerase sigma factor [Pseudomonas fluorescens SBW25] Length = 334 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLTPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 184 LRAARELTQKL-DHEPSPEEIANLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 238 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 239 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVIRRFGLRGHESS-T 292 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 293 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 324 >gi|332532870|ref|ZP_08408743.1| RNA polymerase sigma factor RpoS [Pseudoalteromonas haloplanktis ANT/505] gi|332037716|gb|EGI74167.1| RNA polymerase sigma factor RpoS [Pseudoalteromonas haloplanktis ANT/505] Length = 324 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 148/278 (53%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 53 YLGEIGFSPLLSAEEE-VFFSRKSLRGCEASRKRMIESNLRLVVKIARRYNNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ +++ A + ++++ +N R+A G E+ + L++ Sbjct: 171 LRTARELTQKL-DHEPTADEIAACLDRPVEDVTKMLRLNERIASVDMPIGGENDSVLLDI 229 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQ 249 S + V ++D + ++ + LNP++R + ARR L Sbjct: 230 IPDEKSAGPEGEVQNNDINKHIV--------------DWLGELNPKQREVL-ARRFGLLG 274 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE++ E ++RERVRQI+ A +++++ +Q++ Sbjct: 275 YEPSTLEDVGREIGLTRERVRQIQVEALRRLKDILQQE 312 >gi|94311053|ref|YP_584263.1| RNA polymerase sigma factor RpoS [Cupriavidus metallidurans CH34] gi|93354905|gb|ABF08994.1| RNA polymerase sigma 38 (sigma S) factor [Cupriavidus metallidurans CH34] Length = 386 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 91/277 (32%), Positives = 142/277 (51%), Gaps = 23/277 (8%) Query: 19 YIHEIRKIPMLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y++ I P+L EE LAK GD SA ++ +LRLVV IA GY G+P+ Sbjct: 117 YLNRISIKPLLSAPEELHFSTLAK----GGDFSARQVMIERNLRLVVSIAKGYLNRGVPL 172 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 173 LDLIEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 230 Query: 136 FFNLRRLKGHLQ-AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + R K HL+ TD + + IA L + EV + LA +E +L D Sbjct: 231 LNQVLRAKRHLEKGGTDG--RDASLEDIAHLLGKTPDEVQDV---LALNEHTTSLDTPFD 285 Query: 195 KN-SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 + S D+L +H+ + E + N++ ++ L+ + R + E RR N Sbjct: 286 LDPGSSLLDFLSDEHNAAPDQEVAHRELE---NLMKLWLARLSEKHRYVVE-RRFGLNHI 341 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L+ E ++RERVRQI+ A K++ Q Sbjct: 342 EPATLEELAEEMGLTRERVRQIQQEALVKLKRHFASQ 378 >gi|1519382|gb|AAC46141.1| RNA polymerase subunit sigma 38 [Pectobacterium carotovorum] Length = 330 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 148/281 (52%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V + + L ++E + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKP--VDDVNRMLALNER-ITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQVQ 320 >gi|332994558|gb|AEF04613.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas sp. SN2] Length = 330 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 149/273 (54%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A++ G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 59 YLGEIGFSPLLSAEEEVFFARKAL-RGCEASRKRMIVSNLRLVVKIARRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + E +A+ K + ++++ +N R+ S++ I +N Sbjct: 177 LRAARELSQKLDHEPTAEEIALALDKPVE-DVTKMLRLNERIT---SVDTPIGG--ENDK 230 Query: 199 QWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVT 254 D L + + G E+ L + + + N + + LNP++R + ARR + P T Sbjct: 231 ALLDILADEKEFGPEENLQDSDIKSN----IVGWLEELNPKQREVL-ARRFGLMGYEPST 285 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE++ +E ++RERVRQI+ A +++++ + Q Sbjct: 286 LEDVGAEIGLTRERVRQIQVEALRRLRDILGHQ 318 >gi|310778262|ref|YP_003966595.1| RNA polymerase sigma factor, sigma-70 family [Ilyobacter polytropus DSM 2926] gi|309747585|gb|ADO82247.1| RNA polymerase sigma factor, sigma-70 family [Ilyobacter polytropus DSM 2926] Length = 263 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 80/282 (28%), Positives = 149/282 (52%), Gaps = 38/282 (13%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + +S Y+ EI P+L K+EE A + ++GD SA +LVTS+LRLVV IA Y G+ Sbjct: 1 MNISNYLKEISHYPLLTKEEEIEFALK-AQNGDESAHEKLVTSNLRLVVSIAKKYINIGI 59 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P+ +++ EGNIGL++AV KFD R +TY+ +WIK ++ YI + +++ T Sbjct: 60 PVLDLIQEGNIGLIKAVSKFDTTMDKRFSTYATFWIKQSILRYISSNKGVIRYPT----- 114 Query: 134 RLFFNLRRLKGHLQAITD--NNLKPEQVVA---------IAKKLNVSESEVISMNCRLAG 182 ++ N+ ++ ++ + ++ +V+A + K LN+ E + S+ Sbjct: 115 YIYDNISKINKFIRDYKNKYGSVPSIEVIATGLEFKKKDVEKYLNIFEQSLNSLEESYGE 174 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 + L+++I S D +++ ++ D +E L ++ +LN +ER + Sbjct: 175 NGDLHSIIPSDD----LFEEQIITDSVNEE---------------LISNLKILNSKERDV 215 Query: 243 FEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R +N +TLE + + ++RER+RQI+ +A K+++ Sbjct: 216 IIHRFGLFNKNVLTLEEIGNHLNLTRERIRQIQLKAIDKLRD 257 >gi|226324578|ref|ZP_03800096.1| hypothetical protein COPCOM_02362 [Coprococcus comes ATCC 27758] gi|225207026|gb|EEG89380.1| hypothetical protein COPCOM_02362 [Coprococcus comes ATCC 27758] Length = 371 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 138/273 (50%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGKVPLLSAEEEIELAKRMAD-GDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 164 IQEGNLGLIKAVEKFDYQKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 221 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 L R+ L PE++ A + + L +S+ E +S+ + +E Sbjct: 222 LIRVSRQLLQELGREPTPEEIAAELDMPVDRVREILKISQ-EPVSLETPIGEEE------ 274 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D++ D V E + + L +S L RE+++ R Sbjct: 275 ------DSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLSTLTEREQKVLRLRFGMS 325 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 326 DGRARTLEEVGKEFDVTRERIRQIEAKALRKLR 358 >gi|194334634|ref|YP_002016494.1| RNA polymerase sigma-32 subunit RpoH [Prosthecochloris aestuarii DSM 271] gi|194312452|gb|ACF46847.1| RNA polymerase, sigma 32 subunit, RpoH [Prosthecochloris aestuarii DSM 271] Length = 299 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 94/305 (30%), Positives = 160/305 (52%), Gaps = 47/305 (15%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L ++E L +E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYELLTAEDEVKLTMAIKEGYDMPVDTPEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N K +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EFERDPNTK-----ELATVLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 S+ ++ ++AG S++A D N + D V HDGQ K + R+ LT Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDN--RLLD--VLQHDGQ------KPDHGLTRDSLT 227 Query: 230 ----RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RS+SVL PRE + + ENP+TLE + +F+++RERVRQI+ +A +++++S Sbjct: 228 LEVERSLSVLAPREADVIRSYFGIGMENPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQS 287 Query: 284 IQKQV 288 +V Sbjct: 288 AYSKV 292 >gi|281425773|ref|ZP_06256686.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] gi|281400034|gb|EFB30865.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] Length = 287 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 83/274 (30%), Positives = 148/274 (54%), Gaps = 28/274 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +EE LA++ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGHEDLISVEEEVELAQKIK-RGDRRALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-----IGTTA 130 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V+ +G+ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVN 136 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLK---PEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 KR+ L + I + K PE VA A K S +S++ LA E N Sbjct: 137 KIKRVLNKLEQENEQFPTIEEIAAKVDIPEDKVADAIK---SNGRHVSVDAPLAEGEE-N 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-R 246 +L++ N++Q D ++ QE + R+ + ++ LN RER I EA Sbjct: 193 SLLDILPNNNAQMADSVLV----QESL----------RDEVANALQSLNERERNIVEAFF 238 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ +TLE + +F ++RERVRQI+ +A +++ Sbjct: 239 GINQSEMTLEEIGDKFGLTRERVRQIKEKAIRRL 272 >gi|330448286|ref|ZP_08311934.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328492477|dbj|GAA06431.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 291 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 143/275 (52%), Gaps = 20/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I + +L K++E VL R GD ++ L+ S+LRLVV IA YRG + IS++ Sbjct: 20 YLKDIAEKDLLTKEDE-VLYSRKSLAGDENSKKVLIESNLRLVVSIAKKYRGSPMHISDL 78 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL+ AV+KFDPE+GFR +TY+ WWIK ++ I +++ +++ Sbjct: 79 IDEGNIGLITAVEKFDPEKGFRFSTYATWWIKQTIERAIHNQGRTIRLPVHVSKEINTI- 137 Query: 139 LRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDK 195 ++ H Q + NN +P EQ+ I K S +S + D+S+N +N+ Sbjct: 138 ---VRAHKQLVKKNNEEPSKEQIANILNKSLHDVSTTLSYETPIISYDQSVNGEVNAQSM 194 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENP 252 + + + + IEK + T ++ LN R++ I RR L Sbjct: 195 AVLIADETMAKPDQHVDDLAIEK--------ITTNVLNCLNKRDKEII-CRRFGLLGYEA 245 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TL+ ++ E ++RER+RQ++ + K++ S+ + Sbjct: 246 QTLQEVAEEVGLTRERIRQLQVTSLSKLKNSLTRD 280 >gi|170723213|ref|YP_001750901.1| RNA polymerase sigma factor RpoS [Pseudomonas putida W619] gi|169761216|gb|ACA74532.1| RNA polymerase, sigma 70 subunit, RpoD family [Pseudomonas putida W619] Length = 335 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|5305130|emb|CAB46191.1| RNA polymerase sigma factor [Pseudomonas putida] Length = 335 Score = 116 bits (290), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|311694174|gb|ADP97047.1| RNA polymerase, sigma 70 subunit, RpoD family [marine bacterium HP15] Length = 331 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 86/280 (30%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+ R G+ S R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLNEIGFSPLLTPEEEVYFARLAR-KGEESGRKRMIESNLRLVVKIARRYVNRGLTLLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNLY 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---------GDESLNAL 189 LR + Q + D+ E++ + K ++ +N R+A G++SL L Sbjct: 181 LRAARELTQKL-DHEPSAEEIARMVDKPVADVKRMLGLNERVASMDTPIGAGGEKSL--L 237 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RL 248 +D+ +S D L + N + L + + L+ +++ + R L Sbjct: 238 DTVADEGASDPADLL---------------QDNNMCSCLEKWIDQLSDKQQEVLSRRFGL 282 Query: 249 QENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + PV TLE + E ++RERVRQI+ A ++++E ++K+ Sbjct: 283 RGYPVSTLEEVGQEIGLTRERVRQIQVEALRRLREILEKE 322 >gi|208821597|ref|ZP_03261917.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4042] gi|218690868|ref|YP_002399080.1| RNA polymerase sigma factor RpoS [Escherichia coli ED1a] gi|260856852|ref|YP_003230743.1| RNA polymerase, sigma S factor [Escherichia coli O26:H11 str. 11368] gi|208741720|gb|EDZ89402.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4042] gi|218428432|emb|CAR09358.2| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli ED1a] gi|257755501|dbj|BAI27003.1| RNA polymerase, sigma S factor [Escherichia coli O26:H11 str. 11368] gi|284922677|emb|CBG35765.1| RNA polymerase sigma factor (sigma-38) [Escherichia coli 042] Length = 330 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 143/277 (51%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNVY 178 Query: 139 LRRLKGHLQAITDNNLKPEQ--------VVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + L D+ E+ V +++ L ++E + S++ L GD L Sbjct: 179 LRTAR-ELSHKLDHEPSAEESAEQLDKPVDDVSRMLRLNER-ITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|300691814|ref|YP_003752809.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum PSI07] gi|299078874|emb|CBJ51535.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum PSI07] Length = 377 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 88/279 (31%), Positives = 143/279 (51%), Gaps = 27/279 (9%) Query: 19 YIHEIRKIPMLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y++ I P+L EE LAK G+ +A ++ +LRLVV IA GY G+P+ Sbjct: 108 YLNRISIKPLLTPAEELHFSTLAKA----GEFAARQVMIERNLRLVVSIAKGYLNRGVPL 163 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 164 LDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 221 Query: 136 FFNLRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + R K HL+ I + E + + K +V+S+N E +L Sbjct: 222 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTDEVQDVLSLN------EHTTSLDTPF 275 Query: 194 DKN-SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 276 DLDPGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLN 330 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 331 HIEPATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 369 >gi|330446961|ref|ZP_08310612.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328491152|dbj|GAA05109.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 333 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 148/272 (54%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLGEIGYSPLLTAEEEVLYARRAL-RGDEVARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 121 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E IA++L E V +N L +E ++++ N +S Sbjct: 180 LRTARELAQKL-DHEPTAED---IAQQL---EKPVDDVNRMLRLNERVSSVDNPIGGDSE 232 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 + ++ D G +++ + +N + + LNP++R + ARR L TL Sbjct: 233 KALLDIIPDEKGGSPESSTQDD--DIKNSIVHWLQELNPKQREVL-ARRFGLLGYEASTL 289 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E++ E ++RERVRQI+ +++++ + Q Sbjct: 290 EDVGREIGLTRERVRQIQVEGLRRLRDMLTHQ 321 >gi|166030947|ref|ZP_02233776.1| hypothetical protein DORFOR_00628 [Dorea formicigenerans ATCC 27755] gi|166029214|gb|EDR47971.1| hypothetical protein DORFOR_00628 [Dorea formicigenerans ATCC 27755] Length = 382 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 136/273 (49%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGKVPLLSADEEVELAKRMAE-GDEDAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 175 IQEGNLGLIKAVEKFDYHKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 232 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 L R+ L PE++ A + + L +S+ E +S+ + +E Sbjct: 233 LIRVSRQLLQELGREPTPEEIAAELDMPVERVREILKISQ-EPVSLETPIGEEE------ 285 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D++ D V E + + L + L RE+++ R + Sbjct: 286 ------DSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMD 336 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 337 DGRARTLEEVGKEFDVTRERIRQIEAKALRKLR 369 >gi|325277035|ref|ZP_08142696.1| RNA polymerase sigma factor RpoS [Pseudomonas sp. TJI-51] gi|324097832|gb|EGB96017.1| RNA polymerase sigma factor RpoS [Pseudomonas sp. TJI-51] Length = 335 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|269837876|ref|YP_003320104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269787139|gb|ACZ39282.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 341 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 84/272 (30%), Positives = 139/272 (51%), Gaps = 31/272 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I + P+L +EE LAKR E GD+ A R V S+LRLVV IA Y G GL + ++ Sbjct: 75 YLRDIAQAPLLTAEEEVELAKRI-EEGDVEALQRFVRSNLRLVVSIAKRYVGRGLSLLDL 133 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+K+D RG+R +TY+ WWI+ A+ I +++ + + Sbjct: 134 IQEGNLGLIRAVQKYDWRRGYRFSTYATWWIRQAITRAIADQGRTIRLPV-----HMIDS 188 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + R + + +T +P + +A+ ++V E + I ++ + S Sbjct: 189 ITRYRRTVMQLTQELGRPPRAEEVAEAMSVPP-------------EKVEQFIRAAQRTIS 235 Query: 199 QWQDWLVYDHDGQEQVLIEKE-----ERKNRRNMLTRSMS----VLNPRERRIFEARRLQ 249 + + D +G LI E E + +L R ++ L PRER + + R Sbjct: 236 -LEKPIGEDEEGTLADLIADEVARSPEEEAVETLLQRDVAEVLEELTPRERLVLQLRFGL 294 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKK 279 N P TL + + ++SRERVRQIE+ A +K Sbjct: 295 GNGSPHTLSEVGQQLDISRERVRQIESEALRK 326 >gi|325109992|ref|YP_004271060.1| RNA polymerase, sigma 38 subunit, RpoS [Planctomyces brasiliensis DSM 5305] gi|324970260|gb|ADY61038.1| RNA polymerase, sigma 38 subunit, RpoS [Planctomyces brasiliensis DSM 5305] Length = 286 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 135/277 (48%), Gaps = 25/277 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + +L EE LA R GDL A R+V ++LRLVV IA GY GLP+ Sbjct: 24 LETYLREINETSLLSADEEKELANRI-AMGDLEARDRMVRANLRLVVNIARGYASKGLPL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP R +TY+ +WIK +++ ++ ++I A L Sbjct: 83 QDLIEEGNLGLLRAVEGFDPNMNTRFSTYASYWIKQSIKRSLVNCAKTIRI--PAYMVEL 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVA----IAKKLNVSESEVISMNCRLAGDESLNALIN 191 R+ LQ + E+V A KKLN+ + + L N Sbjct: 141 LSKWRKATARLQDELNRTPTAEEVAAELGLPKKKLNIVKKAI--------------QLYN 186 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM--LTRSMSVLNPRERRIFEAR--R 247 S+ ++ + W + + E+ + +EE N N+ + R + ++ RE I R Sbjct: 187 STPQSDDEESGWSLGEMVADERAIGPEEELVNNDNLNHVYRMLDDMDDRESTILRMRFGL 246 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E P TL+ + ++RERVRQIE A ++ + Sbjct: 247 DHEEPKTLKEIGESLGLTRERVRQIEQEALNRLNRGL 283 >gi|26988355|ref|NP_743780.1| RNA polymerase sigma factor RpoS [Pseudomonas putida KT2440] gi|148549360|ref|YP_001269462.1| RNA polymerase sigma factor RpoS [Pseudomonas putida F1] gi|167032190|ref|YP_001667421.1| RNA polymerase sigma factor RpoS [Pseudomonas putida GB-1] gi|24983106|gb|AAN67244.1|AE016351_6 RNA polymerase sigma factor RpoS [Pseudomonas putida KT2440] gi|148513418|gb|ABQ80278.1| RNA polymerase, sigma 70 subunit, RpoD family [Pseudomonas putida F1] gi|166858678|gb|ABY97085.1| RNA polymerase, sigma 70 subunit, RpoD family [Pseudomonas putida GB-1] gi|313500209|gb|ADR61575.1| RpoS [Pseudomonas putida BIRD-1] Length = 335 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|319790059|ref|YP_004151692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] gi|317114561|gb|ADU97051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] Length = 318 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 85/269 (31%), Positives = 146/269 (54%), Gaps = 13/269 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L ++ I KIP+L ++EE LAKR + GD A +LV S+LR VV +A Y G GLP+ Sbjct: 49 LDAFLKSISKIPLLSREEEIELAKRAK-AGDKEALKKLVESNLRFVVSVAKKYLGCGLPL 107 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EG +GL++A ++FDP++G + +Y++WWI+ ++ + + + VKI Q L Sbjct: 108 HDLIAEGILGLIEAARRFDPDKGVKFISYAVWWIRQSIMQALAQQTGAVKI--PVKQAVL 165 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + R G L + +P + +A + + EV + SL+ I D+ Sbjct: 166 VNKITRSYGEL--LKKLGREP-TIEELADYVGMEPKEVERLLSICQVPLSLDTPIG--DE 220 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PV 253 + ++D+L + + + + +EE K + + L P+E++I R L N P Sbjct: 221 EDTTFKDFLKGEGTAEVEEKVVQEELKQS---IQEMLEQLTPQEKKIIIMRFGLDGNEPK 277 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TL + + +SRERVRQ+E RA KK++E Sbjct: 278 TLREIGEKLGISRERVRQLETRAKKKMKE 306 >gi|149190125|ref|ZP_01868401.1| RNA polymerase sigma-38 factor [Vibrio shilonii AK1] gi|148836014|gb|EDL52975.1| RNA polymerase sigma-38 factor [Vibrio shilonii AK1] Length = 325 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 155/275 (56%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R + GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 53 YLGEIGFSPLLTAEEEVLYARRALK-GDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN--VSE-SEVISMNCRLAGDESLNALINSSDK 195 LR + Q + D+ E+ IA+KL+ VS+ S+++ +N R++ S++ I + Sbjct: 171 LRTARELSQKL-DHEPTAEE---IAQKLDKPVSDVSKMLRLNERIS---SVDTPIGGDGE 223 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENP 252 + D + +V + ++ K+ L + LNP+++ + ARR L P Sbjct: 224 KA--LLDIIPDSTHSDPEVSTQDDDIKSS---LIHWLDELNPKQKEVL-ARRFGLLGYEP 277 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ +++++ + KQ Sbjct: 278 STLEEVGREINLTRERVRQIQVEGLRRLRDILIKQ 312 >gi|258516189|ref|YP_003192411.1| RNA polymerase sigma factor RpoD [Desulfotomaculum acetoxidans DSM 771] gi|257779894|gb|ACV63788.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum acetoxidans DSM 771] Length = 359 Score = 115 bits (289), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 139/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E G+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 93 YLKEIGRVPLLSSEEEVELAKRM-EMGEEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 151 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 152 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 209 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++N++E +V + SL I ++ S Sbjct: 210 LIRVSRQLLQELGREPMPEE---IAKEMNITEDKVREIMKIAQEPVSLETPIG--EEEDS 264 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + DHD + E+ R L + L RE+++ R ++ TLE Sbjct: 265 HLGDF-IEDHDARAPA--EEASFTLLREQLDDVLKTLTDREQKVLRLRFGLDDGRARTLE 321 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F V+RER+RQIEA+ +K++ Sbjct: 322 EVGQKFGVTRERIRQIEAKTLRKLR 346 >gi|125973412|ref|YP_001037322.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum ATCC 27405] gi|125713637|gb|ABN52129.1| RNA polymerase, sigma 38 subunit, RpoS [Clostridium thermocellum ATCC 27405] Length = 358 Score = 115 bits (289), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGKVPLLTAEEEIELAHRI-EQGDAEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 151 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 208 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++N+ +V + SL I ++ S Sbjct: 209 LIRVSRQLLQELGREPHPEE---IAKEMNMPVEKVREIMKISQEPVSLETPIG--EEEDS 263 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E + L + L PRE ++ R ++ TLE Sbjct: 264 HLGDFI---PDDDAPAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLE 320 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 321 EVGKEFNVTRERIRQIEAKALRKLR 345 >gi|218458675|ref|ZP_03498766.1| RNA polymerase factor sigma-32 [Rhizobium etli Kim 5] Length = 138 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 46/99 (46%), Positives = 77/99 (77%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE+ LA R+++H D A +++ +H+RLV+ +A +R +GLP+S++V EG +GL Sbjct: 39 PYLARQEEHDLATRWKDHDDRGARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGL 98 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 ++A +F+PER R +TY+ WWI+A++Q+YILR+WS+V+ Sbjct: 99 LEAAARFEPERDVRFSTYASWWIRASIQDYILRNWSIVR 137 >gi|17545926|ref|NP_519328.1| RNA polymerase sigma factor RpoS [Ralstonia solanacearum GMI1000] gi|17428221|emb|CAD14909.1| rna polymerase sigma s (sigma-38) factor transcription regulator protein [Ralstonia solanacearum GMI1000] Length = 377 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 88/279 (31%), Positives = 143/279 (51%), Gaps = 27/279 (9%) Query: 19 YIHEIRKIPMLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y++ I P+L EE LAK G+ +A ++ +LRLVV IA GY G+P+ Sbjct: 108 YLNRISIKPLLTPAEELHFSTLAKA----GEFAARQVMIERNLRLVVSIAKGYLNRGVPL 163 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 164 LDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 221 Query: 136 FFNLRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + R K HL+ I + E + + K +V+S+N E +L Sbjct: 222 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPF 275 Query: 194 DKN-SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 276 DLDPGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLN 330 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 331 HIEPATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 369 >gi|89075068|ref|ZP_01161509.1| putative RNA polymerase sigma-38 factor [Photobacterium sp. SKA34] gi|89049155|gb|EAR54720.1| putative RNA polymerase sigma-38 factor [Photobacterium sp. SKA34] Length = 337 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 148/272 (54%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 66 YLGEIGYSPLLTAEEEVLYARRAL-RGDEVARKRMIESNLRLVVKISRRYSNRGLALLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E IA++L E V +N L +E ++++ N +S Sbjct: 184 LRTARELAQKL-DHEPTAED---IAQQL---EKPVDDVNRMLRLNERVSSVDNPIGGDSE 236 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 + ++ D G +++ + +N + + LNP++R + ARR L TL Sbjct: 237 KALLDIIPDEKGGSPESSTQDD--DIKNSIVHWLQELNPKQREVL-ARRFGLLGYEASTL 293 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E++ E ++RERVRQI+ +++++ + Q Sbjct: 294 EDVGREIGLTRERVRQIQVEGLRRLRDMLTHQ 325 >gi|291533682|emb|CBL06795.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Megamonas hypermegale ART12/1] Length = 329 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 137/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LAKR E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 69 YLKEIGRVPLLSADEEIKLAKRM-EDGDLEAQKRLAEANLRLVVSIAKRYVGRGMLFLDL 127 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 128 IQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 185 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK+++VS V + ++A E ++ ++ S Sbjct: 186 LIRVSRQLLQSLGREPSPEE---IAKEMDVSVDRVREI-MKIA-QEPVSLETPIGEEEDS 240 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + DHD E + L + L RE ++ R ++ TLE Sbjct: 241 HLGDF-IEDHDAPAPA--EAASFVLLKEQLEDVLDTLTEREEKVLRLRFGLDDGRARTLE 297 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 298 EVGQNFGVTRERIRQIEAKALRKLR 322 >gi|89895793|ref|YP_519280.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense Y51] gi|89335241|dbj|BAE84836.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 367 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 135/277 (48%), Gaps = 37/277 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD SA RL ++LRLVV IA Y G G+ ++ Sbjct: 101 YLKEIGRVPLLTAEEEIELAKRM-EQGDESAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 160 IQEGNLGLIKAVEKFDYVKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 217 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVS----------ESEVISMNCRLAGDES--L 186 L R+ L PE+ IA ++++S E +S+ + +E L Sbjct: 218 LIRVSRQLLQELGREPTPEE---IAVQMDISVERVREIMKIAQEPVSLETPIGEEEDSHL 274 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I D + + + E+VL L PRE ++ R Sbjct: 275 GDFIPDEDAPAPSEAASFILLKEQLEEVL-----------------ETLTPREEKVLRLR 317 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 318 FGLDDGRTRTLEEVGQEFGVTRERIRQIEAKALRKLR 354 >gi|323703334|ref|ZP_08114984.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum nigrificans DSM 574] gi|323531697|gb|EGB21586.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum nigrificans DSM 574] Length = 367 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 139/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 101 YLKEIGRVPLLSPEEEVELAKRM-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 160 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 217 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++N+S +V + ++A E ++ ++ S Sbjct: 218 LIRVSRQLLQELGREPTPEE---IAKEMNISGDKVREI-MKIA-QEPVSLETPIGEEEDS 272 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + E+ R L + L RE+++ R ++ TLE Sbjct: 273 HLGDFI---EDADARAPAEEASFTLLREQLDEVLKTLTDREQKVLRLRFGLDDGRARTLE 329 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F V+RER+RQIEA+ +K++ Sbjct: 330 EVGQKFGVTRERIRQIEAKTLRKLR 354 >gi|291278687|ref|YP_003495522.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] gi|290753389|dbj|BAI79766.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] Length = 298 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 79/273 (28%), Positives = 146/273 (53%), Gaps = 12/273 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 ++ Y++EI K P L K+EE L+KR E GD A + ++ +L+LVV IA Y GL Sbjct: 26 SITIYLNEIIKYPTLSKEEEIELSKRI-EQGDEEAKNLMINCNLKLVVSIAKKYNNRGLQ 84 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGNIGL++AV+KFD +GF+ +TY+ WWI+ A++ ++ +V+I N+ Sbjct: 85 LIDLINEGNIGLIKAVEKFDYRKGFKFSTYATWWIRQAIERALVNQTKMVRIPVHMNE-- 142 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 N+ ++K + + + + ++ + N+S + + + S++ IN D Sbjct: 143 ---NINKVKKATEKLRRKLKREPTLFELSTECNMSLLTIQKTIDAMQQNISIDGTINEDD 199 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 +S D ++ D + + + + KNR ++ + LN E+ + R + P Sbjct: 200 --NSTLHD-ILPDPESKADPFKKIVQEKNRE-LIMNWIECLNENEKELIIKRFGLDGKEP 255 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TL+ + V+RERVRQIE R K++ ++ Sbjct: 256 ETLDKIGKRLGVTRERVRQIEKRILTKLRNHLK 288 >gi|237800176|ref|ZP_04588637.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. oryzae str. 1_6] gi|331023033|gb|EGI03090.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. oryzae str. 1_6] Length = 335 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVYFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPTPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|269121540|ref|YP_003309717.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sebaldella termitidis ATCC 33386] gi|268615418|gb|ACZ09786.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sebaldella termitidis ATCC 33386] Length = 387 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 83/270 (30%), Positives = 140/270 (51%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LA++ E+ D A +L+ S+LRLVV IA + GL + ++ Sbjct: 121 YLREIGQIPLLTYEEEIALAQKVLEN-DEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDL 179 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KF+ E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 180 IQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 234 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + ++K + I K +AKKL + +V S+ SL + S + S Sbjct: 235 INKIKKESRIILQETGKEATAEELAKKLEIPVDKVKSILEMNQDPISLETPVGSEE--DS 292 Query: 199 QWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 + D++ D +D +VL+ + L + L+ RE + R ++ Sbjct: 293 ELGDFVEDDKFLNPYDATTRVLL--------KEQLDGVLKTLSEREEMVLRYRYGLDDGS 344 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F V+RER+RQIE +A +K++ Sbjct: 345 PKTLEEVGKIFNVTRERIRQIEVKALRKLR 374 >gi|90580346|ref|ZP_01236153.1| putative RNA polymerase sigma-38 factor [Vibrio angustum S14] gi|90438648|gb|EAS63832.1| putative RNA polymerase sigma-38 factor [Vibrio angustum S14] Length = 337 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 148/272 (54%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 66 YLGEIGYSPLLTAEEEVLYARRAL-RGDEVARKRMIESNLRLVVKISRRYSNRGLALLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E IA++L E V +N L +E ++++ N +S Sbjct: 184 LRTARELAQKL-DHEPTAED---IAQQL---EKPVDDVNRMLRLNERVSSVDNPIGGDSE 236 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 + ++ D G +++ + +N + + LNP++R + ARR L TL Sbjct: 237 KALLDIIPDEKGGSPESSTQDD--DIKNSIVHWLQELNPKQREVL-ARRFGLLGYEASTL 293 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E++ E ++RERVRQI+ +++++ + Q Sbjct: 294 EDVGREIGLTRERVRQIQVEGLRRLRDMLTHQ 325 >gi|261367093|ref|ZP_05979976.1| RNA polymerase sigma factor RpoD [Subdoligranulum variabile DSM 15176] gi|282571217|gb|EFB76752.1| RNA polymerase sigma factor RpoD [Subdoligranulum variabile DSM 15176] Length = 364 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 142/272 (52%), Gaps = 24/272 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI ++P+L +EE LA + + G A RL ++LRLVV IA Y G G+ Sbjct: 95 YLKEIGRVPLLTPEEEIDLALKIQAGGPEGEKAKQRLSEANLRLVVSIAKRYVGRGMQFL 154 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ 132 +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 155 DLIQEGNLGLIKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 214 Query: 133 -KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 K++ L GH + + IA++L++S +V + R+A E ++ Sbjct: 215 VKKVSSQLLHEYGHDPSAEE----------IAERLDMSVDKVREI-MRVA-QEPVSLETP 262 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ S D++ D V E + + L + L PRE ++ R E+ Sbjct: 263 IGEEEDSHLGDFI---PDDDAPVPAEAASQTLLKEQLADVLKTLTPREEKVLRLRFGLED 319 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 320 GRPRTLEEVGKEFNVTRERIRQIEAKALRKLR 351 >gi|48727551|gb|AAT46075.1| RNA polymerase sigma factor [Pseudomonas chlororaphis] Length = 334 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 184 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 238 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 239 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVVRRFGLRGHESS-T 292 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 293 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 324 >gi|323127013|gb|ADX24310.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 369 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 88/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE VLA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKVLAVAVAE-GDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|219670224|ref|YP_002460659.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense DCB-2] gi|219540484|gb|ACL22223.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfitobacterium hafniense DCB-2] Length = 372 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 135/277 (48%), Gaps = 37/277 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD SA RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLTAEEEIELAKRM-EQGDESAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNLGLIKAVEKFDYVKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVS----------ESEVISMNCRLAGDES--L 186 L R+ L PE+ IA ++++S E +S+ + +E L Sbjct: 223 LIRVSRQLLQELGREPTPEE---IAVQMDISVERVREIMKIAQEPVSLETPIGEEEDSHL 279 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I D + + + E+VL L PRE ++ R Sbjct: 280 GDFIPDEDAPAPSEAASFILLKEQLEEVL-----------------ETLTPREEKVLRLR 322 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 323 FGLDDGRTRTLEEVGQEFGVTRERIRQIEAKALRKLR 359 >gi|33150232|gb|AAP97086.1| RNA polymerase sigma factor [Pseudomonas chlororaphis] gi|103488976|gb|ABF71881.1| RpoS [Pseudomonas chlororaphis] Length = 334 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 184 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 238 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 239 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVVRRFGLRGHESS-T 292 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 293 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 324 >gi|77457359|ref|YP_346864.1| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens Pf0-1] gi|77381362|gb|ABA72875.1| RNA polymerase, sigma 38 subunit, RpoS [Pseudomonas fluorescens Pf0-1] Length = 335 Score = 115 bits (289), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|1017750|gb|AAA79182.1| RpoS [Serratia entomophila] Length = 332 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 181 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 182 RTARELSHKLDHEPSAEEIAEQLDKPVHDVSRMLRLN---ERMPSVDTPLGGDSEKALLD 238 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 239 ILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 287 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 288 --ATLEDVGREIVLTRERVRQIQVEGLRRLREILQMQ 322 >gi|256004390|ref|ZP_05429371.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 2360] gi|255991674|gb|EEU01775.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 2360] gi|316940353|gb|ADU74387.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 1313] Length = 358 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGKVPLLTAEEEIELAHRM-EQGDAEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 151 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 208 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++N+ +V + SL I ++ S Sbjct: 209 LIRVSRQLLQELGREPHPEE---IAKEMNMPVEKVREIMKISQEPVSLETPIG--EEEDS 263 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E + L + L PRE ++ R ++ TLE Sbjct: 264 HLGDFI---PDDDAPAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLE 320 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 321 EVGKEFNVTRERIRQIEAKALRKLR 345 >gi|281417615|ref|ZP_06248635.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum JW20] gi|281409017|gb|EFB39275.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum JW20] Length = 358 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGKVPLLTAEEEIELAHRI-EQGDAEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 151 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 208 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++N+ +V + SL I ++ S Sbjct: 209 LIRVSRQLLQELGREPHPEE---IAKEMNMPVEKVREIMKISQEPVSLETPIG--EEEDS 263 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E + L + L PRE ++ R ++ TLE Sbjct: 264 HLGDFI---PDDDAPAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLE 320 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 321 EVGKEFNVTRERIRQIEAKALRKLR 345 >gi|253580849|ref|ZP_04858112.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251847919|gb|EES75886.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 375 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 87/270 (32%), Positives = 142/270 (52%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E+GD +A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGKVPLLSAEEEIELAKRM-ENGDEAAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 168 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 225 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++++S V + SL I ++ S Sbjct: 226 LIRVSRQLLQELGREPTPEE---IAKEMDMSVERVREILKISQEPVSLETPI--GEEEDS 280 Query: 199 QWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D++ D+ D L++++ L +S L RE+++ R ++ Sbjct: 281 HLGDFIQDDNVPVPADAAAFTLLKEQ--------LVEVLSTLTDREQKVLRLRFGLDDGR 332 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 333 ARTLEEVGKEFNVTRERIRQIEAKALRKLR 362 >gi|152985831|ref|YP_001346901.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PA7] gi|150960989|gb|ABR83014.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PA7] Length = 344 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 143/277 (51%), Gaps = 27/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 76 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 134 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 135 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 193 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + L D+ PE++ + +K ++ +N R+ G +S L+++ Sbjct: 194 LRAAR-ELTHKLDHEPSPEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDT 252 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQ 249 + L+ D D E + + +S L ++R + R R Sbjct: 253 LTDDRPTDPCELLQDDDLSESI--------------DQWLSELTDKQREVVIRRFGLRGH 298 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ TLE + E ++RERVRQI+ A K+++E ++K Sbjct: 299 ESS-TLEEVGQEIGLTRERVRQIQVEALKRLREILEK 334 >gi|186702713|gb|ACC91623.1| RNA polymerase sigma factor [Pseudomonas sp. CT07] Length = 336 Score = 115 bits (288), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 68 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 126 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 127 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 185 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 186 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 240 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 241 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVVRRFGLRGHESS-T 294 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 295 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 326 >gi|218701232|ref|YP_002408861.1| RNA polymerase sigma factor RpoS [Escherichia coli IAI39] gi|218371218|emb|CAR19049.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli IAI39] gi|327251469|gb|EGE63155.1| RNA polymerase sigma factor RpoS [Escherichia coli STEC_7v] Length = 330 Score = 115 bits (288), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGF +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFSFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|322411497|gb|EFY02405.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 369 Score = 115 bits (288), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 88/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE VLA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKVLAVAVAE-GDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|225848787|ref|YP_002728951.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Sulfurihydrogenibium azorense Az-Fu1] gi|225643846|gb|ACN98896.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Sulfurihydrogenibium azorense Az-Fu1] Length = 282 Score = 115 bits (288), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 143/274 (52%), Gaps = 35/274 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ ++ K PML +EE LA R + GD A +LV +LR VV IA + G+G+P+ Sbjct: 11 LQLYMQQMGKYPMLTPEEERELAIRAK-KGDKEALKKLVEGNLRFVVNIAKNFMGWGVPL 69 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++++ GN+GL++A K+FDP++ + +Y++WWI+ A+ + I + V+I ++ L Sbjct: 70 TDLIAAGNLGLIEAAKRFDPDKNVKFISYAVWWIRQAIMQTIFQQTGAVRIPI---KESL 126 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL--AGD 183 F + ++K + + ++ + IAK+L S +V IS++ L G+ Sbjct: 127 FIS--KVKNAYEKLKESLGREPTEEEIAKELKTSVKKVKNALAIVRQPISLDMPLGEGGE 184 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E L S K + + LV E L E+ E R ++VL+ RER I Sbjct: 185 EDFTLLDILSKKGTEDVEKDLV------ESTLKEEFE---------RLLNVLDEREREII 229 Query: 244 EARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 + R E P TLE + +SRERVRQ+E R Sbjct: 230 KLRYGLEGLEPKTLEEVGEMLGISRERVRQLEQR 263 >gi|161502017|ref|YP_001569129.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160863364|gb|ABX19987.1| hypothetical protein SARI_00033 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 330 Score = 115 bits (288), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGF +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFSFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 320 >gi|20808174|ref|NP_623345.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter tengcongensis MB4] gi|20516766|gb|AAM24949.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 372 Score = 115 bits (288), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 139/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLIEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L PE+ +AK++ + E +V + ++A E ++ ++ S Sbjct: 223 LIRVQRQLLQELGREPTPEE---LAKEMGMPEEKVREI-LKIA-QEPVSLETPIGEEEDS 277 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ + K + L + L PRE ++ R ++ TLE Sbjct: 278 HLGDFIPDEDAPAPAEAAAYTMLKEQ---LMDVLDTLTPREEKVLRLRFGLDDGRARTLE 334 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 335 EVGKEFNVTRERIRQIEAKALRKLR 359 >gi|330807812|ref|YP_004352274.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327375920|gb|AEA67270.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 335 Score = 115 bits (288), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|241662747|ref|YP_002981107.1| RNA polymerase sigma factor RpoS [Ralstonia pickettii 12D] gi|240864774|gb|ACS62435.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ralstonia pickettii 12D] Length = 378 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 143/279 (51%), Gaps = 27/279 (9%) Query: 19 YIHEIRKIPMLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y++ I P+L EE LAK G+ +A ++ +LRLVV IA GY G+P+ Sbjct: 109 YLNRISIKPLLTPAEELHFSTLAKA----GEFAARQVMIERNLRLVVSIAKGYLNRGVPL 164 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 165 LDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 222 Query: 136 FFNLRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + R K HL+ + + E + + K +V+S+N E +L Sbjct: 223 LNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPF 276 Query: 194 DKN-SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 277 DLDPGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLN 331 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 332 YIEPATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 370 >gi|268610742|ref|ZP_06144469.1| RNA polymerase sigma factor RpoD [Ruminococcus flavefaciens FD-1] Length = 360 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 90/271 (33%), Positives = 142/271 (52%), Gaps = 25/271 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 94 YLKEIGRVPLLTTEEEIELAQRMAK-GDRYAKKRLSEANLRLVVSIAKKYVGRGMQFLDL 152 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQK 133 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T K Sbjct: 153 IQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETITKVK 212 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 ++ L GH + PE+ IA KLN+ +V + R+A D SL I Sbjct: 213 KVSSQLLHENGH-------DPSPEE---IADKLNMPVDKVREI-MRVAQDPVSLETPI-- 259 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 ++ S D++ D K + N + +S L RE ++ + R E+ Sbjct: 260 GEEEDSHLGDFIPDDDAPAPAEAASHTLLKEQLNEV---LSTLTDREAKVLKLRFGLEDG 316 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F+V+RER+RQIEA+A +K++ Sbjct: 317 KSRTLEEVGQRFDVTRERIRQIEAKALRKLR 347 >gi|153814577|ref|ZP_01967245.1| hypothetical protein RUMTOR_00791 [Ruminococcus torques ATCC 27756] gi|317501262|ref|ZP_07959466.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|331089991|ref|ZP_08338881.1| hypothetical protein HMPREF1025_02464 [Lachnospiraceae bacterium 3_1_46FAA] gi|145848071|gb|EDK24989.1| hypothetical protein RUMTOR_00791 [Ruminococcus torques ATCC 27756] gi|316897329|gb|EFV19396.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|330402905|gb|EGG82471.1| hypothetical protein HMPREF1025_02464 [Lachnospiraceae bacterium 3_1_46FAA] Length = 273 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 86/278 (30%), Positives = 146/278 (52%), Gaps = 38/278 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI +IP+L++ EE L +R + GD SA RL +LRLVV IA Y G GLP+ ++ Sbjct: 15 YLNEIGEIPLLDETEEKELGRRISD-GDESARARLEEGNLRLVVSIAKHYTGRGLPLMDL 73 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM A +K+D + R +TY+ WWIK A+ I + +++ + N Sbjct: 74 IQEGNIGLMHAAEKYDYTKDNRFSTYASWWIKEAITRAIDQQSREIRVPVHVAE-----N 128 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKL-NVSESEV----------ISMNCRLA--GDES 185 ++R++ + + + + IAKKL + +E EV +S+ + G++S Sbjct: 129 IKRVQKAAKELQQEFGREAEPGEIAKKLGDRTEEEVKNILSYIRNPVSLETPVGEDGEDS 188 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L + D++ + +D + VL+ KEE + + LN RE+ + Sbjct: 189 LGDFV--EDRSETTPEDAM--------DVLVRKEE-------VQELLETLNDREKEVISL 231 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++ TLE + ++RERVRQIE++A +K++ Sbjct: 232 RFGLGKDRTYTLEEIGESLGITRERVRQIESKAMEKLR 269 >gi|309782329|ref|ZP_07677056.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_7_47FAA] gi|308918947|gb|EFP64617.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_7_47FAA] Length = 378 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 143/279 (51%), Gaps = 27/279 (9%) Query: 19 YIHEIRKIPMLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y++ I P+L EE LAK G+ +A ++ +LRLVV IA GY G+P+ Sbjct: 109 YLNRISIKPLLTPAEELHFSTLAKA----GEFAARQVMIERNLRLVVSIAKGYLNRGVPL 164 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 165 LDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 222 Query: 136 FFNLRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + R K HL+ + + E + + K +V+S+N E +L Sbjct: 223 LNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPF 276 Query: 194 DKN-SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 277 DLDPGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLN 331 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 332 YIEPATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 370 >gi|253573701|ref|ZP_04851044.1| LOW QUALITY PROTEIN: DNA-directed RNA polymerase [Paenibacillus sp. oral taxon 786 str. D14] gi|251847229|gb|EES75234.1| LOW QUALITY PROTEIN: DNA-directed RNA polymerase [Paenibacillus sp. oral taxon 786 str. D14] Length = 325 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 137/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R E+GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 59 YLKEIGRVPLLSAEEEIELAQRI-ENGDEEAKRRLAEANLRLVVSIARRYVGRGMVFLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 118 IQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK+++++ +V + SL I ++N S Sbjct: 176 LIRVSRQLLQEIGREPTPEE---IAKEMDLTPDKVREIMKIAQEPVSLETPI--GEENDS 230 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + DHD E + L + L RE + R ++ TLE Sbjct: 231 NLGDF-IEDHDAPAPAEAAAYEL--LKEQLEEVLDTLTEREENVLRLRFGMDDGRTRTLE 287 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 288 EVGKEFGVTRERIRQIEAKALRKLR 312 >gi|2289784|dbj|BAA21674.1| rpoS sigma factor [Pseudomonas tolaasii] Length = 336 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 68 YLNEIGFSPLLTPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 126 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 127 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 185 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 186 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 240 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 241 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVIRRFGLRGHESS-T 294 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 295 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 326 >gi|24379277|ref|NP_721232.1| RNA polymerase sigma factor RpoD [Streptococcus mutans UA159] gi|290580718|ref|YP_003485110.1| DNA-dependent RNA polymerase sigma subunit [Streptococcus mutans NN2025] gi|18202024|sp|O33662|RPOD_STRMU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 gi|24377195|gb|AAN58538.1|AE014923_2 DNA-dependent RNA polymerase sigma subunit; major sigma factor (sigma 70/42) [Streptococcus mutans UA159] gi|2258087|dbj|BAA21507.1| sigma 42 protein [Streptococcus mutans] gi|254997617|dbj|BAH88218.1| DNA-dependent RNA polymerase sigma subunit [Streptococcus mutans NN2025] Length = 371 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 89/273 (32%), Positives = 147/273 (53%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E+GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGVVPLLTNEEEKELAIAV-ENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 163 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 221 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 222 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 272 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 273 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 324 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + TLE++ F+V+RER+RQIEA+A +K++ Sbjct: 325 DGKMRTLEDVGKVFDVTRERIRQIEAKALRKLR 357 >gi|289578734|ref|YP_003477361.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] gi|289528447|gb|ADD02799.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] Length = 357 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 139/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 91 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLIEANLRLVVSIAKRYVGRGMLFLDL 149 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 150 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 207 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L PE+ +AK++ + E +V + ++A E ++ ++ S Sbjct: 208 LIRIQRQLLQELGREPTPEE---LAKEMGMPEEKVREI-MKIA-QEPVSLETPIGEEEDS 262 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ + K + L + L PRE ++ R ++ TLE Sbjct: 263 HLGDFIPDEDAPAPAEAAAFTMLKEQ---LMDVLDTLTPREEKVLRLRFGLDDGRARTLE 319 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 320 EVGKEFNVTRERIRQIEAKALRKLR 344 >gi|86141299|ref|ZP_01059845.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] gi|85831858|gb|EAQ50313.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] Length = 287 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 90/294 (30%), Positives = 155/294 (52%), Gaps = 51/294 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDQRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 + F L + N +P IAK+L+++ +EV + + AG S++A Sbjct: 136 NKINKTFAFLEQ----------ANERPPSPEEIAKELDMTVNEV-KESLKNAGRHVSMDA 184 Query: 189 -LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS--------VLNPRE 239 LI D N +YD VL E R +L+ S+S L PRE Sbjct: 185 PLIEGEDSN--------LYD------VLRSGESPNPDRELLSESLSTEIERALETLTPRE 230 Query: 240 RRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 231 ADVV---RLYFGLGHQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|157688389|gb|ABV64841.1| RpoS [Pseudomonas sp. 122] Length = 334 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLTPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 184 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 238 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 239 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVIRRFGLRGHESS-T 292 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 293 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 324 >gi|323484375|ref|ZP_08089742.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323692387|ref|ZP_08106623.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323402369|gb|EGA94700.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323503527|gb|EGB19353.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 372 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 90/276 (32%), Positives = 147/276 (53%), Gaps = 19/276 (6%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 VN + + Y+ EI K+P+L +EE LAK+ E G+ A RL ++LRLVV IA Y Sbjct: 97 VNIDDPVRMYLKEIGKVPLLSPEEEIELAKQM-EMGNEYAKKRLAEANLRLVVSIAKRYV 155 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT- 128 G G+ +++ EGN+GL++AV+K+D +GF+ +TY+ WWI+ A+ I ++I Sbjct: 156 GRGMQFLDLIQEGNLGLIKAVEKYDYSKGFKFSTYATWWIRQAITRSIADQARTIRIPVH 215 Query: 129 -TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SL 186 RL R+L LQ + PE+V A+++++ V + +++ D SL Sbjct: 216 MVETINRLIRTSRQL---LQELG-REPHPEEV---AERMDMPVERVREI-MKISQDPVSL 267 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I ++ S D++ DH QV ++ L + L RE+++ R Sbjct: 268 ETPI--GEEEDSHLGDFIQDDH---VQVPLDAATFTLLHEQLMEVLDTLTDREQKVLRLR 322 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ P TLE + EF V+RER+RQIEA+A +K+ Sbjct: 323 FGLDDGRPRTLEEVGKEFNVTRERIRQIEAKALRKL 358 >gi|299067258|emb|CBJ38455.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum CMR15] Length = 376 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 88/279 (31%), Positives = 142/279 (50%), Gaps = 27/279 (9%) Query: 19 YIHEIRKIPMLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y++ I P+L EE LAK G+ A ++ +LRLVV IA GY G+P+ Sbjct: 107 YLNRISIKPLLTPAEELHFSTLAKA----GEFPARQVMIERNLRLVVSIAKGYLNRGVPL 162 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 163 LDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 220 Query: 136 FFNLRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + R K HL+ I + E + + K +V+S+N E +L Sbjct: 221 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTDEVQDVLSLN------EHTTSLDTPF 274 Query: 194 DKN-SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 275 DLDPGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLN 329 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 330 HIEPATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 368 >gi|114567027|ref|YP_754181.1| sigma 38 (RpoS) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337962|gb|ABI68810.1| sigma 38 (RpoS) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 358 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 138/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LA+R E GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 92 YLKEIGRVPLLIAAQEIDLAQRI-EEGDEEAKRQLVEANLRLVVSIAKRYVGRGMLFLDL 150 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 151 IQEGNLGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 208 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L I P +V A++++++ VI + SL I D S Sbjct: 209 LSRVQRSLLQILGREPTPAEV---AEEMDIAVDRVIEIMKVAQEPVSLETPIGEED--DS 263 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + E R L ++ L RE ++ R ++ P TLE Sbjct: 264 HLGDFIT---DEEAESPEESASFVLLREHLDGILNTLTEREEKVLRLRFGLDDGRPRTLE 320 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 321 EVGQEFGVTRERIRQIEAKALRKLR 345 >gi|226945910|ref|YP_002800983.1| RNA polymerase sigma factor RpoS [Azotobacter vinelandii DJ] gi|16226165|gb|AAL16091.1|AF421351_3 stationary phase sigma factor [Azotobacter vinelandii] gi|226720837|gb|ACO80008.1| RNA polymerase sigma factor [Azotobacter vinelandii DJ] Length = 334 Score = 115 bits (288), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 89/277 (32%), Positives = 141/277 (50%), Gaps = 27/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLTPAEEVHFA-RLAQRGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDN-------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 LR + Q + NL + V + + L ++E V S++ L D L Sbjct: 184 LRAARELTQKLDHEPSAEEIANLLEKPVAEVKRMLGLNE-RVTSVDVSLGPDSDKTLLDV 242 Query: 192 SSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 +D S D L D Q +Q L + E++ R ++ R + R Sbjct: 243 LTDDRPSDPCDLLQDDDLSQSIDQWLFDLTEKQ--REVVVRRFGL------------RGH 288 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ TLE + E ++RERVRQI+ A K+++E ++K Sbjct: 289 ES-CTLEEVGQEIGLTRERVRQIQVEALKRLREILEK 324 >gi|325294741|ref|YP_004281255.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065189|gb|ADY73196.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] Length = 322 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 84/269 (31%), Positives = 144/269 (53%), Gaps = 13/269 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L ++ I KIP+L ++EE AKR + GD A +LV S+LR VV +A Y G GLP+ Sbjct: 53 LDAFLKSISKIPLLSREEEIEYAKRAK-AGDKEALKKLVESNLRFVVSVAKKYLGCGLPL 111 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EG +GL++A ++FDP++G + +Y++WWI+ ++ + + + VKI Q L Sbjct: 112 HDLIAEGILGLIEAARRFDPDKGVKFISYAVWWIRQSIMQALAQQTGAVKI--PVKQAVL 169 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + R G L E++ + E E + C++ SL+ I D+ Sbjct: 170 VNKITRSYGELLKKLGREPTTEELAEYV-GMEPKEIERLLTVCQVP--LSLDTPIG--DE 224 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PV 253 + ++D+L + + + + +EE K + + L P+E++I R L N P Sbjct: 225 EDTTFKDFLKGEGTAEVEEKVVQEELKQS---IQEMLEQLTPQEKKIIIMRFGLDGNEPK 281 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TL + + +SRERVRQ+E RA KK++E Sbjct: 282 TLREIGEKLGISRERVRQLETRAKKKMKE 310 >gi|104774139|ref|YP_619119.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|103423220|emb|CAI98048.1| RNA polymerase sigma factor RpoD (Sigma-A) [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] Length = 372 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 133/275 (48%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + +L +EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRFNLLTSEEEVALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLNA 188 L R++ L + +PE++ A + + L V++ E +S+ + D L Sbjct: 223 LIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREALKVAQ-EPVSLETPIGEEDDSHLGD 281 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-R 247 I D S + H E + R+ L + L RE + R Sbjct: 282 FIEDKDTTSPEQ-------HAASEML----------RDQLAEVLDTLTDREENVLRLRFG 324 Query: 248 LQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + NP TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 LDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKLR 359 >gi|312959424|ref|ZP_07773941.1| sigma-28 (flagella/sporulation) [Pseudomonas fluorescens WH6] gi|311286141|gb|EFQ64705.1| sigma-28 (flagella/sporulation) [Pseudomonas fluorescens WH6] Length = 335 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLTPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|158969744|gb|ABW86844.1| RpoS [Vibrio alginolyticus] Length = 330 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 90/281 (32%), Positives = 146/281 (51%), Gaps = 31/281 (11%) Query: 19 YIHEIRKIPML-EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 Y+ EI P+L EE VL R GD +A R++ S+LRLVVKI+ Y GL + + Sbjct: 56 YLGEIGFSPLLILTAEEEVLYARRALRGDEAARKRMIESNLRLVVKISRRYSNRGLALLD 115 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNI 174 Query: 138 NLRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNAL 189 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 175 YLRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALL 232 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 233 DIIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFG 276 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 277 LLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREVLIKQ 317 >gi|187928144|ref|YP_001898631.1| RNA polymerase sigma factor RpoS [Ralstonia pickettii 12J] gi|187725034|gb|ACD26199.1| RNA polymerase, sigma 70 subunit, RpoD family [Ralstonia pickettii 12J] Length = 378 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 143/279 (51%), Gaps = 27/279 (9%) Query: 19 YIHEIRKIPMLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y++ I P+L EE LAK G+ +A ++ +LRLVV IA GY G+P+ Sbjct: 109 YLNRISIKPLLTPAEELHFSTLAKA----GEFAARQVMIERNLRLVVSIAKGYLNRGVPL 164 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 165 LDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 222 Query: 136 FFNLRRLKGHLQ--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + R K HL+ + + E + + K +V+S+N E +L Sbjct: 223 LNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPF 276 Query: 194 DKN-SSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + + D+L +H +Q + +E + ++ L R L+ + R + E RR N Sbjct: 277 DLDPGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLN 331 Query: 252 ---PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE L++E ++RERVRQI+ A K++ Q Sbjct: 332 YIEPATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQ 370 >gi|298488362|ref|ZP_07006394.1| RNA polymerase sigma factor RpoS [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298157184|gb|EFH98272.1| RNA polymerase sigma factor RpoS [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] Length = 335 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 147/272 (54%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSHS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|292670109|ref|ZP_06603535.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] gi|292648297|gb|EFF66269.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] Length = 382 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 139/275 (50%), Gaps = 25/275 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LA+R E GD SA HRL ++LRLVV IA Y G G+ ++ Sbjct: 115 YLKEIGRVPLLTADEEIELARRM-EAGDESARHRLEEANLRLVVSIAKRYVGRGMLFLDL 173 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 174 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK-- 231 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + R Q + D P +AK++ +S V + SL I + Sbjct: 232 -YIRISR-----QLLQDLGRDP-TAEEVAKEMGLSTLRVREIMKIAQEPVSLETPIGEEE 284 Query: 195 KN--SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 + +D D V++ KE+ +T + L PRE + R E+ Sbjct: 285 DSHLGDFIEDEAALDPADAASVMLLKEQ-------ITEVLQTLAPREAEVLRLRFGLEDG 337 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TLE + F V+RER+RQIEA+A +K++ ++ Sbjct: 338 RSRTLEEVGQSFGVTRERIRQIEAKALRKLRHPVR 372 >gi|71736784|ref|YP_275947.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. phaseolicola 1448A] gi|71557337|gb|AAZ36548.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. phaseolicola 1448A] Length = 335 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 146/273 (53%), Gaps = 19/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI----FEARRLQENPV 253 D L D L++ ++ + + +S L ++R + F R + + Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGYESS-- 292 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E ++RERVRQI+ K+++E ++K Sbjct: 293 TLEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|302389497|ref|YP_003825318.1| RNA polymerase, sigma 70 subunit, RpoD [Thermosediminibacter oceani DSM 16646] gi|302200125|gb|ADL07695.1| RNA polymerase, sigma 70 subunit, RpoD [Thermosediminibacter oceani DSM 16646] Length = 367 Score = 115 bits (288), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 137/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 101 YLKEIGKIPLLTPEEEIELAKRI-EKGDKEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 160 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 217 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + PE+ IA+++ + +V + SL I ++ S Sbjct: 218 LIRVSRQLLQELGRDPTPEE---IAEEMELPVEKVREIMKIAQEPVSLETPIG--EEEDS 272 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + Q + + R L + L PRE ++ R ++ P TLE Sbjct: 273 HLGDFI---PDEEAQAPADAAAYRLLREQLEDVLETLTPREEKVLRLRFGLDDGKPRTLE 329 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 330 EVGQVFGVTRERIRQIEAKALRKLR 354 >gi|150026087|ref|YP_001296913.1| RNA polymerase sigma-70 factor RpoD [Flavobacterium psychrophilum JIP02/86] gi|149772628|emb|CAL44111.1| RNA polymerase sigma-70 factor RpoD [Flavobacterium psychrophilum JIP02/86] Length = 287 Score = 115 bits (287), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 83/292 (28%), Positives = 155/292 (53%), Gaps = 47/292 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDQRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 +++ L + +N +P IAK+L+++ ++V S++A Sbjct: 136 NKINKMYALLEQ----------SNERPPSAEEIAKELDMTVNDVKESMKNSGRHLSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD-------HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 L+ D N +YD + +++IE + R + RS+ L PRE Sbjct: 186 LVEGEDSN--------LYDVLRSGESPNPDRELIIE-----SLRTEIERSLETLTPREAD 232 Query: 242 IFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 233 VV---RLYFGLADQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|88798286|ref|ZP_01113872.1| RNA polymerase sigma factor RpoS [Reinekea sp. MED297] gi|88779062|gb|EAR10251.1| RNA polymerase sigma factor RpoS [Reinekea sp. MED297] Length = 344 Score = 115 bits (287), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 84/279 (30%), Positives = 149/279 (53%), Gaps = 29/279 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+ R+ G+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 75 YLNEIGFSPLLSPEEEVYFARLARK-GEPAGRKRMIESNLRLVVKIARRYLNRGLTLLDL 133 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 134 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 192 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ PE + + +K +++++N R+ G S +L+ + Sbjct: 193 LRAARELAQKL-DHEPTPEDIAQLLEKPVEDVKKMLALNERVTSIDTPIGPSSEKSLLET 251 Query: 193 -SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--- 248 SD +S D L D + + + R + L+ ++R + ARR Sbjct: 252 ISDDRASDPSDTLQDD---------------DLKASIDRWLDELSEKQREVV-ARRFGLR 295 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ + +++++ ++KQ Sbjct: 296 GYETSTLEDVGREIGLTRERVRQIQVESLRRLRDIMEKQ 334 >gi|28210583|ref|NP_781527.1| RNA polymerase sigma factor rpoD [Clostridium tetani E88] gi|28203021|gb|AAO35464.1| RNA polymerase sigma factor rpoD [Clostridium tetani E88] Length = 282 Score = 115 bits (287), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 94/279 (33%), Positives = 139/279 (49%), Gaps = 41/279 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + +L +EE LAKR E GD A L+ S+LRLVV IA Y G GL ++ Sbjct: 16 YLKEIGQSDLLTAEEEIDLAKRI-EKGDERAKSELIKSNLRLVVSIAKKYIGRGLSFLDL 74 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM+AV K+D ++G+R +TY+ WWIK A+ I ++I N+ + Sbjct: 75 VQEGNLGLMKAVDKYDYKKGYRFSTYATWWIKQAVTRSIADQSRTIRIPVHMNE--VISK 132 Query: 139 LRRLKGHLQAITDNN--------LKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LNA 188 + R K L+ D + I + NVS+ V S+ + +E L Sbjct: 133 MIRTKKKLEQELDREPTEEEIAETAEISIEKIKRIYNVSQDPV-SLETPVGENEDTILQN 191 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 I+ D + + EQ+L + L+ +S L+PRE RI RL Sbjct: 192 FISD---------DRYLPEDKVTEQML---------GDTLSNVLSTLSPREERIV---RL 230 Query: 249 QENPV------TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + V TLE + EF ++RER+RQIEARA +K++ Sbjct: 231 RYGLVGDGESRTLEEIGREFNLTRERIRQIEARAIRKLR 269 >gi|187764347|gb|ACD36026.1| RNA polymerase sigma factor [Pseudomonas fluorescens] Length = 322 Score = 115 bits (287), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 144/277 (51%), Gaps = 27/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 60 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 118 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 119 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 177 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + L D+ PE++ + +K ++ +N R+ G +S L+++ Sbjct: 178 LRAAR-ELTHKLDHEPSPEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDT 236 Query: 193 SDKNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + L+ D D E + L E +++ R ++ R + R E+ Sbjct: 237 LTDDRPTDPCELLQDDDLSESIDQWLTELTDKQ--REVVIRRFGL------RGHESS--- 285 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + E ++RERVRQI+ A K+++E ++K Sbjct: 286 ----TLEEVGQEIGLTRERVRQIQVEALKRLREILEK 318 >gi|56421017|ref|YP_148335.1| RNA polymerase sigma factor RpoD [Geobacillus kaustophilus HTA426] gi|261417657|ref|YP_003251339.1| RNA polymerase sigma factor RpoD [Geobacillus sp. Y412MC61] gi|297529352|ref|YP_003670627.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. C56-T3] gi|319767537|ref|YP_004133038.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y412MC52] gi|56380859|dbj|BAD76767.1| DNA-directed RNA polymerase major sigma-43 factor (sigma-A) [Geobacillus kaustophilus HTA426] gi|261374114|gb|ACX76857.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y412MC61] gi|297252604|gb|ADI26050.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. C56-T3] gi|317112403|gb|ADU94895.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y412MC52] Length = 375 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 137/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVPLLSAEEEIELAKRI-EQGDEEAKRRLTEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPTPEEIAEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 284 DFIEDQDATSPS-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 361 >gi|257487049|ref|ZP_05641090.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tabaci ATCC 11528] gi|320323089|gb|EFW79178.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. glycinea str. B076] gi|320329639|gb|EFW85628.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. glycinea str. race 4] gi|330878042|gb|EGH12191.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. glycinea str. race 4] gi|330985141|gb|EGH83244.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. lachrymans str. M301315] gi|331009312|gb|EGH89368.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|167037157|ref|YP_001664735.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167039957|ref|YP_001662942.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter sp. X514] gi|256751255|ref|ZP_05492135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus CCSD1] gi|300915505|ref|ZP_07132817.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter sp. X561] gi|307266219|ref|ZP_07547761.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307724719|ref|YP_003904470.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermoanaerobacter sp. X513] gi|320115576|ref|YP_004185735.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|326390577|ref|ZP_08212133.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus JW 200] gi|166854197|gb|ABY92606.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermoanaerobacter sp. X514] gi|166855991|gb|ABY94399.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256749810|gb|EEU62834.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus CCSD1] gi|300888457|gb|EFK83607.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter sp. X561] gi|306918749|gb|EFN48981.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307581780|gb|ADN55179.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter sp. X513] gi|319928667|gb|ADV79352.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|325993402|gb|EGD51838.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus JW 200] Length = 357 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 139/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 91 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLIEANLRLVVSIAKRYVGRGMLFLDL 149 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 150 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 207 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L PE+ +AK++ + E +V + ++A E ++ ++ S Sbjct: 208 LIRVQRQLLQELGREPTPEE---LAKEMGMPEEKVREI-MKIA-QEPVSLETPIGEEEDS 262 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ + K + L + L PRE ++ R ++ TLE Sbjct: 263 HLGDFIPDEDAPAPAEAAAFTMLKEQ---LMDVLDTLTPREEKVLRLRFGLDDGRARTLE 319 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 320 EVGKEFNVTRERIRQIEAKALRKLR 344 >gi|6010736|gb|AAF01234.1|AF184103_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 330 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 139/277 (50%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++ ERVRQI+ ++++E +Q Q Sbjct: 286 --ATLEDVGREIGLTCERVRQIQVEGLRRLREILQTQ 320 >gi|330968927|gb|EGH68993.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aceris str. M302273PT] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|304312494|ref|YP_003812092.1| RNA sigma factor RpoS [gamma proteobacterium HdN1] gi|301798227|emb|CBL46449.1| RNA sigma factor RpoS [gamma proteobacterium HdN1] Length = 342 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 144/272 (52%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+R G+ A R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLNEIGFSPLLTPEEEVYYARRAL-RGNADARKRMIESNLRLVVKIARRYVNRGLSLLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 190 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ PE++ A+ K ++ +N R++ +S SDK+ Sbjct: 191 LRAARELTQKL-DHEPTPEEISALLDKPLEDVKRMLGLNERISSVDSPVGF--DSDKS-- 245 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV---TL 255 D + + L++ + KN + + P ++R ARR TL Sbjct: 246 -LLDTIADTKNTDPAELLQDADLKNSIDYWLDQL----PGKQREVIARRFGLRGFEMSTL 300 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E + E ++RERVRQI+ A K++++ ++KQ Sbjct: 301 EEVGREIGLTRERVRQIQVEALKRLRDLLEKQ 332 >gi|55821465|ref|YP_139907.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus LMG 18311] gi|55737450|gb|AAV61092.1| DNA directed RNA polymerase sigma 42 protein [Streptococcus thermophilus LMG 18311] Length = 369 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 143/269 (53%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E+GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLSNEEEKKLAIAV-ENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|296387874|ref|ZP_06877349.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PAb1] Length = 334 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 144/277 (51%), Gaps = 27/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + L D+ PE++ + +K ++ +N R+ G +S L+++ Sbjct: 184 LRAAR-ELTHKLDHEPSPEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDT 242 Query: 193 SDKNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + L+ D D E + L E +++ R ++ R + R E+ Sbjct: 243 LTDDRPTDPCELLQDDDLSESIDQWLTELTDKQ--REVVIRRFGL------RGHESS--- 291 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + E ++RERVRQI+ A K+++E ++K Sbjct: 292 ----TLEEVGQEIGLTRERVRQIQVEALKRLREILEK 324 >gi|92114749|ref|YP_574677.1| sigma 28 (flagella/sporulation) [Chromohalobacter salexigens DSM 3043] gi|91797839|gb|ABE59978.1| RNA polymerase, sigma 38 subunit, RpoS [Chromohalobacter salexigens DSM 3043] Length = 325 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/280 (31%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE V R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLNEIGFSPLLTPEEE-VHYGRLAQKGDPAGRQRMIESNLRLVVKIARRYLNRGLSLLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ E++ K + +++ +N R++ G ES LI++ Sbjct: 175 LRAARELTQRL-DHEATAEEIAEFLDKPVGTVKKMLGLNERVSSVDYPMGGESDKPLIDT 233 Query: 193 -SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT----RSMSVLNPRERRIFEARR 247 +D+N + G E +L+ + +++ + L + M V+ R F R Sbjct: 234 LADENEA-----------GPESLLVGNDVKQHVDDWLAELTDKQMEVVVRR----FGLR- 277 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ A KK++ ++KQ Sbjct: 278 -GHEAATLEEVGEEIGLTRERVRQIQVEALKKLRRVLEKQ 316 >gi|391964|gb|AAA03294.1| RNA polymerase sigma factor [Shigella flexneri] Length = 362 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 142/277 (51%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGKIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF- 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ ++ + Sbjct: 132 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 191 Query: 138 -NLRRLKGHLQ------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +R L L I + KP V+ +LN + S++ L GD L Sbjct: 192 RTVRELSHKLDYEPSAVEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 248 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R ++ R +L +EA Sbjct: 249 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVIARRFGLLG------YEA----- 297 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ + ++++E +Q Q Sbjct: 298 --ATLEDVGREIGLTRERVRQIQVQGLRRLREILQTQ 332 >gi|297544972|ref|YP_003677274.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842747|gb|ADH61263.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 357 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 139/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 91 YLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLIEANLRLVVSIAKRYVGRGMLFLDL 149 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 150 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 207 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L PE+ +AK++ + E +V + ++A E ++ ++ S Sbjct: 208 LIRVQRQLLQELGREPTPEE---LAKEMGMPEEKVREI-MKIA-QEPVSLETPIGEEEDS 262 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ + K + L + L PRE ++ R ++ TLE Sbjct: 263 HLGDFIPDEDAPAPAEAAAFTMLKEQ---LMDVLDTLTPREEKVLRLRFGLDDGRARTLE 319 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 320 EVGKEFNVTRERIRQIEAKALRKLR 344 >gi|15598818|ref|NP_252312.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PAO1] gi|116051619|ref|YP_789542.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa UCBPP-PA14] gi|218890153|ref|YP_002439017.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa LESB58] gi|254242320|ref|ZP_04935642.1| sigma factor RpoS [Pseudomonas aeruginosa 2192] gi|1173167|sp|P45684|RPOS_PSEAE RecName: Full=RNA polymerase sigma factor rpoS gi|9949780|gb|AAG07010.1|AE004782_8 sigma factor RpoS [Pseudomonas aeruginosa PAO1] gi|440378|dbj|BAA05131.1| RNA polymerase principal sigma factor [Pseudomonas aeruginosa] gi|52632371|gb|AAU85546.1| RNA polymerase sigma factor [Pseudomonas sp. M18] gi|115586840|gb|ABJ12855.1| sigma factor RpoS [Pseudomonas aeruginosa UCBPP-PA14] gi|126195698|gb|EAZ59761.1| sigma factor RpoS [Pseudomonas aeruginosa 2192] gi|218770376|emb|CAW26141.1| sigma factor RpoS [Pseudomonas aeruginosa LESB58] Length = 334 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 143/277 (51%), Gaps = 27/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + L D+ PE++ + +K ++ +N R+ G +S L+++ Sbjct: 184 LRAAR-ELTHKLDHEPSPEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDT 242 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQ 249 + L+ D D E + + ++ L ++R + R R Sbjct: 243 LTDDRPTDPCELLQDDDLSESI--------------DQWLTELTDKQREVVIRRFGLRGH 288 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ TLE + E ++RERVRQI+ A K+++E ++K Sbjct: 289 ES-STLEEVGQEIGLTRERVRQIQVEALKRLREILEK 324 >gi|326791438|ref|YP_004309259.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium lentocellum DSM 5427] gi|326542202|gb|ADZ84061.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium lentocellum DSM 5427] Length = 363 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 83/264 (31%), Positives = 139/264 (52%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E +LA+R ++ GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 97 YLKEIGKVPLLSAEQEIILAQRMQD-GDQEAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 155 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 156 IQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 213 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + +PE+ IAK++++ S+V + SL I ++ S Sbjct: 214 LMRVSRQLLQELGRDPQPEE---IAKRMDMPVSKVREIMKISQEPVSLETPI--GEEEDS 268 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D V E + L + L RE+++ R ++ TLE Sbjct: 269 HLGDFI---PDEDIPVPAEAAAFTLLKEQLIEVLDTLTEREQKVLRLRFGLDDGRARTLE 325 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + EF V+RER+RQIEA+A +K+ Sbjct: 326 EVGKEFSVTRERIRQIEAKALRKL 349 >gi|54310169|ref|YP_131189.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum SS9] gi|46914610|emb|CAG21387.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum SS9] Length = 342 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 88/272 (32%), Positives = 147/272 (54%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 70 YLGEIGFSPLLTAEEEVLYARRAL-RGDEIARKRMIESNLRLVVKISRRYSNRGLALLDL 128 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 129 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 187 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E IA KL E V +N L +E ++++ N +S Sbjct: 188 LRTARELAQKL-DHEPTAED---IALKL---EKPVDDVNRMLRLNERVSSVDNPIGGDSE 240 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 + ++ D G +++ + +N + + LNP++R + ARR L TL Sbjct: 241 KALLDIIPDEKGGSPESSTQDD--DIKNSIVHWLQELNPKQREVL-ARRFGLLGYEASTL 297 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E++ E ++RERVRQI+ +++++ + Q Sbjct: 298 EDVGREIGLTRERVRQIQVEGLRRLRDMLTHQ 329 >gi|319955596|ref|YP_004166863.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Cellulophaga algicola DSM 14237] gi|319424256|gb|ADV51365.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga algicola DSM 14237] Length = 287 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 88/286 (30%), Positives = 148/286 (51%), Gaps = 49/286 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I KI ++ EE LA+R RE GD A +L T++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKIDLITANEEVDLAQRIRE-GDQLALEKLTTANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ A+ Q I+R L KIG+ Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQAILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 K+ F L + + +P IAK+L ++ SEV +SM+ Sbjct: 136 NKIKKAFSYLEQA----------HERPPSAEEIAKELEMTVSEVQQSLKNTGRHVSMDAP 185 Query: 180 L--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L D +L +I S + + Q Q+ + IE + R++ L+ Sbjct: 186 LKEGEDSNLYNVIGSGESPNPDKQLL-------QQSLNIE----------INRALETLSQ 228 Query: 238 RERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RE + + ++ +TLE + F+++RERVRQI +A +K++ Sbjct: 229 READVVKLYYGIGDQHSMTLEEIGQTFDLTRERVRQIREKAIRKLK 274 >gi|323484891|ref|ZP_08090246.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323693741|ref|ZP_08107938.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323401772|gb|EGA94115.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323502192|gb|EGB18057.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 374 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 141/276 (51%), Gaps = 23/276 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LAKR E GD +A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGTVPLLSADEELRLAKRKAE-GDDNAKERLIEANLRLVVSIAKRYTGRGMSFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ + Sbjct: 168 VQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPV-----HMVET 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + ++ + +T V +++ L +SE +V+ + SL I D S Sbjct: 223 INKMSKMQRKLTLELGYEPSVAELSEALEMSEDKVMEIMQIAREPASLETPIGEED--DS 280 Query: 199 QWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D+ +V E V++ R + + L RER++ R E+ Sbjct: 281 NLGDFVADSNVVTPEGNVESVML--------REHIDALLGDLKERERQVIVLRFGLEDGH 332 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 333 PRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 368 >gi|66044622|ref|YP_234463.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. syringae B728a] gi|289675304|ref|ZP_06496194.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. syringae FF5] gi|6644290|gb|AAF20993.1|AF208000_1 RpoS [Pseudomonas syringae pv. syringae] gi|24415296|gb|AAN59882.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aptata] gi|24415299|gb|AAN59884.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aptata] gi|63255329|gb|AAY36425.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Pseudomonas syringae pv. syringae B728a] gi|330896091|gb|EGH28312.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. japonica str. M301072PT] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|28868771|ref|NP_791390.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|301383956|ref|ZP_07232374.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tomato Max13] gi|302064158|ref|ZP_07255699.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tomato K40] gi|302134085|ref|ZP_07260075.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tomato NCPPB 1108] gi|3132688|gb|AAC16326.1| sigma factor [Pseudomonas syringae pv. tomato] gi|28852010|gb|AAO55085.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|331016398|gb|EGH96454.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|308048570|ref|YP_003912136.1| RNA polymerase, sigma 38 subunit, RpoS [Ferrimonas balearica DSM 9799] gi|307630760|gb|ADN75062.1| RNA polymerase, sigma 38 subunit, RpoS [Ferrimonas balearica DSM 9799] Length = 328 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 89/273 (32%), Positives = 148/273 (54%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R + + +R++ S+LRLVVKIA Y GL + ++ Sbjct: 59 YLSEIGFSPLLTAEEEVYYARRAQRDC-AKSRNRMIESNLRLVVKIARRYNNRGLALLDL 117 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 118 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + L D+ E+ IA KL+ +V M L +E ++++ +S Sbjct: 177 LRTAR-ELAHTLDHEPTAEE---IAMKLDKPVEDVSRM---LKLNEKISSVDTPIGGDSD 229 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARR---LQENPVT 254 + ++ D D +V E + + + N + R + LN ++R + ARR L P T Sbjct: 230 KALLDVIADDD---RVCPEVQAQDDDINGSVVRWLGELNSKQREVL-ARRFGLLGYEPST 285 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE++ E ++RERVRQI+ A ++++E I Q Sbjct: 286 LEDVGREIGLTRERVRQIQVEALRRLRELIGAQ 318 >gi|289626003|ref|ZP_06458957.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289651481|ref|ZP_06482824.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aesculi str. 2250] gi|330868573|gb|EGH03282.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aesculi str. 0893_23] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|88858314|ref|ZP_01132956.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas tunicata D2] gi|88819931|gb|EAR29744.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas tunicata D2] Length = 339 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 86/280 (30%), Positives = 148/280 (52%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE +++ + G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 71 YLGEIGFSPLLSAEEEVYFSRKSLK-GCEASRKRMIESNLRLVVKIARRYNNRGLALLDL 129 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 130 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 188 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ + K L ++E ++ S++ + GD S AL+ Sbjct: 189 LRTARELTQKL-DHEPTAEEIAEKLDRPVEDVTKMLRLNE-KITSVDTPIGGD-SEKALL 245 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 + + + D D +E ++ EE LN ++R + ARR Sbjct: 246 DILADEKGGGPESCIQDEDIRENIVHWLEE--------------LNAKQREVL-ARRFGL 290 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L P TLE++ E ++RERVRQI+ A ++++E + Q Sbjct: 291 LGYEPSTLEDVGKEIGLTRERVRQIQVEALRRLKEILMHQ 330 >gi|160941160|ref|ZP_02088497.1| hypothetical protein CLOBOL_06053 [Clostridium bolteae ATCC BAA-613] gi|158435721|gb|EDP13488.1| hypothetical protein CLOBOL_06053 [Clostridium bolteae ATCC BAA-613] Length = 381 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 146/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LA+R + GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGTVPLLTADEELDLAQR-KADGDEFAKERLIEANLRLVVSIAKRYTGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ T N Sbjct: 175 VQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 234 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L G+ ++T+ +A+ L+++E +V+ + SL Sbjct: 235 KMQRKLTLEL----GYEPSVTE----------LAEALDMTEDKVMEIMQIAREPASLETP 280 Query: 190 INSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D S D+ +V E V++ R + + L RER++ Sbjct: 281 IGEED--DSNLGDFVADNNVVTPEGNVESVML--------REHIDALLGDLKERERQVIV 330 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 331 LRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375 >gi|291542495|emb|CBL15605.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Ruminococcus bromii L2-63] Length = 367 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 82/269 (30%), Positives = 136/269 (50%), Gaps = 23/269 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LA R + GD++A RL ++LRLVV IA Y G G+ ++ Sbjct: 100 YLKEIGRVPLLSSDEEINLAIRIAD-GDVAAKQRLSEANLRLVVSIAKRYLGRGMQFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-K 133 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ K Sbjct: 159 IQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVK 218 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 ++ L GH + + + + V +++ E +S+ + +E Sbjct: 219 KVQSQLLHQNGHEPSADEIAAEIDMPVDKVREIMRVAQEPVSLETPIGEEE--------- 269 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 S D++ + R L+ +S L PRE ++ + R E+ Sbjct: 270 ---DSHLGDFIPD---NDAPAPADAASHTMLREQLSDVLSTLTPREAKVLKLRFGLEDGR 323 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + EF V+RER+RQIEA+A +K+ Sbjct: 324 SRTLEEVGKEFNVTRERIRQIEAKALRKL 352 >gi|167772125|ref|ZP_02444178.1| hypothetical protein ANACOL_03499 [Anaerotruncus colihominis DSM 17241] gi|167665923|gb|EDS10053.1| hypothetical protein ANACOL_03499 [Anaerotruncus colihominis DSM 17241] Length = 361 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/272 (30%), Positives = 136/272 (50%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LA R + GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGRVPLLSADEEIDLAVRMAQ-GDIDARKRLSEANLRLVVSIAKRYVGRGMQFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-K 133 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ K Sbjct: 154 IQEGNLGLIKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVK 213 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LNALIN 191 ++ L GH + + + + V +++ E +S+ + +E L I Sbjct: 214 KVSSLLLHKNGHEPTAEEISAELDMPVDKVREIMRVAQEPVSLETPIGEEEDSHLGDFIP 273 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + D +L R L+ + L PRE ++ R E+ Sbjct: 274 DEDAPAP--------DTAASHTLL---------REQLSEVLQTLTPREEKVLRLRFGLED 316 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 317 GRSRTLEEVGREFNVTRERIRQIEAKALRKLR 348 >gi|330894625|gb|EGH27286.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. mori str. 301020] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|302187929|ref|ZP_07264602.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. syringae 642] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|312863004|ref|ZP_07723242.1| RNA polymerase sigma factor RpoD [Streptococcus vestibularis F0396] gi|311100540|gb|EFQ58745.1| RNA polymerase sigma factor RpoD [Streptococcus vestibularis F0396] Length = 369 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 89/273 (32%), Positives = 146/273 (53%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E+GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLSNEEEKELAIAV-ENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + TLE++ F V+RER+RQIEA+A +K++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|330872696|gb|EGH06845.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 335 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTVERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|239626154|ref|ZP_04669185.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239520384|gb|EEQ60250.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 381 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 146/285 (51%), Gaps = 41/285 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LA+R + GD A RL+ ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGTVPLLTADEELNLAQR-KADGDDYAKERLIEANLRLVVSIAKRYTGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ T N Sbjct: 175 VQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMS 234 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L G+ ++T+ +A+ L+++E +V+ + SL Sbjct: 235 KMQRKLTLEL----GYEPSVTE----------LAEALDMTEDKVMEIMQIAREPASLETP 280 Query: 190 INSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D S D+ +V E V++ R + + L RER++ Sbjct: 281 IGEED--DSNLGDFVADNNVVTPEGNVESVML--------REHIDALLGDLKERERQVIV 330 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R E+ P TLE + EF V+RER+RQIEA+A +K++ ++ + Sbjct: 331 LRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375 >gi|55823393|ref|YP_141834.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus CNRZ1066] gi|116628187|ref|YP_820806.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus LMD-9] gi|55739378|gb|AAV63019.1| DNA directed RNA polymerase sigma 42 protein [Streptococcus thermophilus CNRZ1066] gi|116101464|gb|ABJ66610.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus thermophilus LMD-9] gi|312278801|gb|ADQ63458.1| RNA polymerase sigma factor [Streptococcus thermophilus ND03] Length = 369 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 143/269 (53%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E+GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLSNEEEKELAIAV-ENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|289578595|ref|YP_003477222.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] gi|289528308|gb|ADD02660.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] Length = 273 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 14/269 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y+ EI IP+L +EE L KR E GD A R + S+LRLVV IA GY G G+ Sbjct: 4 IGMYLREISHIPLLTPEEENELLKRI-EEGDEEAKKRFIESNLRLVVSIAKGYVGKGISF 62 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV++FD +G++ +TY+ WWIK + I ++I + Sbjct: 63 PDLIQEGNLGLLKAVERFDYRKGYKFSTYATWWIKQTITRAIADQARTIRIPVHMVES-- 120 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 N + LK Q + +P + IA+++N+SE + + + G SL + D+ Sbjct: 121 -VN-KLLKIQKQFLQKLGREP-SIEEIAEEMNISEKKAKVLLEIVQGIVSLEEPVG-EDE 176 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV- 253 N ++ D + + V E+ E + + +S L PRE ++ R L + + Sbjct: 177 NGKLGD--IIADKEAVDPV--EELESMLLKEQVDEVLSTLAPREEKVLRLRFGLDDGKIR 232 Query: 254 TLENLSSEF-EVSRERVRQIEARAFKKVQ 281 TLE + E +SRERVRQIE +A K+++ Sbjct: 233 TLEEVGKELGGISRERVRQIETKALKRLR 261 >gi|120553862|ref|YP_958213.1| RpoD family RNA polymerase sigma factor [Marinobacter aquaeolei VT8] gi|120323711|gb|ABM18026.1| RNA polymerase, sigma 38 subunit, RpoS [Marinobacter aquaeolei VT8] Length = 332 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 150/278 (53%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+ R+ G+ S R++ S+LRLVVKIA Y GL + ++ Sbjct: 64 YLNEIGFSPLLTPEEEVYFARLARK-GEESGRKRMIESNLRLVVKIARRYVNRGLTLLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 123 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNLY 181 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ E++ + K ++ +N R+A G S +L+++ Sbjct: 182 LRAARELTQKL-DHEPTAEEIARMVDKPVDDVKRMLGLNERVASMDTPIGAGSDKSLMDT 240 Query: 193 -SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE 250 +D+ +S D L + N + L + + L+ +++ + R L+ Sbjct: 241 VADEGASDPADLL---------------QDNNMCSCLEKWIDQLSDKQQEVLSRRFGLRG 285 Query: 251 NPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P+ TLE + E ++RERVRQI+ A ++++E ++K+ Sbjct: 286 YPISTLEEVGQEIGLTRERVRQIQVEALRRLREILEKE 323 >gi|311747140|ref|ZP_07720925.1| RNA polymerase sigma-70 factor [Algoriphagus sp. PR1] gi|126578848|gb|EAZ83012.1| RNA polymerase sigma-70 factor [Algoriphagus sp. PR1] Length = 287 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 82/274 (29%), Positives = 152/274 (55%), Gaps = 21/274 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L EE VLAKR RE GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLLTADEEVVLAKRIRE-GDQLALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 GDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNRVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + L+ + PE+ +A+ L V+ +EV+ +++G S++A + Sbjct: 135 LNKISKTFSELEQRFEREPSPEE---LAEVLEVTANEVVD-TMKISGRHVSMDAPFVQGE 190 Query: 195 KNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--Q 249 +NS V ++DG E+ L+ RK + R++S L RE + Sbjct: 191 ENSL----LDVLENDGDEKPDDGLMNDSLRKE----VQRALSTLTQREADVITLYFGLNG 242 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E+ +TLE + +F ++RERVRQI+ +A ++++ + Sbjct: 243 EHAMTLEEIGEKFNLTRERVRQIKEKAIRRLRHT 276 >gi|212638699|ref|YP_002315219.1| RNA polymerase sigma factor RpoD [Anoxybacillus flavithermus WK1] gi|212560179|gb|ACJ33234.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Anoxybacillus flavithermus WK1] Length = 372 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLSAEEEIELAKRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 225 RVQRQLLQDLGREPSPEEIAEEMDLTPEKVREILK----IAQEPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 281 DFIEDQDATSPA-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 323 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 324 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 359 >gi|288940519|ref|YP_003442759.1| RNA polymerase sigma-70 subunit RpoD subfamily [Allochromatium vinosum DSM 180] gi|288895891|gb|ADC61727.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Allochromatium vinosum DSM 180] Length = 338 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 147/275 (53%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI + +L +EE A R + GD +A R++ +LRLVVKIA Y GLP+ ++ Sbjct: 70 YLNEIGESRLLTAEEEIRFA-RLAQAGDNAARQRMIVCNLRLVVKIARRYLNRGLPLLDL 128 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ V++ + ++ Sbjct: 129 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTVRLPIHVVKEINIYL 188 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 R L D++ E IA+ L+ +EV R+ G LN I S D Sbjct: 189 KASR---QLAQSLDHDPTSED---IAQLLDRPINEV----KRMLG---LNERITSVDTPY 235 Query: 198 SQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENP 252 S+ D + D D E+ + + + + +LN ++R + E R EN Sbjct: 236 SKDADKPLVDMLQDDGSSDPTERIQDDDIHVNIEHWLGLLNDKQREVVERRFGLHGHENS 295 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE+++ E V+RERVRQI+ A +++++ ++ + Sbjct: 296 -TLESVARELGVTRERVRQIQMDALRRLRDILESE 329 >gi|73541783|ref|YP_296303.1| RNA polymerase sigma factor RpoS [Ralstonia eutropha JMP134] gi|72119196|gb|AAZ61459.1| Sigma-70 region 1.2 [Ralstonia eutropha JMP134] Length = 391 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 141/274 (51%), Gaps = 17/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE + ++ GD SA ++ +LRLVV IA GY G+P+ ++ Sbjct: 122 YLNRISIKPLLSAPEELHFSTLAKD-GDFSARQVMIERNLRLVVSIAKGYLNRGVPLLDL 180 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 181 IEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQ 238 Query: 139 LRRLKGHLQ-AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN- 196 + R K HL+ TD + + IA L + EV + LA +E +L D + Sbjct: 239 VLRAKRHLEKGGTDG--RDASLEDIAHLLGKTPDEVQDV---LALNEHTTSLDTPFDLDP 293 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN---PV 253 S D+L +H+ + E + ++ ++ L+ + R + E RR N P Sbjct: 294 GSSLLDFLSDEHNAAPDQEVAHRELE---GLMKLWLARLSEKHRYVVE-RRFGLNHIEPA 349 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE L+ E ++RERVRQI+ A K++ Q Sbjct: 350 TLEELAEEMGLTRERVRQIQQEALVKLKRHFASQ 383 >gi|313109026|ref|ZP_07794999.1| sigma factor RpoS [Pseudomonas aeruginosa 39016] gi|310881501|gb|EFQ40095.1| sigma factor RpoS [Pseudomonas aeruginosa 39016] Length = 344 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 144/277 (51%), Gaps = 27/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 76 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 134 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 135 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 193 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + L D+ PE++ + +K ++ +N R+ G +S L+++ Sbjct: 194 LRAAR-ELTHKLDHEPSPEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDT 252 Query: 193 SDKNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + L+ D D E + L E +++ R ++ R + R E+ Sbjct: 253 LTDDRPTDPCELLQDDDLSESIDQWLTELTDKQ--REVVIRRFGL------RGHESS--- 301 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + E ++RERVRQI+ A K+++E ++K Sbjct: 302 ----TLEEVGQEIGLTRERVRQIQVEALKRLREILEK 334 >gi|88705821|ref|ZP_01103530.1| RNA polymerase sigma-38 subunit [Congregibacter litoralis KT71] gi|88699892|gb|EAQ97002.1| RNA polymerase sigma-38 subunit [Congregibacter litoralis KT71] Length = 331 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 91/288 (31%), Positives = 149/288 (51%), Gaps = 25/288 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI +P+L EE A R + GD +A R++ S+LRLVVKIA Y G+ + ++ Sbjct: 62 YLNEIGFVPLLTADEEKHYA-RLTQKGDEAARKRMIESNLRLVVKIARRYLHRGMSLLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 121 IEEGNLGLMRAVEKFDPERGFRFSTYATWWIRQTIERGIMNQARTIRLP--------IHV 172 Query: 139 LRRLKGHLQAITD--NNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 ++ L G L+A + L E IA + + S EV RL G LN ++S D Sbjct: 173 VKDLNGCLRAARELTQQLDHEPTTQEIASRTHKSAKEV----SRLMG---LNERVSSVDA 225 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEAR--RLQEN 251 D V + + + E+ +N + + ++ L ++R + R L Sbjct: 226 PLGPDSDSSVVETIADDHLCDPSEQLQNDDVHDSVADWLNELTDKQREVVMRRFGLLGHE 285 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQK 299 TLE + E ++RERVRQI+ A K+++ +++Q S+ LLQ+ Sbjct: 286 SSTLEEVGQEIGLTRERVRQIQVEALKRLRRILERQG--LSADALLQR 331 >gi|125717671|ref|YP_001034804.1| RNA polymerase sigma factor RpoD [Streptococcus sanguinis SK36] gi|125497588|gb|ABN44254.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32), putative [Streptococcus sanguinis SK36] gi|324990502|gb|EGC22438.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK353] gi|324995458|gb|EGC27370.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK678] gi|325688386|gb|EGD30405.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK72] gi|325690016|gb|EGD32020.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK115] gi|325693940|gb|EGD35858.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK150] gi|327461509|gb|EGF07840.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1] gi|327468857|gb|EGF14329.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK330] gi|327489365|gb|EGF21158.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1058] gi|332361594|gb|EGJ39398.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1056] gi|332363116|gb|EGJ40903.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK355] gi|332365901|gb|EGJ43657.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1059] Length = 370 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLSNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|325662013|ref|ZP_08150632.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 4_1_37FAA] gi|331085863|ref|ZP_08334946.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 9_1_43BFAA] gi|325471676|gb|EGC74895.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 4_1_37FAA] gi|330406786|gb|EGG86291.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 9_1_43BFAA] Length = 370 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 90/269 (33%), Positives = 140/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA+R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLSAEEEIELARRM-EEGDEDAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 163 IQEGNLGLIKAVEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 221 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +R + LQ + L PE+ IAK+L++ V + SL I + Sbjct: 222 ----IRVSRQLLQELGREPL-PEE---IAKELDMPVDRVREILKISQEPVSLETPI--GE 271 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D V E + L +S L RE+++ R + Sbjct: 272 EEDSHLGDFI---QDDNVPVPAEAAAATLLKEQLDEVLSTLTDREQKVLRLRFGMNDGRA 328 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 329 RTLEEVGKEFDVTRERIRQIEAKALRKLR 357 >gi|228476995|ref|ZP_04061633.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius SK126] gi|322516348|ref|ZP_08069273.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus vestibularis ATCC 49124] gi|228251014|gb|EEK10185.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius SK126] gi|322125081|gb|EFX96474.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus vestibularis ATCC 49124] Length = 369 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 143/269 (53%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E+GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLSNEEEKELAIAV-ENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|330964173|gb|EGH64433.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. actinidiae str. M302091] Length = 335 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE + + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEDIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|294338839|emb|CAZ87173.1| RNA polymerase sigma factor rpoS [Thiomonas sp. 3As] Length = 351 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 142/278 (51%), Gaps = 21/278 (7%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 +G L Y++ IR P+ ++E+ A R + GD A +V +LRLVV IA Y G Sbjct: 74 SGVSALQAYLNHIRAKPLFTPEQEFETATRAK-AGDFEARQAMVEHNLRLVVSIAKAYVG 132 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G + +++ EGN+GL+ A++KF+PERGFR +TY+ WWI+ +++ +++ +++ Sbjct: 133 RGAALGDLIEEGNLGLIHAIEKFEPERGFRFSTYASWWIRQSIERALMQQVRTIRL--PV 190 Query: 131 NQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + R + R + HL+ D E V A+ L S EV + SL+A Sbjct: 191 HVIRELNQVLRARKHLEQAADYRGQTSDEDVAAL---LGRSTEEVTDLLALAEQPTSLDA 247 Query: 189 L--INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEA 245 L S + + Q+ D Q + +E++ + L S + L RER + EA Sbjct: 248 LRETQSGESYADQFAD--------QNALSMEEQTQTREVEALVDSWVGELAEREREVIEA 299 Query: 246 R-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + TLE+L+ ++RERVRQI+ + K++ Sbjct: 300 RFGLHGRELETLESLAQRLGLTRERVRQIQQESLLKLK 337 >gi|288555754|ref|YP_003427689.1| RNA polymerase sigma factor RpoD [Bacillus pseudofirmus OF4] gi|288546914|gb|ADC50797.1| RNA polymerase sigma factor SigD [Bacillus pseudofirmus OF4] Length = 372 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 90/275 (32%), Positives = 137/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLSAQEEIELAKRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD E+G++ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLIKAVEKFDYEKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L + R + + L PE+V I K E +S+ + D L Sbjct: 225 RVQRQLLQDFGREPTPEEVAEEMELTPEKVREILK----IAQEPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+ + D Y+ + E VL +R+ N+L + + R R Sbjct: 281 DFIE--DQEALAPSDAAAYELLKEQLEDVLDTLTDREE--NVLRLRFGLDDGRTR----- 331 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 --------TLEEVGKVFGVTRERIRQIEAKALRKL 358 >gi|323352412|ref|ZP_08087547.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis VMC66] gi|322121844|gb|EFX93585.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis VMC66] gi|325696737|gb|EGD38625.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK160] gi|328945882|gb|EGG40032.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1087] Length = 370 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLSNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|119773417|ref|YP_926157.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Shewanella amazonensis SB2B] gi|119765917|gb|ABL98487.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Shewanella amazonensis SB2B] Length = 969 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 135/238 (56%), Gaps = 20/238 (8%) Query: 46 DLSAA-HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 D+SAA ++T +LRLV+ +A Y G GL ++++V EGNIGLM+AV+KFD +GF+ +TY Sbjct: 729 DISAARDEMITFNLRLVLSVANKYLGRGLELADLVQEGNIGLMKAVEKFDHRKGFKFSTY 788 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I +++I N+ +L +L + +T + ++ ++ Sbjct: 789 ATWWIRQAITRAIADQARIIRIPVHVNE-----SLNKLISASKVLTHKFGRGPKISELSL 843 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L++ E++V ++ L + + +D N++ + DW E+ +I+ + N Sbjct: 844 ILSMPETKVENLKQILVMEP-----VAEADHNTNGYVDWAAM---SPEEEIIDDDRDTNI 895 Query: 225 RNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +++L L +E+++ E R +TLE + +F+V+RER+RQIEA++ KK+ Sbjct: 896 KDLLKG----LTDKEKKVLELRFGINAATELTLEEVGQQFDVTRERIRQIEAKSLKKL 949 >gi|291563082|emb|CBL41898.1| RNA polymerase, sigma 70 subunit, RpoD [butyrate-producing bacterium SS3/4] Length = 374 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 89/270 (32%), Positives = 143/270 (52%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LAK+ E GD A +L S+LRLVV IA Y G G+ + ++ Sbjct: 107 YLKEIGKVPLLSPDEEIELAKKI-ELGDEEAKKKLAESNLRLVVSIAKRYAGRGMQLLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N R Sbjct: 166 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--R 223 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 L R+L L PE+ +AK+L++ V + +++ D SL I Sbjct: 224 LVRTQRQLVQKLG----REATPEE---LAKELDMPVERVREI-MKISQDPVSLETPIG-- 273 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 ++ S D++ D +V + L +S L RE+++ R ++ Sbjct: 274 EEEDSHLGDFI---QDNNVEVPADAATYTLLHEQLMDVLSTLTEREQKVLRLRFGLDDGR 330 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + +F V+RER+RQIEA+A +K++ Sbjct: 331 PRTLEEVGRQFNVTRERIRQIEAKALRKLR 360 >gi|296134902|ref|YP_003642144.1| RNA polymerase sigma factor RpoS [Thiomonas intermedia K12] gi|295795024|gb|ADG29814.1| RNA polymerase sigma factor RpoS [Thiomonas intermedia K12] Length = 351 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 142/278 (51%), Gaps = 21/278 (7%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 +G L Y++ IR P+ ++E+ A R + GD A +V +LRLVV IA Y G Sbjct: 74 SGVSALQSYLNHIRAKPLFTPEQEFETATRAK-AGDFEARQAMVEHNLRLVVSIAKAYVG 132 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G + +++ EGN+GL+ A++KF+PERGFR +TY+ WWI+ +++ +++ +++ Sbjct: 133 RGAALGDLIEEGNLGLIHAIEKFEPERGFRFSTYASWWIRQSIERALMQQVRTIRL--PV 190 Query: 131 NQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + R + R + HL+ D E V A+ L S EV + SL+A Sbjct: 191 HVIRELNQVLRARKHLEQAADYRGQTSDEDVAAL---LGRSTEEVADLLALAEQPTSLDA 247 Query: 189 L--INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEA 245 L S + + Q+ D Q + +E++ + L S + L RER + EA Sbjct: 248 LRETQSGESYADQFAD--------QNALSMEEQTQTREVEALVDSWVGELAEREREVIEA 299 Query: 246 R-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + TLE+L+ ++RERVRQI+ + K++ Sbjct: 300 RFGLHGRELETLESLAQRLGLTRERVRQIQQESLLKLK 337 >gi|206895369|ref|YP_002247042.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Coprothermobacter proteolyticus DSM 5265] gi|206737986|gb|ACI17064.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Coprothermobacter proteolyticus DSM 5265] Length = 360 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 93/276 (33%), Positives = 150/276 (54%), Gaps = 36/276 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+H++ + +L ++E +LA+R E D +A L+ +LRLV+ IA Y GL E+ Sbjct: 91 YLHDVGQYDLLTAEQERILAQRI-EKNDAAAREELIKRNLRLVISIAKKYTNKGLSFMEL 149 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL++AV+KFD +G++ +TY+ WWIK A+ + A+Q RL Sbjct: 150 IQEGNIGLIKAVEKFDWRKGYKFSTYATWWIKQAITRAL------------ADQSRL--- 194 Query: 139 LRRLKGHLQAITD---------NNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDE--SL 186 +RR ++A N L E V +A+ L SE +V+++ +++ E SL Sbjct: 195 IRRPVHMVEAYHQFQKKLNELYNQLGREPTVQELAEALGFSEDKVLALK-QMSNPEPQSL 253 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 +A I D++ S+ QD++ +G + + RR +L +S LN RER I E R Sbjct: 254 DATI--GDQDDSRVQDFVPDTGEGAADKYFWE---EERRRVLEEVLSTLNKREREIIEMR 308 Query: 247 RLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 + V TLE + + F ++RERVRQIE +A +K+ Sbjct: 309 YGLVDGVEHTLEEVGASFNITRERVRQIETKALRKL 344 >gi|332362696|gb|EGJ40494.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK49] Length = 370 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 89/272 (32%), Positives = 144/272 (52%), Gaps = 29/272 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLSNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 220 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 221 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 271 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 272 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 323 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + TLE++ F V+RER+RQIEA+A +K+ Sbjct: 324 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|331001843|ref|ZP_08325365.1| hypothetical protein HMPREF0491_00227 [Lachnospiraceae oral taxon 107 str. F0167] gi|330412817|gb|EGG92200.1| hypothetical protein HMPREF0491_00227 [Lachnospiraceae oral taxon 107 str. F0167] Length = 389 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 88/286 (30%), Positives = 150/286 (52%), Gaps = 23/286 (8%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDL---SAAHRLVTSHLRLV 61 +++ V+ E + Y+ EI KIP+L +E LAK+ + + AA R+ S+LRLV Sbjct: 105 DLNDYVSIEDPIKMYLKEIGKIPLLNVDDEMDLAKKISDPDESIRKEAAKRMAESNLRLV 164 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V IA Y G G+ + +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I Sbjct: 165 VSIAKRYMGRGMQLLDLIQEGNLGLLRAVEKFDYKKGFKFSTYATWWIRQAITRSIADQA 224 Query: 122 SLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 ++I T N+ L + + L I PE+V AK++N+S +V + Sbjct: 225 RTIRIPVHMVETINR------LIKTQRKLVQILGREPSPEEV---AKEMNISVPKVREIM 275 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 S+ I D++ S D+L D +V + + L + +L Sbjct: 276 SFALEPVSMETPI--GDEDDSHLGDFL---QDYNAKVPVNFAMDVLLHDQLMDVIKLLTE 330 Query: 238 RERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RE+++ R E+ P TLE + F ++RER+RQIEA++ +K++ Sbjct: 331 REQKVILLRFGLEDGKPRTLEEVGKVFGITRERIRQIEAKSLRKLR 376 >gi|324993240|gb|EGC25160.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK405] Length = 370 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLSNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|312867612|ref|ZP_07727818.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis F0405] gi|311096675|gb|EFQ54913.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis F0405] Length = 369 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 89/272 (32%), Positives = 144/272 (52%), Gaps = 29/272 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + TLE++ F V+RER+RQIEA+A +K+ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKL 354 >gi|6175878|gb|AAF05319.1|AF178851_2 sigma factor 38 [Pseudomonas putida] Length = 335 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 83/272 (30%), Positives = 143/272 (52%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ + + ++ ++ Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIPLPIHVVKELNVYS 185 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 R L D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 186 --RAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|310659059|ref|YP_003936780.1| RNA polymerase sigma factor rpod [Clostridium sticklandii DSM 519] gi|308825837|emb|CBH21875.1| RNA polymerase sigma factor RpoD [Clostridium sticklandii] Length = 376 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 145/265 (54%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LA++ +GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 110 YLKEIGKIPLLSAEEEIDLAEKMG-YGDEIAKKKLVEANLRLVVSIAKRYVGRGMLFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 169 IQEGNLGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 226 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + KPE+ +AK++++ E ++ + ++A E ++ ++ S Sbjct: 227 LIRVHRQLLQEYGRDPKPEE---LAKEMDMPEEKIREI-MKIA-QEPVSLETPIGEEEDS 281 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + LN RE+++ + R E+ TLE Sbjct: 282 HLGDFIPDDDAPAPAEAAAYSLLKEQ---LEDVLCTLNEREQKVLKLRFGLEDGRARTLE 338 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF+V+RER+RQIEA+A +K++ Sbjct: 339 EVGKEFDVTRERIRQIEAKALRKLR 363 >gi|322385457|ref|ZP_08059101.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus cristatus ATCC 51100] gi|321270195|gb|EFX53111.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus cristatus ATCC 51100] Length = 370 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLSNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|89072392|ref|ZP_01158971.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] gi|89051924|gb|EAR57376.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] Length = 286 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 89/282 (31%), Positives = 148/282 (52%), Gaps = 21/282 (7%) Query: 13 EIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 EI + R Y+++I P+L K +E + R GD ++ L+ S+LRLVV IA YR Sbjct: 7 EIDVVRLYLNDISNKPLLSKDDE-IQYSRKSLTGDPASKKILIESNLRLVVSIAKKYRAA 65 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 L +S+++ EGNIGLM AV+KFDPE+GFR +TY+ WWIK ++ I +++ + Sbjct: 66 NLSLSDLIDEGNIGLMTAVEKFDPEKGFRFSTYASWWIKQTIERAIHNQNRTIRLPVNIS 125 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 ++ L+ H + + NN +P IA+ LN E+ ++ SL+ I Sbjct: 126 KEINTL----LRTHRELMKLNNNEPTH-EDIAQALNKESKEISALFSNEVNVVSLDQTI- 179 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL---NPRERRIFEARR- 247 D +S +LV D EQ+ E N +M+ + VL N R+R I RR Sbjct: 180 -GDNENSHTIAYLVAD----EQITSPSAEVDN-DDMIKITNLVLNGINKRDREII-CRRF 232 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + P TL+ ++ ++RER+RQ++ ++ ++ S+ ++ Sbjct: 233 GLMGYEPHTLQEVADAVGLTRERIRQLQIKSLNSLKRSLARE 274 >gi|322389216|ref|ZP_08062777.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 903] gi|321144121|gb|EFX39538.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 903] Length = 369 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 89/272 (32%), Positives = 144/272 (52%), Gaps = 29/272 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + TLE++ F V+RER+RQIEA+A +K+ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKL 354 >gi|315223009|ref|ZP_07864888.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus F0211] gi|319939161|ref|ZP_08013525.1| RNA polymerase sigma factor rpoD [Streptococcus anginosus 1_2_62CV] gi|315187959|gb|EFU21695.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus F0211] gi|319812211|gb|EFW08477.1| RNA polymerase sigma factor rpoD [Streptococcus anginosus 1_2_62CV] Length = 370 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLTNEEEQELAVLV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|270157097|ref|ZP_06185754.1| RNA polymerase sigma factor RpoS [Legionella longbeachae D-4968] gi|289164492|ref|YP_003454630.1| RNA polymerase sigma factor RpoS [Legionella longbeachae NSW150] gi|269989122|gb|EEZ95376.1| RNA polymerase sigma factor RpoS [Legionella longbeachae D-4968] gi|288857665|emb|CBJ11508.1| RNA polymerase sigma factor RpoS [Legionella longbeachae NSW150] Length = 341 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 82/275 (29%), Positives = 146/275 (53%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A + GD++A +++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 74 YLSEIGFSPLLSAEEEVHYATLALK-GDVAARKKMIESNLRLVVKISRRYLNRGLPLLDL 132 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM++V+KFDP+RGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 133 IEEGNLGLMKSVEKFDPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 191 Query: 139 LRRLKGHLQAITDNNLKPEQVVAI-------AKKLNVSESEVISMNCRLAGDESLNALIN 191 LR + Q + D+ PE++ + +KL +V S++ + DE+ + L Sbjct: 192 LRAARQLTQKL-DHEPSPEEIAEMVDKPLEDVQKLLGLNDKVTSVDTPIGFDENKSLLDT 250 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D+NS + L ++ + + +N++ ++ R + R FE Sbjct: 251 IPDENSVNPAELLTNENLRLHIESLLDKLTENQQQVIARRFGL------RGFEK------ 298 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E +++RERVRQI+ A K ++ ++K Sbjct: 299 -ATLEDVGKEIDLTRERVRQIQVEALKTLRSLLEK 332 >gi|331082069|ref|ZP_08331197.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 6_1_63FAA] gi|330405664|gb|EGG85194.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 6_1_63FAA] Length = 374 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 145/275 (52%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA+R E GD SA RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGKVPLLSAEEEITLAQRM-EEGDESAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 167 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 133 ---KRLFFNLRRLKGHLQAITDN-NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 ++L L R + H + I + N+ E+V I L +S+ E +S+ + +E + Sbjct: 227 RVSRQLLQELGR-EPHPEEIAEEMNMSVERVREI---LKISQ-EPVSLETPIGEEEDSHL 281 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 D N D + L++++ L + L RE+++ R Sbjct: 282 GDFIQDDNVPVPADAAAF-------TLLKEQ--------LVEVLGTLTEREQKVLRLRFG 326 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 327 LDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 361 >gi|296876770|ref|ZP_06900818.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 15912] gi|296432272|gb|EFH18071.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 15912] Length = 369 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 89/272 (32%), Positives = 144/272 (52%), Gaps = 29/272 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + TLE++ F V+RER+RQIEA+A +K+ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKL 354 >gi|327458597|gb|EGF04945.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1057] Length = 370 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLSNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|299144149|ref|ZP_07037229.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298518634|gb|EFI42373.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 383 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/269 (31%), Positives = 135/269 (50%), Gaps = 23/269 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE +A+R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 117 YLKEIGKIPLLTGDEEIDIAQRM-EVGDEDAKQELAEANLRLVVSIAKRYVGRGMSFLDL 175 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 176 IQEGNLGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 233 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ I K++N+ +V + SL I ++ S Sbjct: 234 LVRVQRQLVQELGRDPLPEE---IGKEMNLEVEKVREIQKIAQEPVSLETPI--GEEEDS 288 Query: 199 QWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D++ D D L+ + L + L RE+++ R ++ Sbjct: 289 HLGDFIPDDEILSPSDAATFTLL--------KEQLEDVLQTLTDREKKVLTLRFGLDDGR 340 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + EF+V+RER+RQIEA+A +K+ Sbjct: 341 ARTLEEVGKEFDVTRERIRQIEAKALRKL 369 >gi|229825188|ref|ZP_04451257.1| hypothetical protein GCWU000182_00540 [Abiotrophia defectiva ATCC 49176] gi|229790560|gb|EEP26674.1| hypothetical protein GCWU000182_00540 [Abiotrophia defectiva ATCC 49176] Length = 372 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 84/266 (31%), Positives = 139/266 (52%), Gaps = 13/266 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L+ EE LAK E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKVPLLDMDEEIKLAKSMAE-GDDEARKKLTEANLRLVVSIAKRYLGRGMQFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWIK ++ I ++I + Sbjct: 165 IQEGNMGLIKAVEKFDYTKGYKFSTYATWWIKQSITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R + L +PE+ I K+LN+ +V S+ ++A E ++ ++ S Sbjct: 223 LIRAQRQLTQTLGREPQPEE---IGKELNMEPEKVRSI-MKIA-QEPVSFETPIGEEEDS 277 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D +E + L + L RE R+ + R E+ TLE Sbjct: 278 HIGDFI---PDDSNMAPVEAATHAILKEQLEEVLDSLTEREARVIKLRFGLEDGRTRTLE 334 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQE 282 + EF V+RER+RQIE++A +K+++ Sbjct: 335 EVGKEFNVTRERIRQIESKALRKLRQ 360 >gi|319947289|ref|ZP_08021522.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus australis ATCC 700641] gi|319746531|gb|EFV98791.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus australis ATCC 700641] Length = 370 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLTNEEEQELAILV-EQGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|251782161|ref|YP_002996463.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242390790|dbj|BAH81249.1| RNA polymerase sigma factor [Streptococcus dysgalactiae subsp. equisimilis GGS_124] Length = 369 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE V A E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKVFAVAVAE-GDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|146299193|ref|YP_001193784.1| RpoD family RNA polymerase sigma factor [Flavobacterium johnsoniae UW101] gi|57471283|gb|AAW50927.1| RpoD [Flavobacterium johnsoniae] gi|146153611|gb|ABQ04465.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacterium johnsoniae UW101] Length = 287 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 82/287 (28%), Positives = 153/287 (53%), Gaps = 37/287 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDQRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 +++ L + +N +P IAK+L+++ ++V S++A Sbjct: 136 NKINKMYALLEQ----------SNERPPSAEEIAKELDMTVNDVKESMKNSGRHLSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+ D N +YD G+ + ++ R + RS+ L PRE + Sbjct: 186 LVEGEDSN--------LYDVLRSGESPNPDRELIHESLRTEIERSLETLTPREADVV--- 234 Query: 247 RL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 RLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|254786794|ref|YP_003074223.1| RNA polymerase sigma factor RpoS [Teredinibacter turnerae T7901] gi|237685659|gb|ACR12923.1| RNA polymerase sigma factor RpoS [Teredinibacter turnerae T7901] Length = 337 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/274 (31%), Positives = 148/274 (54%), Gaps = 19/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L EE A+R + GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 67 YLNEIGFSPLLSADEEVYFARRALK-GDEAARKRMIESNLRLVVKISRRYVNRGLALLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E++ + +K ++++N R+ S++A I + + + Sbjct: 185 LRAARELSQKL-DHEPSAEEIAELLEKPVEDVERMLALNERVT---SMDAPIGPASEKT- 239 Query: 199 QWQDWLVYDHDGQEQVL--IEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPV 253 V D +QV +E E + L + L+ ++R + ARR Sbjct: 240 ------VVDTVPDQQVSDPVELLEDSDLSTSLNSWLDELSEKQREVV-ARRFGLRGHETS 292 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ A +++++ ++KQ Sbjct: 293 TLEEVGREIGLTRERVRQIQVEALRRLRDILEKQ 326 >gi|254514875|ref|ZP_05126936.1| RNA polymerase sigma factor RpoS [gamma proteobacterium NOR5-3] gi|219677118|gb|EED33483.1| RNA polymerase sigma factor RpoS [gamma proteobacterium NOR5-3] Length = 367 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/272 (29%), Positives = 147/272 (54%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI +P+L EE A R + GD +A R++ S+LRLVV IA Y G+ + ++ Sbjct: 98 YLNEIGFVPLLSADEEKHYA-RLVQKGDEAARKRMIESNLRLVVNIARRYLHRGMSLLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 157 IEEGNLGLMRAVEKFDPERGFRFSTYATWWIRQTIERGIMNQARTIRLPIHV-VKDLNGC 215 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D++ +++ + K S ++ +N R++ S++A + + +S Sbjct: 216 LRAARELTQQL-DHDPTTQEIASRTHKTATEVSRLMGLNERVS---SMDAPLGPNSDSSV 271 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 + D EQ+ + + + + + L+ ++R + RR L + TL Sbjct: 272 AETIADEHGCDPSEQI-----QDDDVHDSVAHWLDELSEKQREVV-VRRFGLLGYDSCTL 325 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E + E ++RERVRQI+ A K+++ +++Q Sbjct: 326 EEVGQEIGLTRERVRQIQVEALKRLRRILERQ 357 >gi|329769784|ref|ZP_08261185.1| RNA polymerase sigma factor rpoD [Gemella sanguinis M325] gi|328838146|gb|EGF87764.1| RNA polymerase sigma factor rpoD [Gemella sanguinis M325] Length = 362 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 88/269 (32%), Positives = 142/269 (52%), Gaps = 17/269 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAK---RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y+ EI K+P+L K++E L+K E A L ++LRLVV IA Y G G+ Sbjct: 92 YLKEIGKVPLLSKEKELELSKIIENGTEEEKEQAKKDLAEANLRLVVSIAKRYVGRGMLF 151 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+KFD E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 152 LDLIQEGNMGLIKAVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVET 209 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 L R++ L KPE+ IAKK+N++ +V + ++A + SL I D Sbjct: 210 INRLIRVQRQLLQDLGREPKPEE---IAKKMNMTPDKVREI-LKIAQEPVSLETPIGEED 265 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ D + Q +E + + L + L RE + + R L++ Sbjct: 266 --DSHLGDFI---EDKEAQSPVEHAANELLKEQLEEILETLTDREENVLKLRFGLKDGKT 320 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + S F V+RER+RQIEA+A +K++ Sbjct: 321 HTLEEVGSAFGVTRERIRQIEAKAIRKLK 349 >gi|331090835|ref|ZP_08339681.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 2_1_46FAA] gi|330399694|gb|EGG79356.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 2_1_46FAA] Length = 370 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/265 (32%), Positives = 136/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLSAEEEIELAKRMAE-GDEDAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLIKAVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA++L++ V + SL I ++ S Sbjct: 221 LIRVSRQLLQELGREPSPEE---IAEELDMPVERVREILKISQEPVSLETPI--GEEEDS 275 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D V E + L ++ L RE+++ R + TLE Sbjct: 276 HLGDFI---QDDNVPVPAEAAAATLLKEQLGEVLNTLTDREQKVLRLRFGMNDGRARTLE 332 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF+V+RER+RQIEA+A +K++ Sbjct: 333 EVGKEFDVTRERIRQIEAKALRKLR 357 >gi|153853334|ref|ZP_01994743.1| hypothetical protein DORLON_00730 [Dorea longicatena DSM 13814] gi|149754120|gb|EDM64051.1| hypothetical protein DORLON_00730 [Dorea longicatena DSM 13814] Length = 369 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 136/273 (49%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGKVPLLSAEEEVELAKRMAD-GDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNLGLIKAVEKFDYHKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 L R+ L PE++ A + + L +S+ E +S+ + +E Sbjct: 220 LIRVSRQLLQELGREPTPEEIAAELDMPVERVREILKISQ-EPVSLETPIGEEE------ 272 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D++ D V E + + L + L RE+++ R Sbjct: 273 ------DSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMN 323 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 324 DGRARTLEEVGKEFDVTRERIRQIEAKALRKLR 356 >gi|260588574|ref|ZP_05854487.1| RNA polymerase sigma factor RpoD [Blautia hansenii DSM 20583] gi|260541049|gb|EEX21618.1| RNA polymerase sigma factor RpoD [Blautia hansenii DSM 20583] Length = 330 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 140/270 (51%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA+R E GD SA RL ++LRLVV IA Y G G+ ++ Sbjct: 64 YLKEIGKVPLLSAEEEITLAQRM-EEGDESAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 123 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA+++N+S V + SL I ++ S Sbjct: 181 LIRVSRQLLQELGREPHPEE---IAEEMNMSVERVREILKISQEPVSLETPI--GEEEDS 235 Query: 199 QWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D++ D+ D L++++ L + L RE+++ R ++ Sbjct: 236 HLGDFIQDDNVPVPADAAAFTLLKEQ--------LVEVLGTLTEREQKVLRLRFGLDDGR 287 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 288 ARTLEEVGKEFNVTRERIRQIEAKALRKLR 317 >gi|307546200|ref|YP_003898679.1| RNA polymerase sigma factor RpoS [Halomonas elongata DSM 2581] gi|307218224|emb|CBV43494.1| RNA polymerase sigma factor RpoS [Halomonas elongata DSM 2581] Length = 330 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 143/279 (51%), Gaps = 29/279 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE + R+ GD R++ S+LRLVVKIA Y GL + ++ Sbjct: 62 YLNEIGFSPLLTPEEEVHYGRLARQ-GDPQGRSRMIESNLRLVVKIARRYLNRGLTLLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 121 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ E++ K S ++ +N R++ G ES LI + Sbjct: 180 LRAARELTQKL-DHEATAEEIADHLDKPVASVKRMMGLNERVSSVDYPVGSESDKPLIET 238 Query: 193 SDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--- 248 L D+D G E L++ + +++ + L L ++R + RR Sbjct: 239 -----------LTDDNDLGPESTLVDGDVKQHVDDWLAE----LTDKQREVV-VRRFGLR 282 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ A KK++ + KQ Sbjct: 283 GHEASTLEQVGEEIGLTRERVRQIQVEALKKLRRMLDKQ 321 >gi|83644704|ref|YP_433139.1| nonessential primary sigma factor [Hahella chejuensis KCTC 2396] gi|83632747|gb|ABC28714.1| nonessential primary sigma factor [Hahella chejuensis KCTC 2396] Length = 332 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 147/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+ R GD R++ S+LRLVVKIA Y GL + ++ Sbjct: 64 YLNEIGFSPLLTPEEEVHFARMAR-RGDEKGRKRMIESNLRLVVKIARRYVNRGLSLLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 123 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 181 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ E++ + +K ++ +N R+ G + +L+++ Sbjct: 182 LRASRELTQKL-DHEPSAEEIADLLEKPVKDVKRMLGLNERITSVDSPIGGNAEKSLLDT 240 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQE 250 +S L+ D D + L R + L+ +++ + ARR L+ Sbjct: 241 VADEASNDPAELLQDSD--------------LKGCLDRWLDQLSDKQQEVI-ARRFGLRG 285 Query: 251 NPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P+ TLE + E ++RERVRQI+ A K+++E ++K+ Sbjct: 286 YPMSTLEEVGQEIGLTRERVRQIQVEALKRMRELLEKE 323 >gi|327473233|gb|EGF18653.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK408] Length = 370 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/268 (32%), Positives = 141/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLSNEEEQELAILV-EKGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|311031650|ref|ZP_07709740.1| RNA polymerase sigma factor RpoD [Bacillus sp. m3-13] Length = 374 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLSAEEEISLANRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L P++V I L +++ E +S+ + D L Sbjct: 227 RVQRQLLQDLGREPSPEEIAEDMDLTPDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 326 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 360 >gi|149378178|ref|ZP_01895895.1| nonessential primary sigma factor [Marinobacter algicola DG893] gi|149357540|gb|EDM46045.1| nonessential primary sigma factor [Marinobacter algicola DG893] Length = 333 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 149/280 (53%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+ R+ G+ S R++ S+LRLVVKIA Y GL + ++ Sbjct: 65 YLNEIGFSPLLTPEEEVYFARLARK-GEESGRKRMIESNLRLVVKIARRYVNRGLTLLDL 123 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 124 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNLY 182 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---------GDESLNAL 189 LR + Q + D+ E++ + K ++ +N R+A G++SL L Sbjct: 183 LRAARELTQKL-DHEPSAEEIARMVDKPVADVKRMLGLNERVASMDTPIGTGGEKSL--L 239 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RL 248 +D+ +S D L + N + + + + L+ +++ + R L Sbjct: 240 DTVADEGASDPADLL---------------QDNNMCSCVEKWIDQLSDKQQEVLSRRFGL 284 Query: 249 QENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + P+ TLE + E ++RERVRQI+ A ++++E ++K+ Sbjct: 285 RGYPISTLEEVGQEIGLTRERVRQIQVEALRRLREILEKE 324 >gi|322373396|ref|ZP_08047932.1| RNA polymerase sigma factor RpoD [Streptococcus sp. C150] gi|321278438|gb|EFX55507.1| RNA polymerase sigma factor RpoD [Streptococcus sp. C150] Length = 369 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E+GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLSNEEEKELAIAV-ENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMGMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|167745452|ref|ZP_02417579.1| hypothetical protein ANACAC_00143 [Anaerostipes caccae DSM 14662] gi|317472996|ref|ZP_07932299.1| sigma-70 family RNA polymerase sigma factor [Anaerostipes sp. 3_2_56FAA] gi|167655173|gb|EDR99302.1| hypothetical protein ANACAC_00143 [Anaerostipes caccae DSM 14662] gi|316899541|gb|EFV21552.1| sigma-70 family RNA polymerase sigma factor [Anaerostipes sp. 3_2_56FAA] Length = 347 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 145/278 (52%), Gaps = 38/278 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR-GYGLPISE 77 Y+H I +IP+L K +E LAK E G SA +++ S+LRLVV +A Y G G+ + + Sbjct: 79 YLHRIGRIPLLSKDQEERLAKEI-EAGSQSAKDKMINSNLRLVVSVAKRYAAGSGMALLD 137 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGNIGLM+AV KFD RG++ +TY+MWWI+ ++ I ++I +K Sbjct: 138 LIQEGNIGLMKAVDKFDYRRGYKFSTYAMWWIRQSVTRAIADQARTIRIPVHMKEK---- 193 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE----------SEVISMNCRLAGDESLN 187 + ++ G + + N + +A+ + +S S+ +S++ + G+E Sbjct: 194 -MGKVSGAARKFLEENGREPNADELAELMEISRDQMDEIMRLYSDTVSLDSPV-GEEEDA 251 Query: 188 ALIN--SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+N + + Q+Q ++ +L E+ + +S L RE+ I Sbjct: 252 MLMNFVADESMPEQYQ-------TAEQGILSEQ---------INEILSELTEREQTILRL 295 Query: 246 R-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R EN + TLE + E+ V+RER+RQIE +A +K++ Sbjct: 296 RFGFVENRIWTLEEVGREYHVTRERIRQIEGKALRKLK 333 >gi|284036901|ref|YP_003386831.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirosoma linguale DSM 74] gi|283816194|gb|ADB38032.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirosoma linguale DSM 74] Length = 287 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 79/274 (28%), Positives = 152/274 (55%), Gaps = 21/274 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L EE LA++ RE GD + RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLLTPDEEVTLAQKIRE-GDQLSLERLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 GDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNRVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + L+ + PE++ A+ L +S +EV+ +++G S++A + Sbjct: 135 LNKISKTFSDLEQKFEREPSPEELAAV---LEISAAEVVD-TLKISGRHVSMDAPFVQGE 190 Query: 195 KNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--Q 249 +NS V ++DG+++ LI RK + R++S L RE + Sbjct: 191 ENSL----LDVLENDGEDKPDSGLINDSLRKE----VQRALSTLTQREADVITLYFGLNG 242 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E+ +TLE + +F ++RERVRQI+ +A ++++ + Sbjct: 243 EHAMTLEEIGEKFNLTRERVRQIKEKAIRRLRHT 276 >gi|294673737|ref|YP_003574353.1| RNA polymerase sigma factor RpoD [Prevotella ruminicola 23] gi|294473567|gb|ADE82956.1| putative RNA polymerase sigma factor RpoD [Prevotella ruminicola 23] Length = 286 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 145/278 (52%), Gaps = 28/278 (10%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI K M+ +EE LA+R + GD A RL ++LR VV +A Y+ GL Sbjct: 17 ALEKYLQEISKETMISAEEEVELAQRIK-KGDTKALERLTKANLRFVVSVAKQYQNQGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-----IGTT 129 + ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + I +V+ +G+ Sbjct: 76 LPDLINEGNLGLLKAAERFDETRGFKFISYAVWWIRQSILQAISEQSRIVRLPLNQVGSV 135 Query: 130 ANQKR---LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 R F L + + I + P++ + A +N + V + + L Sbjct: 136 NKINREINRFEQLNERRPSVDEIAEKVDLPQEKIDEAMAINGHQISVDAPFVEGEDNSLL 195 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + + NS D + D+ E+ L K E +N ++S LN RER + EA Sbjct: 196 DVMANS---------DAPLADNQLVEESL--KSEIQN-------ALSALNERERNVVEAS 237 Query: 247 RLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 P +TLE + ++F ++RERVRQI+ +A +K++ S Sbjct: 238 YGINQPELTLEEIGTKFGLTRERVRQIKEKAIRKLRNS 275 >gi|330950646|gb|EGH50906.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae Cit 7] Length = 335 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + ++ ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLERPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|296133798|ref|YP_003641045.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermincola sp. JR] gi|296032376|gb|ADG83144.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermincola potens JR] Length = 366 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 136/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G GL ++ Sbjct: 100 YLKEIGRVPLLTAEEEVELAKRM-ETGDEEAKRRLAEANLRLVVSIAKRYVGRGLLFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 159 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 216 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA ++++ V + ++A E ++ ++ S Sbjct: 217 LIRVSRQLLQELGREPTPEE---IAAEMDIPVDRVREI-MKIA-QEPVSLETPIGEEEDS 271 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + D D E R L + L PRE ++ R ++ TLE Sbjct: 272 HLGDF-IEDQDAPAPA--EAASFILLREQLEEVLETLTPREEKVLRLRFGLDDGRSRTLE 328 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 329 EVGQEFGVTRERIRQIEAKALRKLR 353 >gi|302386569|ref|YP_003822391.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] gi|302197197|gb|ADL04768.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] Length = 401 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 86/268 (32%), Positives = 140/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E LAK+ E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 134 YLKEIGKVPLLSSEDEIELAKKI-ELGDDDAKQRLTEANLRLVVSIAKRYVGRGMQFLDL 192 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N R Sbjct: 193 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--R 250 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R+L LQ + + PE++ A A E++ ++ E ++ + Sbjct: 251 LVRVSRQL---LQELGREPV-PEEIAARADMQVDRVREIMKVSQ-----EPVSLETPIGE 301 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D Q V + L + L RE+++ + R ++ P Sbjct: 302 EEDSHLGDFI---QDEQVAVPADAATFTMLHEQLMEVLDTLTEREQKVLKLRFGLDDGRP 358 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + EF V+RER+RQIEA+A +K+ Sbjct: 359 RTLEEVGKEFNVTRERIRQIEAKALRKL 386 >gi|306820486|ref|ZP_07454120.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304551472|gb|EFM39429.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 538 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 144/265 (54%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KI +L +EE+ L++ GD A ++V ++LRLVV IA Y G G+ ++ Sbjct: 272 YLKEIGKIQLLTVEEEHRLSE-LMVKGDEYAKMKIVEANLRLVVSIAKRYVGRGMLFLDL 330 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 331 IQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 388 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + +PE+ IA+++ +S+ ++ + ++A E ++ ++ S Sbjct: 389 LIRINRQLVQELGRDPRPEE---IAEQMGMSQDKIREI-MKIA-QEPVSLETPIGEEEDS 443 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D Q E R + + + L RERR+ + R ++ P TLE Sbjct: 444 HLGDFI---PDDDAQAPSEAAAYSLLREQIEQVLCTLTDRERRVLKLRFGLDDGRPRTLE 500 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF+V+RER+RQIEA+A +K++ Sbjct: 501 EVGKEFDVTRERIRQIEAKALRKLR 525 >gi|194290015|ref|YP_002005922.1| RNA polymerase sigma factor rpos [Cupriavidus taiwanensis LMG 19424] gi|193223850|emb|CAQ69859.1| RNA polymerase sigma factor rpoS [Cupriavidus taiwanensis LMG 19424] Length = 395 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 141/274 (51%), Gaps = 17/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE + ++ GD +A ++ +LRLVV IA GY G+P+ ++ Sbjct: 126 YLNRISIKPLLSAPEELHFSTLAKD-GDFAARQVMIERNLRLVVSIAKGYLNRGVPLLDL 184 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 185 IEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQ 242 Query: 139 LRRLKGHLQ-AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN- 196 + R K HL+ TD + + IA L + EV + LA +E +L D + Sbjct: 243 VLRAKRHLEKGGTDG--RDASLEDIAHLLGKTPDEVQDV---LALNEHTTSLDTPFDLDP 297 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN---PV 253 S D+L +H+ + E + ++ ++ L+ + R + E RR N P Sbjct: 298 GSSLLDFLSDEHNAAPDQEVAHRELE---GLMKLWLARLSEKHRYVVE-RRFGLNHIEPA 353 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE L+ E ++RERVRQI+ A K++ Q Sbjct: 354 TLEELAEEMGLTRERVRQIQQEALVKLKRHFASQ 387 >gi|325287834|ref|YP_004263624.1| RpoD subfamily RNA polymerase sigma 70 subunit [Cellulophaga lytica DSM 7489] gi|324323288|gb|ADY30753.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga lytica DSM 7489] Length = 287 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 83/274 (30%), Positives = 144/274 (52%), Gaps = 25/274 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I KI ++ EE LA++ R GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKIDLITANEEVELAQKIRA-GDEAALEKLTNANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K+ F L + + +P IAK+L +S SEV S++A Sbjct: 136 NKIKKAFSYLEQ----------THERPPSAEEIAKELELSVSEVKQSMKNSGRHVSMDAP 185 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 + S D + Y G+ EK ++ + R++ L+PRE + + Sbjct: 186 FKEGE--DSNLYDVIKY---GESPNPDEKLMHQSLNTEINRALETLSPREADVVKLYYGI 240 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ +TLE + F+++RERVRQI +A +K++ Sbjct: 241 GDKHSMTLEEIGQIFDLTRERVRQIREKAIRKLK 274 >gi|300812189|ref|ZP_07092631.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496825|gb|EFK31905.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 373 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 134/275 (48%), Gaps = 33/275 (12%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +Y+ I ++ +L EE LAKR E GD A L +++LRLVV IA Y G G+ + Sbjct: 106 QYLKRIGRVSLLSGDEEVQLAKRI-EAGDQEAKDELTSANLRLVVSIAKRYVGRGMSFLD 164 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GLM+AV KFD + GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 LIQEGNMGLMKAVDKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETIN 222 Query: 138 NLRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLN 187 L R++ L + +PE++ A + + L V++ E +S+ + D L Sbjct: 223 KLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S + H E + ++ L + L RE + R Sbjct: 282 DFIEDKDATSPEQ-------HAASEML----------KDQLAEVLDTLTDREENVLRLRF 324 Query: 247 RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + NP TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKL 359 >gi|257092978|ref|YP_003166619.1| RNA polymerase sigma factor RpoS [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257045502|gb|ACV34690.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 319 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 80/274 (29%), Positives = 150/274 (54%), Gaps = 19/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE A+R R G+ A +++ +LRLVV IA Y G+P+ ++ Sbjct: 52 YLNAIGAKPLLSPAEEVNWARRARA-GEFPARQKMIEHNLRLVVNIAKHYLNRGIPLLDL 110 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL+ A++K+DPERGFR +TY+ WWI+ +++ I+ +++ K + Sbjct: 111 IEEGNLGLIHAIEKYDPERGFRFSTYATWWIRQSIERAIMNQSRTIRLPVHV-VKDINLV 169 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR ++ HL++ + + P+++ + + V+++N R+A SL+A + + S Sbjct: 170 LRAIR-HLESASGREICPDRIAHLIDRPVEDVRRVMALNERIA---SLDAPLQV---DPS 222 Query: 199 QWQDWLVYDHDGQEQVLIEKEE--RKNRRNMLTRS-MSVLNPRERRIFEARR--LQENPV 253 Q L+ D + L++ +E + N L R+ + L + R++ E R P Sbjct: 223 QTVGDLIAD-----ESLLDPDELLQSNELGELLRNWLGQLAGKHRQVLERRYGLGGSEPS 277 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE ++ + ++RERVRQI+ A ++ I+++ Sbjct: 278 TLEEIAFDLNLTRERVRQIQIEALDHLRRIIRRR 311 >gi|327480191|gb|AEA83501.1| RNA polymerase sigma factor RpoS [Pseudomonas stutzeri DSM 4166] Length = 332 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 142/276 (51%), Gaps = 25/276 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 64 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 123 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 181 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKK--------LNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ PE++ + +K L ++E V S++ L D L Sbjct: 182 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNE-RVTSVDVSLGPDTDKTLLD 239 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D + + L+ D L + + +R ++ R + R EA Sbjct: 240 TLTDDRPTDPCELLLDDDLSNSIDLWLSDLSEKQREVVIRRFGL------RGHEAS---- 289 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + E ++RERVRQI+ A ++++E +++ Sbjct: 290 ---TLEEVGQEIGLTRERVRQIQVEALRRLREILER 322 >gi|239616750|ref|YP_002940072.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kosmotoga olearia TBF 19.5.1] gi|239505581|gb|ACR79068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kosmotoga olearia TBF 19.5.1] Length = 405 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 89/279 (31%), Positives = 139/279 (49%), Gaps = 41/279 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LA+R ++ GD A L+T++LRLVV IA Y G GL ++ Sbjct: 131 YLKEIGKIPLLTPSKERELARRAQK-GDKKAREELITANLRLVVSIAKRYIGRGLSFLDL 189 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGL++AV+KFD ++G++ +TY+ WWI+ A+ I +++ T N+ Sbjct: 190 IQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKVN 249 Query: 135 LFFNLRRLKGHLQAITDNNL------KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 L+ H + T L PE++ I + E +S+ ++GDE Sbjct: 250 KVIR-EHLQEHGEYPTVEELGKLTGKTPEKIEEIL----AASKETVSLESPISGDE---- 300 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN----RRNMLTRSMSVLNPRERRIFE 244 S D++ HD IEK E R + + L+PRE + + Sbjct: 301 --------ESTMGDFV---HDES----IEKPEEAAIKMLLREQIDEVLDTLSPREAMVLK 345 Query: 245 ARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L TLE + F V+RER+RQIE +A +K++ Sbjct: 346 MRYGLLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLR 384 >gi|220927994|ref|YP_002504903.1| RNA polymerase sigma factor RpoD [Clostridium cellulolyticum H10] gi|219998322|gb|ACL74923.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium cellulolyticum H10] Length = 359 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 135/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA R E+GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 93 YLKEIGKVPLLTADEEIDLAHRM-ENGDIEAKRRLAEANLRLVVSIAKRYVGRGMQFLDL 151 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD RGF+ +TY+ WWI+ A+ I ++I + Sbjct: 152 IQEGNLGLIKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 209 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +P++ IAK++ +S +V + SL I ++ S Sbjct: 210 LIRVSRQLLQELGREPQPDE---IAKEIGMSVDKVREIMKISQEPVSLETPIG--EEEDS 264 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 265 HLGDFIPDDDAPAPAEAAAFTLLKEQ---LIDVLDTLTPREEKVLRLRFGLDDGRARTLE 321 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 322 EVGKEFNVTRERIRQIEAKALRKLR 346 >gi|90412104|ref|ZP_01220111.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum 3TCK] gi|90327082|gb|EAS43461.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum 3TCK] Length = 334 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 147/272 (54%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 62 YLGEIGFSPLLTAEEEVLYARRAL-RGDEIARKRMIESNLRLVVKISRRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 121 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 179 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E IA +L E V +N L +E ++++ N +S Sbjct: 180 LRTARELAQKL-DHEPTAED---IALQL---EKPVDDVNRMLRLNERVSSVDNPIGGDSE 232 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 + ++ D G +++ + +N + + LNP++R + ARR L TL Sbjct: 233 KALLDIIPDEKGGSPESSTQDD--DIKNSIVHWLQELNPKQREVL-ARRFGLLGYEASTL 289 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E++ E ++RERVRQI+ +++++ + Q Sbjct: 290 EDVGREIGLTRERVRQIQVEGLRRLRDMLTHQ 321 >gi|330959229|gb|EGH59489.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. maculicola str. ES4326] Length = 336 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 146/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 68 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 126 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 127 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 185 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + ++ ++ +N R++ D SL SDK Sbjct: 186 LRAARELTQKL-DHEPSPEEIANLLERPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 240 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 241 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 294 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 295 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 326 >gi|313123888|ref|YP_004034147.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280451|gb|ADQ61170.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 373 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 134/275 (48%), Gaps = 33/275 (12%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +Y+ I ++ +L EE LAKR E GD A L +++LRLVV IA Y G G+ + Sbjct: 106 QYLKRIGRVSLLSGDEEVQLAKRI-EAGDQEAKDELTSANLRLVVSIAKRYVGRGMSFLD 164 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GLM+AV KFD + GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 LIQEGNMGLMKAVDKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETIN 222 Query: 138 NLRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLN 187 L R++ L + +PE++ A + + L V++ E +S+ + D L Sbjct: 223 KLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S + H E + ++ L + L RE + R Sbjct: 282 DFIEDKDATSPEQ-------HAASEML----------KDQLAEVLDTLTDREENVLRLRF 324 Query: 247 RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + NP TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKL 359 >gi|304317433|ref|YP_003852578.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778935|gb|ADL69494.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 357 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 90/269 (33%), Positives = 144/269 (53%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 91 YLKEIGKIPLLSPDEEIELAKRI-EKGDEEAKKRLTEANLRLVVSIAKRYVGRGMQFLDL 149 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KF+ +GF+ +TY+ WWI+ A+ I ++I T N + Sbjct: 150 IQEGNLGLLKAVEKFNYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--K 207 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R+L LQ + + L PE+ IAK++++S +V + ++A E ++ + Sbjct: 208 LIRVSRQL---LQELGRDPL-PEE---IAKEMDMSVDKVREI-MKIA-QEPVSLETPIGE 258 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ + K + L + L PRE ++ R ++ Sbjct: 259 EEDSHLGDFIPDEDAPAPAEAAAFTMLKEQ---LIDVLDTLTPREEKVLRLRFGLDDGRA 315 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 316 RTLEEVGKEFNVTRERIRQIEAKALRKLR 344 >gi|188585841|ref|YP_001917386.1| RNA polymerase, sigma 70 subunit, RpoD family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350528|gb|ACB84798.1| RNA polymerase, sigma 70 subunit, RpoD family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 360 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 139/265 (52%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +E LAK+ E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 94 YLKEIGKIPLLSPDDEIELAKKI-EEGDEGAKRKLAEANLRLVVSIAKKYVGRGMLFLDL 152 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 153 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 210 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L PE+ IA+++++SE +V + ++A + SL I D Sbjct: 211 LIRVSRQLVQELGREPLPEE---IAEQMDMSEDKVREI-LKIAQEPVSLETPIGEED--D 264 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TL 255 S D++ D + + + + L + L PRE+++ R L + TL Sbjct: 265 SHLGDFI---EDQDAKPPADAAAFELLKGQLEEVLDSLTPREQKVLRLRFGLDDGKTRTL 321 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + F V+RER+RQIEA+A +K+ Sbjct: 322 EEVGKHFGVTRERIRQIEAKALRKL 346 >gi|88801442|ref|ZP_01116970.1| putative sigma factor A [Polaribacter irgensii 23-P] gi|88782100|gb|EAR13277.1| putative sigma factor A [Polaribacter irgensii 23-P] Length = 287 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/287 (29%), Positives = 154/287 (53%), Gaps = 31/287 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQLIK-AGDQRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 +++ L + N +P IAKKL+++ ++V S++A Sbjct: 136 NKINKMYAFLEQ----------ENERPPSAEEIAKKLDMTVNDVKESMKNSGRHVSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 LI D N +YD + G+ K ++ R + R++ L PRE + + Sbjct: 186 LIEGEDSN--------LYDVLNSGESPNPDRKLLHESLRIEIDRALETLTPREADVVKLY 237 Query: 247 -RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELS 291 L E+ P+TLE + F+++RERVRQI+ +A ++++ + + ++ ++ Sbjct: 238 FGLGEHQPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILMT 284 >gi|25900789|emb|CAD57977.1| RNA polymerase sigma factor [Pseudomonas oleovorans] Length = 335 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMSQTRTIRLPFHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ ++++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLERLREILEK 325 >gi|332295554|ref|YP_004437477.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermodesulfobium narugense DSM 14796] gi|332178657|gb|AEE14346.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermodesulfobium narugense DSM 14796] Length = 356 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 89/278 (32%), Positives = 145/278 (52%), Gaps = 27/278 (9%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E + +Y+ EI KIP+L+ EE LA+R HGD +A +L ++LRLVV IA Y G Sbjct: 84 EDPVRQYLKEIGKIPLLKHSEEKYLAERAF-HGDEAAKKKLAEANLRLVVSIAKKYTKRG 142 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---- 128 L +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 143 LLFLDLIQEGNMGLLRAVEKFDYRKGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMVE 202 Query: 129 TANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAK--KLNVSESEVISMNCRLAGDES 185 T N+ + +R L L + TD + + V + K ++ E IS+ + DE Sbjct: 203 TINKYKK--TVRNLSQQLSRKPTDEEIAEKMEVNVEKIHEIKRISQEPISIETPIGKDED 260 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +D++ S + + Y ++L E L + L PRER + Sbjct: 261 SHLGDFIADESISSPMEAVTY------RLLKED---------LEEVIKDLQPRERDVVRL 305 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + + TLE + EF V+RER+RQIEA+A +K++ Sbjct: 306 RFGLVDGHARTLEEVGKEFGVTRERIRQIEAKALRKLR 343 >gi|120434745|ref|YP_860432.1| RNA polymerase sigma-70 factor [Gramella forsetii KT0803] gi|117576895|emb|CAL65364.1| RNA polymerase sigma-70 factor [Gramella forsetii KT0803] Length = 287 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 82/287 (28%), Positives = 153/287 (53%), Gaps = 37/287 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDDRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 + F L + ++ +P IAK+L+++ ++V S++A Sbjct: 136 NKINKTFAFLEQ----------SHERPPSAEEIAKELDMTINDVKESMKNSGRHVSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+ D N +YD G+ ++ ++ R + R++ L PRE + Sbjct: 186 LVEGEDSN--------LYDVLRSGESPNPDKELLHESLRTEIERALETLTPREADVI--- 234 Query: 247 RL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 RLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|14970557|emb|CAC44359.1| RpoS protein [Erwinia chrysanthemi] Length = 332 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 89/283 (31%), Positives = 147/283 (51%), Gaps = 35/283 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+S+ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVSSRRRMIESNLRLVVKIARRYNNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V +LN + S++ L GD S AL+ Sbjct: 180 RTARELSHKLDHEPSAEEIAERLDKPVDDVNRMLRLN---ERITSVDTPLGGD-SEKALL 235 Query: 191 NSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D L + D G E + + ++N + + + LN ++R + ARR Sbjct: 236 -----------DILADEKDNGPEDTTQDNDMKQN----IVKWLFELNAKQREVL-ARRFG 279 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEAR--AFKKVQESIQKQ 287 L TLE++ E ++RERVRQI+ + ++++E +Q Q Sbjct: 280 LLGYEAATLEDVGREIGLTRERVRQIQVQVEGLRRLREILQVQ 322 >gi|167758408|ref|ZP_02430535.1| hypothetical protein CLOSCI_00748 [Clostridium scindens ATCC 35704] gi|167664305|gb|EDS08435.1| hypothetical protein CLOSCI_00748 [Clostridium scindens ATCC 35704] Length = 371 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 136/273 (49%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGKVPLLTAEEEVDLAKRMAD-GDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 164 IQEGNLGLIKAVEKFDYHKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 221 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 L R+ L PE++ A + + L +S+ E +S+ + +E Sbjct: 222 LIRVSRQLLQELGREPTPEEIAAQLDMPVERVREILKISQ-EPVSLETPIGEEE------ 274 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D++ D V E + + L + L RE+++ R Sbjct: 275 ------DSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMN 325 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 326 DGRARTLEEVGKEFDVTRERIRQIEAKALRKLR 358 >gi|15613939|ref|NP_242242.1| RNA polymerase sigma factor RpoD [Bacillus halodurans C-125] gi|12643264|sp|O66381|RPOD_BACHD RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43; AltName: Full=Sigma-A gi|10173992|dbj|BAB05095.1| RNA polymerase major sigma factor [Bacillus halodurans C-125] Length = 372 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 89/275 (32%), Positives = 138/275 (50%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLTAEEEIELATRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 225 RVQRQLLQDLGREPSPEEVAEEMDLTPEKVREILK----IAQEPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+++ D Y+ + E VL +R+ N+L + + R R Sbjct: 281 DFI--EDQDALAPSDAAAYELLKEQLEDVLDTLTDREE--NVLRLRFGLDDGRTR----- 331 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 --------TLEEVGKVFGVTRERIRQIEAKALRKL 358 >gi|113868347|ref|YP_726836.1| RNA polymerase sigma factor RpoS [Ralstonia eutropha H16] gi|113527123|emb|CAJ93468.1| DNA-directed RNA polymerase sigma subunit (sigma38) [Ralstonia eutropha H16] Length = 392 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 141/274 (51%), Gaps = 17/274 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE + ++ GD +A ++ +LRLVV IA GY G+P+ ++ Sbjct: 123 YLNRISIKPLLSAPEELHFSTLAKD-GDFAARQVMIERNLRLVVSIAKGYLNRGVPLLDL 181 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 182 IEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQ 239 Query: 139 LRRLKGHLQ-AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN- 196 + R K HL+ TD + + IA L + EV + LA +E +L D + Sbjct: 240 VLRAKRHLEKGGTDG--RDASLEDIAHLLGKTPDEVQDV---LALNEHTTSLDTPFDLDP 294 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN---PV 253 S D+L +H+ + E + ++ ++ L+ + R + E RR N P Sbjct: 295 GSSLLDFLSDEHNAAPDQEVAHRELE---GLMKLWLARLSEKHRYVVE-RRFGLNHIEPA 350 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE L+ E ++RERVRQI+ A K++ Q Sbjct: 351 TLEELAEEMGLTRERVRQIQQEALVKLKRHFASQ 384 >gi|330504211|ref|YP_004381080.1| RNA polymerase sigma factor RpoS [Pseudomonas mendocina NK-01] gi|328918497|gb|AEB59328.1| RNA polymerase sigma factor RpoS [Pseudomonas mendocina NK-01] Length = 335 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ E++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSAEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSDLTDKQREVVVRRFGLRGHES-CT 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE + E ++RERVRQI+ A K+++E ++K Sbjct: 294 LEEVGQEIGLTRERVRQIQVEALKRLREILEK 325 >gi|163815580|ref|ZP_02206953.1| hypothetical protein COPEUT_01755 [Coprococcus eutactus ATCC 27759] gi|158449217|gb|EDP26212.1| hypothetical protein COPEUT_01755 [Coprococcus eutactus ATCC 27759] Length = 399 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 85/269 (31%), Positives = 139/269 (51%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I K+P+L +EE LAKR E GD +A +L S+LRLVV IA Y G G+ ++ Sbjct: 132 YLKDIGKVPLLSAEEEIELAKRM-EAGDEAAKKKLAESNLRLVVSIAKRYVGRGMLFLDL 190 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 191 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKV- 249 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 R + LQ + L PE+V + E++ + E ++ + Sbjct: 250 ----TRVSRDLLQKLGREPL-PEEVGEVMGLPKERVQEIMKI-----AQEPVSLETPIGE 299 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D +E + L +S L RE+R+ + R ++ P Sbjct: 300 EEDSHLGDFI---QDESIPTPVEATNQTLLHEQLDDVVSTLTEREQRVIKLRFGWDDGRP 356 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 357 RTLEEVGKEFNVTRERIRQIEAKALRKLR 385 >gi|254496518|ref|ZP_05109389.1| stationary phase specific sigma factor RpoS [Legionella drancourtii LLAP12] gi|254354257|gb|EET12921.1| stationary phase specific sigma factor RpoS [Legionella drancourtii LLAP12] Length = 342 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 81/275 (29%), Positives = 146/275 (53%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A + GD++A +++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 75 YLSEIGFSPLLSAEEEVHYATLALK-GDVAARKKMIESNLRLVVKISRRYLNRGLPLLDL 133 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM++V+KFDP RGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 134 IEEGNLGLMKSVEKFDPNRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 192 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-------DESLNALIN 191 LR + Q + D+ PE++ + K +++ +N ++A DE+ + L Sbjct: 193 LRAARQLTQKL-DHEPSPEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDENKSLLDT 251 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +D+NS + L ++ + + +N++ ++ R + R FE Sbjct: 252 IADENSVNPAELLTNENLRLHIESLLDKLTENQQQVIARRFGL------RGFEK------ 299 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E +++RERVRQI+ A K ++ ++K Sbjct: 300 -ATLEDVGKEIDLTRERVRQIQVEALKTLRGLLEK 333 >gi|300727119|ref|ZP_07060538.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299775663|gb|EFI72254.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 295 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/283 (29%), Positives = 148/283 (52%), Gaps = 30/283 (10%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L RY+ EI ++ EE LA+R ++ GD A RL ++LR VV +A Y+ GL Sbjct: 25 ALDRYLQEIGHEDLISVDEEVELAQRIKK-GDKRALERLTKANLRFVVSVAKQYQNQGLS 83 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-----IGTT 129 + ++++EGN+GL++A KKFD RGF+ +Y++WWI+ ++ + I +V+ +G+ Sbjct: 84 LPDLINEGNLGLIKAAKKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSV 143 Query: 130 ANQKRL---FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV-ISMNCRLAGDES 185 RL F + + I DN PE IA LNV+ V + + D S Sbjct: 144 NKINRLVNSFEQENERRPSVDEIADNIDLPED--KIADALNVNTHHVSVDAPFQEGEDNS 201 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L ++ ++D S+ + LV++ + R + R + LN RER + EA Sbjct: 202 LLDVLPNTDIPSADSE--LVHE---------------SLREEIARVLETLNQRERNVVEA 244 Query: 246 -RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + + +TLE + ++ ++RERVRQI+ +A ++++ + + + Sbjct: 245 FFGIGQAEMTLEEIGDKYGLTRERVRQIKEKAIRRLRHNTKNK 287 >gi|289208462|ref|YP_003460528.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. K90mix] gi|288944093|gb|ADC71792.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. K90mix] Length = 359 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 89/274 (32%), Positives = 141/274 (51%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I P+L +EE A+ R+ GD S R++ +LRLVVKIA Y GLP+ ++ Sbjct: 89 YLRDIEYRPLLTPEEERKYARLARD-GDESGRRRMIECNLRLVVKIARRYLNRGLPLLDL 147 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM AV+KFDPERGFR +TY+ WWI+ ++ ++ ++I + K L + Sbjct: 148 IEEGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIERALMNQGRTIRIPVHVS-KELRMH 206 Query: 139 LRRLKGHLQAITDNNLKPE------QVVAIAKKLNVSESEVISMNCRLA--GDESLNALI 190 R + Q + + + E + VA +KL SM+ G+ SL ++ Sbjct: 207 ARIARNLTQELGRDPTEEELAQRLGKPVADIQKLRAMSEPSTSMDLPPGPDGERSLTDIL 266 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSVLNPRERRIFEARR 247 +D N +Q L+ D D Q L+++ E +R +L R + FE Sbjct: 267 --ADVN-AQEPSSLLEDQDIQH--LVDEWLGELDYKQREVLVRRFGLHG------FER-- 313 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +E V+RERVRQI+ A K+++ Sbjct: 314 -----STLEQVGAEIGVTRERVRQIQMDALKRLR 342 >gi|77406972|ref|ZP_00783989.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae H36B] gi|77174413|gb|EAO77265.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae H36B] Length = 369 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELAVAVAE-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|237740231|ref|ZP_04570712.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31] gi|229422248|gb|EEO37295.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31] Length = 269 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 144/275 (52%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AKR E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 2 YLREIGQVPLLTHDEEIEYAKRAYE-GDEEASQKLIESNLRLVVSIAKKHTNRGLKLLDL 60 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 61 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 115 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 116 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVEKIKAIQEMNQEPISLETPVGSEE 171 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 S+ D++ D + E R R L + L+PRE ++ R ++ P Sbjct: 172 --DSELGDFV---EDQKTTSPYEATNRAILREELDGVLKTLSPREEKVLRYRYGLDDSSP 226 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 227 KTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 261 >gi|257453204|ref|ZP_05618503.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 3_1_5R] gi|317059738|ref|ZP_07924223.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 3_1_5R] gi|313685414|gb|EFS22249.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 3_1_5R] Length = 436 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 147/272 (54%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LAK+ E GD A RL+ ++LRLVV IA + GL + ++ Sbjct: 169 YLREIGQIPLLTHKEELELAKKALE-GDEFANKRLIEANLRLVVSIAKKHTNRGLKLLDL 227 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I T N+ + Sbjct: 228 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIK 287 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +LQ T + PE +A++L + +V S+ SL + S + Sbjct: 288 -----KEARIYLQE-TGKDATPE---ILAERLGMEVEKVKSIQEMNQDPISLETPVGSEE 338 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q ++ E NR R L + L+ RE ++ R ++ Sbjct: 339 --DSELGDFV------EDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDD 390 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F+V+RER+RQIE +A +K++ Sbjct: 391 GSPKTLEEVGKIFKVTRERIRQIEVKALRKLR 422 >gi|304437691|ref|ZP_07397643.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304369324|gb|EFM22997.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 370 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 137/272 (50%), Gaps = 13/272 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA+R E GD A HRL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGHVPLLTAEEEVALAQRM-EAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + +PE+ IAK++ +S + V + SL I ++ S Sbjct: 221 LVRISRQLLQELGRDPRPEE---IAKEMGISVARVHEIMKIAQEPVSLETPIG--EEEDS 275 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E R L + L RE+ + R E+ TLE Sbjct: 276 HLGDFI---EDEAAPAPAEAASFMLLREQLEEVLETLTDREKNVLRLRFGLEDGRSRTLE 332 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + F V+RER+RQIEA+A +K++ + +V Sbjct: 333 EVGQSFGVTRERIRQIEAKALRKLRHPSRSKV 364 >gi|89100479|ref|ZP_01173341.1| RNA polymerase sigma factor [Bacillus sp. NRRL B-14911] gi|89084822|gb|EAR63961.1| RNA polymerase sigma factor [Bacillus sp. NRRL B-14911] Length = 374 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 137/276 (49%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLSAQEEISLAKRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L P++V I L +++ E +S+ + D L Sbjct: 227 RVQRQLLQDLGREPTPEEIAEDMDLTPDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 361 >gi|229825330|ref|ZP_04451399.1| hypothetical protein GCWU000182_00684 [Abiotrophia defectiva ATCC 49176] gi|229790702|gb|EEP26816.1| hypothetical protein GCWU000182_00684 [Abiotrophia defectiva ATCC 49176] Length = 409 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/281 (30%), Positives = 138/281 (49%), Gaps = 45/281 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE LAK+ E GD A RL S+LRLVV IA Y G GL ++ Sbjct: 142 YLKEIGNYPLLSMDEEVELAKKIAE-GDQYATDRLTESNLRLVVSIAKKYVGRGLSFLDL 200 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV KFD +G++ +TY+ WWI+ A+ I A+Q R Sbjct: 201 IQEGNLGLIKAVDKFDYSKGYKFSTYATWWIRQAITRSI------------ADQSRTI-- 246 Query: 139 LRRLKGHLQAITDNNLKPEQVV-----------AIAKKLNVSESEVISMNCRLAGDESLN 187 R+ H+ + + + + + IAK++N+ +V + A SL+ Sbjct: 247 --RIPVHMSEVINKAYRISRSLLQELGREPTEEEIAKEMNLPVEKVREIMKISADPISLD 304 Query: 188 ALINSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 I D S D++ D D +++ + + + ++ L+ RE+R+ Sbjct: 305 TPIGEED--DSHLGDFIKDDTIMGPEDAAAYTMLQ--------DQIQKLLTTLSEREQRV 354 Query: 243 FEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L TLE + EF V+RER+RQIEA+A +K++ Sbjct: 355 LILRFGLLDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLR 395 >gi|160935059|ref|ZP_02082445.1| hypothetical protein CLOLEP_03935 [Clostridium leptum DSM 753] gi|156866512|gb|EDO59884.1| hypothetical protein CLOLEP_03935 [Clostridium leptum DSM 753] Length = 365 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/272 (30%), Positives = 136/272 (50%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA R E GD SA RL ++LRLVV IA Y G G+ ++ Sbjct: 99 YLKEIGRVPLLSPEEEIDLAIRISE-GDESAKKRLSEANLRLVVSIAKRYLGRGMQFLDL 157 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-K 133 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ K Sbjct: 158 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVK 217 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LNALIN 191 ++ L GH + L+ + V +++ E +S+ + +E L I Sbjct: 218 KVSSQLLHTNGHEPTADEIALELDMPVDKVREIMRVAQEPVSLETPIGEEEDSHLGDFIP 277 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D + +L+ + L + L PRE ++ R E+ Sbjct: 278 DDDAPAPADA---------ASHILL--------KEQLAEVLDTLTPREEKVLRLRFGLED 320 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 321 GRSRTLEEVGKEFNVTRERIRQIEAKALRKLR 352 >gi|257470234|ref|ZP_05634325.1| RpoD family RNA polymerase sigma factor [Fusobacterium ulcerans ATCC 49185] gi|317064448|ref|ZP_07928933.1| RNA polymerase sigma-A factor [Fusobacterium ulcerans ATCC 49185] gi|313690124|gb|EFS26959.1| RNA polymerase sigma-A factor [Fusobacterium ulcerans ATCC 49185] Length = 260 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 75/273 (27%), Positives = 146/273 (53%), Gaps = 16/273 (5%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + +S YI +I + P+L +EE ++ + + GD A +LVTS+LRLV+ IA Y G+ Sbjct: 2 LDISEYIKDISRYPLLTPEEEKDISIKAK-AGDKDAQEKLVTSNLRLVISIARKYTNMGI 60 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P+ +++ EGN+GL++AV+K++PE+ R +TYS +WIK ++ YI S L++ + Sbjct: 61 PLLDLIQEGNMGLIRAVEKYEPEKNIRFSTYSTFWIKQSILRYITSSRGLIRFPSY---- 116 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 ++ + R+K ++Q + N + I L++ + E L E + + N Sbjct: 117 -VYDGISRMKKYVQDYKNKNSHLPSIEEICSSLDMRKKEAERYIEVL---EKGSCIGNEM 172 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQEN 251 +++ +++D +++V+ KN L + ++ L +ER + R L E Sbjct: 173 YGEIAEYCSSIIFDDTFEDKVI-----AKNSTIDLMKKVNKLPSKEREVLIYRYGLLDEK 227 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +TL + +++ER+RQI+ A K++ ++ Sbjct: 228 VLTLGEIGERMNLTKERIRQIQLEAIDKLRGTL 260 >gi|1514627|emb|CAA62840.1| starvation sigma factor [Pseudomonas putida] Length = 335 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 146/279 (52%), Gaps = 17/279 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFAPLV-QKGDPAGRKRMMQSNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + + L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLGELTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 LE++ E ++RERVRQI+ K+++E ++K S S Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEKNGHTSES 332 >gi|294507979|ref|YP_003572037.1| RNA polymerase sigma-70 factor [Salinibacter ruber M8] gi|294344307|emb|CBH25085.1| RNA polymerase sigma-70 factor [Salinibacter ruber M8] Length = 279 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 92/285 (32%), Positives = 155/285 (54%), Gaps = 35/285 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI KI +LE +EE LA+R E GD A H+L ++LR VV +A Y+G GL + Sbjct: 10 LDQYLQEIGKIDLLEPEEEVELARRI-EDGDEEALHKLCRANLRFVVSVAKKYQGQGLSL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV-----KIGTTA 130 +++++EGN GL++A K+FD RGF+ +Y++WWI+ A+ + + +V +IGT + Sbjct: 69 ADLINEGNYGLIKAAKRFDETRGFKFISYAVWWIRQAILQALAEQSRVVRLPLNRIGTIS 128 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES--EVISMNCRLAGDESLNA 188 +R+ LQ D + KP + + E + R S++A Sbjct: 129 -------KIRKASARLQ--QDLDRKPNIEELAEELEIDVQKVREAMKHTSRHL---SMDA 176 Query: 189 LINSSDKNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 N D NS D L D+D ++ ++ + + + + R++S L+ RE I R Sbjct: 177 PFNEEDDNS--LLDVLPDEDNDSPDEEMLSESVKID----IERALSALHDREAEIT---R 227 Query: 248 L-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L +E+P+TLE + F+++RERVRQI+ +A +K+++ KQ Sbjct: 228 LYFGIGREHPLTLEEIGKRFDLTRERVRQIKEKALRKLRQRHSKQ 272 >gi|326803636|ref|YP_004321454.1| RNA polymerase sigma factor RpoD [Aerococcus urinae ACS-120-V-Col10a] gi|326651510|gb|AEA01693.1| RNA polymerase sigma factor RpoD [Aerococcus urinae ACS-120-V-Col10a] Length = 401 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 90/276 (32%), Positives = 137/276 (49%), Gaps = 37/276 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 134 YLKEIGRVDLLTADEEVALAKRI-EAGDPVAKQELAEANLRLVVSIAKRYVGRGMSFLDL 192 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 193 IQEGNMGLMKAVEKFDYTKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINKLV 252 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L L R + + +L E+V I K +S+ V SL Sbjct: 253 RIQRQLLQELGREPTPEEIGAEMDLPTEKVRNIMK---ISQEPV-----------SLETP 298 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR 246 I D S D+ + D+D ++ +E N+ + L + L RE + R Sbjct: 299 IGEED--DSHLGDF-IEDNDA-----MQPDEYTNQELLKEQLNEVLDTLTDREENVLRLR 350 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E+ TLE + +F V+RER+RQIEA+A +K+ Sbjct: 351 FGLEDGQTKTLEQVGQQFGVTRERIRQIEAKALRKL 386 >gi|291543225|emb|CBL16334.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Ruminococcus sp. 18P13] Length = 360 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 89/275 (32%), Positives = 142/275 (51%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 94 YLKEIGRVPLLSAEEEIELAQRMSK-GDSYAKKRLSEANLRLVVSIAKKYVGRGMQFLDL 152 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQK 133 + EGN+GL++AV KFD +GF+ +TY+ WWI+ A+ I ++I T K Sbjct: 153 IQEGNLGLIKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETITKVK 212 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 ++ L GH + D IA++L + +V + R+A D SL I Sbjct: 213 KIISQLLHETGH-EPTADE---------IAERLEMPVEKVREI-MRIAQDPVSLETPIG- 260 Query: 193 SDKNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 ++ S D++ +++ KE+ L +S L RE ++ + R Sbjct: 261 -EEEDSHLGDFIPDDDAPAPAEAASLILLKEQ-------LNEVLSTLTEREAKVLKLRFG 312 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + EFEV+RER+RQIEA+A +K++ Sbjct: 313 LEDGRSRTLEEVGREFEVTRERIRQIEAKALRKLR 347 >gi|22537572|ref|NP_688423.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae 2603V/R] gi|25011538|ref|NP_735933.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae NEM316] gi|76788342|ref|YP_330069.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae A909] gi|77409561|ref|ZP_00786243.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae COH1] gi|77412516|ref|ZP_00788814.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae CJB111] gi|77414847|ref|ZP_00790961.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae 515] gi|22534455|gb|AAN00296.1|AE014257_3 RNA polymerase sigma-70 factor [Streptococcus agalactiae 2603V/R] gi|24413077|emb|CAD47155.1| RNA polymerase major sigma factor RpoD [Streptococcus agalactiae NEM316] gi|76563399|gb|ABA45983.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae A909] gi|77159097|gb|EAO70294.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae 515] gi|77161430|gb|EAO72443.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae CJB111] gi|77171826|gb|EAO75013.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae COH1] Length = 369 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELAVAVAE-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|309800318|ref|ZP_07694490.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302] gi|308116065|gb|EFO53569.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302] Length = 369 Score = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 143/270 (52%), Gaps = 21/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|313888947|ref|ZP_07822607.1| RNA polymerase sigma factor RpoD [Peptoniphilus harei ACS-146-V-Sch2b] gi|312845120|gb|EFR32521.1| RNA polymerase sigma factor RpoD [Peptoniphilus harei ACS-146-V-Sch2b] Length = 362 Score = 113 bits (282), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 136/276 (49%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KI +L +EE +AKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 96 YLKEIGKISLLTAEEEVEIAKRM-EEGDELAKKELAEANLRLVVSIAKRYVGRGMSFLDL 154 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 155 IQEGNLGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 214 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LN 187 Q++L +L R + + NL E+V I K E +S+ + +E L Sbjct: 215 RVQRQLVQDLGRDPLPEEIAAEMNLDVERVREIQK----IAQEPVSLETPIGEEEDSHLG 270 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D ++ D L+ + L + L RE+++ R Sbjct: 271 DFIPD---------DEILSPQDAATFTLL--------KEQLNTVLETLTDREKKVLTLRF 313 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 314 GLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLR 349 >gi|257464031|ref|ZP_05628416.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D12] Length = 436 Score = 113 bits (282), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 147/272 (54%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LAK+ E GD A RL+ ++LRLVV IA + GL + ++ Sbjct: 169 YLREIGQIPLLTHKEELELAKKALE-GDEFANKRLIEANLRLVVSIAKKHTNRGLKLLDL 227 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I T N+ + Sbjct: 228 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIK 287 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +LQ T + PE +A++L + +V S+ SL + S + Sbjct: 288 -----KEARIYLQE-TGKDATPE---ILAERLGMEVEKVKSIQEMNQDPISLETPVGSEE 338 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q ++ E NR R L + L+ RE ++ R ++ Sbjct: 339 --DSELGDFV------EDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDD 390 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F+V+RER+RQIE +A +K++ Sbjct: 391 GSPKTLEEVGKIFKVTRERIRQIEVKALRKLR 422 >gi|148469868|gb|ABQ65863.1| stationary sigma factor [Pseudomonas fluorescens] Length = 335 Score = 113 bits (282), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPE GFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPEHGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQREVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|323704675|ref|ZP_08116253.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323536137|gb|EGB25910.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 357 Score = 113 bits (282), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 90/269 (33%), Positives = 144/269 (53%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 91 YLKEIGKIPLLSPDEEIELAKRI-EKGDEEAKKRLTEANLRLVVSIAKRYVGRGMLFLDL 149 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KF+ +GF+ +TY+ WWI+ A+ I ++I T N + Sbjct: 150 IQEGNLGLLKAVEKFNYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--K 207 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R+L LQ + + L PE+ IAK++++S +V + ++A E ++ + Sbjct: 208 LIRVSRQL---LQELGRDPL-PEE---IAKEMDMSVDKVREI-MKIA-QEPVSLETPIGE 258 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ + K + L + L PRE ++ R ++ Sbjct: 259 EEDSHLGDFIPDEDAPAPAEAAAFTMLKEQ---LIDVLDTLTPREEKVLRLRFGLDDGRA 315 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 316 RTLEEVGKEFNVTRERIRQIEAKALRKLR 344 >gi|257467207|ref|ZP_05631518.1| RNA polymerase sigma factor rpoD [Fusobacterium gonidiaformans ATCC 25563] gi|315918337|ref|ZP_07914577.1| RNA polymerase sigma factor rpoD [Fusobacterium gonidiaformans ATCC 25563] gi|313692212|gb|EFS29047.1| RNA polymerase sigma factor rpoD [Fusobacterium gonidiaformans ATCC 25563] Length = 352 Score = 113 bits (282), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 147/272 (54%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LAK+ E GD A RL+ ++LRLVV IA + GL + ++ Sbjct: 85 YLREIGQIPLLTHKEELELAKKALE-GDEFANKRLIEANLRLVVSIAKKHTNRGLKLLDL 143 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I T N+ + Sbjct: 144 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIK 203 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +LQ T + PE +A++L + +V S+ SL + S + Sbjct: 204 -----KEARIYLQE-TGKDATPE---ILAERLGMEVEKVKSIQEMNQDPISLETPVGSEE 254 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q ++ E NR R L + L+ RE ++ R ++ Sbjct: 255 --DSELGDFV------EDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDD 306 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F+V+RER+RQIE +A +K++ Sbjct: 307 GSPKTLEEVGKIFKVTRERIRQIEVKALRKLR 338 >gi|307705133|ref|ZP_07642010.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK597] gi|307621329|gb|EFO00389.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK597] Length = 369 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 143/270 (52%), Gaps = 21/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|74316856|ref|YP_314596.1| RNA polymerase sigma factor RpoS [Thiobacillus denitrificans ATCC 25259] gi|74056351|gb|AAZ96791.1| RNA polymerase sigma-70 factor [Thiobacillus denitrificans ATCC 25259] Length = 316 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 84/258 (32%), Positives = 138/258 (53%), Gaps = 15/258 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI + P+L EE LA+R GD A ++ +LRLVV IA Y GL + ++ Sbjct: 49 YLNEIGQAPLLTAAEEVALARRTV-LGDFEARQTMIERNLRLVVNIAKHYANRGLTLLDL 107 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL+ A++KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 108 VEEGNLGLIHALEKFDPERGFRFSTYATWWIRQNIERAIMNQSRTIRLPVHI-IKELNIY 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + HL+ + + + A+ ++ +N R+A SL+A ++ S Sbjct: 167 LRAQR-HLETHGVTDATSDDIAALTGHPVADVRRIMQLNERIA---SLDAPLDVDPTLS- 221 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN---PVTL 255 + + D+ +++ EE +N + ++ LN ++R + E RR N TL Sbjct: 222 -LGEAIADDNAHLPDEMLQLEEIENH---VQEWLTQLNDKQRWVIE-RRFGLNGCEACTL 276 Query: 256 ENLSSEFEVSRERVRQIE 273 E+L+ E EV+RERVRQI+ Sbjct: 277 EDLALELEVTRERVRQIQ 294 >gi|283769573|ref|ZP_06342469.1| RNA polymerase sigma factor RpoD [Bulleidia extructa W1219] gi|283103841|gb|EFC05227.1| RNA polymerase sigma factor RpoD [Bulleidia extructa W1219] Length = 413 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 84/270 (31%), Positives = 139/270 (51%), Gaps = 22/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L+ EE +AK+ E GD A + L++S+LRLVV IA Y G G+ ++ Sbjct: 145 YLKEIGRVPLLKASEEIEIAKKI-EQGDEEARNVLISSNLRLVVSIAKKYVGRGMQFLDL 203 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 204 IQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 261 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK-- 195 L R++ L PE++ A + ++ + I ++A D SL I D Sbjct: 262 LTRVERSLVQELSREPTPEEISACLEGISADKVREIK---KIALDPVSLETPIGEEDDSH 318 Query: 196 --NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQEN 251 + + +D L D Q+L ++ + +S L RE ++ R Sbjct: 319 LGDFIEDKDALSPDQYASNQLL---------KDEINDVLSGLTEREEKVLRLRFGLYDGR 369 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 370 TRTLEEVGREFNVTRERIRQIEAKALRKLK 399 >gi|83815083|ref|YP_446059.1| RNA polymerase sigma-70 factor [Salinibacter ruber DSM 13855] gi|83756477|gb|ABC44590.1| RNA polymerase sigma-70 factor [Salinibacter ruber DSM 13855] Length = 313 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 94/286 (32%), Positives = 156/286 (54%), Gaps = 37/286 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI KI +LE +EE LA+R E GD A H+L ++LR VV +A Y+G GL + Sbjct: 44 LDQYLQEIGKIDLLEPEEEVELARRI-EDGDEEALHKLCRANLRFVVSVAKKYQGQGLSL 102 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 +++++EGN GL++A K+FD RGF+ +Y++WWI+ A+ Q ++R L +IGT Sbjct: 103 ADLINEGNYGLIKAAKRFDETRGFKFISYAVWWIRQAILQALAEQSRVVR-LPLNRIGTI 161 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES--EVISMNCRLAGDESLN 187 + +R+ LQ D + KP + + E + R S++ Sbjct: 162 S-------KIRKASARLQ--QDLDRKPNIEELAEELEIDVQKVREAMKHTSRHL---SMD 209 Query: 188 ALINSSDKNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 A N D NS D L D+D ++ ++ + + + + R++S L+ RE I Sbjct: 210 APFNEEDDNS--LLDVLPDEDNDSPDEEMLSESVKID----IERALSALHDREAEIT--- 260 Query: 247 RL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RL +E+P+TLE + F+++RERVRQI+ +A +K+++ KQ Sbjct: 261 RLYFGIGREHPLTLEEIGKRFDLTRERVRQIKEKALRKLRQRHSKQ 306 >gi|295132793|ref|YP_003583469.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] gi|294980808|gb|ADF51273.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] Length = 287 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 82/287 (28%), Positives = 152/287 (52%), Gaps = 37/287 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDNRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 + F L + ++ +P IAK+L+++ ++V S++A Sbjct: 136 NKINKTFAFLEQ----------SHERPPSAEEIAKELDMTINDVKESMKNSGRHVSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+ D N +YD G+ + ++ R + R++ L PRE + Sbjct: 186 LVEGEDSN--------LYDVLRSGESPNPDKDLLHESLRTEIERALETLTPREADVI--- 234 Query: 247 RL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 RLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|307706485|ref|ZP_07643293.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK321] gi|307708623|ref|ZP_07645087.1| RNA polymerase sigma factor RpoD [Streptococcus mitis NCTC 12261] gi|307615372|gb|EFN94581.1| RNA polymerase sigma factor RpoD [Streptococcus mitis NCTC 12261] gi|307618125|gb|EFN97284.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK321] Length = 369 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 146/274 (53%), Gaps = 29/274 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|270292885|ref|ZP_06199096.1| RNA polymerase sigma-70 factor [Streptococcus sp. M143] gi|306825379|ref|ZP_07458719.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|315613017|ref|ZP_07887928.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis ATCC 49296] gi|322374450|ref|ZP_08048964.1| RNA polymerase sigma-70 factor [Streptococcus sp. C300] gi|331266528|ref|YP_004326158.1| RNA polymerase sigma factor RpoD (sigma-70 factor, Sigma-A) [Streptococcus oralis Uo5] gi|270278864|gb|EFA24710.1| RNA polymerase sigma-70 factor [Streptococcus sp. M143] gi|304432317|gb|EFM35293.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|315315127|gb|EFU63168.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis ATCC 49296] gi|321279950|gb|EFX56989.1| RNA polymerase sigma-70 factor [Streptococcus sp. C300] gi|326683200|emb|CBZ00818.1| RNA polymerase sigma factor RpoD (sigma-70 factor, Sigma-A) [Streptococcus oralis Uo5] Length = 369 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 146/274 (53%), Gaps = 29/274 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|225570457|ref|ZP_03779482.1| hypothetical protein CLOHYLEM_06558 [Clostridium hylemonae DSM 15053] gi|225160654|gb|EEG73273.1| hypothetical protein CLOHYLEM_06558 [Clostridium hylemonae DSM 15053] Length = 370 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 135/273 (49%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LAKR + GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLTADEEVDLAKRMAD-GDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLIKAVEKFDYHKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 L R+ L PE++ A + + L +S+ E +S+ + +E Sbjct: 221 LIRVSRQLLQELGREPTPEEIAAELDMPVERVREILKISQ-EPVSLETPIGEEE------ 273 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D++ D V E + + L + L RE+++ R Sbjct: 274 ------DSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMN 324 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 325 DGRARTLEEVGKEFDVTRERIRQIEAKALRKLR 357 >gi|255535549|ref|YP_003095920.1| RNA polymerase sigma factor RpoD [Flavobacteriaceae bacterium 3519-10] gi|255341745|gb|ACU07858.1| RNA polymerase sigma factor RpoD [Flavobacteriaceae bacterium 3519-10] Length = 294 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 80/290 (27%), Positives = 154/290 (53%), Gaps = 43/290 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA++ R GD A +L+ ++LR VV ++ Y+ GL + Sbjct: 24 LDKYLQEIGKVDLITADEEVDLAQKIR-AGDRVALEKLIKANLRFVVSVSKQYQNQGLSL 82 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GLM+A K++D RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 83 PDLINEGNLGLMKAAKRYDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNKIGS 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL--AGD 183 + + HL+ + PE+ +A+ L++SE ++ +SM+ L D Sbjct: 141 INKINKAYAHLEQENERPPSPEE---LAEVLDMSEDDIKESMKNSGRHLSMDAPLVEGED 197 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +L ++ S + S + L E + IE E R++ L PRE + Sbjct: 198 SNLYDVLRSGESPSPDKELML-------ESLQIEIE----------RALQTLTPREADLV 240 Query: 244 EARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++P+TLE + F+++RERVRQI+ +A K+++ + + ++ Sbjct: 241 ---RLYFGLNGKHPMTLEEIGETFDLTRERVRQIKEKAIKRLKHNTRSKI 287 >gi|319745370|gb|EFV97681.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus agalactiae ATCC 13813] Length = 380 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 113 YLKEIGVVPLLTNEEEKELAVAVAE-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 171 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 172 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 229 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 230 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 283 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 284 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 337 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 338 RTLEDVGKVFNVTRERIRQIEAKALRKLR 366 >gi|293365255|ref|ZP_06611972.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus oralis ATCC 35037] gi|306829363|ref|ZP_07462553.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus mitis ATCC 6249] gi|291316705|gb|EFE57141.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus oralis ATCC 35037] gi|304428449|gb|EFM31539.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus mitis ATCC 6249] Length = 369 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 146/274 (53%), Gaps = 29/274 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|227536516|ref|ZP_03966565.1| RNA polymerase sigma-70 factor [Sphingobacterium spiritivorum ATCC 33300] gi|300773589|ref|ZP_07083458.1| DNA-directed RNA polymerase sigma subunit RpoD [Sphingobacterium spiritivorum ATCC 33861] gi|227243593|gb|EEI93608.1| RNA polymerase sigma-70 factor [Sphingobacterium spiritivorum ATCC 33300] gi|300759760|gb|EFK56587.1| DNA-directed RNA polymerase sigma subunit RpoD [Sphingobacterium spiritivorum ATCC 33861] Length = 286 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 79/276 (28%), Positives = 151/276 (54%), Gaps = 16/276 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+HEI K+ ++ +EE +LA+R RE GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLHEIGKVDLITAEEEVILAQRIRE-GDQVALEKLTKTNLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD +GF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 GDLINEGNLGLIKAAKRFDETKGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + L+ + PE++ I + S+ +S + R S++A ++ Sbjct: 135 LSKISKAFSKLEQEYEREPSPEELADILETTVDKVSDTLSNSGRHV---SMDAPFVQGEE 191 Query: 196 NSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN-P 252 N+ D L +D D ++ E + + RS++ L RER I L N Sbjct: 192 NT--LLDVLENHDPDTDSSLIDESLSEE-----IKRSLATLTEREREIIVLFFGLGSNHQ 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++LE + +F ++RERVRQI+ +A ++++ + + ++ Sbjct: 245 LSLEEIGEKFNLTRERVRQIKDKALQRLRHTSRSKI 280 >gi|213029652|ref|ZP_03344099.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 322 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 83/270 (30%), Positives = 134/270 (49%), Gaps = 25/270 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ E ++RERVRQI+ + V Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRAV 313 >gi|307709167|ref|ZP_07645626.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK564] gi|307620113|gb|EFN99230.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK564] Length = 369 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 146/274 (53%), Gaps = 29/274 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|307703796|ref|ZP_07640737.1| RNA polymerase sigma factor RpoD [Streptococcus oralis ATCC 35037] gi|307622631|gb|EFO01627.1| RNA polymerase sigma factor RpoD [Streptococcus oralis ATCC 35037] Length = 318 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 143/270 (52%), Gaps = 21/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 51 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 109 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 110 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 167 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 168 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 221 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 222 SHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 275 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 276 RTLEDVGKVFNVTRERIRQIEAKALRKLRQ 305 >gi|6175921|gb|AAF05336.1|AF182103_2 RNA polymerase sigma subunit [Escherichia coli] Length = 313 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 82/270 (30%), Positives = 135/270 (50%), Gaps = 25/270 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLPAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ E ++RERVRQI+ +++ Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRL 313 >gi|237744142|ref|ZP_04574623.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 7_1] gi|229431371|gb|EEO41583.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 7_1] Length = 417 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 146/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AKR E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 150 YLREIGQVPLLTHDEEIEYAKRAYE-GDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDL 208 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 209 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 263 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 264 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVDKIKAIQEMNQEPISLETPVGSEE 319 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q E NR R L + L+PRE ++ R ++ Sbjct: 320 --DSELGDFV------EDQKTTSPYEATNRAILREELDAVLKTLSPREEKVLRYRYGLDD 371 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 372 SSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 409 >gi|322376488|ref|ZP_08050981.1| RNA polymerase sigma-70 factor [Streptococcus sp. M334] gi|321282295|gb|EFX59302.1| RNA polymerase sigma-70 factor [Streptococcus sp. M334] Length = 369 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 146/274 (53%), Gaps = 29/274 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|294501280|ref|YP_003564980.1| RNA polymerase sigma factor [Bacillus megaterium QM B1551] gi|295706627|ref|YP_003599702.1| RNA polymerase sigma factor [Bacillus megaterium DSM 319] gi|294351217|gb|ADE71546.1| RNA polymerase sigma factor [Bacillus megaterium QM B1551] gi|294804286|gb|ADF41352.1| RNA polymerase sigma factor [Bacillus megaterium DSM 319] Length = 377 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 136/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVDLLSAEEEINLAKRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 170 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 229 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 230 RVQRQLLQDLGREPSPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 285 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 286 DFIEDQDATSPS-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 328 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 329 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 363 >gi|256027745|ref|ZP_05441579.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D11] gi|260494274|ref|ZP_05814405.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_33] gi|289765702|ref|ZP_06525080.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D11] gi|260198420|gb|EEW95936.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_33] gi|289717257|gb|EFD81269.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D11] Length = 416 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 146/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AKR E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 149 YLREIGQVPLLTHDEEIEYAKRAYE-GDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDL 207 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 208 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 262 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 263 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVDKIKAIQEMNQEPISLETPVGSEE 318 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q E NR R L + L+PRE ++ R ++ Sbjct: 319 --DSELGDFV------EDQKTTSPYEATNRAILREELDAVLKTLSPREEKVLRYRYGLDD 370 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 371 SSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 408 >gi|15900942|ref|NP_345546.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae TIGR4] gi|15903023|ref|NP_358573.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae R6] gi|111657922|ref|ZP_01408632.1| hypothetical protein SpneT_02000898 [Streptococcus pneumoniae TIGR4] gi|116516638|ref|YP_816435.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae D39] gi|148985044|ref|ZP_01818287.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP3-BS71] gi|148989116|ref|ZP_01820506.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP6-BS73] gi|148994179|ref|ZP_01823494.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP9-BS68] gi|148998339|ref|ZP_01825781.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP11-BS70] gi|149003984|ref|ZP_01828792.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP14-BS69] gi|149006254|ref|ZP_01829966.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP18-BS74] gi|149013172|ref|ZP_01833989.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP19-BS75] gi|149019675|ref|ZP_01834994.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP23-BS72] gi|168483147|ref|ZP_02708099.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1873-00] gi|168487460|ref|ZP_02711968.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1087-00] gi|168488915|ref|ZP_02713114.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae SP195] gi|168494506|ref|ZP_02718649.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC3059-06] gi|168576202|ref|ZP_02722096.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae MLV-016] gi|169833634|ref|YP_001694498.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae Hungary19A-6] gi|182684177|ref|YP_001835924.1| RNA polymerase sigma factor [Streptococcus pneumoniae CGSP14] gi|221231817|ref|YP_002510969.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae ATCC 700669] gi|225854569|ref|YP_002736081.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae JJA] gi|225856717|ref|YP_002738228.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae P1031] gi|225858886|ref|YP_002740396.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae 70585] gi|225861039|ref|YP_002742548.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae Taiwan19F-14] gi|237650028|ref|ZP_04524280.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae CCRI 1974] gi|237821736|ref|ZP_04597581.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae CCRI 1974M2] gi|298230104|ref|ZP_06963785.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae str. Canada MDR_19F] gi|298255542|ref|ZP_06979128.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae str. Canada MDR_19A] gi|298502915|ref|YP_003724855.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pneumoniae TCH8431/19A] gi|303256088|ref|ZP_07342108.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae BS455] gi|303260611|ref|ZP_07346576.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP-BS293] gi|303263023|ref|ZP_07348956.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP14-BS292] gi|303264870|ref|ZP_07350786.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS397] gi|303266910|ref|ZP_07352787.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS457] gi|303269116|ref|ZP_07354896.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS458] gi|307067745|ref|YP_003876711.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus pneumoniae AP200] gi|307127396|ref|YP_003879427.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae 670-6B] gi|61234224|sp|P0A4I9|RPOD_STRPN RecName: Full=RNA polymerase sigma factor rpoD gi|61234230|sp|P0A4J0|RPOD_STRR6 RecName: Full=RNA polymerase sigma factor rpoD gi|2108331|emb|CAA72252.1| rpoD [Streptococcus pneumoniae] gi|14972548|gb|AAK75186.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae TIGR4] gi|15458593|gb|AAK99783.1| RNA polymerase sigmA FACTOR 70 [Streptococcus pneumoniae R6] gi|116077214|gb|ABJ54934.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae D39] gi|147755736|gb|EDK62781.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP11-BS70] gi|147758043|gb|EDK65049.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP14-BS69] gi|147762031|gb|EDK68993.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP18-BS74] gi|147763023|gb|EDK69967.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP19-BS75] gi|147922742|gb|EDK73859.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP3-BS71] gi|147925339|gb|EDK76417.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP6-BS73] gi|147927422|gb|EDK78452.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP9-BS68] gi|147931050|gb|EDK82030.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP23-BS72] gi|168996136|gb|ACA36748.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae Hungary19A-6] gi|172043392|gb|EDT51438.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1873-00] gi|182629511|gb|ACB90459.1| RNA polymerase sigma factor [Streptococcus pneumoniae CGSP14] gi|183569691|gb|EDT90219.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1087-00] gi|183572434|gb|EDT92962.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae SP195] gi|183575600|gb|EDT96128.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC3059-06] gi|183577989|gb|EDT98517.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae MLV-016] gi|220674277|emb|CAR68818.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae ATCC 700669] gi|225720127|gb|ACO15981.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae 70585] gi|225722225|gb|ACO18078.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae JJA] gi|225725305|gb|ACO21157.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae P1031] gi|225728137|gb|ACO23988.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae Taiwan19F-14] gi|298238510|gb|ADI69641.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pneumoniae TCH8431/19A] gi|301794192|emb|CBW36610.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae INV104] gi|301800046|emb|CBW32640.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae OXC141] gi|301802035|emb|CBW34765.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae INV200] gi|302596935|gb|EFL64061.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae BS455] gi|302635850|gb|EFL66352.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP14-BS292] gi|302638261|gb|EFL68731.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP-BS293] gi|302641365|gb|EFL71732.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS458] gi|302643543|gb|EFL73813.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS457] gi|302645558|gb|EFL75789.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS397] gi|306409282|gb|ADM84709.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus pneumoniae AP200] gi|306484458|gb|ADM91327.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae 670-6B] gi|327389372|gb|EGE87717.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA04375] gi|332073431|gb|EGI83910.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17570] gi|332075028|gb|EGI85499.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17545] gi|332075404|gb|EGI85873.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41301] gi|332200548|gb|EGJ14620.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41317] gi|332201555|gb|EGJ15625.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47368] gi|332202930|gb|EGJ16998.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47901] Length = 369 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 146/274 (53%), Gaps = 29/274 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|317061552|ref|ZP_07926037.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D12] gi|313687228|gb|EFS24063.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D12] Length = 363 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 147/272 (54%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LAK+ E GD A RL+ ++LRLVV IA + GL + ++ Sbjct: 96 YLREIGQIPLLTHKEELELAKKALE-GDEFANKRLIEANLRLVVSIAKKHTNRGLKLLDL 154 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I T N+ + Sbjct: 155 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIK 214 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +LQ T + PE +A++L + +V S+ SL + S + Sbjct: 215 -----KEARIYLQE-TGKDATPE---ILAERLGMEVEKVKSIQEMNQDPISLETPVGSEE 265 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q ++ E NR R L + L+ RE ++ R ++ Sbjct: 266 --DSELGDFV------EDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDD 317 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F+V+RER+RQIE +A +K++ Sbjct: 318 GSPKTLEEVGKIFKVTRERIRQIEVKALRKLR 349 >gi|58257340|gb|AAK30051.2| RpoS sigma factor [Pseudomonas fluorescens] Length = 335 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 83/273 (30%), Positives = 146/273 (53%), Gaps = 19/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYL 185 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKN 196 R L D+ PE++ + +K ++ +N R++ D SL+ SDK Sbjct: 186 GAAR---ELTQKLDHEPSPEEIANMLEKPVTEVKRMLGLNERVSSVDVSLDP---DSDKT 239 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPV 253 D L D ++++++ + + +S L ++R + R R E+ Sbjct: 240 V---LDTLTDDRPTDRCEVLQEDDLSQG---IDQWLSELTEKQREVVVRRFGLRGHESS- 292 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE++ E ++RERVRQI+ K+++E ++K Sbjct: 293 TLEDVGLEIGLTRERVRQIQIEGLKRLREILEK 325 >gi|240147091|ref|ZP_04745692.1| RNA polymerase sigma factor RpoD [Roseburia intestinalis L1-82] gi|257200737|gb|EEU99021.1| RNA polymerase sigma factor RpoD [Roseburia intestinalis L1-82] gi|291536629|emb|CBL09741.1| RNA polymerase, sigma 70 subunit, RpoD [Roseburia intestinalis M50/1] Length = 397 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 88/279 (31%), Positives = 141/279 (50%), Gaps = 41/279 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 131 YLKEIGKVPLLSAEEEIELAKRM-ELGDQEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 189 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 190 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 249 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + N+ E+V I L +S+ E +S+ + +E Sbjct: 250 RVSRQLLQELGREPTPEEIAAEMNMPVERVREI---LKISQ-EPVSLETPIGEEE----- 300 Query: 190 INSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 S D++ D+ D L+ + L + L RE+++ Sbjct: 301 -------DSHLGDFIQDDNVPVPADAAAFTLL--------KEQLEEVLGTLTEREQKVLT 345 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E+ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 346 LRFGLEDGRARTLEEVGREFNVTRERIRQIEAKALRKLR 384 >gi|269101863|ref|ZP_06154560.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] gi|268161761|gb|EEZ40257.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] Length = 333 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 83/267 (31%), Positives = 144/267 (53%), Gaps = 15/267 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 61 YLGEIGFSPLLTAEEEVLYARRAL-RGDDVARKRMIESNLRLVVKISRRYSNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 120 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 178 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E + +K + ++ +N R++ + N + +DK Sbjct: 179 LRTARELAQKL-DHEPTAEDIAIQLEKPVDDVNRMLRLNERVSSVD--NPISGDADK--- 232 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 D + + G +V + ++ K+ + + LNP++R + ARR L TL Sbjct: 233 ALLDIIPDEKGGTPEVSTQTDDIKSS---IVDWLDELNPKQREVL-ARRFGLLGYEASTL 288 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQE 282 E++ E ++RERVRQI+ +++++ Sbjct: 289 EDVGREIGLTRERVRQIQVEGLRRLRD 315 >gi|19704653|ref|NP_604215.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|19714957|gb|AAL95514.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] Length = 331 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 147/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE AK+ E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 64 YLREIGQVPLLTHEEEIDYAKKAYE-GDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 123 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 177 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 178 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVDKIKAIQEMNQEPISLETPVGSEE 233 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q E NR R L + L+PRE ++ R ++ Sbjct: 234 --DSELGDFV------EDQKTTSPYEATNRAILREELDAVLKTLSPREEKVLRYRYGLDD 285 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 286 SSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 323 >gi|289167835|ref|YP_003446104.1| DNA-dependent RNA Polymerase sigma factor rpoD [Streptococcus mitis B6] gi|288907402|emb|CBJ22239.1| DNA-dependent RNA Polymerase sigma factor rpoD [Streptococcus mitis B6] Length = 369 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 87/270 (32%), Positives = 142/270 (52%), Gaps = 21/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L PEQ IA+K++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQEYGQEPTPEQ---IAEKMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|257064907|ref|YP_003144579.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] gi|256792560|gb|ACV23230.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] Length = 314 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 85/291 (29%), Positives = 142/291 (48%), Gaps = 42/291 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------EHGDLS 48 Y+ +I K+ +L EE LAK+Y+ + Sbjct: 20 YLRDIGKVDLLTPAEEVELAKKYQTGLAAEAALAQMNEGSVEVDRRECRKLLRVQRAGQE 79 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA YRG GLP+ ++V EGN+GL++AV+KFD +GF+L+TY+ WW Sbjct: 80 AKDKLVAANLRLVVSIAKKYRGRGLPLLDLVQEGNLGLIRAVEKFDYTKGFKLSTYATWW 139 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ + L + R++ L + + P + IA +L + Sbjct: 140 IRQAVTRAIADKARTIRL--PVHVVGLMNKVVRVQHELADELERDPSPAE---IADRLGI 194 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V+ + +L G E L+ D +S+ D++ D + + R+ + Sbjct: 195 SEQCVVEL-LKL-GSEPLSLETPVGDDKTSEIGDFI---EDRNSEDAFDAAAEAMLRDDV 249 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAF 277 ++S L RER+I E R + P TL + + V+RER+RQIE++ Sbjct: 250 ASALSRLPERERKIIELRFGIVDGEPRTLAQIGDQLGVTRERIRQIESKTL 300 >gi|329117418|ref|ZP_08246135.1| RNA polymerase sigma factor RpoD [Streptococcus parauberis NCFD 2020] gi|326907823|gb|EGE54737.1| RNA polymerase sigma factor RpoD [Streptococcus parauberis NCFD 2020] Length = 369 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTGEEEKELAVAVDE-GDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|138896056|ref|YP_001126509.1| RNA polymerase sigma factor RpoD [Geobacillus thermodenitrificans NG80-2] gi|196248949|ref|ZP_03147649.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacillus sp. G11MC16] gi|134267569|gb|ABO67764.1| RNA polymerase sigma factor RpoD [Geobacillus thermodenitrificans NG80-2] gi|196211825|gb|EDY06584.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacillus sp. G11MC16] Length = 375 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 137/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVPLLSAEEEIELAKRI-EQGDEEAKRRLTEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPTPEEIAEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S +H E + + L + L RE + R Sbjct: 284 DFIEDQEATSPS-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 361 >gi|291541030|emb|CBL14141.1| RNA polymerase, sigma 70 subunit, RpoD [Roseburia intestinalis XB6B4] Length = 397 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 88/279 (31%), Positives = 141/279 (50%), Gaps = 41/279 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 131 YLKEIGKVPLLSAEEEIELAKRM-ELGDQEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 189 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 190 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 249 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + N+ E+V I L +S+ E +S+ + +E Sbjct: 250 RVSRQLLQELGREPTPEEIAAEMNMPVERVREI---LKISQ-EPVSLETPIGEEE----- 300 Query: 190 INSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 S D++ D+ D L+ + L + L RE+++ Sbjct: 301 -------DSHLGDFIQDDNVPVPADAAAFTLL--------KEQLEEVLGTLTEREQKVLT 345 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E+ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 346 LRFGLEDGRARTLEEVGREFNVTRERIRQIEAKALRKLR 384 >gi|146308041|ref|YP_001188506.1| RNA polymerase sigma factor RpoS [Pseudomonas mendocina ymp] gi|145576242|gb|ABP85774.1| RNA polymerase, sigma 38 subunit, RpoS [Pseudomonas mendocina ymp] Length = 335 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 145/272 (53%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ E++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSAEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSDLTDKQREVVVRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE + E ++RERVRQI+ A K+++E ++K Sbjct: 294 LEEVGQEIGLTRERVRQIQVEALKRLREILEK 325 >gi|239827752|ref|YP_002950376.1| RNA polymerase sigma factor RpoD [Geobacillus sp. WCH70] gi|239808045|gb|ACS25110.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. WCH70] Length = 374 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 138/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVPLLSAEEEIELAKRI-EQGDEEAKRRLTEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 227 RVQRQLLQDLGREPTPEEIAEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S +H E + + L + L RE + R Sbjct: 283 DFIEDQEATSPS-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 361 >gi|6175918|gb|AAF05334.1|AF182102_2 RNA polymerase sigma subunit [Escherichia coli] gi|6175933|gb|AAF05344.1|AF182107_2 RNA polymerase sigma subunit [Escherichia coli] Length = 313 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 82/270 (30%), Positives = 135/270 (50%), Gaps = 25/270 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ E ++RERVRQI+ +++ Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRL 313 >gi|327404710|ref|YP_004345548.1| RpoD subfamily RNA polymerase sigma-70 subunit [Fluviicola taffensis DSM 16823] gi|327320218|gb|AEA44710.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fluviicola taffensis DSM 16823] Length = 289 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 81/278 (29%), Positives = 147/278 (52%), Gaps = 27/278 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ ++ +EE LAKR + GD A RL ++LR VV ++ Y+ GL + Sbjct: 18 LDKYLQEIGRVELITAEEEVELAKRIK-AGDKRALERLTKANLRFVVSVSKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV-----KIGTTA 130 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V KIGT Sbjct: 77 PDLINEGNLGLIKAAERFDETRGFKFISYAVWWIRQSILQALAEQARIVRLPLNKIGTIN 136 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R + L ++ +P +A+ L S +V A S++A + Sbjct: 137 KINRAYSELEQVYE----------RPPSADELAEFLECSVEDVRQSLANTARHLSMDAPL 186 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-- 248 D++SS D L D + + KE + R + RS+S L+ RE + RL Sbjct: 187 VDGDESSSSMYDVLPNDALPSPENELNKE---SLRKEIERSLSSLSGREGDVV---RLYY 240 Query: 249 ---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 ++ +TLE + F+++RERVRQI+ +A ++++ + Sbjct: 241 GLNGKHALTLEEIGDLFDLTRERVRQIKEKAIRRLKHT 278 >gi|319892618|ref|YP_004149493.1| RNA polymerase sigma factor RpoD [Staphylococcus pseudintermedius HKU10-03] gi|317162314|gb|ADV05857.1| RNA polymerase sigma factor RpoD [Staphylococcus pseudintermedius HKU10-03] gi|323464344|gb|ADX76497.1| RNA polymerase sigma factor SigA [Staphylococcus pseudintermedius ED99] Length = 369 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVDLLSAQEEIELAKRI-EQGDEVAKARLAEANLRLVVSIAKRYVGRGMLFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 162 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 221 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 222 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 277 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 278 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 320 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 321 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 355 >gi|269123266|ref|YP_003305843.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptobacillus moniliformis DSM 12112] gi|268314592|gb|ACZ00966.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptobacillus moniliformis DSM 12112] Length = 379 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 89/273 (32%), Positives = 143/273 (52%), Gaps = 38/273 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L+ +EE+ LA+R E GD A +L+ S+LRLVV IA + GL + ++ Sbjct: 112 YLREIGQIPLLKSEEEFELARRIGE-GDERAKQQLMESNLRLVVSIAKKHTNRGLKLLDL 170 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 171 IQEGNIGLMKAVEKFESDKGFKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 225 Query: 139 LRRLKG----HLQAI----TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + ++K HLQ TD+ L + + K N+ E MN SL + Sbjct: 226 INKIKKASRIHLQETGKEPTDDYLAEIVEMPVEKVKNILE-----MNQDPI---SLETPV 277 Query: 191 NSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 S D S+ D++ D H+ + ++ K + N + R LN RE ++ Sbjct: 278 GSED--DSELGDFVEDDKFLNPHEATVRSVL-----KEKLNDVLRKE--LNEREEQVLRL 328 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 R ++ P TLE + F+V+RER+RQIE +A Sbjct: 329 RYGLDDGAPKTLEEVGKIFDVTRERIRQIEVKA 361 >gi|168491966|ref|ZP_02716109.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC0288-04] gi|183573791|gb|EDT94319.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC0288-04] Length = 369 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 146/274 (53%), Gaps = 29/274 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|322391830|ref|ZP_08065295.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus peroris ATCC 700780] gi|321145310|gb|EFX40706.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus peroris ATCC 700780] Length = 381 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 143/270 (52%), Gaps = 21/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGVVPLLTNEEEKELALAV-EAGDVEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 173 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 230 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 231 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 284 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 285 SHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 338 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 339 RTLEDVGKVFNVTRERIRQIEAKALRKLRQ 368 >gi|193212077|ref|YP_001998030.1| RNA polymerase sigma 32 subunit RpoH [Chlorobaculum parvum NCIB 8327] gi|193085554|gb|ACF10830.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobaculum parvum NCIB 8327] Length = 299 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 91/304 (29%), Positives = 159/304 (52%), Gaps = 45/304 (14%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L ++E L +E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTAEDEVKLTMAIKEGYDMPVDTVEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N K +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EYERDPNTKE-----LANLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-- 227 S+ ++ ++AG S++A D N + D L D + L NR ++ Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDN--RLLDVLQNDGHMPDHTL-------NRDSLTL 228 Query: 228 -LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + RS+SVL PRE + + ENP+TLE + +F+++RERVRQI+ +A +++++S Sbjct: 229 EVERSLSVLAPREADVIRSYFGIGMENPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSA 288 Query: 285 QKQV 288 K+V Sbjct: 289 YKEV 292 >gi|322387734|ref|ZP_08061343.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus infantis ATCC 700779] gi|321141601|gb|EFX37097.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus infantis ATCC 700779] Length = 369 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 87/270 (32%), Positives = 142/270 (52%), Gaps = 21/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDVEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L PEQ IA+K++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQEYGQEPTPEQ---IAEKMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE++ F V+RER+RQIEA+A +K+++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLRQ 356 >gi|261879347|ref|ZP_06005774.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] gi|270334050|gb|EFA44836.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] Length = 290 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 141/277 (50%), Gaps = 12/277 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L RY+ EI ++PM+ EE LA+ R+ G A +LV ++LR VV +A Y+ G Sbjct: 17 ALDRYLVEIGRVPMITVDEEIELAQAIRKGGKEGERAKEKLVKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LGLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L ++ + N +P V +A+ N+ E+++ S++A Sbjct: 135 ---VGALSKINAEISKFEQENHRPPSVQELARLTNIEEAKIEQTMKADNHHMSIDAPFQE 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQEN 251 D NS D L D + ++ E + + T +VL RER I E + + Sbjct: 192 DDDNS--MADVLSSGDDSRADRQVDYESMS--KELDTVLCNVLKERERTIVRECFGIGCH 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 LE + + ++RERVRQI ++ K++ES Q+ Sbjct: 248 EKGLEEIGDQLGLTRERVRQIREKSIVKLRESGHAQL 284 >gi|295399207|ref|ZP_06809189.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|312110191|ref|YP_003988507.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y4.1MC1] gi|294978673|gb|EFG54269.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|311215292|gb|ADP73896.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y4.1MC1] Length = 377 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 138/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVPLLSAEEEIELAKRI-EQGDEEAKRRLTEANLRLVVSIAKRYVGRGMLFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 170 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 229 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 230 RVQRQLLQDLGREPTPEEIAEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 285 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S +H E + + L + L RE + R Sbjct: 286 DFIEDQEATSPS-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 328 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 329 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 364 >gi|312865945|ref|ZP_07726166.1| RNA polymerase sigma factor RpoD [Streptococcus downei F0415] gi|311098349|gb|EFQ56572.1| RNA polymerase sigma factor RpoD [Streptococcus downei F0415] Length = 338 Score = 112 bits (281), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 71 YLKEIGIVPLLTNEEEKELAIAAAE-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 129 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 130 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 187 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 188 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 241 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 242 SHLGDFI------EDEVIENPVDYTTRIVLREQLNEVLDTLTDREENVLRLRFGLDDGKM 295 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 296 RTLEDVGKVFNVTRERIRQIEAKALRKLR 324 >gi|254302832|ref|ZP_04970190.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] gi|148323024|gb|EDK88274.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] Length = 418 Score = 112 bits (281), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 146/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AKR E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 151 YLREIGQVPLLTHDEEIEYAKRAYE-GDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDL 209 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 210 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 264 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 265 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVEKIKAIQEMNQEPISLETPVGSEE 320 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q E NR R L + L+PRE ++ R ++ Sbjct: 321 --DSELGDFV------EDQKTTSPYEATNRAILREELDAVLKTLSPREEKVLRYRYGLDD 372 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 373 SSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 410 >gi|282858973|ref|ZP_06268111.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] gi|282588253|gb|EFB93420.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] Length = 286 Score = 112 bits (281), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 155/293 (52%), Gaps = 40/293 (13%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 NR++MS L +Y+ EI +L +EE LA+R R+ GD A RL ++LR V Sbjct: 12 NRESMS--------LDKYLQEIGNEELLTPEEEVELAQRIRK-GDKKALERLTRANLRFV 62 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V +A Y+ G+ + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + I Sbjct: 63 VSVAKQYQTQGIDLPDLINEGNMGLIKAAKRFDETRGFKFISYAVWWIRQSILQAIAAQG 122 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV-------- 173 L+++ ANQ + + R+ L N + + +A+++++SE + Sbjct: 123 RLIRL--PANQIGVVNKITRI---LNKFEQENERIPNIDELAREVDLSEEHIEDALSLSF 177 Query: 174 --ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +SM+ DE ++ L N LV D +E++ +R+ Sbjct: 178 RQVSMDSPFKDDEGVSLLDVMPSTNVPSTDKSLV-DESLKEEI--------------SRA 222 Query: 232 MSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +L+ RE+++ A + + ++LE + +F +SRERVRQI+ +A + ++++ Sbjct: 223 LKILSEREQKVLCAYYGIGQLEMSLEEIGDKFGLSRERVRQIKEKAIRNLRKA 275 >gi|288574624|ref|ZP_06392981.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] gi|288570365|gb|EFC91922.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] Length = 381 Score = 112 bits (281), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 138/279 (49%), Gaps = 41/279 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI IP+L + +E LAKR E GD A +L+ ++LRLVV IA Y G G+ ++ Sbjct: 115 YLREIGTIPLLNQPQEVELAKRV-EMGDDEAKSQLIEANLRLVVSIAKKYMGRGMLFLDL 173 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD RG++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 174 IQEGNLGLIRAVEKFDYSRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVM 233 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 + L +L R + + ++P +VV I K E IS+ + D L Sbjct: 234 RASRNLVQSLGREPTDEEIAAEMGIEPAKVVQIRK----VAQEPISLESPVGEEDDSELG 289 Query: 188 ALINSSD---KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 I D + S ++L R+ L + L RE+++ Sbjct: 290 DFIEDKDMISPDDSTSMEFL--------------------RDQLDDVLEGLTDREKQVLR 329 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++ TLE++ F V+RER+RQIEA+A +K++ Sbjct: 330 LRFGFDDGQCYTLEDVGRRFGVTRERIRQIEAKALRKLR 368 >gi|156975281|ref|YP_001446188.1| hypothetical protein VIBHAR_03010 [Vibrio harveyi ATCC BAA-1116] gi|156526875|gb|ABU71961.1| hypothetical protein VIBHAR_03010 [Vibrio harveyi ATCC BAA-1116] Length = 287 Score = 112 bits (281), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 89/278 (32%), Positives = 144/278 (51%), Gaps = 19/278 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y ++I K +L +E A+R + GD A R++ S+LRLVV IA Y+G GL ++ Sbjct: 21 YFNDIGKYALLSADDEREYARRAK-MGDADARTRMINSNLRLVVNIAKRYKGRGLTFLDL 79 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLF 136 +SEGNIGLM+AV+KFDPE+GFR +TY+ WI+ +++ ++ V++ N+ KR Sbjct: 80 ISEGNIGLMRAVEKFDPEKGFRFSTYATHWIRQSIERELMNQARTVRLPVHINKELKRYV 139 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + L Q IT + IA L + S V+ L D+S +L + DK Sbjct: 140 KATKELSQKTQTITPRD--------IADHLEIPVSSVLK---HLEFDKSTISLDSYQDKE 188 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQEN-PVT 254 ++ + H + L + E N ML + + L P + I R L N P + Sbjct: 189 EAKPLAETMACHRLRCPEL--ELEEDNAFLMLLQWIEELEPDLKLILTRRYGLDGNTPTS 246 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 L+ + +E SRER+R ++ + KK+Q ++ K + +S Sbjct: 247 LDTVGTELGYSRERIRHLQMQGIKKLQ-NLAKNIPVSG 283 >gi|121998209|ref|YP_001002996.1| RpoD family RNA polymerase sigma factor [Halorhodospira halophila SL1] gi|121589614|gb|ABM62194.1| RNA polymerase, sigma 38 subunit, RpoS [Halorhodospira halophila SL1] Length = 336 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 144/274 (52%), Gaps = 21/274 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI +L +EE LA+R + GD +A R++ S+LRLVVKIA Y GL ++ Sbjct: 68 YLNEIGHASLLTAEEEVALARRV-QQGDAAARARMIESNLRLVVKIARRYMNRGLAFLDL 126 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK--IGTTANQKRLF 136 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ ++ I + Sbjct: 127 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERGIMNQTRTIRLPIHVIKEINQYL 186 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 RRL L + +P V IA + S +V M G S++ I K+ Sbjct: 187 RTQRRLTQTL------DHEP-TVDEIADAMGRSPEDVRRMRGLNEGTTSVDVPIG---KD 236 Query: 197 SSQ-WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--- 252 S + D + + G + ++E ++ L + L ++R + E RR N Sbjct: 237 SDRVLLDAIPDETQGMPENVLEDDDVVRH---LQDWLGFLTDKQRAVLE-RRFGLNGHER 292 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + ++ V+RERVRQI+ A ++++E +++ Sbjct: 293 YTLEQVGTQVGVTRERVRQIQIDALRRLRELMER 326 >gi|320547037|ref|ZP_08041336.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus equinus ATCC 9812] gi|320448322|gb|EFW89066.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus equinus ATCC 9812] Length = 369 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLSSEEEKELAVAV-AAGDLQAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++++S +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMSPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|149908704|ref|ZP_01897365.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70region 1.2 [Moritella sp. PE36] gi|149808246|gb|EDM68185.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70region 1.2 [Moritella sp. PE36] Length = 284 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 86/287 (29%), Positives = 146/287 (50%), Gaps = 29/287 (10%) Query: 15 GLSRYIHEIRKIP-MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 L Y++++ + +L K+EEY A E GD A R++ S+LRLV+ IA Y+ L Sbjct: 9 ALDVYMYQVNQSSKLLTKEEEYETAMASNE-GDEKARQRMIQSNLRLVINIAKRYQHTSL 67 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ- 132 P+ +++ EGN GL+ AV+KFD +GFR +TY++WWIK ++ +I+ +++ + Sbjct: 68 PLVDIIQEGNTGLIHAVEKFDATKGFRFSTYAVWWIKNNIERFIMNQSRTIRVPIHIGKV 127 Query: 133 -KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 KR+ R + LQ D V+ +A+ L + ++V + + SL+ I Sbjct: 128 YKRILKTAREQELDLQCNHD-------VMTLAEFLEMQYAQVNEVLSYYFNEASLDKTIV 180 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKE----ERKNRRNMLTRSMSVLNPRERRIFEAR- 246 + +S+ D L E I K E + L + L+ R+R+I E R Sbjct: 181 TDRDSSTALVDML-------EDYSICKPNDELEDADTLCYLNEVLGHLSERDRKIIELRF 233 Query: 247 -RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV-----QESIQKQ 287 +E+P+TL + +SRER+RQI + +K+ Q ++QKQ Sbjct: 234 GLGEEDPLTLHVIGERLSMSRERIRQIINLSLQKIQPELLQNTVQKQ 280 >gi|313608766|gb|EFR84582.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL F2-208] Length = 374 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 227 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361 >gi|119468990|ref|ZP_01612015.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonadales bacterium TW-7] gi|119447642|gb|EAW28909.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonadales bacterium TW-7] Length = 324 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 151/273 (55%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A++ + G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 53 YLGEIGFSPLLSAEEEVFFARKSLK-GCEASRKRMIESNLRLVVKIARRYNNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 112 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 170 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E++ K ++++ +N ++A S++ I +N S Sbjct: 171 LRTARELTQKL-DHEPTAEEIAECLDKPVEDVTKMLRLNEKIA---SVDMPIGG--ENDS 224 Query: 199 QWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVT 254 D L + +G E + + E K+ + + LN ++R + ARR L P T Sbjct: 225 VLLDILPDEKGNGPEGEVQDTEINKH----IVDWLGELNLKQREVL-ARRFGLLGYEPST 279 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE++ E ++RERVRQI+ A +++++ +Q++ Sbjct: 280 LEDVGREIGLTRERVRQIQVEALRRLKDILQQE 312 >gi|257869538|ref|ZP_05649191.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2] gi|257803702|gb|EEV32524.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2] Length = 368 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 135/273 (49%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVPLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + E VL +R+ N+L + + R R Sbjct: 277 DFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDREE--NVLRLRFGIDDGRTR------- 327 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 328 ------TLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|257867642|ref|ZP_05647295.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC30] gi|257873971|ref|ZP_05653624.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC10] gi|257876550|ref|ZP_05656203.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC20] gi|325571155|ref|ZP_08146727.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus casseliflavus ATCC 12755] gi|257801725|gb|EEV30628.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC30] gi|257808135|gb|EEV36957.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC10] gi|257810716|gb|EEV39536.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC20] gi|325156240|gb|EGC68426.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus casseliflavus ATCC 12755] Length = 368 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 135/273 (49%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVPLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + E VL +R+ N+L + + R R Sbjct: 277 DFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDREE--NVLRLRFGIDDGRTR------- 327 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 328 ------TLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|262282856|ref|ZP_06060623.1| RNA polymerase sigma factor RpoD [Streptococcus sp. 2_1_36FAA] gi|262261108|gb|EEY79807.1| RNA polymerase sigma factor RpoD [Streptococcus sp. 2_1_36FAA] Length = 370 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 86/268 (32%), Positives = 140/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLTNEEEQELAILV-EQGDTEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 220 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 273 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 274 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 327 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 328 RTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|304383342|ref|ZP_07365808.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] gi|304335510|gb|EFM01774.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] Length = 287 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 89/286 (31%), Positives = 160/286 (55%), Gaps = 21/286 (7%) Query: 9 IVNGEIG-LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I N E L +Y+ EI +L +EE LA+R R GD A +L ++LR VV +A Sbjct: 10 ITNRETASLEKYLQEIGHEELLTVEEEVELAQRIR-RGDRQALEKLTKANLRFVVSVAKQ 68 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y+ GL + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ Sbjct: 69 YQNQGLSLPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL- 127 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE---SEVISMNCRLAGDE 184 NQ ++ R+ L N + + IA K+N+S+ ++V+ +N R Sbjct: 128 -PLNQ---IGSVNRINKMLNRFEQENERRPSMEEIADKVNLSQEKVADVLKVNSRQV--- 180 Query: 185 SLNALINSSDKNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 S++A D+ S D L D ++ L+ R++ R + R++ VLN RER I Sbjct: 181 SVDAPFTEGDETS--LLDVLCNNDSPMADRELV----RESLREEINRTLQVLNERERNIV 234 Query: 244 EA-RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 EA + + TLE + ++F ++RERVRQI+ +A ++++++ + ++ Sbjct: 235 EAFFGINQGEKTLEEIGNKFGLTRERVRQIKEKAIRRLRQNTKSRL 280 >gi|300765597|ref|ZP_07075576.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N1-017] gi|300513698|gb|EFK40766.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N1-017] Length = 374 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 227 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361 >gi|116514229|ref|YP_813135.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|116093544|gb|ABJ58697.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] Length = 372 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 132/275 (48%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + +L +EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRFNLLTSEEEVALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLNA 188 L R++ + +PE++ A + + L V++ E +S+ + D L Sbjct: 223 LIRIQRQFLQDLGRDPEPEEIAAEMDLPVKKVREALKVAQ-EPVSLETPIGEEDDSHLGD 281 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-R 247 I D S + H E + ++ L + L RE + R Sbjct: 282 FIEDKDATSPEQ-------HAASEML----------KDQLAEVLDTLTDREENVLRLRFG 324 Query: 248 LQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + NP TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 LDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKLR 359 >gi|160872453|ref|ZP_02062585.1| RNA polymerase sigma factor RpoS [Rickettsiella grylli] gi|159121252|gb|EDP46590.1| RNA polymerase sigma factor RpoS [Rickettsiella grylli] Length = 330 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 94/277 (33%), Positives = 142/277 (51%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R GD A R++ S+LRLVVKIA Y GL ++ Sbjct: 62 YLNEIGFSPLLSAEEEVYYA-RLIAKGDQDARKRMIESNLRLVVKIARHYNNRGLQFLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM AV+KFDPERGFR +TY+ WW++ A++ I+ V++ Sbjct: 121 IEEGNLGLMHAVEKFDPERGFRFSTYATWWVRQAIERAIMNQARTVRLPIHV-------- 172 Query: 139 LRRLKGHLQAITDNNLKPEQVVA---IAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 ++ L +LQA + K + IAK L+ EV R+ G LN I S D Sbjct: 173 VKELNVYLQAARELTQKLDHKPTSDEIAKWLDRPFEEV----ERMLG---LNEHITSVDA 225 Query: 196 NSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQE 250 +S D + + D +E E +N R L + L+ +R + ARR L Sbjct: 226 PASSEADKPLLETLSDNRENDPEHILEGENLRKRLEGWLKQLSTNQREVI-ARRYGLLGC 284 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + +TLE + ++RERVRQI+ K +++ ++KQ Sbjct: 285 DRMTLEEVGEVIGLTRERVRQIQVEGLKTLRKIMEKQ 321 >gi|254495200|ref|ZP_05108124.1| RNA polymerase sigma-70 factor RpoD [Polaribacter sp. MED152] gi|85819552|gb|EAQ40709.1| RNA polymerase sigma-70 factor RpoD [Polaribacter sp. MED152] Length = 287 Score = 112 bits (280), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 83/296 (28%), Positives = 158/296 (53%), Gaps = 49/296 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQLIK-AGDQRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 +++ L + N +P IAKKL+++ ++V +SM+ Sbjct: 136 NKINKMYAFLEQ----------ENERPPSPEEIAKKLDMTVNDVKESMKNSGRHVSMDAP 185 Query: 180 L--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L D +L ++NS + + ++VL+ ++ R + R++ L P Sbjct: 186 LIEGEDSNLYDVLNSGESPNP-------------DRVLL----HESLRIEINRALETLTP 228 Query: 238 RERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELS 291 RE + + L E+ P+TLE + F+++RERVRQI+ +A ++++ + + ++ ++ Sbjct: 229 READVVKLYFGLGEHQPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILMT 284 >gi|16800559|ref|NP_470827.1| RNA polymerase sigma factor RpoD [Listeria innocua Clip11262] gi|116872885|ref|YP_849666.1| RNA polymerase sigma factor RpoD [Listeria welshimeri serovar 6b str. SLCC5334] gi|217964400|ref|YP_002350078.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Listeria monocytogenes HCC23] gi|290894216|ref|ZP_06557185.1| rpoD protein [Listeria monocytogenes FSL J2-071] gi|20140102|sp|Q92BQ6|RPOD_LISIN RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43 gi|16413964|emb|CAC96722.1| RNA polymerase sigma factor RpoD [Listeria innocua Clip11262] gi|116741763|emb|CAK20887.1| RNA polymerase sigma factor RpoD (Sigma-A) [Listeria welshimeri serovar 6b str. SLCC5334] gi|217333670|gb|ACK39464.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Listeria monocytogenes HCC23] gi|290556213|gb|EFD89758.1| rpoD protein [Listeria monocytogenes FSL J2-071] gi|307571035|emb|CAR84214.1| RNA polymerase sigma factor [Listeria monocytogenes L99] gi|313623755|gb|EFR93895.1| RNA polymerase sigma factor RpoD [Listeria innocua FSL J1-023] Length = 374 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 227 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361 >gi|90020900|ref|YP_526727.1| RNA polymerase sigma factor RpoS [Saccharophagus degradans 2-40] gi|89950500|gb|ABD80515.1| RNA polymerase sigma factor RpoS [Saccharophagus degradans 2-40] Length = 333 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 149/273 (54%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A++ + G ++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLNEIGFSPLLSAEEEVFFARKALK-GCEASRKRMIESNLRLVVKIARRYVNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN-SSDKNS 197 LR + Q + D+ PE++ + +K ++++N R+ S++ I SS+K Sbjct: 181 LRAARELSQKL-DHEPSPEEIATLLEKPLEDVERMLALNERVT---SMDVPIGPSSEKTV 236 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVT 254 V D D + V + +E + L + L+ ++R + ARR T Sbjct: 237 VD----TVADQDVSDPVELLQE--SDLSQSLDGWLDELSEKQREVV-ARRFGLRGHETST 289 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE + E ++RERVRQI+ A +++++ ++KQ Sbjct: 290 LEEVGKEIGLTRERVRQIQVEALRRLRDILEKQ 322 >gi|317495391|ref|ZP_07953760.1| RNA polymerase sigma factor RpoD [Gemella moribillum M424] gi|316914450|gb|EFV35927.1| RNA polymerase sigma factor RpoD [Gemella moribillum M424] Length = 361 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 91/270 (33%), Positives = 143/270 (52%), Gaps = 19/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS----AAHRLVTSHLRLVVKIAMGYRGYGLP 74 Y+ EI K+P+L K++E L+K E G S A L ++LRLVV IA Y G G+ Sbjct: 91 YLKEIGKVPLLSKEKELELSKII-ESGTESEKEQAKKDLAEANLRLVVSIAKRYVGRGML 149 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 150 FLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVE 207 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 L R++ L KPE+ IAKK+N++ +V + ++A + SL I Sbjct: 208 TINRLIRVQRQLLQDLGREPKPEE---IAKKMNMTPDKVREI-LKIAQEPVSLETPIGEE 263 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENP 252 D S D+ + D D Q V E + + L + L RE + + R L++ Sbjct: 264 D--DSHLGDF-IEDKDAQSPV--EHAANELLKEQLEEILETLTDREENVLKLRFGLKDGK 318 Query: 253 V-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + S F V+RER+RQIEA+A +K++ Sbjct: 319 THTLEEVGSAFGVTRERIRQIEAKAIRKLK 348 >gi|149370424|ref|ZP_01890113.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] gi|149355975|gb|EDM44532.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] Length = 288 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 81/277 (29%), Positives = 146/277 (52%), Gaps = 32/277 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ ++ KI M+ +EE LA+R RE GD A +L ++LR V+ +A Y+ GL + Sbjct: 18 LNSYLQDVSKIDMITAEEEVELAQRIRE-GDKRALDKLTRANLRFVISVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + I +V++ N+ Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNKIGD 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 +++ HLQ + + ++ IA +L+++ S V ISM+ E+ Sbjct: 135 INKVKKASIHLQQVYERVPTAQE---IANELDITVSSVKSSMKNSNRSISMDAPFQEGEN 191 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 N L + S D +G Q ++ E + R++ L+ RE + + Sbjct: 192 DNNLYDVISSGESPNPD------NGLMQESLKTE--------IDRALDTLSQREADVVKL 237 Query: 246 R-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L NPV TL+ + F++SRERVRQI +A +++ Sbjct: 238 NFGLSGNPVMTLQEIGDTFDLSRERVRQIREKAIRRL 274 >gi|3062909|dbj|BAA25730.1| SigA [Bacillus sp.] Length = 372 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 138/275 (50%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLTAEEEIELATRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L ++ R + + +L PE+V I K E +S+ + D L Sbjct: 225 RVQRQLLQDVGREPSPEEVAEEMDLTPEKVREILK----IAQEPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+++ D Y+ + E VL +R+ N+L + + R R Sbjct: 281 DFI--EDQDALAPSDAAAYELLKEQLEDVLDTLTDREE--NVLRLRFGLDDGRTR----- 331 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 --------TLEEVGKVFGVTRERIRQIEAKALRKL 358 >gi|313206169|ref|YP_004045346.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Riemerella anatipestifer DSM 15868] gi|312445485|gb|ADQ81840.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Riemerella anatipestifer DSM 15868] gi|315023147|gb|EFT36160.1| RNA polymerase sigma factor RpoD [Riemerella anatipestifer RA-YM] gi|325336386|gb|ADZ12660.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Riemerella anatipestifer RA-GD] Length = 288 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 80/283 (28%), Positives = 150/283 (53%), Gaps = 43/283 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA++ R GD A +L+ ++LR VV ++ Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQKIR-AGDKVALEKLIKANLRFVVSVSKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GLM+A K++D RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 PDLINEGNLGLMKAAKRYDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNKIGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL--AGD 183 + + HL+ + PE+ +A+ L++SE ++ +SM+ L D Sbjct: 135 INKINKAYAHLEQENERPPSPEE---LAEVLDMSEEDIKESMKNSGRHLSMDAPLVEGED 191 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +L ++ S + S + L E + IE E R++ L PRE + Sbjct: 192 SNLYDVLRSGESPSPDKELML-------ESLQIEIE----------RALQTLTPREADLV 234 Query: 244 EARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RL ++P+TLE + F+++RERVRQI+ +A K+++ Sbjct: 235 ---RLYFGLNGKHPMTLEEIGETFDLTRERVRQIKEKAIKRLK 274 >gi|284104060|ref|ZP_06386126.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] gi|283830219|gb|EFC34468.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] Length = 271 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 147/273 (53%), Gaps = 21/273 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI +I ++ EE LA+R ++ GD A +L ++LR VV +A ++G GL + Sbjct: 2 LDQYLKEIGQIDLVTPAEEAELARRIKQ-GDEEALLKLTRANLRFVVSVAKKFQGQGLHL 60 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++++EGN GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 61 TDLINEGNYGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQGRVVRL--PLNQIGT 118 Query: 136 FFNLRRLKGHL--QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 +R+ L + D NL+ +A L + +V S R A S++A N Sbjct: 119 ISKIRKSSARLAQEHERDPNLE-----ELATDLQIDIEKVRSAMQRTARHLSMDAPFNEE 173 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI----FEARRLQ 249 D+NS D L + + E K + ++S L PRE I F R Sbjct: 174 DENS--LLDVLPSNEIAPPDEPLRGESLKID---IEVALSSLCPREAEITRLYFGVGR-- 226 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 E+P+TLE + F+++RERVRQI+ +A +K+++ Sbjct: 227 EHPLTLEEIGLRFDLTRERVRQIKEKALRKLRQ 259 >gi|146281946|ref|YP_001172099.1| RNA polymerase sigma factor RpoS [Pseudomonas stutzeri A1501] gi|145570151|gb|ABP79257.1| sigma factor RpoS [Pseudomonas stutzeri A1501] Length = 332 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 87/278 (31%), Positives = 145/278 (52%), Gaps = 29/278 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 64 YLNEIGFSPLLTPEEEVHFA-RLAQKGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 123 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 181 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKK--------LNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ PE++ + +K L ++E V S++ L D L Sbjct: 182 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNE-RVTSVDVSLGPDTDKTLLD 239 Query: 191 NSSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 +D + + L+ D +Q L + E++ R ++ R + R EA Sbjct: 240 TLTDDRPTDPCELLLDDDLSASIDQWLSDLSEKQ--REVVIRRFGL------RGHEAS-- 289 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + E ++RERVRQI+ A ++++E +++ Sbjct: 290 -----TLEEVGQEIGLTRERVRQIQVEALRRLREILER 322 >gi|296327931|ref|ZP_06870466.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|296154887|gb|EFG95669.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 418 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 147/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE AK+ E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 151 YLREIGQVPLLTHEEEIDYAKKAYE-GDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDL 209 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 210 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 264 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 265 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVDKIKAIQEMNQEPISLETPVGSEE 320 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q E NR R L + L+PRE ++ R ++ Sbjct: 321 --DSELGDFV------EDQKTTSPYEATNRAILREELDAVLKTLSPREEKVLRYRYGLDD 372 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 373 SSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 410 >gi|16803494|ref|NP_464979.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes EGD-e] gi|46907682|ref|YP_014071.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes serotype 4b str. F2365] gi|47092744|ref|ZP_00230530.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 4b H7858] gi|47095405|ref|ZP_00233015.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 1/2a F6854] gi|224499695|ref|ZP_03668044.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes Finland 1988] gi|224501605|ref|ZP_03669912.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL R2-561] gi|226224055|ref|YP_002758162.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes Clip81459] gi|254824487|ref|ZP_05229488.1| RNA polymerase subunit sigma [Listeria monocytogenes FSL J1-194] gi|254827742|ref|ZP_05232429.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N3-165] gi|254829787|ref|ZP_05234442.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 10403S] gi|254852080|ref|ZP_05241428.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL R2-503] gi|254898380|ref|ZP_05258304.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes J0161] gi|254912128|ref|ZP_05262140.1| sigma 43 subunit of RNA polymerase [Listeria monocytogenes J2818] gi|254932639|ref|ZP_05265998.1| RNA polymerase subunit sigma [Listeria monocytogenes HPB2262] gi|254936456|ref|ZP_05268153.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes F6900] gi|254994146|ref|ZP_05276336.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL J2-064] gi|255029176|ref|ZP_05301127.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes LO28] gi|255522085|ref|ZP_05389322.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL J1-175] gi|284801841|ref|YP_003413706.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5578] gi|284994983|ref|YP_003416751.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5923] gi|315282349|ref|ZP_07870778.1| RNA polymerase sigma factor RpoD [Listeria marthii FSL S4-120] gi|1710684|sp|P52331|RPOD_LISMO RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43 gi|664756|gb|AAC43306.1| sigma 43 subunit of RNA polymerase [Listeria monocytogenes] gi|16410883|emb|CAC99532.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes EGD-e] gi|46880950|gb|AAT04248.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes serotype 4b str. F2365] gi|47016226|gb|EAL07149.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 1/2a F6854] gi|47018932|gb|EAL09679.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 4b H7858] gi|225876517|emb|CAS05226.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258600121|gb|EEW13446.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N3-165] gi|258605378|gb|EEW17986.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL R2-503] gi|258609048|gb|EEW21656.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes F6900] gi|284057403|gb|ADB68344.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5578] gi|284060450|gb|ADB71389.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5923] gi|293584198|gb|EFF96230.1| RNA polymerase subunit sigma [Listeria monocytogenes HPB2262] gi|293590099|gb|EFF98433.1| sigma 43 subunit of RNA polymerase [Listeria monocytogenes J2818] gi|293593725|gb|EFG01486.1| RNA polymerase subunit sigma [Listeria monocytogenes FSL J1-194] gi|313614010|gb|EFR87725.1| RNA polymerase sigma factor RpoD [Listeria marthii FSL S4-120] gi|328465497|gb|EGF36726.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 1816] gi|332311895|gb|EGJ24990.1| RNA polymerase sigma factor rpoD [Listeria monocytogenes str. Scott A] gi|1093602|prf||2104269C RNA polymerase:SUBUNIT=sigma Length = 374 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 227 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361 >gi|326335966|ref|ZP_08202143.1| RNA polymerase sigma-70 factor [Capnocytophaga sp. oral taxon 338 str. F0234] gi|325691930|gb|EGD33892.1| RNA polymerase sigma-70 factor [Capnocytophaga sp. oral taxon 338 str. F0234] Length = 287 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 82/284 (28%), Positives = 152/284 (53%), Gaps = 31/284 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLISADEEVELAQRIK-AGDKVALERLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNMGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 +++ L + + + + IA++L++S S+V S++A Sbjct: 136 NKINKMYAYLEQTHERIPSAEE----------IARELDMSVSDVKESMKNSGRHISMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+ D N +YD G+ ++ ++ + + R++ L PRE + Sbjct: 186 LVEGEDSN--------LYDVLRSGESPNPDKELMHESLKTEIERALETLTPREADVIRLY 237 Query: 247 -RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L EN P+TLE + FE++RERVRQI+ +A ++++ + + ++ Sbjct: 238 FGLGENYPMTLEEIGETFELTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|194397936|ref|YP_002037704.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae G54] gi|194357603|gb|ACF56051.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae G54] Length = 369 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 88/271 (32%), Positives = 143/271 (52%), Gaps = 29/271 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELALAV-EAGDIEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKK 279 + + TLE++ F V+RER+RQIEA+A +K Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRK 353 >gi|323490072|ref|ZP_08095293.1| RNA polymerase sigma factor RpoD [Planococcus donghaensis MPA1U2] gi|323396368|gb|EGA89193.1| RNA polymerase sigma factor RpoD [Planococcus donghaensis MPA1U2] Length = 384 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 138/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ +EE LAK E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 118 YLKEIGRVDLLKAEEEVRLAKLI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 176 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 177 IQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 236 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 237 RVQRQLLQDLGRDPSPEEIGEEMDLLPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 292 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I SD S DH E + + L + L RE + R Sbjct: 293 DFIEDSDAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 335 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 336 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 371 >gi|319651585|ref|ZP_08005712.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] gi|317396652|gb|EFV77363.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] Length = 374 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLSAEEEIALANRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L P++V I K E +S+ + D L Sbjct: 227 RVQRQLLQDLGREPTPEEIAEDMDLTPDKVREILK----IAQEPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 361 >gi|255026189|ref|ZP_05298175.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL J2-003] Length = 361 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 154 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 213 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 214 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 269 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 270 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 312 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 313 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 348 >gi|302874342|ref|YP_003842975.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium cellulovorans 743B] gi|307689391|ref|ZP_07631837.1| RNA polymerase sigma factor RpoD [Clostridium cellulovorans 743B] gi|302577199|gb|ADL51211.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium cellulovorans 743B] Length = 363 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 136/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L + E LA+R E GD +A +L ++LRLVV IA Y G G+ ++ Sbjct: 97 YLKEIGKVPLLSPETEIELAERI-EAGDPAAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 155 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 156 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 213 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + PE+ +A+K+ + +VI + R E ++ ++ S Sbjct: 214 LLRITRQLVQELGRDPLPEE---LAEKMEMPVDKVIEI--RKIAQEPVSLETPIGEEEDS 268 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 269 HLGDFIPDDDAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 325 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 326 EVGREFNVTRERIRQIEAKALRKLR 350 >gi|86143196|ref|ZP_01061598.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] gi|85830101|gb|EAQ48561.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] Length = 288 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 81/280 (28%), Positives = 144/280 (51%), Gaps = 22/280 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ ++ K+ M+ EE LA+R RE GD A RL ++LR VV +A Y+ GL + Sbjct: 18 LNTYLQDVSKLDMITADEEVELAQRIRE-GDQVALERLTKANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV-----KIGTTA 130 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + I V KIGT + Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQAISEHSRTVRLPLNKIGTIS 136 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + F L Q++ +P IAK+L+++ ++V + S++A Sbjct: 137 KINKAFSYLE------QSLE----RPPSAEEIAKELDMTVAKVKLAMKNSGRNLSMDAPF 186 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 + N S D L + +E + R++ L+PRE + + Sbjct: 187 KEGE-NDSNLYDVLKSGESPNPDADLMQESLGTE---IERALETLSPRESDVIKLNYGLG 242 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E P TL+ + F++SRERVRQI + ++++ + + +V Sbjct: 243 GEQPHTLQEIGEMFDLSRERVRQIREKGIRRLRHTSRSKV 282 >gi|196034883|ref|ZP_03102290.1| RNA polymerase sigma-43 factor [Bacillus cereus W] gi|195992422|gb|EDX56383.1| RNA polymerase sigma-43 factor [Bacillus cereus W] Length = 373 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 134/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + GD L Sbjct: 226 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEGDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360 >gi|239637627|ref|ZP_04678599.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri L37603] gi|239596845|gb|EEQ79370.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri L37603] gi|330686029|gb|EGG97652.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU121] Length = 367 Score = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 101 YLKEIGRVDLLSAQEEIELAKRI-EQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 160 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 219 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 220 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 275 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 276 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 318 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 319 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 353 >gi|182416213|ref|YP_001821279.1| RpoD family RNA polymerase sigma factor [Opitutus terrae PB90-1] gi|177843427|gb|ACB77679.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutus terrae PB90-1] Length = 347 Score = 112 bits (280), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 145/277 (52%), Gaps = 16/277 (5%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 +G L Y+ +I + P+L +EE+ LA+R R GD A ++ ++LRLVV+IA Y Sbjct: 30 DGRSSLQIYLQDIGQTPLLTAREEFALAERVR-RGDAGARDHMIRANLRLVVRIAKDYAQ 88 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YGLP+++++SEGN+GL+ AV +FDP G +L+TY+ WWI+ A++ +++ Sbjct: 89 YGLPLADLISEGNVGLIHAVDRFDPRIGGKLSTYAAWWIRQAIRRAFAHHARAIRLPV-- 146 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNA 188 + + RL+ ++++ + +A +L + E I++ + AGD SL+A Sbjct: 147 ---HMLDRIARLRRAQASLSEQFGREATTDELAAELQ-APVEKIAL-WKSAGDAPFSLDA 201 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + + S+ + D ++ R L ++ L+ RE I R Sbjct: 202 AVGTG--SESRRLSETIRDERAPTAFTQLRDATTARD--LRAIIATLDVREATILRLRFG 257 Query: 249 --QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + P TL +S F ++RERVRQ+E RA + V+ + Sbjct: 258 LDGDEPQTLHAVSLRFGITRERVRQLERRALQNVRNA 294 >gi|29143180|ref|NP_806522.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|695759|emb|CAA57298.1| sigma S [Salmonella enterica subsp. enterica serovar Typhi] gi|3820469|emb|CAA76807.1| RNA polymerase sigma subunit [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|29138813|gb|AAO70382.1| RNA polymerase sigma subunit RpoS [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] Length = 384 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 86/286 (30%), Positives = 139/286 (48%), Gaps = 26/286 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFK-KVQESIQKQVELSSSPP 295 TLE++ E ++RERVRQI+ + + S E S+ P Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRPSARNSADAGAEYRSAVP 329 >gi|323345452|ref|ZP_08085675.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] gi|323093566|gb|EFZ36144.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] Length = 295 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 77/268 (28%), Positives = 149/268 (55%), Gaps = 14/268 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 27 LDKYLQEIGHEELISVEEEVELAQRIRK-GDRKALEKLTKANLRFVVSVAKQYQNQGLSL 85 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 86 PDLINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ--- 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 ++ ++ L N + + IA ++++ E ++I ++ G S++A + Sbjct: 141 VGSVNKINRALNKFEQENERHPSIEEIADRIDLPEEKIIDA-MKINGKHISVDAPFAEGE 199 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENPV 253 NS L + + E+ ++ R+ ++R + +LN RER I EA + + + Sbjct: 200 DNS-----LLDIMPNTESPTADERLVSESLRDEISRVLLLLNERERMIIEAFFGINQQDM 254 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F ++RERVRQI+ +A ++++ Sbjct: 255 TLEEIGDKFGLTRERVRQIKEKAIRRLR 282 >gi|228476045|ref|ZP_04060753.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis SK119] gi|314936318|ref|ZP_07843665.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis subsp. hominis C80] gi|228269868|gb|EEK11348.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis SK119] gi|313654937|gb|EFS18682.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis subsp. hominis C80] Length = 368 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|315303191|ref|ZP_07873849.1| RNA polymerase sigma factor RpoD [Listeria ivanovii FSL F6-596] gi|313628434|gb|EFR96909.1| RNA polymerase sigma factor RpoD [Listeria ivanovii FSL F6-596] Length = 386 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 120 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 178 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 179 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 238 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 239 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 294 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 295 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 337 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 338 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 373 >gi|284009102|emb|CBA76093.1| RNA polymerase sigma factor RpoS [Arsenophonus nasoniae] Length = 329 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 83/272 (30%), Positives = 144/272 (52%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD ++ R++ S+LRLVVKI+ Y GL + ++ Sbjct: 60 YLGEIGYSPLLTAEEEVFYARRAL-RGDAASLQRMIESNLRLVVKISRRYSNRGLALLDL 118 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 119 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNVY 177 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + D+ E++ K S ++ +N R++ ++ + SDK Sbjct: 178 LRIARELAQKL-DHEPSAEEIAERLDKPVDDVSRMLRLNERISSVDT--PIGGDSDK--- 231 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPVTL 255 D L D+D + I+ N + + + + LN ++R + ARR L TL Sbjct: 232 ALLDVLSDDNDSGPEGTIQA---NNMKESIVKWLFELNAKQREVL-ARRFGLLGYESETL 287 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E + E ++RERVRQI+ +++++ + Q Sbjct: 288 EEVGREIGLTRERVRQIQVEGLRRLKDILHNQ 319 >gi|34763652|ref|ZP_00144580.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|237742311|ref|ZP_04572792.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 4_1_13] gi|27886661|gb|EAA23826.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|229429959|gb|EEO40171.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 4_1_13] Length = 340 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 146/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AK+ E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 73 YLREIGQVPLLTHDEEIEYAKKAYE-GDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDL 131 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 132 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 186 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 187 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVDKIKAIQEMNQEPISLETPVGSEE 242 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q E NR R L + L+PRE ++ R ++ Sbjct: 243 --DSELGDFV------EDQKTTSPYEATNRAILREELDAVLKTLSPREEKVLRYRYGLDD 294 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 295 SSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 332 >gi|294782673|ref|ZP_06747999.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 1_1_41FAA] gi|294481314|gb|EFG29089.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 1_1_41FAA] Length = 500 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 144/275 (52%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AK+ E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 233 YLREIGQVPLLTHDEEIEYAKKAYE-GDEEASQKLIESNLRLVVSIAKKHTNRGLKLLDL 291 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 292 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 346 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 347 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVEKIKAIQEMNQEPISLETPVGSEE 402 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 S+ D++ D + E R R L + L+PRE ++ R ++ P Sbjct: 403 --DSELGDFV---EDQKTTSPYEATNRAILREELDGVLKTLSPREEKVLRYRYGLDDSSP 457 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 458 KTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 492 >gi|225868705|ref|YP_002744653.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus] gi|225701981|emb|CAW99541.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus] Length = 369 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 140/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE VLA GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSDEEKVLAVAV-AAGDMEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|108805426|ref|YP_645363.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108766669|gb|ABG05551.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 282 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 138/275 (50%), Gaps = 26/275 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L++Y+ IR+ +L EE L++R R GD +A RL+ S+LRLVV IA YRG G+P Sbjct: 9 LTQYLGRIREGRLLTAGEEVELSRRAR-AGDGAARRRLIESNLRLVVAIAKRYRGRGVPF 67 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN GL++AV+KFDPE G R +TY+ WWI+ A+ + V++ A+ Sbjct: 68 EDLIQEGNAGLIRAVEKFDPEMGNRFSTYATWWIRQAVTRAVADQGRAVRL--PAHVVDS 125 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAI-------AKKLNVSESEVISMNCRLAGDESLNA 188 + LRR + L E+V A++L + S++ RL GDE Sbjct: 126 VYRLRRAESALSVELGREPTDEEVAGRLGTSPEEARRLREVSQPISSISARL-GDE---- 180 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 ++ ++ D L + +E +E R +L ++ L RE R+ R Sbjct: 181 ------EDGAELGDLLPDEAASEEYARVEA---GPWRGVLREAVGSLPEREARVLRLRHG 231 Query: 249 --QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E TL +S +S+ER RQ+E +A + ++ Sbjct: 232 LDGERARTLREVSEILGISQERARQVELKALRTLR 266 >gi|332526107|ref|ZP_08402245.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] gi|332109950|gb|EGJ10578.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] Length = 320 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 81/285 (28%), Positives = 146/285 (51%), Gaps = 31/285 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ +IR+ P++ +EE+ A R R GD +A ++ +LRLVV IA Y G G+P+ Sbjct: 46 LQSYLRDIRRAPLMSAEEEHATAVRARA-GDFAARQTMIERNLRLVVSIAKHYVGRGMPM 104 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK-- 133 +++ EGN+GLM A KF+PERGFR +TY+ WWI+ +++ I+ L+++ ++ Sbjct: 105 IDLIEEGNLGLMHATGKFEPERGFRFSTYASWWIRQSIERAIMHQARLIRLPVHVVRELN 164 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEV-ISMNCRLAGDE 184 ++ R L+ + + ++V A +A+ L ++E + M G E Sbjct: 165 QVLKARRALESSRHGEAERPVSVDEVAAALGRPVDEVAELLKLAEQPTSLDMPLEREGGE 224 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 S ++++ + + L +E V ++L ++ LN RER + Sbjct: 225 S---MLDTVADDDAVDPLGLTLS---REAV-----------HLLDHGLAELNEREREVLA 267 Query: 245 AR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R L + P TLE L+ ++RER+RQI+ A K++ + ++ Sbjct: 268 GRFGLHDREPETLEELAVRLGLTRERIRQIQQEALLKLKRRMMRR 312 >gi|210615118|ref|ZP_03290449.1| hypothetical protein CLONEX_02663 [Clostridium nexile DSM 1787] gi|210150426|gb|EEA81435.1| hypothetical protein CLONEX_02663 [Clostridium nexile DSM 1787] Length = 370 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 91/269 (33%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLSAEEEIELAKRMAE-GDEDAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T N + Sbjct: 163 IQEGNLGLIKAVEKFDYQKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--K 220 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R+L LQ + L PE+ IA++L++ V + SL I + Sbjct: 221 LIRVSRQL---LQELGREPL-PEE---IAEELDMPVERVREILKISQEPVSLETPIG--E 271 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D V E + L + L RE+++ R + Sbjct: 272 EEDSHLGDFI---QDDNVPVPAEAAAATLLKEQLGEVLDTLTDREQKVLRLRFGMNDGRA 328 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 329 RTLEEVGKEFDVTRERIRQIEAKALRKLR 357 >gi|310827637|ref|YP_003959994.1| RNA polymerase [Eubacterium limosum KIST612] gi|308739371|gb|ADO37031.1| RNA polymerase [Eubacterium limosum KIST612] Length = 395 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 88/278 (31%), Positives = 141/278 (50%), Gaps = 17/278 (6%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ VN + L Y+ EI K+P+L ++E +AKR E GD A L ++LRLVV IA Sbjct: 119 SVSVNDPVRL--YLKEIGKVPLLTAEQEMGIAKRM-EAGDDEAKKELAEANLRLVVSIAK 175 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 176 RYVGRGMSFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI 235 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-S 185 + L R+ L P + I K++ SE +V + ++A D S Sbjct: 236 --PVHMVETINKLIRVSRQLLQELGREPTPAE---IGKEMGFSEEKVREIQ-KIAQDPVS 289 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L I ++ S D++ D E + L ++ L RE ++ Sbjct: 290 LETPIG--EEEDSHLGDFI---EDDNAPAPSEAASYALLKEQLMEVLNTLTEREEKVLRL 344 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 345 RFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 382 >gi|260436706|ref|ZP_05790676.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] gi|260414580|gb|EEX07876.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] Length = 377 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 76/238 (31%), Positives = 121/238 (50%), Gaps = 17/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ G+ I ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 137 AKDHMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 196 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K Q I N + + +A++L + Sbjct: 197 IRQGITRAIATQSRTIRLPVHVTEK-----LNRIKRVQQEIASNEGRIASIADLARELGI 251 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL+ + + +Q D + H EQ L E + ++L Sbjct: 252 SEDTVRQTLARVPRSVSLDTRVGR--EQDTQLGDLIEDGHATPEQTLTHDELHNDLEDLL 309 Query: 229 ----TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +R +VL RR F + P TL + E ++SRERVRQIE RA K+++ Sbjct: 310 DELTSREAAVL----RRRFGLE--DDTPQTLAQIGEELKLSRERVRQIETRALLKLRQ 361 >gi|225870339|ref|YP_002746286.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. equi 4047] gi|225699743|emb|CAW93506.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. equi 4047] Length = 369 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 140/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE VLA GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSDEEKVLAVAV-AAGDMEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|254449272|ref|ZP_05062719.1| RNA polymerase sigma factor RpoS [gamma proteobacterium HTCC5015] gi|198261127|gb|EDY85425.1| RNA polymerase sigma factor RpoS [gamma proteobacterium HTCC5015] Length = 308 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 147/277 (53%), Gaps = 25/277 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L ++E + R + GD +A +++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 40 YLKEIEFSPLLTAEQE-IHYGRLVQEGDEAARRKMIESNLRLVVKISRRYMNRGLPLLDL 98 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPE+GFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 99 IEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERGLMNQTRTIRLPIHVI-KELNVY 157 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q PE+V AK L+ +V CR+ G LN + S D Sbjct: 158 LRAARAMQQEFA-REPTPEEV---AKHLDKPVDDV----CRMYG---LNERVASVDVPIG 206 Query: 199 QWQDWLVYDHDGQEQV-----LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QE 250 + D L+ D + V L++ EE + + L+ +++ + E RR + Sbjct: 207 KEGDSLLLDLIADDSVPDPTALLQSEEVA---AYVDHWLEELDAKQKAVVE-RRFGLHGQ 262 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + TLE + E V+RERVRQI+ + KK+++ ++ + Sbjct: 263 DYATLEVIGHELGVTRERVRQIQMESLKKLRKILEAE 299 >gi|313897024|ref|ZP_07830571.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] gi|312974471|gb|EFR39939.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] Length = 381 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 146/277 (52%), Gaps = 29/277 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R E GD SA HRL ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVPLLTAEEEVELARRM-EAGDASARHRLEEANLRLVVSIAKRYVGRGMLFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ + ++I T N+ Sbjct: 173 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRALADQARTIRIPVHMVETINKL- 231 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +R + LQ + + E IAK++ +S V + ++A E ++ + Sbjct: 232 ----VRVSRSLLQELGRDATAEE----IAKEMGLSVVRVREI-MKIA-QEPVSLETPVGE 281 Query: 195 KNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + S D++ D +++ KE+ ++ + L PRE + R E Sbjct: 282 EEDSHLGDFIEDEAALDPADAASMMLLKEQ-------ISEVLKTLAPREAEVLRLRFGLE 334 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + TLE + F V+RER+RQIEA+A +K++ ++ Sbjct: 335 DGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHPVR 371 >gi|163787530|ref|ZP_02181977.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] gi|159877418|gb|EDP71475.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] Length = 287 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 152/293 (51%), Gaps = 49/293 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIKA-GDQIALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 + F L + ++ +P IAK+L+++ ++V S++A Sbjct: 136 NKINKTFAFLEQ----------SHERPPSAEEIAKELDMTINDVKESMKNSGRHVSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML--------TRSMSVLNPRER 240 L+ D N +YD VL E R++L R++ L PRE Sbjct: 186 LVEGEDSN--------LYD------VLRSGESPNPDRDLLHESLRTEIERALETLTPREA 231 Query: 241 RIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 232 DVI---RLYFGLGNQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|157151547|ref|YP_001450555.1| RNA polymerase sigma factor RpoD [Streptococcus gordonii str. Challis substr. CH1] gi|157076341|gb|ABV11024.1| RNA polymerase sigma factor [Streptococcus gordonii str. Challis substr. CH1] Length = 370 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 88/272 (32%), Positives = 143/272 (52%), Gaps = 29/272 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGVVPLLTNEEEQELAILV-EQGDTEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 162 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 220 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 221 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEE 271 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 272 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 323 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + TLE++ F V+RER+RQIEA+A +K+ Sbjct: 324 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKL 355 >gi|305666839|ref|YP_003863126.1| RNA polymerase sigma factor rpoD (Sigma-A) [Maribacter sp. HTCC2170] gi|88709063|gb|EAR01297.1| RNA polymerase sigma factor rpoD (Sigma-A) [Maribacter sp. HTCC2170] Length = 287 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 148/279 (53%), Gaps = 37/279 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I KI ++ QEE LA+R R GD A +L T++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKIELINAQEEVELAQRIR-AGDQVALEKLTTANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q ++R L KIG+ Sbjct: 77 PDLINEGNLGLVKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRVVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K+ F L + + +P IAK+L ++ +EV S++A Sbjct: 136 NKIKKTFSYLEQ----------AHERPPSAEEIAKELEMTVTEVKQSLKNTGRHVSMDAP 185 Query: 190 INSSDKNSSQWQDWLVYD--HDGQ----EQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + Q +D +YD G+ +++L++ ++ + R++ L+PRE + Sbjct: 186 LR-------QGEDSNLYDVLRSGESPRPDKILLQ----QSLNTEINRALETLSPREADVV 234 Query: 244 EARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + + +TL + F+++RERVRQI +A +K+ Sbjct: 235 KLYYGIGDQQSMTLAEIGQTFDLTRERVRQIREKAIRKL 273 >gi|303238871|ref|ZP_07325402.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetivibrio cellulolyticus CD2] gi|302593504|gb|EFL63221.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetivibrio cellulolyticus CD2] Length = 359 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 134/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA++ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 93 YLKEIGKVPLLSADEEIQLAQKM-EKGDSESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 151 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 152 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 209 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE+ IAK++N+ +V + SL I ++ S Sbjct: 210 LIRVSRQLLQELGKEPQPEE---IAKEMNMPVEKVREIMKISQEPVSLETPIG--EEEDS 264 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E + L + L PRE ++ R ++ TLE Sbjct: 265 HLGDFI---PDDDAPAPSEAAAFTLLKEQLIDVLDTLTPREEKVLRLRFGLDDGRARTLE 321 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 322 EVGKEFNVTRERIRQIEAKALRKLR 346 >gi|134300301|ref|YP_001113797.1| RNA polymerase sigma factor RpoD [Desulfotomaculum reducens MI-1] gi|134053001|gb|ABO50972.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfotomaculum reducens MI-1] Length = 367 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 81/265 (30%), Positives = 139/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E G+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 101 YLKEIGRVPLLSPEEEVDLAKRM-EQGEEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 160 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 217 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++++S +V + ++A E ++ ++ S Sbjct: 218 LIRVSRQLLQELGREPSPEE---IAKEMDISGEKVREI-LKIA-QEPVSLETPIGEEEDS 272 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + E+ R L + L RE+++ R ++ TLE Sbjct: 273 HLGDFI---EDADARAPAEEASFTLLREQLDEVLKTLTDREQKVLRLRFGLDDGRARTLE 329 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F V+RER+RQIEA+ +K++ Sbjct: 330 EVGQKFGVTRERIRQIEAKTLRKLR 354 >gi|320530862|ref|ZP_08031899.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] gi|320136896|gb|EFW28841.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] Length = 381 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 146/277 (52%), Gaps = 29/277 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R E GD SA HRL ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVPLLTAEEEVELARRM-EAGDASARHRLEEANLRLVVSIAKRYVGRGMLFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ + ++I T N+ Sbjct: 173 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRALADQARTIRIPVHMVETINKL- 231 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +R + LQ + + E IAK++ +S V + ++A E ++ + Sbjct: 232 ----VRVSRSLLQELGRDATAEE----IAKEMGLSVVRVREI-MKIA-QEPVSLETPVGE 281 Query: 195 KNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + S D++ D +++ KE+ ++ + L PRE + R E Sbjct: 282 EEDSHLGDFIEDEAALDPADAASMMLLKEQ-------ISEVLKTLAPREAEVLRLRFGLE 334 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + TLE + F V+RER+RQIEA+A +K++ ++ Sbjct: 335 DGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHPVR 371 >gi|332666643|ref|YP_004449431.1| RpoD subfamily RNA polymerase sigma-70 subunit [Haliscomenobacter hydrossis DSM 1100] gi|332335457|gb|AEE52558.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliscomenobacter hydrossis DSM 1100] Length = 289 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 84/290 (28%), Positives = 152/290 (52%), Gaps = 52/290 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L +EE LAKR ++ GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LEKYLQEIGKVDLLTPEEEVELAKRIKQ-GDQAALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 S++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L K+G+ Sbjct: 77 SDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKVGSL 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + F L+ + PE+ +A+ L + EV +SM+ Sbjct: 136 NKINKAF-------SELEQEFEREPSPEE---LAEMLEIPTEEVETTLGVAARHVSMDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQD-WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 E N+L++ + N++ D L Y+ + R + RS+S L R Sbjct: 186 FVEGED-NSLLDVLENNTTPSTDAGLDYNE--------------SLRREIERSLSTLTDR 230 Query: 239 ERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + +L E+P++LE++ +F ++RERVRQI+ +A K++ + Sbjct: 231 QCDVI---KLYFGIGVEHPMSLEDIGEKFGLTRERVRQIKDKAINKLRSA 277 >gi|241889518|ref|ZP_04776817.1| RNA polymerase sigma factor RpoD [Gemella haemolysans ATCC 10379] gi|241863825|gb|EER68208.1| RNA polymerase sigma factor RpoD [Gemella haemolysans ATCC 10379] Length = 361 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 141/269 (52%), Gaps = 17/269 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAK---RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y+ EI K+P+L K++E L+K E A L ++LRLVV IA Y G G+ Sbjct: 91 YLKEIGKVPLLSKEKELELSKIIETGTEEEKEQAKKDLAEANLRLVVSIAKRYVGRGMLF 150 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 151 LDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVET 208 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 L R++ L KPE+ IAKK+N++ +V + ++A + SL I D Sbjct: 209 INRLIRIQRQLLQDLGREPKPEE---IAKKMNMTPEKVREI-LKIAQEPVSLETPIGEED 264 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ D + Q +E + + L + L RE + + R L++ Sbjct: 265 --DSHLGDFI---EDKEAQSPVEHAANELLKEQLEEILETLTDREENVLKLRFGLKDGKT 319 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + S F V+RER+RQIEA+A +K++ Sbjct: 320 HTLEEVGSAFGVTRERIRQIEAKAIRKLK 348 >gi|27468166|ref|NP_764803.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis ATCC 12228] gi|57867102|ref|YP_188703.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis RP62A] gi|251810978|ref|ZP_04825451.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis BCM-HMP0060] gi|282876013|ref|ZP_06284880.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis SK135] gi|293366478|ref|ZP_06613155.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W2(grey)] gi|47606037|sp|Q8CP24|RPOD_STAES RecName: Full=RNA polymerase sigma factor rpoD gi|81674470|sp|Q5HNY7|RPOD_STAEQ RecName: Full=RNA polymerase sigma factor rpoD gi|27315712|gb|AAO04847.1|AE016748_81 RNA polymerase sigma factor [Staphylococcus epidermidis ATCC 12228] gi|57637760|gb|AAW54548.1| RNA polymerase sigma-70 factor [Staphylococcus epidermidis RP62A] gi|251805488|gb|EES58145.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis BCM-HMP0060] gi|281295038|gb|EFA87565.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis SK135] gi|291319247|gb|EFE59616.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W2(grey)] gi|319400897|gb|EFV89116.1| RNA polymerase sigma factor rpoD [Staphylococcus epidermidis FRI909] gi|329725345|gb|EGG61828.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU144] gi|329735301|gb|EGG71593.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU045] gi|329737328|gb|EGG73582.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU028] Length = 368 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|87306425|ref|ZP_01088572.1| RNA polymerase sigma factor rpoS [Blastopirellula marina DSM 3645] gi|87290604|gb|EAQ82491.1| RNA polymerase sigma factor rpoS [Blastopirellula marina DSM 3645] Length = 296 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 88/286 (30%), Positives = 142/286 (49%), Gaps = 19/286 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + +L ++E LAK E GD++A R+V ++LRLVV IA GY G GL + Sbjct: 18 LETYLREINETALLSAKDEKDLAKLIGE-GDVNARDRMVRANLRLVVNIARGYTGKGLGL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP G R +TY+ +WIK +++ ++ ++I A L Sbjct: 77 QDLIEEGNLGLLRAVEGFDPAMGTRFSTYASYWIKQSIKRALINCAKTIRI--PAYMVEL 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 RR L PE+ IA+ L + + ++ + + S +D+ Sbjct: 135 LSKWRRATNRLTEELGRTPTPEE---IARVLGLPKKKLPIIKKAIKIYNS----TPQTDQ 187 Query: 196 NSSQWQ-DWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-- 250 S W +V D E ++E ++ KN ML ++ RE + R E Sbjct: 188 ADSGWSLGEMVMDDRLKNPEDEMVEHDDLKNVMQML----KTMDGREATVLRMRFGLEGM 243 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 +P TL+ + + ++RERVRQIE A K+ E +Q E P Sbjct: 244 DPHTLKEIGEKLGLTRERVRQIETEALGKLAEGLQDPRERELEGPF 289 >gi|313618909|gb|EFR90770.1| RNA polymerase sigma factor RpoD [Listeria innocua FSL S4-378] Length = 374 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 132/276 (47%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLTADEEIALAKRI-EVGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I K E +S+ + D L Sbjct: 227 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREILK----IAQEPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361 >gi|195977963|ref|YP_002123207.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195974668|gb|ACG62194.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 369 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 140/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE VLA GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSDEEKVLAVAVA-AGDMEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|213969149|ref|ZP_03397288.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato T1] gi|213926147|gb|EEB59703.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato T1] Length = 334 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 18/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +E V R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEE--VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 184 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 238 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 239 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 292 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 293 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 324 >gi|284046806|ref|YP_003397146.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283951027|gb|ADB53771.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 380 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 86/266 (32%), Positives = 139/266 (52%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ I ++ +L ++E LA+R E GD+ A +++ ++LRLVV IA GY G GL ++ Sbjct: 115 YLRSIGRVNLLTAEQEVHLAQRI-ERGDMRAKQQMIEANLRLVVSIAKGYLGRGLTFLDL 173 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EG++GL++AV+KFD RGF+ +TY+ WWI+ A+ I ++I +K Sbjct: 174 IQEGSLGLIRAVEKFDHRRGFKFSTYATWWIRQAVTRAIADKGRTIRIPVHMVEK--LNK 231 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 + ++ L PE+ IA +L + EV + R+A SL I ++ Sbjct: 232 VVHVERQLVQSLGREPTPEE---IAAELECTVREVRDI-LRMAQQPVSLEKPIG--EEEE 285 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTL 255 S+ D+ V D + + E RR+ + R++ L RER + E R P TL Sbjct: 286 SELGDF-VEDQTAESPFELASE--NLRRDNVRRALQALPQREREVIEMRFGLGGGRPRTL 342 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + F V+RER+RQIE KK++ Sbjct: 343 EEVGRAFNVTRERIRQIENHTLKKLE 368 >gi|193216316|ref|YP_001997515.1| RpoD family RNA polymerase, sigma 70 subunit [Chloroherpeton thalassium ATCC 35110] gi|193089793|gb|ACF15068.1| RNA polymerase, sigma 70 subunit, RpoD family [Chloroherpeton thalassium ATCC 35110] Length = 299 Score = 112 bits (279), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 89/290 (30%), Positives = 152/290 (52%), Gaps = 42/290 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVL-------------AKRYREHGDLSAAHRLVTSHLRLVV 62 L RY+ EI K +L QEE L +K YRE A +L+ ++LR VV Sbjct: 18 LDRYLQEIGKFDLLTAQEEIELTRQIKKGDGQPIDSKEYREA--RRALEKLIKANLRFVV 75 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEY 116 +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q Sbjct: 76 SVAKQYQNQGLSLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSR 135 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 I+R L ++GT + F L+ + + E+ +A L+++ SE I+ Sbjct: 136 IVR-LPLNRVGTLNKIGKAF-------SQLEQEYERDPSTEE---LAHLLDMNSSE-ITD 183 Query: 177 NCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 ++AG S++A D N + D L D + L+++ R + RS+S L Sbjct: 184 TLKIAGRHISVDAPFAQGDDN--RLLDVLQNDSQRPDHGLLQESLRLE----VERSLSAL 237 Query: 236 NPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +PRE + + ENP+TLE + F+++RERVRQI+ +A ++++ S Sbjct: 238 SPREADVIRSYFGIGMENPLTLEEIGERFKLTRERVRQIKEKAIRRLRHS 287 >gi|126663248|ref|ZP_01734246.1| RNA polymerase sigma-70 factor [Flavobacteria bacterium BAL38] gi|126624906|gb|EAZ95596.1| RNA polymerase sigma-70 factor [Flavobacteria bacterium BAL38] Length = 287 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 83/293 (28%), Positives = 152/293 (51%), Gaps = 49/293 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDQRALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 +++ L + +N +P IAK+L+++ ++V S++A Sbjct: 136 NKINKMYALLEQ----------SNERPPSAEEIAKELDMTVNDVKESMKNSGRHLSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM--------LTRSMSVLNPRER 240 L+ D N +YD VL E R + + R++ L PRE Sbjct: 186 LVEGEDSN--------LYD------VLRSGESPNPDRELIHESLQTEIERALETLTPREA 231 Query: 241 RIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 232 DVV---RLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|70726356|ref|YP_253270.1| RNA polymerase sigma factor RpoD [Staphylococcus haemolyticus JCSC1435] gi|68447080|dbj|BAE04664.1| RNA polymerase sigma factor [Staphylococcus haemolyticus JCSC1435] Length = 368 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|148240795|ref|YP_001226182.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147849334|emb|CAK24885.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 376 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 78/233 (33%), Positives = 116/233 (49%), Gaps = 13/233 (5%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+KFDP RGFR +TY+ WWI+ Sbjct: 139 RMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 198 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 + I +++ +K L R+K Q I + V +AK+L VSE Sbjct: 199 GITRAIATQSRTIRLPVHITEK-----LNRIKRVQQEIASEQGRLASVSDLAKELGVSED 253 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V R+ SL + +Q D L H EQ L R + L Sbjct: 254 TVRQTLARVPRSVSLETRVGKD--QDTQLGDLLEDGHATPEQTLT----RDALHDDLEHL 307 Query: 232 MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + LNPRE + +R E+ P TL + +SRERVRQIE RA K+++ Sbjct: 308 LDELNPREAEVIRSRFGLEDDTPRTLAEIGEAMALSRERVRQIETRALLKLRQ 360 >gi|121534199|ref|ZP_01666024.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus carboxydivorans Nor1] gi|121307302|gb|EAX48219.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus carboxydivorans Nor1] Length = 368 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 134/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVPLLTAEEEIQLAKRM-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA+++++S V + SL I ++ S Sbjct: 219 LIRVSRQLLQEKGREPTPEE---IAREMDISVERVREIMKIAQEPVSLETPIG--EEEDS 273 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + D D E + L + L PRE ++ R ++ TLE Sbjct: 274 HLGDF-IEDQDAPAPA--EAASFMLLKEQLEEVLETLTPREEKVLRLRFGLDDGRARTLE 330 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 331 EVGQYFGVTRERIRQIEAKALRKLR 355 >gi|262068176|ref|ZP_06027788.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum ATCC 33693] gi|291378119|gb|EFE85637.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum ATCC 33693] Length = 502 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 144/275 (52%), Gaps = 21/275 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AK+ E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 235 YLREIGQVPLLTHDEEIEYAKKAYE-GDEEASQKLIESNLRLVVSIAKKHTNRGLKLLDL 293 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 294 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 348 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 349 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVEKIKAIQEMNQEPISLETPVGSEE 404 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 S+ D++ D + E R R L + L+PRE ++ R ++ P Sbjct: 405 --DSELGDFV---EDQKTTSPYEATNRAILREELDGVLKTLSPREEKVLRYRYGLDDSSP 459 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 460 KTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 494 >gi|225848935|ref|YP_002729099.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium azorense Az-Fu1] gi|225644026|gb|ACN99076.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium azorense Az-Fu1] Length = 285 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 83/285 (29%), Positives = 145/285 (50%), Gaps = 31/285 (10%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 N E G+ YI I KIP+L ++E + ++ + GD A +L+ S+LR V+ IA Y G Sbjct: 5 NYEEGVEYYIRSIYKIPLLTPEQEKEILEKIK-LGDKEAFQKLILSNLRFVINIAKRYAG 63 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 YG+P+ +++S GNIGL++A K+FDP +G + +Y++WWIK ++ I T + Sbjct: 64 YGIPLQDLISAGNIGLIEAAKRFDPSKGVKFISYAIWWIKQSI------------INTLS 111 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL- 189 + + +++ Q I++ + + ++ S ++ + D N L Sbjct: 112 QEGDIIRKPTKIQSLFQKISNAYFYLKDSLNREPSVDEIHSFLLREGLEVEKDTIENYLF 171 Query: 190 -----INSSDKNSSQWQDWLVYD---HDGQEQV---LIEKEERKNRRNMLTRSMSVLNPR 238 I+ + SQ +D + D + G E + LI+++ K + + L+PR Sbjct: 172 FNQHFISLDEPILSQDEDIHLSDTISNSGTEDIERKLIDEDILK----FIDELLDTLSPR 227 Query: 239 ERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E++I R E P TL+ + + +SRERVRQIE R KK++ Sbjct: 228 EKQILIHRFGLYGEEPKTLKEVGNIVGISRERVRQIEIRLLKKLR 272 >gi|238927758|ref|ZP_04659518.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] gi|238884474|gb|EEQ48112.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] Length = 383 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 136/272 (50%), Gaps = 13/272 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA+R E GD A HRL ++LRLVV IA Y G G+ ++ Sbjct: 117 YLKEIGHVPLLTAEEEVALAQRM-EAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDL 175 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 176 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 233 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + PE+ IAK++ ++ + V + SL I ++ S Sbjct: 234 LVRISRQLLQELGRDPHPEE---IAKEMGITVARVHEIMKIAQEPVSLETPIG--EEEDS 288 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E R L + L RE+ + R E+ TLE Sbjct: 289 HLGDFI---EDEAAPAPAEAASFMLLREQLEEVLETLTDREKNVLRLRFGLEDGRSRTLE 345 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + F V+RER+RQIEA+A +K++ + +V Sbjct: 346 EVGQSFGVTRERIRQIEAKALRKLRHPSRSKV 377 >gi|171779914|ref|ZP_02920818.1| hypothetical protein STRINF_01701 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171281262|gb|EDT46697.1| hypothetical protein STRINF_01701 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 369 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLSSEEEKELAVAV-AAGDLQAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|150390747|ref|YP_001320796.1| RpoD family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|149950609|gb|ABR49137.1| RNA polymerase, sigma 70 subunit, RpoD family [Alkaliphilus metalliredigens QYMF] Length = 372 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 140/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA R E GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKVPLLTGPEEIDLATRM-EAGDELAKKKLVEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L KPE+ IAK++++ E +V + ++A E ++ ++ S Sbjct: 223 LIRVSRQLLQEFGREPKPEE---IAKEMDLPEEKVREI-LKIA-QEPVSLETPIGEEEDS 277 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE+++ R ++ TLE Sbjct: 278 HLGDFIPDDDAPAPAEAAAFSLLKEQ---LIEVLDTLTPREQKVLRLRFGLDDGRARTLE 334 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F+V+RER+RQIEA+A +K++ Sbjct: 335 EVGKKFDVTRERIRQIEAKALRKLR 359 >gi|288803307|ref|ZP_06408740.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|288334127|gb|EFC72569.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] Length = 287 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 80/279 (28%), Positives = 146/279 (52%), Gaps = 32/279 (11%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI M+ +EE LA++ R +GD A RL ++LR VV +A Y+ GL Sbjct: 17 SLDKYLQEIGHEEMISIEEEVELAQKIR-NGDRKALERLTKANLRFVVSVAKQYQNQGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG----TTA 130 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I ++++ ++ Sbjct: 76 LPDLINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSV 135 Query: 131 NQKRLFF------NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 N+ N RR + I N PE + A K+N S +S++ DE Sbjct: 136 NKINKILTQFEQENERR--PSIDEIAQNTDIPEDKIVDAMKVN---SRHVSVDAPFYDDE 190 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 + L + N+ LV E+ L R + R++ +L RE+ + E Sbjct: 191 QSSLLDVIPNDNTPSTDKELV------EESL---------REEIGRALQILEDREKVVIE 235 Query: 245 AR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 A + + +TLE + S++ ++RERVRQI+ +A +++++ Sbjct: 236 AYFGINQREMTLEEIGSKYNLTRERVRQIKEKAIRRLRQ 274 >gi|88608313|ref|YP_506202.1| RNA polymerase sigma factor RpoD [Neorickettsia sennetsu str. Miyayama] gi|88600482|gb|ABD45950.1| RNA polymerase sigma factor RpoD [Neorickettsia sennetsu str. Miyayama] Length = 620 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 96/313 (30%), Positives = 155/313 (49%), Gaps = 62/313 (19%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQE--EY----VLAKRYREHGDLS--AAHRLVTSHLRL 60 I + L ++ IR+ LEK E +Y L ++ H D + A HR+V ++LRL Sbjct: 316 ICDTHFSLEEFLSPIRE---LEKNEGMDYRSISFLTRKVATHLDNANAAKHRMVEANLRL 372 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ IA Y G+P +++ EGNIGLM+AV KFD RG + +TY+ WW + A+ I Sbjct: 373 VISIAKKYTNRGMPFPDLIQEGNIGLMKAVDKFDHRRGHKFSTYATWWCRQAITRAIADC 432 Query: 121 WSLVK----IGTTANQ----KRLFFNLRRLKGHLQAITDNNLK--PEQVVAIAKKLNVSE 170 S+V+ I TAN+ +R +NL + ++ I N LK P++V K L V++ Sbjct: 433 GSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIA-NLLKISPDKV---KKSLKVNQ 488 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + SL + + D NS + D+ + D + QV + KN R +L Sbjct: 489 DPI-----------SLESPV-GDDSNSGSFGDF-IEDKNAVSQVDVVLS--KNLRKVLDE 533 Query: 231 SMSVLNPRERRIFEARRLQENPV----------------------TLENLSSEFEVSRER 268 ++++L+PRE +I R N V TLE + + V+RER Sbjct: 534 ALAMLSPREEKILRYRFGLCNSVHSPEDEHYLKSLKIDLNRGTNLTLEQVGILYNVTRER 593 Query: 269 VRQIEARAFKKVQ 281 +RQIE+++ +K++ Sbjct: 594 IRQIESKSLRKMR 606 >gi|289434736|ref|YP_003464608.1| RNA polymerase sigma factor RpoD [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289170980|emb|CBH27522.1| RNA polymerase sigma factor RpoD [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|313633237|gb|EFS00106.1| RNA polymerase sigma factor RpoD [Listeria seeligeri FSL N1-067] Length = 374 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVNLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 227 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 283 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361 >gi|254796694|ref|YP_003081530.1| RNA polymerase sigma-70 factor (RpoD) [Neorickettsia risticii str. Illinois] gi|254589929|gb|ACT69291.1| RNA polymerase sigma-70 factor (RpoD) [Neorickettsia risticii str. Illinois] Length = 620 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 96/313 (30%), Positives = 155/313 (49%), Gaps = 62/313 (19%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQE--EY----VLAKRYREHGDLS--AAHRLVTSHLRL 60 I + L ++ IR+ LEK E +Y L ++ H D + A HR+V ++LRL Sbjct: 316 ICDTHFSLEEFLSPIRE---LEKNEGMDYESISFLTRKVATHLDNANAAKHRMVEANLRL 372 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V+ IA Y G+P +++ EGNIGLM+AV KFD RG + +TY+ WW + A+ I Sbjct: 373 VISIAKKYTNRGMPFPDLIQEGNIGLMKAVDKFDHRRGHKFSTYATWWCRQAITRAIADC 432 Query: 121 WSLVK----IGTTANQ----KRLFFNLRRLKGHLQAITDNNLK--PEQVVAIAKKLNVSE 170 S+V+ I TAN+ +R +NL + ++ I N LK P++V K L V++ Sbjct: 433 GSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIA-NLLKISPDKV---KKSLKVNQ 488 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + SL + + D NS + D+ + D + QV + KN R +L Sbjct: 489 DPI-----------SLESPV-GDDSNSGSFGDF-IEDKNAVSQVDVVLS--KNLRKVLDE 533 Query: 231 SMSVLNPRERRIFEARRLQENPV----------------------TLENLSSEFEVSRER 268 ++++L+PRE +I R N V TLE + + V+RER Sbjct: 534 ALAMLSPREEKILRYRFGLCNSVHSPEDEHYLKSLKIDLNRGTNLTLEQVGILYNVTRER 593 Query: 269 VRQIEARAFKKVQ 281 +RQIE+++ +K++ Sbjct: 594 IRQIESKSLRKMR 606 >gi|37522577|ref|NP_925954.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] gi|35213578|dbj|BAC90949.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] Length = 305 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 89/284 (31%), Positives = 148/284 (52%), Gaps = 36/284 (12%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRG 70 E + +++ E+ + P+L ++E LA+ G + A RLV ++LRLVV IA Y Sbjct: 29 EDSVGQFLREMSRYPLLTSEQEVELAQVIATGGSEAEAAKRRLVRANLRLVVSIAKKYLN 88 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G+P +++ EG IGLM+A +KFD ERGF+ +TY+ WWI+ + I V++ Sbjct: 89 RGVPFLDLIQEGAIGLMRAAEKFDFERGFKFSTYAYWWIRQGITRAIASQSRTVRLPVHM 148 Query: 131 NQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESE--------VISMNCRLA 181 +K ++R++ L Q + KPE +A A +L++ + + +S++ ++ Sbjct: 149 VEK--LNQVKRVRRQLTQELARKPTKPE--MAEALELDIDKLDEILDAGRRTLSLHVKVG 204 Query: 182 GDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 +E L LI SD S V DH+ +L+E+ E + +L PRE Sbjct: 205 KEEDTELLQLIEDSDTISPSE----VLDHN----LLVEQIE---------SLLHLLTPRE 247 Query: 240 RRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R I E R N TL ++ + +SRERVRQI+A+A +K++ Sbjct: 248 RDIIELRFGLADGNSYTLADIGEMYNLSRERVRQIQAKAMRKLR 291 >gi|306833811|ref|ZP_07466936.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis ATCC 700338] gi|304424005|gb|EFM27146.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis ATCC 700338] Length = 369 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKELAVAV-ATGDLQAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|56963455|ref|YP_175186.1| RNA polymerase sigma factor RpoD [Bacillus clausii KSM-K16] gi|56909698|dbj|BAD64225.1| DNA-directed RNA polymerase major sigma-43 factor sigma-A [Bacillus clausii KSM-K16] Length = 373 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 90/274 (32%), Positives = 145/274 (52%), Gaps = 33/274 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVPLLSAEEEIDLAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYDKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L + R + + +L P++V I L +++ E +S+ + D L Sbjct: 226 RVQRQLLQDYGREPTPEEVGKEMDLSPDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT-RSMSVLNPRERRIFEAR 246 I D+ + D Y+ + KE+ ++ + LT R +VL R R + Sbjct: 282 DFIE--DQEALAPSDAAAYE--------LLKEQLEDVLDTLTDREENVL--RLRFGLDDG 329 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R + TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 RTR----TLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|289550668|ref|YP_003471572.1| RNA polymerase sigma factor RpoD [Staphylococcus lugdunensis HKU09-01] gi|315658163|ref|ZP_07911035.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus lugdunensis M23590] gi|289180200|gb|ADC87445.1| RNA polymerase sigma factor RpoD [Staphylococcus lugdunensis HKU09-01] gi|315496492|gb|EFU84815.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus lugdunensis M23590] Length = 368 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLNAQEEIELAKRI-EQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|163786482|ref|ZP_02180930.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] gi|159878342|gb|EDP72398.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] Length = 287 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 151/294 (51%), Gaps = 51/294 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I KIP++ +EE LA+ ++ GD A +L T++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKIPLITAEEEVELAQLIKK-GDQVALDKLTTANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN GL++A K+FD RGF+ +Y++WWI+ A+ Q I+R L KIGT Sbjct: 77 PDLINEGNAGLVKAAKRFDETRGFKFISYAVWWIRQAILQALAEQSRIVR-LPLNKIGTI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + F +L +L + +P IA++L++S EV +SM+ Sbjct: 136 NKINKAFSHLEQL----------HQRPPNAEEIARELDISAREVKQSMKNSGRHLSMDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 L E+ + S S + L+ +E + +E E R++ L +E Sbjct: 186 LKDGETFSLYDVVSATESPRPDKNLM-----KESLNLEVE----------RALETLTQKE 230 Query: 240 RRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL + P+TLE + ++++RERVRQI + ++++ + + ++ Sbjct: 231 SDVI---RLNFGIGDQPPMTLEEIGGIYDLTRERVRQIREKGIRRLRHASKSKI 281 >gi|160893000|ref|ZP_02073788.1| hypothetical protein CLOL250_00537 [Clostridium sp. L2-50] gi|156865083|gb|EDO58514.1| hypothetical protein CLOL250_00537 [Clostridium sp. L2-50] Length = 377 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 80/270 (29%), Positives = 137/270 (50%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LAKR E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGKVPLLSAEEEIELAKRM-EEGDEQAKQKLAEANLRLVVSIAKRYVGRGMLFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 170 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 227 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE++ + E++ ++ E ++ ++ S Sbjct: 228 LIRVSRQLLQELGREPQPEEIADVMDIPVERVREILKIS-----QEPVSLETPIGEEEDS 282 Query: 199 QWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D++ D+ D L++++ L + L RE+++ R E+ Sbjct: 283 HLGDFIPDDNMPVPADAAAFTLLKEQ--------LVEVLDTLTEREKKVLTLRFGLEDGR 334 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 335 ARTLEEVGKEFNVTRERIRQIEAKALRKLR 364 >gi|256845590|ref|ZP_05551048.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_36A2] gi|294785121|ref|ZP_06750409.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_27] gi|256719149|gb|EEU32704.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_36A2] gi|294486835|gb|EFG34197.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_27] Length = 418 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 146/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE AK+ E GD A+ +L+ S+LRLVV IA + GL + ++ Sbjct: 151 YLREIGQVPLLTHDEEIEYAKKAYE-GDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDL 209 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 210 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 264 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++K +LQ T + PE +A++L + ++ ++ SL + S + Sbjct: 265 INKIKKESRIYLQE-TGKDASPE---ILAERLGMEVDKIKAIQEMNQEPISLETPVGSEE 320 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++Q E NR R L + L+PRE ++ R ++ Sbjct: 321 --DSELGDFV------EDQKTTSPYEATNRAILREELDAVLKTLSPREEKVLRYRYGLDD 372 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + F V+RER+RQIE +A +K++ +K+ Sbjct: 373 SSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKK 410 >gi|224476669|ref|YP_002634275.1| RNA polymerase sigma factor RpoD [Staphylococcus carnosus subsp. carnosus TM300] gi|222421276|emb|CAL28090.1| RNA polymerase sigma factor SigA [Staphylococcus carnosus subsp. carnosus TM300] Length = 369 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVDLLNAQEEIELAKRI-EQGDEVAKARLAEANLRLVVSIAKRYVGRGMLFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 162 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 221 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 222 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 277 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 278 DFIEDQEVQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 320 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 321 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 355 >gi|302345330|ref|YP_003813683.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] gi|302149662|gb|ADK95924.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] Length = 284 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 80/279 (28%), Positives = 146/279 (52%), Gaps = 32/279 (11%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI M+ +EE LA++ R +GD A RL ++LR VV +A Y+ GL Sbjct: 14 SLDKYLQEIGHEEMISIEEEVELAQKIR-NGDRKALERLTKANLRFVVSVAKQYQNQGLS 72 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG----TTA 130 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I ++++ ++ Sbjct: 73 LPDLINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSV 132 Query: 131 NQKRLFF------NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 N+ N RR + I N PE + A K+N S +S++ DE Sbjct: 133 NKINKILTQFEQENERR--PSIDEIAQNTDIPEDKIVDAMKVN---SRHVSVDAPFYDDE 187 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 + L + N+ LV E+ L R + R++ +L RE+ + E Sbjct: 188 QSSLLDVIPNDNTPSTDKELV------EESL---------REEIGRALQILEDREKVVIE 232 Query: 245 AR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 A + + +TLE + S++ ++RERVRQI+ +A +++++ Sbjct: 233 AYFGINQREMTLEEIGSKYNLTRERVRQIKEKAIRRLRQ 271 >gi|302036606|ref|YP_003796928.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Nitrospira defluvii] gi|300604670|emb|CBK41002.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Nitrospira defluvii] Length = 332 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 87/289 (30%), Positives = 145/289 (50%), Gaps = 13/289 (4%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 NR S G + Y+ E+RK +L +EE L KR GD +A ++ ++LRLV Sbjct: 48 NRPAESGRAEGLDTIKSYLREVRKSTLLNFKEEQALGKRVM-AGDEAARQEMIEANLRLV 106 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + I Y G P +++V EGN+GL++AV+KF+ +RGFR +TY+ WWI+ ++ I+ Sbjct: 107 ISIGKRYMNRGFPFADIVEEGNLGLIKAVEKFNYKRGFRFSTYASWWIRQFIERAIINQG 166 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LV++ ++ L R G ++ + + + +A KL S +EV + + Sbjct: 167 KLVRLPVHVVER-----LNRYLGKVEQLVHELGREPRADEVAAKLKTSVAEVDDLKQLVR 221 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 SL++ I SD+ + +D + D E E RR L + L +ER Sbjct: 222 TTCSLDSPI--SDRQDTFLRDVI---EDPLCLTPAETTEGVMRRAELMAWVKELPEKERT 276 Query: 242 IFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + AR + TLE + E ++RERVRQIE A +++ I+++ Sbjct: 277 VILARFGLDGAESRTLEEIGQEMGLTRERVRQIETAALARLRGIIERKT 325 >gi|108803721|ref|YP_643658.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108764964|gb|ABG03846.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 365 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 84/267 (31%), Positives = 137/267 (51%), Gaps = 13/267 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K P+L K +E LAKR E GD A L ++LRLVV IA Y G G+ + ++ Sbjct: 99 YLDEIGKTPLLSKAQEVYLAKRI-ERGDRRAKAHLTRANLRLVVSIAKKYAGRGVSLLDL 157 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KFD +G++ +TY+ WWI+ A+ I +++ +K Sbjct: 158 IQEGNIGLMRAVEKFDYRKGYKFSTYATWWIRQAVTRAIADKGRTIRVPVHMVEK--INK 215 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 R++ L + + + E+V A+++ V E R S++ + +SS Sbjct: 216 YYRVQRTLASELNRDPTDEEV---AREMGVEVEE--VERIRQVSRRSISLETPVGEDHSS 270 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLE 256 + D++ + L + K R + +++ L RER + E R P TLE Sbjct: 271 ELGDFIADEESESPHDLAKSSLLKAR---MREALNGLPERERMVLEYRFGLTGGQPKTLE 327 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQES 283 + F+V+RER+RQI+ A K++ S Sbjct: 328 EVGERFDVTRERIRQIQLTALAKIKSS 354 >gi|332518972|ref|ZP_08395439.1| RNA polymerase sigma factor, sigma-70 family [Lacinutrix algicola 5H-3-7-4] gi|332044820|gb|EGI81013.1| RNA polymerase sigma factor, sigma-70 family [Lacinutrix algicola 5H-3-7-4] Length = 287 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 81/287 (28%), Positives = 152/287 (52%), Gaps = 37/287 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDQVALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 + F L + + +P IAK+L+++ ++V S++A Sbjct: 136 NKINKTFAFLEQA----------HERPPSAEEIAKELDMTINDVKESMKNSGRHVSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+ D N +YD + G+ + ++ R + R++ L PRE + Sbjct: 186 LVEGEDSN--------LYDVLNSGESPNPDRELLHESLRTEIERALETLTPREADVI--- 234 Query: 247 RL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 RLYFGLGNQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|291520418|emb|CBK75639.1| RNA polymerase, sigma 70 subunit, RpoD [Butyrivibrio fibrisolvens 16/4] Length = 376 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 136/273 (49%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA++ E GD A ++L ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGKVPLLSAEEEVELAQKM-EDGDQEAKNKLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 168 IQEGNLGLMKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 225 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 L R+ L PE++ A + + L +S+ E +S+ + +E Sbjct: 226 LIRVSRQLLQEYGREPTPEEIAAAMGITVDRVHEILKISQ-EPVSLETPIGEEE------ 278 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D+L D V E + L + L RE+R+ R E Sbjct: 279 ------DSHLGDFL---PDENVPVPAEAATFTLLKEQLHEVLDTLTEREQRVLILRFGLE 329 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + EF V+RER+RQIEA+A +K++ Sbjct: 330 DGKARTLEEVGKEFNVTRERIRQIEAKALRKLR 362 >gi|82701632|ref|YP_411198.1| RNA polymerase sigma factor RpoS [Nitrosospira multiformis ATCC 25196] gi|82409697|gb|ABB73806.1| RNA polymerase, sigma 38 subunit, RpoS [Nitrosospira multiformis ATCC 25196] Length = 317 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 141/265 (53%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y +EI +L +EE L +R R++ D +A +++ +LRLVV IA Y +G+ + ++ Sbjct: 50 YFNEIGHNALLTPKEEAELTRRVRQN-DFAARQKMIECNLRLVVNIAKHYTNHGVALLDL 108 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+G+M A+ KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 109 IEEGNMGMMHALDKFDPERGFRFSTYATWWIRQNIERCIMNQSRTIRLPVHV-IKDLNII 167 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L+ + HL+A T + K E V + + ++S+N + SL+A ++ S Sbjct: 168 LQAAR-HLEAHTGKDPKAEDVAHLLGRTVKEVQRMLSLNQSMM---SLDAPLDVDPLLS- 222 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 D + D ++ E+ E K R ++ L R LN ++R I E R TL Sbjct: 223 -IGDAIADDQSPGPDLMWEQSEIKGRVQDWLNR----LNDKQRYIIEQRYGLNGYETQTL 277 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E L++ +++RERVRQI+ A + + Sbjct: 278 EQLAASLDLTRERVRQIQLEALQTL 302 >gi|329766845|ref|ZP_08258374.1| hypothetical protein HMPREF0428_00071 [Gemella haemolysans M341] gi|328838571|gb|EGF88177.1| hypothetical protein HMPREF0428_00071 [Gemella haemolysans M341] Length = 361 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 89/269 (33%), Positives = 141/269 (52%), Gaps = 17/269 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAK---RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y+ EI K+P+L K++E L+K E A L ++LRLVV IA Y G G+ Sbjct: 91 YLKEIGKVPLLSKEKELELSKIIETGTEAEKEQAKKDLAEANLRLVVSIAKRYVGRGMLF 150 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 151 LDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVET 208 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 L R++ L KPE+ IAKK+N++ +V + ++A + SL I D Sbjct: 209 INRLIRIQRQLLQDLGREPKPEE---IAKKMNMTPEKVREI-LKIAQEPVSLETPIGEED 264 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D+ + D D Q V E + + L + L RE + + R L++ Sbjct: 265 --DSHLGDF-IEDKDAQSPV--EHAANELLKEQLEEILETLTDREENVLKLRFGLKDGKT 319 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + S F V+RER+RQIEA+A +K++ Sbjct: 320 HTLEEVGSAFGVTRERIRQIEAKAIRKLK 348 >gi|300854008|ref|YP_003778992.1| putative RNA polymerase sigma factor [Clostridium ljungdahlii DSM 13528] gi|300434123|gb|ADK13890.1| predicted RNA polymerase sigma factor [Clostridium ljungdahlii DSM 13528] Length = 354 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/286 (30%), Positives = 139/286 (48%), Gaps = 17/286 (5%) Query: 2 NRKNMSIIVNGEIGLSR----YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSH 57 N KN+ + V I + Y+ EI K+P+L +EE LAKR E GD A +L ++ Sbjct: 67 NEKNLDLSVPDGIAIDDPVRMYLKEIGKVPLLLPEEEISLAKRI-EEGDQIAKKKLAEAN 125 Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I Sbjct: 126 LRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAI 185 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 ++I + L R+ L PE+V I + E++ + Sbjct: 186 ADQARTIRI--PVHMVETINKLVRVSRQLLQELGREPHPEEVAQIMEMPVDKVREIMKI- 242 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 E ++ ++ S D++ D K + L + L P Sbjct: 243 ----AQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTP 295 Query: 238 RERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RE ++ R ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 296 REEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 341 >gi|78214100|ref|YP_382879.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78198559|gb|ABB36324.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] Length = 377 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 76/238 (31%), Positives = 121/238 (50%), Gaps = 17/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ G+ I ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 137 AKDHMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 196 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K Q I N + + +A++L + Sbjct: 197 IRQGITRAIATQSRTIRLPVHVTEK-----LNRIKRVQQEIASNEGRIASIADLARELGI 251 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL+ + + +Q D + H EQ L E + ++L Sbjct: 252 SEDTVRQTLARVPRSVSLDTRVGR--EQDTQLGDLIEDGHATPEQTLTHDELHNDLEHLL 309 Query: 229 ----TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +R +VL RR F + P TL + E ++SRERVRQIE RA K+++ Sbjct: 310 DELTSREAAVL----RRRFGLE--DDTPQTLAQIGEELKLSRERVRQIETRALLKLRQ 361 >gi|325125918|gb|ADY85248.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 373 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 131/275 (47%), Gaps = 33/275 (12%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +Y+ I ++ +L EE LAKR GD A L ++LRLVV IA Y G G+ + Sbjct: 106 QYLKRIGRVSLLSGDEEVQLAKRIG-AGDQEAKDELTNANLRLVVSIAKRYVGRGMSFLD 164 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 LIQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETIN 222 Query: 138 NLRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLN 187 L R++ L + +PE++ A + + L V++ E +S+ + D L Sbjct: 223 KLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREALKVAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S + H E + R+ L + L RE + R Sbjct: 282 DFIEDKDATSPEQ-------HAASEML----------RDQLAEVLDTLTDREENVLRLRF 324 Query: 247 RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + NP TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKL 359 >gi|288905580|ref|YP_003430802.1| RNA polymerase major sigma factor [Streptococcus gallolyticus UCN34] gi|306831670|ref|ZP_07464827.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325978609|ref|YP_004288325.1| RNA polymerase sigma factor rpoD [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|288732306|emb|CBI13876.1| RNA polymerase major sigma factor [Streptococcus gallolyticus UCN34] gi|304426095|gb|EFM29210.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325178537|emb|CBZ48581.1| RNA polymerase sigma factor rpoD [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 369 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKELAVAV-AAGDLQAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMDMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|119897381|ref|YP_932594.1| RNA polymerase sigma factor RpoS [Azoarcus sp. BH72] gi|119669794|emb|CAL93707.1| putative RNA polymerase sigma factor [Azoarcus sp. BH72] Length = 311 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 87/281 (30%), Positives = 143/281 (50%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE LA+R R GD A ++ +LRLVV IA Y G+P+ ++ Sbjct: 44 YLNEIGANPLLSAEEEAALARRVRA-GDFDARQTMIERNLRLVVNIAKHYLNRGIPLLDL 102 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM A++KFDPERGFR +TY+ WWI+ ++ I+ NQ R Sbjct: 103 VEEGNLGLMHALEKFDPERGFRFSTYATWWIRQNIERAIM------------NQSRTI-- 148 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI--------SMNCRLAGDESLNALI 190 RL H+ + L+ ++VV A + S E+ + LA E +L Sbjct: 149 --RLPVHVVKELNQVLRAQRVVEAASNGDFSLDEIARRLDKPIEEVRAILALSEHTASLD 206 Query: 191 NSSDKNSS-QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEARR- 247 D + + + L +H + I E + L R+ + +LN ++R + R Sbjct: 207 APLDIDPTLSIGESLADEHAETPESQIHNAEIEG----LIRAWIDMLNDKQRLVIRHRYG 262 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + +TLE L++ E++RERVRQI+ A +++ ++++ Sbjct: 263 IGECELMTLEELAARLELTRERVRQIQLEALGQLRRILKRR 303 >gi|238916620|ref|YP_002930137.1| RNA polymerase primary sigma factor [Eubacterium eligens ATCC 27750] gi|238871980|gb|ACR71690.1| RNA polymerase primary sigma factor [Eubacterium eligens ATCC 27750] Length = 434 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE AKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 168 YLKEIGKVPLLSADEEIEYAKRM-EEGDEEAKKRLAEANLRLVVSIAKRYVGRGMQFLDL 226 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+K+D +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 227 IQEGNLGLIKAVEKYDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 284 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L PE+ IA+ +++ V + SL I ++ S Sbjct: 285 LVRVQRQLLQELGREPSPEE---IAENMDIPVERVREIQKISQEPVSLETPI--GEEEDS 339 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D V E + L + L RE+++ R ++ TLE Sbjct: 340 HLGDFI---QDDNVPVPAEAAASTLLKEQLVEVLGTLTEREQKVLRLRFGMDDGRARTLE 396 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 397 EVGKEFNVTRERIRQIEAKALRKLR 421 >gi|228472793|ref|ZP_04057551.1| RNA polymerase sigma factor RpoD [Capnocytophaga gingivalis ATCC 33624] gi|228275844|gb|EEK14610.1| RNA polymerase sigma factor RpoD [Capnocytophaga gingivalis ATCC 33624] Length = 287 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 82/284 (28%), Positives = 152/284 (53%), Gaps = 31/284 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLISADEEVELAQRIK-AGDKIALERLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNMGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 +++ L + + + + IAK+L++S ++V S++A Sbjct: 136 NKINKMYAYLEQTHERVPSAEE----------IAKELDMSVNDVKESMKNSGRHISMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+ D N +YD G+ ++ ++ + + R++ L PRE + Sbjct: 186 LVEGEDSN--------LYDVLRSGESPNPDKELMHESLKTEIERALETLTPREADVIRLY 237 Query: 247 -RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L EN P+TLE + FE++RERVRQI+ +A ++++ + + ++ Sbjct: 238 FGLGENYPMTLEEIGETFELTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|317122932|ref|YP_004102935.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis DSM 12885] gi|315592912|gb|ADU52208.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis DSM 12885] Length = 433 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 137/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L ++E LAKR E GD A +L+ ++LRLVV IA Y G G+ ++ Sbjct: 167 YLKEIGRIPLLTPEQEIELAKRI-EQGDEEAKRKLIQANLRLVVSIAKRYVGRGMLFLDL 225 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++A +KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 226 IQEGNLGLIKAAEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 285 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LN 187 Q++L L R + + ++PE+V I K E +S+ + +E L Sbjct: 286 RVQRQLVQELGREPTPEEIAKEMGIEPEKVREIMKIAQ----EPVSLETPIGEEEDSHLG 341 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D + + Q+L+ R L + L RE+++ R Sbjct: 342 DFIEDEDA---------LAPAEAASQLLL--------REQLEDVLHTLTDREQKVLRLRF 384 Query: 248 LQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 385 GLDDGRQRTLEEVGQVFGVTRERIRQIEAKALRKL 419 >gi|313673100|ref|YP_004051211.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Calditerrivibrio nitroreducens DSM 19672] gi|312939856|gb|ADR19048.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calditerrivibrio nitroreducens DSM 19672] Length = 327 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 80/280 (28%), Positives = 146/280 (52%), Gaps = 38/280 (13%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + +I++I K L ++EEY L KR + GD A ++L+ S+++ VV +A Y+ G+ Sbjct: 58 SIKDFINKIDKFKPLTREEEYELGKRI-QQGDQEALNKLILSNIKFVVSMANRYKNTGVS 116 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +S+++++GN+GL++A K+FDP++G + +Y++WWI+ AM + + VK+ Q Sbjct: 117 LSDLINQGNLGLVEAAKRFDPDKGVKFISYAVWWIRQAMIQLLAEQSGTVKL--PIKQAS 174 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN-VSESEVISMNCRLAGDESLNALINSS 193 L + + E + ++KK + SE IS + + N L+ S Sbjct: 175 LLYKIN----------------EAIETLSKKYHREPTSEEISEYLNIPKENIENILMVS- 217 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERK-----------NRRNMLTRSMSVLNPRERRI 242 KN ++ + DG+++ ++ E + ++ L + L+ RE +I Sbjct: 218 -KNYLSFESPI---KDGEDRTFLDLMESRTIKVEDEVINHTLKDTLQSLIQELDEREAKI 273 Query: 243 FEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R ENP+TLE + + +SRERVRQIE+RA K+ Sbjct: 274 LKMRYGLDGENPMTLEEVGNILNISRERVRQIESRALSKL 313 >gi|291280296|ref|YP_003497131.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] gi|290754998|dbj|BAI81375.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] Length = 313 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 138/270 (51%), Gaps = 24/270 (8%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL Y++ I + L ++EEY L KR + GD A +LV S+L+ VV IA Y+ G Sbjct: 42 EDGLKNYLNRISQFQPLSREEEYELGKRIQ-QGDKKALEKLVLSNLKFVVSIANRYKNTG 100 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP+++++++GN+GL++A K+FDPERG + +Y++WWI+ A+ + + VK+ Q Sbjct: 101 LPLADIINQGNLGLLEAAKRFDPERGVKFISYAVWWIRQAIIQALAEQSGTVKL--PLKQ 158 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV-----ISMNCRLAGDESLN 187 + + + L P++ IA L++ +++ +S N SL Sbjct: 159 ASILYKINEAIEVLSKELGREPTPDE---IAVYLDMDPADIENVLRVSRNYL-----SLE 210 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 A I D + D L E+ + + N ++ LN RE +I + R Sbjct: 211 API--KDGEDRAFIDLLESGGKSVEEEIFLNTLKANIEEIVDE----LNEREAQIIKWRF 264 Query: 247 RLQ-ENPVTLENLSSEFEVSRERVRQIEAR 275 L+ E P TLE + +SRERVRQIEAR Sbjct: 265 GLEGETPKTLEEIGEILNISRERVRQIEAR 294 >gi|6175927|gb|AAF05340.1|AF182105_2 RNA polymerase sigma subunit [Escherichia coli] Length = 313 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 82/270 (30%), Positives = 134/270 (49%), Gaps = 25/270 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL +AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLNRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ E ++RERVRQI+ +++ Sbjct: 286 --ATLEDVGREIGLTRERVRQIQVEGLRRL 313 >gi|71908137|ref|YP_285724.1| RNA polymerase sigma factor RpoS [Dechloromonas aromatica RCB] gi|71847758|gb|AAZ47254.1| RNA polymerase, sigma 38 subunit, RpoS [Dechloromonas aromatica RCB] Length = 309 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 77/270 (28%), Positives = 145/270 (53%), Gaps = 13/270 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE ++ RE GD SA R++ +LRLVV IA Y G+P+ ++ Sbjct: 42 YLSEIGAKPLLTPAEELATSRLVRE-GDFSARQRMIEHNLRLVVNIAKHYLNRGIPLLDL 100 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL+ A++KFDPERGFR +TY+ WWI+ ++ I+ +++ K + Sbjct: 101 IEEGNLGLIHALEKFDPERGFRFSTYATWWIRQNIERGIMNQSRTIRLPVHI-VKEINVV 159 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR ++ HL++ + E++ + + ++S+N +A SL+A + D N + Sbjct: 160 LRAMR-HLESADKRDSTVERIALLIDRPVADVRRILSLNEHIA---SLDAPLE-IDPNHT 214 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLE 256 + + D + + L++ E +++ + L R+R + E R + TL+ Sbjct: 215 MAE-VIADDGESDPESLLQSSEVG---SLVDDWLEQLTERQRSVIERRYGLSGADLATLD 270 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ + ++RERVRQI+ ++++ I++ Sbjct: 271 VIACDLGLTRERVRQIQMEGLDRLRKIIKR 300 >gi|332292552|ref|YP_004431161.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] gi|332170638|gb|AEE19893.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] Length = 287 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 82/296 (27%), Positives = 154/296 (52%), Gaps = 55/296 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV ++ Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDHRALEKLTKANLRFVVSVSKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + F L + N +P IAK+L++S ++V ISM+ Sbjct: 136 NKINKTFAFLEQA----------NERPPSPEEIAKELDMSINDVKESLKNSGRHISMDAP 185 Query: 180 L--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L D +L ++NS + + + L+++ + + + R++ L P Sbjct: 186 LVEGEDSNLYDVLNSGESPNPDRE--LLHE---------------SLKTEIERALETLTP 228 Query: 238 RERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE + RL + P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 229 READVV---RLYFGLGDQQPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|313890499|ref|ZP_07824127.1| RNA polymerase sigma factor RpoD [Streptococcus pseudoporcinus SPIN 20026] gi|332523157|ref|ZP_08399409.1| RNA polymerase sigma factor RpoD [Streptococcus porcinus str. Jelinkova 176] gi|313121016|gb|EFR44127.1| RNA polymerase sigma factor RpoD [Streptococcus pseudoporcinus SPIN 20026] gi|332314421|gb|EGJ27406.1| RNA polymerase sigma factor RpoD [Streptococcus porcinus str. Jelinkova 176] Length = 369 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTGEEEKELAIAVAE-GDVDAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|292670108|ref|ZP_06603534.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] gi|292648296|gb|EFF66268.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] Length = 370 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 84/272 (30%), Positives = 139/272 (51%), Gaps = 13/272 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA+R E GD A HRL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGHVPLLTAEEEVALAQRM-EAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + PE+V A+++ +S + V + ++A E ++ ++ S Sbjct: 221 LVRISRQLLQELGRDPHPEEV---AREMGISVARVHEI-MKIA-QEPVSLETPIGEEEDS 275 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E R L + L RE+ + R E+ TLE Sbjct: 276 HLGDFI---EDEAAPAPAEAASFMLLREQLEEVLETLTDREKNVLRLRFGLEDGRSRTLE 332 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + F V+RER+RQIEA+A +K++ + +V Sbjct: 333 EVGQSFGVTRERIRQIEAKALRKLRHPSRSKV 364 >gi|302338230|ref|YP_003803436.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635415|gb|ADK80842.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 291 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 76/285 (26%), Positives = 159/285 (55%), Gaps = 20/285 (7%) Query: 11 NGEIG----LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 +G+ G +S Y+ EI K+P+L +++E A R GD A L+ S+LR VV +A Sbjct: 11 SGDFGNENVISIYLKEINKVPLLSREDEDRYA-RLAADGDEHAKEMLIKSNLRFVVNVAK 69 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y+ GLP++++++EGNIGLM A++++D ++G+ +Y++WWI+ A+ + I ++++ Sbjct: 70 KYQNQGLPLADLINEGNIGLMNAIERYDVDKGYHFISYAVWWIRQAILKAISEKARMIRL 129 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD-ES 185 N+ + + K LQ + + IA+ + + V S+ ++ D S Sbjct: 130 --PLNRANELVQIEKAKKGLQLEG---KEEPEFEEIARVVGMDAEHVASL-VNISRDLVS 183 Query: 186 LNALINSSDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 L + I +D++ S+ D++ D+ ++ L+E+ +++ + + + L+ +E I Sbjct: 184 LESPI-YTDRSQSELGDFIEDVDYKSPDETLMEQSLKED----IAKVLDTLSEKEADIIR 238 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R + P++L+++ + +++ER+RQIE +A K++Q ++Q Sbjct: 239 HRFGLDGRAPLSLKDIGDRYNLTKERIRQIEKKAIKRLQHPSRRQ 283 >gi|312891071|ref|ZP_07750594.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] gi|311296379|gb|EFQ73525.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] Length = 285 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 77/280 (27%), Positives = 144/280 (51%), Gaps = 34/280 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE +LA++ RE GD +A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLTEIGKVDLITADEEVILAQKIRE-GDQAALERLTKTNLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD +GF+ +Y++WWI+ ++ + +V++ NQ Sbjct: 77 GDLINEGNLGLIKAAKRFDETKGFKFISYAVWWIRQSILSAVAEQSRIVRL--PLNQIGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 +R+ L+ + +P Q +A L +E ++ +SM+ E Sbjct: 135 LNKIRQAFSKLEQQYER--EPSQ-AELADILETTEDKICDSLSNSGRHVSMDAPFVQGEE 191 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 N L++ N D+L+ + QE + RS+ L RER + Sbjct: 192 -NTLLDVLQNNEPTTDDYLMEESLSQE---------------IMRSLVTLAEREREVIVL 235 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 N P++LE + ++ ++RERVRQI+ +A ++++ + Sbjct: 236 FFGLGNNYPLSLEEIGEKYNLTRERVRQIKDKALQRLRHT 275 >gi|260591639|ref|ZP_05857097.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] gi|260536439|gb|EEX19056.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] Length = 287 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 76/276 (27%), Positives = 152/276 (55%), Gaps = 14/276 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI M+ +EE LA++ R+ GD A RL ++LR VV +A Y+ GL Sbjct: 17 SLDKYLQEIGHEEMISIEEEVELAQQIRK-GDRKALERLTKANLRFVVSVAKQYQNQGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +S++++EGN GL++A +KFD RGF+ +Y++WWI+ ++ + I ++++ NQ Sbjct: 76 LSDLINEGNFGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRL--PLNQ-- 131 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 ++ ++ L N + + IA+ ++ E ++I S++A + D Sbjct: 132 -VSSVNKINKVLNKFEQENERRPSIDEIAQDTDIPEEKIIEAFKINTHHISVDAPFHDDD 190 Query: 195 KNSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENP 252 ++S D + D ++ L+E ++ R + R + +L RE+++ EA + + Sbjct: 191 ESS--LLDVIPNDAIPSTDKSLVE----ESLRAEIGRVLDILEDREKKVIEAYFGINQRE 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +TLE + S++ ++RERVRQI+ +A +++++ ++ Sbjct: 245 MTLEEIGSKYGLTRERVRQIKEKAIRRLRQQTNSKI 280 >gi|94500747|ref|ZP_01307276.1| nonessential primary sigma factor [Oceanobacter sp. RED65] gi|94427069|gb|EAT12050.1| nonessential primary sigma factor [Oceanobacter sp. RED65] Length = 331 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 143/281 (50%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L QEE A+ R+ GD R++ S+LRLVVKIA Y GL + ++ Sbjct: 58 YLNEIGFSPLLTPQEEVHFARLARK-GDEKGRKRMIESNLRLVVKIARRYVNRGLTLLDL 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 117 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 175 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ E++ + +K ++ +N R+ G S A++++ Sbjct: 176 LRAARELTQKL-DHEPTAEEIADLLEKPVDDVKRMLGLNERVTSVDTPLGYNSDKAILDT 234 Query: 193 ------SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 SD D + DG L EK+ R ++ R + R +E Sbjct: 235 IADEAVSDPCQVLQDDDISSSLDGWLDELTEKQ-----REVIARRFGL------RGYEIS 283 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ A K+++E ++KQ Sbjct: 284 -------TLEEVGFEIGLTRERVRQIQVEALKRLREIMEKQ 317 >gi|229916320|ref|YP_002884966.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Exiguobacterium sp. AT1b] gi|229467749|gb|ACQ69521.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Exiguobacterium sp. AT1b] Length = 364 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 141/276 (51%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L ++E LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 98 YLKEIGRVDLLSAKDETELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 157 IQEGNMGLIKAVEKFDYMKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 216 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + L PE+V I L +++ E +S+ + D L Sbjct: 217 RVQRQLLQDLGREPSPEEIAKEMELTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 272 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D+++ QD Y ++L E+ L + L RE + R Sbjct: 273 DFI--EDQDAMAPQDAAAY------ELLKEQ---------LEDVLDTLTDREENVLRLRF 315 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 316 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 351 >gi|299535819|ref|ZP_07049140.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1] gi|298729019|gb|EFI69573.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1] Length = 375 Score = 111 bits (277), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 138/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L ++E LA+R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEQEIALAERI-EQGDEEARKRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I S+ S DH E + + L + L RE + R Sbjct: 284 DFIEDSEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|167630065|ref|YP_001680564.1| RNA polymerase sigma factor rpod [Heliobacterium modesticaldum Ice1] gi|167592805|gb|ABZ84553.1| RNA polymerase sigma factor rpod [Heliobacterium modesticaldum Ice1] Length = 371 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 136/275 (49%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD +A RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGRVPLLSAEEEIELAKRM-EEGDEAAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 164 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 221 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVS----------ESEVISMNCRLAGDES--L 186 L R+ L PE+ IAK++++ E +S+ + +E L Sbjct: 222 LIRVSRQLLQEYGREPMPEE---IAKEMDIPVERVREIMKIAQEPVSLETPIGEEEDSHL 278 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I D + + + E+VL + R M VL R R + Sbjct: 279 GDFIEDQDAPAPAEAASFILLKEQLEEVL---------ETLTAREMKVL--RLRFGLDDG 327 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + TLE + EF V+RER+RQIEA+A +K++ Sbjct: 328 RSR----TLEEVGQEFGVTRERIRQIEAKALRKLR 358 >gi|1519632|gb|AAC44890.1| sigma 70-type sigma factor SigA [Heliobacillus mobilis] Length = 333 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 135/275 (49%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 67 YLKEIGRVPLLSAEEEIELAKRM-EDGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 126 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVS----------ESEVISMNCRLAGDES--L 186 L R+ L PE+ IAK++++ E +S+ + +E L Sbjct: 184 LIRVSRQLLQEFGREPNPEE---IAKEMDIPVDRVREIMKIAQEPVSLETPIGEEEDSHL 240 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I D + + + E+VL + R M VL R R + Sbjct: 241 GDFIEDQDAPAPAEAASFILLKEQLEEVL---------ETLTAREMKVL--RLRFGLDDG 289 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + TLE + EF V+RER+RQIEA+A +K++ Sbjct: 290 RSR----TLEEVGQEFGVTRERIRQIEAKALRKLR 320 >gi|160937106|ref|ZP_02084469.1| hypothetical protein CLOBOL_01996 [Clostridium bolteae ATCC BAA-613] gi|158440007|gb|EDP17755.1| hypothetical protein CLOBOL_01996 [Clostridium bolteae ATCC BAA-613] Length = 378 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/271 (32%), Positives = 141/271 (52%), Gaps = 27/271 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L ++E LAK+ E GD A RL S+LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGKIPLLGMEDEVELAKKM-ELGDPEARKRLAESNLRLVVSIAKRYVGRGMQFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I RL Sbjct: 170 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLV 229 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS---ESEVISMNCRLAGDESLNALINSS 193 R+L LQ + E IA +L++ SE++ M+ E ++ Sbjct: 230 RTSRQL---LQELGREPTTEE----IAARLDLPVERVSEIMKMS-----QEPVSLETPIG 277 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEARRLQEN 251 ++ S D++ D+ VL+ ++ L + L RE+++ R ++ Sbjct: 278 EEEDSHLGDFIQDDN-----VLVPQDAAAFTLLHEQLMEVLLTLTEREQKVLRLRFGLDD 332 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKV 280 P TLE + +F V+RER+RQIEA+A +K+ Sbjct: 333 GRPRTLEEVGKQFNVTRERIRQIEAKALRKL 363 >gi|146319082|ref|YP_001198794.1| RNA polymerase sigma factor RpoD [Streptococcus suis 05ZYH33] gi|146321288|ref|YP_001200999.1| RNA polymerase sigma factor RpoD [Streptococcus suis 98HAH33] gi|223932503|ref|ZP_03624504.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptococcus suis 89/1591] gi|253752138|ref|YP_003025279.1| RNA polymerase sigma factor RpoD [Streptococcus suis SC84] gi|253753963|ref|YP_003027104.1| RNA polymerase sigma factor RpoD [Streptococcus suis P1/7] gi|253755898|ref|YP_003029038.1| RNA polymerase sigma factor RpoD [Streptococcus suis BM407] gi|330833083|ref|YP_004401908.1| RNA polymerase sigma factor RpoD [Streptococcus suis ST3] gi|145689888|gb|ABP90394.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus suis 05ZYH33] gi|145692094|gb|ABP92599.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus suis 98HAH33] gi|223898774|gb|EEF65134.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptococcus suis 89/1591] gi|251816427|emb|CAZ52060.1| RNA polymerase sigma factor RpoD [Streptococcus suis SC84] gi|251818362|emb|CAZ56188.1| RNA polymerase sigma factor RpoD [Streptococcus suis BM407] gi|251820209|emb|CAR46610.1| RNA polymerase sigma factor RpoD [Streptococcus suis P1/7] gi|292558723|gb|ADE31724.1| RNA polymerase sigma factor rpoD [Streptococcus suis GZ1] gi|319758521|gb|ADV70463.1| RNA polymerase sigma factor RpoD [Streptococcus suis JS14] gi|329307306|gb|AEB81722.1| RNA polymerase sigma factor RpoD [Streptococcus suis ST3] Length = 372 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 88/272 (32%), Positives = 143/272 (52%), Gaps = 29/272 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGVVPLLTNEEEQELALAV-EAGDPEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 164 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 222 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA++++++ +V + ++A + SL I Sbjct: 223 ----VREQRNLLQELG-QDPTPEQ---IAERMDMTPEKVREI-LKIAQEPVSLETPIGEE 273 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 274 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 325 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + TLE++ F V+RER+RQIEA+A +K+ Sbjct: 326 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKL 357 >gi|255531368|ref|YP_003091740.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|255344352|gb|ACU03678.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 286 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 84/304 (27%), Positives = 155/304 (50%), Gaps = 67/304 (22%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI + L+RY+ EI K P+L+ +EE VL KR +E GD A RLV+S+LR VV +A Sbjct: 9 SITNRSQDSLARYLQEISKYPLLDAEEEIVLGKRIKE-GDWDALQRLVSSNLRFVVTVAK 67 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y L +++++S+GNIGL++A ++FD +RGF+ +Y++WWI+ ++ + Sbjct: 68 KYESPDLSLADLISDGNIGLIKAAERFDEKRGFKFISYAVWWIRQSILQ----------- 116 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 G +++ + + ++ G ++ + + +K EQ E+ + CR E L Sbjct: 117 GMNTSKRMVHLPMSQISG-IRQVKRSEIKLEQ-------------ELQRIPCR----EEL 158 Query: 187 NALINSSDKNSSQWQDWLVYDH--------------DGQEQVLI-------------EKE 219 + ++++ +VYD+ +GQ+ VLI Sbjct: 159 AGFMKTAEE--------VVYDYLYISGSQVSLDAPTEGQDGVLIPCIVQYDKGPAPDASL 210 Query: 220 ERKNRRNMLTRSMSVLNPRERRI-FEARRLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 ER++ + R M +L+PRER I F A + N P+ +++S+ +S E +R+ + +A Sbjct: 211 ERESLEKDVQRMMDILSPRERSILFLAYGMGNNRPLQNDDISTLLGLSTETIRRSKNKAL 270 Query: 278 KKVQ 281 +++ Sbjct: 271 DRLR 274 >gi|330721381|gb|EGG99448.1| RNA polymerase sigma factor RpoS [gamma proteobacterium IMCC2047] Length = 321 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 84/279 (30%), Positives = 141/279 (50%), Gaps = 29/279 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R GD + R++ S+LRLVVKI+ Y GL + ++ Sbjct: 52 YLNEIGFSPLLSAEEEVYYA-RLALKGDEAGRKRMIESNLRLVVKISRRYVNRGLTLLDL 110 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 111 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNVY 169 Query: 139 LRRLKGHLQAITDNNLKPEQVVAI-------AKKLNVSESEVISMNCRLAGDESLNALIN 191 LR + Q + D+ E++ + K++ V S++ + GD + N Sbjct: 170 LRAARELTQKL-DHEPSAEEIAEMLDRPVENVKRMLKLNERVTSIDAPMGGDSERSMAEN 228 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---L 248 + +N + L D N LT + L+ ++R + ARR L Sbjct: 229 ITGENVDDPSELLQND---------------NLHGNLTHWLGELSEKQREVI-ARRFGLL 272 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + SE ++RERVRQI+ A K+++ ++K+ Sbjct: 273 GYEMSTLEQVGSEIGLTRERVRQIQVEALKRLRAVMEKE 311 >gi|313903305|ref|ZP_07836697.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter subterraneus DSM 13965] gi|313466393|gb|EFR61915.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter subterraneus DSM 13965] Length = 432 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 137/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L ++E LAKR E GD A +L+ ++LRLVV IA Y G G+ ++ Sbjct: 166 YLKEIGRIPLLTPEQEIELAKRI-EQGDEEAKRKLIQANLRLVVSIAKRYVGRGMLFLDL 224 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++A +KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 225 IQEGNLGLIKAAEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 284 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LN 187 Q++L L R + + ++PE+V I K E +S+ + +E L Sbjct: 285 RVQRQLVQELGREPTPEEIAKEMGIEPEKVREIMK----IAQEPVSLETPIGEEEDSHLG 340 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D + + Q+L+ R L + L RE+++ R Sbjct: 341 DFIEDEDALAP---------AEAASQLLL--------REQLEDVLHTLTDREQKVLRLRF 383 Query: 248 LQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 384 GLDDGRQRTLEEVGQIFGVTRERIRQIEAKALRKL 418 >gi|154484558|ref|ZP_02027006.1| hypothetical protein EUBVEN_02272 [Eubacterium ventriosum ATCC 27560] gi|149734406|gb|EDM50323.1| hypothetical protein EUBVEN_02272 [Eubacterium ventriosum ATCC 27560] Length = 429 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 145/280 (51%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V E + Y+ EI +P+L EE LAKR E GD+ A +L+ ++LRLVV IA Y Sbjct: 153 VGTEDPVRMYLKEIGTVPLLTADEELELAKRKTE-GDIVAKEKLIEANLRLVVSIAKRYT 211 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ ++V EGN+GL++ V+KFD +G++L+TY+ WWI+ ++ + +++ Sbjct: 212 GRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWWIRQSVTRALADHARTIRVPV- 270 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + + R+ + +T +A L+++E +V+ + SL Sbjct: 271 ----HMVETINRMSKMQRKLTLELGYEPSTKELATALDMTEEKVLEIMQIAREPASLETP 326 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RL 248 I D S D++ ++ + IE + ++L + L RER + R L Sbjct: 327 IGEED--DSNLGDFVADNNTVTPEANIESVMLREHIDVLLQD---LKDREREVIILRFGL 381 Query: 249 QE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ +P TLE + F V+RER+RQIEA+A +K++ ++ + Sbjct: 382 RDGHPRTLEEVGKIFNVTRERIRQIEAKALRKLRNPVRSK 421 >gi|295397565|ref|ZP_06807644.1| RNA polymerase sigma factor rpoD [Aerococcus viridans ATCC 11563] gi|294974189|gb|EFG49937.1| RNA polymerase sigma factor rpoD [Aerococcus viridans ATCC 11563] Length = 374 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 134/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA+R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVELLTADEEVSLAQRI-EQGDPVAKQELAEANLRLVVSIAKRYVGRGMSFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 167 IQEGNMGLMKAVEKFDYHKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 226 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 227 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 282 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S D+ E + + L + L RE + R Sbjct: 283 DFIEDHDATSPD-------DYTSAELL----------KEQLNEVLDTLTDREENVLRLRF 325 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E+ TLE + +F V+RER+RQIEA+A +K+ Sbjct: 326 GLEDGQSKTLEQVGQQFGVTRERIRQIEAKALRKL 360 >gi|42526449|ref|NP_971547.1| RNA polymerase sigma-70 factor family protein [Treponema denticola ATCC 35405] gi|41816642|gb|AAS11428.1| RNA polymerase sigma-70 factor family protein [Treponema denticola ATCC 35405] gi|325473389|gb|EGC76584.1| RNA polymerase sigma factor [Treponema denticola F0402] Length = 286 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 81/274 (29%), Positives = 146/274 (53%), Gaps = 12/274 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ EI +IP+L +EE AK E GD A + LV S+LR VV +A Y+ GLP+ Sbjct: 16 LATYLKEINQIPLLTAEEEIKYAK-LAEKGDEDAKNMLVNSNLRFVVNVAKKYQNQGLPL 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGNIGLM A ++FD +G++ +Y++WWIK ++ + I ++++ N+ Sbjct: 75 MDLISEGNIGLMNAAERFDVSKGYKFISYAVWWIKQSILKAICEKSRMIRL--PLNRANE 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + K + + N K ++ IA LN+ S V ++ S++A + + Sbjct: 133 LVQIEKAKKEID-FSGNETK--ELNEIAGILNMDNSMVHTIMNAAREPISIDAPV-FDEP 188 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PV 253 SS D+L D Q+ + + R+ + + L+ RE I R P+ Sbjct: 189 GSSSVNDFL---QDETHQMPEDYAMDMSLRDEVNELLKNLDDREAEIIRYRFGLGGYAPL 245 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +L+ + F +++ER+RQIE +A +++++ +KQ Sbjct: 246 SLKEVGLIFNLTKERIRQIEKKALQQLKKPAEKQ 279 >gi|145219258|ref|YP_001129967.1| RNA polymerase, sigma 32 subunit, RpoH [Prosthecochloris vibrioformis DSM 265] gi|145205422|gb|ABP36465.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium phaeovibrioides DSM 265] Length = 299 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 89/305 (29%), Positives = 158/305 (51%), Gaps = 47/305 (15%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L +E L K +E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTADDEVRLTKAIKEGFDMPLDTTEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N K +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EYERDPNTKE-----LANLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKN---SSQWQDWLVYDHD-GQEQVLIEKEERKNRR 225 S+ ++ ++AG S++A D N D + DH ++ + +E E Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHLPDHGLNRDSLTLEVE------ 231 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RS+SVL PRE + ++ +NP+TLE + +F+++RERVRQI+ +A +++++S Sbjct: 232 ----RSLSVLAPREADVIKSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQS 287 Query: 284 IQKQV 288 +V Sbjct: 288 AYSKV 292 >gi|297170837|gb|ADI21856.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured verrucomicrobium HF0130_25O04] Length = 303 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 97/291 (33%), Positives = 153/291 (52%), Gaps = 44/291 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ +I +P+L +EE LA R + +GD A ++T++LRLVVKIA Y GL + Sbjct: 9 LDIYLRQISTVPLLTVEEEIELASRIK-NGDEKARETMITANLRLVVKIAKEYSNIGLSL 67 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGNIGLM+AV++FDP +G +L+TY WWIK A++ + ANQ + Sbjct: 68 LDLINEGNIGLMKAVERFDPSKGGKLSTYGAWWIKQAIKRAL------------ANQSKT 115 Query: 136 FFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLN---VSESEVISMNCRLAGDESLNALIN 191 RL H+ D + + V +A+KL E MN +A + L + Sbjct: 116 I----RLPVHM---VDRVTQIRRTSVQLAEKLGREPTDEELAAEMNLPVA---RITLLKS 165 Query: 192 SSDKNSSQWQDWLVYDHDGQ---EQVLIEKE----ERKNRRNMLTRSMSV---LNPRERR 241 S K +S D + ++DG E V EK E ++++ SV L PRE Sbjct: 166 VSRKPAS--LDSPLGENDGSTLGEMVADEKSANPYEHLQSKSLVGDVNSVLAQLEPREAD 223 Query: 242 IFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE---SIQKQ 287 I R E P+TLE + + V+RERVRQ++ +A +++++ S++KQ Sbjct: 224 IIRLRFGLEGLEPLTLEEVGEKIGVTRERVRQLQEQALRQLRKNMASMEKQ 274 >gi|154706690|ref|YP_001423754.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] gi|154355976|gb|ABS77438.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] Length = 352 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 13/269 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ P+L +EE +A+R + GD A +++ ++LRLVVKIA Y GLP ++ Sbjct: 84 YLRELGFQPLLNAKEELKIARRVHK-GDPKARKQMIEANLRLVVKIARHYVNRGLPFLDL 142 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM AV+KFDPERGFR +TY+ WWI+ ++ I+ V++ K L Sbjct: 143 IEEGNLGLMSAVEKFDPERGFRFSTYATWWIRQTIERAIMNQSRTVRLPIHV-IKELNVY 201 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR K Q + D+ PE V + K E+ + S++ I+ + S Sbjct: 202 LRTAKKLTQEV-DHEATPEDVAHLIDK---PVQEIRRIMDLAPSATSIDVPISEDGQKS- 256 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLE 256 D L D++ LI+ + ++ + R ++ L+ R R + R L EN TLE Sbjct: 257 -LVDTLADDNNIDPARLIQNVDLQDH---IERWLAQLDERHREVVILRFGLHENEKGTLE 312 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + ++RERVRQI+ A ++++ ++ Sbjct: 313 AVGKAVGLTRERVRQIQIDALQQLRHILE 341 >gi|325686025|gb|EGD28083.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 373 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 133/275 (48%), Gaps = 33/275 (12%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +Y+ I ++ +L EE LAKR E GD A L +++LRLVV IA Y G G+ + Sbjct: 106 QYLKRIGRVSLLSGDEEVQLAKRI-EAGDQEAKDELTSANLRLVVSIAKRYVGRGMSFLD 164 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EGN+GLM+AV KFD + GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 LIQEGNMGLMKAVGKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETIN 222 Query: 138 NLRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLN 187 L R++ L + +PE++ A + + L V++ E +S+ + D L Sbjct: 223 KLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S + H E + ++ L + L E + R Sbjct: 282 DFIEDKDATSPEQ-------HAASEML----------KDQLAEVLDTLTDSEENVLRLRF 324 Query: 247 RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + NP TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKL 359 >gi|153207564|ref|ZP_01946247.1| RNA polymerase sigma factor RpoS [Coxiella burnetii 'MSU Goat Q177'] gi|161829847|ref|YP_001597499.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 331] gi|165918356|ref|ZP_02218442.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 334] gi|212211994|ref|YP_002302930.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] gi|212218001|ref|YP_002304788.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] gi|120576532|gb|EAX33156.1| RNA polymerase sigma factor RpoS [Coxiella burnetii 'MSU Goat Q177'] gi|161761714|gb|ABX77356.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 331] gi|165918006|gb|EDR36610.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 334] gi|212010404|gb|ACJ17785.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] gi|212012263|gb|ACJ19643.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] Length = 352 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 13/269 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ P+L +EE +A+R + GD A +++ ++LRLVVKIA Y GLP ++ Sbjct: 84 YLRELGFQPLLNAKEELKIARRVHK-GDPKARKQMIEANLRLVVKIARHYVNRGLPFLDL 142 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM AV+KFDPERGFR +TY+ WWI+ ++ I+ V++ K L Sbjct: 143 IEEGNLGLMTAVEKFDPERGFRFSTYATWWIRQTIERAIMNQSRTVRLPIHV-IKELNVY 201 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR K Q + D+ PE V + K E+ + S++ I+ + S Sbjct: 202 LRTAKKLTQEV-DHEATPEDVAHLIDK---PVQEIRRIMDLAPSATSIDVPISEDGQKS- 256 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLE 256 D L D++ LI+ + ++ + R ++ L+ R R + R L EN TLE Sbjct: 257 -LVDTLADDNNIDPARLIQNVDLQDH---IERWLAQLDERHREVVILRFGLHENEKGTLE 312 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + ++RERVRQI+ A ++++ ++ Sbjct: 313 AVGKAVGLTRERVRQIQIDALQQLRHILE 341 >gi|88809466|ref|ZP_01124974.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] gi|88786685|gb|EAR17844.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] Length = 376 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 118/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 136 ARDRMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 195 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K Q I + V +AK+L V Sbjct: 196 IRQGITRAIATQSRTIRLPVHITEK-----LNRIKRVQQEIASEKGRLASVSDLAKELGV 250 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL + +Q D L H EQ L R + + L Sbjct: 251 SEETVRQTLARVPRSVSLETRVGKD--QDTQLGDLLEDGHATPEQTLT----RDSLHDDL 304 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L+PRE + +R E+ P TL + +SRERVRQIE RA K+++ Sbjct: 305 EHLLEELSPREAEVIRSRFGLEDDTPRTLAEIGEAMALSRERVRQIETRALLKLRQ 360 >gi|229543825|ref|ZP_04432884.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus coagulans 36D1] gi|229324964|gb|EEN90640.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus coagulans 36D1] Length = 377 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVDLLSADEEIELAKRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMQFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD ++G++ +TY+ WWI+ A+ I ++I T N Sbjct: 170 IQEGNMGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 229 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + ++ P++V I K E +S+ + D L Sbjct: 230 RVQRSLLQDLGREPTPEEIAEEMDISPDKVREIIKIAQ----EPVSLETPIGEEDDSHLG 285 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 286 DFIEDQDATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 328 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 329 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 364 >gi|107029001|ref|YP_626096.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia AU 1054] gi|105898165|gb|ABF81123.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia AU 1054] Length = 362 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 258 APLDPD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|325269188|ref|ZP_08135807.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] gi|324988417|gb|EGC20381.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] Length = 287 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 80/283 (28%), Positives = 146/283 (51%), Gaps = 28/283 (9%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI M+ +EE LA+R R+ GD A RL ++LR VV +A Y+ GL Sbjct: 17 SLDKYLQEIGHEEMISIEEEVELAQRIRK-GDRKALERLTKANLRFVVSVAKQYQNQGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG----TTA 130 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I ++++ ++ Sbjct: 76 LPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSV 135 Query: 131 NQKRLFFNL----RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 N+ N + + I + PE +A A K N S +S++ DE Sbjct: 136 NKINKILNRFEQENERRPSIDEIAQSTDLPEDKIADAMKAN---SRHVSVDAPFYDDEQS 192 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + L + N+ LV E+ L R + R + +L RE+ + EA Sbjct: 193 SLLDVIPNDNAPSTDRGLV------EESL---------REEIGRVLQILEDREKMVVEAY 237 Query: 247 -RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + + +TLE + S++ ++RERVRQI+ +A +++++ +V Sbjct: 238 FGINQREMTLEEIGSKYNLTRERVRQIKEKAIRRLRQQTNSKV 280 >gi|195953303|ref|YP_002121593.1| putative RNA polymerase, sigma 70 family subunit [Hydrogenobaculum sp. Y04AAS1] gi|195932915|gb|ACG57615.1| putative RNA polymerase, sigma 70 family subunit [Hydrogenobaculum sp. Y04AAS1] Length = 311 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/300 (27%), Positives = 145/300 (48%), Gaps = 45/300 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +++Y+ + + +L QEE AKR + GD A LV ++LR VV +A Y GYG+P+ Sbjct: 10 INQYMKRVSSVKLLTPQEEKEFAKRAK-AGDKEALKALVEANLRFVVSVAKQYMGYGIPL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK---------- 125 SE+++ GN+GL++A +FDP++ + +Y++WW++ A+ + + + V+ Sbjct: 69 SELIAAGNLGLLEAATRFDPDKNVKFISYAVWWVRQAIMQALSQQTGAVRIPVKHSHLIS 128 Query: 126 ---------------------IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I N+K + ++ G A T+ L EQ + Sbjct: 129 AVGLAYNELLKELEREPTYKEIADYINKKNIIREFKKETGF--APTEEEL--EQSMTQEH 184 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL-VYDHDGQEQVLIEKEERKN 223 K V+E +V C L+ D + + D L + D D E+ +I+ K Sbjct: 185 KYTVTEEDV--KKCLQICKTPLSLDTPVGDNPDTLFVDLLSISDTDEIEEGVIKDVLEKE 242 Query: 224 RRNMLTRSMSVLNPRERRIFEARR-LQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +++++ L +ER++ E R L N P+TL + +SRERVRQ+E RA KK++ Sbjct: 243 LHDIISK----LPEKERKVLELRYGLNGNEPLTLREIGDALGISRERVRQLETRAIKKLR 298 >gi|309388945|gb|ADO76825.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium praevalens DSM 2228] Length = 364 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 144/272 (52%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L +EE LAKR E G+ A +LV ++LRLVV IA Y G G+ ++ Sbjct: 98 YLKEIGKVDLLTAEEEVELAKRM-EQGEEWAKQQLVQANLRLVVSIAKKYVGRGMLFLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +G++ +TY+ WWI+ A+ I +++ + Sbjct: 157 IQEGNMGLMKAVDKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRV--PVHMVETINK 214 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L K E++ A ++++S +V + +++ D SL I ++ Sbjct: 215 LIRVSRQLLQEKGREPKDEEIGA---EMDISAEKVREI-MKISQDPVSLETPIG--EEED 268 Query: 198 SQWQDWLVYDHD------GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S D+ + D D +L++++ L + L RE+R+ E R E+ Sbjct: 269 SHLGDF-IEDVDSPAPASAASYILLKEQ--------LNDVLDTLTDREKRVLELRFGIED 319 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 320 GRPRTLEEVGKEFGVTRERIRQIEAKALRKLR 351 >gi|262038195|ref|ZP_06011589.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] gi|261747776|gb|EEY35221.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] Length = 393 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/272 (30%), Positives = 137/272 (50%), Gaps = 29/272 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE A+R GD A +L+ S+LRLVV IA + GL + ++ Sbjct: 127 YLREIGQIPLLSYEEEIDYAQRVL-KGDEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDL 185 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KF+ E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 186 IQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 240 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 + ++K + I K ++KKL + +V + MN SL + S + Sbjct: 241 INKIKKESRIILQETGKEPTAEELSKKLEIPVDKVKNILEMNQDPI---SLETPVGSEE- 296 Query: 196 NSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S+ D++ D +D +VL+ + L + LN RE + R + Sbjct: 297 -DSELGDFVEDDKFLNPYDATTRVLL--------KEQLDEILKTLNEREEMVLRYRYGLD 347 Query: 251 NPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 + TLE + F V+RER+RQIE +A +K+ Sbjct: 348 DGSQKTLEEVGKIFNVTRERIRQIEVKALRKL 379 >gi|319953761|ref|YP_004165028.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Cellulophaga algicola DSM 14237] gi|319422421|gb|ADV49530.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga algicola DSM 14237] Length = 287 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/288 (28%), Positives = 157/288 (54%), Gaps = 39/288 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R ++ GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIKK-GDQAALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 + F L+ + PE+ IAK+L+++ E + + + +G S++A Sbjct: 136 NKINKTF-------AFLEQAHERQPSPEE---IAKELDMT-VEDVKQSLKNSGRHVSMDA 184 Query: 189 -LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LI+ D N +YD G+ + ++ R + R++ L PRE + Sbjct: 185 PLIDGEDSN--------LYDVLRSGESPNPDRELLHESLRTEIERALETLTPREADVI-- 234 Query: 246 RRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 -RLYFGLAGQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|226226576|ref|YP_002760682.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] gi|226089767|dbj|BAH38212.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] Length = 286 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/285 (29%), Positives = 146/285 (51%), Gaps = 41/285 (14%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E L +Y+ +I P++ ++EE LA+R R+ GD A +LV S+LR VV +A Y+ G Sbjct: 14 EGSLDQYLRDISAYPLISREEEAELARRIRQ-GDQEALDKLVRSNLRFVVSVAKKYQNQG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-----------RSW 121 + +S++++EGN+GL++A +KFD +G + +Y++WWI+ A+ + + R+ Sbjct: 73 VSLSDLINEGNLGLIRAARKFDETKGIKFISYAVWWIRQAILQALAEQSRIVRVPLNRAG 132 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +L +IG AN L L R H + ++ E+V AK +++S+ + Sbjct: 133 TLHRIGKRANA--LLQELGREATHAEIAHGMDITEEEV---AKTMSISQVHL-------- 179 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 SL+A + + N L Y D ++ K + S+ L RE + Sbjct: 180 ---SLDAPLTPGEDNR-----LLDYLPDTVHPTPEDQTFDKALTEAIEESLGGLKEREAK 231 Query: 242 IFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 I RL +P+TLE + S+ ++RERVRQI+ +A +++ Sbjct: 232 IL---RLYFGIDGADPMTLEEIGSQLGITRERVRQIKEKALSRLR 273 >gi|160902085|ref|YP_001567666.1| RpoD family RNA polymerase sigma factor [Petrotoga mobilis SJ95] gi|160359729|gb|ABX31343.1| RNA polymerase, sigma 70 subunit, RpoD family [Petrotoga mobilis SJ95] Length = 424 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 80/280 (28%), Positives = 145/280 (51%), Gaps = 26/280 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K +L E LA+R + GD A L+ ++LRLV+ IA Y G+GL ++ Sbjct: 153 YLKEISKSKLLTPSRERKLARR-AQMGDKRAREELIKANLRLVISIAKRYVGHGLGFLDL 211 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQK 133 + EGNIGLM+AV KFD ++G++ +TYS WWI+ A+ I V+I T Sbjct: 212 IQEGNIGLMKAVAKFDWKKGYKFSTYSYWWIRQAITRAIADQGRTVRIPVHLVETINRMN 271 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD---ESLNALI 190 R+ + G + + + ++ ++ V K++ +S + S+N ++ D E + ++ Sbjct: 272 RVVNKYIQENGEVPDLEELSVLMDKPVDKMKEVLISAKNIFSLNAPISNDVDAEGESEVL 331 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 + D +S D +G++ ++ R + + L+P+E I + R + Sbjct: 332 DFIDSDSP------TPDEEGRKMII---------RQKMEMIIDTLSPKEAMILKMRYGFV 376 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + F V+RER+RQIE+++ +K++ +K++ Sbjct: 377 DGKQKTLEEVGEFFNVTRERIRQIESKSIRKLKHPARKKM 416 >gi|313672395|ref|YP_004050506.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Calditerrivibrio nitroreducens DSM 19672] gi|312939151|gb|ADR18343.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calditerrivibrio nitroreducens DSM 19672] Length = 337 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/265 (29%), Positives = 138/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ K P+L K+EE LA+R E GD A ++ +LRLVV IA Y G+P+ ++ Sbjct: 70 YLKELSKCPVLSKEEECELARRI-EEGDEKAKETMINCNLRLVVSIAKKYANKGVPLEDL 128 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +SEGNIGL++AV+KFD +GF+ +TY+ WWI+ A++ I+ + +V++ + Sbjct: 129 ISEGNIGLIRAVEKFDYRKGFKFSTYATWWIRQAIERAIIANTKIVRVPVHVLE--YIKK 186 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + + K LQ N ++ ++ S + + D S++A I+ ++ + Sbjct: 187 ILKAKSELQETLGRN---PTYTELSTYTGITLSNIYKAVEAMRHDVSIDAPISEDEQENM 243 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 L+ D+ + + N + ++++ M LN E+ I R + TL+ Sbjct: 244 H---NLIPDNIHTDP--FDHAFELNIQKLVSKWMGYLNETEKLIITLRYGLDGKRSRTLD 298 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + E ++RER+RQIE R K++ Sbjct: 299 EVGKELNLTRERIRQIEKRVLNKLR 323 >gi|126667564|ref|ZP_01738534.1| nonessential primary sigma factor [Marinobacter sp. ELB17] gi|126627990|gb|EAZ98617.1| nonessential primary sigma factor [Marinobacter sp. ELB17] Length = 333 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 91/284 (32%), Positives = 154/284 (54%), Gaps = 39/284 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+ R+ G+ S R++ S+LRLVVKIA Y GL + ++ Sbjct: 65 YLNEIGFSPLLTPEEEVYFARLARK-GEESGRKRMIESNLRLVVKIARRYVNRGLTLLDL 123 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 124 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERGIMNQTRTIRLPIHV-VKELNLY 182 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLA---------GDESL 186 LR + Q + D+ E+ IA+K++ +V + +N R+A G++SL Sbjct: 183 LRAARELTQQL-DHEPTAEE---IARKVDKPVKDVKRMLGLNERVASMDTPIGAGGEKSL 238 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L +D+ +S D L + N L + + L+ +++ + AR Sbjct: 239 --LDTVADEGASDPADVL---------------QDNNISVCLQQWIDQLSEKQQEVL-AR 280 Query: 247 R--LQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R L+ PV TLE + E ++RERVRQI+ A ++++E ++K+ Sbjct: 281 RFGLRGYPVSTLEEVGQEIGLTRERVRQIQVEALRRLREILEKE 324 >gi|314933733|ref|ZP_07841098.1| RNA polymerase sigma factor RpoD [Staphylococcus caprae C87] gi|313653883|gb|EFS17640.1| RNA polymerase sigma factor RpoD [Staphylococcus caprae C87] Length = 368 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAK+ E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKKI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|302024138|ref|ZP_07249349.1| RNA polymerase sigma factor RpoD [Streptococcus suis 05HAS68] Length = 372 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 85/268 (31%), Positives = 140/268 (52%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGVVPLLTNEEEQELALAV-EAGDPEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 164 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 221 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA++++++ +V + ++A + SL I D Sbjct: 222 LVREQRNLLQELGQDPTPEQ---IAERMDMTPEKVREI-LKIAQEPVSLETPIGEED--D 275 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++++ ++ R R L + L RE + R L + + Sbjct: 276 SHLGDFI------EDEIIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 329 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE++ F V+RER+RQIEA+A +K+ Sbjct: 330 RTLEDVGKVFNVTRERIRQIEAKALRKL 357 >gi|253581343|ref|ZP_04858569.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium varium ATCC 27725] gi|251836707|gb|EES65241.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium varium ATCC 27725] Length = 414 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 145/272 (53%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L EE AKR E GD A+ +L+ ++LRLVV IA + GL + ++ Sbjct: 148 YLREIGQIPLLSHDEELEYAKRALE-GDEWASKQLIEANLRLVVSIAKKHTNRGLKLLDL 206 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I T N+ + Sbjct: 207 IQEGNIGLMKAVEKFEYSKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIK 266 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +LQ T + PE + ++L + +V ++ SL + S + Sbjct: 267 -----KEARIYLQE-TGKDATPE---VLGERLGMEVDKVKAIQEMNQDPISLETPVGSEE 317 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D+ V DH ++ E NR R L ++ L+ RE R+ R ++ Sbjct: 318 --DSELGDF-VEDHK-----MLNPYELTNRSLLREQLNGVLNTLSSREERVLRYRYGLDD 369 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F+V+RER+RQIE +A +K++ Sbjct: 370 GSPKTLEEVGKIFKVTRERIRQIEVKALRKLR 401 >gi|73662504|ref|YP_301285.1| RNA polymerase sigma factor RpoD [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|72495019|dbj|BAE18340.1| RNA polymerase sigma factor A [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 368 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAK+ E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLNAQEEIELAKKI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|126652263|ref|ZP_01724442.1| RNA polymerase sigma factor RpoD [Bacillus sp. B14905] gi|126590995|gb|EAZ85107.1| RNA polymerase sigma factor RpoD [Bacillus sp. B14905] Length = 375 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 138/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L ++E LA+R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEQEIALAERI-EQGDEEARKRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I S+ S DH E + + L + L RE + R Sbjct: 284 DFIEDSEAQSPS-------DHAAYELL----------KEQLEDVIDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|223044379|ref|ZP_03614413.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Staphylococcus capitis SK14] gi|222442248|gb|EEE48359.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Staphylococcus capitis SK14] Length = 368 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAK+ E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKKI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|307298746|ref|ZP_07578549.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotogales bacterium mesG1.Ag.4.2] gi|306915911|gb|EFN46295.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotogales bacterium mesG1.Ag.4.2] Length = 416 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 138/275 (50%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KI +L E LA+R + G+ A L+T++LRLVV IA Y G GL ++ Sbjct: 142 YLKEIGKISLLTPSRERELARRA-QKGEPKAKEELITANLRLVVSIAKRYIGRGLTFLDL 200 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL++AV+KFD ++G++ +TY+ WWI+ A+ I +++ + N Sbjct: 201 IQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKLN 260 Query: 139 LRRLKGHLQAITD-------NNL---KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + ++ HLQ + NL PE++ I + E +S+ ++GDE Sbjct: 261 -KVIREHLQDHGEYPTIEELGNLTGKTPEKIEEIL----AASKETVSLESPISGDE---- 311 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 S D++ HD + E + R + + + L+PRE + + R Sbjct: 312 --------ESTMGDFI---HDDSMEQPEEAAMKMLLREQIDQILDTLSPREAMVLKMRYG 360 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L TLE + F V+RER+RQIE +A +K++ Sbjct: 361 LLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLR 395 >gi|255034849|ref|YP_003085470.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dyadobacter fermentans DSM 18053] gi|254947605|gb|ACT92305.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dyadobacter fermentans DSM 18053] Length = 287 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 79/269 (29%), Positives = 147/269 (54%), Gaps = 17/269 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L EE LA++ R+ GD A RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLLTPDEEVTLAQKIRD-GDQLALERLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 GDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNRVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + L+ + PE+ +A+ L +S SEV+ +++G S++A + Sbjct: 135 LNKISKTFSELEQRFEREPSPEE---LAEVLEISSSEVVD-TMKISGRHVSMDAPFVQGE 190 Query: 195 KNSSQWQDWLVYD-HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QEN 251 +NS D L D D + L+ + RK + R++ L RE + E+ Sbjct: 191 ENS--LLDVLENDLEDKPDSGLVNESLRKE----VQRALCTLTQREADVIALYFGLNGEH 244 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKV 280 +TLE + +F ++RERVRQI+ +A +++ Sbjct: 245 AMTLEEIGEKFNLTRERVRQIKEKAIRRL 273 >gi|327313374|ref|YP_004328811.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola F0289] gi|326944913|gb|AEA20798.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola F0289] Length = 327 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/275 (28%), Positives = 152/275 (55%), Gaps = 14/275 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI M+ +EE LA+R R+ GD A RL ++LR VV +A Y+ GL + Sbjct: 58 LDKYLQEIGHEEMISIEEEVELAQRIRK-GDRKALERLTKANLRFVVSVAKQYQNQGLSL 116 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I ++++ NQ Sbjct: 117 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRL--PLNQ--- 171 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 ++ ++ L N + + IA+ ++ E ++ + S++A D+ Sbjct: 172 VSSVNKINKILNQFEQENERRPSIGEIAQSTDIPEEKIADAIKVSSRHVSVDAPFYDDDQ 231 Query: 196 NSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 +S D + D+ ++ L+E+ R+ + R + VL RE+++ EA + + + Sbjct: 232 SS--LLDVIPNDNVPSTDRGLVEESLREE----IGRVLQVLEDREKKVVEAYFGINQREM 285 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + S++ ++RERVRQI+ +A +++++ +V Sbjct: 286 TLEEIGSKYNLTRERVRQIKEKAIRRLRQQTNSKV 320 >gi|218288616|ref|ZP_03492893.1| RNA polymerase, sigma 70 subunit, RpoD family [Alicyclobacillus acidocaldarius LAA1] gi|258511944|ref|YP_003185378.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|218241273|gb|EED08448.1| RNA polymerase, sigma 70 subunit, RpoD family [Alicyclobacillus acidocaldarius LAA1] gi|257478670|gb|ACV58989.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 368 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVPLLSAQEEIELAKRI-EQGDEEAKQRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 ++L L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVSRQLLQELGREPTPEEIAAEMDLTPEKVREIQK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + + + E VL ER+ N+L + + R R Sbjct: 277 DFIPDDEAPAPADAAAYELLKEQLEDVLDTLTEREE--NVLRLRFGLDDGRTR------- 327 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 328 ------TLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|325857152|ref|ZP_08172442.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola CRIS 18C-A] gi|325483215|gb|EGC86193.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola CRIS 18C-A] Length = 327 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/275 (28%), Positives = 152/275 (55%), Gaps = 14/275 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI M+ +EE LA+R R+ GD A RL ++LR VV +A Y+ GL + Sbjct: 58 LDKYLQEIGHEEMISIEEEVELAQRIRK-GDRKALERLTKANLRFVVSVAKQYQNQGLSL 116 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I ++++ NQ Sbjct: 117 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRL--PLNQ--- 171 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 ++ ++ L N + + IA+ ++ E ++ + S++A D+ Sbjct: 172 VSSVNKINKILNQFEQENERRPSIGEIAQSTDIPEEKIADAIKVSSRHVSVDAPFYDDDQ 231 Query: 196 NSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 +S D + D+ ++ L+E+ R+ + R + VL RE+++ EA + + + Sbjct: 232 SS--LLDVIPNDNVPSTDRGLVEESLREE----IGRVLQVLEDREKKVVEAYFGINQREM 285 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + S++ ++RERVRQI+ +A +++++ +V Sbjct: 286 TLEEIGSKYNLTRERVRQIKEKAIRRLRQQTNSKV 320 >gi|257470878|ref|ZP_05634968.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] gi|317065080|ref|ZP_07929565.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] gi|313690756|gb|EFS27591.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] Length = 418 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/272 (31%), Positives = 145/272 (53%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L EE AKR E GD A+ +L+ ++LRLVV IA + GL + ++ Sbjct: 152 YLREIGQIPLLSHDEELEYAKRALE-GDDWASKQLIEANLRLVVSIAKKHTNRGLKLLDL 210 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I T N+ + Sbjct: 211 IQEGNIGLMKAVEKFEYSKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIK 270 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +LQ T + PE + ++L + +V ++ SL + S + Sbjct: 271 -----KEARIYLQE-TGKDATPE---VLGERLGMEVDKVKAIQEMNQDPISLETPVGSEE 321 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D+ V DH ++ E NR R L ++ L+ RE R+ R ++ Sbjct: 322 --DSELGDF-VEDHK-----MLNPYELTNRSLLREQLNGVLNTLSSREERVLRYRYGLDD 373 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F+V+RER+RQIE +A +K++ Sbjct: 374 GSPKTLEEVGKIFKVTRERIRQIEVKALRKLR 405 >gi|242242833|ref|ZP_04797278.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis W23144] gi|242233734|gb|EES36046.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis W23144] Length = 368 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAK+ E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKKI-EQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|205374117|ref|ZP_03226917.1| RNA polymerase sigma factor RpoD [Bacillus coahuilensis m4-4] Length = 337 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 137/274 (50%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA+R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 71 YLKEIGRVDLLSAEEEISLAERI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 129 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 130 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 189 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L PE+V I L +++ V SL Sbjct: 190 RVQRQLLQDLGREPSPEEIGEEMDLPPEKVREI---LKIAQEPV-----------SLETP 235 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + Q E + + L + L RE + R Sbjct: 236 IGEED--DSHLGDFI---EDSEAQSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGL 290 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 291 DDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 324 >gi|182438860|ref|YP_001826579.1| putative RNA polymerase principal sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326779516|ref|ZP_08238781.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] gi|178467376|dbj|BAG21896.1| putative RNA polymerase principal sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326659849|gb|EGE44695.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] Length = 363 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 91/295 (30%), Positives = 146/295 (49%), Gaps = 44/295 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDL--------SAAHR 52 Y+ EI +IP+L EE LA+R R GDL +A R Sbjct: 70 YLREIGRIPLLTAAEEVELARRVEAGLFAEERLAGTPDLDSRLAGDLDRLVVMGRTAKRR 129 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 130 LIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQA 189 Query: 113 MQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 M + +++ + R+ RRL + + ++P IA L+++ Sbjct: 190 MSRALADQARTIRVPVHVVELINRVVRVQRRL------LQERGVEP-TAEDIAVDLDLTP 242 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 V + RLA + SL+A + D S + D + DG +E R L Sbjct: 243 ERVTDI-LRLAQEPVSLHAPVGEEDDVS--FGDLI---EDGDAASPVESAAFLLLREHLE 296 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R E+ P TLE + F V+RER+RQIE++ ++++ Sbjct: 297 AVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRD 351 >gi|227878689|ref|ZP_03996603.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus JV-V01] gi|256843283|ref|ZP_05548771.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 125-2-CHN] gi|256850360|ref|ZP_05555788.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-1A-US] gi|262046492|ref|ZP_06019454.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-3A-US] gi|293380134|ref|ZP_06626221.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 214-1] gi|295693058|ref|YP_003601668.1| RNA polymerase sigma factor [Lactobacillus crispatus ST1] gi|312978174|ref|ZP_07789918.1| RNA polymerase sigma-43 factor [Lactobacillus crispatus CTV-05] gi|227861704|gb|EEJ69309.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus JV-V01] gi|256614703|gb|EEU19904.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 125-2-CHN] gi|256712757|gb|EEU27750.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-1A-US] gi|260573363|gb|EEX29921.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-3A-US] gi|290923304|gb|EFE00220.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 214-1] gi|295031164|emb|CBL50643.1| RNA polymerase sigma factor [Lactobacillus crispatus ST1] gi|310894892|gb|EFQ43962.1| RNA polymerase sigma-43 factor [Lactobacillus crispatus CTV-05] Length = 370 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLLTADQEIALAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 223 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 279 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 329 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 ------TLEEVGKVFGVTRERIRQIEAKALRKL 356 >gi|114320976|ref|YP_742659.1| RNA polymerase, sigma 28 subunit [Alkalilimnicola ehrlichii MLHE-1] gi|114227370|gb|ABI57169.1| RNA polymerase, sigma 38 subunit, RpoS [Alkalilimnicola ehrlichii MLHE-1] Length = 342 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/278 (31%), Positives = 146/278 (52%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE ++R + GD +A R++ S+LRLVVKIA Y GL ++ Sbjct: 74 YLNEIGYSPLLSAEEEVYFSRRA-QRGDAAARARMIESNLRLVVKIARRYMNRGLAFLDL 132 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK--IGTTANQKRLF 136 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ ++ I + Sbjct: 133 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVIKEINQYL 192 Query: 137 FNLRRLKGHL------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R+L L + I D+ + + V + LN + V R A L+A+ Sbjct: 193 RAARKLTQELDHEPSVEEIADHMGRDVEDVRRMRGLNEGTTSVDVPIGRDADRVLLDAIP 252 Query: 191 NSSDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + ++ + S QD V+ + E L E E++ R ++ R LN +R Sbjct: 253 DENNVDPVSALQDGDVFGN--LEAWLGELTEKQ--RAVVERRFG-LNGHDR--------- 298 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + +E V+RERVRQI+ A ++++E ++++ Sbjct: 299 ---ATLEQVGNEIGVTRERVRQIQIDALRRLREVMERE 333 >gi|124006216|ref|ZP_01691051.1| RpoD [Microscilla marina ATCC 23134] gi|123988140|gb|EAY27798.1| RpoD [Microscilla marina ATCC 23134] Length = 287 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/272 (28%), Positives = 151/272 (55%), Gaps = 17/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L EE LAKR RE GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLLTPDEEVELAKRIRE-GDQVALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 GDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNRVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + L+ + P++ +A+ L+V+ SEV+ +++G S++A + Sbjct: 135 LNKISKTFSELEQKYEREPSPDE---LAEVLDVTTSEVVD-TLKISGRHVSMDAPFVQGE 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRL--QEN 251 +NS L+ + + +V + E + R + R++S L RE + E+ Sbjct: 191 ENS------LLDVLENESEVKPDSELMNDSLRKEVQRALSTLTQREADVITLYFGLNGEH 244 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A ++++ + Sbjct: 245 AMTLEEIGEKFNLTRERVRQIKEKAIRRLRHT 276 >gi|242373866|ref|ZP_04819440.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W1] gi|242348420|gb|EES40022.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W1] Length = 368 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAK+ E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKKI-EQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|253582113|ref|ZP_04859337.1| RNA polymerase [Fusobacterium varium ATCC 27725] gi|251836462|gb|EES64999.1| RNA polymerase [Fusobacterium varium ATCC 27725] Length = 275 Score = 110 bits (275), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 147/279 (52%), Gaps = 23/279 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +IRK +L+K EE L + + GD + ++L+ S+LRLVV IA GY GL Sbjct: 9 ISLYLADIRKYKILDKDEELNLLIKAK-AGDEESKNQLILSNLRLVVNIAKGYINKGLSF 67 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--- 132 +++SEGN+GL+ A++KFD +GFR +TY++WWIK ++ + ++ ++I + Sbjct: 68 IDLISEGNLGLIYAIEKFDITKGFRFSTYAVWWIKQSISKAVIVKGREIRIPSYKYDLLN 127 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 K + + RLK + N P V IA +LN+ ++ + SL+ I Sbjct: 128 KVNRYVMSRLK------DEGNYPP--VEEIAAELNIDVDKIQDIIMDFQDPMSLSTQIG- 178 Query: 193 SDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQE 250 + +D L D E+ + + RK R+M+ + L RE+ I + R L Sbjct: 179 ---DDIYLEDTLAQQEDFSMEEEIFNEMGRKQVRDMVNQ----LEEREKEILKLRYGLDG 231 Query: 251 NPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + TLE + + ++RERVRQIE + +K++ K++ Sbjct: 232 YEIHTLEEIGNTLNITRERVRQIEKKTLQKLRSKYTKEL 270 >gi|58337478|ref|YP_194063.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus NCFM] gi|58254795|gb|AAV43032.1| RNA polymerase sigma factor [Lactobacillus acidophilus NCFM] Length = 356 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 90 YLKEIGRVPLLTADQEIALAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 148 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 149 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 208 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 209 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 264 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 265 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 315 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 316 ------TLEEVGKVFGVTRERIRQIEAKALRKL 342 >gi|323466388|gb|ADX70075.1| RNA polymerase sigma factor [Lactobacillus helveticus H10] Length = 370 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLLTADQEIALAKRI-EEGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 223 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRNI---LKIAQ-EPVSLETPIGEEDDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 279 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 329 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 ------TLEEVGKVFGVTRERIRQIEAKALRKL 356 >gi|227904114|ref|ZP_04021919.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus ATCC 4796] gi|227868133|gb|EEJ75554.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus ATCC 4796] Length = 370 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLLTADQEIALAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 223 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 279 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 329 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 ------TLEEVGKVFGVTRERIRQIEAKALRKL 356 >gi|21910055|ref|NP_664323.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS315] gi|28896247|ref|NP_802597.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes SSI-1] gi|21904246|gb|AAM79126.1| putative RNA polymerase sigma 42 protein RpoD [Streptococcus pyogenes MGAS315] gi|28811498|dbj|BAC64430.1| putative RNA polymerase sigma 42 protein [Streptococcus pyogenes SSI-1] Length = 369 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA + GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKELAVAVAK-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|257457314|ref|ZP_05622485.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] gi|257445236|gb|EEV20308.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] Length = 286 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 86/282 (30%), Positives = 152/282 (53%), Gaps = 17/282 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y+ EI KIP+L ++E AK GD A L+ S+LR VV +A Y+ +PI Sbjct: 14 FATYLREINKIPLLSVEDEVKYAKAA-AAGDEKAKKILIESNLRFVVNVAKKYQNKNIPI 72 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT-ANQKR 134 +++SEGNIGLM A +FDP++G++ +Y++WWI+ A+ + I ++++ AN+ Sbjct: 73 MDLISEGNIGLMNAADRFDPDKGYKFISYAVWWIRQAILKAICEKSRMIRLPLNRANELV 132 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 R+L G T + +++ AIA+ L + E E++ A D SL+A + Sbjct: 133 QIEKARKLTGK----TGTEPEDKELTAIAQDLRI-EPEMVRTIMNAARDPVSLDA-PQFN 186 Query: 194 DKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 D +++ D++ Q E ++ + R+N +L + L+ RE I R Sbjct: 187 DNSAASTGDFIEDTRYMQPESYALDIDLRENVDALL----ASLSEREAEILRYRFGLNGY 242 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 ++L+ + + F +++ER+RQIE +A +++Q S+ Q EL S Sbjct: 243 EQLSLKEVGTRFNLTKERIRQIEKKALERLQ-SVGHQHELES 283 >gi|256420372|ref|YP_003121025.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] gi|256035280|gb|ACU58824.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] Length = 291 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 78/281 (27%), Positives = 147/281 (52%), Gaps = 34/281 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ +EE LA R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 20 LEKYLQEIGKVDLITPEEEVNLAIRIKQ-GDQRALEKLTKANLRFVVSVAKQYQNQGLSL 78 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ L Sbjct: 79 SDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNKVGL 136 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--------ISMNCRLAGDES-- 185 + + L+ + P+++ I ++N E E +SM+ E Sbjct: 137 SNKISKAYSQLEQEFEREPSPDELATIL-EINTEEVEATLGVAARHVSMDAPFIDGEDNS 195 Query: 186 -LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR--I 242 L+ L N + N+ + D HD + R + RS+S L R++ I Sbjct: 196 LLDVLANPNAVNADEELDH----HD-------------SLRREIERSLSTLTDRQKDVII 238 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E+P++LE++ +F ++RERVRQI+ +A K++ + Sbjct: 239 LYFGIAVEHPMSLEDIGEKFGLTRERVRQIKDKAITKLRTT 279 >gi|195939453|ref|ZP_03084835.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4024] Length = 305 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 82/262 (31%), Positives = 131/262 (50%), Gaps = 25/262 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVRQI 272 TLE++ E ++RERVRQI Sbjct: 286 --ATLEDVGREIGLTRERVRQI 305 >gi|259046798|ref|ZP_05737199.1| RNA polymerase sigma-43 factor [Granulicatella adiacens ATCC 49175] gi|259036566|gb|EEW37821.1| RNA polymerase sigma-43 factor [Granulicatella adiacens ATCC 49175] Length = 374 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 138/276 (50%), Gaps = 36/276 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LA R +E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVPLLSADEEVALALRIQE-GDTEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+ V+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKTVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D N++ D Y L++++ L + L RE + R Sbjct: 282 DFIE--DDNATSPADHTAY-------ALLKEQ--------LDEVLEQLTDREENVLRLRF 324 Query: 247 RLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 L +N TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDKNGEIRTLEQVGQVFGVTRERIRQIEAKALRKL 360 >gi|19745866|ref|NP_607002.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS8232] gi|19748016|gb|AAL97501.1| putative RNA polymerase sigma 42 protein [Streptococcus pyogenes MGAS8232] Length = 369 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA + GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKELAVAVAK-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|313903914|ref|ZP_07837294.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eubacterium cellulosolvens 6] gi|313471063|gb|EFR66385.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eubacterium cellulosolvens 6] Length = 373 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 86/265 (32%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGKVPLLSADEEIELAKRM-EEGDEVAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 166 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 223 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK +N+S V + SL I ++ S Sbjct: 224 LIRVSRQLLQEYGREPTPEE---IAKNMNMSVERVREILKISQEPVSLETPI--GEEEDS 278 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D V + + L + L RE+++ R ++ TLE Sbjct: 279 HLGDFI---QDENVPVPADAAAFTMLKEQLEEVLGTLAEREQKVLRLRFGLDDGRARTLE 335 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 336 EVGKEFNVTRERIRQIEAKALRKLR 360 >gi|15674827|ref|NP_269001.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes M1 GAS] gi|50913963|ref|YP_059935.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS10394] gi|71903245|ref|YP_280048.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS6180] gi|71910413|ref|YP_281963.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS5005] gi|94988285|ref|YP_596386.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS9429] gi|94990164|ref|YP_598264.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS10270] gi|94992161|ref|YP_600260.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS2096] gi|94994083|ref|YP_602181.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS10750] gi|139474032|ref|YP_001128748.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes str. Manfredo] gi|209559154|ref|YP_002285626.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes NZ131] gi|306827613|ref|ZP_07460893.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pyogenes ATCC 10782] gi|13621959|gb|AAK33722.1| putative RNA polymerase sigma 42 protein [Streptococcus pyogenes M1 GAS] gi|50903037|gb|AAT86752.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS10394] gi|71802340|gb|AAX71693.1| RNA polymerase sigma factor [Streptococcus pyogenes MGAS6180] gi|71853195|gb|AAZ51218.1| RNA polymerase sigma factor [Streptococcus pyogenes MGAS5005] gi|94541793|gb|ABF31842.1| RNA polymerase sigma factor [Streptococcus pyogenes MGAS9429] gi|94543672|gb|ABF33720.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS10270] gi|94545669|gb|ABF35716.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS2096] gi|94547591|gb|ABF37637.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS10750] gi|134272279|emb|CAM30532.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes str. Manfredo] gi|209540355|gb|ACI60931.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes NZ131] gi|304430176|gb|EFM33205.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pyogenes ATCC 10782] Length = 369 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 141/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA + GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSEEEKELAVAVAK-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R + +L + PEQ IA+++ ++ +V + ++A + SL I D Sbjct: 219 LVREQRNLLQELGQDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEED--D 272 Query: 198 SQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV 253 S D++ +++V+ ++ R R L + L RE + R L + + Sbjct: 273 SHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326 Query: 254 -TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|326204489|ref|ZP_08194346.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium papyrosolvens DSM 2782] gi|325985282|gb|EGD46121.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium papyrosolvens DSM 2782] Length = 359 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 134/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA R E+GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 93 YLKEIGKVPLLSADEEIDLAHRM-ENGDIEAKRRLAEANLRLVVSIAKRYVGRGMQFLDL 151 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD RGF+ +TY+ WWI+ A+ I ++I + Sbjct: 152 IQEGNLGLIKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 209 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +P++ IAK++ +S +V + SL I ++ S Sbjct: 210 LIRVSRQLLQELGREPQPDE---IAKEIGMSVDKVREIMKISQEPVSLETPIG--EEEDS 264 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L RE ++ R ++ TLE Sbjct: 265 HLGDFIPDDDAPAPAEAAAFTLLKEQ---LIDVLDTLTAREEKVLRLRFGLDDGRARTLE 321 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 322 EVGKEFNVTRERIRQIEAKALRKLR 346 >gi|224824776|ref|ZP_03697883.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lutiella nitroferrum 2002] gi|224603269|gb|EEG09445.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lutiella nitroferrum 2002] Length = 316 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/265 (32%), Positives = 137/265 (51%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I +L QEE LA R GD A +++ +LRLVV IA Y GL + ++ Sbjct: 49 YLNDIGNNALLSPQEEQSLA-RLVVQGDFEARQKMIEHNLRLVVNIAKRYINRGLALLDL 107 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM A++KFDPERGFR +TY+ WWI+ +++ I+ +++ K L Sbjct: 108 IEEGNIGLMHALEKFDPERGFRFSTYATWWIRQSIERAIMNQSRTIRLPVHV-IKELNVY 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + HL++ E++ + K V+++N R+A SL+A ++ D S Sbjct: 167 LRASR-HLESQIGREPSVEEIAQLVDKPVEDVRRVMNLNERMA---SLDAPLD-IDPMLS 221 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP---VTL 255 + HD E L N + M+ LN ++R + E RR N TL Sbjct: 222 IGESIPDDQHDEPEIQL----HNTQLENFVHEWMAQLNDKQRMVIE-RRYGLNGHEICTL 276 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E L+S ++RERVRQI+ +++ Sbjct: 277 EELASTLSLTRERVRQIQIEGLEQL 301 >gi|78185801|ref|YP_378235.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78170095|gb|ABB27192.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] Length = 377 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 75/236 (31%), Positives = 118/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ G+ I ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 137 AKDHMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 196 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ M I +++ +K L R+K Q I N + + +A++L + Sbjct: 197 IRQGMTRAIATQSRTIRLPVHVTEK-----LNRIKRVQQEIASNEGRIASIADLARELGI 251 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL++ + +Q D + E+ L E + +L Sbjct: 252 SEDTVRQTLERVPRSVSLDSRVGKD--QDTQLGDLIEDGKATPEETLTHDELHNDLEGLL 309 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L PRE + R E+ P TL + E ++SRERVRQIE RA K+++ Sbjct: 310 DE----LTPREASVLRRRFGLEDDTPQTLAQIGEELKLSRERVRQIETRALLKLRQ 361 >gi|134295851|ref|YP_001119586.1| RNA polymerase sigma factor RpoS [Burkholderia vietnamiensis G4] gi|134139008|gb|ABO54751.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia vietnamiensis G4] Length = 361 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFDARQVMIERNLRLVVSIAKGYLNRGVPL 141 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 142 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 199 Query: 136 FFNLRRLKGHLQ--------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ A + + + K ++++++N A SL+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGDAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 256 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 257 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 309 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 310 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|315038507|ref|YP_004032075.1| RNA polymerase sigma factor RpoD [Lactobacillus amylovorus GRL 1112] gi|325956923|ref|YP_004292335.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus 30SC] gi|312276640|gb|ADQ59280.1| RNA polymerase sigma factor RpoD [Lactobacillus amylovorus GRL 1112] gi|325333488|gb|ADZ07396.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus 30SC] gi|327183703|gb|AEA32150.1| RNA polymerase sigma factor RpoD [Lactobacillus amylovorus GRL 1118] Length = 370 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLLTADQEIALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 223 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 279 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 329 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 ------TLEEVGKVFGVTRERIRQIEAKALRKL 356 >gi|226309754|ref|YP_002769648.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] gi|226092702|dbj|BAH41144.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] Length = 314 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 82/273 (30%), Positives = 138/273 (50%), Gaps = 20/273 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 ++ + PML+K+EE RY+ GDL A +V ++LR VV A+ + G+P ++ Sbjct: 39 FLESVAATPMLDKEEELACLIRYQRDGDLEARETIVRAYLRYVVSTALRHLKRGMPFLDL 98 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EG IGL A+ KFD RG RL YS WWI A+ I +L++I +++ + Sbjct: 99 IQEGTIGLFTAIDKFDVGRGVRLYHYSHWWISQAITRAINDKATLIRIPVHMHEQIRQYQ 158 Query: 139 LRRLKGHLQAITDNNLKPE-QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 K L + N P+ Q +A+ + + + E I + + ES++A + +S Sbjct: 159 ----KQVLHLVHALNRTPDRQEIAVLLDIPLEKVEAIELALMMKM-ESIDA-----ELDS 208 Query: 198 SQWQDW-----LVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQ 249 +WQ W L Y D L + E+ + R+ + ++ L+PR + I R L Sbjct: 209 EKWQTWHEDESLSYAEIMDDGLSSLDDWIEKVDLRSQMRAALDRLSPRAQEIISMRYGLY 268 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ V TLE + F ++RER+RQIEA +++ Sbjct: 269 DDQVYTLEEVGKMFGLTRERIRQIEATTIDRLR 301 >gi|113953359|ref|YP_732042.1| RNA polymerase sigma-70 factor family protein [Synechococcus sp. CC9311] gi|113880710|gb|ABI45668.1| RNA polymerase sigma-70 factor family protein [Synechococcus sp. CC9311] Length = 376 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+KFD RGFR +TYS WW Sbjct: 136 ARDRMIQANLRLVVAVAKKYQHRGMELLDLVQEGTLGLERAVEKFDSTRGFRFSTYSYWW 195 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K Q I N + + +A++L+V Sbjct: 196 IRQGITRAIATQSRTIRLPVHITEK-----LNRIKRVQQEIASNEGRTASMTDLARELSV 250 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL + +Q + L +H EQ L R + + L Sbjct: 251 SEDTVRQTLARVPRSVSLETKVGRD--QDTQLGELLEDEHATPEQTLT----RDSLHDDL 304 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ L PRE + R E+ P TL + + +SRERVRQIE RA K+++ Sbjct: 305 EHLLNELTPREATVIRCRFGLEDDTPRTLAQIGEDMNLSRERVRQIETRALLKLRQ 360 >gi|312129690|ref|YP_003997030.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Leadbetterella byssophila DSM 17132] gi|311906236|gb|ADQ16677.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leadbetterella byssophila DSM 17132] Length = 287 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 82/278 (29%), Positives = 154/278 (55%), Gaps = 29/278 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L EE +LA++ R+ GD + RL ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLLTPDEEVILAQKIRD-GDQLSLERLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L ++G+ Sbjct: 77 GDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNRVGSL 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 + F L+ + PE+ +A+ L +S +EV+ +++G S++A Sbjct: 136 NKISKTF-------SELEQRFEREPSPEE---LAEVLEISANEVVD-TMKISGRHVSVDA 184 Query: 189 LINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRI--FEA 245 ++NS D L D + + +Q L+ R+ + R++S L RE + F Sbjct: 185 PFVQGEENS--LLDVLENDTEIRPDQELMNDSLRRE----VLRALSTLTQREAEVIMFYF 238 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E +TLE + +F ++RERVRQI+ +A ++++++ Sbjct: 239 GLNGEQAMTLEEIGEKFNLTRERVRQIKEKAIRRLRQT 276 >gi|255659373|ref|ZP_05404782.1| RNA polymerase sigma factor RpoD [Mitsuokella multacida DSM 20544] gi|260848459|gb|EEX68466.1| RNA polymerase sigma factor RpoD [Mitsuokella multacida DSM 20544] Length = 373 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 81/265 (30%), Positives = 134/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVPLLTAEEEVALAKRM-EAGDEEAQKRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 166 IQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 223 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++ + V + ++A E ++ ++ S Sbjct: 224 LIRVSRQLLQQLGREPTPEE---IAKEMEIGVDRVREI-MKIA-QEPVSLETPIGEEEDS 278 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + L + L PRE ++ R ++ TLE Sbjct: 279 HLGDFI---EDQDAPAPADAASFMLLKEQLEDVLDTLTPREEKVLRLRFGLDDGRARTLE 335 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 336 EVGQNFGVTRERIRQIEAKALRKLR 360 >gi|317500513|ref|ZP_07958736.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|331089388|ref|ZP_08338287.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 3_1_46FAA] gi|316898102|gb|EFV20150.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|330404756|gb|EGG84294.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 3_1_46FAA] Length = 370 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/267 (32%), Positives = 137/267 (51%), Gaps = 17/267 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L + E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLSAEREIELAKRM-EEGDEDAKKELAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I +L Sbjct: 163 IQEGNLGLIKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 R+L LQ + L PE+ IAK+L++ V + SL I ++ Sbjct: 223 RVSRQL---LQELGREPL-PEE---IAKELDMPVERVREILKISQEPVSLETPI--GEEE 273 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVT 254 S D++ D V E + + L + L RE+++ R + T Sbjct: 274 DSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMNDGRART 330 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 LE + EF+V+RER+RQIEA+A +K++ Sbjct: 331 LEEVGKEFDVTRERIRQIEAKALRKLR 357 >gi|291484966|dbj|BAI86041.1| RNA polymerase sigma factor [Bacillus subtilis subsp. natto BEST195] Length = 371 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE AK+ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGRVNLLSAKEEIAYAKKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 164 IQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 223 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 224 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 279 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 280 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 322 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 323 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 357 >gi|332878128|ref|ZP_08445857.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332683866|gb|EGJ56734.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 287 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 82/294 (27%), Positives = 155/294 (52%), Gaps = 51/294 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ ++ EE LA+R +E GD++A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGRVDLITADEEVELAQRIKE-GDVAALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 +++ L + + + + IA++L++S ++V ISM+ Sbjct: 136 NKINKMYAYLEQANERVPSAEE----------IARELDMSVNDVKESMKNSGRHISMDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 L E N L + N S D +E +L + R + R++ L PRE Sbjct: 186 LVEGEDSN-LYDVIRSNESPNPD--------KELIL------ASLRTEIERALETLTPRE 230 Query: 240 RRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 231 ADVI---RLYFGLGDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|169829158|ref|YP_001699316.1| RNA polymerase sigma factor rpoD [Lysinibacillus sphaericus C3-41] gi|168993646|gb|ACA41186.1| RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43) [Lysinibacillus sphaericus C3-41] Length = 375 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 138/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L ++E LA+R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEQEIKLAERI-EQGDEEARKRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I S+ S DH E + + L + L RE + R Sbjct: 284 DFIEDSEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|315640587|ref|ZP_07895693.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952] gi|315483615|gb|EFU74105.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952] Length = 368 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 134/273 (49%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVPLLTAAEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDLSTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + E VL +R+ N+L + + R R Sbjct: 277 DFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDREE--NVLRLRFGIDDGRTR------- 327 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 328 ------TLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|266623970|ref|ZP_06116905.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] gi|288864209|gb|EFC96507.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] Length = 345 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 85/274 (31%), Positives = 139/274 (50%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +E LAK+ E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 78 YLKEIGKVPLLSSDDEIELAKKI-ELGDELAKEKLTEANLRLVVSIAKRYVGRGMQFLDL 136 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 137 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLV 196 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + ++ E+V I K VS+ E +S+ + +E Sbjct: 197 RVSRQLLQELGREPSPEEVASRVDMPVERVREIMK---VSQ-EPVSLETPIGEEE----- 247 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 S D++ D Q V + L + L RE+++ R Sbjct: 248 -------DSHLGDFI---QDDQVAVPADAATFTMLHEQLMEVLDTLTEREQKVLRLRFGL 297 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 298 DDGRPRTLEEVGREFNVTRERIRQIEAKALRKLR 331 >gi|261856530|ref|YP_003263813.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothiobacillus neapolitanus c2] gi|261836999|gb|ACX96766.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothiobacillus neapolitanus c2] Length = 343 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 85/279 (30%), Positives = 145/279 (51%), Gaps = 31/279 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ ++ +L +EE + ++R + GD SA +++ +LRLV+KIA Y GL + ++ Sbjct: 74 YLRDVETERLLTAEEEVIYSRRA-QSGDESARQKMIVCNLRLVIKIARRYMNRGLDLLDL 132 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KFDPERGFR +TY+ WWI+ ++ ++ V++ ++ FN Sbjct: 133 IEEGNIGLMRAVEKFDPERGFRFSTYATWWIRQTIERGLMNQSRTVRLPVHVVKEVHTFN 192 Query: 139 --LRRLKGHLQA------ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R++ + A I D+ +P V N +S S + L GD + L Sbjct: 193 RAARKIAQNQNAEVTAEQIADHLDRPVNEVLKIMAFNERQS---SFDSPLKGDGEFSLLD 249 Query: 191 NSSDKNSSQWQDWLVYD---HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 D+ S+Q D L+ D H +Q++ + E ++ R +L R + R +E Sbjct: 250 LIPDQESNQ-PDELLQDAGVHGFLDQLIAQLESKQ--REVLVRRYGL------RGYETH- 299 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + + V+RERVRQI+ A ++++ +K Sbjct: 300 ------TLEEVGNHLGVTRERVRQIQLEAVRRLKSLAKK 332 >gi|167562539|ref|ZP_02355455.1| RNA polymerase sigma factor RpoS [Burkholderia oklahomensis EO147] gi|167569723|ref|ZP_02362597.1| RNA polymerase sigma factor RpoS [Burkholderia oklahomensis C6786] Length = 362 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFDARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSLSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 258 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|219847152|ref|YP_002461585.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219541411|gb|ACL23149.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 398 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 79/290 (27%), Positives = 138/290 (47%), Gaps = 39/290 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------------KRYREHGDLSAAHR 52 Y+ EI ++P+L ++E LA +R +E GD A + Sbjct: 104 YLREIGQVPLLTAEQEKQLAQMIERGQAAERKLATLPPDSPEAAKLRRIKEQGD-EARQK 162 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA YR GLP+ +++ EG++GL++A++KFD +G++ +TY+ WWIK A Sbjct: 163 MAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDHTKGYKFSTYATWWIKQA 222 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + LV++ L L R++ + +T + + +A L +SE + Sbjct: 223 LSRALADQSRLVRLPV-----HLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSEEK 277 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + R + ++ ++ S D++ H + R + ++ Sbjct: 278 L--RELRRTAQDPVSLATPVGEEADSTLADFIPDPH---ALDADDAAASGMLRQQIAAAL 332 Query: 233 SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L+ RERR+ E R P TLE + F V+RERVRQIE +A +K+ Sbjct: 333 DQLSERERRVLELRYGLADGQPRTLEEVGKAFGVTRERVRQIEVKALRKL 382 >gi|78066590|ref|YP_369359.1| RNA polymerase sigma factor RpoS [Burkholderia sp. 383] gi|77967335|gb|ABB08715.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. 383] Length = 362 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 258 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|153816193|ref|ZP_01968861.1| hypothetical protein RUMTOR_02441 [Ruminococcus torques ATCC 27756] gi|145846528|gb|EDK23446.1| hypothetical protein RUMTOR_02441 [Ruminococcus torques ATCC 27756] Length = 383 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 85/270 (31%), Positives = 140/270 (51%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L + E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 117 YLKEIGKVPLLSAEREIELAKRM-EEGDEDAKKELAEANLRLVVSIAKRYVGRGMLFLDL 175 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I +L Sbjct: 176 IQEGNLGLIKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 235 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDESLNALINSS 193 R+L LQ + L PE+ IAK+L++ E++ ++ E ++ Sbjct: 236 RVSRQL---LQELGREPL-PEE---IAKELDMPVERVREILKIS-----QEPVSLETPIG 283 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 ++ S D++ D V E + + L + L RE+++ R + Sbjct: 284 EEEDSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMNDGR 340 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 341 ARTLEEVGKEFDVTRERIRQIEAKALRKLR 370 >gi|1519642|gb|AAB07554.1| SigD [Chloroflexus aurantiacus J-10-fl] Length = 398 Score = 110 bits (274), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/290 (28%), Positives = 142/290 (48%), Gaps = 39/290 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------------KRYREHGDLSAAHR 52 Y+ EI ++P+L ++E LA K+ + G+ A H Sbjct: 104 YLREIGQVPLLTAEQEKRLAQLIEQGQEAERKLATLPPDSPEAARLKQLKAKGE-EARHE 162 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA YR GLP+ +++ EG++GL++A++KFD +G++ +TY+ WWIK A Sbjct: 163 MAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDYTKGYKFSTYATWWIKQA 222 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + LV++ L L R++ + +T + + +A L +SE + Sbjct: 223 LSRALADQSRLVRLPV-----HLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSEEK 277 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + ++ R A D A + NS+ D++ H + R +T ++ Sbjct: 278 LATVR-RTAQDPVSLATPVGEEANST-LADFIPDPH---ALDADDAAASGIVRQQITAAL 332 Query: 233 SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L+ RERR+ E R + P TLE + F V+RERVRQIE +A +K+ Sbjct: 333 DQLSERERRVLELRYGLVDGQPRTLEEVGKAFGVTRERVRQIEVKALRKL 382 >gi|53719139|ref|YP_108125.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei K96243] gi|53723558|ref|YP_103014.1| RNA polymerase sigma factor RpoS [Burkholderia mallei ATCC 23344] gi|67639892|ref|ZP_00438721.1| RNA polymerase sigma factor RpoS [Burkholderia mallei GB8 horse 4] gi|76810144|ref|YP_333760.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710b] gi|121600326|ref|YP_993163.1| RNA polymerase sigma factor RpoS [Burkholderia mallei SAVP1] gi|124385284|ref|YP_001026062.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10229] gi|126440772|ref|YP_001059233.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 668] gi|126450398|ref|YP_001080670.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10247] gi|126452489|ref|YP_001066500.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106a] gi|134277449|ref|ZP_01764164.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 305] gi|167002252|ref|ZP_02268042.1| RNA polymerase sigma factor RpoS [Burkholderia mallei PRL-20] gi|167719257|ref|ZP_02402493.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei DM98] gi|167738254|ref|ZP_02411028.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 14] gi|167815444|ref|ZP_02447124.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 91] gi|167823855|ref|ZP_02455326.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 9] gi|167845396|ref|ZP_02470904.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei B7210] gi|167893937|ref|ZP_02481339.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 7894] gi|167902387|ref|ZP_02489592.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei NCTC 13177] gi|167910629|ref|ZP_02497720.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 112] gi|167918658|ref|ZP_02505749.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei BCC215] gi|217421435|ref|ZP_03452939.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 576] gi|226197238|ref|ZP_03792815.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pakistan 9] gi|237812557|ref|YP_002897008.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei MSHR346] gi|242315690|ref|ZP_04814706.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106b] gi|254178572|ref|ZP_04885227.1| RNA polymerase sigma factor RpoS [Burkholderia mallei ATCC 10399] gi|254179542|ref|ZP_04886141.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1655] gi|254189067|ref|ZP_04895578.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pasteur 52237] gi|254197294|ref|ZP_04903716.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei S13] gi|254199960|ref|ZP_04906326.1| RNA polymerase sigma factor RpoS [Burkholderia mallei FMH] gi|254206293|ref|ZP_04912645.1| RNA polymerase sigma factor RpoS [Burkholderia mallei JHU] gi|254261861|ref|ZP_04952915.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710a] gi|254297419|ref|ZP_04964872.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 406e] gi|254358292|ref|ZP_04974565.1| RNA polymerase sigma factor RpoS [Burkholderia mallei 2002721280] gi|28394113|gb|AAO34104.1| rpoS [Burkholderia pseudomallei] gi|52209553|emb|CAH35506.1| RNA polymerase sigma factor [Burkholderia pseudomallei K96243] gi|52426981|gb|AAU47574.1| RNA polymerase sigma factor [Burkholderia mallei ATCC 23344] gi|76579597|gb|ABA49072.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710b] gi|121229136|gb|ABM51654.1| RNA polymerase sigma factor RpoS [Burkholderia mallei SAVP1] gi|124293304|gb|ABN02573.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10229] gi|126220265|gb|ABN83771.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 668] gi|126226131|gb|ABN89671.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106a] gi|126243268|gb|ABO06361.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10247] gi|134251099|gb|EBA51178.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 305] gi|147749556|gb|EDK56630.1| RNA polymerase sigma factor RpoS [Burkholderia mallei FMH] gi|147753736|gb|EDK60801.1| RNA polymerase sigma factor RpoS [Burkholderia mallei JHU] gi|148027419|gb|EDK85440.1| RNA polymerase sigma factor RpoS [Burkholderia mallei 2002721280] gi|157807858|gb|EDO85028.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 406e] gi|157936746|gb|EDO92416.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pasteur 52237] gi|160699611|gb|EDP89581.1| RNA polymerase sigma factor RpoS [Burkholderia mallei ATCC 10399] gi|169654035|gb|EDS86728.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei S13] gi|184210082|gb|EDU07125.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1655] gi|217395177|gb|EEC35195.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 576] gi|225930617|gb|EEH26627.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pakistan 9] gi|237506433|gb|ACQ98751.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei MSHR346] gi|238520504|gb|EEP83963.1| RNA polymerase sigma factor RpoS [Burkholderia mallei GB8 horse 4] gi|242138929|gb|EES25331.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106b] gi|243062069|gb|EES44255.1| RNA polymerase sigma factor RpoS [Burkholderia mallei PRL-20] gi|254220550|gb|EET09934.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710a] Length = 359 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 81 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 139 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 140 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 197 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 198 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 254 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 255 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 307 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 308 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 345 >gi|221632805|ref|YP_002522027.1| sigma factor MysA [Thermomicrobium roseum DSM 5159] gi|221156346|gb|ACM05473.1| sigma factor MysA [Thermomicrobium roseum DSM 5159] Length = 369 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 97/300 (32%), Positives = 152/300 (50%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY---------------------------REHGDLSAAH 51 Y+ EI + +L QEE LA+R +E G+ + AH Sbjct: 76 YLQEIGETALLTPQEEVWLAQRIERGKIAKVRLERGDYKSEDERLALVADKEDGERARAH 135 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G GL +++ EGNIGLM+A +KFD +RG++ +TY+ WWI+ Sbjct: 136 -LIQANLRLVVSVAKKYVGRGLSFLDLIQEGNIGLMKATEKFDYKRGYKFSTYATWWIRQ 194 Query: 112 AMQEYI---LRSWSL-VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 A+ I R+ L V +G T N+ ++++ LQ I + +P Q + +A+ L+ Sbjct: 195 AITRAISDQSRTIRLPVHVGETINR------IKKISHRLQQILER--EPTQ-LEVARALD 245 Query: 168 VSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKN 223 + E ++ I RL SL A I Q D + D D + +E ++ Sbjct: 246 MPEEKIRQILEAARLP--VSLEAPIG-------QDGDAFLGDFIEDETQPAPLEIASQQL 296 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L ++S L RERRI R E+ TLE + EF ++RER+RQIEA+A +K++ Sbjct: 297 LRQQLEEALSRLTERERRIIILRYGLEDGQFRTLEEVGREFGITRERIRQIEAKALRKLR 356 >gi|261407775|ref|YP_003244016.1| RpoD subfamily RNA polymerase sigma-70 factor [Paenibacillus sp. Y412MC10] gi|329927238|ref|ZP_08281536.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] gi|261284238|gb|ACX66209.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. Y412MC10] gi|328938638|gb|EGG35021.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] Length = 316 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 138/274 (50%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE L+KR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 50 YLKEIGRVPLLSADEEVELSKRI-EEGDEEAKRRLAEANLRLVVSIARRYAGRGMQFLDL 108 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 109 IQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINKLV 168 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 ++L L R + + ++ PE+V I K VS+ E +S+ + D +L Sbjct: 169 RVSRQLLQELGREPTPEEIGKEMDISPEKVREIQK---VSQ-EPVSLETPVGEESDSNLG 224 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D + + E+VL ER+ N+L + + R R Sbjct: 225 DFIEDQDALAPADAAAFELLKEQLEEVLDTLTEREE--NVLRLRFGLEDGRTR------- 275 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 276 ------TLEEVGQVFGVTRERIRQIEAKALRKLR 303 >gi|325125919|gb|ADY85249.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 372 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/274 (30%), Positives = 131/274 (47%), Gaps = 33/274 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + +L +EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRFNLLTSEEEVALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLNA 188 L R++ L + +PE++ A + + L + + E +S+ + D +L Sbjct: 223 LIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREILKICQ-EPVSLETPIGEEDDSNLGD 281 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 I D S + H E + + L + L+ RE + R Sbjct: 282 FIEDKDAMSPEQ-------HAANEML----------KEQLAEVLDTLSDREEEVLRLRFG 324 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + FEV+RER+RQIEA+A +K+ Sbjct: 325 LDDGKSRTLEEVGQHFEVTRERIRQIEAKALRKL 358 >gi|83721572|ref|YP_442747.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis E264] gi|167581696|ref|ZP_02374570.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis TXDOH] gi|167619812|ref|ZP_02388443.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis Bt4] gi|257138958|ref|ZP_05587220.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis E264] gi|83655397|gb|ABC39460.1| RpoS [Burkholderia thailandensis E264] Length = 363 Score = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 85 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 143 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 144 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 201 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 202 LNQVLRAKRHLEKNSLSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 258 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 259 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 311 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 312 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 349 >gi|116689841|ref|YP_835464.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia HI2424] gi|170733180|ref|YP_001765127.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia MC0-3] gi|116647930|gb|ABK08571.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia HI2424] gi|169816422|gb|ACA91005.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia MC0-3] Length = 362 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 258 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|171321354|ref|ZP_02910311.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria MEX-5] gi|171093372|gb|EDT38562.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria MEX-5] Length = 361 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 141 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 142 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 199 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 256 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 257 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 309 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 310 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|206560255|ref|YP_002231019.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia J2315] gi|198036296|emb|CAR52192.1| RNA polymerase sigma factor [Burkholderia cenocepacia J2315] Length = 362 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 258 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|167587040|ref|ZP_02379428.1| RNA polymerase sigma factor RpoS [Burkholderia ubonensis Bu] Length = 360 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 82 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 140 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 141 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 198 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 199 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 255 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 256 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 308 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 309 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 346 >gi|227892546|ref|ZP_04010351.1| RNA polymerase sigma factor RpoD [Lactobacillus ultunensis DSM 16047] gi|227865667|gb|EEJ73088.1| RNA polymerase sigma factor RpoD [Lactobacillus ultunensis DSM 16047] Length = 370 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLLTADQEIALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 223 KIQRQLLQDLGREPTPEEIGAEMNVPTNKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 279 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 329 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 ------TLEEVGKVFGVTRERIRQIEAKALRKL 356 >gi|153875311|ref|ZP_02003170.1| RNA polymerase subunit sigma-38 [Beggiatoa sp. PS] gi|152068225|gb|EDN66830.1| RNA polymerase subunit sigma-38 [Beggiatoa sp. PS] Length = 314 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 90/295 (30%), Positives = 149/295 (50%), Gaps = 61/295 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI K +L +EE A+R + G+ +A +R++ +LRLVVKIA Y GL + ++ Sbjct: 45 YLNEIGKSKLLTAEEEIKYARRA-QQGNEAARNRMIEGNLRLVVKIARNYMNRGLALLDL 103 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFDPE+GFR +TY+ WWI+ ++ I+ NQ R Sbjct: 104 IEEGNLGLMRAVNKFDPEKGFRFSTYATWWIRQTIERAIM------------NQNRTI-- 149 Query: 139 LRRLKGHLQAITDNNLKPEQVVA-----------IAKKLNVSESEVISMNCRLAGDESLN 187 RL H+ + L+ V++ IAK L S+ EV Sbjct: 150 --RLPIHVLKEINQCLRTNHVLSQTLDHEPTSEEIAKTLKKSKQEV-------------E 194 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIE---KEERKNRRNMLTRS---------MSVL 235 L+ +++ S W+ Y E+ LI+ E + R +L + +S L Sbjct: 195 KLLEVNERAISMDSPWMNY----SEKSLIDNIPDELNPDPRLILEDADIIKCLHLWLSQL 250 Query: 236 NPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++R + E RR + TLE + +E E++RERVRQI+ A ++++E ++++ Sbjct: 251 TDKQRLVVE-RRFGIGNGDEATLEEIGAELELTRERVRQIQITATERLKEILERE 304 >gi|317056182|ref|YP_004104649.1| RpoD subfamily RNA polymerase sigma-70 subunit [Ruminococcus albus 7] gi|315448451|gb|ADU22015.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ruminococcus albus 7] Length = 366 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 88/278 (31%), Positives = 146/278 (52%), Gaps = 35/278 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGD---LSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 Y+ EI ++P+L +EE LA+ D + A RL ++LRLVV IA Y G G+ Sbjct: 96 YLKEIGRVPLLTSEEEIQLAEMMSGDNDREAVKARKRLAEANLRLVVSIAKRYVGRGMSF 155 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTA 130 +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T Sbjct: 156 LDLIQEGNMGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIT 215 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNAL 189 K++ L GH + PE+ IA++L++S V + R+A D SL Sbjct: 216 KVKKVSSQLLHKNGH-------DPSPEE---IAEELDMSVERVREI-MRIAQDPVSLETP 264 Query: 190 INSSDKNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I ++ S D++ +++ KE+ + + +S L RE ++ Sbjct: 265 I--GEEEDSHLGDFIPDDDAPAPAEAASLVLLKEQ-------IDQVLSTLTEREEKVLRL 315 Query: 246 R-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R LQ+ TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 316 RFGLQDGRSRTLEEVGQEFKVTRERIRQIEAKALRKLR 353 >gi|221198089|ref|ZP_03571135.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2M] gi|221204352|ref|ZP_03577369.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2] gi|221175209|gb|EEE07639.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2] gi|221182021|gb|EEE14422.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2M] Length = 338 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 60 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 118 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 119 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 176 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 177 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 233 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 234 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 286 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 287 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 324 >gi|161524626|ref|YP_001579638.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans ATCC 17616] gi|189350618|ref|YP_001946246.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans ATCC 17616] gi|221212761|ref|ZP_03585737.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD1] gi|160342055|gb|ABX15141.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia multivorans ATCC 17616] gi|189334640|dbj|BAG43710.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans ATCC 17616] gi|221166974|gb|EED99444.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD1] Length = 361 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 141 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 142 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 199 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 256 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 257 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 309 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 310 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|170703618|ref|ZP_02894360.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria IOP40-10] gi|170131475|gb|EDT00061.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria IOP40-10] Length = 361 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 141 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 142 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 199 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 256 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 257 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 309 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 310 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|20330084|emb|CAD30008.1| RNA polymerase sigma factor [Burkholderia cepacia] Length = 362 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 258 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|89092114|ref|ZP_01165069.1| RNA polymerase sigma factor RpoS [Oceanospirillum sp. MED92] gi|89083849|gb|EAR63066.1| RNA polymerase sigma factor RpoS [Oceanospirillum sp. MED92] Length = 339 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 142/278 (51%), Gaps = 29/278 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE V R GD +A R++ S+LRLVVKIA Y GL + ++ Sbjct: 70 YLNEIGFSPLLSAEEE-VYFSRLALKGDEAARKRMIESNLRLVVKIARRYINRGLTLLDL 128 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 129 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 187 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ PE++ + K + ++ +N R++ G +S +L+++ Sbjct: 188 LRAARELAQKL-DHEPSPEEIAELVDKPVENVERMLGLNERVSSVDTPMGKDSDKSLLDT 246 Query: 193 -SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 D SS L + N L R + L + + +RR Sbjct: 247 IPDTVSSDPATLL---------------QNSNISGNLDRWLDALPEKHAEVL-SRRFGLR 290 Query: 252 PV---TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + E ++RERVRQI+ A +K+++ ++K Sbjct: 291 GYEMSTLEEVGKEIGLTRERVRQIQVEALRKLRDIVEK 328 >gi|331006084|ref|ZP_08329420.1| RNA polymerase sigma factor RpoS [gamma proteobacterium IMCC1989] gi|330420121|gb|EGG94451.1| RNA polymerase sigma factor RpoS [gamma proteobacterium IMCC1989] Length = 342 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 89/280 (31%), Positives = 144/280 (51%), Gaps = 31/280 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A++ + G+ +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 71 YLNEIGFSPLLSAEEEVFFARKSLK-GEEAARKRMIESNLRLVVKISRRYVNRGLALLDL 129 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 130 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 188 Query: 139 LR-------RLKGHLQAITDNNLKPEQVVAIAKKLNVSES-EVISMNCRLAGDESLNALI 190 LR +L A NL + V + K L ++E I +N GD++L+ I Sbjct: 189 LRAARELSQKLDHEPSAEEIANLLDKPVADVEKMLGLNERVNSIDVNIGPQGDKTLSDTI 248 Query: 191 ---NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + SD S + DG L EK+ R +L R + R +E Sbjct: 249 PDQHVSDPVSLLQDSDMSASIDGWLTELTEKQ-----REVLCRRFGL------RGYETS- 296 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ A K++++ ++ Q Sbjct: 297 ------TLEEVGREIGLTRERVRQIQVEALKRLKDIMELQ 330 >gi|254252249|ref|ZP_04945567.1| Sigma-70 region 2 [Burkholderia dolosa AUO158] gi|124894858|gb|EAY68738.1| Sigma-70 region 2 [Burkholderia dolosa AUO158] Length = 361 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 141 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 142 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 199 Query: 136 FFNLRRLKGHLQ--------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ A + + + K ++++++N A SL+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGDAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 256 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 257 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 309 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 310 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|28211633|ref|NP_782577.1| RNA polymerase sigma factor RpoD [Clostridium tetani E88] gi|28204075|gb|AAO36514.1| RNA polymerase sigma factor rpoD [Clostridium tetani E88] Length = 366 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 134/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA+R E G+L A +L ++LRLVV IA Y G G+ ++ Sbjct: 100 YLKEIGKVPLLTSEEEVDLAQRI-EAGELKARKKLAEANLRLVVSIAKRYVGRGMLFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 159 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 216 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++ +S V + SL I ++ S Sbjct: 217 LIRVSRQLLQELGREPTPEE---IAKEMEISVDRVREIMKIAQEPVSLETPIG--EEEDS 271 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 272 HLGDFIPDDDALAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 328 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 329 EVGKEFNVTRERIRQIEAKALRKLR 353 >gi|315647917|ref|ZP_07901018.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] gi|315276563|gb|EFU39906.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] Length = 316 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 138/274 (50%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE L+KR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 50 YLKEIGRVPLLSADEEVELSKRI-EEGDEEAKRRLAEANLRLVVSIARRYAGRGMQFLDL 108 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 109 IQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINKLV 168 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 ++L L R + + ++ PE+V I K VS+ E +S+ + D +L Sbjct: 169 RVSRQLLQELGREPTPEEIGKEMDITPEKVREIQK---VSQ-EPVSLETPVGEESDSNLG 224 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D + + E+VL ER+ N+L + + R R Sbjct: 225 DFIEDQDALAPADAAAFELLKEQLEEVLDTLTEREE--NVLRLRFGLEDGRTR------- 275 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 276 ------TLEEVGQVFGVTRERIRQIEAKALRKLR 303 >gi|299822900|ref|ZP_07054786.1| DNA-directed RNA polymerase sigma subunit RpoD [Listeria grayi DSM 20601] gi|299816429|gb|EFI83667.1| DNA-directed RNA polymerase sigma subunit RpoD [Listeria grayi DSM 20601] Length = 389 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 132/276 (47%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 123 YLKEIGRVNLLTADEEVALAKRI-ETGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 181 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 182 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 241 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I K E +S+ + D L Sbjct: 242 RVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREILK----IAQEPVSLETPIGEEDDSHLG 297 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 298 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 340 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 341 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 376 >gi|189500956|ref|YP_001960426.1| RNA polymerase, sigma 70 subunit, RpoD family [Chlorobium phaeobacteroides BS1] gi|189496397|gb|ACE04945.1| RNA polymerase, sigma 70 subunit, RpoD family [Chlorobium phaeobacteroides BS1] Length = 299 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 89/301 (29%), Positives = 156/301 (51%), Gaps = 39/301 (12%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L ++E L K + D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYELLTAEDEVKLTKAIKAGYDMPVDTTEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N K +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EYERDPNTKE-----LANLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 S+ ++ ++AG S++A D N + D L D + L R + + Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDN--RLLDVLQNDGHKPDHGLT----RDSLNLEVE 231 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RS+SVL PRE + + +NP+TLE + +F+++RERVRQI+ +A K++++S + Sbjct: 232 RSLSVLAPREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIKRLRQSAYSK 291 Query: 288 V 288 V Sbjct: 292 V 292 >gi|253682266|ref|ZP_04863063.1| RNA polymerase sigma factor RpoD [Clostridium botulinum D str. 1873] gi|253561978|gb|EES91430.1| RNA polymerase sigma factor RpoD [Clostridium botulinum D str. 1873] Length = 368 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 79/265 (29%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA+R E GD+ A +L ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGKVPLLSPDEEISLAQRI-EDGDMYAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE++ I + E++ + E ++ ++ S Sbjct: 219 LIRVSRQLLQELGREPQPEEIAKIMEMPVDKVREIMKI-----AQEPVSLETPIGEEEDS 273 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 274 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 330 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 331 EVGKEFNVTRERIRQIEAKALRKLR 355 >gi|115351809|ref|YP_773648.1| RNA polymerase sigma factor RpoS [Burkholderia ambifaria AMMD] gi|115281797|gb|ABI87314.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria AMMD] Length = 361 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 141 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 142 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 199 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 256 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 257 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 309 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 310 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|29654959|ref|NP_820651.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] gi|81788312|sp|Q9KI19|RPOS_COXBU RecName: Full=RNA polymerase sigma factor rpoS gi|7340285|gb|AAF61172.1|AF244357_1 stress response sigma factor RpoS [Coxiella burnetii] gi|29542228|gb|AAO91165.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] Length = 352 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 85/269 (31%), Positives = 141/269 (52%), Gaps = 13/269 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ P+L +EE +A+R + GD A +++ ++LRLVVKIA Y GLP ++ Sbjct: 84 YLRELGFQPLLNAKEELKIARRVHK-GDPKARKQMIEANLRLVVKIARHYVNRGLPFLDL 142 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL+ AV+KFDPERGFR +TY+ WWI+ ++ I+ V++ K L Sbjct: 143 IEEGNLGLLTAVEKFDPERGFRFSTYATWWIRQTIERAIMNQSRTVRLPIHV-IKELNVY 201 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR K Q + D+ PE V + K E+ + S++ I+ + S Sbjct: 202 LRTAKKLTQEV-DHEATPEDVAHLIDK---PVQEIRRIMDLAPSATSIDVPISEDGQKS- 256 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLE 256 D L D++ LI+ + ++ + R ++ L+ R R + R L EN TLE Sbjct: 257 -LVDTLADDNNIDPARLIQNVDLQDH---IERWLAQLDERHREVVILRFGLHENEKGTLE 312 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + ++RERVRQI+ A ++++ ++ Sbjct: 313 AVGKAVGLTRERVRQIQIDALQQLRHILE 341 >gi|330817175|ref|YP_004360880.1| Stationary phase sigma factor [Burkholderia gladioli BSR3] gi|327369568|gb|AEA60924.1| Stationary phase sigma factor [Burkholderia gladioli BSR3] Length = 366 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 88 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 146 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 147 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 204 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 205 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 261 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 262 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 314 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 315 RFGLNNIEPATLEELADEMGLTRERVRQIQQEALVRLK 352 >gi|296269171|ref|YP_003651803.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296091958|gb|ADG87910.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 367 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 91/298 (30%), Positives = 146/298 (48%), Gaps = 40/298 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR--------------------EHGDL-----SAAHRL 53 Y+ EI K+P+L +EE LAK E DL A RL Sbjct: 76 YLREIGKVPLLTAEEEVELAKAIEAGLFAEDKLCEKKAAGIECPELEDLVWEGIRAKQRL 135 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ Sbjct: 136 IEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI 195 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I ++I + L R++ L PE+ IAK++++ V Sbjct: 196 TRAIADQARTIRI--PVHMVETINKLVRVQRQLHQDLGREPTPEE---IAKEMDLPVERV 250 Query: 174 ISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + + R+A + SL + I D S D++ D V +E ++ L + Sbjct: 251 VEIQ-RIAQEPVSLQSPIGEED---SDLGDFI---EDADAVVPLEAAAFILLQDHLDDIL 303 Query: 233 SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 S L+ RE+RI + R +P TLE + EF V+RER+RQIE++ K++ + QV Sbjct: 304 STLSEREQRIIQLRFGLADGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPTRAQV 361 >gi|320530863|ref|ZP_08031900.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] gi|320136897|gb|EFW28842.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] Length = 370 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 136/272 (50%), Gaps = 13/272 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA+ E GD A HRL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGHVPLLTAEEEVELAQ-LMEAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + +PE+ IAK++ +S + V + SL I ++ S Sbjct: 221 LVRISRQLLQELGRDPRPEE---IAKEMGISVARVHEIMKIAQEPVSLETPIG--EEEDS 275 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E R L + L RE+ + R E+ TLE Sbjct: 276 HLGDFI---EDEAAPAPAEAASFMLLREQLEEVLETLTDREKNVLRLRFGLEDGRSRTLE 332 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + F V+RER+RQIEA+A +K++ + +V Sbjct: 333 EVGQSFGVTRERIRQIEAKALRKLRHPSRSKV 364 >gi|313897089|ref|ZP_07830636.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] gi|312974536|gb|EFR40004.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] Length = 370 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 136/272 (50%), Gaps = 13/272 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA+ E GD A HRL ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGHVPLLTAEEEVELAQ-LMEAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + +PE+ IAK++ +S + V + SL I ++ S Sbjct: 221 LVRISRQLLQELGRDPRPEE---IAKEMGISVARVHEIMKIAQEPVSLETPIG--EEEDS 275 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E R L + L RE+ + R E+ TLE Sbjct: 276 HLGDFI---EDEAAPAPAEAASFMLLREQLEEVLETLTDREKNVLRLRFGLEDGRSRTLE 332 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + F V+RER+RQIEA+A +K++ + +V Sbjct: 333 EVGQSFGVTRERIRQIEAKALRKLRHPSRSKV 364 >gi|163784595|ref|ZP_02179438.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] gi|159880134|gb|EDP73795.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] Length = 154 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 50/116 (43%), Positives = 80/116 (68%), Gaps = 1/116 (0%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 N E G++ Y+ +I IP++ +EE LAK+ +E GD A +LV ++LR V+ +A Y G Sbjct: 5 NYEEGVTYYLKQIADIPLISPEEEKNLAKKIKE-GDKQALDKLVKANLRFVINVAKNYIG 63 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 YG+P E++S GNIGL++A K+FDP+RG R +Y++WWIK ++ + I + L++I Sbjct: 64 YGVPFQELISAGNIGLIEAAKRFDPDRGVRFISYAIWWIKQSIFQTIQQQKDLIRI 119 >gi|199598416|ref|ZP_03211835.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001] gi|258508506|ref|YP_003171257.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG] gi|199590735|gb|EDY98822.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001] gi|257148433|emb|CAR87406.1| RNA polymerase sigma factor [Lactobacillus rhamnosus GG] gi|259649816|dbj|BAI41978.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG] Length = 416 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 134/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 150 YLKEIGRVSLLTADEEVALALKI-EQGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 208 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 209 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 268 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 269 RIQRQLLQDLGREPTPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 324 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + DH E + + L + L RE + R Sbjct: 325 DFIEDQDATSPE-------DHASYELL----------KEQLESVLDTLTDREENVLRLRF 367 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 368 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 402 >gi|167836384|ref|ZP_02463267.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis MSMB43] Length = 366 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHLQ--------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ A + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSLSTGAAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 258 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|116071891|ref|ZP_01469159.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] gi|116065514|gb|EAU71272.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] Length = 355 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 124/248 (50%), Gaps = 37/248 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ G+ I ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 115 AKDHMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 174 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ M I +++ +K L R+K Q I N + + +A++L + Sbjct: 175 IRQGMTRAIATQSRTIRLPVHVTEK-----LNRIKRVQQEIASNEGRIASIADLARELGI 229 Query: 169 SESEV----------ISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYD--HDGQEQV 214 SE V +S++ R+ D+ L LI ++ L +D H+ E + Sbjct: 230 SEDTVRQTLERVPRSVSLDSRVGKDQDTQLGDLIEDGKATP---EETLTHDELHNDLEGL 286 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 L E + TR +VL RR F + P TL + E ++SRERVRQIE Sbjct: 287 LDE---------LTTREAAVL----RRRFGLE--DDTPQTLAQIGEELKLSRERVRQIET 331 Query: 275 RAFKKVQE 282 RA K+++ Sbjct: 332 RALLKLRQ 339 >gi|78186275|ref|YP_374318.1| RNA polymerase sigma-70 factor [Chlorobium luteolum DSM 273] gi|78166177|gb|ABB23275.1| RNA polymerase sigma-70 factor [Chlorobium luteolum DSM 273] Length = 299 Score = 109 bits (273), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 88/300 (29%), Positives = 155/300 (51%), Gaps = 47/300 (15%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L +E L K +E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTADDEVRLTKAIKEGFDMPVDTTEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N K +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EFERDPNTKE-----LANLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKN---SSQWQDWLVYDHD-GQEQVLIEKEERKNRR 225 S+ ++ ++AG S++A D N D + DH ++ + +E E Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHLPDHGLNRDSLTLEVE------ 231 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RS+SVL PRE + ++ +NP+TLE + +F+++RERVRQI+ +A ++++ S Sbjct: 232 ----RSLSVLAPREADVIKSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRTS 287 >gi|258539717|ref|YP_003174216.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus Lc 705] gi|257151393|emb|CAR90365.1| RNA polymerase sigma factor [Lactobacillus rhamnosus Lc 705] Length = 416 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 134/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 150 YLKEIGRVSLLTTDEEVALALKI-EQGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 208 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 209 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 268 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 269 RIQRQLLQDLGREPTPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 324 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + DH E + + L + L RE + R Sbjct: 325 DFIEDQDATSPE-------DHASYELL----------KEQLESVLDTLTDREENVLRLRF 367 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 368 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 402 >gi|116494985|ref|YP_806719.1| RNA polymerase sigma factor RpoD [Lactobacillus casei ATCC 334] gi|191638497|ref|YP_001987663.1| RNA polymerase sigma factor RpoD [Lactobacillus casei BL23] gi|227535009|ref|ZP_03965058.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|301066553|ref|YP_003788576.1| DNA-directed RNA polymerase sigma70/sigma32 subunit [Lactobacillus casei str. Zhang] gi|116105135|gb|ABJ70277.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei ATCC 334] gi|190712799|emb|CAQ66805.1| RNA polymerase sigma factor [Lactobacillus casei BL23] gi|227187324|gb|EEI67391.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|300438960|gb|ADK18726.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus casei str. Zhang] gi|327382532|gb|AEA54008.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei LC2W] gi|327385729|gb|AEA57203.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei BD-II] Length = 422 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 134/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 156 YLKEIGRVSLLTADEEVALALKI-EQGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 214 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 215 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 274 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 275 RIQRQLLQDLGREPTPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 330 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + DH E + + L + L RE + R Sbjct: 331 DFIEDQDATSPE-------DHASYELL----------KEQLESVLDTLTDREENVLRLRF 373 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 374 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 408 >gi|172060780|ref|YP_001808432.1| RNA polymerase sigma factor RpoS [Burkholderia ambifaria MC40-6] gi|171993297|gb|ACB64216.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria MC40-6] Length = 361 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 141 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 142 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 199 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 256 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 257 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 309 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 310 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|327440913|dbj|BAK17278.1| DNA-directed RNA polymerase, sigma subunit [Solibacillus silvestris StLB046] Length = 375 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 137/276 (49%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LA+R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSADQEIRLAERI-EQGDEEARKRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDHRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I S+ S DH E + + L + L RE + R Sbjct: 284 DFIEDSEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|320527310|ref|ZP_08028495.1| RNA polymerase sigma factor RpoD [Solobacterium moorei F0204] gi|320132334|gb|EFW24879.1| RNA polymerase sigma factor RpoD [Solobacterium moorei F0204] Length = 468 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 85/282 (30%), Positives = 141/282 (50%), Gaps = 46/282 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L+ ++E +AKR E GD A + L++S+LRLVV IA Y G G+ ++ Sbjct: 200 YLKEIGRVPLLKPEDEPEIAKRI-EEGDEEARNILISSNLRLVVSIAKKYVGRGMLFLDL 258 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------T 129 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T Sbjct: 259 IQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLT 318 Query: 130 ANQKRLFFNLRR------LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 Q++L L R + ++ I+ ++ Q +A+ E +S+ + Sbjct: 319 RVQRQLVQELGRDPSAEEISQRMEGISPEKVREIQKIAL---------EPVSLETPIGEE 369 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D L I DK + L D Q+L ++ + +S L RE + Sbjct: 370 DDSHLGDFIE--DKEA------LSPDQYASNQLL---------KDEINSVLSGLTEREEK 412 Query: 242 IFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R TLE + EF V+RER+RQIEA+A +K++ Sbjct: 413 VLRLRFGLYDGRTRTLEEVGREFSVTRERIRQIEAKALRKLK 454 >gi|291166412|gb|EFE28458.1| RNA polymerase sigma factor RpoD [Filifactor alocis ATCC 35896] Length = 372 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 83/264 (31%), Positives = 139/264 (52%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KI +L +EE LA++ + +L A +LV ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKISLLSAEEEIELAQKMDQGSEL-AKKKLVEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L +PE+ I+K +++S ++ + SL I ++ S Sbjct: 223 LIRVQRQLLQELGREPRPEE---ISKVMDMSVEKIREIQKISQEPVSLETPI--GEEEDS 277 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E + L +S LN RE+++ + R E+ TLE Sbjct: 278 HLGDFI---PDDDALAPSEAAAYSLLKEQLEEVLSTLNEREQKVLKLRFGLEDGRTRTLE 334 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + EF+V+RER+RQIEA+A +K+ Sbjct: 335 EVGKEFDVTRERIRQIEAKALRKL 358 >gi|170017101|ref|YP_001728020.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc citreum KM20] gi|169803958|gb|ACA82576.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc citreum KM20] Length = 432 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 136/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ EE +AKR E GD+ A L ++LRLVV IA Y G G+ ++ Sbjct: 162 YLKEIGRVNLLKGDEEINIAKRI-EDGDVEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 220 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 221 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 280 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L P++V I L +++ V SL Sbjct: 281 RIQRQLLQDLGREPLPEEIGAEMDLTPDKVREI---LKIAQEPV-----------SLETP 326 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + + + R+ L + L RE + R Sbjct: 327 IGEED--DSHLGDFI---EDNEAISPADSAAYEMLRDQLESVLETLTDREENVLRLRFGL 381 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 382 EDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 >gi|325521809|gb|EGD00541.1| RNA polymerase sigma factor RpoS [Burkholderia sp. TJI49] Length = 339 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 61 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 119 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 120 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 177 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 178 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTA---SLD 234 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 235 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 287 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 288 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 325 >gi|323345487|ref|ZP_08085710.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] gi|323093601|gb|EFZ36179.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] Length = 290 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 81/273 (29%), Positives = 144/273 (52%), Gaps = 16/273 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI ++PM+ EE LA+ R+ G A +L+ ++LR VV +A Y+ GL Sbjct: 18 LDKYLLEIGRLPMVSIDEETELAQLIRKGGKEGERAKEKLINANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 78 SLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 L ++ + + + +A N+ E++ IS R S++A + Sbjct: 135 --VGALSKINSEVAKFEQEHQRRPSTQELASLTNIDENK-ISQTMRADNHHMSIDAPFSD 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-VLNPRERRIF-EARRLQE 250 D+NS D L D + ++++E + L +M+ L PRE I E+ + Sbjct: 192 DDENS--MADVLASGDDSRADRIVDRESMNSD---LDDAMANALKPREVAILKESFGIGC 246 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + EF ++RERVRQI ++ +K++ES Sbjct: 247 TEKGLEEIGEEFGLTRERVRQIREKSIQKLRES 279 >gi|239631415|ref|ZP_04674446.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp. paracasei 8700:2] gi|239525880|gb|EEQ64881.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp. paracasei 8700:2] Length = 352 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 134/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 86 YLKEIGRVSLLTADEEVALALKI-EQGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 144 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 145 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 204 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 205 RIQRQLLQDLGREPTPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 260 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + DH E + + L + L RE + R Sbjct: 261 DFIEDQDATSPE-------DHASYELL----------KEQLESVLDTLTDREENVLRLRF 303 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 304 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 338 >gi|149907981|ref|ZP_01896649.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factorduring stationary phase [Moritella sp. PE36] gi|149808987|gb|EDM68918.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factorduring stationary phase [Moritella sp. PE36] Length = 284 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 144/280 (51%), Gaps = 20/280 (7%) Query: 9 IVNGEIGLSRYIHEIRKIP-MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 + N L Y+ ++ K +L K++EY A E GD A R++ S+LRLV+ IA Sbjct: 3 LFNESSALDLYMQQVNKTSVLLTKEQEYDTAIAVHE-GDQKARQRMIQSNLRLVINIAKR 61 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-- 125 Y+ L + +++ EGN GL+ AV+KFD +GFR +TY++WWIK ++ +I+ ++ Sbjct: 62 YQHTSLSLVDIIQEGNTGLIHAVEKFDATKGFRFSTYAVWWIKNNIERFIMNQSRTIRVP 121 Query: 126 --IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 IG T KR+ N R L+ +N+LK IA L + +V+++ + Sbjct: 122 IHIGKTY--KRILKNAREKVLDLKC--NNDLKK-----IAINLELEFDDVVNVLSYYFTE 172 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL+ I + + +++ D + D ++ E+ + + L ++ L R+R I Sbjct: 173 ASLDKTIATKNDSNTALVDLI---EDSSICKPNDEIEKTDTSSYLITVLNHLCDRDREII 229 Query: 244 EAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E R +E P TL + +SRERVRQI + +K++ Sbjct: 230 ELRFGLGREEPQTLNAIGERLFMSRERVRQIITASLQKIK 269 >gi|5804831|emb|CAB53534.1| RpoS protein [Escherichia coli O157:H7] gi|332087634|gb|EGI92761.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 155-74] Length = 298 Score = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 80/263 (30%), Positives = 131/263 (49%), Gaps = 24/263 (9%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE V R GD+++ R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+K Sbjct: 42 EEEVYFARRALRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEK 101 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFFNLRRLKGH------ 145 FDPERGFR +TY+ WWI+ ++ I+ +++ + ++ R H Sbjct: 102 FDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEP 161 Query: 146 -LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I + KP V+ +LN + S++ L GD L +D+ + +D Sbjct: 162 SAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLDILADEKENGPEDTT 218 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D Q V E +R +L R +L +EA TLE++ E + Sbjct: 219 QDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA-------ATLEDVGREIGL 265 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 +RERVRQI+ ++++E +Q Q Sbjct: 266 TRERVRQIQVEGLRRLREILQTQ 288 >gi|229552308|ref|ZP_04441033.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus rhamnosus LMS2-1] gi|229314290|gb|EEN80263.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus rhamnosus LMS2-1] Length = 416 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 134/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 150 YLKEIGRVSLLTADEEVALALKI-EQGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 208 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 209 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 268 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 269 RIQRQLLQDLGREPTPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 324 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + DH E + + L + L RE + R Sbjct: 325 DFIEDQDATSPE-------DHASYELL----------KEQLESVLDTLTDREENVLRLRF 367 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 368 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 402 >gi|225575013|ref|ZP_03783623.1| hypothetical protein RUMHYD_03093 [Blautia hydrogenotrophica DSM 10507] gi|225037764|gb|EEG48010.1| hypothetical protein RUMHYD_03093 [Blautia hydrogenotrophica DSM 10507] Length = 374 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 138/274 (50%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGKVNLLTAEEEIELAKRM-EEGDEDAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 167 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK-- 224 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R+ L PE+ IAK++ +S V + SL I + Sbjct: 225 ----LIRVSRQLLQELGREPTPEE---IAKEMEMSVDRVREILKISQEPVSLETPIG--E 275 Query: 195 KNSSQWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + S D++ D+ D L+ + L +S L RE+++ R Sbjct: 276 EEDSHLGDFIQDDNVPVPADAAAFTLL--------KEQLVEVLSTLTDREQKVLRLRFGL 327 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 328 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 361 >gi|4929285|gb|AAD33933.1|AF144608_2 RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus] Length = 321 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 139/265 (52%), Gaps = 31/265 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 175 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 232 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 233 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 276 Query: 248 LQENPVTLENLSSEFEVSRERVRQI 272 L P TLE + E ++RERVR++ Sbjct: 277 LGYEPSTLEEVGREIGLTRERVRRL 301 >gi|320104603|ref|YP_004180194.1| RNA polymerase sigma-38 subunit RpoS [Isosphaera pallida ATCC 43644] gi|319751885|gb|ADV63645.1| RNA polymerase, sigma 38 subunit, RpoS [Isosphaera pallida ATCC 43644] Length = 277 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 82/274 (29%), Positives = 143/274 (52%), Gaps = 19/274 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI ++ +L +EE LA R GD +A R+V ++LRLVV IA GY G GL + Sbjct: 16 LETYLREINEMALLSAEEEKELAARI-AKGDKTARERMVRANLRLVVNIARGYVGKGLAL 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP+ G R +TY+ +WIK +++ ++ + ++I A L Sbjct: 75 QDLIEEGNLGLLRAVEGFDPKVGTRFSTYASYWIKQSIKRALVNTAKPIRI--PAYMVEL 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 RR LQ D + IA +L + + ++ + + + L+ SD+ Sbjct: 133 LCKWRRAAIELQ---DRLGRTPTTDEIAHELRIPKKKLAIVKKAI----KVYNLVPQSDQ 185 Query: 196 NSSQWQ--DWLVYDHDGQEQV-LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 S W D L+ + V ++E + K ++ R + ++ RE + R ++ Sbjct: 186 PESGWSLGDMLMDERTRPPDVEMVEADNLK----LVMRRLEEMDKREATVLRMRFGLDDQ 241 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P TL+ + + ++RERVRQIE A K+ ++ Sbjct: 242 PPCTLKEIGEQLGLTRERVRQIENEALNKLSATL 275 >gi|75761907|ref|ZP_00741832.1| RNA polymerase sigma factor rpoD [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74490615|gb|EAO53906.1| RNA polymerase sigma factor rpoD [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 268 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 2 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 60 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 61 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 120 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 121 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 176 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 177 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 219 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 220 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 255 >gi|291444398|ref|ZP_06583788.1| RNA polymerase principal sigma factor hrdA [Streptomyces roseosporus NRRL 15998] gi|291347345|gb|EFE74249.1| RNA polymerase principal sigma factor hrdA [Streptomyces roseosporus NRRL 15998] Length = 395 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 90/295 (30%), Positives = 147/295 (49%), Gaps = 44/295 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDL--------SAAHR 52 Y+ EI +IP+L EE LA+R R GDL +A R Sbjct: 102 YLREIGRIPLLTAAEEVELARRVEAGLFAEERLTGTPDLDSRLAGDLDRLVVMGRTAKRR 161 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 162 LIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQA 221 Query: 113 MQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 M + +++ + R+ RRL + + ++P IA +L+++ Sbjct: 222 MSRALADQARTIRVPVHVVELINRVVRVQRRL------LQERGVEP-TAEDIAVELDLTP 274 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 V + RLA + SL+A + D S + D + DG +E R L Sbjct: 275 ERVTEV-LRLAQEPVSLHAPVGEEDDVS--FGDLI---EDGDAASPVESAAFLLLRQHLE 328 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R ++ P TLE + F V+RER+RQIE++ ++++ Sbjct: 329 AVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRD 383 >gi|260890619|ref|ZP_05901882.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] gi|260859664|gb|EEX74164.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] Length = 392 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 81/269 (30%), Positives = 137/269 (50%), Gaps = 23/269 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE A+R +G+ A +L+ S+LRLVV IA + GL + ++ Sbjct: 126 YLREIGQIPLLSYEEEIDYAQRVL-NGEEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDL 184 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KF+ E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 185 IQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 239 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + ++K + I K +A+KL + +V S+ SL + S + S Sbjct: 240 INKIKKESRIILQETGKEPTAEELAEKLELPVEKVKSILEMNQDPISLETPVGSEE--DS 297 Query: 199 QWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + D++ D +D +VL+ + L + LN RE + R ++ Sbjct: 298 ELGDFVEDDKFANPYDATTRVLL--------KEQLDEVLKTLNEREEMVLRYRYGLDDGS 349 Query: 254 --TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIE +A +K+ Sbjct: 350 QKTLEEVGKIFNVTRERIRQIEVKALRKL 378 >gi|239626722|ref|ZP_04669753.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239516868|gb|EEQ56734.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 374 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 136/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAK E G A RL S+LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGKIPLLSMEEEIELAKSM-ELGSEDARKRLAESNLRLVVSIAKRYVGRGMQFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 166 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLV 225 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + +L E+V I K E +S+ + +E + Sbjct: 226 RTSRQLLQELGREPTTEEIAARADLPVERVSEIMKMAQ----EPVSLETPIGEEEDSHLG 281 Query: 190 INSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 D N QD + H+ +VL+ L RE+++ + R Sbjct: 282 DFIQDDNVMVPQDAAAFTLLHEQLMEVLL-----------------TLTEREQKVLKLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ P TLE + +F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRPRTLEEVGRQFNVTRERIRQIEAKALRKL 359 >gi|229086862|ref|ZP_04219022.1| RNA polymerase sigma factor [Bacillus cereus Rock3-44] gi|228696437|gb|EEL49262.1| RNA polymerase sigma factor [Bacillus cereus Rock3-44] Length = 373 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360 >gi|239940961|ref|ZP_04692898.1| putative RNA polymerase principal sigma factor [Streptomyces roseosporus NRRL 15998] gi|239987439|ref|ZP_04708103.1| putative RNA polymerase principal sigma factor [Streptomyces roseosporus NRRL 11379] Length = 363 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 90/295 (30%), Positives = 147/295 (49%), Gaps = 44/295 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDL--------SAAHR 52 Y+ EI +IP+L EE LA+R R GDL +A R Sbjct: 70 YLREIGRIPLLTAAEEVELARRVEAGLFAEERLTGTPDLDSRLAGDLDRLVVMGRTAKRR 129 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 130 LIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQA 189 Query: 113 MQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 M + +++ + R+ RRL + + ++P IA +L+++ Sbjct: 190 MSRALADQARTIRVPVHVVELINRVVRVQRRL------LQERGVEP-TAEDIAVELDLTP 242 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 V + RLA + SL+A + D S + D + DG +E R L Sbjct: 243 ERVTEV-LRLAQEPVSLHAPVGEEDDVS--FGDLI---EDGDAASPVESAAFLLLRQHLE 296 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R ++ P TLE + F V+RER+RQIE++ ++++ Sbjct: 297 AVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRD 351 >gi|30022370|ref|NP_834001.1| RNA polymerase sigma factor RpoD [Bacillus cereus ATCC 14579] gi|218232261|ref|YP_002369099.1| RNA polymerase sigma factor RpoD [Bacillus cereus B4264] gi|228923044|ref|ZP_04086337.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228960557|ref|ZP_04122206.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|229048011|ref|ZP_04193587.1| RNA polymerase sigma factor [Bacillus cereus AH676] gi|229111765|ref|ZP_04241313.1| RNA polymerase sigma factor [Bacillus cereus Rock1-15] gi|229129569|ref|ZP_04258539.1| RNA polymerase sigma factor [Bacillus cereus BDRD-Cer4] gi|229146877|ref|ZP_04275242.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST24] gi|229152492|ref|ZP_04280684.1| RNA polymerase sigma factor [Bacillus cereus m1550] gi|296504786|ref|YP_003666486.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis BMB171] gi|29897928|gb|AAP11202.1| RNA polymerase sigma factor rpoD [Bacillus cereus ATCC 14579] gi|218160218|gb|ACK60210.1| RNA polymerase sigma-43 factor [Bacillus cereus B4264] gi|228631100|gb|EEK87737.1| RNA polymerase sigma factor [Bacillus cereus m1550] gi|228636705|gb|EEK93170.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST24] gi|228653886|gb|EEL09754.1| RNA polymerase sigma factor [Bacillus cereus BDRD-Cer4] gi|228671759|gb|EEL27055.1| RNA polymerase sigma factor [Bacillus cereus Rock1-15] gi|228723468|gb|EEL74837.1| RNA polymerase sigma factor [Bacillus cereus AH676] gi|228799157|gb|EEM46125.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228836677|gb|EEM82025.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|296325838|gb|ADH08766.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis BMB171] Length = 375 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|206971344|ref|ZP_03232295.1| RNA polymerase sigma-43 factor [Bacillus cereus AH1134] gi|218899458|ref|YP_002447869.1| RNA polymerase sigma-43 factor [Bacillus cereus G9842] gi|228902815|ref|ZP_04066960.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 4222] gi|228910126|ref|ZP_04073946.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200] gi|228941457|ref|ZP_04104008.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228954576|ref|ZP_04116601.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228967357|ref|ZP_04128392.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228974388|ref|ZP_04134957.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980981|ref|ZP_04141284.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407] gi|229071795|ref|ZP_04205010.1| RNA polymerase sigma factor [Bacillus cereus F65185] gi|229081552|ref|ZP_04214050.1| RNA polymerase sigma factor [Bacillus cereus Rock4-2] gi|229180570|ref|ZP_04307912.1| RNA polymerase sigma factor [Bacillus cereus 172560W] gi|229192502|ref|ZP_04319465.1| RNA polymerase sigma factor [Bacillus cereus ATCC 10876] gi|206734116|gb|EDZ51287.1| RNA polymerase sigma-43 factor [Bacillus cereus AH1134] gi|218541635|gb|ACK94029.1| RNA polymerase sigma-43 factor [Bacillus cereus G9842] gi|228591079|gb|EEK48935.1| RNA polymerase sigma factor [Bacillus cereus ATCC 10876] gi|228602994|gb|EEK60473.1| RNA polymerase sigma factor [Bacillus cereus 172560W] gi|228701757|gb|EEL54245.1| RNA polymerase sigma factor [Bacillus cereus Rock4-2] gi|228711390|gb|EEL63350.1| RNA polymerase sigma factor [Bacillus cereus F65185] gi|228778772|gb|EEM27036.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407] gi|228785438|gb|EEM33448.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228792392|gb|EEM39959.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228805233|gb|EEM51827.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228818238|gb|EEM64312.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228849643|gb|EEM94477.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200] gi|228856824|gb|EEN01339.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 4222] gi|326942074|gb|AEA17970.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar chinensis CT-43] Length = 375 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|238027063|ref|YP_002911294.1| RNA polymerase sigma factor RpoS [Burkholderia glumae BGR1] gi|76057940|emb|CAJ30487.1| stationary phase sigma factor [Burkholderia plantarii] gi|121663602|emb|CAM12359.1| stationary phase sigma factor [Burkholderia glumae] gi|237876257|gb|ACR28590.1| Stationary phase sigma factor [Burkholderia glumae BGR1] Length = 364 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 142/278 (51%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 86 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 144 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 145 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 202 Query: 136 FFNLRRLKGHL--------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL +A + + + K ++++++N A SL+ Sbjct: 203 LNQVLRAKRHLEKNSMSTGEAAERREAGIDDIAYLTGKTAEEVTDILALNEHTA---SLD 259 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S D L D ++ E + LTR+ +S L+ + R + E R Sbjct: 260 APLDLD--PASSLLDLLPDDQSQSPDAEVQHRELET----LTRAWLSRLSDKHRHVIE-R 312 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 313 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 350 >gi|300173322|ref|YP_003772488.1| RNA polymerase sigma factor RpoD [Leuconostoc gasicomitatum LMG 18811] gi|299887701|emb|CBL91669.1| RNA polymerase sigma factor RpoD [Leuconostoc gasicomitatum LMG 18811] Length = 432 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 135/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ EE +AKR E GD+ A L ++LRLVV IA Y G G+ ++ Sbjct: 162 YLKEIGRVNLLKGDEEINIAKRI-EDGDIEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 220 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 221 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 280 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L P++V I L +++ V SL Sbjct: 281 RIQRQLLQDLGREPLPEEIGAEMDLTPDKVREI---LKIAQEPV-----------SLETP 326 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + + + R L + L RE + R Sbjct: 327 IGEED--DSHLGDFI---EDNEAVSPADSAAYEMLREQLESVLETLTDREENVLRLRFGL 381 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 382 EDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 >gi|317128328|ref|YP_004094610.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus cellulosilyticus DSM 2522] gi|315473276|gb|ADU29879.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus cellulosilyticus DSM 2522] Length = 372 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 137/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LAK+ E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLSASEEIDLAKKI-EDGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L P++V I K E +S+ + D L Sbjct: 225 RVQRQLLQDLGREPSPEEVSKEMDLTPDKVREILK----IAQEPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+ + D Y+ + E VL +R+ N+L + + R R Sbjct: 281 DFIE--DQEALAPSDAAAYELLKEQLEDVLDTLTDREE--NVLRLRFGLDDGRTR----- 331 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 --------TLEEVGKVFGVTRERIRQIEAKALRKL 358 >gi|331269992|ref|YP_004396484.1| RpoD family RNA polymerase sigma-70 subunit [Clostridium botulinum BKT015925] gi|329126542|gb|AEB76487.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium botulinum BKT015925] Length = 368 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 79/265 (29%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA+R E GD+ A +L ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGKVPLLSPDEEINLAQRI-EDGDMYAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE++ I + E++ + E ++ ++ S Sbjct: 219 LIRVSRQLLQELGREPQPEEIAKIMEMPVDKVREIMKI-----AQEPVSLETPIGEEEDS 273 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 274 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 330 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 331 EVGKEFNVTRERIRQIEAKALRKLR 355 >gi|255525304|ref|ZP_05392244.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium carboxidivorans P7] gi|296188172|ref|ZP_06856564.1| RNA polymerase sigma factor RpoD [Clostridium carboxidivorans P7] gi|255510976|gb|EET87276.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium carboxidivorans P7] gi|296047298|gb|EFG86740.1| RNA polymerase sigma factor RpoD [Clostridium carboxidivorans P7] Length = 361 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 80/265 (30%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA+R E+GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGKVPLLAPEEEISLAQRI-ENGDQIAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 154 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 211 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE+V I + E++ + E ++ ++ S Sbjct: 212 LIRVSRQLLQELGREPQPEEVAKIMEMPVDKVREIMKI-----AQEPVSLETPIGEEEDS 266 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 267 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 323 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 324 EVGKEFNVTRERIRQIEAKALRKLR 348 >gi|229174966|ref|ZP_04302486.1| RNA polymerase sigma factor [Bacillus cereus MM3] gi|228608634|gb|EEK65936.1| RNA polymerase sigma factor [Bacillus cereus MM3] Length = 375 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|30264362|ref|NP_846739.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Ames] gi|47529811|ref|YP_021160.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. 'Ames Ancestor'] gi|49187190|ref|YP_030442.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Sterne] gi|49481307|ref|YP_038350.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141207|ref|YP_085621.1| RNA polymerase sigma factor RpoD [Bacillus cereus E33L] gi|65321666|ref|ZP_00394625.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Bacillus anthracis str. A2012] gi|118479464|ref|YP_896615.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis str. Al Hakam] gi|165872043|ref|ZP_02216683.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0488] gi|167634513|ref|ZP_02392833.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0442] gi|167638663|ref|ZP_02396939.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0193] gi|170687516|ref|ZP_02878733.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0465] gi|170707362|ref|ZP_02897816.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0389] gi|196046412|ref|ZP_03113638.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB108] gi|218905429|ref|YP_002453263.1| RNA polymerase sigma-43 factor [Bacillus cereus AH820] gi|225866273|ref|YP_002751651.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB102] gi|228929335|ref|ZP_04092360.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935612|ref|ZP_04098427.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228948006|ref|ZP_04110292.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229093361|ref|ZP_04224468.1| RNA polymerase sigma factor [Bacillus cereus Rock3-42] gi|229123831|ref|ZP_04253025.1| RNA polymerase sigma factor [Bacillus cereus 95/8201] gi|229186532|ref|ZP_04313694.1| RNA polymerase sigma factor [Bacillus cereus BGSC 6E1] gi|229601154|ref|YP_002868581.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0248] gi|254684050|ref|ZP_05147910.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. CNEVA-9066] gi|254736399|ref|ZP_05194105.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Western North America USA6153] gi|254741437|ref|ZP_05199124.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Kruger B] gi|254757799|ref|ZP_05209826.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Australia 94] gi|30259020|gb|AAP28225.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. Ames] gi|47504959|gb|AAT33635.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. 'Ames Ancestor'] gi|49181117|gb|AAT56493.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. Sterne] gi|49332863|gb|AAT63509.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51974676|gb|AAU16226.1| RNA polymerase sigma-43 factor [Bacillus cereus E33L] gi|118418689|gb|ABK87108.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis str. Al Hakam] gi|164712174|gb|EDR17711.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0488] gi|167513511|gb|EDR88881.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0193] gi|167529965|gb|EDR92700.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0442] gi|170127606|gb|EDS96479.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0389] gi|170668711|gb|EDT19457.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0465] gi|196022882|gb|EDX61563.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB108] gi|218536133|gb|ACK88531.1| RNA polymerase sigma-43 factor [Bacillus cereus AH820] gi|225787167|gb|ACO27384.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB102] gi|228596963|gb|EEK54621.1| RNA polymerase sigma factor [Bacillus cereus BGSC 6E1] gi|228659652|gb|EEL15298.1| RNA polymerase sigma factor [Bacillus cereus 95/8201] gi|228690017|gb|EEL43818.1| RNA polymerase sigma factor [Bacillus cereus Rock3-42] gi|228811696|gb|EEM58031.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228824052|gb|EEM69869.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830349|gb|EEM75961.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|229265562|gb|ACQ47199.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0248] Length = 373 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360 >gi|229098765|ref|ZP_04229703.1| RNA polymerase sigma factor [Bacillus cereus Rock3-29] gi|229104924|ref|ZP_04235581.1| RNA polymerase sigma factor [Bacillus cereus Rock3-28] gi|229117789|ref|ZP_04247154.1| RNA polymerase sigma factor [Bacillus cereus Rock1-3] gi|228665652|gb|EEL21129.1| RNA polymerase sigma factor [Bacillus cereus Rock1-3] gi|228678498|gb|EEL32718.1| RNA polymerase sigma factor [Bacillus cereus Rock3-28] gi|228684609|gb|EEL38549.1| RNA polymerase sigma factor [Bacillus cereus Rock3-29] Length = 375 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|163942050|ref|YP_001646934.1| RNA polymerase sigma factor RpoD [Bacillus weihenstephanensis KBAB4] gi|229013514|ref|ZP_04170648.1| RNA polymerase sigma factor [Bacillus mycoides DSM 2048] gi|229019517|ref|ZP_04176334.1| RNA polymerase sigma factor [Bacillus cereus AH1273] gi|229025758|ref|ZP_04182158.1| RNA polymerase sigma factor [Bacillus cereus AH1272] gi|229061987|ref|ZP_04199313.1| RNA polymerase sigma factor [Bacillus cereus AH603] gi|229135118|ref|ZP_04263920.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST196] gi|229169042|ref|ZP_04296758.1| RNA polymerase sigma factor [Bacillus cereus AH621] gi|163864247|gb|ABY45306.1| RNA polymerase, sigma 70 subunit, RpoD family [Bacillus weihenstephanensis KBAB4] gi|228614451|gb|EEK71560.1| RNA polymerase sigma factor [Bacillus cereus AH621] gi|228648347|gb|EEL04380.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST196] gi|228717296|gb|EEL68969.1| RNA polymerase sigma factor [Bacillus cereus AH603] gi|228735541|gb|EEL86136.1| RNA polymerase sigma factor [Bacillus cereus AH1272] gi|228741773|gb|EEL91956.1| RNA polymerase sigma factor [Bacillus cereus AH1273] gi|228747751|gb|EEL97620.1| RNA polymerase sigma factor [Bacillus mycoides DSM 2048] Length = 375 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|326693497|ref|ZP_08230502.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc argentinum KCTC 3773] Length = 432 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 136/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ EE +AKR E GD+ A L ++LRLVV IA Y G G+ ++ Sbjct: 162 YLKEIGRVNLLKGDEEINIAKRI-EAGDVEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 220 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 221 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 280 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L P++V I L +++ V SL Sbjct: 281 RIQRQLLQDLGREPLPEEIGAEMDLTPDKVREI---LKIAQEPV-----------SLETP 326 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + + + R+ L + L RE + R Sbjct: 327 IGEED--DSHLGDFI---EDNEAISPADSAAYEMLRDQLESVLETLTDREENVLRLRFGL 381 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 382 EDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 >gi|228993035|ref|ZP_04152958.1| RNA polymerase sigma factor [Bacillus pseudomycoides DSM 12442] gi|228999085|ref|ZP_04158667.1| RNA polymerase sigma factor [Bacillus mycoides Rock3-17] gi|229006633|ref|ZP_04164267.1| RNA polymerase sigma factor [Bacillus mycoides Rock1-4] gi|228754494|gb|EEM03905.1| RNA polymerase sigma factor [Bacillus mycoides Rock1-4] gi|228760702|gb|EEM09666.1| RNA polymerase sigma factor [Bacillus mycoides Rock3-17] gi|228766683|gb|EEM15323.1| RNA polymerase sigma factor [Bacillus pseudomycoides DSM 12442] Length = 373 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360 >gi|161507646|ref|YP_001577600.1| RNA polymerase sigma factor RpoD [Lactobacillus helveticus DPC 4571] gi|160348635|gb|ABX27309.1| RNA polymerase sigma factor [Lactobacillus helveticus DPC 4571] Length = 356 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 130/273 (47%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P++ +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 90 YLKEIGRVPLITADQEIALAKRI-EEGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 148 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 149 IQEGNMGLMKAVDKFDYCLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 208 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I K E +S+ + D L Sbjct: 209 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDILK----IAQEPVSLETPIGEEDDSHLG 264 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 265 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 315 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 316 ------TLEEVGKVFGVTRERIRQIEAKALRKL 342 >gi|325677627|ref|ZP_08157279.1| RNA polymerase sigma factor RpoD [Ruminococcus albus 8] gi|324110595|gb|EGC04759.1| RNA polymerase sigma factor RpoD [Ruminococcus albus 8] Length = 366 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 87/278 (31%), Positives = 144/278 (51%), Gaps = 35/278 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPI 75 Y+ EI ++P+L +EE LA+ D A+ RL ++LRLVV IA Y G G+ Sbjct: 96 YLKEIGRVPLLTSEEEIQLAEMMSGDNDRDASKARKRLAEANLRLVVSIAKRYVGRGMSF 155 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTA 130 +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T Sbjct: 156 LDLIQEGNMGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIT 215 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNAL 189 K+ L GH + PE+ IA+ L++S +V + R+A D SL Sbjct: 216 KVKKASSQLLHKNGH-------DPSPEE---IAEDLDMSVEKVREI-MRIAQDPVSLETP 264 Query: 190 INSSDKNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I ++ S D++ +++ KE+ + + +S L RE ++ Sbjct: 265 I--GEEEDSHLGDFIPDDDAPAPAEAASLVLLKEQ-------IDQVLSTLTEREEKVLRL 315 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E+ TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 316 RFGLEDGRSRTLEEVGQEFKVTRERIRQIEAKALRKLR 353 >gi|227817068|ref|YP_002817077.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. CDC 684] gi|227007300|gb|ACP17043.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. CDC 684] Length = 373 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360 >gi|51599021|ref|YP_073209.1| RNA polymerase sigma factor [Borrelia garinii PBi] gi|51573592|gb|AAU07617.1| RNA polymerase sigma factor [Borrelia garinii PBi] Length = 266 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 83/282 (29%), Positives = 149/282 (52%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LA + + G+ A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIKLASQI-QRGNAQAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + LN +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTIKHLNYVLETK--LNEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L NP TL+++S+E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNNPKKSTLKDISTELGISSETVRQIEKRVLKKLKEEI 265 >gi|254750874|ref|ZP_05202913.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Vollum] Length = 359 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|42783418|ref|NP_980665.1| RNA polymerase sigma factor RpoD [Bacillus cereus ATCC 10987] gi|47567855|ref|ZP_00238563.1| RNA polymerase sigma factor rpoD [Bacillus cereus G9241] gi|217961783|ref|YP_002340353.1| RNA polymerase sigma factor RpoD [Bacillus cereus AH187] gi|228916924|ref|ZP_04080486.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228987542|ref|ZP_04147661.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229141030|ref|ZP_04269573.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST26] gi|229157906|ref|ZP_04285980.1| RNA polymerase sigma factor [Bacillus cereus ATCC 4342] gi|229163237|ref|ZP_04291192.1| RNA polymerase sigma factor [Bacillus cereus R309803] gi|229198419|ref|ZP_04325125.1| RNA polymerase sigma factor [Bacillus cereus m1293] gi|301055785|ref|YP_003793996.1| RNA polymerase sigma factor [Bacillus anthracis CI] gi|42739347|gb|AAS43273.1| RNA polymerase sigma-43 factor [Bacillus cereus ATCC 10987] gi|47555532|gb|EAL13875.1| RNA polymerase sigma factor rpoD [Bacillus cereus G9241] gi|217066780|gb|ACJ81030.1| RNA polymerase sigma-43 factor [Bacillus cereus AH187] gi|228585119|gb|EEK43231.1| RNA polymerase sigma factor [Bacillus cereus m1293] gi|228620300|gb|EEK77171.1| RNA polymerase sigma factor [Bacillus cereus R309803] gi|228625565|gb|EEK82318.1| RNA polymerase sigma factor [Bacillus cereus ATCC 4342] gi|228642463|gb|EEK98751.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST26] gi|228772274|gb|EEM20721.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228842748|gb|EEM87834.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|300377954|gb|ADK06858.1| RNA polymerase sigma factor [Bacillus cereus biovar anthracis str. CI] gi|324328197|gb|ADY23457.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar finitimus YBT-020] Length = 375 Score = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 136/276 (49%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|254721884|ref|ZP_05183673.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. A1055] Length = 373 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGILFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360 >gi|229031941|ref|ZP_04187928.1| RNA polymerase sigma factor [Bacillus cereus AH1271] gi|228729405|gb|EEL80395.1| RNA polymerase sigma factor [Bacillus cereus AH1271] Length = 375 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EDGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|332297439|ref|YP_004439361.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332180542|gb|AEE16230.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 287 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 78/270 (28%), Positives = 151/270 (55%), Gaps = 15/270 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ EI KIP+L ++EE LA + +A R+V ++LR VV +A Y+ +GL + Sbjct: 16 LALYLKEINKIPLLSREEETDLAVKAAAGD-KAAKDRIVNANLRFVVNVAKKYQNHGLDL 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT-ANQKR 134 +++SEGNIGLM A+++FD +G+ +Y++WWI+ ++ + I ++++ AN+ Sbjct: 75 VDLISEGNIGLMTAIERFDVSKGYHFISYAVWWIRQSILKAICEKSRMIRLPLNRANELV 134 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 + R+L + + + E++ +A LN+ S V M ++ D SL+A I SS Sbjct: 135 QIEHARKL------VAQDKTEEEEITEVADMLNMDVSHVREM-LNISRDMISLDASIRSS 187 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN- 251 D++S+ ++L D + + + + ++ + + L +E + R L N Sbjct: 188 DQDSASIGEFL---EDSRYEDPADTVLNASMQDDIDGVLGTLTDKEADVLRYRFGLNGNK 244 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++L+ + +F +++ER+RQIE +A K++Q Sbjct: 245 SMSLKEVGDKFNLTKERIRQIEKKAIKRLQ 274 >gi|282880271|ref|ZP_06288987.1| putative RNA polymerase sigma factor RpoD [Prevotella timonensis CRIS 5C-B1] gi|281305866|gb|EFA97910.1| putative RNA polymerase sigma factor RpoD [Prevotella timonensis CRIS 5C-B1] Length = 292 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 78/275 (28%), Positives = 147/275 (53%), Gaps = 18/275 (6%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI + +L +EE LA+R ++ GD A +L ++LR VV +A Y+ GL Sbjct: 22 ALDKYLQEIGREDLLSTEEEIELAQRIKK-GDRKALDKLTKANLRFVVSVAKQYQNQGLS 80 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 81 LPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQVG 138 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + +L+ + + + IA+++++ E +VI S++A + D Sbjct: 139 SVNKINQLQNKFEQEFERRPNSSE---IAERIDIPEDKVIDAMKANGKHVSVDAPFSDGD 195 Query: 195 KNSSQWQDWLVYDHD---GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 NS D L D D ++++E + R + ++ LN RER + E Sbjct: 196 DNS--LIDVLP-DSDIPMADNELVME-----SLRKEIADALHTLNERERNVIECFYGINQ 247 Query: 252 P-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P +TLE + + ++RERVRQI +A +K++++ + Sbjct: 248 PEMTLEEIGDRYGLTRERVRQIREKALRKLRKNTK 282 >gi|154506043|ref|ZP_02042781.1| hypothetical protein RUMGNA_03585 [Ruminococcus gnavus ATCC 29149] gi|153793542|gb|EDN75962.1| hypothetical protein RUMGNA_03585 [Ruminococcus gnavus ATCC 29149] Length = 297 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 93/284 (32%), Positives = 150/284 (52%), Gaps = 41/284 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI +IP+L +EE L ++ E GD A ++ ++LRLVV +A Y G G+ Sbjct: 34 LKIYLKEIGRIPLLTAEEELELGRQIAE-GDTEARRKMEEANLRLVVAVAKHYAGKGMQF 92 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AV+KFD +G + +TY++WWIK A ILR+ +Q R Sbjct: 93 MDLIQEGNIGLMRAVEKFDYTKGSKFSTYAVWWIKEA----ILRALD--------SQSRE 140 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVA-------IAKKLNVSESEVISMNCRLAGDESLNA 188 R+ ++ I+ K EQ + IAK+L+++ EV M + SL Sbjct: 141 IRVPVRVAQNMNKISKTERKMEQTLGREVAAEEIAKELHMTTEEVERMQSYIKNPVSLET 200 Query: 189 LINSSDKNSSQWQDWLVYDHDGQE-------QVLIEKEERKNRRNMLTRSMSVLNPRERR 241 + D+ +S +D++ D QE L++KEE + +S L +E++ Sbjct: 201 PVG--DEENSNLEDFI---EDTQEPTPEEAVAALVQKEE-------VQEMLSTLTEKEQK 248 Query: 242 IFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQES 283 I R L++ V TLE V+RER+RQ+E+RA +K+++S Sbjct: 249 ILRLRYGLEDGNVHTLEETGQILGVTRERIRQLESRALEKLRKS 292 >gi|152976724|ref|YP_001376241.1| RNA polymerase sigma factor RpoD [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025476|gb|ABS23246.1| RNA polymerase, sigma 70 subunit, RpoD family [Bacillus cytotoxicus NVH 391-98] Length = 373 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVDLLSAEEEIQLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPTPEEIGEEMDLAPEKVREILK----IAQEPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|260101316|ref|ZP_05751553.1| RNA polymerase sigma factor rpoD [Lactobacillus helveticus DSM 20075] gi|260084901|gb|EEW69021.1| RNA polymerase sigma factor rpoD [Lactobacillus helveticus DSM 20075] Length = 370 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P++ +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLITADQEIALAKRI-EEGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNMGLMKAVDKFDYCLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 223 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 279 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 329 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 ------TLEEVGKVFGVTRERIRQIEAKALRKL 356 >gi|332975851|gb|EGK12729.1| DNA-directed RNA polymerase sigma subunit SigA [Desmospora sp. 8437] Length = 372 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 136/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLSAEEEVELAKRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 165 IQEGNMGLIKAVEKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + +L PE+V I K +++ V SL Sbjct: 225 RVSRQLLQELGREPSPEEIAEEMDLSPEKVREIMK---IAQEPV-----------SLETP 270 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D E K + L + L+ RE + R Sbjct: 271 IGEED--DSHLGDFIPDDDAQAPADAAAYELLKEQ---LKDVLDTLSDREENVLRLRFGL 325 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 DDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 359 >gi|164687939|ref|ZP_02211967.1| hypothetical protein CLOBAR_01584 [Clostridium bartlettii DSM 16795] gi|164602352|gb|EDQ95817.1| hypothetical protein CLOBAR_01584 [Clostridium bartlettii DSM 16795] Length = 294 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 81/280 (28%), Positives = 146/280 (52%), Gaps = 33/280 (11%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + Y+ EI + ML EE LAK+ E A + ++ RLVV IA YR + Sbjct: 23 AMKMYLKEIEEYKMLSAVEEVELAKKVNEEIP-EAKEDFINANYRLVVSIAKKYRKENVD 81 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 I +++ GNIGL++AV+K+D +G++ +TY+ WWIK ++ YI + ++I +Q+ Sbjct: 82 ILDLIQAGNIGLIKAVEKYDYTKGYKFSTYATWWIKQSITRYIDDCENTIRIPVHLHQRI 141 Query: 135 LFF--------NLRRLKGHLQAITD-NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE- 184 F N+ + + L+ + D ++ ++V+ I K+ + V+S++ + DE Sbjct: 142 NFVKRKKQELSNVLQREPSLEELADICDMDVDKVIEILKR----DKNVVSLDTPIKEDED 197 Query: 185 -SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL I SD N S V++ + E+ N + + ++ L+ +E+++ Sbjct: 198 SSLVEFI-PSDANFS--------------DVVMHEVEQHNLKEKINELLTGLSEQEQKVL 242 Query: 244 EAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++P TLE + F V+RER+RQIEA+A +K++ Sbjct: 243 RMRFGLDDDDPKTLEEIGKVFGVTRERIRQIEAKAIRKLR 282 >gi|88802114|ref|ZP_01117642.1| RNA polymerase sigma-70 factor [Polaribacter irgensii 23-P] gi|88782772|gb|EAR13949.1| RNA polymerase sigma-70 factor [Polaribacter irgensii 23-P] Length = 287 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 82/296 (27%), Positives = 151/296 (51%), Gaps = 55/296 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y EI KI ++ EE LA + + GD A LV+++LR VV +A Y+G GL + Sbjct: 18 LDKYFQEISKIGLITADEEVELALKIK-VGDSKALDALVSANLRFVVSVAKQYQGQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV-----KIGTTA 130 S++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V KIG+ Sbjct: 77 SDLINEGNLGLVKAAKRFDETRGFKFISYAVWWIRQSIMQALAEQSRIVRLPLNKIGSIN 136 Query: 131 NQKRLFFNL----RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISM 176 K+++ L +R+ H + IAK+L+++E+EV +SM Sbjct: 137 KIKKIYARLEQNEQRMPTHKE--------------IAKQLDMTEAEVEQSLKNSGRHVSM 182 Query: 177 NC--RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 + + D +L ++ S D Q + + IE E R++ Sbjct: 183 DAPFKEGEDSNLYNVLQSGDSPRPDSQLM-------AQSLKIEIE----------RALGT 225 Query: 235 LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L +E ++ + E +LE + +F+++RERVRQ++ +A +++Q + Q+ Sbjct: 226 LTYKEAKVIKMYYGIGNEAMASLEEIGEKFDLTRERVRQVKQKAIRRLQSGSKTQM 281 >gi|52786447|ref|YP_092276.1| RNA polymerase sigma factor RpoD [Bacillus licheniformis ATCC 14580] gi|163119552|ref|YP_079858.2| RNA polymerase sigma factor RpoD [Bacillus licheniformis ATCC 14580] gi|319644974|ref|ZP_07999207.1| RNA polymerase sigma factor rpoD [Bacillus sp. BT1B_CT2] gi|52348949|gb|AAU41583.1| SigA [Bacillus licheniformis ATCC 14580] gi|145903060|gb|AAU24220.2| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus licheniformis ATCC 14580] gi|317392783|gb|EFV73577.1| RNA polymerase sigma factor rpoD [Bacillus sp. BT1B_CT2] Length = 373 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE AK+ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLSAKEEIEYAKKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|311069121|ref|YP_003974044.1| RNA polymerase sigma factor RpoD [Bacillus atrophaeus 1942] gi|310869638|gb|ADP33113.1| RNA polymerase sigma factor RpoD [Bacillus atrophaeus 1942] Length = 373 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE A++ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLSAKEEITYAQKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|256532390|gb|ACU81353.1| RpoH [Rhizobium leguminosarum bv. trifolii] Length = 148 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 67/152 (44%), Positives = 95/152 (62%), Gaps = 9/152 (5%) Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L A D Sbjct: 1 FEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL-AKGDT 59 Query: 153 NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDH-- 208 L + + IA L VS ++V +M+ RL+G D SL A S D S++ D+LV D Sbjct: 60 QLTLQSIHQEIAAALGVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDDPL 119 Query: 209 -DGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 D Q +I+ E RR +L ++ LN RE Sbjct: 120 PDEQVSNMIDGER---RRVLLASALKHLNERE 148 >gi|222152854|ref|YP_002562031.1| RNA polymerase sigma factor RpoD [Streptococcus uberis 0140J] gi|222113667|emb|CAR41594.1| RNA polymerase sigma factor RpoD [Streptococcus uberis 0140J] Length = 369 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 142/273 (52%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L EE LA GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTSDEEKELAIAV-AAGDVDAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 219 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R + LQ + + PEQ IA+++ ++ +V + ++A + SL I Sbjct: 220 ----VREQRNLLQELG-QDPTPEQ---IAERMEMTPDKVREI-LKIAQEPVSLETPIGEE 270 Query: 194 DKNSSQWQDWLVYDHDGQEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ 249 D S D++ +++V+ ++ R R L + L RE + R L Sbjct: 271 D--DSHLGDFI------EDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLD 322 Query: 250 ENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + TLE++ F V+RER+RQIEA+A +K++ Sbjct: 323 DGKMRTLEDVGKVFNVTRERIRQIEAKALRKLR 355 >gi|291550766|emb|CBL27028.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus torques L2-14] Length = 280 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 88/286 (30%), Positives = 142/286 (49%), Gaps = 38/286 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y++EI +IP+L ++EE L + GD A +L +LRLVV +A Y G G+ + Sbjct: 17 LKIYLNEIGQIPLLSEEEERDLGCKSA-SGDEDARRKLEEGNLRLVVSLAKHYTGRGITL 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG--TTANQK 133 +++ EGNIGLM A +K+D + R +TY+ WWIK AMQ I + +++ N K Sbjct: 76 MDLIQEGNIGLMHAAEKYDYTKENRFSTYASWWIKEAMQRAIDQQSREIRVPVHVAENMK 135 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV-----------ISMNCRLAG 182 + ++++ LQ PE+ IA+++ E +S+ + Sbjct: 136 K----VQKISKDLQQKFGREATPEE---IAEEMKDKSPEFVKEILSYLQNPVSLETPVGE 188 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D N DK+++ +D + L++KEE + + LN RER++ Sbjct: 189 DGENNLGDMVEDKDATTPEDAM--------NQLVQKEE-------VQELLESLNDRERQV 233 Query: 243 FEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R L++ TLE + E V+RERVRQIEARA +K++ K Sbjct: 234 IRLRFGLEDGKTHTLEEIGDELNVTRERVRQIEARAMEKLRSKATK 279 >gi|325263837|ref|ZP_08130570.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] gi|324030875|gb|EGB92157.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] Length = 369 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L + E LA+R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGKVPLLSAEREIELAQRM-EDGDEDAKKELAEANLRLVVSIAKRYVGRGMLFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNLGLIKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK+L++ V + SL I ++ S Sbjct: 220 LIRVSRQLLQELGREPTPEE---IAKELDMPVERVREILKISQEPVSLETPI--GEEEDS 274 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D V E + + L + L RE+++ R + TLE Sbjct: 275 HLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMNDGRARTLE 331 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF+V+RER+RQIEA+A +K++ Sbjct: 332 EVGKEFDVTRERIRQIEAKALRKLR 356 >gi|149278736|ref|ZP_01884871.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|149230355|gb|EDM35739.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] Length = 286 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 73/273 (26%), Positives = 150/273 (54%), Gaps = 13/273 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + +Y+ +I +I +L +EE LA+R ++ GD +A +LV ++LR VV +A Y+ GL + Sbjct: 18 IDKYLTDIGRIGLLSVEEELGLARRIKK-GDEAALDKLVKTNLRFVVSVAKKYQNKGLQL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++SEGN+GL++A ++FD +GF+ ++++WWI+ ++ + + ++++ NQ Sbjct: 77 ADLISEGNLGLIKAAQRFDDTKGFKFISFAVWWIRQSIMQALADQKRMIRL--PGNQVLG 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + L+ + + E+ +A SE++V SL+ + + ++ Sbjct: 135 IIKINKAADELEQVLERAPTYEE---LAMATEFSEAKVADYLDSAPLSYSLD--MTTHEE 189 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER--RIFEARRLQENPV 253 + D LV ++ L+ KE + RS+S+L RE+ IF + Sbjct: 190 SDFSLMDTLVNENTPDTDELMMKESMSED---VRRSLSILPEREKWIIIFFFGLDNHTAL 246 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TL++++ F++S+ER+RQ++ RA K ++ S +K Sbjct: 247 TLDDMTDVFQLSKERIRQLKDRALKTLKTSCRK 279 >gi|328465879|gb|EGF37062.1| RNA polymerase sigma factor RpoD [Lactobacillus helveticus MTCC 5463] Length = 370 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P++ +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGRVPLITADQEIALAKRI-EEGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 163 IQEGNMGLMKAVDKFDYCLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + N+ +V I L +++ E +S+ + D L Sbjct: 223 RIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 278 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + EQVL +R+ N+L + + R R Sbjct: 279 DFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREE--NVLRLRFGLDDGRTR------- 329 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 ------TLEEVGKVFGVTRERIRQIEAKALRKL 356 >gi|226311661|ref|YP_002771555.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] gi|226094609|dbj|BAH43051.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] Length = 376 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 138/275 (50%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 110 YLKEIGRVPLLSAEEEIKLAQRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 169 IQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 228 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 ++L L R + +L PE+V I K E +S+ + D L Sbjct: 229 RVSRQLLQELGREPMPEEIAEKMDLTPEKVREIMK----IAQEPVSLETPIGEEDDSHLG 284 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+++ + D Y+ + E VL +R+ N+L + + R R Sbjct: 285 DFIE--DQDALEPSDAAAYELLKEQLEDVLDTLTDREE--NVLRLRFGLDDGRTR----- 335 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 336 --------TLEEVGKVFGVTRERIRQIEAKALRKL 362 >gi|222151460|ref|YP_002560616.1| RNA polymerase sigma factor SigA [Macrococcus caseolyticus JCSC5402] gi|222120585|dbj|BAH17920.1| RNA polymerase sigma factor SigA [Macrococcus caseolyticus JCSC5402] Length = 366 Score = 108 bits (271), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 100 YLKEIGRVNLLSAEEEIELAKRI-EQGDEEAKARLAEANLRLVVSIAKRYVGRGMLFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 159 IQEGNMGLIKAVEKFDFTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 218 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 219 RVQRQLLQDLGRDPSPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 274 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 275 DFIEDQDAQSP-------ADHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 317 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 318 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 352 >gi|260655747|ref|ZP_05861216.1| RNA polymerase major sigma factor [Jonquetella anthropi E3_33 E1] gi|260629363|gb|EEX47557.1| RNA polymerase major sigma factor [Jonquetella anthropi E3_33 E1] Length = 969 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 142/273 (52%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I K+ +L+ EE LAKR E GD +A ++ ++LRLVV IA Y G G+ ++ Sbjct: 703 YLRDIGKVSLLDAAEEVALAKRV-EAGDETAKDEIINANLRLVVSIAKKYIGRGMQFLDL 761 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD RGF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 762 IQEGNLGLIRAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMV 821 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + ++PE+V I + + +S+ + G+E + L Sbjct: 822 RISRQLVQKLGREPSDEEIAAEMKIEPERVEEIKRISQMP----VSLETPI-GEEEDSQL 876 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 + + S + + D+ QEQ+ ML + L+ RER + R Sbjct: 877 GDFIEDRSLPSPEDVAADNLLQEQI----------EEML----NALSDREREVLRYRFGL 922 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E+ TLE + F V+RER+RQIEA+A +K+ Sbjct: 923 EDGRSYTLEEVGRRFGVTRERIRQIEAKALRKL 955 >gi|114776318|ref|ZP_01451363.1| RpoS [Mariprofundus ferrooxydans PV-1] gi|114553148|gb|EAU55546.1| RpoS [Mariprofundus ferrooxydans PV-1] Length = 282 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 80/276 (28%), Positives = 139/276 (50%), Gaps = 22/276 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + +L EE LAKR GD A H +V ++LRLVVKI+ Y G+ ++++ Sbjct: 14 YMREISRYELLTAAEEIALAKRIGA-GDKEAHHYMVQANLRLVVKISRRYMNRGVALADL 72 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD G R +TY+ WWI+ A++ I+ +++ ++ Sbjct: 73 IEEGNLGLIRAVEKFDVTHGCRFSTYATWWIRQAVERAIMNQSRTIRVPVHVGKE----- 127 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI--NSSDKN 196 L L H + + V IA+ + VS + E + A + +S+D Sbjct: 128 LYALTKHTNRLRSELERDPTDVEIAEAMGVSVQRI---------QELMGAAVRTDSADDM 178 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKN--RRNMLTRSMSVLNPRERRIFEARRLQE---N 251 D+ +YD E ++ + R +L MS L +ER + R + + Sbjct: 179 LHDDSDFTLYDVTADEAAESPGDQMQTVLRNEILQVWMSKLEKKEREVVRLRYGLDDAGD 238 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + + V+RER+RQI+ +A +K++ + ++ Sbjct: 239 PWTLEMIGEQLGVTRERIRQIQVQALQKLRRIVSQE 274 >gi|308174309|ref|YP_003921014.1| RpoD [Bacillus amyloliquefaciens DSM 7] gi|307607173|emb|CBI43544.1| RpoD [Bacillus amyloliquefaciens DSM 7] gi|328554255|gb|AEB24747.1| RNA polymerase sigma factor RpoD [Bacillus amyloliquefaciens TA208] gi|328912652|gb|AEB64248.1| RNA polymerase sigma factor rpoD [Bacillus amyloliquefaciens LL3] Length = 373 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE A++ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLSAKEEITYAQKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|281355585|ref|ZP_06242079.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] gi|281318465|gb|EFB02485.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] Length = 248 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 79/239 (33%), Positives = 131/239 (54%), Gaps = 17/239 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLV KIA + G GLP ++VSEGN GLM A +++DP RG R +TYS WWIK A Sbjct: 18 LIEENLRLVQKIANDFLGRGLPWEDLVSEGNRGLMTAARRYDPSRGARFSTYSAWWIKQA 77 Query: 113 MQEYILRSWSLVK--IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +++ I +V+ IGT + ++ +RR+ L + E+V A+ N+ Sbjct: 78 IRQAIAEQAQMVRVPIGTQTHWRK----IRRIVNELTEALGHAPSDEEV---AEAANLPL 130 Query: 171 SEVISM-NCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNML 228 + V + R +SLNA I+ D + ++QD+ D + +Q LI+ E+ +N ++L Sbjct: 131 ATVNRLRGSRQIDVQSLNAPISDGDPDGGEFQDFFQDDTEPAPDQQLIKLEDVENLLSLL 190 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RE+++ R L P+ TL+ + +E + ERVRQI+ +A +K+ ++ Sbjct: 191 ETLTE----REQKVLRLRFGLDGEPIRTLDEVGTELNCTNERVRQIQNQALRKLHAQLE 245 >gi|325290508|ref|YP_004266689.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophobotulus glycolicus DSM 8271] gi|324965909|gb|ADY56688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophobotulus glycolicus DSM 8271] Length = 392 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 135/270 (50%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAK E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 126 YLKEIGRVPLLTAEEEIELAKSM-EAGDEMAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 184 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 185 IQEGNLGLIKAVEKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 242 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + PE+ AK +++ E V + SL I ++ S Sbjct: 243 LIRVNRQLLQELGRDPTPEET---AKVMDIPEERVREIMKIAQEPVSLETPIG--EEEDS 297 Query: 199 QWQDWLVYDHDG-----QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D+ + D D L+ KE+ L + L RE ++ R ++ Sbjct: 298 HLGDF-IPDEDAPAPSEAASFLLLKEQ-------LEEVLETLTSREEKVLRLRFGLDDGR 349 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 350 TRTLEEVGQEFGVTRERIRQIEAKALRKLR 379 >gi|154686781|ref|YP_001421942.1| RNA polymerase sigma factor RpoD [Bacillus amyloliquefaciens FZB42] gi|154352632|gb|ABS74711.1| RpoD [Bacillus amyloliquefaciens FZB42] Length = 373 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE A++ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLSAKEEITYAQKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I K E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREILKIAQ----EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|110638185|ref|YP_678394.1| RNA polymerase sigma-70 factor [Cytophaga hutchinsonii ATCC 33406] gi|110280866|gb|ABG59052.1| RNA polymerase sigma-70 factor [Cytophaga hutchinsonii ATCC 33406] Length = 287 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 83/285 (29%), Positives = 148/285 (51%), Gaps = 43/285 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L EE LAKR RE GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLLTPDEEVDLAKRIRE-GDQLALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 GDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNRVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLA-GDE 184 + + L+ + P++ +A+ L VS +EV +SM+ G+E Sbjct: 135 LNKISKTFSELEQKYEREPSPDE---LAEVLEVSTAEVVDTLKISGRHVSMDAPFVQGEE 191 Query: 185 S--LNALINSSDK--NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 + L+ L NSS+ +SS D L R + R++S L RE Sbjct: 192 NSLLDVLENSSESAPDSSLMNDSL--------------------RREVQRALSTLTQREA 231 Query: 241 RIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + E+ +TLE + +F ++RERVRQI+ +A ++++ + Sbjct: 232 DVISLYFGLNGEHSMTLEEIGEKFNLTRERVRQIKEKAIRRLRHT 276 >gi|223985702|ref|ZP_03635749.1| hypothetical protein HOLDEFILI_03055 [Holdemania filiformis DSM 12042] gi|223962313|gb|EEF66778.1| hypothetical protein HOLDEFILI_03055 [Holdemania filiformis DSM 12042] Length = 408 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 142/281 (50%), Gaps = 44/281 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L ++E +A+R + GD A L++S+LRLVV IA Y G G+ ++ Sbjct: 139 YLKEIGRVPLLNPEDEPEIARRI-QAGDEEAKRILISSNLRLVVSIAKKYVGRGMLFLDL 197 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------T 129 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T Sbjct: 198 IQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLT 257 Query: 130 ANQKRLFFNLRR------LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 Q++L +L R + ++ IT + ++ Q +A+ E +S+ + Sbjct: 258 RVQRQLVQDLGREPTAEEIAEKMENITPDKVREIQKIAL---------EPVSLETPIGEE 308 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT-RSMSVLNPRER 240 D L I D S D Q+L K+E N LT R VL R Sbjct: 309 DDSHLGDFIEDKDAMSP--------DQYANNQLL--KDEINNVLQGLTEREEKVLRLR-F 357 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +++ R TLE + EF V+RER+RQIEA+A +K++ Sbjct: 358 GLYDGRTR-----TLEEVGKEFNVTRERIRQIEAKALRKLK 393 >gi|89074640|ref|ZP_01161105.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] gi|89049578|gb|EAR55138.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] Length = 284 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 82/282 (29%), Positives = 145/282 (51%), Gaps = 30/282 (10%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 IGL Y+ +I P+L K +E +++Y GD A +L+ S+LRLVV IA YR L Sbjct: 9 IGL--YMKDISSKPLLTKMDEIHYSRKYLR-GDNKAKEKLIESNLRLVVSIAKKYRAAHL 65 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +++ EGN+GL+ AV+KFDPE+GFR +TY+ WWIK ++ I +++ +++ Sbjct: 66 LLGDMIDEGNLGLITAVEKFDPEKGFRFSTYATWWIKQNIERAIHNQNRAIRLPVHVSKE 125 Query: 134 -----RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 R +L + + H D L+ + L E ++S++ + DES Sbjct: 126 INALLRTHRDLMKKQNHEPTHEDIALQLNKETQDISTLLSYELNIVSLDQTIGDDESKGT 185 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERKNRRNMLTRSMSVLNPRERRIFEAR 246 + + LV D EQ+ E + N+ ++ + PRER I R Sbjct: 186 IAS------------LVVD----EQIPSPSHIVEENSMVNLAEGLLNKIKPREREIL-CR 228 Query: 247 R---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R + P TL+ ++S ++RERVRQ++ ++ ++++ +++ Sbjct: 229 RFGMMGYEPQTLQEVASALGLTRERVRQLQMKSLERLKMNLK 270 >gi|300812183|ref|ZP_07092625.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496819|gb|EFK31899.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 372 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 83/274 (30%), Positives = 132/274 (48%), Gaps = 33/274 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVNLLTSEEEVALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD G++ +TY+ WWI+ A+ I ++I + Sbjct: 165 IQEGNMGLMKAVDKFDYRLGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 222 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLA--GDESLNA 188 L R++ L + +PE++ A + + L + + E +S+ + D +L Sbjct: 223 LIRIQRQLLQDLGRDPEPEEIGAEMDLPVKKVREILKICQ-EPVSLETPIGEEDDSNLGD 281 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-R 247 I D S + H E + + L + L+ RE + R Sbjct: 282 FIEDKDAMSPEQ-------HAANEML----------KEQLAEVLDTLSDREEEVLRLRFG 324 Query: 248 LQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L + TLE + FEV+RER+RQIEA+A +K+ Sbjct: 325 LDDGKARTLEEVGQHFEVTRERIRQIEAKALRKL 358 >gi|282877766|ref|ZP_06286579.1| RNA polymerase sigma factor RpoD family protein [Prevotella buccalis ATCC 35310] gi|281300082|gb|EFA92438.1| RNA polymerase sigma factor RpoD family protein [Prevotella buccalis ATCC 35310] Length = 298 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 78/280 (27%), Positives = 144/280 (51%), Gaps = 28/280 (10%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI ++ +EE LA+R ++ GD A +L ++LR VV +A Y+ GL Sbjct: 28 ALDKYLQEIGHEDLISIEEEIELAQRIKK-GDRKALEKLTKANLRFVVSVAKQYQNQGLS 86 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-----IGTT 129 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V+ +G+ Sbjct: 87 LPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSV 146 Query: 130 ANQKRL---FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 R+ F + ++ I D PE + A K+N V + A L Sbjct: 147 NKINRILNKFEQEHERRPNVDEIADQIDLPEDKIVEAMKVNGKHISVDAPIMEGADSSLL 206 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA- 245 + L N+ S + LV + + R + +++VLN RER I E Sbjct: 207 DVLPNTE---SPMADNELVME---------------SLREEVASALNVLNERERNIIECF 248 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + + +TLE + +F ++RERVRQI+ +A ++++++ + Sbjct: 249 YGINQREMTLEEIGDKFGLTRERVRQIKEKALRRLRQNTK 288 >gi|257126628|ref|YP_003164742.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptotrichia buccalis C-1013-b] gi|257050567|gb|ACV39751.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptotrichia buccalis C-1013-b] Length = 392 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 80/269 (29%), Positives = 137/269 (50%), Gaps = 23/269 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE A+R + G+ A +L+ S+LRLVV IA + GL + ++ Sbjct: 126 YLREIGQIPLLSYEEEIDYAQRVLD-GEEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDL 184 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KF+ E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 185 IQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 239 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + ++K + I K +A+KL + +V S+ SL + S + S Sbjct: 240 INKIKKESRIILQETGKEPTAEELAEKLELPVEKVKSILEMNQDPISLETPVGSEE--DS 297 Query: 199 QWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + D++ D +D ++L+ + L + LN RE + R ++ Sbjct: 298 ELGDFVEDDKFANPYDATTRILL--------KEQLDEVLKTLNEREEMVLRYRYGLDDGS 349 Query: 254 --TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIE +A +K+ Sbjct: 350 QKTLEEVGKIFNVTRERIRQIEVKALRKL 378 >gi|157693020|ref|YP_001487482.1| RNA polymerase sigma factor RpoD [Bacillus pumilus SAFR-032] gi|157681778|gb|ABV62922.1| DNA-directed RNA polymerase sigma subunit SigA [Bacillus pumilus SAFR-032] Length = 373 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE A++ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLSAKEEITYAQKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 226 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 282 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 324 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|238927759|ref|ZP_04659519.1| possible DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] gi|238884475|gb|EEQ48113.1| possible DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] Length = 382 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 82/273 (30%), Positives = 141/273 (51%), Gaps = 21/273 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R E GD +A HRL ++LRLVV IA Y G G+ ++ Sbjct: 115 YLKEIGRVPLLTAEEEVELARRM-EAGDEAARHRLEEANLRLVVSIAKRYAGRGMMFLDL 173 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 174 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 231 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 R+ L + PE+ IA ++ +S + V + SL I ++ + Sbjct: 232 YIRISRQLLQELGRDPTPEE---IAHRMGLSVARVREIMKISQEPVSLETPIG--EEEDT 286 Query: 199 QWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENP 252 + D++ D +L+ KE+ ++ ++ L PRE + R + Sbjct: 287 RLSDFIEDEAAPDPADAASMLLLKEQ-------ISEVLTTLAPREAEVLRLRFGLVDGRS 339 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TLE + F V+RER+RQIEA+A +K++ ++ Sbjct: 340 RTLEEVGQNFGVTRERIRQIEAKALRKLRHPVR 372 >gi|298208827|ref|YP_003717006.1| putative sigma factor A [Croceibacter atlanticus HTCC2559] gi|83848754|gb|EAP86623.1| putative sigma factor A [Croceibacter atlanticus HTCC2559] Length = 288 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 76/275 (27%), Positives = 145/275 (52%), Gaps = 28/275 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ ++ K+ ++ +EE LA+R RE GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LNNYLQDVSKLDLITAEEEVELAQRIRE-GDQIALEKLTKANLRFVVSVAKQYQNQGLRL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ N+ + Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQALAEHSRVVRL--PLNKIGV 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + +L+ + +P IAK+L++ S+V + S++A + Sbjct: 135 INKINKTFSYLEQAYE---RPPSAAEIAKELDMPVSKVKTAMKNSGRSLSMDAPFQEGEN 191 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV-----LNPRERRIFEARRLQ- 249 +S+ +YD VL E N++ S+SV L+ R + RL Sbjct: 192 DSN------LYD------VLKSGESPSPDNNLMQDSLSVEIERALDTLTEREADVIRLNY 239 Query: 250 ----ENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + P+TL+ + F++SRERVRQI + +++ Sbjct: 240 GLGGQQPLTLQEIGETFDLSRERVRQIREKGIRRL 274 >gi|1943995|dbj|BAA19494.1| sigA=sigma70 [Staphylococcus aureus] Length = 368 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIAHQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|28378605|ref|NP_785497.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum WCFS1] gi|300768133|ref|ZP_07078038.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308180761|ref|YP_003924889.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp. plantarum ST-III] gi|28271441|emb|CAD64346.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus plantarum WCFS1] gi|300494197|gb|EFK29360.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308046252|gb|ADN98795.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp. plantarum ST-III] Length = 368 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 140/279 (50%), Gaps = 41/279 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD SA L ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVDLLTADEEVALALRI-EQGDESAKQELAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 I D++++ D Y+ +G L ++EE N+L + + R R Sbjct: 277 DFIE--DQDATSPADAAAYELLKEQLEGVLDTLTDREE-----NVLRLRFGLDDGRTR-- 327 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 328 -----------TLEEVGKVFGVTRERIRQIEAKALRKLR 355 >gi|254519856|ref|ZP_05131912.1| transcription initiation factor sigma A [Clostridium sp. 7_2_43FAA] gi|226913605|gb|EEH98806.1| transcription initiation factor sigma A [Clostridium sp. 7_2_43FAA] Length = 370 Score = 108 bits (270), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 134/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA R E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLSSEEEIELANRI-EQGDQRAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 163 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 220 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ I+K +++ +V + SL I ++ S Sbjct: 221 LIRVQRQLLQELGRDPFPEE---ISKVMDLPVDKVREIQKIAQEPVSLETPI--GEEEDS 275 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 276 HLGDFIPDDDALAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 332 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 333 EVGKEFNVTRERIRQIEAKALRKLR 357 >gi|260062909|ref|YP_003195989.1| putative sigma factor A [Robiginitalea biformata HTCC2501] gi|88784477|gb|EAR15647.1| putative sigma factor A [Robiginitalea biformata HTCC2501] Length = 287 Score = 108 bits (270), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 82/281 (29%), Positives = 146/281 (51%), Gaps = 41/281 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I KI ++ EE LA+R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKIDLITANEEVELAQRIKQ-GDQLALEKLTKANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q ++R L KIG+ Sbjct: 77 PDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRVVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K+ F L + + +P IAK+L+++ SEV + + +G Sbjct: 136 NKIKKTFSYLEQ----------AHERPPSAEEIAKELDMTVSEV-KQSIKNSGRHV---- 180 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML--------TRSMSVLNPRERR 241 S D + +D +YD VL E K ++++ R++ L+PRE Sbjct: 181 --SMDAPLREGEDSNLYD------VLRSGESPKPDKSLMLQSLNTEINRALETLSPREAD 232 Query: 242 IFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + + + +TL + F+++RERVRQI +A +K+ Sbjct: 233 VVKLYYGIGDQQSMTLAEIGQTFDLTRERVRQIREKAIRKL 273 >gi|221310444|ref|ZP_03592291.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. 168] gi|221314767|ref|ZP_03596572.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221319690|ref|ZP_03600984.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. JH642] gi|221323967|ref|ZP_03605261.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. SMY] gi|255767573|ref|NP_390399.2| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. 168] gi|296333322|ref|ZP_06875775.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305675173|ref|YP_003866845.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis subsp. spizizenii str. W23] gi|321312003|ref|YP_004204290.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BSn5] gi|251757327|sp|P06224|RPOD_BACSU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43; AltName: Full=Sigma-A gi|225185201|emb|CAB14450.2| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis subsp. subtilis str. 168] gi|296149520|gb|EFG90416.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413417|gb|ADM38536.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis subsp. spizizenii str. W23] gi|320018277|gb|ADV93263.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BSn5] Length = 371 Score = 108 bits (270), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE A++ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGRVNLLSAKEEIAYAQKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 164 IQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 223 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 224 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 279 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 280 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 322 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 323 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 357 >gi|149277811|ref|ZP_01883951.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|149231499|gb|EDM36878.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] Length = 288 Score = 108 bits (270), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 82/281 (29%), Positives = 149/281 (53%), Gaps = 12/281 (4%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 R + SI G L +Y+ EI KI +L +EE LA RE GD +A +LV+++LR VV Sbjct: 5 RISKSITDRGGDSLEKYLSEISKIELLNVEEEVRLASIVRE-GDRAALDKLVSANLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y+ GL +++++SEGN+GL++A ++D +GF+ ++++WWI+ ++ I Sbjct: 64 SVAKNYQDMGLRLADLISEGNLGLIKAASRYDHTKGFKFISFAVWWIRQSITYAIADQHR 123 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 ++++ NQ L R L+ + E+V A+ L++ E++V+ Sbjct: 124 MIRL--PGNQIVGITRLNRTSDLLEQKLERRPSLEEV---AEALDLPETKVVDYQMSALK 178 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SL+ I + ++ + + + VL + +N R +L S+L PRE++I Sbjct: 179 TTSLDMPILLGEPGTTFGHMIRNSEVEAADAVLDRQSLAENVRRLL----SILPPREQKI 234 Query: 243 FEARR-LQENPVT-LENLSSEFEVSRERVRQIEARAFKKVQ 281 L P T LE++ F +S+ER+RQ++ +A K ++ Sbjct: 235 LSLYYGLGGMPQTRLEDMVPVFHLSKERLRQLKDKAVKTLK 275 >gi|51891726|ref|YP_074417.1| RNA polymerase sigma factor RpoD [Symbiobacterium thermophilum IAM 14863] gi|51855415|dbj|BAD39573.1| RNA polymerase major sigma factor [Symbiobacterium thermophilum IAM 14863] Length = 388 Score = 108 bits (270), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 79/273 (28%), Positives = 130/273 (47%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE + A+R E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 122 YLKEIGRVPLLTAEEEIMYAERI-EKGDEEAKRKLAEANLRLVVSIAKRYVGRGMQFLDL 180 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 181 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 238 Query: 139 LRRLKGHLQAITDNNLKPEQVVAI-------AKKLNVSESEVISMNCRLAGDES--LNAL 189 L R+ L PE++ A+ +++ E +S+ + +E L Sbjct: 239 LIRVTRQLVQELGREPTPEEIAAVMDIPVERVREIQKIAQEPVSLETPIGEEEDSHLGDF 298 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D + + E+VL L PRE ++ R Sbjct: 299 IEDQDAPAPAEAASFTLLKEQLEEVL-----------------ESLTPREEKVLRLRFGL 341 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 342 DDGRARTLEEVGQVFGVTRERIRQIEAKALRKL 374 >gi|219684379|ref|ZP_03539323.1| RNA polymerase sigma factor [Borrelia garinii PBr] gi|219685569|ref|ZP_03540385.1| RNA polymerase sigma factor [Borrelia garinii Far04] gi|219672368|gb|EED29421.1| RNA polymerase sigma factor [Borrelia garinii PBr] gi|219672847|gb|EED29870.1| RNA polymerase sigma factor [Borrelia garinii Far04] Length = 266 Score = 108 bits (270), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 83/282 (29%), Positives = 149/282 (52%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LA + + G+ A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIKLAGQI-QRGNAQAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + LN +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTIKHLNYVLETK--LNEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L NP TL+++S+E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNNPKKSTLKDISTELGISSETVRQIEKRVLKKLKEEI 265 >gi|296112139|ref|YP_003622521.1| RNA polymerase sigma factor [Leuconostoc kimchii IMSNU 11154] gi|295833671|gb|ADG41552.1| RNA polymerase sigma factor [Leuconostoc kimchii IMSNU 11154] Length = 432 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 86/274 (31%), Positives = 135/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ EE +AKR E GD+ A L ++LRLVV IA Y G G+ ++ Sbjct: 162 YLKEIGRVNLLKGDEEINIAKRI-EDGDVEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 220 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 221 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 280 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L P++V I L +++ V SL Sbjct: 281 RIQRQLLQDLGREPLPEEIGAEMDLTPDKVREI---LKIAQEPV-----------SLETP 326 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + + + R L + L RE + R Sbjct: 327 IGEED--DSHLGDFI---EDNEAISPADSAAYEMLREQLESVLETLTDREENVLRLRFGL 381 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 382 EDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 >gi|163754266|ref|ZP_02161389.1| RNA polymerase sigma-70 factor [Kordia algicida OT-1] gi|161326480|gb|EDP97806.1| RNA polymerase sigma-70 factor [Kordia algicida OT-1] Length = 287 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 79/287 (27%), Positives = 153/287 (53%), Gaps = 37/287 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIKA-GDQIALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 + F L + + + + IAK+L+++ ++V S++A Sbjct: 136 NKINKTFAYLEQSHERIPSAEE----------IAKELDMTVNDVKESMKNSGRHVSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+ D N +YD + G+ ++ ++ + + R++ L PRE + Sbjct: 186 LVEGEDSN--------LYDVLNSGESPNPDKELLHESLKTEIERALETLTPREADVI--- 234 Query: 247 RL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 RLYFGLGNQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|90416198|ref|ZP_01224130.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] gi|90331923|gb|EAS47137.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] Length = 306 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 150/275 (54%), Gaps = 18/275 (6%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 S Y+ EI P+L EE A++ + GD SA R++ S+LRLVVKIA Y GL + Sbjct: 32 SLYLKEIGYAPLLTAAEEVFYARKLLK-GDESARKRMIESNLRLVVKIARRYVNRGLELL 90 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGNIGLM+AV+KFDPE G+R +TY+ WWI+ ++ ++ +++ K L Sbjct: 91 DLIEEGNIGLMRAVEKFDPELGYRFSTYATWWIRQTIERGLMNQTRTIRLPVHI-VKELN 149 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 +R + Q + D+ PE+ IA++++ +V+ + SL+ I+S D Sbjct: 150 VYVRASRKLAQRL-DHTPTPEE---IAEEVDKPVEDVLKIF-------SLSERISSIDIP 198 Query: 197 SSQWQDWLVYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEARR---LQENP 252 ++ + L+ + E++ E +N +L + ++ L ++R + RR L Sbjct: 199 VAENEKSLIETISAEGASSPERQVEGENLSEVLNKWLAQLPEKQREVL-VRRFGLLHHQE 257 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ A +++++ ++K Sbjct: 258 ETLEQVGREIGLTRERVRQIQVDALRRLRDVLRKH 292 >gi|325686026|gb|EGD28084.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 372 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVNLLTSEEEVALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD G++ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVDKFDYRLGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L ++V I K E +S+ + D +L Sbjct: 225 RIQRQLLQDLGRDPEPEEIGAEMDLPVKKVREILKLCQ----EPVSLETPIGEEDDSNLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S + H E + + L + L+ RE + R Sbjct: 281 DFIEDKDAMSPEQ-------HAANEML----------KEQLAEVLDTLSDREEEVLRLRF 323 Query: 247 RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L + TLE + FEV+RER+RQIEA+A +K+ Sbjct: 324 GLDDGKARTLEEVGQHFEVTRERIRQIEAKALRKL 358 >gi|296121869|ref|YP_003629647.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] gi|296014209|gb|ADG67448.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] Length = 290 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 77/273 (28%), Positives = 142/273 (52%), Gaps = 17/273 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + +L ++E LA R +G+ A R+V ++LRLVV IA Y G GLP+ Sbjct: 28 LETYLREINETALLTARDERELANRI-ANGEKEARDRMVRANLRLVVNIARAYVGKGLPL 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP+ R +TY+ +WIK +++ ++ ++I A L Sbjct: 87 QDLIEEGNLGLLRAVEGFDPDMNTRFSTYASYWIKQSIKRALINCGKTIRI--PAYMVEL 144 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 R+ L+ D +P +A +L + + ++ + + L +S+ + Sbjct: 145 LSKWRKATAKLE---DQFKRPPTQEEVAIELGLPKKKLSIVKKAI-------HLYSSTPQ 194 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM--LTRSMSVLNPRERRIFEARRLQEN-- 251 + W++ D E+V +E + N+ + + ++ RE +I R ++ Sbjct: 195 TDDEESGWMMSDMVADERVKGPDDELLDVDNLKHVYAMLETMDEREAKILRLRFGLDDSE 254 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P TL+ + E ++RERVRQIE+ A K++ + I Sbjct: 255 PKTLKEIGEEMGLTRERVRQIESEALKRIAKRI 287 >gi|169334166|ref|ZP_02861359.1| hypothetical protein ANASTE_00560 [Anaerofustis stercorihominis DSM 17244] gi|169258883|gb|EDS72849.1| hypothetical protein ANASTE_00560 [Anaerofustis stercorihominis DSM 17244] Length = 403 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L +EE LA++ E GD+ A +L ++LRLVV IA Y G+ ++ Sbjct: 138 YLKEIGKVDLLSAEEELDLAQKI-ESGDVEARKKLCEANLRLVVSIAKRYVNRGMSFLDL 196 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 197 IQEGNLGLLKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 254 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L+R++ L I D P IAK++ + E +V + +++ D SL I ++ Sbjct: 255 LKRVQRML--IQDLGRDPNS-HEIAKEMGLPEEKVRDI-MKISQDPVSLETPI--GEEED 308 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN--P 252 S D+ + D D + EE + R L + L RE ++ R E+ P Sbjct: 309 SHLGDF-IPDDDA-----VAPEEAASYMLLRTQLFEVLKTLTDREAKVLILRFGLEDGRP 362 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 363 RTLEEVGDIFCVTRERIRQIEAKALRKLR 391 >gi|40143|emb|CAA27538.1| unnamed protein product [Bacillus subtilis] gi|143454|gb|AAA22709.1| RNA polymerase sigma-43 factor [Bacillus subtilis] gi|1303833|dbj|BAA12489.1| RpoD [Bacillus subtilis] Length = 371 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE A++ E GD + RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGRVNLLSAKEEIAYAQKI-EEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 164 IHEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 223 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + D +L PE+V I L +++ E +S+ + D L Sbjct: 224 RVQRQLLQDLGREPTPEEIAEDMDLTPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 279 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 280 DFIEDQEATSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 322 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 323 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 357 >gi|258446806|ref|ZP_05694960.1| transcription initiation factor sigma plaC [Staphylococcus aureus A6300] gi|257854381|gb|EEV77330.1| transcription initiation factor sigma plaC [Staphylococcus aureus A6300] Length = 368 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|258437393|ref|ZP_05689377.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9299] gi|257848598|gb|EEV72586.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9299] Length = 368 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|312134852|ref|YP_004002190.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor owensensis OL] gi|311774903|gb|ADQ04390.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor owensensis OL] Length = 273 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 82/273 (30%), Positives = 148/273 (54%), Gaps = 37/273 (13%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L +EE LAKR E GD A +L ++ RLV IA YRG+GL +++ EG IGLM Sbjct: 17 LLTPEEEIELAKRI-EQGDEKAKEKLFRANKRLVANIAKRYRGFGLDYEDLMQEGFIGLM 75 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 AV K+D +G+R ATY+ WWI+ A+ + I + +++ +++ F +R++ + + Sbjct: 76 NAVNKYDYRQGYRFATYATWWIRQAITKAIYNTGRNIRVPIHLHEQ--MFKIRKV--YRK 131 Query: 148 AITDNNLKPEQVVAIAKKLNVSE----------SEVISMNCRLAGDESLNALINS--SDK 195 + +NN +P + IAK++N S +E++S++ + G++ L + + DK Sbjct: 132 LLQENNREP-TIREIAKEMNWSTKKVQKMLDLFNEIVSLDTPI-GEDGLATIGDFMIDDK 189 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPV 253 S Y + ++Q+L+E+ LT+ L+ +E+R+ R Sbjct: 190 AFS-------YFENVEKQLLVEQ---------LTKYFDKLSEKEKRVIVLRYGLADGKGR 233 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + + ++RER+RQIE +A +K++ ++ K Sbjct: 234 TLEEVGNALNLTRERIRQIEIKALRKIRYNLLK 266 >gi|329733136|gb|EGG69473.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 21193] Length = 314 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 48 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 106 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 107 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 166 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 167 RVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 222 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 223 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 265 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 266 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 301 >gi|304437692|ref|ZP_07397644.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304369325|gb|EFM22998.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 381 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 82/273 (30%), Positives = 140/273 (51%), Gaps = 21/273 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LA+R E GD +A HRL ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVPLLTAEEEVDLARRM-EAGDETARHRLEEANLRLVVSIAKRYVGRGMMFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 173 IQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 230 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 R+ L + PE+ IA ++ +S + V + SL I ++ + Sbjct: 231 YIRVSRQLLQELGRDPTPEE---IAHRMGLSVARVREIMKISQEPVSLETPIG--EEEDT 285 Query: 199 QWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENP 252 D++ D +L+ KE+ ++ ++ L PRE + R + Sbjct: 286 HLSDFIEDEAAPDPADAASMLLLKEQ-------ISEVLTTLAPREAEVLRLRFGLVDGRS 338 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TLE + F V+RER+RQIEA+A +K++ ++ Sbjct: 339 RTLEEVGQNFGVTRERIRQIEAKALRKLRHPVR 371 >gi|261879259|ref|ZP_06005686.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] gi|270334090|gb|EFA44876.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] Length = 291 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 145/277 (52%), Gaps = 21/277 (7%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L RY+ EI + PML EE +LA+ + G A RLV+ +LR VV +A Y+ G Sbjct: 17 ALDRYLSEIAREPMLSPDEEAMLAQAIHKGGPEGDRARDRLVSGNLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 + + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ E + +V Sbjct: 77 ISLIDLINEGNMGLVKAAEKFDETRGFKFISYAVWWIRQSIMEALAVKSRIV-------- 128 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVA----IAKKLNVSESEVISMNCRLAGDESLNA 188 R+ N + G + T++ L+ V +A+ L V E+++ + A S++A Sbjct: 129 -RMPLNQVGIYGKVIRTTESFLQEHGRVPSNHELAEILQVEEAQITAAMSAGARATSIDA 187 Query: 189 LINSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EAR 246 + + + S D L D G + ++KE N L R VL+ RE+RI E+ Sbjct: 188 PLGNDEDGS--MADMLASDDSGMKSDSSLDKESMNQFINDLLR--EVLSAREQRIIKESF 243 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +LE ++ ++RER+RQ+ +A +K++ S Sbjct: 244 GIGVMEKSLEEIADSMGMTRERIRQVREKALRKIRFS 280 >gi|237736224|ref|ZP_04566705.1| RNA polymerase sigma factor rpoD [Fusobacterium mortiferum ATCC 9817] gi|229421777|gb|EEO36824.1| RNA polymerase sigma factor rpoD [Fusobacterium mortiferum ATCC 9817] Length = 351 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 84/272 (30%), Positives = 146/272 (53%), Gaps = 27/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L EE AKR E GD A+ +L+ ++LRLVV IA + GL + ++ Sbjct: 85 YLREIGQIPLLSHDEELEYAKRALE-GDEWASQQLIEANLRLVVSIAKKHTNRGLKLLDL 143 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I T N+ + Sbjct: 144 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIK 203 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +LQ T + PE +A++L + +V ++ SL + S + Sbjct: 204 -----KEARIYLQE-TGKDATPE---VLAERLGMEVEKVKAIQEMNQDPISLETPVGSEE 254 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN 251 S+ D++ ++ ++ E NR R L ++ L+ RE ++ R ++ Sbjct: 255 --DSELGDFV------EDNKMLNPYELTNRSLLREQLDGVLNSLSSREEKVLRYRYGLDD 306 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + F+V+RER+RQIE +A +K++ Sbjct: 307 GSPKTLEEVGKIFKVTRERIRQIEVKALRKLR 338 >gi|167768032|ref|ZP_02440085.1| hypothetical protein CLOSS21_02575 [Clostridium sp. SS2/1] gi|317498375|ref|ZP_07956670.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium 5_1_63FAA] gi|167710361|gb|EDS20940.1| hypothetical protein CLOSS21_02575 [Clostridium sp. SS2/1] gi|291561030|emb|CBL39830.1| RNA polymerase, sigma 70 subunit, RpoD [butyrate-producing bacterium SSC/2] gi|316894269|gb|EFV16456.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium 5_1_63FAA] Length = 363 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 83/274 (30%), Positives = 142/274 (51%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA+R E GD +A +L ++LRLVV IA Y G G+ ++ Sbjct: 97 YLKEIGKVPLLSADEEIKLAQRM-EEGDEAAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 155 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 156 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 215 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + ++ E+V I L +S+ E +S+ + +E + Sbjct: 216 RVSRQLLQELGREPSPEEIAEEMDIPVERVREI---LKISQ-EPVSLETPIGEEEDSHLG 271 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 D+N D + L++++ L + L RE+++ R Sbjct: 272 DFIQDENVPVPADAAAF-------TLLKEQ--------LDEVLGTLTEREQKVLRLRFGL 316 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 317 DDSRARTLEEVGKEFNVTRERIRQIEAKALRKLR 350 >gi|257425686|ref|ZP_05602110.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus 55/2053] gi|257271380|gb|EEV03526.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus 55/2053] Length = 368 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGREPAPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|119357820|ref|YP_912464.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium phaeobacteroides DSM 266] gi|119355169|gb|ABL66040.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium phaeobacteroides DSM 266] Length = 299 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/305 (28%), Positives = 157/305 (51%), Gaps = 47/305 (15%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L ++E L K +E D A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTAEDEVKLTKAIKEGYDTPVDTVEYRRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N + +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EFERDPNTRE-----LANLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKN---SSQWQDWLVYDHD-GQEQVLIEKEERKNRR 225 S+ ++ ++AG S++A D N D + DH ++ + +E E Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHLPDHGLNKDSLTLEVE------ 231 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RS+SVL PRE + + +NP+TLE + +F+++RERVRQI+ +A +++++S Sbjct: 232 ----RSLSVLAPREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQS 287 Query: 284 IQKQV 288 ++ Sbjct: 288 AYSKI 292 >gi|309775524|ref|ZP_07670524.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 3_1_53] gi|308916618|gb|EFP62358.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 3_1_53] Length = 397 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 82/272 (30%), Positives = 140/272 (51%), Gaps = 26/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ +EE +A+R ++ GD A +L++++LRLVV IA Y G G+ ++ Sbjct: 128 YLKEIGRVELLDPKEEPEIAQRIQD-GDEEAKKKLISANLRLVVSIAKKYVGRGMLFLDL 186 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 187 IQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK-- 244 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R++ L + D P AK N+S +V + SL I D Sbjct: 245 ----LTRIQRQL--VQDLGRDPSAEEIAAKMENISPEKVREIQKIALEPVSLETPIGEED 298 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQ 249 S D++ +++ + +E N ++ + + L RE ++ R Sbjct: 299 --DSHLGDFI------EDKEALSPDEYANNQLLKDEINTVLQGLTEREEKVLRLRFGLYD 350 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 351 GRTRTLEEVGKEFNVTRERIRQIEAKALRKLK 382 >gi|302391919|ref|YP_003827739.1| RNA polymerase, sigma 70 subunit, RpoD [Acetohalobium arabaticum DSM 5501] gi|302203996|gb|ADL12674.1| RNA polymerase, sigma 70 subunit, RpoD [Acetohalobium arabaticum DSM 5501] Length = 273 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 81/259 (31%), Positives = 145/259 (55%), Gaps = 18/259 (6%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L K+EE LAK ++GD A L+ +LRLVV IA YRG G+ +++ EGN+GLM Sbjct: 14 LLSKKEEAKLAKGA-QNGDQEARKELIEHNLRLVVSIAKKYRGKGMEFEDMIQEGNLGLM 72 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL-VKIGTTANQKRLFFNLRRLKGHL 146 +A+ KFDP++G+R +TY+ WWI+ ++ + + ++ V + ++F +L L Sbjct: 73 KAIDKFDPDKGYRFSTYATWWIRQSITRALPEAKTIRVPVHVWEKTTKVFKAKEKLYNQL 132 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN--SSDKNSSQWQDWL 204 N +P I+++ + +SE + R++ D++L +L N D+N+ + L Sbjct: 133 ------NREP-TFEEISEETGI-DSEKVKEIIRISSDQNLASLNNLVGDDENTELGE--L 182 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEF 262 + D D +E + R+ + L + L RE I R L++N P TL+ ++ F Sbjct: 183 IADDDVEEPMT--DLNRQFLQEDLEEVLEELTDREAEIIRLRFGLKDNWPKTLQEVADRF 240 Query: 263 EVSRERVRQIEARAFKKVQ 281 ++SRER+RQI+ +A ++++ Sbjct: 241 KLSRERIRQIQEKALRRLR 259 >gi|15924551|ref|NP_372085.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus Mu50] gi|21283242|ref|NP_646330.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MW2] gi|49483810|ref|YP_041034.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MRSA252] gi|49486397|ref|YP_043618.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MSSA476] gi|57651954|ref|YP_186458.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus COL] gi|82751164|ref|YP_416905.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus RF122] gi|87162254|ref|YP_494216.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88195369|ref|YP_500173.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148268045|ref|YP_001246988.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus JH9] gi|150394113|ref|YP_001316788.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus JH1] gi|151221676|ref|YP_001332498.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus str. Newman] gi|156979879|ref|YP_001442138.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus Mu3] gi|161509790|ref|YP_001575449.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221140019|ref|ZP_03564512.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253314932|ref|ZP_04838145.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|253732214|ref|ZP_04866379.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253733189|ref|ZP_04867354.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus TCH130] gi|255006347|ref|ZP_05144948.2| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257428347|ref|ZP_05604745.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 65-1322] gi|257433672|ref|ZP_05610030.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus E1410] gi|257436586|ref|ZP_05612630.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus M876] gi|257793637|ref|ZP_05642616.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9781] gi|258411063|ref|ZP_05681343.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9763] gi|258420133|ref|ZP_05683088.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9719] gi|258423989|ref|ZP_05686871.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9635] gi|258443599|ref|ZP_05691938.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8115] gi|258448720|ref|ZP_05696832.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A6224] gi|258450610|ref|ZP_05698672.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5948] gi|258453537|ref|ZP_05701515.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5937] gi|262049137|ref|ZP_06022014.1| RNA polymerase sigma factor [Staphylococcus aureus D30] gi|262051223|ref|ZP_06023447.1| RNA polymerase sigma factor [Staphylococcus aureus 930918-3] gi|269203189|ref|YP_003282458.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus ED98] gi|282893062|ref|ZP_06301296.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8117] gi|282904143|ref|ZP_06312031.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus C160] gi|282905970|ref|ZP_06313825.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus Btn1260] gi|282908880|ref|ZP_06316698.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WW2703/97] gi|282911199|ref|ZP_06319001.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WBG10049] gi|282914368|ref|ZP_06322154.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M899] gi|282916831|ref|ZP_06324589.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus D139] gi|282919337|ref|ZP_06327072.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C427] gi|282920110|ref|ZP_06327835.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9765] gi|282924662|ref|ZP_06332330.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C101] gi|282928194|ref|ZP_06335799.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A10102] gi|283770637|ref|ZP_06343529.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus H19] gi|283958325|ref|ZP_06375776.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus A017934/97] gi|284024620|ref|ZP_06379018.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 132] gi|293503442|ref|ZP_06667289.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 58-424] gi|293510459|ref|ZP_06669165.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus M809] gi|293530999|ref|ZP_06671681.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M1015] gi|294848592|ref|ZP_06789338.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9754] gi|295406684|ref|ZP_06816489.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8819] gi|295428139|ref|ZP_06820771.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus EMRSA16] gi|296275817|ref|ZP_06858324.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MR1] gi|297207720|ref|ZP_06924155.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297245734|ref|ZP_06929599.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8796] gi|297590895|ref|ZP_06949533.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus MN8] gi|300911801|ref|ZP_07129244.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus TCH70] gi|304380850|ref|ZP_07363510.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|60390420|sp|Q6G905|RPOD_STAAS RecName: Full=RNA polymerase sigma factor rpoD gi|60390434|sp|Q6GGD8|RPOD_STAAR RecName: Full=RNA polymerase sigma factor rpoD gi|60393872|sp|P0A0I8|RPOD_STAAM RecName: Full=RNA polymerase sigma factor rpoD gi|60393873|sp|P0A0I9|RPOD_STAAW RecName: Full=RNA polymerase sigma factor rpoD gi|60393874|sp|P0A0J0|RPOD_STAA8 RecName: Full=RNA polymerase sigma factor rpoD gi|81694388|sp|Q5HFJ9|RPOD_STAAC RecName: Full=RNA polymerase sigma factor rpoD gi|153069|gb|AAB59090.1| sigma factor [Staphylococcus aureus] gi|14247332|dbj|BAB57723.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus Mu50] gi|21204682|dbj|BAB95378.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus MW2] gi|49241939|emb|CAG40633.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus MRSA252] gi|49244840|emb|CAG43300.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus MSSA476] gi|57286140|gb|AAW38234.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus COL] gi|82656695|emb|CAI81122.1| RNA polymerase sigma factor [Staphylococcus aureus RF122] gi|87128228|gb|ABD22742.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87202927|gb|ABD30737.1| RNA polymerase sigma factor, putative [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741114|gb|ABQ49412.1| RNA polymerase, sigma 70 subunit, RpoD family [Staphylococcus aureus subsp. aureus JH9] gi|149946565|gb|ABR52501.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus JH1] gi|150374476|dbj|BAF67736.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus str. Newman] gi|156722014|dbj|BAF78431.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus Mu3] gi|160368599|gb|ABX29570.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253724003|gb|EES92732.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253728729|gb|EES97458.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus TCH130] gi|257275188|gb|EEV06675.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 65-1322] gi|257281765|gb|EEV11902.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus E1410] gi|257283937|gb|EEV14060.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus M876] gi|257787609|gb|EEV25949.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9781] gi|257840213|gb|EEV64677.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9763] gi|257843844|gb|EEV68238.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9719] gi|257845610|gb|EEV69642.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9635] gi|257851005|gb|EEV74948.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8115] gi|257857998|gb|EEV80887.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A6224] gi|257861768|gb|EEV84567.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5948] gi|257864268|gb|EEV87018.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5937] gi|259160860|gb|EEW45880.1| RNA polymerase sigma factor [Staphylococcus aureus 930918-3] gi|259162806|gb|EEW47371.1| RNA polymerase sigma factor [Staphylococcus aureus D30] gi|262075479|gb|ACY11452.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus ED98] gi|269941051|emb|CBI49435.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus TW20] gi|282313497|gb|EFB43892.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C101] gi|282317147|gb|EFB47521.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C427] gi|282319318|gb|EFB49670.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus D139] gi|282321549|gb|EFB51874.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M899] gi|282324894|gb|EFB55204.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WBG10049] gi|282327144|gb|EFB57439.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WW2703/97] gi|282331262|gb|EFB60776.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus Btn1260] gi|282590001|gb|EFB95083.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A10102] gi|282594458|gb|EFB99443.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9765] gi|282595761|gb|EFC00725.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus C160] gi|282764380|gb|EFC04506.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8117] gi|283460784|gb|EFC07874.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus H19] gi|283470839|emb|CAQ50050.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Staphylococcus aureus subsp. aureus ST398] gi|283790474|gb|EFC29291.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus A017934/97] gi|285817243|gb|ADC37730.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus 04-02981] gi|290920267|gb|EFD97333.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M1015] gi|291095108|gb|EFE25373.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 58-424] gi|291466823|gb|EFF09343.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus M809] gi|294824618|gb|EFG41041.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9754] gi|294968431|gb|EFG44455.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8819] gi|295128497|gb|EFG58131.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus EMRSA16] gi|296887737|gb|EFH26635.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297177385|gb|EFH36637.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8796] gi|297575781|gb|EFH94497.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus MN8] gi|298694843|gb|ADI98065.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus ED133] gi|300886047|gb|EFK81249.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus TCH70] gi|302333237|gb|ADL23430.1| RNA polymerase sigma-70 factor RpoD [Staphylococcus aureus subsp. aureus JKD6159] gi|302751392|gb|ADL65569.1| RNA polymerase sigma-70 factor RpoD [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304340577|gb|EFM06511.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312437970|gb|ADQ77041.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus TCH60] gi|312829949|emb|CBX34791.1| RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43) [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315129839|gb|EFT85829.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus CGS03] gi|315195463|gb|EFU25850.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus CGS00] gi|315198744|gb|EFU29072.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus CGS01] gi|320140554|gb|EFW32408.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MRSA131] gi|320144091|gb|EFW35860.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MRSA177] gi|323440459|gb|EGA98171.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus O11] gi|323443233|gb|EGB00851.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus O46] gi|329314237|gb|AEB88650.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus T0131] gi|329727416|gb|EGG63872.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 21172] gi|329728458|gb|EGG64895.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 21189] Length = 368 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|257452079|ref|ZP_05617378.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_5R] gi|257466122|ref|ZP_05630433.1| RNA polymerase sigma factor RpoD [Fusobacterium gonidiaformans ATCC 25563] gi|315917279|ref|ZP_07913519.1| RNA polymerase sigma factor RpoD [Fusobacterium gonidiaformans ATCC 25563] gi|317058628|ref|ZP_07923113.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_5R] gi|313684304|gb|EFS21139.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_5R] gi|313691154|gb|EFS27989.1| RNA polymerase sigma factor RpoD [Fusobacterium gonidiaformans ATCC 25563] Length = 272 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/279 (30%), Positives = 147/279 (52%), Gaps = 24/279 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS Y+ +IR+ LEK+EE L + + GD A ++L+ +LRLVV +A GYR G+ + Sbjct: 7 LSLYLKDIRQYRTLEKEEELDLVIK-AQSGDEEAKNQLILCNLRLVVNVAKGYRSKGMNL 65 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGN+GL++A++KFD +GFR +TY++WWIK ++ + I+ ++I + Sbjct: 66 IDLISEGNLGLIRAIEKFDVGKGFRFSTYAVWWIKQSISKAIIFKGREIRIPSYR----- 120 Query: 136 FFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + L ++ ++ + + + P V +A+ L + ++V + SL+ I Sbjct: 121 YDILNKINKYVTETVKLCGIYP-TVEEVAEYLKMPVNKVEEVMIEFQEPMSLSTEIGED- 178 Query: 195 KNSSQWQDWLVYDHD---GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE 250 +Y D G E+ EK K + L +S L RE+ I + R L Sbjct: 179 ----------IYLEDTLSGAEEHFEEKVYYKMMQQRLKDILSRLESREQEILKLRFGLDG 228 Query: 251 NPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + TLE++ F ++RERVRQIE KK++ K++ Sbjct: 229 YEIHTLEDIGKNFNITRERVRQIEKNTLKKLKRKYTKEL 267 >gi|257430984|ref|ZP_05607364.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 68-397] gi|257278414|gb|EEV09050.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 68-397] Length = 342 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 76 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 134 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 135 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 194 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I K E +S+ + D L Sbjct: 195 RVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILK----IAQEPVSLETPIGEEDDSHLG 250 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 251 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 293 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 294 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 329 >gi|89890814|ref|ZP_01202323.1| DNA-directed RNA polymerase major sigma-43 factor (sigma-A) rpoD [Flavobacteria bacterium BBFL7] gi|89516959|gb|EAS19617.1| DNA-directed RNA polymerase major sigma-43 factor (sigma-A) rpoD [Flavobacteria bacterium BBFL7] Length = 287 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 81/291 (27%), Positives = 152/291 (52%), Gaps = 45/291 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I KI ++ +EE LA+ ++ GD A +L T++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDISKIDLITAEEEVELAQLIKK-GDQRALEKLTTANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNAGLVKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + F HL+ + + PE+ +AK+L+++ S+V +SM+ Sbjct: 136 NKINKAF-------SHLEQLHERPPSPEE---LAKELDMTVSDVKQSLKNAGRHVSMDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 L E+ N S L++ E + +E +TR++ L+ +E Sbjct: 186 LKEGETSNLYDVVRSGESPNPDRELMH-----ESLTLE----------ITRALETLSQKE 230 Query: 240 RRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + N P++LE + F+++RERVRQI+ + K+++++ + ++ Sbjct: 231 ADVISLYFGIGNQQPMSLEEIGETFDLTRERVRQIKEKGIKRLRQNSRSKI 281 >gi|297584635|ref|YP_003700415.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus selenitireducens MLS10] gi|297143092|gb|ADH99849.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus selenitireducens MLS10] Length = 371 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 139/275 (50%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E D A RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGRVPLLSAKEEVELAKRI-EEDDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 164 IQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 223 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + L P++V I L +++ E +S+ + D L Sbjct: 224 RVQRQLLQDLGREPTPEEVSKEMELTPDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 279 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+ + D Y+ + E VL +R+ N+L + + R R Sbjct: 280 DFIE--DQEALAPSDAAAYELLKEQLEDVLDTLTDREE--NVLRLRFGLDDGRTR----- 330 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 331 --------TLEEVGKVFGVTRERIRQIEAKALRKL 357 >gi|315924365|ref|ZP_07920587.1| DNA-directed RNA polymerase sigma subunit RpoD [Pseudoramibacter alactolyticus ATCC 23263] gi|315622244|gb|EFV02203.1| DNA-directed RNA polymerase sigma subunit RpoD [Pseudoramibacter alactolyticus ATCC 23263] Length = 396 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 83/266 (31%), Positives = 134/266 (50%), Gaps = 15/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE +AKR GD A L ++LRLVV IA Y G G+ ++ Sbjct: 130 YLKEIGRVSLLTADEEMAIAKRMA-AGDEDAKKELAEANLRLVVSIAKRYVGRGMSFLDL 188 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 189 IQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 246 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R+ L P + I K++ SE +V + ++A D SL I ++ Sbjct: 247 LIRVSRQLLQEYGREPTPAE---IGKEMGFSEDKVREIQ-KIAQDPVSLETPIG--EEED 300 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D + E + L +S L RE ++ R ++ TL Sbjct: 301 SHLGDFI---PDDEAPAPSEAASYALLKEQLIDVLSTLTDREEKVLRLRFGLDDGRARTL 357 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E + EF+V+RER+RQIEA+A +K++ Sbjct: 358 EEVGKEFDVTRERIRQIEAKALRKLR 383 >gi|325285575|ref|YP_004261365.1| RpoD subfamily RNA polymerase sigma 70 subunit [Cellulophaga lytica DSM 7489] gi|324321029|gb|ADY28494.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga lytica DSM 7489] Length = 287 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 157/293 (53%), Gaps = 49/293 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDQVALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 + F L + + KP IAK+L+++ E + + + +G S++A Sbjct: 136 NKINKTFAFLEQA---------HERKP-SAEEIAKELDMT-IEDVKQSLKNSGRHVSMDA 184 Query: 189 -LINSSDKNSSQWQDWLVYD-------HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 LI+ D N +YD + ++LIE + R + R++ L PRE Sbjct: 185 PLIDGEDSN--------LYDVLRSGESPNPDRELLIE-----SLRTEIERALETLTPREA 231 Query: 241 RIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL +++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 232 DVI---RLYFGLAEQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|260438482|ref|ZP_05792298.1| RNA polymerase sigma factor RpoD [Butyrivibrio crossotus DSM 2876] gi|292809071|gb|EFF68276.1| RNA polymerase sigma factor RpoD [Butyrivibrio crossotus DSM 2876] Length = 370 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/274 (31%), Positives = 138/274 (50%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LAKR E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLSADEEIELAKRM-ELGDEEAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 163 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 222 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + ++ E+V I L +S+ E +S+ + +E Sbjct: 223 RVSRQLLQELGREPSPQEIADEMDIPVERVREI---LKISQ-EPVSLETPIGEEE----- 273 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 S D++ D V E + L + L RE+++ + R Sbjct: 274 -------DSHLGDFI---QDDNVPVPAEAAAFTLLKEQLNEVLGTLTEREQKVLKLRFGL 323 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 324 EDGRARTLEEVGKVFNVTRERIRQIEAKALRKLR 357 >gi|213963182|ref|ZP_03391440.1| RNA polymerase sigma factor RpoD [Capnocytophaga sputigena Capno] gi|213954266|gb|EEB65590.1| RNA polymerase sigma factor RpoD [Capnocytophaga sputigena Capno] Length = 287 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 74/288 (25%), Positives = 149/288 (51%), Gaps = 39/288 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ ++ EE LA+R + GD++A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGRVDLITADEEVELAQRIK-AGDVAALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNKIGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 + ++ +L+ + E+ IA++L++S ++V ISM+ L E Sbjct: 135 INKINKMYAYLEQANERVPSAEE---IARELDMSVNDVKESMKNAGRHISMDAPLVEGED 191 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 N S L+ D + R + R++ L PRE + Sbjct: 192 SNLYDVIRSNESPNPDKSLILD---------------SLRTEIERALETLTPREADVI-- 234 Query: 246 RRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 -RLYFGLGDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|189424151|ref|YP_001951328.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] gi|189420410|gb|ACD94808.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] Length = 320 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 78/274 (28%), Positives = 139/274 (50%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I++ P+L + E LA+R E GD +A ++++ ++LRLVVKIA Y GLP ++ Sbjct: 60 YLRDIQRTPLLNAEAEKELARRV-EQGDKAARNQMIEANLRLVVKIAKRYLNRGLPFLDL 118 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK--IGTTANQKRLF 136 + EGN+GLM+AV++F E+ R +TY+ WWI+ +++ ++ ++ + + + R+ Sbjct: 119 IEEGNLGLMKAVERFSLEKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDDISRML 178 Query: 137 FNLRRLKGHL------QAITDN-NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 R+L L Q + D +KP + +KL + SM+ + + Sbjct: 179 KVSRQLSQELHREPSVQELADAMQIKPLHI----RKLMILLRRTCSMDVPIGEGNDFFLV 234 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RL 248 D N+ D L E +R ++ L+ ER I R L Sbjct: 235 DTIEDTNAVSPADLL---------------ENIDRYELIAEHFDQLSENERTILGLRFGL 279 Query: 249 QE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +P TL+ + F V+RER+RQIEA++ +K++ Sbjct: 280 DDRDPQTLDTIGQSFGVTRERIRQIEAKSLEKLK 313 >gi|86132636|ref|ZP_01051229.1| RNA polymerase sigma-70 factor RpoD [Dokdonia donghaensis MED134] gi|85816878|gb|EAQ38063.1| RNA polymerase sigma-70 factor RpoD [Dokdonia donghaensis MED134] Length = 287 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 81/296 (27%), Positives = 153/296 (51%), Gaps = 55/296 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ +EE LA+R + GD A +L ++LR VV ++ Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITAEEEVELAQRIK-AGDHRALEQLTKANLRFVVSVSKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + F L + N +P IAK+L+++ +V ISM+ Sbjct: 136 NKINKTFAFLEQA----------NERPPSPEEIAKELDMTIKDVKESLKNSGRHISMDAP 185 Query: 180 L--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L D +L ++NS + S L+++ + + + R++ L P Sbjct: 186 LVEGEDSNLYDVLNSGE--SPNPDRALLHE---------------SLKTEIERALETLTP 228 Query: 238 RERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE + RL + P++LE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 229 READVV---RLYFGLGDQRPMSLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|322383680|ref|ZP_08057431.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151892|gb|EFX44835.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 354 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L ++E LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 88 YLKEIGRVPLLSAEDEVELAKRI-EQGDEEAKRRLTEANLRLVVSIAKRYVGRGMLFLDL 146 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 147 IQEGNMGLIKAVEKFDHTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 204 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++ +S +V + SL I D S Sbjct: 205 LIRVSRQLLQELGREPTPEE---IAKEMELSTDKVREIMKIAQEPVSLETPIGEED--DS 259 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 260 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 316 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 317 EVGKVFGVTRERIRQIEAKALRKLR 341 >gi|315224630|ref|ZP_07866455.1| DNA-directed RNA polymerase sigma subunit RpoD [Capnocytophaga ochracea F0287] gi|314945415|gb|EFS97439.1| DNA-directed RNA polymerase sigma subunit RpoD [Capnocytophaga ochracea F0287] Length = 287 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 76/290 (26%), Positives = 155/290 (53%), Gaps = 43/290 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ ++ EE LA+R + GD++A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGRVDLITADEEVELAQRIK-AGDVAALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNKIGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL--AGD 183 + ++ +L+ + E+ IA++L++S ++V ISM+ L D Sbjct: 135 INKINKMYAYLEQANERVPSAEE---IARELDMSVNDVKESMKNAGRHISMDAPLVEGED 191 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +L +I S++ S L+ D + R + R++ L PRE + Sbjct: 192 SNLYDVIRSNE--SPNPDKALILD---------------SLRTEIERALETLTPREADVV 234 Query: 244 EARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 ---RLYFGLSDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|313123889|ref|YP_004034148.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280452|gb|ADQ61171.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 372 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 131/275 (47%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVNLLTSEEEVALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD G++ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVDKFDYRLGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L +V I K E +S+ + D +L Sbjct: 225 RIQRQLLQDLGRDPEPEEIGAEMDLPVNKVREILKLCQ----EPVSLETPIGEEDDSNLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S + H E + + L + L+ RE + R Sbjct: 281 DFIEDKDAMSPEQ-------HAANEML----------KEQLAEVLDTLSDREEEVLRLRF 323 Query: 247 RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L + TLE + FEV+RER+RQIEA+A +K+ Sbjct: 324 GLDDGKARTLEEVGQHFEVTRERIRQIEAKALRKL 358 >gi|193089925|gb|ACF15191.1| RpoS [Pseudomonas sp. DF41] Length = 335 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 144/272 (52%), Gaps = 17/272 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERG R +TY+ WWI+ ++ I+ +++ K L Sbjct: 126 IEEGNLGLIRAVEKFDPERGSRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 184 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 185 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 239 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++ + R R E+ T Sbjct: 240 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTDKQWEVVIRRFGLRGHESS-T 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 LE++ E ++RERVRQI+ K+++E ++K Sbjct: 294 LEDVGLEIGLTRERVRQIQVEGLKRLREILEK 325 >gi|160878392|ref|YP_001557360.1| RpoD family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160427058|gb|ABX40621.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium phytofermentans ISDg] Length = 371 Score = 108 bits (269), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 138/279 (49%), Gaps = 35/279 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + +Y+ EI P+L EE LAK+ E GD A L S+LRLVV IA Y G GL Sbjct: 101 VKQYLKEIGSYPLLSVAEEIELAKKI-EAGDNMAKQILAESNLRLVVSIAKRYVGRGLSF 159 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--- 132 +++ EGN+GL++AV KFD +G++ +TY+ WWI+ A+ I ++I ++ Sbjct: 160 LDLIQEGNLGLIKAVDKFDYNKGYKFSTYATWWIRQAITRSIADQSRTIRIPVHMSEVIN 219 Query: 133 ------KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDE 184 + L L R + NL E+V I L VS ++ IS++ + D Sbjct: 220 KTYRVSRNLLQELGREPSEQELADAMNLPIEKVREI---LKVS-ADPISLDTPIGEEDDS 275 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 L I D ++ D +++ + +++ + L RE+R+ Sbjct: 276 HLGDFIKD---------DTIMGPEDAASYAVLQ--------DQISKLLDTLTEREQRVLI 318 Query: 245 AR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R LQ+ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 319 LRFGLQDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLR 357 >gi|312796084|ref|YP_004029006.1| RNA polymerase sigma factor rpoS [Burkholderia rhizoxinica HKI 454] gi|312167859|emb|CBW74862.1| RNA polymerase sigma factor rpoS [Burkholderia rhizoxinica HKI 454] Length = 358 Score = 107 bits (268), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/279 (30%), Positives = 141/279 (50%), Gaps = 26/279 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 79 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFDARQMMIERNLRLVVSIAKGYLNRGVPL 137 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 138 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 195 Query: 136 FFNLRRLKGHLQ---------AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 + R K HL+ A + + + + K ++++++N A SL Sbjct: 196 LNQVLRAKRHLERNASAPASGADEHRDASVDDIAYLIGKTPEEVADILALNEHTA---SL 252 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEA 245 +A + D SS L+ D Q + E + LTR +S L + R + E Sbjct: 253 DAPLE-LDPASSLLD--LLSDEQSQSP---DAEAQHRELETLTRVWLSRLPDKHRHVIE- 305 Query: 246 RRLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RR N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 306 RRFGLNNIEPATLEELADEMGLTRERVRQIQQEALARLK 344 >gi|154502790|ref|ZP_02039850.1| hypothetical protein RUMGNA_00604 [Ruminococcus gnavus ATCC 29149] gi|153796673|gb|EDN79093.1| hypothetical protein RUMGNA_00604 [Ruminococcus gnavus ATCC 29149] Length = 371 Score = 107 bits (268), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 88/269 (32%), Positives = 138/269 (51%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L E LA+R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGKVPLLSADREIELAQRM-EEGDEDAKKELAEANLRLVVSIAKRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N + Sbjct: 164 IQEGNLGLIKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--K 221 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R+L LQ + L PE+ IAK+L++ V + SL I + Sbjct: 222 LIRVSRQL---LQELGREPL-PEE---IAKELDMPVERVREILKISQEPVSLETPI--GE 272 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D V E + + L + L RE+++ R + Sbjct: 273 EEDSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMNDGRA 329 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 330 RTLEEVGKEFDVTRERIRQIEAKALRKLR 358 >gi|291522137|emb|CBK80430.1| RNA polymerase, sigma 70 subunit, RpoD [Coprococcus catus GD/7] Length = 365 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/268 (29%), Positives = 141/268 (52%), Gaps = 15/268 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI IP+L +EE LAK +E G AA ++ ++LRLVV IA Y G G+ ++ Sbjct: 98 YLKEIGNIPLLTPEEEVELAKEMKE-GSKQAAKKMAEANLRLVVSIAKRYVGRGMQFLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++A++K+D +G++ +TY+ WWI+ A+ I ++I + Sbjct: 157 IQEGNVGLIKAIEKYDYTKGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMVET 211 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + +L +++T + V IA+ +++ + V + + SL + S ++ S Sbjct: 212 MNKLTKVQRSLTQELGREPSVEEIAENVHMDVNRVREILKLVQETVSLETPVGSEEE--S 269 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEARRLQENPV--TL 255 D++ DH L E + RS + LN RE+++ R ++ TL Sbjct: 270 HLADFIEDDH----TPLPSDEAAFGQLKDDIRSVLDKLNEREQKVLRMRFGLDDGKEHTL 325 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQES 283 E + E V+RER+RQIEA+A +K+++S Sbjct: 326 EEVGQELHVTRERIRQIEAKALRKLRQS 353 >gi|88812406|ref|ZP_01127656.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] gi|88790413|gb|EAR21530.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] Length = 356 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/282 (30%), Positives = 143/282 (50%), Gaps = 37/282 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A+R + GD SA R++ S+LRLVVKIA Y GL ++ Sbjct: 88 YLNEIGYSPLLTAKEEVYYARRA-QGGDESARKRMIESNLRLVVKIARRYMNRGLAFLDL 146 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K + Sbjct: 147 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-IKEINQY 205 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKK-------LNVSESEVISMNCRLAGDES---LNA 188 LR + +Q + E +A+ + + ++E V S++ + D L+A Sbjct: 206 LRVARQLVQRLDHEPTLEEIAIAMDRSIEDVRHMMGLNEG-VTSVDIPIGRDADRVLLDA 264 Query: 189 LINSSDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + + + + QD V H L ++ L ++R + E RR Sbjct: 265 IPDEVNPDPFAALQDEDVVSH-------------------LDAWLNELTEKQRAVVE-RR 304 Query: 248 L---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TLE + E V+RERVRQI+ A KK++E +++ Sbjct: 305 FGLHGHEKATLEEVGDEIGVTRERVRQIQIDALKKLREVMER 346 >gi|254556820|ref|YP_003063237.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1] gi|254045747|gb|ACT62540.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1] Length = 368 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 87/279 (31%), Positives = 139/279 (49%), Gaps = 41/279 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD SA L ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVDLLTADEEVALALRI-EQGDESAKQELAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 I D++++ D Y+ +G L +EE N+L + + R R Sbjct: 277 DFIE--DQDATSPADAAAYELLKEQLEGVLDTLTNREE-----NVLRLRFGLDDGRTR-- 327 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 328 -----------TLEEVGKVFGVTRERIRQIEAKALRKLR 355 >gi|256819198|ref|YP_003140477.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Capnocytophaga ochracea DSM 7271] gi|256580781|gb|ACU91916.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Capnocytophaga ochracea DSM 7271] Length = 287 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 78/294 (26%), Positives = 149/294 (50%), Gaps = 51/294 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ ++ EE LA+R + GD++A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGRVDLITADEEVELAQRIK-AGDVAALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 +++ L + + + + IA++L++S ++V ISM+ Sbjct: 136 NKINKMYAYLEQANERVPSAEE----------IARELDMSVNDVKESMKNAGRHISMDAP 185 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 L E N S L+ D + R + R++ L PRE Sbjct: 186 LVEGEDSNLYDVIRSNESPNPDKSLILD---------------SLRTEIERALETLTPRE 230 Query: 240 RRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 231 ADVV---RLYFGLSDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|327405377|ref|YP_004346215.1| RpoD subfamily RNA polymerase sigma-70 subunit [Fluviicola taffensis DSM 16823] gi|327320885|gb|AEA45377.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fluviicola taffensis DSM 16823] Length = 288 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 75/274 (27%), Positives = 149/274 (54%), Gaps = 20/274 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ +I K ++ +EE LA++ ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQDIGKEELITAEEEVELARKIKQ-GDQRALEKLTRANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAQKFDETRGFKFISYAVWWIRQSILQALAEQARIVRL--PLNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 +L ++ + +P +A+ L V E + I + ++G S++A ++SS+ Sbjct: 132 VGSLNKINKAFSRLEQEFERPPSAEELAEALEVPEDK-IKESLNVSGRHVSMDAPLSSSE 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-----Q 249 + D + L+ + +K + RS+S L +ER I RL Sbjct: 191 DGGTLMDVMANADSPKADHALMAESLQKE----IERSLSTLTDKEREII---RLFFGIGM 243 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +TLE + ++F ++RERVRQI+ +A ++++ + Sbjct: 244 NHGLTLEEIGAKFNLTRERVRQIKEKAIRRLRHT 277 >gi|33862253|ref|NP_893814.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33634471|emb|CAE20156.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 339 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 81/278 (29%), Positives = 151/278 (54%), Gaps = 26/278 (9%) Query: 13 EIGLSRYIHEIRK---IPMLEKQEEYV----LAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 EI L+ ++ ++K IP +E+ +++ + KR R+ R+++++LRLVV +A Sbjct: 70 EIELAHHVQNMKKMLEIPEIERSSKHLRLIKIGKRARD--------RMMSANLRLVVSVA 121 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S ++ Sbjct: 122 KKYQNQGLDLLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIR 181 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + ++K +RR+ L + +P + + +A + + + ++ + + A S Sbjct: 182 LPIHISEK--LSKMRRVSRELS--QKSGRQPTR-LEMATAMGIEQKDLEDLISQSAPCAS 236 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+A + S+ + L+ D +G+E +E +R ++ L ++ LN RE++I + Sbjct: 237 LDAHARGEEDRSTLGE--LIPDPNGEEP--MEGMDRTIQKEHLGTWLTQLNEREQKIMKL 292 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 293 RFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|227510293|ref|ZP_03940342.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus brevis subsp. gravesensis ATCC 27305] gi|227524444|ref|ZP_03954493.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus hilgardii ATCC 8290] gi|227088403|gb|EEI23715.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus hilgardii ATCC 8290] gi|227189945|gb|EEI70012.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus brevis subsp. gravesensis ATCC 27305] Length = 389 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 134/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 123 YLKEIGRVSLLSADEEINLAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 181 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 182 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 241 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 242 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 297 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 298 DFIEDQDATSPA-------DHAAYELL----------KEQLESVLDTLTDREENVLRLRF 340 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 341 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 376 >gi|227513300|ref|ZP_03943349.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus buchneri ATCC 11577] gi|227083501|gb|EEI18813.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus buchneri ATCC 11577] Length = 389 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 134/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 123 YLKEIGRVSLLSADEEINLAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 181 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 182 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 241 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 242 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 297 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 298 DFIEDQDATSP-------ADHAAYELL----------KEQLESVLDTLTDREENVLRLRF 340 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 341 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 376 >gi|167463432|ref|ZP_02328521.1| RNA polymerase sigma factor RpoD [Paenibacillus larvae subsp. larvae BRL-230010] Length = 375 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L ++E LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVPLLSAEDEVELAKRI-EQGDEEAKRRLTEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 168 IQEGNMGLIKAVEKFDHTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 225 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++ +S +V + SL I D S Sbjct: 226 LIRVSRQLLQELGREPTPEE---IAKEMELSTDKVREIMKIAQEPVSLETPIGEED--DS 280 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 281 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 337 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 338 EVGKVFGVTRERIRQIEAKALRKLR 362 >gi|78188365|ref|YP_378703.1| RNA polymerase sigma factor rpoD (sigma-A) [Chlorobium chlorochromatii CaD3] gi|78170564|gb|ABB27660.1| RNA polymerase sigma factor rpoD (Sigma-A) [Chlorobium chlorochromatii CaD3] Length = 299 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/299 (27%), Positives = 154/299 (51%), Gaps = 35/299 (11%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L ++E L K +E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTAEDEVRLTKAIKEGFDMPVDTPEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 + +V++ N+ + + L+ + + ++ ++ + +S+ ++ Sbjct: 130 LAEQSRIVRL--PLNRVGTLNKISKAYSQLEQEYERDPNTRELASLLE----MDSQDVAD 183 Query: 177 NCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT----RS 231 ++AG S++A D N + D L D + L R+ LT RS Sbjct: 184 TLKIAGRHVSVDAPFAQGDDN--RLLDVLQNDGHMPDYGLT--------RDSLTLEVERS 233 Query: 232 MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +SVL PRE + + +NP+TLE + +F ++RERVRQI+ +A +++++S +V Sbjct: 234 LSVLAPREADVIRSYFGIGMDNPLTLEEIGEKFRLTRERVRQIKEKAIRRLRQSAYSKV 292 >gi|15927141|ref|NP_374674.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus N315] gi|20178083|sp|Q99TT5|RPOD_STAAN RecName: Full=RNA polymerase sigma factor rpoD gi|13701359|dbj|BAB42653.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus N315] Length = 368 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVNLLSAQEEIELAKRI-EQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V + K E +S+ + D L Sbjct: 221 RVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREVLK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 277 DFIEDQEAQSPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|227529171|ref|ZP_03959220.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus vaginalis ATCC 49540] gi|227350896|gb|EEJ41187.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus vaginalis ATCC 49540] Length = 380 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 133/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVNLLSADEEVALALRI-EQGDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD RGF+ +TY+ WWI+ A+ I ++I T N Sbjct: 173 IQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 232 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 233 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNI---LKIAQ-EPVSLETPIGEEDDSHLG 288 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 289 DFIEDQDATSPA-------DHAAYEMM----------KKQLENVLDTLTDREENVLRLRF 331 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 332 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 367 >gi|256532384|gb|ACU81350.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532396|gb|ACU81356.1| RpoH [Rhizobium leguminosarum bv. trifolii] Length = 148 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 68/152 (44%), Positives = 94/152 (61%), Gaps = 9/152 (5%) Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L A D Sbjct: 1 FEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL-AKGDT 59 Query: 153 NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDH-- 208 L + + IA L VS S+V +M+ RL+G D SL A S D S++ D+LV D Sbjct: 60 QLTLQSIHQEIAAALGVSLSDVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDDPL 119 Query: 209 -DGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 D Q +I+ E RR L ++ LN RE Sbjct: 120 PDEQVSNMIDGER---RRVWLASALKHLNERE 148 >gi|163790450|ref|ZP_02184881.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. AT7] gi|159874354|gb|EDP68427.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. AT7] Length = 373 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 136/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLTAAEEVELAIKI-EEGDQEARQRLAEANLRLVVSIAKRYVGRGMQFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L E+V I L +++ V SL Sbjct: 226 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQEPV-----------SLETP 271 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D+ + DHD E + + L + L RE + R Sbjct: 272 IGEED--DSHLGDF-IEDHDATSPA--ENAAYELLKEQLEDVLDTLTDREENVLRLRFGL 326 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 DDGRNRTLEDVGKVFGVTRERIRQIEAKALRKLR 360 >gi|260063687|ref|YP_003196767.1| putative sigma factor A [Robiginitalea biformata HTCC2501] gi|88783132|gb|EAR14305.1| putative sigma factor A [Robiginitalea biformata HTCC2501] Length = 287 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 81/288 (28%), Positives = 156/288 (54%), Gaps = 39/288 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIK-AGDQAALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 + F L + + + + IAK+L+++ E + + + +G S++A Sbjct: 136 NKINKTFAFLEQAHERVPSAEE----------IAKELDMT-VEDVKQSLKNSGRHVSMDA 184 Query: 189 -LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LI+ D N +YD G+ ++ ++ R + R++ L PRE + Sbjct: 185 PLIDGEDSN--------LYDVLRSGESPNPDKELLHESLRTEIERALETLTPREADVI-- 234 Query: 246 RRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 -RLYFGLAGQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|81428494|ref|YP_395494.1| RNA polymerase sigma factor RpoD [Lactobacillus sakei subsp. sakei 23K] gi|78610136|emb|CAI55185.1| DNA-directed RNA polymerase sigma factor, sigma A (Primary sigma factor) [Lactobacillus sakei subsp. sakei 23K] Length = 369 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 135/275 (49%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L Q+E LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVSLLNAQQEVDLALRI-EQGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 162 IQEGNMGLMKAVEKFDHRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 221 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 222 RIQRQLLQDLGREPTPEEIGAEMDMNTDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 277 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S + +H E + + L + L RE + R Sbjct: 278 DFIEDQDATSPE-------EHASYELL----------KEQLESVLDTLTDREENVLRLRF 320 Query: 247 RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L + TLE + F V+RER+RQIEA+A +K+ Sbjct: 321 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 355 >gi|308804840|ref|XP_003079732.1| SigA (ISS) [Ostreococcus tauri] gi|116058189|emb|CAL53378.1| SigA (ISS) [Ostreococcus tauri] Length = 525 Score = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 76/271 (28%), Positives = 138/271 (50%), Gaps = 15/271 (5%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 V A R R H +A + ++ ++LRLVV IA Y + +++ EG +GL++ +KFD Sbjct: 264 VSALRQRLHDGKAAKNEMIQANLRLVVSIAKKYANTNMSFQDLIQEGCVGLIRGAEKFDF 323 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +RG++ +TY+ WWI+ A+ I +++ LF + R+ Q N + Sbjct: 324 QRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPV-----HLFEIISRISKMEQKFALYNGR 378 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 P + IA ++ +S ++ + SL + +K + + + +G E+V Sbjct: 379 PPTLEEIASEMEMSVEKITQIKKAAQAPVSLAQTMGGENKGRTIEDTLIDANAEGPEKVS 438 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 + +++ N+L + LNPRER + R L + V TLE + + F V+RER+RQIE Sbjct: 439 GKSLLKEDLENVL----NTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIE 494 Query: 274 ARAFKKVQESIQKQVE----LSSSPPLLQKP 300 A+A +K+++ + QV + +PP +P Sbjct: 495 AKALRKLKQPSRNQVLQEYFVDDAPPNTHRP 525 >gi|291546785|emb|CBL19893.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus sp. SR1/5] Length = 375 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 84/274 (30%), Positives = 141/274 (51%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L EE LAKR E GD +A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGKVSLLSADEEIELAKRM-EKGDEAAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 168 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + ++ ++V I L +S+ E +S+ + +E + Sbjct: 228 RVSRQLLQELGREPTPEEIAEEMDMPVDRVREI---LKISQ-EPVSLETPIGEEEDSHLG 283 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 D N D + L++++ L +S L RE+++ R Sbjct: 284 DFIQDDNVPVPADAAAF-------TLLKEQ--------LVEVLSTLTDREQKVLRLRFGL 328 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 329 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 362 >gi|110596913|ref|ZP_01385203.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Chlorobium ferrooxidans DSM 13031] gi|110341600|gb|EAT60060.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Chlorobium ferrooxidans DSM 13031] Length = 299 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 88/304 (28%), Positives = 159/304 (52%), Gaps = 45/304 (14%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L ++E L K ++ D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTAEDEVKLTKAIKDGFDMPVDTTEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N + +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EFERDPNTRE-----LATLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-- 227 S+ ++ ++AG S++A D N + D L D + L NR ++ Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDN--RLLDVLQNDGHLPDYGL-------NRDSLTL 228 Query: 228 -LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + RS+SVL PRE + + +NP+TLE + +F+++RERVRQI+ +A +++++S Sbjct: 229 EVERSLSVLAPREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSA 288 Query: 285 QKQV 288 +V Sbjct: 289 YSKV 292 >gi|313897367|ref|ZP_07830910.1| RNA polymerase sigma factor RpoD [Clostridium sp. HGF2] gi|312957737|gb|EFR39362.1| RNA polymerase sigma factor RpoD [Clostridium sp. HGF2] Length = 398 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/272 (30%), Positives = 139/272 (51%), Gaps = 26/272 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ +EE +A+R + GD A +L++++LRLVV IA Y G G+ ++ Sbjct: 129 YLKEIGRVELLDPKEEPEIARRI-QAGDEEAKKKLISANLRLVVSIAKKYVGRGMLFLDL 187 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 188 IQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK-- 245 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R++ L + D P AK N+S +V + SL I D Sbjct: 246 ----LTRIQRQL--VQDLGRDPSAEEIAAKMENISPEKVREIQKIALEPVSLETPIGEED 299 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQ 249 S D++ +++ + +E N ++ + + L RE ++ R Sbjct: 300 --DSHLGDFI------EDKEALSPDEYANNQLLKDEINTVLQGLTEREEKVLRLRFGLYD 351 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 352 GRTRTLEEVGKEFNVTRERIRQIEAKALRKLK 383 >gi|296532040|ref|ZP_06894819.1| DNA-directed RNA polymerase sigma subunit RpoD [Roseomonas cervicalis ATCC 49957] gi|296267655|gb|EFH13501.1| DNA-directed RNA polymerase sigma subunit RpoD [Roseomonas cervicalis ATCC 49957] Length = 640 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 81/238 (34%), Positives = 119/238 (50%), Gaps = 14/238 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L ++LRLVV IA YR GL +++ EGNIGLM+AV KFD RGF+ ATY+ WW Sbjct: 403 AKEELTRANLRLVVHIAKRYRNRGLMFGDLIQEGNIGLMRAVDKFDWRRGFKFATYATWW 462 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + + R+ PE+ +A +L + Sbjct: 463 VRQAITRSLADQARTIRV--PVHMTETVGKVARMSRRFAQKAGREPTPEE---LAGELGM 517 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 S +V ++ RLA + SL I D + D++ D + + R R+ Sbjct: 518 SVDKVRAVQ-RLAREPVSLENPIGEDD--DGRLGDFI---EDENAVMPFDAASRSAMRDA 571 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +S L PRE RI R EN TLE + F V+RER+RQIEA+A KK+Q S Sbjct: 572 TMRILSDLTPREERILRMRFGIGGENDHTLEEVGKTFNVTRERIRQIEAKALKKLQVS 629 >gi|328957491|ref|YP_004374877.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. 17-4] gi|328673815|gb|AEB29861.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. 17-4] Length = 373 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 136/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLTAAEEVELAIKI-EEGDQEARQRLAEANLRLVVSIAKRYVGRGMQFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L E+V I L +++ V SL Sbjct: 226 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQEPV-----------SLETP 271 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D+ + DHD E + + L + L RE + R Sbjct: 272 IGEED--DSHLGDF-IEDHDATSPA--ENAAYELLKEQLEDVLDTLTDREENVLRLRFGL 326 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE++ F V+RER+RQIEA+A +K++ Sbjct: 327 DDGRNRTLEDVGKVFGVTRERIRQIEAKALRKLR 360 >gi|325478784|gb|EGC81895.1| RNA polymerase sigma factor RpoD [Anaerococcus prevotii ACS-065-V-Col13] Length = 604 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 125/248 (50%), Gaps = 36/248 (14%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +L ++LRLVV IA Y G G+ +++ EGN+GLM+AV K+D RGF+ +TY+ W Sbjct: 367 AAKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATW 426 Query: 108 WIKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ A+ I ++I T N Q++L +L R + + ++ E+ Sbjct: 427 WIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEK 486 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V I K +S+ V SL I D S D++ ++ I+ Sbjct: 487 VQEIRK---ISQEPV-----------SLETPIGEED--DSHLGDFI------EDDTAIDP 524 Query: 219 EERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 E N R L +S L RE+R+ + R + P TLE + EF+V+RER+RQIE Sbjct: 525 GEAANYTMLREQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIE 584 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 585 AKALRKLK 592 >gi|118444745|ref|YP_878546.1| RNA polymerase sigma factor RpoD [Clostridium novyi NT] gi|118135201|gb|ABK62245.1| RNA polymerase sigma-70 factor [Clostridium novyi NT] Length = 368 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA+R E G++ A +L ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGKVPLLTPDEEIDLAQRI-EEGEMYAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE++ I + E++ + E ++ ++ S Sbjct: 219 LIRVSRQLLQELGREPQPEEIAKIMEMPVDKVREIMKI-----AQEPVSLETPIGEEEDS 273 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 274 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 330 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 331 EVGKEFNVTRERIRQIEAKALRKLR 355 >gi|403013|emb|CAA50594.1| major sigma factor [Lactococcus lactis] Length = 340 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 141/271 (52%), Gaps = 22/271 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI + P++ EE LA+ G+ + A L ++LRLVV IA Y G G+ Sbjct: 72 YLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFL 131 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 132 DLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 189 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 L R++ +L + PE+ I K+L+++ +V + ++A + SL I D Sbjct: 190 NKLIRVQRNLLQELGRDPSPEE---IGKELHMAPDKVREV-LKIAQEPVSLETPIGEED- 244 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR-RLQEN 251 S D++ ++ V+ + NR R L M L RE + R L + Sbjct: 245 -DSHLGDFI------EDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDG 297 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE++ +F+V+RER+RQIEA+A KK++ Sbjct: 298 RMHTLEDVGKQFKVTRERIRQIEAKAIKKLR 328 >gi|116511352|ref|YP_808568.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. cremoris SK11] gi|125623388|ref|YP_001031871.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. cremoris MG1363] gi|116107006|gb|ABJ72146.1| RNA polymerase, sigma 70 subunit, RpoD [Lactococcus lactis subsp. cremoris SK11] gi|124492196|emb|CAL97125.1| RNA polymerase sigma factor rpoD (Sigma-42) [Lactococcus lactis subsp. cremoris MG1363] gi|300070136|gb|ADJ59536.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. cremoris NZ9000] Length = 447 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 141/271 (52%), Gaps = 22/271 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI + P++ EE LA+ G+ + A L ++LRLVV IA Y G G+ Sbjct: 179 YLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFL 238 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 239 DLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 296 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 L R++ +L + PE+ I K+L+++ +V + ++A + SL I D Sbjct: 297 NKLIRVQRNLLQELGRDPSPEE---IGKELHMAPDKVREV-LKIAQEPVSLETPIGEED- 351 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR-RLQEN 251 S D++ ++ V+ + NR R L M L RE + R L + Sbjct: 352 -DSHLGDFI------EDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDG 404 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE++ +F+V+RER+RQIEA+A KK++ Sbjct: 405 RMHTLEDVGKQFKVTRERIRQIEAKAIKKLR 435 >gi|297570260|ref|YP_003691604.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] gi|296926175|gb|ADH86985.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] Length = 555 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/257 (31%), Positives = 127/257 (49%), Gaps = 42/257 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +RLV S+LRLVV +A Y G GL + ++V EGNIGLM+AV+KF+ RG++ +TY+ WW Sbjct: 316 AKNRLVQSNLRLVVSVAKKYAGRGLQLLDLVQEGNIGLMKAVEKFEYRRGYKFSTYATWW 375 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKG-------HLQAITDNNLKPE 157 I+ A+ I ++I T N R LKG H + T + Sbjct: 376 IRQAVTRAIADQGRTIRIPVHMIDTIN--------RMLKGAKEYQRQHGREPTPEEMAEH 427 Query: 158 QVVAIAKKLNVSE--SEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQ 213 V IAK ++ + E +S++ + E L+ I +D S + +YD Sbjct: 428 LGVDIAKVKSILKIAKEPLSLDTPVGSGEDSFLSDFIEDADSTSP--DEATIYD------ 479 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQ 271 + ++ L R + L PRE + R + +TLE + F V+RER+RQ Sbjct: 480 ---------SLQDNLARVLKTLTPREEMVLRLRFGIDTATDLTLEEVGENFSVTRERIRQ 530 Query: 272 IEARAFKKVQESIQKQV 288 IEA+A KK++ +K + Sbjct: 531 IEAKALKKLKHPTRKSI 547 >gi|293400669|ref|ZP_06644814.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305695|gb|EFE46939.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 396 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/268 (29%), Positives = 137/268 (51%), Gaps = 18/268 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ +EE +A+R + GD A +L++++LRLVV IA Y G G+ ++ Sbjct: 127 YLKEIGRVELLDPKEEPEIARRI-QAGDEEAKKKLISANLRLVVSIAKKYVGRGMLFLDL 185 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 186 IQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 243 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + D P AK N+S +V + SL I D S Sbjct: 244 LTRIQRQL--VQDLGRDPSAEEIAAKMENISPEKVREIQKIALEPVSLETPIGEED--DS 299 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPV 253 D++ +++ + +E N ++ + + L RE ++ R Sbjct: 300 HLGDFI------EDKEALSPDEYANNQLLKDEINTVLQGLTEREEKVLRLRFGLYDGRTR 353 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 354 TLEEVGKEFNVTRERIRQIEAKALRKLK 381 >gi|189345950|ref|YP_001942479.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium limicola DSM 245] gi|189340097|gb|ACD89500.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium limicola DSM 245] Length = 299 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 87/305 (28%), Positives = 156/305 (51%), Gaps = 47/305 (15%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L +E L +E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTADDEVKLTMAIKEGYDMPVDTVEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N + +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EFERDPNTRE-----LANLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKN---SSQWQDWLVYDHD-GQEQVLIEKEERKNRR 225 S+ ++ ++AG S++A D N D + DH ++ + +E E Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHLPDHGLNKDSLTLEVE------ 231 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RS+SVL PRE + + +NP+TLE + +F+++RERVRQI+ +A +++++S Sbjct: 232 ----RSLSVLAPREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQS 287 Query: 284 IQKQV 288 +V Sbjct: 288 AYSKV 292 >gi|325280261|ref|YP_004252803.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] gi|324312070|gb|ADY32623.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] Length = 286 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 81/273 (29%), Positives = 150/273 (54%), Gaps = 20/273 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKEDLITVEEEVELAQRIRK-GDQKALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A L++ +E ++ R++G S++A + Sbjct: 135 LNKINKAFSRFEQENERRPSPEE---LADSLDLP-AEKVADTLRVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHDG-QEQVLIEKEERKNRRNMLTRSMSVLNPRER---RIFEARRLQE 250 NS D LV D ++ LI ++ + R++S L RER ++F QE Sbjct: 191 DNS--LLDVLVNDDSPIADRTLI----NESLSTEVERALSTLTERERDIIKLFFGINTQE 244 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A ++++ S Sbjct: 245 --MTLEEIGEKFGLTRERVRQIKEKAIRRLRHS 275 >gi|33867026|ref|NP_898585.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639627|emb|CAE09011.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8102] Length = 328 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 84/276 (30%), Positives = 145/276 (52%), Gaps = 22/276 (7%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRG 70 EI L+ ++ E++++ L ++E L R+R + A R++ ++LRLVV +A Y+ Sbjct: 59 EIELAHHVQEMKQLQELPEEE---LTSRHRHKIRMGKRARDRMMAANLRLVVSVAKKYQN 115 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S +++ Sbjct: 116 QGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHI 175 Query: 131 NQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 ++K +RR+ H N L+ +A + + E+ + + A SL+ Sbjct: 176 SEK--LSKMRRISRELSHRFGRQPNRLE------LASAMGIEPRELEDLISQSAPCASLD 227 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 A + S+ + L+ D +G+E +E +R ++ L +S LN RE++I R Sbjct: 228 AHARGEEDRSTLGE--LIPDPNGEEP--MEGMDRSIQKEHLGGWLSQLNEREQKILRLRF 283 Query: 247 -RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 284 GLGGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 319 >gi|307718430|ref|YP_003873962.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] gi|306532155|gb|ADN01689.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] Length = 281 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/268 (31%), Positives = 135/268 (50%), Gaps = 20/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI++ +L +EE L KR R GD A RL+T++LRLVVKIA+ + +P+ ++ Sbjct: 18 YLREIKRYKLLSPEEERELGKRIR-RGDPEARERLITANLRLVVKIALQFSVPDIPLLDL 76 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL++A +KFD R R +TY+ WWI+ A+ ++ +++ N+K Sbjct: 77 IQEGNIGLIRAAEKFDYRRNIRFSTYAAWWIRQAIHRALMNKRRPIRL---PNRKEDV-- 131 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR+++ Q + ++ IA+ L + EV I++ + SL IN Sbjct: 132 LRKIEKAKQLLEQRLMREPSTEEIAELLGMETEEVEELINLGQEVV---SLETQIND--- 185 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP-VT 254 S D +E+V + R + LT L+ RE + R P T Sbjct: 186 GSMDLHDVCPGGASPEEEVC----RKACREDTLTLIQRTLDSRESEVVLHRYALTGPRYT 241 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQE 282 L+ LS +S E VRQIE RA +K++E Sbjct: 242 LKTLSEHLGISPETVRQIEIRALRKLRE 269 >gi|57234646|ref|YP_181295.1| RNA polymerase sigma factor RpoD [Dehalococcoides ethenogenes 195] gi|57225094|gb|AAW40151.1| RNA polymerase sigma factor RpoD [Dehalococcoides ethenogenes 195] Length = 520 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/243 (32%), Positives = 127/243 (52%), Gaps = 30/243 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A + G G+P+ +++ EGNIGL++AV+KFD RGF+ +TY+ WW Sbjct: 283 AERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFSTYATWW 342 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ ++L L R + + +L PE+V Sbjct: 343 IRQAITRAIADQARTIRIPVHMVETINKLLSISRQLSQKLGREPTPDEIAVEMDLPPEKV 402 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK VS+ V S+ + +E + D+N+ D Q+L E+ Sbjct: 403 REIAK---VSQLPV-SLESPIGEEEDSHLGDFIEDQNALAPPDA------ASRQLLKEQ- 451 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + L PRERR+ + R E+ TLE + EF V+RER+RQIEA+A Sbjct: 452 --------IDTVLGSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKAL 503 Query: 278 KKV 280 +K+ Sbjct: 504 RKL 506 >gi|18202317|sp|P58290|RPOD_LACLC RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 Length = 364 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 141/271 (52%), Gaps = 22/271 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI + P++ EE LA+ G+ + A L ++LRLVV IA Y G G+ Sbjct: 96 YLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFL 155 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 156 DLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 213 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 L R++ +L + PE+ I K+L+++ +V + ++A + SL I D Sbjct: 214 NKLIRVQRNLLQELGRDPSPEE---IGKELHMAPDKVREV-LKIAQEPVSLETPIGEED- 268 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR-RLQEN 251 S D++ ++ V+ + NR R L M L RE + R L + Sbjct: 269 -DSHLGDFI------EDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDG 321 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE++ +F+V+RER+RQIEA+A KK++ Sbjct: 322 RMHTLEDVGKQFKVTRERIRQIEAKAIKKLR 352 >gi|149921032|ref|ZP_01909492.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149818164|gb|EDM77620.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 547 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 84/259 (32%), Positives = 130/259 (50%), Gaps = 38/259 (14%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A+R RE +A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +R Sbjct: 302 ARRERE----AAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQR 357 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQA 148 G++ +TY+ WWI+ A+ I +++ ++L R H + Sbjct: 358 GYKFSTYATWWIRQAITRAISDQARTIRVPVHMIESINKLIRTTRQLVQEFGREPTHQEI 417 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVY 206 N+ E+V +I L +++ E IS+ L GD SL LI DKN+ +V Sbjct: 418 AEKMNMPVEKVRSI---LRIAK-EPISLETPLGEDGDSSLGDLIE--DKNALDPGSGVVE 471 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEV 264 H G E R+++ L PRE +I R + + TLE + +F V Sbjct: 472 RHLGDET---------------RRALASLTPREEKILRLRFGIGEASDHTLEEVGRDFSV 516 Query: 265 SRERVRQIEARAFKKVQES 283 +RER+RQIEA+A K++++ Sbjct: 517 TRERIRQIEAKALSKLRKA 535 >gi|168036108|ref|XP_001770550.1| plastid sigma factor SIG1 [Physcomitrella patens subsp. patens] gi|14669828|dbj|BAB62006.1| PpSIG1 [Physcomitrella patens] gi|14669830|dbj|BAB62007.1| PpSIG1 [Physcomitrella patens] gi|162678258|gb|EDQ64719.1| plastid sigma factor SIG1 [Physcomitrella patens subsp. patens] Length = 677 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 95/323 (29%), Positives = 154/323 (47%), Gaps = 75/323 (23%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR--------------------------EHGDLS- 48 L+ Y+ EI KI +L KQEE L+K+ R H +LS Sbjct: 357 LTTYLREITKINLLTKQEEVFLSKKLRIGLNLLEERKKLAAELGYVPSNEEWAPHMNLSV 416 Query: 49 ------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 A ++V ++LRLVV +A Y +GL +++++ EG+IGL++ V+KFD Sbjct: 417 GDLVRKLGEAEWARDKMVMANLRLVVSVAKQYHSFGLEMADLIQEGSIGLLRGVEKFDHT 476 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL---------- 146 RG++L+TY WWI+ + I V++ + +R+ K L Sbjct: 477 RGYKLSTYVHWWIRQGVTRAIADHSRTVRLPVHVHDT--LGRIRKAKSTLLSEGCTASVQ 534 Query: 147 ---QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD-ESLNALINSSDKNSSQWQD 202 +A K + + + KKL VS + I N +GD E+L++L+ D + Q Sbjct: 535 EISEATNLTGTKIKNTLQVTKKL-VSLDKEIGRNTLQSGDGETLHSLVADRDIEN---QP 590 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI----FEARRLQENPVTLENL 258 W + E++L++ + K +LT S L PRER I + R + ++LE++ Sbjct: 591 WTIV-----ERMLMKDDVDK----LLT---SQLGPRERDIVRLHYGVGREDGSVMSLESI 638 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 S + VSRERVRQ+E A +K+Q Sbjct: 639 SYRYGVSRERVRQLETAAMRKLQ 661 >gi|19862496|sp|Q04506|RPOD_LACLA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 Length = 386 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 141/271 (52%), Gaps = 22/271 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI + P++ EE LA+ G+ + A L ++LRLVV IA Y G G+ Sbjct: 118 YLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFL 177 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 178 DLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 235 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 L R++ +L + PE+ I K+L+++ +V + ++A + SL I D Sbjct: 236 NKLIRVQRNLLQELGRDPSPEE---IGKELHMAPDKVREV-LKIAQEPVSLETPIGEED- 290 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR-RLQEN 251 S D++ ++ V+ + NR R L M L RE + R L + Sbjct: 291 -DSHLGDFI------EDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDG 343 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE++ +F+V+RER+RQIEA+A KK++ Sbjct: 344 RMHTLEDVGKQFKVTRERIRQIEAKAIKKLR 374 >gi|15672535|ref|NP_266709.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. lactis Il1403] gi|281491019|ref|YP_003352999.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. lactis KF147] gi|12723439|gb|AAK04651.1|AE006289_2 major RNA polymerase sigma factor [Lactococcus lactis subsp. lactis Il1403] gi|281374777|gb|ADA64297.1| RNA polymerase sigma factor RpoD (Sigma-42) [Lactococcus lactis subsp. lactis KF147] gi|326406054|gb|ADZ63125.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. lactis CV56] Length = 447 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 141/271 (52%), Gaps = 22/271 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI + P++ EE LA+ G+ + A L ++LRLVV IA Y G G+ Sbjct: 179 YLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFL 238 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 239 DLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 296 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 L R++ +L + PE+ I K+L+++ +V + ++A + SL I D Sbjct: 297 NKLIRVQRNLLQELGRDPSPEE---IGKELHMAPDKVREV-LKIAQEPVSLETPIGEED- 351 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR-RLQEN 251 S D++ ++ V+ + NR R L M L RE + R L + Sbjct: 352 -DSHLGDFI------EDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDG 404 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE++ +F+V+RER+RQIEA+A KK++ Sbjct: 405 RMHTLEDVGKQFKVTRERIRQIEAKAIKKLR 435 >gi|281420436|ref|ZP_06251435.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281405493|gb|EFB36173.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 291 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/283 (28%), Positives = 143/283 (50%), Gaps = 33/283 (11%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA++ R+ G A +LV ++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGREPMVSIDEEIELAQKIRKGGREGERAKEKLVKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAG 182 L ++ + N + V +A+ + ES++ +S++ Sbjct: 135 ---VGALSKISAEISKFEQENQRKPSVAELAQITKMEESKIDQTIKADNHHMSIDAPFGS 191 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM-SVLNPRERR 241 D+ NA++ D + D + ++ E + L R + SVL RER+ Sbjct: 192 DDDDNAMV-----------DVMASGDDSRTDKGVDFESMASE---LDRVLNSVLKDRERK 237 Query: 242 IF-EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 I + + LE + SEF ++RERVRQI ++ K+++S Sbjct: 238 ILCYCYGIGCHEKGLEEIGSEFNLTRERVRQIREKSIIKLRDS 280 >gi|254481825|ref|ZP_05095068.1| RNA polymerase sigma factor RpoS [marine gamma proteobacterium HTCC2148] gi|214037954|gb|EEB78618.1| RNA polymerase sigma factor RpoS [marine gamma proteobacterium HTCC2148] Length = 353 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/278 (29%), Positives = 142/278 (51%), Gaps = 27/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L EE A R GD S R++ S+LRLVVKI+ Y GL + ++ Sbjct: 85 YLNEIGYSPLLTADEEKYYA-RLAIKGDESGRKRMIESNLRLVVKISRRYINRGLTLLDL 143 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 144 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERGIMNQTRTIRLPIHV-VKELNVY 202 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------GDESLNALINS 192 LR + Q + D+ E++ + + ++ +N R+ G +S A++++ Sbjct: 203 LRAARELTQKL-DHEPTAEEIADMLDRPAADVKRMLGLNERVTSMDTPVGPDSDKAVVDT 261 Query: 193 SDKNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 L+ D D ++ + L E E++ R ++ R + R +E+ Sbjct: 262 IADTHESDPSQLLQDSDIKDSIGSWLDELSEKQ--REVVARRFGL------RGYESS--- 310 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + E ++RERVRQI+ A K+++ ++ Q Sbjct: 311 ----TLEEVGREIGLTRERVRQIQVEALKRLRGIMETQ 344 >gi|198282770|ref|YP_002219091.1| RpoD family RNA polymerase sigma-70 subunit [Acidithiobacillus ferrooxidans ATCC 53993] gi|218666687|ref|YP_002424966.1| RNA polymerase sigma-38 factor [Acidithiobacillus ferrooxidans ATCC 23270] gi|198247291|gb|ACH82884.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus ferrooxidans ATCC 53993] gi|218518900|gb|ACK79486.1| RNA polymerase sigma-38 factor [Acidithiobacillus ferrooxidans ATCC 23270] Length = 317 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 143/273 (52%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L ++E L R + GD +A ++ S+LRLVVK+A Y GLP+ ++ Sbjct: 49 YLREIGHRPLLTAEQEVTLG-RMVQTGDQAARCTMIESNLRLVVKVARHYLNRGLPLLDL 107 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 108 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQNIERALMNQTRTIRLPIHV-MKELSAV 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + + PE+V A+ L+ S V +C L D + +L K S Sbjct: 167 LRATRCLAQTLQ-RDPTPEEV---AEALDRSVDAV--RDC-LEMDGRVTSLDMPYGKGSD 219 Query: 199 QWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVT 254 + LV D + G EQ L E +N + + ++ + + R + R + + T Sbjct: 220 RSLADLVADTNAPGVEQRL----ENQNLSRQVHQWIATMTEKHRLVLLWRFGLDGTDGAT 275 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE + S ++RERVRQI+ A ++ I+ + Sbjct: 276 LEEVGSRLGITRERVRQIQVEALLVLRHRIEAE 308 >gi|253576089|ref|ZP_04853421.1| RNA polymerase sigma-subunit [Paenibacillus sp. oral taxon 786 str. D14] gi|251844432|gb|EES72448.1| RNA polymerase sigma-subunit [Paenibacillus sp. oral taxon 786 str. D14] Length = 374 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E+GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVPLLSADDEMELAKRI-ENGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 167 IQEGNMGLIKAVEKFDHKKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 224 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA ++++S +V + SL I D S Sbjct: 225 LIRVSRQLLQELGREPAPEE---IAAEMDLSVEKVREIMKIAQEPVSLETPIGEED--DS 279 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 280 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 336 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 337 EVGKVFGVTRERIRQIEAKALRKLR 361 >gi|317473637|ref|ZP_07932926.1| RNA polymerase sigma factor RpoD [Anaerostipes sp. 3_2_56FAA] gi|316898927|gb|EFV20952.1| RNA polymerase sigma factor RpoD [Anaerostipes sp. 3_2_56FAA] Length = 364 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 84/269 (31%), Positives = 139/269 (51%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA+R E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 98 YLKEIGKVPLLSADEEIRLAQRM-EEGDEEAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 157 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 215 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +R + LQ + L PE+ IA+++++ V + SL I + Sbjct: 216 ----IRVSRQLLQELGREPL-PEE---IAEEMDIPVDRVREILKISQEPVSLETPIG--E 265 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D V + + L+ + L RE+++ R ++ Sbjct: 266 EEDSHLGDFI---QDDNVPVPADAAAFTLLKEQLSEVLGTLTEREQKVLRLRFGLDDSRA 322 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 323 RTLEEVGKEFNVTRERIRQIEAKALRKLR 351 >gi|216733|dbj|BAA01038.1| RNA polymerase sigma factor [Lactococcus lactis] Length = 340 Score = 107 bits (266), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 141/271 (52%), Gaps = 22/271 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI + P++ EE LA+ G+ + A L ++LRLVV IA Y G G+ Sbjct: 72 YLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFL 131 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 132 DLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 189 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 L R++ +L + PE+ I K+L+++ +V + ++A + SL I D Sbjct: 190 NKLIRVQRNLLQELGRDPSPEE---IGKELHMAPDKVREV-LKIAQEPVSLETPIGEED- 244 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR-RLQEN 251 S D++ ++ V+ + NR R L M L RE + R L + Sbjct: 245 -DSHLGDFI------EDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDG 297 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE++ +F+V+RER+RQIEA+A KK++ Sbjct: 298 RMHTLEDVGKQFKVTRERIRQIEAKAIKKLR 328 >gi|160915039|ref|ZP_02077252.1| hypothetical protein EUBDOL_01047 [Eubacterium dolichum DSM 3991] gi|158432838|gb|EDP11127.1| hypothetical protein EUBDOL_01047 [Eubacterium dolichum DSM 3991] Length = 398 Score = 107 bits (266), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/268 (29%), Positives = 137/268 (51%), Gaps = 18/268 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ +EE +A+R + GD A +L++++LRLVV IA Y G G+ ++ Sbjct: 129 YLKEIGRVELLDPKEEPEIARRI-QAGDEEAKKKLISANLRLVVSIAKKYVGRGMLFLDL 187 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 188 IQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 245 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + D P AK N+S +V + SL I D S Sbjct: 246 LTRIQRQL--VQDLGRDPTAEEIAAKMENISPEKVREIQKIALEPVSLETPIGEED--DS 301 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPV 253 D++ +++ + +E N ++ + + L RE ++ R Sbjct: 302 HLGDFI------EDKEALSPDEYANNQLLKDEINTVLQGLTEREEKVLRLRFGLYDGRTR 355 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 356 TLEEVGKEFNVTRERIRQIEAKALRKLK 383 >gi|194337394|ref|YP_002019188.1| RNA polymerase, sigma 32 subunit, RpoH [Pelodictyon phaeoclathratiforme BU-1] gi|194309871|gb|ACF44571.1| RNA polymerase, sigma 32 subunit, RpoH [Pelodictyon phaeoclathratiforme BU-1] Length = 299 Score = 107 bits (266), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 88/304 (28%), Positives = 158/304 (51%), Gaps = 45/304 (14%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L ++E L K +E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTAEDEVKLTKAIKEGFDMPVDTTEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N + +A L + + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EFERDPNTRE-----LATLLEM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-- 227 S+ ++ ++AG S++A D N + D L D + L NR ++ Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDN--RLLDVLQNDGHLPDYGL-------NRDSLTL 228 Query: 228 -LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + RS+SVL PRE + ++ +NP+TLE + +F ++RERVRQI+ +A +++++S Sbjct: 229 EVERSLSVLAPREADVIKSYFGIGMDNPLTLEEIGEKFRLTRERVRQIKEKAIRRLRQSA 288 Query: 285 QKQV 288 ++ Sbjct: 289 YSKI 292 >gi|258648463|ref|ZP_05735932.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] gi|260851219|gb|EEX71088.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] Length = 283 Score = 107 bits (266), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 149/279 (53%), Gaps = 44/279 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L RY+ EI + P + +EE L +R + +GD +A RLV ++LR VV +A Y+G G+ + Sbjct: 19 LERYLSEISREPRITVEEEVELGRRAK-NGDEAAVERLVRANLRFVVSVAKQYQGQGISL 77 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG---TTANQ 132 ++++EGN+GL+QA +FD RGF+ +Y++WWI+ ++ I L+++ ++ Q Sbjct: 78 IDLINEGNLGLIQAAHRFDDTRGFKFISYAVWWIRQSILLAITEKSRLIRLPQNQMSSIQ 137 Query: 133 KRL-FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLA 181 K L F+N Q + D +P + I +++ V+E V +S++ L Sbjct: 138 KILRFYN--------QYMQDYE-RPPSIEEICEQMQVTEERVRLALQLQNKPLSIDAPLT 188 Query: 182 GDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 DE +L+ + SDK SS DG L+++ ER + R +++L P E Sbjct: 189 EDEARTLSERLR-SDKGSS---------ADGP---LLKEAERWK----VERMLNLLPPLE 231 Query: 240 RRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 R + E + ++LE + + +SRERVRQI+ +A Sbjct: 232 RSVIEYYLGFKGQGISLEEIGNRIGLSRERVRQIKVKAI 270 >gi|254439671|ref|ZP_05053165.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] gi|198255117|gb|EDY79431.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] Length = 235 Score = 107 bits (266), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 70/218 (32%), Positives = 122/218 (55%), Gaps = 9/218 (4%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 ++V + NIGLM+A +FDPERG+R +TYS+WWI+A +Q Y L S S+V+ +A+ + Sbjct: 19 DLVQQANIGLMKAADRFDPERGYRFSTYSVWWIRAEIQSYKLASMSIVRRPNSADFRNAV 78 Query: 137 FNLRRLKGHLQAITDNNL--KPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSS 193 L RL +A++++ + + +AK L V+ + + +++G D SLN + S Sbjct: 79 GKLGRLD---EAVSNDPTINRTDADALVAKALGVNLQRLNDLRQQVSGTDYSLN--LPSF 133 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + + LV ++ + + + K R +L + L RER+I A +LQ+ P Sbjct: 134 GDDGEERMARLVDPASTEDADTMHRLDIKKLRGLLVEIIGSLPDRERKIIMATQLQDPPA 193 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI-QKQVEL 290 TL L F +S ERVRQ+ F++++ ++ Q+ +EL Sbjct: 194 TLTALGIHFGISTERVRQLREMGFERLRTTMTQRDLEL 231 >gi|197301814|ref|ZP_03166884.1| hypothetical protein RUMLAC_00540 [Ruminococcus lactaris ATCC 29176] gi|197299254|gb|EDY33784.1| hypothetical protein RUMLAC_00540 [Ruminococcus lactaris ATCC 29176] Length = 372 Score = 107 bits (266), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/269 (31%), Positives = 138/269 (51%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L + E LA+R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKVPLLSAEREIELAQRM-EEGDEEAKKELAEANLRLVVSIAKRYVGRGMLFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 165 IQEGNLGLIKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 223 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +R + LQ + L PE+ IAK++++ V + SL I + Sbjct: 224 ----IRVSRQLLQELGREPL-PEE---IAKEMDMPVERVREILKISQEPVSLETPI--GE 273 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D V E + + L + L RE+++ R + Sbjct: 274 EEDSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMNDGRA 330 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 331 RTLEEVGREFDVTRERIRQIEAKALRKLR 359 >gi|78185860|ref|YP_378294.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78170154|gb|ABB27251.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9902] Length = 328 Score = 107 bits (266), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/274 (29%), Positives = 144/274 (52%), Gaps = 18/274 (6%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 EI L+ ++ +++++ L QEE ++++ A R++ ++LRLVV +A Y+ G Sbjct: 59 EIELAHHVQDMKQLKEL-PQEELTSRQKHKIRMGKRARDRMMAANLRLVVSVAKKYQNQG 117 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S +++ ++ Sbjct: 118 LELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISE 177 Query: 133 KRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K +RR+ H N L+ +A + + E+ + + A SL+A Sbjct: 178 K--LSKMRRISRELSHRFGRQPNRLE------LASAMGIEPRELEDLITQSAPCASLDAH 229 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--R 247 + S+ + L+ D +G+E +E +R ++ L +S LN RE++I R Sbjct: 230 ARGEEDRSTLGE--LIPDPNGEEP--MEGMDRSIQKEHLGGWLSQLNEREQKILRLRFGL 285 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 286 GGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 319 >gi|116071837|ref|ZP_01469105.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] gi|116065460|gb|EAU71218.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] Length = 284 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 82/274 (29%), Positives = 144/274 (52%), Gaps = 18/274 (6%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 EI L+ ++ +++++ L QEE ++++ A R++ ++LRLVV +A Y+ G Sbjct: 15 EIELAHHVQDMKQLKEL-PQEELTSRQKHKIRMGKRARDRMMAANLRLVVSVAKKYQNQG 73 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S +++ ++ Sbjct: 74 LELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISE 133 Query: 133 KRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K +RR+ H N L+ +A + + E+ + + A SL+A Sbjct: 134 K--LSKMRRISRELSHRFGRQPNRLE------LASAMGIEPRELEDLITQSAPCASLDAH 185 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--R 247 + S+ + L+ D +G+E +E +R ++ L +S LN RE++I R Sbjct: 186 ARGEEDRSTLGE--LIPDPNGEEP--MEGMDRSIQKEHLGGWLSQLNEREQKILRLRFGL 241 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 242 GGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 275 >gi|332980900|ref|YP_004462341.1| RNA polymerase sigma-70 subunit RpoD [Mahella australiensis 50-1 BON] gi|332698578|gb|AEE95519.1| RNA polymerase, sigma 70 subunit, RpoD [Mahella australiensis 50-1 BON] Length = 356 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 88/285 (30%), Positives = 140/285 (49%), Gaps = 35/285 (12%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 VN + + Y+ EI KIP+L EE LAKR E GD A RL ++LRLVV IA Y Sbjct: 81 VNIDDPVRMYLKEIGKIPLLSSDEEIELAKRI-EQGDEEAKKRLAEANLRLVVSIAKRYV 139 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT- 128 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 140 GRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 199 Query: 129 ---TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 T N+ ++L L R + + + ++V I K E +S+ + Sbjct: 200 MVETINKLVRVSRQLMQELGREPAPEEVAEEMGISVDKVRDIMK----IAQEPVSLETPI 255 Query: 181 AGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +E L I D + + KE+ + + LT PR Sbjct: 256 GEEEDSHLGDFIPDDDAPAPAEAAAFT----------LLKEQLMDVLDTLT-------PR 298 Query: 239 ERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E ++ R ++ TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 299 EEKVLRLRFGLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLR 343 >gi|168335371|ref|ZP_02693465.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Epulopiscium sp. 'N.t. morphotype B'] Length = 364 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 83/268 (30%), Positives = 139/268 (51%), Gaps = 21/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +E LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 98 YLKEIGKVPLLSADDEIKLAKRM-ESGDEEARKRLAEANLRLVVSIAKRYVGRGMLFLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 157 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK-- 214 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L R++ L + +PE+ IA+++ +S ++V + +L I + Sbjct: 215 ----LMRIQRQLLQELGRDPQPEE---IAREMELSVNKVREIMKISQEPVALETPI--GE 265 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + + D+L + K + L + L RE+++ + R ++ Sbjct: 266 EEDTNLGDFLADEDAPAPAEAAAFTLLKEQ---LIEVLDTLTDREQKVLKLRFGLDDGRA 322 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + EF V+RER+RQIEA+A +K+ Sbjct: 323 RTLEEVGREFNVTRERIRQIEAKALRKL 350 >gi|298245985|ref|ZP_06969791.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297553466|gb|EFH87331.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 417 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 84/296 (28%), Positives = 142/296 (47%), Gaps = 45/296 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++PM+ + E LA+R E GD A + + ++LRLVV IA Y G GL + ++ Sbjct: 153 YLREIGRVPMITHEREIELAQRI-ESGDRDAMKQFILANLRLVVSIAKRYVGRGLTLLDL 211 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN------- 131 + EGNIGL++AV+++D RG R +T++ WWI+ A+ + +++ N Sbjct: 212 IQEGNIGLIRAVQRYDWRRGHRFSTHATWWIRQAISRAVADKGRTIRLPVYVNTALNRIR 271 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++RL L R + L P +++ +L + +S+ + D+ Sbjct: 272 RERQRLLQELGREPSEQELAEATGLDPVRMI----ELQAAPGAPVSLELPVGEDDDQELG 327 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--- 246 D S+ +D Q L ++ +R SVL PRE+ + + R Sbjct: 328 DVLPDTESASPEDLATT------QTLKDEVQRVLE--------SVLTPREQLVLQLRFGL 373 Query: 247 -RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKPR 301 Q +P LE + E ++RERVRQIEA A K+++ PP+L++ R Sbjct: 374 GNGQAHP--LEQVGRELGITRERVRQIEAGALAKLRQ-----------PPVLERLR 416 >gi|150020921|ref|YP_001306275.1| RpoD family RNA polymerase sigma factor [Thermosipho melanesiensis BI429] gi|149793442|gb|ABR30890.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosipho melanesiensis BI429] Length = 370 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 137/278 (49%), Gaps = 41/278 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I KIP+L + E LA+R + GD A +LV S+LRLVV IA Y G GL ++ Sbjct: 99 YLKDIGKIPLLSQSMERELARR-AQQGDERAKQKLVESNLRLVVSIAKRYVGKGLSFLDL 157 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD ++G++ +TY+ WWI+ A+ I +++ T N+ Sbjct: 158 IQEGNVGLLKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKVQ 217 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKP----EQVVAIAKKLNVSESEVISMNCRLAGDESL 186 R ++ + ++ + KP E+++ AK E S+ + DE Sbjct: 218 KIMRDYYQQHGTEIPIEELAKIIGKPVEKVEEILQAAK-------ETTSLEAPVGEDE-- 268 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFE 244 D V D E + K+E R R + + + LN RE+ + + Sbjct: 269 ---------------DSTVGDFVADESIASPKKEAMRMLIREEVEKVLETLNDREKLVLK 313 Query: 245 ARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R + TLE + F V+RER+RQIE +A +K+ Sbjct: 314 MRYGLIDGKSKTLEEVGQYFNVTRERIRQIEVKALRKL 351 >gi|238854653|ref|ZP_04644983.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 269-3] gi|260664404|ref|ZP_05865256.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii SJ-7A-US] gi|282932956|ref|ZP_06338353.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] gi|238832443|gb|EEQ24750.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 269-3] gi|260561469|gb|EEX27441.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii SJ-7A-US] gi|281302991|gb|EFA95196.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] Length = 364 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 136/273 (49%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LAKR ++ GD A L ++LRLVV IA Y G G+ ++ Sbjct: 98 YLKEIGRVPLLNADEEITLAKRIQD-GDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KF+ + GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 157 IQEGNMGLMKAVDKFNYKLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 216 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 217 RIQRQLLQDLGREPTPEEIGAEMDMGTDKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 272 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + E+VL +R+ N+L + + R R Sbjct: 273 DFIEDKDATSPEQHASYEMLKEQLEEVLDTLTDREE--NVLRLRFGLDDGRTR------- 323 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 324 ------TLEEVGKVFGVTRERIRQIEAKALRKL 350 >gi|291550178|emb|CBL26440.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus torques L2-14] Length = 373 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 85/269 (31%), Positives = 138/269 (51%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L + E LA+R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGKVPLLSAEREIELAQRM-EEGDEEAKKELAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 166 IQEGNLGLIKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 224 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +R + LQ + L PE+ IAK++++ V + SL I + Sbjct: 225 ----IRVSRQLLQELGREPL-PEE---IAKEMDMPVERVREILKISQEPVSLETPI--GE 274 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D V E + + L + L RE+++ R + Sbjct: 275 EEDSHLGDFI---QDDNVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMNDGRA 331 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF+V+RER+RQIEA+A +K++ Sbjct: 332 RTLEEVGREFDVTRERIRQIEAKALRKLR 360 >gi|283780188|ref|YP_003370943.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283438641|gb|ADB17083.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 320 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 135/279 (48%), Gaps = 27/279 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + +L ++E LA + GD+ A R+V ++LRLVV IA GY G GL + Sbjct: 43 LESYLREINETALLSARDERELAAAIAD-GDVRARDRMVRANLRLVVNIARGYTGKGLSL 101 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP G R +TY+ +WIK +++ ++ S ++I A L Sbjct: 102 QDLIEEGNLGLLRAVEGFDPAVGTRFSTYASYWIKQSIKRALINSAKTIRI--PAYMVEL 159 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAI----AKKLNVSESEVISMNCRLAGDESLNALIN 191 RR L PE+V + KKL + + + N Sbjct: 160 LSKWRRATARLTEELGRGPTPEEVARVLGLAKKKLPIIKKAIRIYNS-----------TP 208 Query: 192 SSDKNSSQWQ-DWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-- 246 +D++ + W +V D E L+E++ K+ ML ++ RE + R Sbjct: 209 QTDQSEAGWSLGEIVMDERLKNPEDELVEQDVLKHVMEML----HTMDSREATVLRMRFG 264 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P TL+ + ++RERVRQIE A K+ + ++ Sbjct: 265 LGDTTPHTLKEIGESLGLTRERVRQIETEALGKLADGLK 303 >gi|167747159|ref|ZP_02419286.1| hypothetical protein ANACAC_01873 [Anaerostipes caccae DSM 14662] gi|167654119|gb|EDR98248.1| hypothetical protein ANACAC_01873 [Anaerostipes caccae DSM 14662] Length = 370 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 84/269 (31%), Positives = 139/269 (51%), Gaps = 21/269 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA+R E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 104 YLKEIGKVPLLSADEEIRLAQRM-EEGDEEAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 162 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 163 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL- 221 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +R + LQ + L PE+ IA+++++ V + SL I + Sbjct: 222 ----IRVSRQLLQELGREPL-PEE---IAEEMDIPVDRVREILKISQEPVSLETPIG--E 271 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + S D++ D V + + L+ + L RE+++ R ++ Sbjct: 272 EEDSHLGDFI---QDDNVPVPADAAAFTLLKEQLSEVLGTLTEREQKVLRLRFGLDDSRA 328 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 329 RTLEEVGKEFNVTRERIRQIEAKALRKLR 357 >gi|158340411|ref|YP_001521767.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158310652|gb|ABW32266.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 148/280 (52%), Gaps = 37/280 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + P+L +EE LA++ + G+L A R++ +LRLVV IA ++ GLP+ ++ Sbjct: 11 YLQEIGRYPLLSPEEEINLARQVKA-GNLRAKQRMIECNLRLVVSIAKKHQNRGLPLLDL 69 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ-----K 133 + EGNIGL +AV+KFD +G R +TY+ WWI + + ++++ NQ K Sbjct: 70 IQEGNIGLSRAVEKFDLNQGCRFSTYAYWWIWQGITRALHNKTKMIRLPIHLNQLHSKIK 129 Query: 134 RLFFNLRRLKGHLQAITD----NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 R +F L + G ++ + ++ P I ++L +S+ EVIS++ + Sbjct: 130 RTYFQLNQEYGRQPSLDEVAYAMDIDP---THIQEQLQLSQ-EVISLDKFV--------- 176 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 S+ + + DH Q+ L+ K+E L++ M L+ R++ I R Sbjct: 177 ---SENQGDTLGELVAKDHSSQKYFENLMNKDE-------LSKLMGHLSERQQFIIGQRF 226 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 E+ P TL ++ ++SRE +R+IE +AF+++++ Q Sbjct: 227 GLEDGQPKTLVEIAKLLDMSREGIRRIEKKAFQQLKKYAQ 266 >gi|206889845|ref|YP_002248858.1| RNA polymerase sigma 70 factor [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741783|gb|ACI20840.1| RNA polymerase sigma 70 factor [Thermodesulfovibrio yellowstonii DSM 11347] Length = 427 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 130/247 (52%), Gaps = 37/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++ S+L+LVV IA Y G GL + +++ EGNIGLM+AV+KF+ ++GF+ +TYS WW Sbjct: 189 AKNKMIESNLKLVVSIAKKYTGRGLNLEDLIQEGNIGLMKAVEKFEYKKGFKFSTYSTWW 248 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ I ++I + N+ ++ + + N+ + I+ LN+ Sbjct: 249 IRQSINRAIAEHSKTIRIPV-----HVIDNICKINKIYRELYQNSENEPDIEEISLNLNI 303 Query: 169 SESEV----------ISMNCRLAGDES-LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 ++ +S++ L D+S L I D NS + ++D Sbjct: 304 PSDKIADFLAISKEPVSIDMSLRDDDSLLKEFI--EDMNSPNPYEEALHD---------- 351 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEA 274 + ++++ + S+L+ RE+ I RR +E P +L+ + EF VSRER+RQIE Sbjct: 352 -----DLKHLIEKVFSLLSKREKEIL-MRRYGINEEKPKSLDEVGKEFSVSRERIRQIEL 405 Query: 275 RAFKKVQ 281 RA +K++ Sbjct: 406 RAMRKLK 412 >gi|187251192|ref|YP_001875674.1| DNA-directed RNA polymerase sigma subunit RpoH [Elusimicrobium minutum Pei191] gi|186971352|gb|ACC98337.1| DNA-directed RNA polymerase, sigma subunit RpoH [Elusimicrobium minutum Pei191] Length = 380 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 76/275 (27%), Positives = 152/275 (55%), Gaps = 13/275 (4%) Query: 16 LSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 +++Y +I ++ L ++E L KR ++ GD +A R++ +LRLV+ A + + Sbjct: 8 INQYFKKISEVSEDLSREEMEKLWKRIKK-GDTAAKQRMMELNLRLVIPAAKRFMRKDID 66 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GL+QA++KFDP +GFR +TY+++WI A+++YI +KI + A Sbjct: 67 LLDLIEEGNLGLLQAIEKFDPSKGFRFSTYAIYWIDQAIRKYIDEQSGAIKIPSHA---- 122 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSS 193 + ++++ A+ D+ + + ++++L+ S ++ S+ + + +++L + Sbjct: 123 -WGDIKKWTRTWNALKDSLEREPSLTEMSRELDWSARKIKSILETINAAKGIDSLALAIG 181 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQEN- 251 +++ +D L D G + R + + L ++ LNPR++ I R L+ N Sbjct: 182 EEDEVTLEDTLTDDGKGNPDDVF---SRSSSNSALLAALEELNPRDKEILMMRNGLKTNE 238 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 P+TL +S +SRERVRQIE RA +++ K Sbjct: 239 PMTLSEVSKIMGLSRERVRQIEERAISHIRKKAHK 273 >gi|256851182|ref|ZP_05556571.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 27-2-CHN] gi|260660606|ref|ZP_05861521.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 115-3-CHN] gi|282934648|ref|ZP_06339891.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] gi|297206047|ref|ZP_06923442.1| RNA polymerase sigma factor rpoD [Lactobacillus jensenii JV-V16] gi|256616244|gb|EEU21432.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 27-2-CHN] gi|260548328|gb|EEX24303.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 115-3-CHN] gi|281301223|gb|EFA93524.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] gi|297149173|gb|EFH29471.1| RNA polymerase sigma factor rpoD [Lactobacillus jensenii JV-V16] Length = 364 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 136/273 (49%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LAKR ++ GD A L ++LRLVV IA Y G G+ ++ Sbjct: 98 YLKEIGRVPLLNADEEIALAKRIQD-GDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 156 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KF+ + GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 157 IQEGNMGLMKAVDKFNYKLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 216 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 217 RIQRQLLQDLGREPTPEEIGAEMDMGTDKVRDI---LKIAQ-EPVSLETPIGEEDDSHLG 272 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + E+VL +R+ N+L + + R R Sbjct: 273 DFIEDKDATSPEQHASYEMLKEQLEEVLDTLTDREE--NVLRLRFGLDDGRTR------- 323 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 324 ------TLEEVGKVFGVTRERIRQIEAKALRKL 350 >gi|168187756|ref|ZP_02622391.1| RNA polymerase sigma factor RpoD [Clostridium botulinum C str. Eklund] gi|169294399|gb|EDS76532.1| RNA polymerase sigma factor RpoD [Clostridium botulinum C str. Eklund] Length = 368 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L EE LA+R E G++ A +L ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGKVPLLTPDEEVDLAQRI-EAGEMYAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 161 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 218 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE++ I + E++ + E ++ ++ S Sbjct: 219 LIRVSRQLLQELGREPQPEEIAKIMEMPVDKVREIMKI-----AQEPVSLETPIGEEEDS 273 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 274 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 330 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 331 EVGKEFNVTRERIRQIEAKALRKLR 355 >gi|172056869|ref|YP_001813329.1| RpoD family RNA polymerase sigma factor [Exiguobacterium sibiricum 255-15] gi|171989390|gb|ACB60312.1| RNA polymerase, sigma 70 subunit, RpoD family [Exiguobacterium sibiricum 255-15] Length = 361 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 141/276 (51%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L ++E LAKR E D A RL ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGRVDLLNAEDEVELAKRI-EQNDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Sbjct: 154 IQEGNMGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 213 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + + PE+V I L +++ E +S+ + D L Sbjct: 214 RVQRQLLQDLGREPTPEEISKEMEITPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 269 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D++++ QD Y ++L E+ L + L RE + R Sbjct: 270 DFI--EDQDATAPQDAAAY------ELLKEQ---------LEDVLDTLTDREENVLRLRF 312 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 313 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 348 >gi|315185550|gb|EFU19319.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta thermophila DSM 6578] Length = 281 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 85/268 (31%), Positives = 136/268 (50%), Gaps = 20/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI++ +L +EE L KR R GD A RL+T++LRLVVKIA+ + +P+ ++ Sbjct: 18 YLREIKRYKLLSPEEERELGKRIR-RGDPVARERLITANLRLVVKIALQFSVPDIPLLDL 76 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL++AV+KFD R R +TY+ WWI+ A+ ++ +++ N+K Sbjct: 77 IQEGNIGLIRAVEKFDYRRNIRFSTYAAWWIRQAIHRALMNKRRPIRL---PNRKEDV-- 131 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDK 195 LR+++ + + ++ IA L + EV I++ + SL IN Sbjct: 132 LRKIEKARRLLEQRLMREPSTEEIADLLGMESEEVEELINLGQEVV---SLETQIND--- 185 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP-VT 254 S D +E+V + R + LT L+ RE + R P T Sbjct: 186 GSMDLHDVCPGGASPEEEVC----RKACREDTLTLIQRTLDSRESEVVLHRYALTGPRYT 241 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQE 282 L+ LS + +S E VRQIE RA +K++E Sbjct: 242 LKTLSEQMGISPETVRQIEIRALRKLRE 269 >gi|315029422|gb|EFT41354.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4000] Length = 368 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVQLLTAAEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 277 DFIEDQDATSP-------AEHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 +N TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDNGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|86739990|ref|YP_480390.1| sigma 38 [Frankia sp. CcI3] gi|86566852|gb|ABD10661.1| RNA polymerase, sigma 70 subunit, RpoD [Frankia sp. CcI3] Length = 409 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 92/310 (29%), Positives = 148/310 (47%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------------------DLSAAHR------ 52 Y+ EI K+P+L +EE LAKR E G DL A R Sbjct: 115 YLKEIGKVPLLTAEEEVDLAKRI-EAGLFASEKLAVATKKTSPQMRRDLEAIERDGQIAK 173 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 174 RKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 233 Query: 111 AAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 234 QAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKVRE 293 Query: 162 IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I L VS+ E +S+ + +E L I D V D +L++++ Sbjct: 294 I---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQEQ 340 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 341 --------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTL 392 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 393 SKLRHPSRSQ 402 >gi|111221463|ref|YP_712257.1| RNA polymerase essential primary sigma 70 factor [Frankia alni ACN14a] gi|111148995|emb|CAJ60675.1| RNA polymerase essential primary sigma 70 factor [Frankia alni ACN14a] Length = 409 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 92/310 (29%), Positives = 148/310 (47%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------------------DLSAAHR------ 52 Y+ EI K+P+L +EE LAKR E G DL A R Sbjct: 115 YLKEIGKVPLLTAEEEVDLAKRI-EAGLFASEKLAVATKKTSPQMRRDLEAIERDGQIAK 173 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 174 RKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 233 Query: 111 AAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 234 QAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKVRE 293 Query: 162 IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I L VS+ E +S+ + +E L I D V D +L++++ Sbjct: 294 I---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQEQ 340 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 341 --------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTL 392 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 393 SKLRHPSRSQ 402 >gi|331701385|ref|YP_004398344.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lactobacillus buchneri NRRL B-30929] gi|329128728|gb|AEB73281.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lactobacillus buchneri NRRL B-30929] Length = 414 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 134/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 148 YLKEIGRVSLLSADQEISLAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 206 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 207 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 266 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 267 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 322 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D S DH E + + L + L RE + R Sbjct: 323 DFIEDQDATSPA-------DHAAYELL----------KEQLESVLDTLTDREENVLRLRF 365 Query: 247 RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + TLE + F V+RER+RQIEA+A +K++ Sbjct: 366 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 401 >gi|270307915|ref|YP_003329973.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Dehalococcoides sp. VS] gi|270153807|gb|ACZ61645.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Dehalococcoides sp. VS] Length = 520 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 80/243 (32%), Positives = 127/243 (52%), Gaps = 30/243 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A + G G+P+ +++ EGNIGL++AV+KFD RGF+ +TY+ WW Sbjct: 283 AERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFSTYATWW 342 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ ++L L R + + +L PE+V Sbjct: 343 IRQAITRAIADQARTIRIPVHMVETINKLLSISRQLSQKLGREPTPDEIALEMDLPPEKV 402 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK VS+ V S+ + +E + D+N+ D Q+L E+ Sbjct: 403 REIAK---VSQLPV-SLESPIGEEEDSHLGDFIEDQNALAPPDA------ASRQLLKEQ- 451 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + L PRERR+ + R E+ TLE + EF V+RER+RQIEA+A Sbjct: 452 --------IDTVLGSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKAL 503 Query: 278 KKV 280 +K+ Sbjct: 504 RKL 506 >gi|158313963|ref|YP_001506471.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158109368|gb|ABW11565.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec] Length = 409 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 92/310 (29%), Positives = 148/310 (47%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------------------DLSAAHR------ 52 Y+ EI K+P+L +EE LAKR E G DL A R Sbjct: 115 YLKEIGKVPLLTAEEEVDLAKRI-EAGLFASEKLAVATKKTSPQMRRDLEAIERDGQIAK 173 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 174 RKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 233 Query: 111 AAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 234 QAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKVRE 293 Query: 162 IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I L VS+ E +S+ + +E L I D V D +L++++ Sbjct: 294 I---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQEQ 340 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 341 --------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTL 392 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 393 SKLRHPSRSQ 402 >gi|220934609|ref|YP_002513508.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. HL-EbGR7] gi|219995919|gb|ACL72521.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. HL-EbGR7] Length = 344 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 87/288 (30%), Positives = 148/288 (51%), Gaps = 30/288 (10%) Query: 9 IVNGEIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 + GE+ +R Y+ EI P+L +EE A R + GD + +++ +LRLVVKIA Sbjct: 64 VPKGELDATRLYLSEIEFSPLLTPEEEVHYA-RLAQKGDEAGRRKMIECNLRLVVKIARR 122 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ Sbjct: 123 YMNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLP 182 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-------VAIAKKLNVSESEVISMNCRL 180 K L LR + Q + D+ E+V V K++ V S++ + Sbjct: 183 IHVI-KELNVYLRTARKLAQEL-DHEPTAEEVARHLDRPVGDVKRILALSERVTSVDLPI 240 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNP 237 G + AL++ + L+ D D + V L E +E++ R ++ R L+ Sbjct: 241 -GKDGERALLDVIPDEQTPEPSILIQDEDVVQFVDEWLQELDEKQ--REVIVRRFG-LHG 296 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ER TLE + +E V+RERVRQI+ A K++++ ++ Sbjct: 297 YERS------------TLEQVGAELGVTRERVRQIQMDALKRLRKILE 332 >gi|224533396|ref|ZP_03673990.1| RNA polymerase sigma factor [Borrelia burgdorferi CA-11.2a] gi|224513561|gb|EEF83918.1| RNA polymerase sigma factor [Borrelia burgdorferi CA-11.2a] Length = 266 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 82/282 (29%), Positives = 149/282 (52%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LA + + G+ A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIKLAGQI-QRGNAKAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + S N +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTLKHLNYILETKS--NEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L +P TL+++S+E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNSPKKSTLKDISTELGISSETVRQIEKRVLKKLKEEI 265 >gi|313674339|ref|YP_004052335.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Marivirga tractuosa DSM 4126] gi|312941037|gb|ADR20227.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marivirga tractuosa DSM 4126] Length = 287 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 77/271 (28%), Positives = 149/271 (54%), Gaps = 15/271 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ +L EE LA R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLLTPDEEVDLAVRIKQ-GDQLALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ + + +V++ N+ Sbjct: 77 GDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNRVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + L+ + P++ +A+ L V+ +EV+ +++G S++A + Sbjct: 135 LNKISKTFSTLEQKFEREPSPDE---LAEVLEVTSNEVVD-TMKISGRHVSMDAPFVQGE 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENP 252 +NS V ++DG+E E RR + R++S L RE + E+ Sbjct: 191 ENSL----LDVLENDGEESPDDELMNDSLRREV-QRALSTLTQREADVITLYFGLNGEHS 245 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A ++++ + Sbjct: 246 MTLEEIGEKFNLTRERVRQIKEKAIRRLRHT 276 >gi|256532386|gb|ACU81351.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532388|gb|ACU81352.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532392|gb|ACU81354.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532394|gb|ACU81355.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532398|gb|ACU81357.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532400|gb|ACU81358.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532402|gb|ACU81359.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532404|gb|ACU81360.1| RpoH [Rhizobium leguminosarum bv. trifolii] gi|256532406|gb|ACU81361.1| RpoH [Rhizobium leguminosarum bv. trifolii] Length = 148 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 67/152 (44%), Positives = 94/152 (61%), Gaps = 9/152 (5%) Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+PER R +TY+ WWI+A++Q+YILR+WS+V+ GT++ QK LFFNLRRL+ L A D Sbjct: 1 FEPERDVRFSTYASWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRAKL-AKGDT 59 Query: 153 NLKPEQV-VAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDH-- 208 L + + IA L VS ++V +M+ RL+G D SL A S D S++ D+LV D Sbjct: 60 QLTLQSIHQEIAAALGVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDDPL 119 Query: 209 -DGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 D Q +I+ E RR L ++ LN RE Sbjct: 120 PDEQVSNMIDGER---RRVWLASALKHLNERE 148 >gi|295695448|ref|YP_003588686.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus tusciae DSM 2912] gi|295411050|gb|ADG05542.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus tusciae DSM 2912] Length = 379 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 84/264 (31%), Positives = 132/264 (50%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD A L+ ++LRLVV IA Y G G+ ++ Sbjct: 113 YLKEIGRVPLLSAEEEIELAKRI-EQGDEEAKAALIKANLRLVVSIAKRYVGRGMLFLDL 171 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 172 IQEGNLGLIKAVEKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 229 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L + PE+ IA+++++S +V + SL I D S Sbjct: 230 LIRVSRQLLQELGRDPTPEE---IAEEMDMSPDKVREIMKIAQEPVSLETPIGEED--DS 284 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D E K + L + L RE + R ++ TLE Sbjct: 285 HLGDFIPDDDALAPADAAAYELLKEQ---LEDVLDTLTEREENVLRLRFGLDDGRTRTLE 341 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + F V+RER+RQIEA+A +K+ Sbjct: 342 EVGKVFGVTRERIRQIEAKALRKL 365 >gi|260583936|ref|ZP_05851684.1| RNA polymerase sigma-43 factor [Granulicatella elegans ATCC 700633] gi|260158562|gb|EEW93630.1| RNA polymerase sigma-43 factor [Granulicatella elegans ATCC 700633] Length = 374 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 138/276 (50%), Gaps = 36/276 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LA R + GD A L ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVPLLSADEEVNLALRI-QQGDQEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 226 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 I D N++ + Y L++++ L + L RE + R Sbjct: 282 DFI--EDDNATSPAEHTAY-------ALLKEQ--------LDEVLEQLTDREENVLRLRF 324 Query: 247 RLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 L +N TLE + F V+RER+RQIEA+A +K+ Sbjct: 325 GLDKNGEIRTLEQVGQVFGVTRERIRQIEAKALRKL 360 >gi|6175930|gb|AAF05342.1|AF182106_2 truncated RNA polymerase sigma subunit [Escherichia coli] Length = 303 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 80/260 (30%), Positives = 129/260 (49%), Gaps = 25/260 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 179 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 180 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 236 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 237 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 285 Query: 251 NPVTLENLSSEFEVSRERVR 270 TLE++ E ++RERVR Sbjct: 286 --ATLEDVGREIGLTRERVR 303 >gi|15595116|ref|NP_212905.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi B31] gi|195941591|ref|ZP_03086973.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi 80a] gi|216264706|ref|ZP_03436698.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi 156a] gi|218249170|ref|YP_002375269.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi ZS7] gi|221217974|ref|ZP_03589441.1| RNA polymerase sigma factor [Borrelia burgdorferi 72a] gi|223889406|ref|ZP_03623992.1| RNA polymerase sigma factor [Borrelia burgdorferi 64b] gi|224532620|ref|ZP_03673242.1| RNA polymerase sigma factor [Borrelia burgdorferi WI91-23] gi|225548870|ref|ZP_03769847.1| RNA polymerase sigma factor [Borrelia burgdorferi 94a] gi|225550031|ref|ZP_03770992.1| RNA polymerase sigma factor [Borrelia burgdorferi 118a] gi|225551867|ref|ZP_03772810.1| RNA polymerase sigma factor [Borrelia sp. SV1] gi|226320640|ref|ZP_03796199.1| RNA polymerase sigma factor [Borrelia burgdorferi 29805] gi|226321470|ref|ZP_03796997.1| RNA polymerase sigma factor [Borrelia burgdorferi Bol26] gi|2688700|gb|AAC67109.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi B31] gi|215981179|gb|EEC21986.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi 156a] gi|218164358|gb|ACK74419.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi ZS7] gi|221192280|gb|EEE18500.1| RNA polymerase sigma factor [Borrelia burgdorferi 72a] gi|223885092|gb|EEF56196.1| RNA polymerase sigma factor [Borrelia burgdorferi 64b] gi|224512476|gb|EEF82855.1| RNA polymerase sigma factor [Borrelia burgdorferi WI91-23] gi|225369490|gb|EEG98942.1| RNA polymerase sigma factor [Borrelia burgdorferi 118a] gi|225370473|gb|EEG99909.1| RNA polymerase sigma factor [Borrelia burgdorferi 94a] gi|225371662|gb|EEH01089.1| RNA polymerase sigma factor [Borrelia sp. SV1] gi|226233266|gb|EEH32018.1| RNA polymerase sigma factor [Borrelia burgdorferi Bol26] gi|226233963|gb|EEH32685.1| RNA polymerase sigma factor [Borrelia burgdorferi 29805] gi|312148432|gb|ADQ31091.1| RNA polymerase sigma factor [Borrelia burgdorferi JD1] gi|312149704|gb|ADQ29775.1| RNA polymerase sigma factor [Borrelia burgdorferi N40] Length = 266 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 82/282 (29%), Positives = 149/282 (52%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LA + + G+ A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIKLAGQI-QRGNAKAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + LN +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTLKHLNYILETK--LNEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L +P TL+++S+E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNSPKKSTLKDISTELGISSETVRQIEKRVLKKLKEEI 265 >gi|332638574|ref|ZP_08417437.1| RNA polymerase sigma factor [Weissella cibaria KACC 11862] Length = 377 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 88/281 (31%), Positives = 134/281 (47%), Gaps = 47/281 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA+R E GD +A L ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVSLLTGDEEVALAERI-EQGDDTAKQELAEANLRLVVSIAKRYVGRGMQFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 170 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 229 Query: 132 --QKRLFFNLRR------LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 Q+ L +L R + + +TD K ++ IA+ E +S+ + Sbjct: 230 RIQRNLLQDLGREPTPEEIGAEMDIVTD---KVRDILKIAQ-------EPVSLETPIGEE 279 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D L I D + D Y Q+L E+ L + L RE Sbjct: 280 DDSHLGDFI--EDNEAISPADSAAY------QMLKEQ---------LESVLDTLTDREEN 322 Query: 242 IFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R E+ TLE + F V+RER+RQIEA+A +K+ Sbjct: 323 VLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 363 >gi|187934045|ref|YP_001885115.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B str. Eklund 17B] gi|187722198|gb|ACD23419.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B str. Eklund 17B] Length = 374 Score = 106 bits (265), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E AKR E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGKVPLLSSEQEIDYAKRI-EEGDPVAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 167 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 224 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ I+K + + +V + SL I ++ S Sbjct: 225 LIRVQRQLLQELGRDPFPEE---ISKVMELPVDKVREIQKIAQEPVSLETPIG--EEEDS 279 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 280 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 336 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 337 EVGKEFNVTRERIRQIEAKALRKLR 361 >gi|295839080|ref|ZP_06826013.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] gi|295827312|gb|EDY44634.2| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] Length = 360 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 92/306 (30%), Positives = 146/306 (47%), Gaps = 62/306 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DL--------SAAH 51 Y+ EI +IP+L +E LA+R E G DL +A Sbjct: 67 YLREIGRIPLLNAADEVELARRV-EAGLFAEEKLAGPGPLDTRLALDLDRLVVLGRAAKR 125 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ S+LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RGF+ +TY+ WWI+ Sbjct: 126 RLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWWIRQ 185 Query: 112 AMQEYILRSWSLVKIGTTANQ--KRLFFNLRRL---KGHLQAITDN----NLKPEQVVAI 162 AM + +++ + R+ R L +GH + L PE+V Sbjct: 186 AMSRALADQARTIRVPVHVVELINRVVRARRTLLQERGHEPCDAEVAAVLGLTPERV--- 242 Query: 163 AKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + L +++ E +S++ + G++ +L LI D S L+ E VL Sbjct: 243 GEVLRLAQ-EPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAALLLLRRHLEDVL----- 296 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 S L RER++ + R ++ P TLE + + F V+RER+RQIEA+ Sbjct: 297 ------------STLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKTLA 344 Query: 279 KVQESI 284 K++ + Sbjct: 345 KLRSHV 350 >gi|320355021|ref|YP_004196360.1| RpoD subfamily RNA polymerase sigma-70 factor [Desulfobulbus propionicus DSM 2032] gi|320123523|gb|ADW19069.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobulbus propionicus DSM 2032] Length = 533 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 77/245 (31%), Positives = 129/245 (52%), Gaps = 20/245 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLV+ ++ + G+ + +++ EGNIGLM+AV+K+D +RG++ +TY+ WW Sbjct: 295 AKETLVRANLRLVISVSKKFMNRGMQLPDLIQEGNIGLMKAVEKYDYKRGYKFSTYATWW 354 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ + + R Q I PE+ +AK+L Sbjct: 355 IRQAVTRGIADQGRTIRL--PVHMIETINRMLRFSKDFQRIESREPTPEE---MAKQLG- 408 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDH---DGQEQVLIEKEERKNR 224 ++ E + + + A D SL+A +N D+ + D+ + DH D QE + E +R Sbjct: 409 TDVEKVQVALKTAKDAISLDAPVN--DEEDTLLSDF-IEDHAHPDPQEHSITESLKR--- 462 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQE 282 L + M L PRE ++ R E TLE + F V+RER+RQIEA+A KK++ Sbjct: 463 --CLCKVMGSLTPREEKVLRMRYGIEIGCDHTLEEVGQCFAVTRERIRQIEAQALKKLRH 520 Query: 283 SIQKQ 287 + Q Sbjct: 521 PARSQ 525 >gi|259503187|ref|ZP_05746089.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041] gi|259168844|gb|EEW53339.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041] Length = 380 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVNLLTADEEVKLALRI-EQGDEVAKQQLAEANLRLVVSIAKRYVGRGMQFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD RGF+ +TY+ WWI+ A+ I ++I T N Sbjct: 173 IQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 232 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 233 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNI---LKIAQ-EPVSLETPIGEEDDSHLG 288 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 289 DFIEDQDATSPA-------DHAAYEMM----------KKQLENVLDTLTDREENVLRLRF 331 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 366 >gi|73748391|ref|YP_307630.1| RNA polymerase, sigma factor [Dehalococcoides sp. CBDB1] gi|147669171|ref|YP_001213989.1| RpoD family RNA polymerase sigma factor [Dehalococcoides sp. BAV1] gi|289432439|ref|YP_003462312.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dehalococcoides sp. GT] gi|73660107|emb|CAI82714.1| RNA polymerase, sigma factor [Dehalococcoides sp. CBDB1] gi|146270119|gb|ABQ17111.1| RNA polymerase, sigma 70 subunit, RpoD family [Dehalococcoides sp. BAV1] gi|288946159|gb|ADC73856.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dehalococcoides sp. GT] Length = 520 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 80/243 (32%), Positives = 128/243 (52%), Gaps = 30/243 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A + G G+P+ +++ EGNIGL++AV+KFD RGF+ +TY+ WW Sbjct: 283 AERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFSTYATWW 342 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ ++L L R + + +L PE+V Sbjct: 343 IRQAITRAIADQARTIRIPVHMVETINKLLSISRQLSQKLGREPTPDEIALEMDLPPEKV 402 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK VS+ V S+ + +E +S + + Q+ L Q+L E+ Sbjct: 403 REIAK---VSQLPV-SLESPIGEEE------DSHLGDFIEDQNALAPPDAASRQLLKEQ- 451 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + L PRERR+ + R E+ TLE + EF V+RER+RQIEA+A Sbjct: 452 --------IDTVLGSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKAL 503 Query: 278 KKV 280 +K+ Sbjct: 504 RKL 506 >gi|217077377|ref|YP_002335095.1| RNA polymerase sigma factor RpoD [Thermosipho africanus TCF52B] gi|217037232|gb|ACJ75754.1| RNA polymerase sigma factor RpoD [Thermosipho africanus TCF52B] Length = 371 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 140/277 (50%), Gaps = 37/277 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I KIP+L + E LA+R + GD A +LV S+LRLVV IA Y G GL ++ Sbjct: 100 YLKDIGKIPLLSQSMERELARR-AQLGDERAKQKLVESNLRLVVSIAKRYVGKGLSFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD ++G++ +TY+ WWI+ A+ I +++ T N+ Sbjct: 159 IQEGNVGLLKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKVQ 218 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKP----EQVVAIAKKLNVSESEVISMNCRLAGDESL 186 R ++ + ++ + KP E+++ AK+ E+ V + GD Sbjct: 219 KIMREYYQEHGTEIPIEELAKLIGKPVEKVEEILQAAKETTSLEAPVGEDDDSTVGDFIA 278 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + I S K + ++LI +E + + + LN RE+ + + R Sbjct: 279 DETIASPKKEAM--------------RMLIREE--------VDKVLETLNDREKLVLKMR 316 Query: 247 R--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + F V+RER+RQIE +A +K++ Sbjct: 317 YGLIDGKAKTLEEVGQYFNVTRERIRQIEVKALRKLR 353 >gi|318040855|ref|ZP_07972811.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 321 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 85/287 (29%), Positives = 139/287 (48%), Gaps = 37/287 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------KRYREHGDLSAAHRLVTSHL 58 Y+ I ++P+L EE LA ++++ A R++ ++L Sbjct: 37 YLSNIGRVPLLTAAEEIELAHHVQLMKQLQELPSDQLTPRQKHQIRMGCRARDRMMAANL 96 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 97 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 156 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 S +++ ++K +RR+ H N L+ +A + + E+ Sbjct: 157 NSARTIRLPIHVSEK--LSKMRRITRELSHRFGRQPNRLE------LAHAMGMQPEELED 208 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + + A SL+A D S+ + L+ D + E ++ +R ++ L +S L Sbjct: 209 LISQSAPCASLDAHARGDDDRSTLGE--LIADPNSNES--MDSMDRNLQKEHLGTWLSQL 264 Query: 236 NPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 N RERRI E R E P+TL + + VSRERVRQ+EA+A K+ Sbjct: 265 NERERRIIELRFGLEGQEPLTLAEIGRQINVSRERVRQLEAKAILKL 311 >gi|288916958|ref|ZP_06411330.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] gi|288351667|gb|EFC85872.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] Length = 392 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 92/310 (29%), Positives = 148/310 (47%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------------------DLSAAHR------ 52 Y+ EI K+P+L +EE LAKR E G DL A R Sbjct: 98 YLKEIGKVPLLTAEEEVDLAKRI-EAGLFASEKLAVATKKTSPQMRRDLEAIERDGQIAK 156 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 157 RKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 216 Query: 111 AAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 217 QAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKVRE 276 Query: 162 IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I L VS+ E +S+ + +E L I D V D +L++++ Sbjct: 277 I---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQEQ 323 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 324 --------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTL 375 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 376 SKLRHPSRSQ 385 >gi|222097738|ref|YP_002531795.1| RNA polymerase sigma factor rpod [Bacillus cereus Q1] gi|221241796|gb|ACM14506.1| RNA polymerase sigma-43 factor [Bacillus cereus Q1] Length = 375 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVDLLSAEEEIRLATRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++A +KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 168 IQEGNMGLIKAGEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 227 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L PE+V I L +++ E +S+ + D L Sbjct: 228 RVQRQLLQDLGREPSPEEIGEEMDLAPEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 283 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 284 DFIEDQEATSPA-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 326 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 327 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 362 >gi|184155321|ref|YP_001843661.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum IFO 3956] gi|227514580|ref|ZP_03944629.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus fermentum ATCC 14931] gi|260662165|ref|ZP_05863061.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum 28-3-CHN] gi|183226665|dbj|BAG27181.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum IFO 3956] gi|227086991|gb|EEI22303.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus fermentum ATCC 14931] gi|260553548|gb|EEX26440.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum 28-3-CHN] Length = 380 Score = 106 bits (265), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 88/288 (30%), Positives = 140/288 (48%), Gaps = 37/288 (12%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI +N + + Y+ EI ++ +L EE LA R E GD +A L ++LRLVV IA Sbjct: 104 SIKINDPVRM--YLKEIGRVNLLTADEEVALALRI-EKGDETAKQELAEANLRLVVSIAK 160 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y G G+ +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 161 RYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI 220 Query: 127 GT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 T N Q++L +L R + + ++ ++V I L +S+ E +S+ Sbjct: 221 PVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMDTQKVRDI---LKISQ-EPVSLE 276 Query: 178 CRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + D L I D S DH E + + L + L Sbjct: 277 TPIGEEDDSHLGDFIEDHDATSPA-------DHAAYEMM----------KKQLENVLDTL 319 Query: 236 NPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RE + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 320 TDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 367 >gi|251796255|ref|YP_003010986.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. JDR-2] gi|247543881|gb|ACT00900.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. JDR-2] Length = 376 Score = 106 bits (264), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 81/265 (30%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LA+R E+GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 110 YLKEIGRVPLLSADDEIELARRI-ENGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 169 IQEGNMGLIKAVEKFDHQKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 226 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA ++ +S +V + SL I D S Sbjct: 227 LIRVSRQLLQELGREPTPEE---IAAEMELSTDKVREIMKIAQEPVSLETPIGEED--DS 281 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 282 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 338 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 339 EVGKVFGVTRERIRQIEAKALRKLR 363 >gi|148380889|ref|YP_001255430.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. ATCC 3502] gi|153931224|ref|YP_001385198.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. ATCC 19397] gi|153937635|ref|YP_001388667.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. Hall] gi|153940633|ref|YP_001392215.1| RNA polymerase sigma factor RpoD [Clostridium botulinum F str. Langeland] gi|168179368|ref|ZP_02614032.1| RNA polymerase sigma factor RpoD [Clostridium botulinum NCTC 2916] gi|168181623|ref|ZP_02616287.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Bf] gi|170757237|ref|YP_001782571.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B1 str. Okra] gi|170761654|ref|YP_001788251.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A3 str. Loch Maree] gi|187778482|ref|ZP_02994955.1| hypothetical protein CLOSPO_02076 [Clostridium sporogenes ATCC 15579] gi|226950364|ref|YP_002805455.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A2 str. Kyoto] gi|237796391|ref|YP_002863943.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Ba4 str. 657] gi|148290373|emb|CAL84500.1| RNA polymerase sigma factor (sigma-43) [Clostridium botulinum A str. ATCC 3502] gi|152927268|gb|ABS32768.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. ATCC 19397] gi|152933549|gb|ABS39048.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. Hall] gi|152936529|gb|ABS42027.1| RNA polymerase sigma factor RpoD [Clostridium botulinum F str. Langeland] gi|169122449|gb|ACA46285.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B1 str. Okra] gi|169408643|gb|ACA57054.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A3 str. Loch Maree] gi|182669799|gb|EDT81775.1| RNA polymerase sigma factor RpoD [Clostridium botulinum NCTC 2916] gi|182675034|gb|EDT86995.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Bf] gi|187772107|gb|EDU35909.1| hypothetical protein CLOSPO_02076 [Clostridium sporogenes ATCC 15579] gi|226843729|gb|ACO86395.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A2 str. Kyoto] gi|229260977|gb|ACQ52010.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Ba4 str. 657] gi|295320212|gb|ADG00590.1| RNA polymerase sigma factor RpoD [Clostridium botulinum F str. 230613] gi|322807253|emb|CBZ04827.1| RNA polymerase sigma factor RpoD [Clostridium botulinum H04402 065] Length = 361 Score = 106 bits (264), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 79/265 (29%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L +EE LA+R E GD+ A +L ++LRLVV IA Y G G+ ++ Sbjct: 95 YLKEIGKVALLTSEEEIELAQRI-EAGDMVAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 153 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 154 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 211 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE+V I + E++ + E ++ ++ S Sbjct: 212 LIRVSRQLLQELGREPQPEEVAKIMEMPVDKVREIMKI-----AQEPVSLETPIGEEEDS 266 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 267 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 323 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 324 EVGKEFNVTRERIRQIEAKALRKLR 348 >gi|325280730|ref|YP_004253272.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] gi|324312539|gb|ADY33092.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] Length = 289 Score = 106 bits (264), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 79/278 (28%), Positives = 155/278 (55%), Gaps = 26/278 (9%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + +Y+ EI KI +L +EE LAK+ R GD +A +LV S+LR VV +A Y+ +GL Sbjct: 17 SIEKYLQEIGKIHVLSPEEEADLAKKIR-SGDRAAREKLVLSNLRFVVSVAKQYQNHGLT 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG----TTA 130 + ++++EGN+GL++A + FD +GF+ +Y++WWI+ ++ + I + L+++ +T Sbjct: 76 LGDLINEGNVGLIKAAECFDETKGFKFISYAVWWIRQSILQAIAENARLIRLPLNKISTI 135 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNAL 189 N+ + L L+ Q +P + IA+K++++ EV N ++A S++A Sbjct: 136 NKVNRCYTL--LEQEFQR------EPTE-EEIAEKMDMTPEEV-KENMKIATKPVSMDAP 185 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT---RSMSVLNPRERRIFEAR 246 + + +++ S + ++ D Q E N+ ++ T RS + L+ RE I Sbjct: 186 LTTDEESISLYDVYIAPDPSIQ-----APESSLNQDSLKTDIERSFAALSVREATILSMY 240 Query: 247 RLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + ++LE + ++ ++ ERVRQ++ +A +K++E Sbjct: 241 YGLNGYSSMSLEEIGTKLGLTSERVRQVKTKAIRKLKE 278 >gi|289642669|ref|ZP_06474809.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] gi|289507499|gb|EFD28458.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] Length = 392 Score = 106 bits (264), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 92/310 (29%), Positives = 148/310 (47%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------------------DLSAAHR------ 52 Y+ EI K+P+L +EE LAKR E G DL A R Sbjct: 98 YLKEIGKVPLLTAEEEVDLAKRI-EAGLFASEKLAAATRKTSPQMRRDLEAIERDGQIAK 156 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 157 RKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 216 Query: 111 AAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 217 QAVTRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKVRE 276 Query: 162 IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I L VS+ E +S+ + +E L I D V D +L++++ Sbjct: 277 I---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQEQ 323 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 324 --------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTL 375 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 376 SKLRHPSRSQ 385 >gi|163849112|ref|YP_001637156.1| RNA polymerase sigma factor RpoD [Chloroflexus aurantiacus J-10-fl] gi|222527085|ref|YP_002571556.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163670401|gb|ABY36767.1| RNA polymerase sigma factor RpoD [Chloroflexus aurantiacus J-10-fl] gi|222450964|gb|ACM55230.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 398 Score = 106 bits (264), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 78/290 (26%), Positives = 139/290 (47%), Gaps = 39/290 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------------KRYREHGDLSAAHR 52 Y+ EI ++P+L ++E LA K+ + G+ A + Sbjct: 104 YLREIGQVPLLTAEQEKRLAQLIEQGQEAERKLATLPPDSPEAARLKQLKAKGE-EARQQ 162 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA YR GLP+ +++ EG++GL++A++KFD +G++ +TY+ WWIK A Sbjct: 163 MAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDYTKGYKFSTYATWWIKQA 222 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + LV++ L L R++ + +T + + +A L +SE + Sbjct: 223 LSRALADQSRLVRLPV-----HLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSEEK 277 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + R + ++ ++ S D++ H + R +T ++ Sbjct: 278 L--RELRRTAQDPVSLATPVGEEADSTLADFIPDPH---ALDADDAAASGMLRQQITAAL 332 Query: 233 SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L+ RERR+ E R + P TLE + F V+RERVRQIE +A +K+ Sbjct: 333 DQLSERERRVLELRYGLVDGQPRTLEEVGKAFGVTRERVRQIEVKALRKL 382 >gi|156740438|ref|YP_001430567.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156231766|gb|ABU56549.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 405 Score = 106 bits (264), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 88/303 (29%), Positives = 144/303 (47%), Gaps = 63/303 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------EHGDLS----------------AAHRL 53 Y+ EI ++ +L QEE +LA++ ++GD + A RL Sbjct: 113 YLREIGRVNLLTAQEEIMLAQQVERGEQANERLQNGDYTPVERLQLHRWVQEGQAARERL 172 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + ++LRLVV IA Y G G+ + +++ EGNIGLM+A +KFD +G++ +TY+ WWI+ A+ Sbjct: 173 IQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKFDYRKGYKFSTYATWWIRQAI 232 Query: 114 QEYIL---RSWSL-VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-----VAIAK 164 I R+ L V +G T N+ + R +Q T + P+++ + + K Sbjct: 233 TRVIADQSRTIRLPVHVGETINR------VMRTSNRIQQTTGRDPTPDEIALELGIPVEK 286 Query: 165 KLNVSES--EVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 V E+ + IS+ + GD L I DG+ +E Sbjct: 287 VRRVLEAARQTISLETPIGPEGDSVLADFIE-----------------DGKGATPMESAS 329 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 R + ++ L RERRI + R + TLE + EF ++RER+RQIEAR + Sbjct: 330 SHILREQIDSALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLR 389 Query: 279 KVQ 281 K++ Sbjct: 390 KLR 392 >gi|319935434|ref|ZP_08009871.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319809650|gb|EFW06063.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 422 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 88/278 (31%), Positives = 142/278 (51%), Gaps = 38/278 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 154 YLKEIGRVELLSHDEEIDLAKRILE-GDEEAKKKLAAANLRLVVSIAKRYVGRGMLFLDL 212 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------T 129 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T Sbjct: 213 IQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLT 272 Query: 130 ANQKRLFFNLRR--LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDES 185 Q++L L R L + D + PE+V I +K+++ E +S+ + D Sbjct: 273 RVQRQLIQELGREPLAEEIAEKMD-GMTPEKVREI-QKISL---EPVSLETPIGEEDDSH 327 Query: 186 LNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 L I D+ + D+ + D +VL+E +R+ + +L + + R R Sbjct: 328 LGDFI--EDEGAMSPDDYAANELLKDELNEVLLELTDREEK--VLRLRFGLDDGRTR--- 380 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 381 ----------TLEEVGKEFNVTRERIRQIEAKALRKLK 408 >gi|291286384|ref|YP_003503200.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] gi|290883544|gb|ADD67244.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] Length = 322 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 76/270 (28%), Positives = 143/270 (52%), Gaps = 22/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI K P+L +++E L++ E G + ++ +LRLVV IA Y G+ + ++ Sbjct: 54 YLNEISKYPVLTREQEGELSQGI-EKGCNDSKETMIKCNLRLVVSIAKKYINRGMNLVDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 V EGNIGL++AV+KFD +GF+ +TY+ WWI+ A++ I+ +V+I + N ++ Sbjct: 113 VEEGNIGLLKAVEKFDYTKGFKFSTYATWWIRQAIERAIINQCRMVRIPVHMSENISKVM 172 Query: 137 FNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L+ G I + + + ++ KK+ + + S++ + GDE Sbjct: 173 KTQNELQQKLGREPTIHELSTACKMPLSTLKKVFDAIKQDTSLDMPVGGDE--------- 223 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQEN 251 SS +++ D + L K E +++ ++ + ++ L+ E+ I R + Sbjct: 224 ---SSTLHEFIADDEKYLDPYL--KIENTSKKEIIFKWLTFLSDNEKTIIIRRYGLTGND 278 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE++ ++ ++RERVRQIE R K++ Sbjct: 279 PETLESIGNDLGITRERVRQIEKRVLSKMR 308 >gi|225011624|ref|ZP_03702062.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-2A] gi|225004127|gb|EEG42099.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-2A] Length = 287 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 81/296 (27%), Positives = 157/296 (53%), Gaps = 55/296 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ +EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITAEEEVELAQRIKA-GDQIALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + + L + H +A + IAK+L+++ ++V +SM+ Sbjct: 136 NKINKTYAFLE--QAHERAPSAEE--------IAKELDMTINDVKESLKNSGRHVSMDAP 185 Query: 180 L--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L D +L ++NS + + ++VL+ ++ R + R++ L P Sbjct: 186 LVEGEDSNLYDVLNSGESPNP-------------DRVLL----HESLRTEIERALETLTP 228 Query: 238 RERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE + RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 229 READVV---RLYFGLGDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|188587782|ref|YP_001920276.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E3 str. Alaska E43] gi|251778486|ref|ZP_04821406.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188498063|gb|ACD51199.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E3 str. Alaska E43] gi|243082801|gb|EES48691.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 374 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 133/265 (50%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E AKR E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGKVPLLSSEQEIDYAKRI-EEGDPVAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 167 IQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 224 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ I+K + + +V + SL I ++ S Sbjct: 225 LIRVQRQLLQELGRDPFPEE---ISKVMELPVDKVREIQKIAQEPVSLETPIG--EEEDS 279 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 280 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 336 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 337 EVGKEFNVTRERIRQIEAKALRKLR 361 >gi|312880428|ref|ZP_07740228.1| RNA polymerase, sigma 70 subunit, RpoD [Aminomonas paucivorans DSM 12260] gi|310783719|gb|EFQ24117.1| RNA polymerase, sigma 70 subunit, RpoD [Aminomonas paucivorans DSM 12260] Length = 387 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 86/268 (32%), Positives = 137/268 (51%), Gaps = 19/268 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAK E G + +LV ++LRLVV IA Y G G+ ++ Sbjct: 121 YLREIGKIPLLTPEEEVELAKGV-EAGHAPSKAKLVEANLRLVVSIAKKYIGRGMLFLDL 179 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 180 IQEGNLGLIRAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 237 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L E+ IA ++ + +E + R+A E ++ ++ S Sbjct: 238 LIRVSRQLVQRLGREPTAEE---IAGEMEIP-AERVEEIQRIA-QEPVSLETPIGEEEDS 292 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN--PV 253 Q D+L +++ L EE R L + L RER + R E+ P Sbjct: 293 QLGDFL------EDKDLPSPEEAAASQILREQLEEMLEDLTDREREVLRLRFGLEDGHPH 346 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 347 TLEEVGRRFGVTRERIRQIEAKALRKLR 374 >gi|149908225|ref|ZP_01896889.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] gi|149808767|gb|EDM68700.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] Length = 284 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 136/261 (52%), Gaps = 12/261 (4%) Query: 15 GLSRYIHEI-RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 L Y+ ++ +K +L K+EEY +A +GDL A +R++ ++LRLV+ +A Y+ + Sbjct: 9 ALDAYLQQVNKKSKLLTKEEEYDIAVAV-ANGDLRAKNRMIEANLRLVISVAKRYQYSVI 67 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P+ +++ EGN GL++AV+KFDP +GFR +TY++WWIK ++ I+ S ++I + Sbjct: 68 PLVDIIQEGNTGLIRAVEKFDPNKGFRFSTYAVWWIKNNIERSIMNSDRTIRIPIHVGKM 127 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + L +DN+L V IAK L EV+ + + SL+ I + Sbjct: 128 HKSIAKVAKELGLDVGSDNDL-----VVIAKVLETDVDEVMDVLSYYFSELSLDKGIVTD 182 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQEN 251 +++ + D + D + + E + R+ L + L ER++ E R E Sbjct: 183 NESVTTLVDII---EDQSIRTPSAEIEGGSTRDYLLALLENLPAYERQVVELRFGLTGEE 239 Query: 252 PVTLENLSSEFEVSRERVRQI 272 P++L + +SRE+VR I Sbjct: 240 PLSLSRIGERLSMSREKVRII 260 >gi|329902595|ref|ZP_08273157.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium IMCC9480] gi|327548742|gb|EGF33384.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium IMCC9480] Length = 334 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 141/270 (52%), Gaps = 15/270 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I +L +E A + GD A ++ +LRLVV IA Y G+ + ++ Sbjct: 65 YLNQIGARALLTVAQEVHYATLAKA-GDFPARQVMIEHNLRLVVSIAKHYINRGVVLLDL 123 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+A+ KF+PERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 124 IEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQ 181 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + R K HL+A+ + K + IA S +V + SL+A ++ +D SS Sbjct: 182 VLRAKYHLEALHHDG-KDASIDDIAHLTGRSAEDVQDILALSDHPASLDAPLD-ADPGSS 239 Query: 199 QWQDWLVYD-HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVT 254 D L D DG E + E R+ L R L+ ++R I RR ++P T Sbjct: 240 -LMDLLPGDPGDGPEARAEQHETALLVRDWLAR----LSDKQRLII-TRRFGLEDDDPAT 293 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 LE L++E V+RERVRQ++ A K++ ++ Sbjct: 294 LEALAAEIGVTRERVRQVQQEALIKLKRAL 323 >gi|269837239|ref|YP_003319467.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269786502|gb|ACZ38645.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 390 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 95/315 (30%), Positives = 157/315 (49%), Gaps = 52/315 (16%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRY-------------------- 41 R++++ V+ + Y+ EI + +L +EE LAKR Sbjct: 80 TRQDVADAVSVSDSVRLYLQEIGETSLLTMEEEVWLAKRMERGKIAEERLANGDYASEAE 139 Query: 42 -------REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 +E G+ + AH L+ ++LRLVV +A Y G GL +++ EGNIGLM+A KFD Sbjct: 140 RAELLADKEDGEKARAH-LIQANLRLVVSVAKKYVGRGLSFLDLIQEGNIGLMKATDKFD 198 Query: 95 PERGFRLATYSMWWIKAAMQEYI---LRSWSL-VKIGTTANQKRLFFNLRRLKGHLQAIT 150 +RGF+ +TY+ WWI+ A+ I R+ L V +G T N+ +++ LQ I Sbjct: 199 YKRGFKFSTYATWWIRQAITRAISDQSRTIRLPVHVGETINR------VKKTSQRLQQIF 252 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--H 208 + E+V A+ +++ E +V R D S + + S + Q D + D Sbjct: 253 EREPTFEEV---ARAMDIPEEKV-----RQVLDASRHPV--SLEAPVGQEGDAFLGDFIE 302 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSR 266 D +E ++ ++ ++ ++S L RERRI R E+ TLE + EF ++R Sbjct: 303 DDTMPPPLELASQELLKHQISDALSKLTERERRIIILRFGLEDGQFRTLEEVGREFGITR 362 Query: 267 ERVRQIEARAFKKVQ 281 ER+RQIEA+A +K++ Sbjct: 363 ERIRQIEAKALRKLR 377 >gi|295424882|ref|ZP_06817597.1| RNA polymerase sigma factor rpoD [Lactobacillus amylolyticus DSM 11664] gi|295065448|gb|EFG56341.1| RNA polymerase sigma factor rpoD [Lactobacillus amylolyticus DSM 11664] Length = 368 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 130/275 (47%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E+GD A L ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVPLLNADKEIALAKRI-ENGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ +V I K E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDMPTNKVRDILK----IAQEPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S + H E + + L ++ L RE + R Sbjct: 277 DFIEDKEATSPEQ-------HASYEML----------KEQLEETLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKL 354 >gi|257066626|ref|YP_003152882.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaerococcus prevotii DSM 20548] gi|256798506|gb|ACV29161.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaerococcus prevotii DSM 20548] Length = 602 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 80/247 (32%), Positives = 124/247 (50%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L ++LRLVV IA Y G G+ +++ EGN+GLM+AV K+D RGF+ +TY+ WW Sbjct: 366 AKKKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 425 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + L+ E+V Sbjct: 426 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGLEVEKV 485 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K +S+ V SL I D S D++ ++ I+ Sbjct: 486 QEIRK---ISQEPV-----------SLETPIGEED--DSHLGDFI------EDDSAIDPG 523 Query: 220 ERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 E N R L +S L RE+R+ + R + P TLE + EF+V+RER+RQIEA Sbjct: 524 EAANYTMLREQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEA 583 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 584 KALRKLK 590 >gi|308069922|ref|YP_003871527.1| RNA polymerase sigma factor rpoD (Sigma-A) [Paenibacillus polymyxa E681] gi|310643031|ref|YP_003947789.1| RNA polymerase sigma factor rpod [Paenibacillus polymyxa SC2] gi|305859201|gb|ADM70989.1| RNA polymerase sigma factor rpoD (Sigma-A) [Paenibacillus polymyxa E681] gi|309247981|gb|ADO57548.1| RNA polymerase sigma factor rpoD [Paenibacillus polymyxa SC2] Length = 377 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 131/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR +GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVPLLSADDEVELAKRIN-NGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD E+GF+ +TY+ WWI+ A+ I ++I + Sbjct: 170 IQEGNMGLIKAVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 227 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+V A ++ +S +V + SL I D S Sbjct: 228 LIRVSRQLLQELGREPTPEEVAA---EMELSVEKVREIMKIAQEPVSLETPIGEED--DS 282 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 283 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 339 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 340 EVGKVFGVTRERIRQIEAKALRKLR 364 >gi|288926163|ref|ZP_06420090.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315608876|ref|ZP_07883849.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|288337055|gb|EFC75414.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315249403|gb|EFU29419.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 286 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 81/283 (28%), Positives = 149/283 (52%), Gaps = 30/283 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGHEELVTVEEEVELAQRIRK-GDRHALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK-----IGTTA 130 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V+ +G+ Sbjct: 77 PDLINEGNMGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVN 136 Query: 131 NQKRL---FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESL 186 R+ F + + I D+ PE + A K+N +S++ GD+ Sbjct: 137 KINRMLNKFEQENERRPSIDEIADSVDLPEDKIEDALKVNTRH---VSVDAPFVDGDD-- 191 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 N+LI+ + + D + +E++ +R++ LN RER I E Sbjct: 192 NSLIDILPNSDAPMADKALVMESLREEI--------------SRALRTLNERERNIIECF 237 Query: 247 RLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 NP +TLE + +F ++RERVRQI+ +A ++++ + + +V Sbjct: 238 FGINNPEMTLEEIGDKFGLTRERVRQIKEKAIRRLRHNTKNRV 280 >gi|168700059|ref|ZP_02732336.1| RNA polymerase sigma factor rpoS [Gemmata obscuriglobus UQM 2246] Length = 272 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 137/275 (49%), Gaps = 21/275 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 S Y+ EI P+L EE L R GD A R+V ++LRLVV IA GY G GL + Sbjct: 11 FSTYLSEIDHTPLLSAAEERDLGARVLT-GDPQARDRMVRANLRLVVNIARGYTGKGLAL 69 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++VSEGN+GL++AV+ F+P R +TY+ +WIK +++ I+ + ++I A L Sbjct: 70 DDLVSEGNMGLLRAVEGFEPSMNTRFSTYASYWIKQSIKRAIVNTAKTIRI--PAYMAEL 127 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL----AGDESLNALIN 191 RR L +D +P IAK L +S+ ++ + + AG +S + Sbjct: 128 LTKWRRATNQL---SDELGRPPTHDEIAKFLGLSKKKLAIIKKAIRVANAGTQS-----D 179 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--Q 249 SD S + + D + L + ++ K ++L R ++ RE + R Sbjct: 180 QSDAGWSIEETLMDSRGDAPDTELGKSDDLKQVLHLLDR----MDQREATVLRMRFGLND 235 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E P TL+ + ++RERVRQIE A K+ + + Sbjct: 236 EEPRTLKEIGECLGLTRERVRQIENEALAKLGDGM 270 >gi|153953576|ref|YP_001394341.1| hypothetical protein CKL_0942 [Clostridium kluyveri DSM 555] gi|219854198|ref|YP_002471320.1| hypothetical protein CKR_0855 [Clostridium kluyveri NBRC 12016] gi|146346457|gb|EDK32993.1| RpoD2 [Clostridium kluyveri DSM 555] gi|219567922|dbj|BAH05906.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 354 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 86/291 (29%), Positives = 141/291 (48%), Gaps = 25/291 (8%) Query: 1 MNRKNMSIIVNGEIGLSR----YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTS 56 +N KN+ + V I + Y+ EI K+P+L +EE LAK+ E GD A +L + Sbjct: 66 LNEKNLDLSVPEGIAIDDPVRMYLKEIGKVPLLLPEEEMSLAKKI-EEGDQIAKKKLAEA 124 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ Sbjct: 125 NLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRA 184 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 I ++I + L R+ L E+V I + E++ + Sbjct: 185 IADQARTIRI--PVHMVETINKLIRVSRQLLQELGREPHAEEVAKIMEMPVDKVREIMKI 242 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNMLTRSM 232 E ++ ++ S D++ + KE+ N + LT Sbjct: 243 -----AQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQLINVLDTLT--- 294 Query: 233 SVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 PRE ++ R ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 295 ----PREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 341 >gi|260886856|ref|ZP_05898119.1| RNA polymerase sigma factor RpoD [Selenomonas sputigena ATCC 35185] gi|330839344|ref|YP_004413924.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Selenomonas sputigena ATCC 35185] gi|260863455|gb|EEX77955.1| RNA polymerase sigma factor RpoD [Selenomonas sputigena ATCC 35185] gi|329747108|gb|AEC00465.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Selenomonas sputigena ATCC 35185] Length = 375 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 129/265 (48%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L EE LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 109 YLKEIGRVPLLSADEEIALAKRM-EAGDEEAQKELAEANLRLVVSIAKRYVGRGMLFLDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 168 IQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 225 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA+ + +S V + SL I ++ S Sbjct: 226 LIRVSRQLLQQLGREPSPEE---IAEAMEISVERVREIMKIAQEPVSLETPIG--EEEDS 280 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + D D E + L + L RE R+ R ++ TLE Sbjct: 281 HLGDF-IEDQDAPAPA--EAASFMLLKEQLEEVLDTLTEREERVLRLRFGLDDGRARTLE 337 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 338 EVGQNFGVTRERIRQIEAKALRKLR 362 >gi|312869100|ref|ZP_07729274.1| RNA polymerase sigma factor RpoD [Lactobacillus oris PB013-T2-3] gi|311095346|gb|EFQ53616.1| RNA polymerase sigma factor RpoD [Lactobacillus oris PB013-T2-3] Length = 380 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD A +L ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVNLLTADEEVKLALRI-EQGDEVAKQQLAEANLRLVVSIAKRYVGRGMQFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD RGF+ +TY+ WWI+ A+ I ++I T N Sbjct: 173 IQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 232 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E++ I L +++ E +S+ + D L Sbjct: 233 RIQRQLLQDLGREPLPEEIGAEMDMPTEKIRNI---LKIAQ-EPVSLETPIGEEDDSHLG 288 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 289 DFIEDQDATSPA-------DHAAYEMM----------KKQLENVLDTLTDREENVLRLRF 331 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 366 >gi|260911780|ref|ZP_05918352.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] gi|260634106|gb|EEX52224.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] Length = 287 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 77/279 (27%), Positives = 144/279 (51%), Gaps = 38/279 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGHEELISVEEEVELAQRIRK-GDRKALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 QDLINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PVNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 ++ ++ L N + + IA+K ++ E ++ IS++ E Sbjct: 132 VGSVNKINKILNKFEQENERRPSINEIAEKTDLPEDKIEDAIKVTGRHISVDAPFVDGED 191 Query: 186 ---LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 L+ L NS D D++ ++ L R + ++ LN RER + Sbjct: 192 NSLLDLLTNS---------DMPTVDNELVKESL---------RAEIAEALQFLNERERNV 233 Query: 243 FEA-RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 EA + + +TLE + ++ ++RERVRQI+ +A +++ Sbjct: 234 IEAFFGINQMEMTLEEIGDKYGLTRERVRQIKEKAIRRL 272 >gi|298241844|ref|ZP_06965651.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297554898|gb|EFH88762.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 366 Score = 106 bits (264), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 132/285 (46%), Gaps = 14/285 (4%) Query: 7 SIIVNG-EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S NG E Y+ +IR +L EE LA+R GD A +LV S+LRLV+ IA Sbjct: 88 STKANGSEDAFQSYLRDIRGYGLLTHAEEIDLAQRAAA-GDTIARRKLVESNLRLVISIA 146 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G+P+ +++ EGN+GLM+A +KFD +RG TY+ WWI+ A+ ++ Sbjct: 147 RRYTSTGVPLIDLIQEGNLGLMRAAEKFDHQRGCHFGTYATWWIRQAVSRAAGEQSRMIH 206 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + + +RR+ L + PEQ IA+ + EV ++ + S Sbjct: 207 LPEHVSTR--LRKVRRISAQLSQENGLDPMPEQ---IAEACHFEVDEVKNLLGVIEQPVS 261 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ ++ D+ D L D E R L R+++VL PRER + Sbjct: 262 LDTPVD--DETRYSLGDTL---EDDTTPAPAETASRHLLGEELHRALAVLTPRERSVVML 316 Query: 246 RR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R TL + E +SRERVRQ+E A K++ Q Sbjct: 317 RYGIGDGRSRTLLEVGKELGISRERVRQLEVVALMKLRSVTNAQA 361 >gi|288800917|ref|ZP_06406374.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] gi|288332378|gb|EFC70859.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] Length = 287 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 84/285 (29%), Positives = 153/285 (53%), Gaps = 34/285 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + +L +EE LA++ +E GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEITQEKLLTTEEEITLARKIKE-GDKDALQKLTRANLRFVVSVAKQYQHQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + + A+Q RL Sbjct: 77 PDLINEGNIGLIKAAEKFDDTRGFKFISYAVWWIRQSIMQAL------------ADQSRL 124 Query: 136 FFNLRRLKGHLQAITDNNLKPEQ-------VVAIAKKLNVSE---SEVISMNCRLAGDES 185 G + I + K EQ + IA+++N+ + S+ I N R S Sbjct: 125 VRLPLNQVGSVNKINKISHKFEQEFERKPSIAEIAEEINLPQERVSDAIKGNNRHV---S 181 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFE 244 ++A + +D N + D L G E I+ ++ R L ++++L+ RER + E Sbjct: 182 MDAPL--TDGNDNGLADLL----QGNEGPDIDTHLLLESLREELKLALNILDERERFVIE 235 Query: 245 ARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 A P +TL+ + ++ ++RER RQI +A +K++++ Q ++ Sbjct: 236 AFYGINQPEMTLQEIGAKKGLTRERARQIREKAIRKLRKNTQNKL 280 >gi|118581147|ref|YP_902397.1| RpoD family RNA polymerase sigma factor [Pelobacter propionicus DSM 2379] gi|118503857|gb|ABL00340.1| RNA polymerase, sigma 70 subunit, RpoD family [Pelobacter propionicus DSM 2379] Length = 323 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 78/280 (27%), Positives = 146/280 (52%), Gaps = 35/280 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I++ P+L ++E +A++ E GD++A ++++ S+LRLVVKIA Y GLP ++ Sbjct: 64 YLRDIQRTPLLTAEQEKEVARQI-EKGDMAARNKMIESNLRLVVKIAKRYINRGLPFLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK--IGTTANQKRLF 136 + EGN+GL++AV++F+ + R +TY+ WWI+ A+ ++ ++ + + + R+ Sbjct: 123 IEEGNLGLIKAVERFNLAKECRFSTYATWWIRQAIDRALVNQSRTIRLPVHVSDDINRMA 182 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV------ISMNCRLA---GDESLN 187 RRL LQ + IA+++NV + V + C + GD S Sbjct: 183 KVTRRLSQTLQ-------REPHAHEIAEEMNVKLAYVRRLMTLLRRTCSMETPIGDGSDY 235 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 LI++ + S L+ + D EQ+ + L+ E++I R Sbjct: 236 FLIDTIEDTSMVAPSDLLENIDRYEQI--------------SEHFKELSESEQKILALRF 281 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ P TL+ + F V+RER+RQIEA++ +K+ ++ Sbjct: 282 GLDDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKLYACVK 321 >gi|241896072|ref|ZP_04783368.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella paramesenteroides ATCC 33313] gi|241870672|gb|EER74423.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella paramesenteroides ATCC 33313] Length = 378 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 135/265 (50%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA+R E GD +A L ++LRLVV IA Y G G+ ++ Sbjct: 112 YLKEIGRVSLLTGDEEVSLAERI-EAGDETAKQELAEANLRLVVSIAKRYVGRGMQFLDL 170 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 171 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 228 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R++ +L PE++ A +++V+ +V + ++A + SL I D Sbjct: 229 LIRIQRNLLQDLGREPTPEEIGA---EMDVATEKVRDI-LKIAQEPVSLETPIGEED--D 282 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D + + + + L + L RE + R E+ TL Sbjct: 283 SHLGDFI---EDNEAVSPADSAAYQMLKEQLESVLDTLTDREENVLRLRFGLEDGRTRTL 339 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + F V+RER+RQIEA+A +K+ Sbjct: 340 EEVGKVFGVTRERIRQIEAKALRKL 364 >gi|313159603|gb|EFR58965.1| putative RNA polymerase sigma factor RpoD [Alistipes sp. HGB5] Length = 286 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 149/271 (54%), Gaps = 16/271 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K ++ +EE LA+R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKEELITVEEEVELAQRIKK-GDQEALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + E ++ R+AG S++A + Sbjct: 135 LNKINKAFARFEQEHERTPSPEE---LATELELPK-EKVTDTLRVAGRHVSVDAPFADGE 190 Query: 195 KNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENP 252 NS D LV D ++ LI ++ + R++ L RER I + + + Sbjct: 191 DNS--LLDVLVNPDSPNADRGLI----NESLSTEVDRALETLTDRERDIIKYFFGIGTSE 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F+++RERVRQI+ +A ++++ S Sbjct: 245 MTLEEIGEKFDLTRERVRQIKEKAIRRLRHS 275 >gi|256370771|ref|YP_003108596.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri SMDSEM] gi|256009563|gb|ACU52923.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri SMDSEM] Length = 334 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 81/276 (29%), Positives = 146/276 (52%), Gaps = 16/276 (5%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREH---GDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 +Y+ EI KIP+L +++E LAK R+ G +A +L+ S+LR VV +A Y+ GL Sbjct: 63 KYLEEIGKIPLLSQKKELELAKLARKELNAGCSTALEQLIKSNLRFVVSVAKQYQNQGLS 122 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +S++++EGN+GL++ + +FD ++GF+ +Y +WWI+ A+ + I ++ T K Sbjct: 123 LSDLINEGNLGLIKGISRFDEKKGFKCISYCVWWIRQAILQAIADQARCIRCPTN---KL 179 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA-LINSS 193 F+N + +K + + ++P V I LN SE EV SL+A ++ Sbjct: 180 AFYN-KVVKTYSKLEQKLKMQP-TVNDIVVYLNSSEKEVEEALKNSIQPTSLDAPILEGE 237 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENP 252 D N D L + + +EKE + + R + L+ +E ++ P Sbjct: 238 DTN---LYDVLKSETSPEPDFKLEKE---SFFKDIKRLLETLSEKESQVISLHYGFGCKP 291 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +TLE ++ +++RER RQIE K+++ S +K++ Sbjct: 292 MTLEKVAFLLKLTRERCRQIEINGIKRLRISYRKKL 327 >gi|297194519|ref|ZP_06911917.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|297152294|gb|EFH31643.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 366 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 91/294 (30%), Positives = 144/294 (48%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AAH 51 Y+ EI +IP+L EE LA+R E G DL A Sbjct: 73 YLREIGRIPLLTAAEEVELARRV-EAGLFAEEKLANTPDPDSQLAVDLDRLVVMGRMAKR 131 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 132 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 191 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + PE+V A L ++ S Sbjct: 192 AMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGYEPTPEEV---ATHLELT-S 245 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E +S RLA + SL+A + D + D + DG +E R L Sbjct: 246 ERVSEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLDA 300 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R ++ P TLE + F V+RER+RQIE++ K+++ Sbjct: 301 VLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRD 354 >gi|294102609|ref|YP_003554467.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Aminobacterium colombiense DSM 12261] gi|293617589|gb|ADE57743.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Aminobacterium colombiense DSM 12261] Length = 377 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 86/294 (29%), Positives = 142/294 (48%), Gaps = 45/294 (15%) Query: 10 VNGEIG----------LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 +GEIG + Y+ EI K+P+LE +E LAKR E G+ A +++ ++LR Sbjct: 92 ADGEIGKLDDIPLTDPVRMYLREIGKVPLLEPAQEVELAKRV-EAGEEEAKQQIIDANLR 150 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 LVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I Sbjct: 151 LVVSIAKKYIGRGMLFLDLIQEGNLGLIRAVEKFDYRKGFKFSTYATWWIRQAITRAIAD 210 Query: 120 SWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +++ T N+ ++L L R + + ++P +V I + + Sbjct: 211 QARTIRVPVHMVETINKMVRVSRQLVQKLGREPTDEEIAAEMEIEPSKVEEIRRIAQLP- 269 Query: 171 SEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +S+ + +E L I D S + H EQ+ Sbjct: 270 ---VSLETPIGEEEDSQLGDFIEDRDLPSPEEA---AASHLLHEQI-------------- 309 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L+ RER + + R E+ TLE + F V+RER+RQIEA+A +K+ Sbjct: 310 DEMLEALSEREREVLQYRFGLEDGRSYTLEEVGKRFGVTRERIRQIEAKALRKL 363 >gi|310777992|ref|YP_003966325.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] gi|309747315|gb|ADO81977.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] Length = 408 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 146/273 (53%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L ++E AK E GD A +LV ++LRLVV IA + GL + ++ Sbjct: 142 YLREIGQVPLLTHKQEIEHAKNSAE-GDEWATQQLVEANLRLVVSIAKKHTNRGLKLLDL 200 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM+AV+KF+ +G++ +TY+ WWI+ A+ I ++I + Sbjct: 201 IQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPV-----HMIET 255 Query: 139 LRRLKG----HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 + ++K +LQ T + PE +A++L + ESE I + D SL + S Sbjct: 256 INKIKKESRIYLQE-TGKDATPE---VLAERLGM-ESEKIKAILEMNQDPISLETPVGSE 310 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEARRLQE 250 + S+ D++ ++ ++ E+ NR + L + L+ RE ++ R + Sbjct: 311 E--DSELGDFV------EDNKMLSPYEQTNRNLLKEQLDDVLQSLSEREEKVLRFRYGLD 362 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + P TLE + F+V+RER+RQIE +A +K++ Sbjct: 363 DGCPRTLEEVGKIFKVTRERIRQIEVKALRKLR 395 >gi|294629207|ref|ZP_06707767.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] gi|292832540|gb|EFF90889.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] Length = 386 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 87/293 (29%), Positives = 143/293 (48%), Gaps = 40/293 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDLS--------AAHR 52 Y+ EI +IP+L EE LA+R R GDL A R Sbjct: 93 YLREIGRIPLLTAAEEVELARRVEAGLFAEEKLSSTPDLDSRLAGDLDRLVVSGRMAKRR 152 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 153 LIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQA 212 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + +++ + N R ++ + + + +P +A +L+++ Sbjct: 213 MSRALADQARTIRVPVHVVE---LIN-RVVRVQRRMLQERGYEPTP-AEVAAQLDLTPDR 267 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V + RLA + SL+A + D + D + DG +E R L Sbjct: 268 VGEV-LRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLEAV 321 Query: 232 MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R + P TLE + F V+RER+RQIE++ K+++ Sbjct: 322 LSTLGERERKVVQLRYGLMDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 374 >gi|294622679|ref|ZP_06701641.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317] gi|291597877|gb|EFF29007.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317] Length = 369 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVSLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 162 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 221 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L E+V I L +++ V SL Sbjct: 222 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQEPV-----------SLETP 267 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + E + + L + L RE + R Sbjct: 268 IGEED--DSHLGDFI---EDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGL 322 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 323 DDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 355 >gi|253701007|ref|YP_003022196.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] gi|251775857|gb|ACT18438.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] Length = 325 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 82/282 (29%), Positives = 146/282 (51%), Gaps = 21/282 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EIRK +L+ +E LA + + GD A R++ S+LRLVVKIA YR G+P+ ++ Sbjct: 54 YLIEIRKHALLDAVQEKELALKISQ-GDGDARKRMILSNLRLVVKIAKRYRNRGMPLLDI 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLF 136 + EGNIGL++AV++F + R +TY+ WWI+ +++ ++ +++ + + R+F Sbjct: 113 IEEGNIGLIKAVERFKLSKECRFSTYATWWIRQSIERALINQVRTIRLPVHVSDEINRMF 172 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 R L+ L N +P +A L ++ + + L S+ ++ Sbjct: 173 RENRVLELKL------NREP-TAKEVADNLGITVQRLRELMVVLKKTFSI-------EQP 218 Query: 197 SSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--P 252 + D+ + D D + E E +NR +++ + L+ ER+I R E+ P Sbjct: 219 MGERGDFCLTDTIQDTSTVLPTELLENQNRYELISNLLEFLSETERKILTLRFGLEDKAP 278 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 TL+ + F V+RER+RQIE +A +K++ I +L P Sbjct: 279 QTLDTIGQGFGVTRERIRQIEVKALEKLRLMIASFEDLERLP 320 >gi|227551146|ref|ZP_03981195.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus faecium TX1330] gi|257887737|ref|ZP_05667390.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,141,733] gi|257896230|ref|ZP_05675883.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com12] gi|257898868|ref|ZP_05678521.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com15] gi|293379528|ref|ZP_06625670.1| RNA polymerase sigma factor RpoD [Enterococcus faecium PC4.1] gi|293570226|ref|ZP_06681295.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E980] gi|227179708|gb|EEI60680.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus faecium TX1330] gi|257823791|gb|EEV50723.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,141,733] gi|257832795|gb|EEV59216.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com12] gi|257836780|gb|EEV61854.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com15] gi|291609633|gb|EFF38894.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E980] gi|292641837|gb|EFF60005.1| RNA polymerase sigma factor RpoD [Enterococcus faecium PC4.1] Length = 369 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVSLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 162 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 221 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L E+V I L +++ V SL Sbjct: 222 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQEPV-----------SLETP 267 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + E + + L + L RE + R Sbjct: 268 IGEED--DSHLGDFI---EDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGL 322 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 323 DDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 355 >gi|77165179|ref|YP_343704.1| RpoS [Nitrosococcus oceani ATCC 19707] gi|254434741|ref|ZP_05048249.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] gi|76883493|gb|ABA58174.1| RNA polymerase, sigma 38 subunit, RpoS [Nitrosococcus oceani ATCC 19707] gi|207091074|gb|EDZ68345.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] Length = 303 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 79/282 (28%), Positives = 143/282 (50%), Gaps = 34/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E K+P+L +EE A R + GD A + ++ S+LR+V+++A + GLP+ ++ Sbjct: 42 YMREAGKVPLLSAEEERHYA-RLAQQGDREARNHIIESNLRIVIRMATRHINRGLPLMDL 100 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV--------KIGTTA 130 + EGN+GL+ AV+KF+PE GFR +TY+ WWI+ A++ ++ + KI Sbjct: 101 IEEGNLGLIDAVEKFNPELGFRFSTYASWWIRQAIERALMNQTRTIRVPIHVFKKIRCYQ 160 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNA 188 + R F ++ HL I L E + I + L++ E IS++ L+ D+ L Sbjct: 161 KEARYFRQRYNIEPHLGEIA--KLLHEPLERIQRYLSLQAPE-ISLDDPLSEDTDDCLVD 217 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 L+ N + W ++D ++ + +S L R++ I + R Sbjct: 218 LLPDERNNPAIL--WEIFD----------------KKASIHNQLSQLPERQQEIIKCRYG 259 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + TLE + + ++RERVRQI+ A K++++ I+ + Sbjct: 260 LDGYEVTTLEEIGQKLGITRERVRQIQQTAIKRLRKIIESET 301 >gi|309792450|ref|ZP_07686915.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] gi|308225522|gb|EFO79285.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] Length = 311 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 122/241 (50%), Gaps = 12/241 (4%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H +A +L+ S+LRLVV IA Y+G+GL + +++ EG++GLM+AV KFDP RG + +T Sbjct: 69 HAGANARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSLGLMRAVDKFDPSRGLKFST 128 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ +WI+ ++ I V++ ++ L R + L D + PE+V A Sbjct: 129 YATYWIRQSVGRAIADHGRTVRLPVHLGER--LSRLARARQRLTQRLDRDPTPEEV---A 183 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +L ++ +V SL+ SD + + + D E ++ Sbjct: 184 DELGITTDQVTRAEQAALTPASLDE--THSDDGTGALAEVIS---DPLEPTPLDHVAHGL 238 Query: 224 RRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+ L +MS L RER I R E +TLE + ++RERVRQ+E+ A +K++ Sbjct: 239 LRDDLCEAMSHLTQRERSILNLRYGLEGETALTLEQIGQRLSLTRERVRQLESEALRKLR 298 Query: 282 E 282 + Sbjct: 299 D 299 >gi|269127406|ref|YP_003300776.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268312364|gb|ACY98738.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 385 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 88/306 (28%), Positives = 140/306 (45%), Gaps = 55/306 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDLS--------AAHR 52 Y+ EI ++P+L +EE LAK RE DL A R Sbjct: 93 YLREIGRVPLLTAEEEVELAKTIEAGLFAEEKLARAAFISPRERLDLELIAREGARAKQR 152 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 153 LIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQA 212 Query: 113 MQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + I ++I T N Q++L +L R + + L E+VV I Sbjct: 213 ITRAIADQARTIRIPVHMVETINKLVRVQRQLHQDLGREPTPAEIGAEMGLPAERVVEIQ 272 Query: 164 KKLNVSESEVISMNCRLAGDES-LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 + E +S+ + ++S L I +D + D E +L ER+ Sbjct: 273 RIAQ----EPVSLQSPIGEEDSDLGDFIEDADAVVPLEAAAFILLQDQLEDILCTLSERE 328 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R L ++ +PR TLE + EF V+RER+RQIE++ K++ Sbjct: 329 QRIIQLRFGLTDGHPR---------------TLEEVGREFGVTRERIRQIESKTLAKLRH 373 Query: 283 SIQKQV 288 + Q+ Sbjct: 374 PSRAQM 379 >gi|271963879|ref|YP_003338075.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270507054|gb|ACZ85332.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 392 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 87/297 (29%), Positives = 146/297 (49%), Gaps = 39/297 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-------------------YREHGDL-----SAAHRLV 54 Y+ EI ++P+L +EE LAK + E +L A RL+ Sbjct: 102 YLREIGRVPLLTAEEEVELAKSIEAGLFAEDKLTSVVSRLAFPEFKELVWQGTRAKQRLI 161 Query: 55 TSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQ 114 ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ Sbjct: 162 EANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAIT 221 Query: 115 EYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 I ++I + L R++ L PE+ IA ++++ VI Sbjct: 222 RAIADQARTIRI--PVHMVETINKLVRVQRQLHQDLGREPAPEE---IALEMDLPIDRVI 276 Query: 175 SMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 + R+A + SL + I D S D++ D V +E ++ L ++ Sbjct: 277 EIQ-RIAQEPVSLQSPIGEED---SDLGDFI---EDADAVVPMEAAAFIMLQDQLDDILA 329 Query: 234 VLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L+ RE+RI + R +P TLE + EF V+RER+RQIE++ K++ + Q+ Sbjct: 330 TLSDREQRIIQLRFGLADGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPTRAQM 386 >gi|294674467|ref|YP_003575083.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] gi|294473044|gb|ADE82433.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] Length = 290 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 79/272 (29%), Positives = 138/272 (50%), Gaps = 12/272 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + P++ EE LA+ R G A RLVT++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGRQPLVTIDEEIELAQAIRRGGPEGEKAKERLVTANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LTLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L ++ + + + V +A+ + ES++ + S++A Sbjct: 135 S---GALSKINQEINKFEQQHQRRPSVTELAELTQIEESKIEQTAKADSHHMSIDAPFGE 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQEN 251 D NS D L D + L++ E + + + R +VL RE +I E + Sbjct: 192 DDDNS--MADMLSSGEDTRTDKLVDYESLTSDLDNVLR--NVLKDRELKIVKECFGIGCQ 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + +E ++RERVRQI ++ K+ +S Sbjct: 248 ERGLEEIGAEMGLTRERVRQIREKSITKLHDS 279 >gi|78214165|ref|YP_382944.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78198624|gb|ABB36389.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9605] Length = 328 Score = 105 bits (263), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 145/276 (52%), Gaps = 22/276 (7%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRG 70 EI L+ ++ ++++ L ++E L R+R + A R++ ++LRLVV +A Y+ Sbjct: 59 EIELAHHVQAMKQLQELPEEE---LTSRHRHKIRMGKRARDRMMAANLRLVVSVAKKYQN 115 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S +++ Sbjct: 116 QGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHI 175 Query: 131 NQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 ++K +RR+ H N L+ +A + + E+ + + A SL+ Sbjct: 176 SEK--LSKMRRISRELSHRFGRQPNRLE------LASAMGIEPRELEDLISQSAPCASLD 227 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 A + S+ + L+ D +G+E +E +R ++ L +S LN RE++I + R Sbjct: 228 AHARGEEDRSTLGE--LIPDPNGEEP--MEGMDRSIQKEHLGGWLSQLNEREQKILKLRF 283 Query: 247 -RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 284 GLGGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 319 >gi|116618341|ref|YP_818712.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] gi|116097188|gb|ABJ62339.1| RNA polymerase, sigma 70 subunit, RpoD [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] Length = 432 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 135/265 (50%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ EE +AKR E+GD+ A L ++LRLVV IA Y G G+ ++ Sbjct: 162 YLKEIGRVNLLKGNEEIDIAKRI-ENGDVEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 220 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 221 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 278 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R++ L PE++ A +++++ +V + ++A + SL I D Sbjct: 279 LIRIQRQLLQDLGREPLPEEIGA---EMDLTADKVREI-LKIAQEPVSLETPIGEED--D 332 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D + + + R L + L RE + R E+ TL Sbjct: 333 SHLGDFI---EDNEAVSPADSAAYEMLREQLESVLDTLTDREENVLRLRFGLEDGRTRTL 389 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + F V+RER+RQIEA+A +K+ Sbjct: 390 EEVGRVFGVTRERIRQIEAKALRKL 414 >gi|34499137|ref|NP_903352.1| RNA polymerase sigma factor RpoS [Chromobacterium violaceum ATCC 12472] gi|34104988|gb|AAQ61344.1| RNA sigma factor RpoS [Chromobacterium violaceum ATCC 12472] Length = 316 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 146/279 (52%), Gaps = 29/279 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I +L QEE LA+R G+ A +++ +LRLVV IA Y GL + ++ Sbjct: 49 YLNDIGNNALLTPQEELALARRVVA-GEFEARQKMIEHNLRLVVNIAKHYINRGLALLDL 107 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGLM A++KFDPERGFR +TY+ WWI+ +++ I+ +++ K L Sbjct: 108 IEEGNIGLMHALEKFDPERGFRFSTYATWWIRQSIERAIMNQSRTIRLPVHV-IKELNVY 166 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS- 197 LR + HL++ E++ + K +V+++N R+A SL+A ++ S Sbjct: 167 LRASR-HLESQIGREPSVEEIAHLVGKPVEDVRKVLNLNERMA---SLDAPLDIDPMLSI 222 Query: 198 ------SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 Q ++ + H+ Q ++ + +S LN ++R + E RR N Sbjct: 223 GESIPDEQHEEPELQLHNSQLEMFVHD------------WLSQLNEKQRLVIE-RRYGLN 269 Query: 252 P---VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE L++ ++RERVRQI+ ++++ ++++ Sbjct: 270 GYEICTLEELAASLNLTRERVRQIQIEGLEQLRRILRRK 308 >gi|148543974|ref|YP_001271344.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri DSM 20016] gi|184153369|ref|YP_001841710.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri JCM 1112] gi|227364887|ref|ZP_03848933.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM2-3] gi|325682488|ref|ZP_08162005.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM4-1A] gi|148531008|gb|ABQ83007.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus reuteri DSM 20016] gi|183224713|dbj|BAG25230.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri JCM 1112] gi|227070091|gb|EEI08468.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM2-3] gi|324978327|gb|EGC15277.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM4-1A] Length = 380 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVNLLTADEEVQLALRI-EKGDEVAKQELAEANLRLVVSIAKRYVGRGMQFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD RGF+ +TY+ WWI+ A+ I ++I T N Sbjct: 173 IQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 232 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 233 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNI---LKIAQ-EPVSLETPIGEEDDSHLG 288 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 289 DFIEDQDATSPA-------DHAAYEMM----------KKQLENVLDTLTDREENVLRLRF 331 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 366 >gi|227431669|ref|ZP_03913702.1| DNA-directed RNA polymerase sigma subunit RpoD [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] gi|227352572|gb|EEJ42765.1| DNA-directed RNA polymerase sigma subunit RpoD [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] Length = 432 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 135/265 (50%), Gaps = 15/265 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L+ EE +AKR E+GD+ A L ++LRLVV IA Y G G+ ++ Sbjct: 162 YLKEIGRVNLLKGNEEIDIAKRI-ENGDVEAKQELAEANLRLVVSIAKRYVGRGMQFLDL 220 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 221 IQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 278 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNS 197 L R++ L PE++ A +++++ +V + ++A + SL I D Sbjct: 279 LIRIQRQLLQDLGREPLPEEIGA---EIDLTADKVREI-LKIAQEPVSLETPIGEED--D 332 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTL 255 S D++ D + + + R L + L RE + R E+ TL Sbjct: 333 SHLGDFI---EDNEAVSPADSAAYEMLREQLESVLDTLTDREENVLRLRFGLEDGRTRTL 389 Query: 256 ENLSSEFEVSRERVRQIEARAFKKV 280 E + F V+RER+RQIEA+A +K+ Sbjct: 390 EEVGRVFGVTRERIRQIEAKALRKL 414 >gi|149190801|ref|ZP_01869066.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Vibrio shilonii AK1] gi|148835363|gb|EDL52335.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Vibrio shilonii AK1] Length = 289 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 77/275 (28%), Positives = 145/275 (52%), Gaps = 18/275 (6%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL--- 73 S+YIH++ I +L ++EY A R GD +A L+ S+LRLVVKIA Y GL Sbjct: 21 SKYIHDVVGIDLLSPEQEYHYATLAR-RGDKAARDVLIESNLRLVVKIARNYTKRGLSNH 79 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 I +++ EGN+GL++A+ KF+PE+GFR +TY++WWI+ +++ ++ + V++ Sbjct: 80 TILDLIEEGNLGLIKAIDKFEPEKGFRFSTYAVWWIRESIESSLMNTGRTVRLPV----- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + + RL I + +P V IA+K S++++ + ++G ++ +++ Sbjct: 135 HVIKEINRLSKQTNEIIADLQRPPSVKEIAEKTAKSQAQISDL-IHMSGFIESSSSVDTI 193 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQE 250 DK ++Q + + K +++ + +S+ P + R R + Sbjct: 194 DK---EFQSLETCKSEAIPEPYDICHNEKLSQSLESVVLSL--PEKYRDIVIHRFGLFGK 248 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +TL+NL F +S+ERVRQ++ K+Q ++ Sbjct: 249 EVLTLDNLGEMFGLSKERVRQLQQEGISKLQNKLK 283 >gi|69249285|ref|ZP_00604924.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Enterococcus faecium DO] gi|257877975|ref|ZP_05657628.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933] gi|257881238|ref|ZP_05660891.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502] gi|257884904|ref|ZP_05664557.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501] gi|257889826|ref|ZP_05669479.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410] gi|258616539|ref|ZP_05714309.1| RNA polymerase sigma factor RpoD [Enterococcus faecium DO] gi|260559026|ref|ZP_05831212.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68] gi|261207559|ref|ZP_05922244.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6] gi|289565071|ref|ZP_06445524.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF] gi|293556716|ref|ZP_06675279.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039] gi|293563374|ref|ZP_06677823.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162] gi|293568034|ref|ZP_06679372.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071] gi|294614871|ref|ZP_06694766.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636] gi|294618226|ref|ZP_06697809.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679] gi|314939477|ref|ZP_07846711.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04] gi|314941108|ref|ZP_07848006.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C] gi|314949892|ref|ZP_07853194.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082] gi|314951693|ref|ZP_07854736.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A] gi|314993960|ref|ZP_07859287.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B] gi|314996911|ref|ZP_07861912.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01] gi|68194219|gb|EAN08744.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Enterococcus faecium DO] gi|257812203|gb|EEV40961.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933] gi|257816896|gb|EEV44224.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502] gi|257820742|gb|EEV47890.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501] gi|257826186|gb|EEV52812.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410] gi|260074783|gb|EEW63099.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68] gi|260077942|gb|EEW65648.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6] gi|289163078|gb|EFD10925.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF] gi|291589255|gb|EFF21065.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071] gi|291592333|gb|EFF23947.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636] gi|291595506|gb|EFF26816.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679] gi|291601048|gb|EFF31337.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039] gi|291604635|gb|EFF34120.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162] gi|313588970|gb|EFR67815.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01] gi|313591562|gb|EFR70407.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B] gi|313596157|gb|EFR75002.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A] gi|313600109|gb|EFR78952.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C] gi|313641279|gb|EFS05859.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04] gi|313643734|gb|EFS08314.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082] Length = 369 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 85/273 (31%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVSLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 162 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 221 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L E+V I L +++ V SL Sbjct: 222 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQEPV-----------SLETP 267 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I D S D++ D + E + + L + L RE + R Sbjct: 268 IGEED--DSHLGDFI---EDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGL 322 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 323 DDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 355 >gi|269792833|ref|YP_003317737.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermanaerovibrio acidaminovorans DSM 6589] gi|269100468|gb|ACZ19455.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermanaerovibrio acidaminovorans DSM 6589] Length = 387 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 87/282 (30%), Positives = 137/282 (48%), Gaps = 47/282 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE LAK E GD A +LV ++LRLVV IA Y G G+ ++ Sbjct: 121 YLREIGRIPLLSPEEEVELAKGV-EAGDKRAKEKLVEANLRLVVSIAKKYIGRGMLFLDL 179 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I A+Q R Sbjct: 180 IQEGNLGLIRAVEKFDYRKGYKFSTYATWWIRQAITRAI------------ADQARTI-- 225 Query: 139 LRRLKGHLQAITDNNLKPEQVVA-----------IAKKLNVSESEVISMNCRLAGDESLN 187 R+ H+ + ++ +V+ IA+++ V+ V + SL Sbjct: 226 --RIPVHMVETINKLIRISRVLVQRLGREPSAEEIAQEMGVTVDRVEEIQKIAQEPVSLE 283 Query: 188 ALINSSDKNSSQWQDWL------VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 I ++ SQ D+L D Q+L R L + L RE+ Sbjct: 284 TPI--GEEEDSQLGDFLEDKDLPSPDEAAANQIL---------REQLEEMLEDLTDREKE 332 Query: 242 IFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 333 VLRLRFGLEDGHSHTLEEVGRRFGVTRERIRQIEAKALRKLR 374 >gi|291515538|emb|CBK64748.1| RNA polymerase sigma factor, sigma-70 family [Alistipes shahii WAL 8301] Length = 286 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 149/271 (54%), Gaps = 16/271 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K ++ +EE LA+R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKEELITVEEEVELAQRIKK-GDQEALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + E ++ R+AG S++A + Sbjct: 135 LNKINKAFARFEQEHERTPSPEE---LATELELPK-EKVTDTLRVAGRHVSVDAPFADGE 190 Query: 195 KNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENP 252 NS D LV D ++ LI ++ + R++ L RER I + + + Sbjct: 191 DNS--LLDVLVNPDSPNADRGLI----NESLSTEVDRALETLTERERDIIKYFFGIGTSE 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F+++RERVRQI+ +A ++++ S Sbjct: 245 MTLEEIGEKFDLTRERVRQIKEKAIRRLRHS 275 >gi|302554830|ref|ZP_07307172.1| RNA polymerase sigma factor rpoD [Streptomyces viridochromogenes DSM 40736] gi|302472448|gb|EFL35541.1| RNA polymerase sigma factor rpoD [Streptomyces viridochromogenes DSM 40736] Length = 481 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 93/301 (30%), Positives = 148/301 (49%), Gaps = 37/301 (12%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ GE GL R R +P E ++R+R A LV + RLV KIA+G Sbjct: 211 LLRGGEDGLGRSDRLGRDVPAEEIAALPRGSERWR------AYECLVLHNQRLVWKIALG 264 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y+G GL ++V G IGLM+AV+KFD +GF+ +TY+ WWIK A+ I +L+++ Sbjct: 265 YQGRGLDTEDLVQHGTIGLMRAVRKFDATKGFKFSTYATWWIKQAITRAIADEGTLIRLP 324 Query: 128 TTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 ++K ++ R+L + T +N VA L +E E + R +S Sbjct: 325 AHVHEKVSKVAVAERKLLNEGRPRTVDN------VAYVSGLTFAEVEKVRRISR--STDS 376 Query: 186 LNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 L+ +I + + D ++ G + VLI KE + R+++ L+ RER + Sbjct: 377 LDRIIG----DDTALGDLIIGPSRLPGPDVVLIRKEFQARLRHVVEH----LSERERHVL 428 Query: 244 EARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 RR + P TLE++ F V+RER+RQIE +A K + + + LL +P Sbjct: 429 -VRRTGLDGDEPDTLEDIGVVFGVTRERIRQIEPKAKAKFEGQLLRH-------GLLPRP 480 Query: 301 R 301 R Sbjct: 481 R 481 >gi|194467797|ref|ZP_03073783.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus reuteri 100-23] gi|194452650|gb|EDX41548.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus reuteri 100-23] Length = 380 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVNLLTADEEVQLALRI-EKGDEVAKQELAEANLRLVVSIAKRYVGRGMQFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD RGF+ +TY+ WWI+ A+ I ++I T N Sbjct: 173 IQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 232 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 233 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNI---LKIAQ-EPVSLETPIGEEDDSHLG 288 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 289 DFIEDQDATSP-------ADHAAYEMM----------KKQLENVLDTLTDREENVLRLRF 331 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 366 >gi|160902123|ref|YP_001567704.1| RpoD family RNA polymerase sigma factor [Petrotoga mobilis SJ95] gi|160359767|gb|ABX31381.1| RNA polymerase, sigma 70 subunit, RpoD family [Petrotoga mobilis SJ95] Length = 418 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 82/270 (30%), Positives = 133/270 (49%), Gaps = 20/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L E LA+R + GD A L+ ++LRLV+ IA Y G GL ++ Sbjct: 148 YLKEISKVELLSPSRERQLARRA-QKGDQKARDELIKANLRLVISIAKRYTGRGLTFLDL 206 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGNIGL++AV KFD +GF+ +TY+ WWI+ A+ I ++I L Sbjct: 207 IQEGNIGLIKAVDKFDWRKGFKFSTYATWWIRQAITRAIADQARTIRIPV-----HLVET 261 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS--SDKN 196 + R+ ++ N +A+ L+ E ++ + SLN+ I+S D Sbjct: 262 INRMNKVIREYLQENGDYPSAQELAEILDKPEDKINEILMSAKDVLSLNSPISSGNGDDE 321 Query: 197 SSQWQDWL---VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQEN 251 S+ D++ + + Q +I KE L + LN +E + + R L Sbjct: 322 ESETGDFISTEETTPEEEAQKMIMKER-------LEEVLDTLNSKEALVLKMRYGFLDGK 374 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIE +A +K++ Sbjct: 375 QKTLEEVGQFFNVTRERIRQIETKALRKLR 404 >gi|227544906|ref|ZP_03974955.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri CF48-3A] gi|300910067|ref|ZP_07127527.1| RNA polymerase sigma factor rpoD [Lactobacillus reuteri SD2112] gi|227185118|gb|EEI65189.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri CF48-3A] gi|300892715|gb|EFK86075.1| RNA polymerase sigma factor rpoD [Lactobacillus reuteri SD2112] Length = 380 Score = 105 bits (262), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 86/275 (31%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVNLLTADEEVQLALRI-EKGDEVAKQELAEANLRLVVSIAKRYVGRGMQFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD RGF+ +TY+ WWI+ A+ I ++I T N Sbjct: 173 IQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 232 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 233 RIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNI---LKIAQ-EPVSLETPIGEEDDSHLG 288 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S DH E + + L + L RE + R Sbjct: 289 DFIEDQDATSPA-------DHAAYEMM----------KKQLENVLDTLTDREENVLRLRF 331 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 366 >gi|256545301|ref|ZP_05472665.1| RNA polymerase sigma factor RpoD [Anaerococcus vaginalis ATCC 51170] gi|256398982|gb|EEU12595.1| RNA polymerase sigma factor RpoD [Anaerococcus vaginalis ATCC 51170] Length = 614 Score = 105 bits (262), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 124/247 (50%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L ++LRLVV IA Y G G+ +++ EGN+GLM+AV K+D RGF+ +TY+ WW Sbjct: 378 AKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + ++ E+V Sbjct: 438 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEKV 497 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K E +S+ + +E S D++ ++ I + Sbjct: 498 QEIRK----IAQEPVSLETPIGEEE------------DSHLGDFI------EDDTAINPD 535 Query: 220 ERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 + N R+ L +S L RE+R+ + R + P TLE + EF+V+RER+RQIEA Sbjct: 536 DAANYSMLRDQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEA 595 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 596 KALRKLK 602 >gi|33864510|ref|NP_896070.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33641290|emb|CAE22420.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 344 Score = 105 bits (262), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 85/294 (28%), Positives = 142/294 (48%), Gaps = 37/294 (12%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLA--------------------KRYREHGDLSAAH 51 G + Y+ I ++P+L EE LA +R++ A Sbjct: 53 GTDAIGFYLSSIGRVPLLTAAEEIELAHHVQAMKELLELPEQDQTPRQRHKIRMGKRARD 112 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+++++LRLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ Sbjct: 113 RMMSANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQ 172 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNV 168 M I S +++ ++K +RR+ H N L+ +A + + Sbjct: 173 GMTRAIDNSARTIRLPIHISEK--LSKMRRISRELSHRFGRQPNRLE------LAHAMGI 224 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ++ + + A SL+A + S+ + L+ D DG E +E +R ++ L Sbjct: 225 QPQDLEDLIAQSAPCASLDAHARGEEDRSTLGE--LIPDPDGAEP--MEGLDRSIQKEHL 280 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +S LN RE++I R E P+TL + + VSRERVRQ+EA+A K+ Sbjct: 281 GGWLSQLNEREQKILRLRFGLDGEEPLTLAEIGRQISVSRERVRQLEAKAILKL 334 >gi|325849230|ref|ZP_08170681.1| RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325480230|gb|EGC83297.1| RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 612 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 124/247 (50%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L ++LRLVV IA Y G G+ +++ EGN+GLM+AV K+D RGF+ +TY+ WW Sbjct: 376 AKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + ++ E+V Sbjct: 436 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEKV 495 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K E +S+ + +E S D++ ++ I + Sbjct: 496 QEIRK----IAQEPVSLETPIGEEE------------DSHLGDFI------EDDTAINPD 533 Query: 220 ERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 + N R+ L +S L RE+R+ + R + P TLE + EF+V+RER+RQIEA Sbjct: 534 DAANYSMLRDQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEA 593 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 594 KALRKLK 600 >gi|295110289|emb|CBL24242.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus obeum A2-162] Length = 376 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 84/274 (30%), Positives = 136/274 (49%), Gaps = 31/274 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 110 YLKEIGKVSLLTADEEIELAKRM-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 169 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 228 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + + + E+V I L +S+ E +S+ + +E + Sbjct: 229 RVSRQLLQELGREPTPEEIAEEMKMPVERVREI---LKISQ-EPVSLETPIGEEEDSHLG 284 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 D N D + L+ + L + L RE+++ R Sbjct: 285 DFIQDDNVPVPADAAAF-------TLL--------KEQLIEVLGTLTEREQKVLRLRFGL 329 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 330 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 363 >gi|225018167|ref|ZP_03707359.1| hypothetical protein CLOSTMETH_02104 [Clostridium methylpentosum DSM 5476] gi|224949164|gb|EEG30373.1| hypothetical protein CLOSTMETH_02104 [Clostridium methylpentosum DSM 5476] Length = 372 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 81/270 (30%), Positives = 132/270 (48%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA++ GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGKVPLLTAEEEIDLAQKM-SAGDPYARKRLSEANLRLVVSIAKRYVGRGMQFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-K 133 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ K Sbjct: 165 IQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVK 224 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 ++ L GH + + + + V +++ E +S+ + +E Sbjct: 225 KVSSQLLHKNGHEASAEEIAEELDMPVDKVREIMRVSQEPVSLETPIGEEE--------- 275 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 S D++ E R L + L RE ++ R E+ Sbjct: 276 ---DSHLSDFIPD---DDAPAPAEAASHTLLREQLGDVLGTLTEREEKVLRLRFGLEDGR 329 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 330 SRTLEEVGKEFNVTRERIRQIEAKALRKLR 359 >gi|260436326|ref|ZP_05790296.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] gi|260414200|gb|EEX07496.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] Length = 308 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 84/282 (29%), Positives = 146/282 (51%), Gaps = 22/282 (7%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRG 70 EI L+ ++ ++++ L ++E L R+R + A R++ ++LRLVV +A Y+ Sbjct: 39 EIELAHHVQAMKQLQELPEEE---LTSRHRHKIRMGKRARDRMMAANLRLVVSVAKKYQN 95 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S +++ Sbjct: 96 QGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHI 155 Query: 131 NQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 ++K +RR+ H N L+ +A + + E+ + + A SL+ Sbjct: 156 SEK--LSKMRRISRELSHRFGRQPNRLE------LASAMGIEPRELEDLISQSAPCASLD 207 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 A + S+ + L+ D +G+E +E +R ++ L +S LN RE++I + R Sbjct: 208 AHARGEEDRSTLGE--LIPDPNGEEP--MEGMDRSIQKEHLGGWLSQLNEREQKILKLRF 263 Query: 247 -RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E P+TL + + VSRERVRQ+EA+A K++ Q Sbjct: 264 GLGGEEPLTLAEIGRQINVSRERVRQLEAKAILKLRAMTNHQ 305 >gi|284042443|ref|YP_003392783.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283946664|gb|ADB49408.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 285 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 86/278 (30%), Positives = 134/278 (48%), Gaps = 36/278 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L + E R P+L EE LA+R E GDLSA R+V S+LRLV+ IA Y+G GL + Sbjct: 18 LQLLMREARNWPLLTPAEEIELARRI-ERGDLSAKERMVNSNLRLVMSIARHYQGQGLGM 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK-R 134 ++V EG +GL++AV+KFD +GFR +TY+ WI+ ++Q + + +++ Q+ R Sbjct: 77 GDLVQEGTLGLIRAVEKFDWRKGFRFSTYATLWIRQSIQRGLENTGRTIRLPVHVGQRAR 136 Query: 135 LFFNLRR--LKGHLQAITDNN------LKPEQVVAIAKKLNVSESEVISMNCRLA--GDE 184 +RR H + TD L EQV+ + ++ E S++ + GD Sbjct: 137 KVARIRRELTAKHGRDATDEEIAEAARLPVEQVIEAGR----ADREPTSLDAPVGEDGDT 192 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 +L ALI K + D V D R + R++ L E+ + Sbjct: 193 ALGALI----KTDTPEPDEEVAD--------------TLRHETVQRAIDDLPDNEKTVIH 234 Query: 245 AR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R E P TL + VS R R+IE +A +++ Sbjct: 235 LRFGTAGEPPQTLTQIGRRLGVSSSRAREIEEQALRRL 272 >gi|255972833|ref|ZP_05423419.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T1] gi|255963851|gb|EET96327.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T1] Length = 368 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVQLLTAAEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 277 DFIEDQDATSPA-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|149377551|ref|ZP_01895291.1| group 2 sigma 70-type sigma factor F [Marinobacter algicola DG893] gi|149358164|gb|EDM46646.1| group 2 sigma 70-type sigma factor F [Marinobacter algicola DG893] Length = 332 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 78/246 (31%), Positives = 126/246 (51%), Gaps = 24/246 (9%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H S+ RL+ S+LRL V IA Y G+P+S+V+ + N+GL++AV++FDP +GFR +T Sbjct: 91 HLATSSRQRLIRSNLRLAVHIARRYANRGIPMSDVIQDANVGLIKAVERFDPTKGFRFST 150 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI ++ + R LV + + +R L+ A+ + +A Sbjct: 151 YAYWWISEEVKRCMKRGTRLVH-----TPENVVDEIRLLQRTSLALYQTLGRTPSQTELA 205 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKN-----SSQWQDWLVYDHDGQEQVLIEK 218 +++ VS S + + LA E L S++ N S D DHD + Sbjct: 206 REIEVSPSRIGELRA-LASMEVSVDLPVSTEGNITLGESLSADDQSAPDHDMAQ------ 258 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN---PVTLENLSSEFEVSRERVRQIEAR 275 ++R+ L ++ L+ RE+ + ARR + P TL+ +S + +SRERVRQIE Sbjct: 259 ---RDRKRTLATLLAELSSREKDVL-ARRYGLDLPEPETLQVISDDLGISRERVRQIEKS 314 Query: 276 AFKKVQ 281 A KK+Q Sbjct: 315 ALKKLQ 320 >gi|29376087|ref|NP_815241.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis V583] gi|227518714|ref|ZP_03948763.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0104] gi|227553323|ref|ZP_03983372.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis HH22] gi|229545861|ref|ZP_04434586.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1322] gi|229550053|ref|ZP_04438778.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29200] gi|255975889|ref|ZP_05426475.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T2] gi|256619027|ref|ZP_05475873.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 4200] gi|256762453|ref|ZP_05503033.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T3] gi|256853088|ref|ZP_05558458.1| RNA polymerase sigma-43 factor [Enterococcus faecalis T8] gi|256958944|ref|ZP_05563115.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DS5] gi|256961963|ref|ZP_05566134.1| sigma 42 [Enterococcus faecalis Merz96] gi|256965161|ref|ZP_05569332.1| sigma 42 [Enterococcus faecalis HIP11704] gi|257078975|ref|ZP_05573336.1| sigma 42 [Enterococcus faecalis JH1] gi|257082587|ref|ZP_05576948.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis E1Sol] gi|257085220|ref|ZP_05579581.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis Fly1] gi|257086781|ref|ZP_05581142.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis D6] gi|257089848|ref|ZP_05584209.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis CH188] gi|257416057|ref|ZP_05593051.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis AR01/DG] gi|257419260|ref|ZP_05596254.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis T11] gi|257422656|ref|ZP_05599646.1| RNA polymerase sigma-43 factor [Enterococcus faecalis X98] gi|293383032|ref|ZP_06628950.1| RNA polymerase sigma-43 factor [Enterococcus faecalis R712] gi|293389479|ref|ZP_06633936.1| RNA polymerase sigma-43 factor [Enterococcus faecalis S613] gi|294779115|ref|ZP_06744526.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis PC1.1] gi|300860473|ref|ZP_07106560.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TUSoD Ef11] gi|307271055|ref|ZP_07552338.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4248] gi|307273262|ref|ZP_07554508.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0855] gi|307274998|ref|ZP_07556161.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2134] gi|307278111|ref|ZP_07559195.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0860] gi|307289068|ref|ZP_07569024.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0109] gi|307292033|ref|ZP_07571902.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0411] gi|312900723|ref|ZP_07760020.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0470] gi|312903270|ref|ZP_07762450.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0635] gi|312907497|ref|ZP_07766488.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 512] gi|312910115|ref|ZP_07768962.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 516] gi|312951455|ref|ZP_07770352.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0102] gi|30179886|sp|P52329|RPOD_ENTFA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 gi|29343549|gb|AAO81311.1| RNA polymerase sigma-43 factor [Enterococcus faecalis V583] gi|227073834|gb|EEI11797.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0104] gi|227177552|gb|EEI58524.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis HH22] gi|229304757|gb|EEN70753.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29200] gi|229309016|gb|EEN75003.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1322] gi|255968761|gb|EET99383.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T2] gi|256598554|gb|EEU17730.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 4200] gi|256683704|gb|EEU23399.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T3] gi|256711547|gb|EEU26585.1| RNA polymerase sigma-43 factor [Enterococcus faecalis T8] gi|256949440|gb|EEU66072.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DS5] gi|256952459|gb|EEU69091.1| sigma 42 [Enterococcus faecalis Merz96] gi|256955657|gb|EEU72289.1| sigma 42 [Enterococcus faecalis HIP11704] gi|256987005|gb|EEU74307.1| sigma 42 [Enterococcus faecalis JH1] gi|256990617|gb|EEU77919.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis E1Sol] gi|256993250|gb|EEU80552.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis Fly1] gi|256994811|gb|EEU82113.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis D6] gi|256998660|gb|EEU85180.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis CH188] gi|257157885|gb|EEU87845.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ARO1/DG] gi|257161088|gb|EEU91048.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis T11] gi|257164480|gb|EEU94440.1| RNA polymerase sigma-43 factor [Enterococcus faecalis X98] gi|291079697|gb|EFE17061.1| RNA polymerase sigma-43 factor [Enterococcus faecalis R712] gi|291081096|gb|EFE18059.1| RNA polymerase sigma-43 factor [Enterococcus faecalis S613] gi|294453840|gb|EFG22231.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis PC1.1] gi|295112959|emb|CBL31596.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Enterococcus sp. 7L76] gi|300849512|gb|EFK77262.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TUSoD Ef11] gi|306497031|gb|EFM66579.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0411] gi|306499777|gb|EFM69138.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0109] gi|306505508|gb|EFM74694.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0860] gi|306508446|gb|EFM77553.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2134] gi|306510247|gb|EFM79271.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0855] gi|306512553|gb|EFM81202.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4248] gi|310626525|gb|EFQ09808.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 512] gi|310630611|gb|EFQ13894.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0102] gi|310633146|gb|EFQ16429.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0635] gi|311289388|gb|EFQ67944.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 516] gi|311292204|gb|EFQ70760.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0470] gi|315027303|gb|EFT39235.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2137] gi|315033932|gb|EFT45864.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0017] gi|315036941|gb|EFT48873.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0027] gi|315144454|gb|EFT88470.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2141] gi|315147227|gb|EFT91243.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4244] gi|315150574|gb|EFT94590.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0012] gi|315152521|gb|EFT96537.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0031] gi|315155799|gb|EFT99815.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0043] gi|315158034|gb|EFU02051.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0312] gi|315160483|gb|EFU04500.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0645] gi|315163977|gb|EFU07994.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1302] gi|315169073|gb|EFU13090.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1341] gi|315169690|gb|EFU13707.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1342] gi|315172348|gb|EFU16365.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1346] gi|315575904|gb|EFU88095.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309B] gi|315577570|gb|EFU89761.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0630] gi|315580556|gb|EFU92747.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309A] gi|327535095|gb|AEA93929.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis OG1RF] gi|329571347|gb|EGG53034.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1467] Length = 368 Score = 105 bits (262), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVQLLTAAEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 221 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 277 DFIEDQDATSP-------AEHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|312874241|ref|ZP_07734275.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2052A-d] gi|311090311|gb|EFQ48721.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2052A-d] Length = 382 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 133/279 (47%), Gaps = 43/279 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E+ D A L ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGRVPLLNADQEIDLAKRI-ENNDDDAKQELAEANLRLVVSIAKRYVGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 175 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 234 Query: 132 --QKRLFFNLRR------LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 Q++L +L R + + TD K +++ IA+ E +S+ + Sbjct: 235 RIQRQLLQDLGREPTPEEIGAEMDMSTD---KVREILKIAQ-------EPVSLETPIGEE 284 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D L I D S + + E+VL +R+ N+L + + R R Sbjct: 285 DDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLNDGRTR- 341 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 342 ------------TLEEVGRVFGVTRERIRQIEAKALRKL 368 >gi|323480687|gb|ADX80126.1| RNA polymerase sigma factor rpoD (Sigma-42) [Enterococcus faecalis 62] Length = 356 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 133/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 90 YLKEIGRVQLLTAAEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 148 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 149 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 208 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 209 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 264 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 265 DFIEDQDATSP-------AEHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 307 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 308 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 342 >gi|281420881|ref|ZP_06251880.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281405173|gb|EFB35853.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 287 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 78/286 (27%), Positives = 139/286 (48%), Gaps = 33/286 (11%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI L +Y+ +I +L EE LA+R R+ GD A RL ++LR VV +A Sbjct: 9 SITNRASASLEKYLQDIAHEELLSTDEEVELAQRIRK-GDRRALERLTKANLRFVVSVAK 67 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK- 125 Y+ G+ + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I LV+ Sbjct: 68 QYQNQGISLPDLINEGNVGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRLVRL 127 Query: 126 ----IGTTANQKRLFFNLRR---LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 +G+ R + K + I D PE + A K S S +S++ Sbjct: 128 PLNQVGSVNKINREMSKFEQEFERKPSVDEIADRIDLPEDKIEDAMKA-TSTSRHLSVDA 186 Query: 179 RLAGDES---LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + DE L+ + NS D + Q ++ R + R + L Sbjct: 187 PFSDDEDGSMLDLMANSDDPTDKELQ-------------------TESLRAEIERLLKTL 227 Query: 236 NPRERRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKV 280 ++++I A P +TLE + +++ ++RERVRQI+ + +++ Sbjct: 228 PDKDQKIIAAFYGIGTPELTLEEIGTKYHLTRERVRQIKEKTIRRL 273 >gi|212697198|ref|ZP_03305326.1| hypothetical protein ANHYDRO_01765 [Anaerococcus hydrogenalis DSM 7454] gi|212675973|gb|EEB35580.1| hypothetical protein ANHYDRO_01765 [Anaerococcus hydrogenalis DSM 7454] Length = 617 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 124/247 (50%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L ++LRLVV IA Y G G+ +++ EGN+GLM+AV K+D RGF+ +TY+ WW Sbjct: 381 AKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + ++ E+V Sbjct: 441 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEKV 500 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K E +S+ + +E S D++ ++ I + Sbjct: 501 QEIRK----IAQEPVSLETPIGEEE------------DSHLGDFI------EDDTAINPD 538 Query: 220 ERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 + N R+ L +S L RE+R+ + R + P TLE + EF+V+RER+RQIEA Sbjct: 539 DAANYSMLRDQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEA 598 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 599 KALRKLK 605 >gi|153813734|ref|ZP_01966402.1| hypothetical protein RUMOBE_04167 [Ruminococcus obeum ATCC 29174] gi|149830174|gb|EDM85267.1| hypothetical protein RUMOBE_04167 [Ruminococcus obeum ATCC 29174] Length = 330 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 80/270 (29%), Positives = 132/270 (48%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L EE LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 64 YLKEIGKVSLLTADEEIELAKRM-EQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDL 122 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 123 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 180 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE++ K E++ ++ E ++ ++ S Sbjct: 181 LIRVSRQLLQELGREPTPEEIAEEMKMPVDRVREILKIS-----QEPVSLETPIGEEEDS 235 Query: 199 QWQDWLVYDH-----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D++ D+ D L+ + L + L RE+++ R ++ Sbjct: 236 HLGDFIQDDNVPVPADAAAFTLL--------KEQLIEVLGTLTEREQKVLRLRFGLDDGR 287 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 288 ARTLEEVGKEFNVTRERIRQIEAKALRKLR 317 >gi|300087894|ref|YP_003758416.1| RNA polymerase sigma 70 subunit RpoD subfamily [Dehalogenimonas lykanthroporepellens BL-DC-9] gi|299527627|gb|ADJ26095.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dehalogenimonas lykanthroporepellens BL-DC-9] Length = 502 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 79/243 (32%), Positives = 125/243 (51%), Gaps = 30/243 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A + G G+P+ +++ EGNIGL++AV+KFD RGF+ +TY+ WW Sbjct: 265 AERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFSTYATWW 324 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ + + L R + + L PE+V Sbjct: 325 IRQAITRAIADQARTIRIPVHMVETINKLLSISRSMSQKLGREPTPDEIAAEMELPPEKV 384 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK VS+ V S+ + +E + D+N+ D Q+L E+ Sbjct: 385 REIAK---VSQLPV-SLESPIGEEEDSHLGDFIEDQNALPPPDA------ASRQLLKEQ- 433 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + L PRERR+ + R E+ TLE + EF V+RER+RQIEA+A Sbjct: 434 --------IDNVLDSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKAL 485 Query: 278 KKV 280 +K+ Sbjct: 486 RKL 488 >gi|164688461|ref|ZP_02212489.1| hypothetical protein CLOBAR_02106 [Clostridium bartlettii DSM 16795] gi|164602874|gb|EDQ96339.1| hypothetical protein CLOBAR_02106 [Clostridium bartlettii DSM 16795] Length = 306 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 88/287 (30%), Positives = 143/287 (49%), Gaps = 31/287 (10%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N + +VN + + Y+ EI KIP+L +QEE +AKR E GD A LV S+LRLVV I Sbjct: 23 NSNNLVNLDDSMKIYLKEIGKIPLLSRQEELDIAKRICE-GDEVAKKILVESNLRLVVSI 81 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y + + +++ EG +GL++A +KFD +GF+ +TY+ WWIK + I + Sbjct: 82 ARKYARKEMAMLDLIQEGTLGLIRAAEKFDYTKGFKFSTYATWWIKQGITRAIADQSRTI 141 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 ++ +K + + L KPE+ IAK+++V +V+ + + Sbjct: 142 RVPVHMVEK--INKVSTISSQLAKELGREPKPEE---IAKRMHVPVEKVVQVIRISQRPQ 196 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS---------MSVL 235 S+ + I D EQV+ +KE + ++TRS + L Sbjct: 197 SIESTIGQEDDTE-------------LEQVIPDKEAH-SPEEIVTRSLLKDQIEYVLDTL 242 Query: 236 NPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + RE+ + + R L + TLE + F V+RER RQIE +A +K+ Sbjct: 243 SEREKGVIKLRFGLGDGEKKTLEEVGRAFNVTRERARQIEKKALRKL 289 >gi|40353297|gb|AAR84412.1| essential primary sigma 70 factor [Frankia sp. EaI-12] Length = 409 Score = 105 bits (262), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 91/310 (29%), Positives = 148/310 (47%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------------------DLSAAHR------ 52 Y+ EI K+P+L +E+ LAKR E G DL A R Sbjct: 115 YLKEIGKVPLLTAEEQVDLAKRI-EAGLFASDKLAVATKKTSPQMRRDLEAIERDGQIAK 173 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 174 RKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 233 Query: 111 AAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 234 QAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKVRE 293 Query: 162 IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I L VS+ E +S+ + +E L I D V D +L++++ Sbjct: 294 I---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQEQ 340 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 341 --------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTL 392 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 393 SKLRHPSRSQ 402 >gi|86130344|ref|ZP_01048944.1| RNA polymerase sigma factor RpoD [Dokdonia donghaensis MED134] gi|332293359|ref|YP_004431968.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] gi|85819019|gb|EAQ40178.1| RNA polymerase sigma factor RpoD [Dokdonia donghaensis MED134] gi|332171445|gb|AEE20700.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] Length = 288 Score = 105 bits (261), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 81/285 (28%), Positives = 148/285 (51%), Gaps = 32/285 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ ++ KI ++ +EE LA+R + GD A L ++LR V+ +A Y+ GL + Sbjct: 18 LNNYLQDVSKIDLITAEEEVELAQRI-QKGDERALDALTRANLRFVISVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + I V++ N+ Sbjct: 77 SDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQAIAEHARTVRL--PLNKIGE 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 + + +LQ + + KP IAK L++SE +V +SM+ A E+ Sbjct: 135 ISKINKAMVYLQQVHER--KPTS-GEIAKYLDISEEKVKISLKNVSRSLSMDAPFAEGEN 191 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 N L + + S D + QE + IE + R++ L +E + Sbjct: 192 DNNLYDVLSSSESPRPDRELM----QESLSIE----------INRALDTLTEKEAEVVRL 237 Query: 246 RR-LQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L P +TL+ + F++SRERVRQI +A K+++ + + ++ Sbjct: 238 NYGLGNQPAMTLQEIGDIFDLSRERVRQIREKAIKRLRHTSKSKI 282 >gi|269925873|ref|YP_003322496.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789533|gb|ACZ41674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 326 Score = 105 bits (261), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 87/306 (28%), Positives = 140/306 (45%), Gaps = 54/306 (17%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE--------HGDLS-------------- 48 E +S Y+ +I IP+L EE LAK + H DLS Sbjct: 29 GSEDSVSVYLRDIGAIPLLTPMEEIALAKAIEKGRQATRKLHQDLSPEEREAALRDKERG 88 Query: 49 --AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A R++ +LRLVV IA Y G GLP+S+++ EGN+GLM+A KFD RG+R +TY+ Sbjct: 89 EMARRRMIECNLRLVVSIARRYAGRGLPLSDLIEEGNLGLMRAADKFDYRRGYRFSTYAT 148 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ + +V++ + L N+ ++ L E+ IA +L Sbjct: 149 WWIRQAVTRALASQSRVVRLPVHVTE--LMHNITKVSHRLSQELGREPTSEE---IAAEL 203 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 N++ E + ++ +S S Q + D DG + +IE ++ + Sbjct: 204 NITP-------------ERVREVVKASQYPMSLEQPY-GEDGDGTVEEIIEDPNIESPAD 249 Query: 227 MLTRS---------MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 ++R + L RER++ + R + TLE + V+RER+RQIE Sbjct: 250 QVSRDILREQILALLDDLTDRERQVLDLRYGLTGNHSYTLEEVGKVLGVTRERIRQIEKE 309 Query: 276 AFKKVQ 281 A K++ Sbjct: 310 ALSKLR 315 >gi|33866957|ref|NP_898516.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639558|emb|CAE08942.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] Length = 467 Score = 105 bits (261), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 117/238 (49%), Gaps = 17/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 227 AKDHMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 286 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ M I +++ +K L R+K Q I N + + +A+ L + Sbjct: 287 IRQGMTRAIATQSRTIRLPVHVTEK-----LNRIKRAQQEIATNEGRIASIADLARALKL 341 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL+ + +Q D + EQ L E + ++L Sbjct: 342 SEDTVRQTLARVPRSVSLDTRVGRD--QDTQLGDLIEDGKATPEQTLTHDELHNDLEHLL 399 Query: 229 ----TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +R +VL RR F + P TL + ++SRERVRQIE RA K+++ Sbjct: 400 DELTSREAAVL----RRRFGLE--DDTPQTLAQIGEALKLSRERVRQIETRALLKLRQ 451 >gi|292491540|ref|YP_003526979.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] gi|291580135|gb|ADE14592.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] Length = 311 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/271 (28%), Positives = 138/271 (50%), Gaps = 14/271 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ + K P+L +EE A R + GD A R++ S+LR+V+K+A + GLP+ ++ Sbjct: 42 YMRDAGKAPLLSAEEEKHYA-RLAQQGDRKARDRMIESNLRMVIKMATRHVNRGLPLMDL 100 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL+ AV+KFDPE GFR +TY+ WWI+ A++ ++ V+I + Sbjct: 101 IEEGNLGLIHAVEKFDPELGFRFSTYASWWIEQAIERALMNQVRTVRIPV-----HVLKT 155 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +RR + + + + ++ IAK LN ++ + SLN + S+ N Sbjct: 156 IRRYQREAKRLGQTHNTEPRLEEIAKALNEPLEKIQRYLSFQIPETSLNDPL--SEDNED 213 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D L+ D +L E ++ + +S L R++ + + R + TLE Sbjct: 214 CLAD-LLPDERNNPAILWEI---FDKNITINHQLSQLTDRQQEVLKRRYGLDGYEATTLE 269 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + ++RERVRQI+ A K+++ ++ + Sbjct: 270 EVGQTIGITRERVRQIQQTAIKRLRAIVESE 300 >gi|116074180|ref|ZP_01471442.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] gi|116069485|gb|EAU75237.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] Length = 364 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 120/248 (48%), Gaps = 15/248 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L KR RE A R++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP Sbjct: 114 LQKRLRE--GRRARDRMIQANLRLVVTVAKKYQQRGLELLDLVQEGTLGLERAVEKFDPT 171 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 RGFR +TY+ WWI+ + I +++ +K L R+K Q I N + Sbjct: 172 RGFRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEK-----LNRIKKVQQEIATNEGRI 226 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + +++ L +SE V R+ SL + +Q D L H EQ L Sbjct: 227 ASISDLSRALGISEETVRLTLMRVPRSVSLETRVGKD--QDTQLGDLLEDCHATPEQTLT 284 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEA 274 + + +L L RE + R E+ P+TL + +SRERVRQIE Sbjct: 285 KNSLHSDLEELL----GELTAREAEVIRRRFGLEDDTPLTLAEIGETMGLSRERVRQIET 340 Query: 275 RAFKKVQE 282 RA K+++ Sbjct: 341 RALLKLRQ 348 >gi|108805110|ref|YP_645047.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108766353|gb|ABG05235.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 366 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 86/281 (30%), Positives = 137/281 (48%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAK G + +LV ++LRLVV IA YR G+ ++ Sbjct: 100 YLAEIGRVPLLTHADEIRLAKAI-SRGCKRSKDKLVEANLRLVVSIAKKYRNRGVSFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLF 136 + EGNIGL++A +KFD +GF+ +TY+ WWI+ A+ I ++I +K + Sbjct: 159 IQEGNIGLIRAAEKFDYRKGFKFSTYATWWIRQAITRAIADKGRTIRIPVHMVEKVNKYH 218 Query: 137 FNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSE--SEVISMNCRLAGDESLNALINSS 193 RR+ L + TD + E V + + L + E IS+ + DE Sbjct: 219 RTQRRMTQALGREPTDEEVAEELGVPVEEVLRLQEISQRSISLETPVGDDE--------- 269 Query: 194 DKNSSQWQDWL-----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-- 246 SS D+L V D + L+ + L ++ L RER+I E R Sbjct: 270 ---SSSLGDFLEDASAVTPTDAVSESLL--------KLHLREALDELPERERQIIEMRFG 318 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + P TLE + EF+++RERVRQI+ + ++E + Q Sbjct: 319 MKDDRPRTLEEVGREFDITRERVRQIQMKTLNLLREQRRTQ 359 >gi|218282286|ref|ZP_03488585.1| hypothetical protein EUBIFOR_01167 [Eubacterium biforme DSM 3989] gi|218216721|gb|EEC90259.1| hypothetical protein EUBIFOR_01167 [Eubacterium biforme DSM 3989] Length = 409 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 88/299 (29%), Positives = 146/299 (48%), Gaps = 54/299 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYRE---------HGDLS----------------AAHRL 53 Y+ EI +IP+L+ +EE ++A++ +E + DLS A L Sbjct: 116 YLKEIGQIPLLDPKEEPIIARQIQEGEQAKEDIKNPDLSEEEKKKLAKIIADGEEAKQTL 175 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 ++S+LRLVV IA Y G G+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ ++ Sbjct: 176 ISSNLRLVVSIAKKYVGRGMLFLDLIQEGNCGLIKAVEKFDYTKGFKFSTYATWWIRQSI 235 Query: 114 QEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 I ++I T N+ L R++ L + PE+ IA+K+ Sbjct: 236 TRAIADQARTIRIPVHMVETINK------LTRIQRQLVQDLGRDPMPEE---IAEKMENI 286 Query: 170 ESEVISMNCRLAGDE-SLNALINSSDK----NSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +E + ++A D SL I D + + +D L D Q+L Sbjct: 287 SAEKVREIQKIALDPVSLETPIGEEDDSHLGDFIEDKDTLSPDDYTNNQLL--------- 337 Query: 225 RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ + + L RE ++ R L TLE + EF V+RER+RQIEA+A +K++ Sbjct: 338 KDEINAVLQGLTEREEKVLRLRFGLLDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLK 396 >gi|154249128|ref|YP_001409953.1| RpoD family RNA polymerase sigma factor [Fervidobacterium nodosum Rt17-B1] gi|154153064|gb|ABS60296.1| RNA polymerase, sigma 70 subunit, RpoD family [Fervidobacterium nodosum Rt17-B1] Length = 372 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 139/275 (50%), Gaps = 33/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ +I KI +L EE LA+R + GD A L+ S+LRLVV +A Y G GL ++ Sbjct: 101 YLRDIGKIRLLTPSEEKRLAQRA-QMGDQRAKEELIISNLRLVVSMAKRYLGKGLSFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EG++GL++AV+KFD +G++ +TY+ WWI+ A+ I +++ T N+ Sbjct: 160 IQEGSLGLIKAVEKFDWSKGYKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKIQ 219 Query: 133 --KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 KR + + ++ I + KP V I + L + + SL + Sbjct: 220 KIKREYVQEHGEEPSIEYIAEQVGKP--VDKIEEILQAAPETL-----------SLETPV 266 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARRL 248 N D +S + D E + K+E R R + + + LN RE+++ + R Sbjct: 267 NEEDDSS-------MGDFIADESIGSPKKEAIRTLMREEIDKLLETLNDREKKVLKMRYG 319 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N P+TLE + F V+RER+RQIE +A +K++ Sbjct: 320 LYNGKPMTLEEVGQFFGVTRERIRQIEVKALRKLR 354 >gi|227486750|ref|ZP_03917066.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] gi|227235220|gb|EEI85235.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] Length = 601 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 124/247 (50%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L ++LRLVV IA Y G G+ +++ EGN+GLM+AV K+D RGF+ +TY+ WW Sbjct: 365 AKEKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 424 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + ++ E+V Sbjct: 425 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIADIMGIEVEKV 484 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K +++ V SL I D S D++ ++ I+ Sbjct: 485 SEIRK---IAQEPV-----------SLETPIGEED--DSHLGDFI------EDDTAIDPG 522 Query: 220 ERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 E N R L +S L RE+R+ + R + P TLE + EF+V+RER+RQIEA Sbjct: 523 EAANYTMLREQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEA 582 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 583 KALRKLK 589 >gi|121604510|ref|YP_981839.1| RpoD family RNA polymerase sigma factor [Polaromonas naphthalenivorans CJ2] gi|120593479|gb|ABM36918.1| RNA polymerase, sigma 70 subunit, RpoD [Polaromonas naphthalenivorans CJ2] Length = 736 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 124/237 (52%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 496 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 555 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKL 166 WI+ A+ I ++I + + RL + HLQ +P+ + +A+K+ Sbjct: 556 WIRQAITRSIADQARTIRI--PVHMIETINKMNRLSRQHLQEF---GFEPDASI-LAEKM 609 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E E I ++A E ++ D + S D++ DG +E + R+ Sbjct: 610 EIPE-EKIRKIMKIA-KEPISMETPIGDDDDSHLGDFI---EDGANTAPLEAAMQAGLRD 664 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 665 VVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 721 >gi|57505389|ref|ZP_00371317.1| RNA polymerase sigma factor RpoD [Campylobacter upsaliensis RM3195] gi|57016214|gb|EAL53000.1| RNA polymerase sigma factor RpoD [Campylobacter upsaliensis RM3195] Length = 619 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/250 (33%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 378 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ N K V IAK Sbjct: 438 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KNGKEPDVNDIAK 488 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + +E DKNS D ++ D D +EQ+ Sbjct: 489 EVGLSVDKVKQVIKITKEPISLEAPIGSEEDGKFGDFVEDKNSLSPMDNILKD-DLKEQI 547 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 548 --------------DEVLDQLNDREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQ 593 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 594 IESSAIKKLK 603 >gi|268319377|ref|YP_003293033.1| DNA-directed RNA polymerase sigma factor RpoD (Sigma-70) [Lactobacillus johnsonii FI9785] gi|262397752|emb|CAX66766.1| DNA-directed RNA polymerase sigma factor RpoD (Sigma-70) [Lactobacillus johnsonii FI9785] Length = 372 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVSLLNADQEIALAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 225 RIQRQLLQDLGREPTPEEIGAEMDMPTDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + E+VL +R+ N+L + + R R Sbjct: 281 DFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLDDGRTR------- 331 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 ------TLEEVGKVFGVTRERIRQIEAKALRKL 358 >gi|259500591|ref|ZP_05743493.1| RNA polymerase sigma factor rpoD [Lactobacillus iners DSM 13335] gi|302191282|ref|ZP_07267536.1| RNA polymerase sigma factor RpoD [Lactobacillus iners AB-1] gi|309805231|ref|ZP_07699283.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 09V1-c] gi|309807583|ref|ZP_07701535.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 01V1-a] gi|312871770|ref|ZP_07731858.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 3008A-a] gi|312875648|ref|ZP_07735649.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2053A-b] gi|325912054|ref|ZP_08174452.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 143-D] gi|259167975|gb|EEW52470.1| RNA polymerase sigma factor rpoD [Lactobacillus iners DSM 13335] gi|308165465|gb|EFO67696.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 09V1-c] gi|308169189|gb|EFO71255.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 01V1-a] gi|311088902|gb|EFQ47345.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2053A-b] gi|311092712|gb|EFQ51068.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 3008A-a] gi|325476004|gb|EGC79172.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 143-D] Length = 382 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 133/279 (47%), Gaps = 43/279 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E+ D A L ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGRVPLLNADQEIDLAKRI-ENNDDEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 175 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 234 Query: 132 --QKRLFFNLRR------LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 Q++L +L R + + TD K +++ IA+ E +S+ + Sbjct: 235 RIQRQLLQDLGREPTPEEIGAEMDMSTD---KVREILKIAQ-------EPVSLETPIGEE 284 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D L I D S + + E+VL +R+ N+L + + R R Sbjct: 285 DDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLNDGRTR- 341 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 342 ------------TLEEVGRVFGVTRERIRQIEAKALRKL 368 >gi|42519241|ref|NP_965171.1| RNA polymerase sigma factor RpoD [Lactobacillus johnsonii NCC 533] gi|41583529|gb|AAS09137.1| RNA polymerase sigma factor RpoD [Lactobacillus johnsonii NCC 533] gi|329667249|gb|AEB93197.1| RNA polymerase sigma factor RpoD [Lactobacillus johnsonii DPC 6026] Length = 372 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVSLLNADQEIALAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 225 RIQRQLLQDLGREPTPEEIGAEMDMPTDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + E+VL +R+ N+L + + R R Sbjct: 281 DFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLDDGRTR------- 331 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 ------TLEEVGKVFGVTRERIRQIEAKALRKL 358 >gi|108762696|ref|YP_629049.1| RNA polymerase sigma-32 factor family protein [Myxococcus xanthus DK 1622] gi|108466576|gb|ABF91761.1| RNA polymerase sigma-32 factor family protein [Myxococcus xanthus DK 1622] Length = 273 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 76/220 (34%), Positives = 118/220 (53%), Gaps = 8/220 (3%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V HL+LV ++A YR GL + E+V+EGN+GLM+A +F+ ERG A Y+ WI+A + Sbjct: 35 VREHLKLVRRLAWKYRWTGLSMEELVAEGNVGLMEAAGRFE-ERGVPFAAYASQWIRARI 93 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 + Y+ R+WS+ + F LRR + L+A PE +A+ L E EV Sbjct: 94 RAYVGRNWSM----AGGRAPWVVFQLRRERSRLEARWGEG-HPEVEKRLAEALGKREDEV 148 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 L+ D SL+A + S D +++ + L+ D D QE + + + R + + Sbjct: 149 ALAMEALSRDVSLDAPV-SPDSEATRLEG-LMADADSQEDQVDRAKWARRLRASVDAAWP 206 Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 L+ RER + E R L E+ V+ E L+ F V+ R+RQIE Sbjct: 207 ELDARERALVEERMLAEDGVSAELLARRFGVTAVRIRQIE 246 >gi|227890104|ref|ZP_04007909.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus johnsonii ATCC 33200] gi|227849548|gb|EEJ59634.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus johnsonii ATCC 33200] Length = 372 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVSLLNADQEIALAKRI-ESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 225 RIQRQLLQDLGREPTPEEIGAEMDMPTDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + E+VL +R+ N+L + + R R Sbjct: 281 DFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLDDGRTR------- 331 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 ------TLEEVGKVFGVTRERIRQIEAKALRKL 358 >gi|88809396|ref|ZP_01124904.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88786615|gb|EAR17774.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 339 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 87/294 (29%), Positives = 142/294 (48%), Gaps = 37/294 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------KRYREHGDLSAAHRLVTSHL 58 Y+ I ++P+L EE LA +R+R A R++ ++L Sbjct: 55 YLSTIGRVPLLTAAEEIELAHHVQAMKELLDVPEDERTPRQRHRIRMGKRARDRMMAANL 114 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 115 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 174 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 S +++ ++K +RR+ H N L+ + IA + ++ E S Sbjct: 175 NSARTIRLPIHISEK--LSKMRRITRELSHRFGRQPNRLELSNAMGIAPR-DLEELIAQS 231 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 C SL+A + S+ + L+ D +G E +E +R ++ L +S L Sbjct: 232 APC-----ASLDAHARGEEDRSTLGE--LIPDPNGDEP--MEGMDRSIQKEHLGGWLSQL 282 Query: 236 NPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 N RE++I R + P+TL + + VSRERVRQ+EA+A K++ +Q Sbjct: 283 NEREQKILRLRFGLDGAEPLTLAEIGRQINVSRERVRQLEAKAILKLRTMTDQQ 336 >gi|444799|prf||1908232B RNA polymerase:SUBUNIT=sigma factor Length = 340 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 140/271 (51%), Gaps = 22/271 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI + P++ EE LA+ G+ + A L ++LRLVV IA Y G G Sbjct: 72 YLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGNQFL 131 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 132 DLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 189 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDK 195 L R++ +L + PE+ I K+L+++ +V + ++A + SL I D Sbjct: 190 NKLIRVQRNLLQELGRDPSPEE---IGKELHMAPDKVREV-LKIAQEPVSLETPIGEED- 244 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR-RLQEN 251 S D++ ++ V+ + NR R L M L RE + R L + Sbjct: 245 -DSHLGDFI------EDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDG 297 Query: 252 PV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE++ +F+V+RER+RQIEA+A KK++ Sbjct: 298 RMHTLEDVGKQFKVTRERIRQIEAKAIKKLR 328 >gi|309803186|ref|ZP_07697283.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 11V1-d] gi|309806578|ref|ZP_07700575.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 03V1-b] gi|312872984|ref|ZP_07733044.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2062A-h1] gi|315653573|ref|ZP_07906493.1| RNA polymerase sigma factor rpoD [Lactobacillus iners ATCC 55195] gi|325912624|ref|ZP_08175007.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 60-B] gi|329920166|ref|ZP_08276997.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 1401G] gi|308164694|gb|EFO66944.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 11V1-d] gi|308166998|gb|EFO69180.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 03V1-b] gi|311091506|gb|EFQ49890.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2062A-h1] gi|315488935|gb|EFU78577.1| RNA polymerase sigma factor rpoD [Lactobacillus iners ATCC 55195] gi|325478045|gb|EGC81174.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 60-B] gi|328936620|gb|EGG33064.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 1401G] Length = 382 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 133/279 (47%), Gaps = 43/279 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E+ D A L ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGRVPLLNADQEIDLAKRI-ENNDDEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 175 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 234 Query: 132 --QKRLFFNLRR------LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 Q++L +L R + + TD K +++ IA+ E +S+ + Sbjct: 235 RIQRQLLQDLGREPTPEEIGAEMDMSTD---KVREILKIAQ-------EPVSLETPIGEE 284 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D L I D S + + E+VL +R+ N+L + + R R Sbjct: 285 DDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLNDGRTR- 341 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 342 ------------TLEEVGRVFGVTRERIRQIEAKALRKL 368 >gi|126699102|ref|YP_001087999.1| RNA polymerase sigma factor rpoD [Clostridium difficile 630] gi|115250539|emb|CAJ68363.1| RNA polymerase sigma factor SigA2 (sigma-43) [Clostridium difficile] Length = 296 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/269 (28%), Positives = 145/269 (53%), Gaps = 11/269 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + Y+ EI + ML EE LAK + A + + S+ RLVV IA Y+ + Sbjct: 25 AMKMYLKEIEEYKMLSAGEEVELAKEIINSSSV-AKEKFINSNYRLVVSIAKRYKRDSID 83 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ GNIGL++AV+K+D ++G++ +TY+ WWIK ++ YI + ++I +Q+ Sbjct: 84 MLDLIQAGNIGLIKAVEKYDYKKGYKFSTYATWWIKQSITRYIDDCENTIRIPIHLHQRI 143 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 F +K Q + + L+ + IA + +V+ + R SL+ + D Sbjct: 144 NF-----VKKKKQELLNVLLREPTIDEIADACGLEVDKVLELLRRDKNVVSLDTPL-KED 197 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENP 252 ++SS +++ D D ++ V+I + E+ N + + ++ L +E+++ R ++P Sbjct: 198 EDSS-LVEFIPSDADFKD-VVIHEVEQHNLKEKIEELLTGLGEQEQQVLRMRFGIDDDDP 255 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 256 KTLEQIGKVFGVTRERIRQIEAKAIRKLR 284 >gi|309810147|ref|ZP_07703992.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 2503V10-D] gi|308169419|gb|EFO71467.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 2503V10-D] Length = 382 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 133/279 (47%), Gaps = 43/279 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E+ D A L ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGRVPLLNADQEIDLAKRI-ENNDDEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 175 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 234 Query: 132 --QKRLFFNLRR------LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 Q++L +L R + + TD K +++ IA+ E +S+ + Sbjct: 235 RIQRQLLQDLGREPTPEEIGAEMDMSTD---KVREILKIAQ-------EPVSLETPIGEE 284 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D L I D S + + E+VL +R+ N+L + + R R Sbjct: 285 DDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLNDGRTR- 341 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 342 ------------TLEEVGRVFGVTRERIRQIEAKALRKL 368 >gi|227499774|ref|ZP_03929874.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] gi|227218160|gb|EEI83426.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] Length = 606 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 124/247 (50%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L ++LRLVV IA Y G G+ +++ EGN+GLM+AV K+D RGF+ +TY+ WW Sbjct: 370 AKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 429 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + ++ ++V Sbjct: 430 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVDKV 489 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K +S+ V SL I D S D++ ++ ++ Sbjct: 490 QEIRK---ISQEPV-----------SLETPIGEED--DSHLGDFI------EDDTAVDPG 527 Query: 220 ERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 E N R L +S L RE+R+ + R + P TLE + EF+V+RER+RQIEA Sbjct: 528 EAANYTMLREQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEA 587 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 588 KALRKLK 594 >gi|327538655|gb|EGF25307.1| RNA polymerase sigma factor rpoS [Rhodopirellula baltica WH47] Length = 330 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 142/277 (51%), Gaps = 25/277 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L +EE LA R GD+ A ++V ++LRLVV I+ GY G GL + Sbjct: 63 LETYLREINETPLLSAEEELELAARI-AQGDVMARDQMVRANLRLVVNISRGYTGKGLGL 121 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP G R +TY+ +WIK +++ ++ S ++I A L Sbjct: 122 QDLIEEGNLGLLRAVEGFDPIHGTRFSTYASYWIKQSIKRALINSAKTIRI--PAYMVEL 179 Query: 136 FFNLRRLKGHLQ---AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 RR L T N + +V+ + KK + I +N NS Sbjct: 180 LSKWRRATARLNEELGRTPTNEEVARVLGLPKKKLPIIRKAIKIN-------------NS 226 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 + ++ W + D E++ EE + ++L +MS+L E R +L+ Sbjct: 227 TPQSDQTEAGWSLGDMVQDERLKAPDEEMLD-HDILKHAMSLLGDLEERESTVLKLRFGL 285 Query: 252 ----PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P+TL+ + +E ++RERVRQIE A +++ + + Sbjct: 286 GGVEPMTLKEIGAELGLTRERVRQIETEALRRLADGL 322 >gi|261416342|ref|YP_003250025.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|261372798|gb|ACX75543.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|302326200|gb|ADL25401.1| RNA polymerase sigma-70 factor [Fibrobacter succinogenes subsp. succinogenes S85] Length = 282 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 81/283 (28%), Positives = 147/283 (51%), Gaps = 22/283 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 Y ++ + P L QEE L K + E SA RL+ +LR VV +A Y+G GL Sbjct: 9 YFRDLNRYPTLTPQEESALLKIIKNGETEEIRKSALQRLIRGNLRFVVSVARKYQGRGLS 68 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGN+GL +A K+FD ++ + +Y++WWI+ ++Q+ + V+I N+ Sbjct: 69 LLDLINEGNLGLFKAAKRFDMDKDVKFISYAVWWIRQSIQKALFEQVGAVRI--PPNKLA 126 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL-NVSESEV-ISMNCRLAGDESLNALINS 192 L +R D + E+ + + V E V IS++ + D A ++S Sbjct: 127 LVNRFKRALMQNGGDYDKTISMEEFAPYERDIVEVMEKIVDISLDAPIGDD----AGVSS 182 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER---RIFEARRLQ 249 +D S+ V DG + +E+EERK ++ ++S L RE R+F Sbjct: 183 ADSVSTLMD---VLGSDGNQDEDMEREERK---KLIQETLSSLPQREEEILRMFYGLDTV 236 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 E+ TL+++ + ++SRERVRQI+ + +++Q+S + + +L+ Sbjct: 237 ED-TTLKDIGEDLKLSRERVRQIKNKTLRRLQKSKEHKEKLAD 278 >gi|167754493|ref|ZP_02426620.1| hypothetical protein ALIPUT_02789 [Alistipes putredinis DSM 17216] gi|167659118|gb|EDS03248.1| hypothetical protein ALIPUT_02789 [Alistipes putredinis DSM 17216] Length = 286 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 149/271 (54%), Gaps = 16/271 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K ++ +EE LA+R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKEELITVEEEVELAQRIKK-GDQEALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + E ++ R+AG S++A + Sbjct: 135 LNKINKAFARFEQEHERTPSPEE---LANELELPK-EKVTDTLRVAGRHVSVDAPFADGE 190 Query: 195 KNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENP 252 NS D LV D ++ LI ++ + R++ L RER I + + + Sbjct: 191 DNS--LLDVLVNPDSPNADRGLI----NESLSTEVDRALETLTERERDIIKYFFGIGCSE 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F+++RERVRQI+ +A ++++ S Sbjct: 245 MTLEEIGEKFDLTRERVRQIKEKAIRRLRHS 275 >gi|167755652|ref|ZP_02427779.1| hypothetical protein CLORAM_01167 [Clostridium ramosum DSM 1402] gi|237734400|ref|ZP_04564881.1| RNA polymerase sigma factor rpoD [Mollicutes bacterium D7] gi|167704591|gb|EDS19170.1| hypothetical protein CLORAM_01167 [Clostridium ramosum DSM 1402] gi|229382630|gb|EEO32721.1| RNA polymerase sigma factor rpoD [Coprobacillus sp. D7] Length = 417 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 86/278 (30%), Positives = 143/278 (51%), Gaps = 38/278 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAK+ E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 149 YLKEIGRVELLTHDEEIDLAKKILE-GDEDAKKELAAANLRLVVSIAKRYVGRGMLFLDL 207 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------T 129 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T Sbjct: 208 IQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLT 267 Query: 130 ANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDES 185 Q++L L R + + I + + + PE+V I +K+++ E +S+ + D Sbjct: 268 RIQRQLIQELGR-EPSAEEIAEKMDGMTPEKVREI-QKISL---EPVSLETPIGEEDDSH 322 Query: 186 LNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 L I D+ + D+ + D +VL+E +R+ + +L + + R R Sbjct: 323 LGDFI--EDEGAMSPDDYAANELLKDELNEVLLELTDREEK--VLRLRFGLDDGRTR--- 375 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + EF V+RER+RQIEA+A +K++ Sbjct: 376 ----------TLEEVGKEFSVTRERIRQIEAKALRKLK 403 >gi|769798|emb|CAA60113.1| sigma 42 [Enterococcus faecalis] Length = 368 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 85/275 (30%), Positives = 132/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGRVQLLTAAEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 161 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 220 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 221 RMQRNLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 276 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 277 DFIEDQDATSPA-------EHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 319 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354 >gi|300312263|ref|YP_003776355.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum seropedicae SmR1] gi|300075048|gb|ADJ64447.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/268 (28%), Positives = 140/268 (52%), Gaps = 17/268 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+++I P+L EE A + + G+ A +++ +LRLVV IA Y G+ + ++ Sbjct: 68 YLNKIGAKPLLTAAEELHFATQAKA-GEFVARQKMIEHNLRLVVSIAKHYINRGVALLDL 126 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+A+ KF+PERGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 127 IEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHMVRELNQ 184 Query: 139 LRRLKGHLQAITDN--NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + R K HL+A + + E + + + +V++++ A SL+ +++ + Sbjct: 185 ILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSEHAA---SLDTPLDNDPQA 241 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPV 253 S D L + E +E +S+S ++R+ ARR ++P Sbjct: 242 S--LMDLLPSAVEEHPDTRAESQEMAVLIREWLKSLS----EKQRVVVARRFGLDNDDPS 295 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE L+SE ++RERVRQ++ A K++ Sbjct: 296 TLEQLASEMGITRERVRQVQQEALIKLK 323 >gi|32472693|ref|NP_865687.1| RNA polymerase sigma factor rpoS [Rhodopirellula baltica SH 1] gi|32443930|emb|CAD73372.1| RNA polymerase sigma factor rpoS [Rhodopirellula baltica SH 1] Length = 355 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/277 (30%), Positives = 143/277 (51%), Gaps = 25/277 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L +EE LA R + GD+ A ++V ++LRLVV I+ GY G GL + Sbjct: 88 LETYLREINETPLLSAEEELELAARIAQ-GDVMARDQMVRANLRLVVNISRGYTGKGLGL 146 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP G R +TY+ +WIK +++ ++ S ++I A L Sbjct: 147 QDLIEEGNLGLLRAVEGFDPIHGTRFSTYASYWIKQSIKRALINSAKTIRI--PAYMVEL 204 Query: 136 FFNLRRLKGHLQ---AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 RR L T N + +V+ + KK + I +N NS Sbjct: 205 LSKWRRATARLNEELGRTPTNEEVARVLGLPKKKLPIIRKAIKIN-------------NS 251 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 + ++ W + D E++ EE + ++L +MS+L E R +L+ Sbjct: 252 TPQSDQTEAGWSLGDMVQDERLKAPDEEMLD-HDILKHAMSLLGDLEERESTVLKLRFGL 310 Query: 252 ----PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P+TL+ + +E ++RERVRQIE A +++ + + Sbjct: 311 GGVEPMTLKEIGAELGLTRERVRQIETEALRRLADGL 347 >gi|229824058|ref|ZP_04450127.1| hypothetical protein GCWU000282_01362 [Catonella morbi ATCC 51271] gi|229786412|gb|EEP22526.1| hypothetical protein GCWU000282_01362 [Catonella morbi ATCC 51271] Length = 379 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 86/273 (31%), Positives = 132/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA R + GD A L ++LRLVV IA Y G G+ ++ Sbjct: 113 YLKEIGNVPLLSAEEEINLAVRI-QGGDDIAKQELAEANLRLVVSIAKRYVGRGMQFLDL 171 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 172 IQEGNMGLMKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 231 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q++L +L R + + +L E+V I L +++ V SL Sbjct: 232 RVQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQEPV-----------SLETP 277 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RL 248 I D S D++ + +V R L + L RE + R L Sbjct: 278 IGEED--DSHLGDFIEDEGAMSPEVFTSS---ALLREQLEDVLDTLTDREENVLRLRFGL 332 Query: 249 QENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + TLE + F V+RER+RQIEA+A +K+ Sbjct: 333 DDGNIRTLEQVGKVFGVTRERIRQIEAKALRKL 365 >gi|320010942|gb|ADW05792.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces flavogriseus ATCC 33331] Length = 358 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 89/293 (30%), Positives = 145/293 (49%), Gaps = 42/293 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AAH 51 Y+ EI +IP+L +E LA+R E G DL A Sbjct: 65 YLREIGRIPLLSAADEVELARRV-EAGLFAEERLAGTPDPDSGLAVDLDRLVVMGRMAKR 123 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 124 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 183 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + PE+V A +L+++ Sbjct: 184 AMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGYEPAPEEVAA---QLDLT-P 237 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E +S RLA + SL+A + D + + D + DG +E R L Sbjct: 238 ERVSEVLRLAQEPVSLHAPVGEEDDVA--FGDLI---EDGDAASPVETAAFLLLREHLEV 292 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L RER++ + R ++ P TLE + F V+RER+RQIE++ K++ Sbjct: 293 VLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLDKLR 345 >gi|307824679|ref|ZP_07654903.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Methylobacter tundripaludum SV96] gi|307734333|gb|EFO05186.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Methylobacter tundripaludum SV96] Length = 342 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 79/273 (28%), Positives = 141/273 (51%), Gaps = 21/273 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++E+ + +L +E + R GD +A ++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 74 YLNELSRSQLLTADQEKIYGSRAL-LGDEAARKIMIESNLRLVVKISRRYLNRGLPLLDL 132 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GLM AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + + Sbjct: 133 IEEGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKEMNTYL 192 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 +R HL + ++ E IA+ L++ ++V M LN + S D Sbjct: 193 KAQR---HLSQLLEHEPNAED---IAEHLDIPVNKVEKML-------KLNERVTSIDMPG 239 Query: 198 SQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENP 252 + D + + DG+ EK + ++ + + + L+ ++R + RR Sbjct: 240 GKDFDKPLVESISDGESLSPAEKIQEDGIKHNIAKWVFQLSEKQREVI-CRRYGLCGYEG 298 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 TLE ++ E V+RERVRQI+ K+++E ++ Sbjct: 299 STLEQVAQELGVTRERVRQIQMDGLKRMKEILE 331 >gi|260683114|ref|YP_003214399.1| RNA polymerase sigma factor rpoD [Clostridium difficile CD196] gi|260686712|ref|YP_003217845.1| RNA polymerase sigma factor rpoD [Clostridium difficile R20291] gi|260209277|emb|CBA62619.1| RNA polymerase sigma factor rpoD [Clostridium difficile CD196] gi|260212728|emb|CBE03837.1| RNA polymerase sigma factor rpoD [Clostridium difficile R20291] Length = 301 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/269 (28%), Positives = 145/269 (53%), Gaps = 11/269 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + Y+ EI + ML EE LAK + A + + S+ RLVV IA Y+ + Sbjct: 30 AMKMYLKEIEEYKMLSAGEEVELAKEIINSSSV-AKEKFINSNYRLVVSIAKRYKRDSID 88 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ GNIGL++AV+K+D ++G++ +TY+ WWIK ++ YI + ++I +Q+ Sbjct: 89 MLDLIQAGNIGLIKAVEKYDYKKGYKFSTYATWWIKQSITRYIDDCENTIRIPIHLHQRI 148 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 F +K Q + + L+ + IA + +V+ + R SL+ + D Sbjct: 149 NF-----VKKKKQELLNVLLREPTIDEIADACGLEVDKVLELLRRDKNVVSLDTPL-KED 202 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENP 252 ++SS +++ D D ++ V+I + E+ N + + ++ L +E+++ R ++P Sbjct: 203 EDSS-LVEFIPSDADFKD-VVIHEVEQHNLKEKIEELLTGLGEQEQQVLRMRFGIDDDDP 260 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 261 KTLEQIGKVFGVTRERIRQIEAKAIRKLR 289 >gi|116629751|ref|YP_814923.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri ATCC 33323] gi|238853400|ref|ZP_04643779.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 202-4] gi|282851794|ref|ZP_06261157.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 224-1] gi|300361838|ref|ZP_07058015.1| RNA polymerase sigma factor rpoD [Lactobacillus gasseri JV-V03] gi|311110607|ref|ZP_07712004.1| RNA polymerase sigma-43 factor [Lactobacillus gasseri MV-22] gi|116095333|gb|ABJ60485.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus gasseri ATCC 33323] gi|238833972|gb|EEQ26230.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 202-4] gi|282557036|gb|EFB62635.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 224-1] gi|300354457|gb|EFJ70328.1| RNA polymerase sigma factor rpoD [Lactobacillus gasseri JV-V03] gi|311065761|gb|EFQ46101.1| RNA polymerase sigma-43 factor [Lactobacillus gasseri MV-22] Length = 373 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 133/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVSLLNADQEIALAKRI-EAGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV KFD GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 226 RIQRQLLQDLGREPTPEEIGAEMDMPTDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S + + E+VL +R+ N+L + + R R Sbjct: 282 DFIEDKDATSPEQHASYELLKEQLEEVLDTLTDREE--NVLRLRFGLDDGRTR------- 332 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 333 ------TLEEVGKVFGVTRERIRQIEAKALRKL 359 >gi|254975054|ref|ZP_05271526.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-66c26] gi|255092443|ref|ZP_05321921.1| RNA polymerase sigma factor rpoD [Clostridium difficile CIP 107932] gi|255100524|ref|ZP_05329501.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-63q42] gi|255308764|ref|ZP_05352935.1| RNA polymerase sigma factor rpoD [Clostridium difficile ATCC 43255] gi|255314181|ref|ZP_05355764.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-76w55] gi|255516860|ref|ZP_05384536.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-97b34] gi|255649961|ref|ZP_05396863.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-37x79] gi|306520043|ref|ZP_07406390.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-32g58] Length = 294 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/269 (28%), Positives = 145/269 (53%), Gaps = 11/269 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + Y+ EI + ML EE LAK + A + + S+ RLVV IA Y+ + Sbjct: 23 AMKMYLKEIEEYKMLSAGEEVELAKEIINSSSV-AKEKFINSNYRLVVSIAKRYKRDSID 81 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ GNIGL++AV+K+D ++G++ +TY+ WWIK ++ YI + ++I +Q+ Sbjct: 82 MLDLIQAGNIGLIKAVEKYDYKKGYKFSTYATWWIKQSITRYIDDCENTIRIPIHLHQRI 141 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 F +K Q + + L+ + IA + +V+ + R SL+ + D Sbjct: 142 NF-----VKKKKQELLNVLLREPTIDEIADACGLEVDKVLELLRRDKNVVSLDTPL-KED 195 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENP 252 ++SS +++ D D ++ V+I + E+ N + + ++ L +E+++ R ++P Sbjct: 196 EDSS-LVEFIPSDADFKD-VVIHEVEQHNLKEKIEELLTGLGEQEQQVLRMRFGIDDDDP 253 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 254 KTLEQIGKVFGVTRERIRQIEAKAIRKLR 282 >gi|237653675|ref|YP_002889989.1| RNA polymerase sigma factor RpoS [Thauera sp. MZ1T] gi|237624922|gb|ACR01612.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thauera sp. MZ1T] Length = 312 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 61/173 (35%), Positives = 99/173 (57%), Gaps = 6/173 (3%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE V+A+R R GD A ++ +LRLVV IA Y G+P+ ++ Sbjct: 45 YLNEIGANPLLTAEEELVIARRVR-MGDFDARQTMIERNLRLVVNIAKHYLNRGIPLLDL 103 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM A++KFDPERGFR +TY+ WWI+ ++ I+ +++ ++ Sbjct: 104 VEEGNLGLMHALEKFDPERGFRFSTYATWWIRQNIERAIMNQSRTIRLPVHVVKE--LNQ 161 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + R + H++A + EQ IA +L + EV S+ SL+A ++ Sbjct: 162 VLRAQRHIEADCNGESSLEQ---IANRLGKTIEEVRSILALGEHTASLDAPLD 211 >gi|90961886|ref|YP_535802.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius UCC118] gi|90821080|gb|ABD99719.1| RNA polymerase sigma factor [Lactobacillus salivarius UCC118] Length = 372 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 131/276 (47%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVNLLTADEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMSFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+++ +L R + + ++ E+V I K E +S+ + D L Sbjct: 225 RIQRQMLQDLGREPMPEEIGAEMDMPTEKVREILK----IAQEPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 281 DFIEDQDATSPA-------EHAAYELL----------KEQLESVLDTLTDREENVLRLRF 323 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 324 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 359 >gi|304403970|ref|ZP_07385632.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus curdlanolyticus YK9] gi|304346948|gb|EFM12780.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus curdlanolyticus YK9] Length = 377 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 81/264 (30%), Positives = 129/264 (48%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVPLLSADDEVELAKRI-EKGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 170 IQEGNMGLIKAVEKFDHTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 227 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA ++ +S +V + SL I D S Sbjct: 228 LIRVSRQLLQELGREPAPEE---IAAEMELSTDKVREIMKIAQEPVSLETPIGEED--DS 282 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 283 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 339 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + F V+RER+RQIEA+A +K+ Sbjct: 340 EVGKVFGVTRERIRQIEAKALRKL 363 >gi|300214611|gb|ADJ79027.1| RNA polymerase sigma factor [Lactobacillus salivarius CECT 5713] Length = 372 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 134/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVNLLTADEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMSFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+++ +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 225 RIQRQMLQDLGREPMPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 281 DFIEDQDATSPA-------EHAAYELL----------KEQLESVLDTLTDREENVLRLRF 323 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 324 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 359 >gi|323340800|ref|ZP_08081052.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus ruminis ATCC 25644] gi|323091923|gb|EFZ34543.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus ruminis ATCC 25644] Length = 373 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 139/276 (50%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGRVNLLTAEEEKKLALRI-EEGDEEAKQRLAEANLRLVVSIAKRYVGRGMSFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 166 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 225 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+++ +L R + + NL E+V I L +++ E +S+ + D L Sbjct: 226 RIQRQMLQDLGREPIPEEIGAEMNLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 281 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D ++ D Y+ + E VL +R+ N+L + + R R Sbjct: 282 DFI--EDHAATSPADHAAYELLKEQIESVLDTLTDREE--NVLRLRFGLDDGRTR----- 332 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 333 --------TLEEVGKVFGVTRERIRQIEAKALRKLR 360 >gi|258648419|ref|ZP_05735888.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] gi|260851166|gb|EEX71035.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] Length = 286 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 76/289 (26%), Positives = 150/289 (51%), Gaps = 30/289 (10%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N SI L +Y+ EI + ++ EE LA+R + GD A +L ++LR VV + Sbjct: 7 NKSITNRSSAALDKYLVEIGREGLISTDEEVELAQRIHK-GDAEALEKLTKANLRFVVSV 65 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y+ GL +++++ EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V Sbjct: 66 AKQYQNQGLALNDLIDEGNLGLIRAAQKFDETRGFKFISYAVWWIRQSILQAISEQSRIV 125 Query: 125 K-----IGTTANQKRLFFNLRR---LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 + +G + + N + + +Q + D + V + + + + +V S+ Sbjct: 126 RMPLNQVGFQSKLTKAIVNFEQEFERRPSVQELAD--ILDTDVAKVQEAMGTNGKKV-SV 182 Query: 177 NCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + D+S N+LI+ +D+N+ D + E+++ + L ++ L Sbjct: 183 DAPFQDDDS-NSLIDIMTDENAPGTDDQM---------------EKESLSSDLDAALGTL 226 Query: 236 NPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RER + + + N +T E +++ ++RERVRQI+ RA ++++E+ Sbjct: 227 TERERLVLKMLFGIGRNEMTAEEVANSLSLTRERVRQIKERALRRLREA 275 >gi|229815176|ref|ZP_04445512.1| hypothetical protein COLINT_02221 [Collinsella intestinalis DSM 13280] gi|229809186|gb|EEP44952.1| hypothetical protein COLINT_02221 [Collinsella intestinalis DSM 13280] Length = 448 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 84/262 (32%), Positives = 132/262 (50%), Gaps = 20/262 (7%) Query: 29 LEKQE----EYVLAKRYR----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 LEKQE E A+ R E L A L++++LRLVV IA Y G G+ +++ Sbjct: 181 LEKQEAGEIELTRAEMRRLMRVEQVGLDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQ 240 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLR 140 EGN+GL++AV+KFD E+GF+ +TY+ WWI+ A+ I ++I + L Sbjct: 241 EGNLGLIRAVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINKLV 298 Query: 141 RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 R++ L + PE+ I ++++S V + SL I ++ SQ Sbjct: 299 RVQRQLLQDLGRDPTPEE---IGAEMDMSADRVREIQKISQEPVSLETPIG--EEEDSQL 353 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENL 258 D++ D Q V + + LT+ + L RER++ E R E+ P TLE + Sbjct: 354 GDFI---EDAQAVVPADAASFSMLQEQLTQVLDGLAERERKVIELRFGLEDGHPRTLEEV 410 Query: 259 SSEFEVSRERVRQIEARAFKKV 280 EF V+RER+RQIE++ K+ Sbjct: 411 GREFGVTRERIRQIESKTLAKL 432 >gi|301301338|ref|ZP_07207482.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ACS-116-V-Col5a] gi|300851066|gb|EFK78806.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ACS-116-V-Col5a] Length = 372 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 134/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVNLLTADEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMSFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+++ +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 225 RIQRQMLQDLGREPMPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 281 DFIEDQDATSPA-------EHAAYELL----------KEQLESVLDTLTDREENVLRLRF 323 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 324 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 359 >gi|282899714|ref|ZP_06307678.1| sigA (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] gi|281195593|gb|EFA70526.1| sigA (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] Length = 390 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 131/246 (53%), Gaps = 17/246 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 RYR H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G+ Sbjct: 145 RYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGY 204 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-E 157 + +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP E Sbjct: 205 KFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTE 259 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +A ++ + + I+ + +L SL I + S+ D++ D + E + + Sbjct: 260 EEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSK 315 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEAR 275 R++ L R + L PRER + R +N TLE + F V+RER+RQIEA+ Sbjct: 316 SLLRED----LERVLDSLGPRERDVLRLRYGLDNGRMKTLEEIGQIFNVTRERIRQIEAK 371 Query: 276 AFKKVQ 281 A +K++ Sbjct: 372 ALRKLR 377 >gi|158340427|ref|YP_001521783.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158310668|gb|ABW32282.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 273 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 85/290 (29%), Positives = 151/290 (52%), Gaps = 41/290 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI + P+L +EE LA++ + G+L A R++ +LRLVV IA ++ GLP ++ Sbjct: 10 YLKEIGRYPLLSHEEEIQLARQAKA-GNLRAKQRMIECNLRLVVSIAKKHQNRGLPFMDL 68 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EG+IGL +AV+KF+PE+G+R +TY+ WWI+ + I + ++++ Sbjct: 69 IQEGSIGLSRAVEKFEPEQGYRFSTYAYWWIRQGITRSIQNNSRVIRLPV---------- 118 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 H Q T N +K Q ++L+ ++ LA E++ ++ +N Sbjct: 119 -----WHWQ--TGNQIKQTQ-----RQLSQEFGREPTL-AELA--EAMEIDLDKLKQNMH 163 Query: 199 QWQDWLVYDHD-GQEQ-----VLIEKEERK-------NRRNMLTRSMSVLNPRERRIFEA 245 QD L D G+EQ LIE E+ N+ ++ +S+L+ R+R + Sbjct: 164 HLQDVLSLDMQVGKEQDTTLGELIEAEQSTPTHLELLNQSEEVSSYLSLLDERQRYVIVQ 223 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 R E+ T++++ + VSRER+RQI +A KK+Q++ E+ ++ Sbjct: 224 RYGLEDGEAKTMQDIGQQLGVSRERIRQIINKAMKKLQKNSDLATEIKTA 273 >gi|254389040|ref|ZP_05004270.1| RNA polymerase principal sigma factor hrdA [Streptomyces clavuligerus ATCC 27064] gi|326441042|ref|ZP_08215776.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197702757|gb|EDY48569.1| RNA polymerase principal sigma factor hrdA [Streptomyces clavuligerus ATCC 27064] Length = 385 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 89/296 (30%), Positives = 143/296 (48%), Gaps = 45/296 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-------------------REHGDLS--------AAH 51 Y+ EI +IP+L EE LA+R R DL A Sbjct: 91 YLREIGRIPLLTAAEEVELARRVEAGLFAEEKLAATPDLNSSRLAADLDRLVVMGRMAKR 150 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 151 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYATWWIRQ 210 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + + PE+V A +L++ Sbjct: 211 AMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQEQGSEPTPEEVAA---QLDLP-P 264 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNML 228 E +S RLA + SL+A + + +D + D DG +E R L Sbjct: 265 ERVSEVLRLAQEPVSLHAPVG-------EEEDVALGDLIEDGDAASPVESAAFLLLREHL 317 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 318 EAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 373 >gi|160331013|ref|XP_001712214.1| rpoD [Hemiselmis andersenii] gi|159765661|gb|ABW97889.1| rpoD [Hemiselmis andersenii] Length = 485 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 79/265 (29%), Positives = 141/265 (53%), Gaps = 18/265 (6%) Query: 39 KRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 K++R H A R+V ++LRLVV IA Y G+ + +++ EG++GL++A +KFD E Sbjct: 193 KKFRAILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDSE 252 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +GF+ +TY+ WW+K A+ I +++ L+ + ++ + + + Sbjct: 253 KGFKFSTYATWWVKQAVTRAIADHSRTIRLPV-----HLYDTISAIRKTTRTLNIEIGRS 307 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 IA+K+++S ++ S+ SL + + D ++SQ D++ D + E Sbjct: 308 PTEEEIAEKMDMSVEKLRSVLQSAQPTLSLERPLKNDD-DASQLSDFIEADQESPE---- 362 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEA 274 E E+ R+ L ++ L+PRER + R L + + TLE + F V+RERVRQIEA Sbjct: 363 EHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEA 422 Query: 275 RAFKKVQE----SIQKQVELSSSPP 295 +A +K+++ SI + L+S P Sbjct: 423 KAIRKLRQPYRSSILRDYVLASLSP 447 >gi|53714034|ref|YP_100026.1| RNA polymerase sigma factor RpoD [Bacteroides fragilis YCH46] gi|60682231|ref|YP_212375.1| putative sigma factor A [Bacteroides fragilis NCTC 9343] gi|253564677|ref|ZP_04842133.1| RpoD [Bacteroides sp. 3_2_5] gi|255010339|ref|ZP_05282465.1| putative sigma factor A [Bacteroides fragilis 3_1_12] gi|265766346|ref|ZP_06094387.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_16] gi|313148138|ref|ZP_07810331.1| RNA polymerase sigma factor rpoD [Bacteroides fragilis 3_1_12] gi|52216899|dbj|BAD49492.1| RNA polymerase sigma factor RpoD [Bacteroides fragilis YCH46] gi|57471281|gb|AAW50926.1| RpoD [Bacteroides fragilis] gi|60493665|emb|CAH08454.1| putative sigma factor A [Bacteroides fragilis NCTC 9343] gi|251946142|gb|EES86519.1| RpoD [Bacteroides sp. 3_2_5] gi|263254014|gb|EEZ25479.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_16] gi|301163709|emb|CBW23263.1| putative sigma factor A [Bacteroides fragilis 638R] gi|313136905|gb|EFR54265.1| RNA polymerase sigma factor rpoD [Bacteroides fragilis 3_1_12] Length = 286 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 149/272 (54%), Gaps = 18/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIRK-GDRVALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L++ + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LAGELDIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 NS D LV D ++ E R+ + R++S L RE+ I + + + Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLARE-----IDRALSTLTDREKEIIQMFFGIGQQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 244 EMTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 275 >gi|123967121|ref|YP_001012202.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123201487|gb|ABM73095.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9515] Length = 339 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 81/278 (29%), Positives = 148/278 (53%), Gaps = 26/278 (9%) Query: 13 EIGLSRYIHEIRK---IPMLEKQEE----YVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 EI L+ ++ ++K IP +E+ + KR R+ R+++++LRLVV +A Sbjct: 70 EIELAHHVQNMKKMLKIPEIERSSRNRHLIKVGKRARD--------RMMSANLRLVVSVA 121 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S ++ Sbjct: 122 KKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIR 181 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + ++K +RR+ L + +P + + +A + + + ++ + + A S Sbjct: 182 LPIHISEK--LSKMRRVSRELS--QKSGRQPTR-LEMATAMGIDQKDLEDLISQSAPCAS 236 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+A + S+ + L+ D +G+E +E +R ++ L ++ LN RE++I + Sbjct: 237 LDAHARGEEDRSTLGE--LIPDPNGEEP--MEGMDRTIQKEHLGTWLTQLNEREQKIMKL 292 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 293 RFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|332686632|ref|YP_004456406.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius ATCC 35311] gi|332370641|dbj|BAK21597.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius ATCC 35311] Length = 369 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 134/275 (48%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVQLLTAEEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 162 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 221 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + +L E+V I L +++ E +S+ + D L Sbjct: 222 RIQRQLLQDLGREPTPEEIGAEMDLPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 277 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S +H E + + L + L RE + R Sbjct: 278 DFIEDQEATSP-------AEHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 320 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 321 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 355 >gi|227890913|ref|ZP_04008718.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ATCC 11741] gi|227867322|gb|EEJ74743.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ATCC 11741] Length = 372 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 134/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVNLLTADEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMSFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 165 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 224 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+++ +L R + + ++ E+V I L +++ E +S+ + D L Sbjct: 225 RIQRQMLQDLGREPMPEEIGAEMDMPTEKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 280 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D S +H E + + L + L RE + R Sbjct: 281 DFIEDQDATSPA-------EHAAYELL----------KEQLESVLDTLTDREENVLRLRF 323 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 324 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 359 >gi|224534531|ref|ZP_03675107.1| RNA polymerase sigma factor [Borrelia spielmanii A14S] gi|224514208|gb|EEF84526.1| RNA polymerase sigma factor [Borrelia spielmanii A14S] Length = 266 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 81/282 (28%), Positives = 148/282 (52%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LA + + G+ A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIQLAGQI-QRGNAQAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + L +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTIKHLNYILETK--LTEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L +P TL+++S+E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNSPKKSTLKDISTELGISSETVRQIEKRVLKKLKEEI 265 >gi|222056415|ref|YP_002538777.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] gi|221565704|gb|ACM21676.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] Length = 358 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 80/278 (28%), Positives = 147/278 (52%), Gaps = 18/278 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI+K +L EE LA R + GD +A +++ S+LRLVVKIA Y GLP ++ Sbjct: 88 YLREIQKTKLLTADEEKELAARI-DRGDKAARDKMIESNLRLVVKIAKRYINRGLPFLDL 146 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ + + Sbjct: 147 IEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDD-INKM 205 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + LQ I N +P + +A + V+ + + + L S+ ++ Sbjct: 206 LRITRELLQKI---NREP-SIKEVATAMEVNSAYIRRLMVLLKKTYSI-------ERPMG 254 Query: 199 QWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVT 254 + D+ + D D E E NR M+++ L+ E++I R ++P T Sbjct: 255 ENNDYFLIDTIEDTSTVSPAELLEDVNRYEMVSKWFDTLSDNEKKILTLRFGLDDKDPQT 314 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 L+ + F V+RER+RQIEA++ +K+++ I + EL++ Sbjct: 315 LDTIGRSFGVTRERIRQIEAKSLEKLRK-IMEATELAA 351 >gi|149188695|ref|ZP_01866986.1| RNA polymerase sigma factor RpoS [Vibrio shilonii AK1] gi|148837356|gb|EDL54302.1| RNA polymerase sigma factor RpoS [Vibrio shilonii AK1] Length = 296 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 78/280 (27%), Positives = 136/280 (48%), Gaps = 29/280 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y E+ +L ++E +A++ R GD A L+ S+LRLV++ A Y GL ++ Sbjct: 27 YFKEVAGHDLLSAEDERHIARKARA-GDTLARQHLINSNLRLVIRTAKRYSNRGLDFYDL 85 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK----- 133 ++EGNIGL+QAV KFDPE G+R +TY++WWI+ A+ I+ +++ ++ Sbjct: 86 INEGNIGLIQAVDKFDPELGYRFSTYAVWWIQQAIDRAIMNQGRTIRVPVHVTKQIRECS 145 Query: 134 RLFFNLRRLKGHLQAITD----NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + LR+ H ++ PE+V +K L +SE + +L Sbjct: 146 KAAHELRKEGNHEPTSSEIAERTGRAPEEV---SKLLKLSEQSL--------------SL 188 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--R 247 N D+ + D D ++ + +N L + L ++R I R Sbjct: 189 DNGWDEEGDKKDHLQTIDDDDVFELPEQDIVTQNLNKALIDLVDSLPDKQRVILHHRFGL 248 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L ++P TLE + V+RERVRQI+ A + +++ +++Q Sbjct: 249 LDDDPKTLEQVGEIVGVTRERVRQIQKSAMETLRDKLKRQ 288 >gi|312196071|ref|YP_004016132.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311227407|gb|ADP80262.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 393 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 92/309 (29%), Positives = 148/309 (47%), Gaps = 62/309 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLSAAHR------- 52 Y+ EI K+P+L EE LAKR E G DL A R Sbjct: 100 YLKEIGKVPLLTAAEEVDLAKRI-EAGLFAAEKLGGGRRLTVALRVDLEAVARDGDVAKR 158 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 159 KLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 218 Query: 112 AMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ I ++I T N Q++L +L R + + +L P++V I Sbjct: 219 AITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIAKEMDLTPDKVREI 278 Query: 163 AKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 L V++ E +S+ + +E L I SD V D +L++++ Sbjct: 279 ---LKVAQ-EPVSLETPIGEEEDSHLGDFIEDSDA---------VVPVDAASFLLLQEQ- 324 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 325 -------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLS 377 Query: 279 KVQESIQKQ 287 K++ + Q Sbjct: 378 KLRHPSRSQ 386 >gi|305664513|ref|YP_003860800.1| putative sigma factor A [Maribacter sp. HTCC2170] gi|88708530|gb|EAR00766.1| putative sigma factor A [Maribacter sp. HTCC2170] Length = 287 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 81/288 (28%), Positives = 153/288 (53%), Gaps = 39/288 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITADEEVELAQRIKA-GDQIALEKLTKANLRFVVSVAKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 + F L + + + + IAK+L+++ E + + + +G S++A Sbjct: 136 NKINKTFAFLEQAHERMPSAEE----------IAKELDMT-VEDVKQSLKNSGRHVSMDA 184 Query: 189 -LINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LI D N +YD G+ + ++ R + R++ L PRE + Sbjct: 185 PLIAGEDSN--------LYDVLRSGESPNPDRELLHESLRTEIERALETLTPREADVI-- 234 Query: 246 RRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL ++ +TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 235 -RLYFGLAGQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|148658692|ref|YP_001278897.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148570802|gb|ABQ92947.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 401 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 87/303 (28%), Positives = 143/303 (47%), Gaps = 63/303 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------EHGDLS----------------AAHRL 53 Y+ EI ++ +L QEE +LA++ + GD + A RL Sbjct: 109 YLREIGRVNLLTAQEEIMLAQQVERGEQASERLQKGDYAPSERLQLHRWVQEGQAARERL 168 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + ++LRLVV IA Y G G+ + +++ EGNIGLM+A +KFD +G++ +TY+ WWI+ A+ Sbjct: 169 IQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKFDYRKGYKFSTYATWWIRQAI 228 Query: 114 QEYIL---RSWSL-VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-----VAIAK 164 I R+ L V +G T N+ + R +Q T + P+++ + + K Sbjct: 229 TRVIADQSRTIRLPVHVGETINR------VMRASNRIQQTTGRDPTPDEIALELGIPVEK 282 Query: 165 KLNVSES--EVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 V E+ + IS+ + GD L I DG+ ++ Sbjct: 283 VRRVLEAARQTISLETPIGTEGDTVLADFIE-----------------DGKGVTPMDSAS 325 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 R + ++ L RERRI + R + TLE + EF ++RER+RQIEAR + Sbjct: 326 HHILREQIDSALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLR 385 Query: 279 KVQ 281 K++ Sbjct: 386 KLR 388 >gi|270291312|ref|ZP_06197534.1| RNA polymerase primary sigma factor [Pediococcus acidilactici 7_4] gi|304385062|ref|ZP_07367408.1| RNA polymerase sigma factor rpoD [Pediococcus acidilactici DSM 20284] gi|270280158|gb|EFA25994.1| RNA polymerase primary sigma factor [Pediococcus acidilactici 7_4] gi|304329256|gb|EFL96476.1| RNA polymerase sigma factor rpoD [Pediococcus acidilactici DSM 20284] Length = 379 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 138/278 (49%), Gaps = 41/278 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 113 YLKEIGRVSLLTADEEVALALRI-EKGDERAKQELAEANLRLVVSIAKRYVGRGMQFLDL 171 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 172 IQEGNMGLMKAVEKFDYQKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 231 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 232 RIQRQLLQDLGREPMPEEIGAEMDMPSDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 287 Query: 188 ALINSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 I D+ ++ D Y+ +G L ++EE N+L + + R R Sbjct: 288 DFIE--DQEATSPADHAAYELLKEQLEGVLDTLTDREE-----NVLRLRFGLDDGRTR-- 338 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 339 -----------TLEEVGKVFGVTRERIRQIEAKALRKL 365 >gi|210633964|ref|ZP_03297935.1| hypothetical protein COLSTE_01853 [Collinsella stercoris DSM 13279] gi|210159008|gb|EEA89979.1| hypothetical protein COLSTE_01853 [Collinsella stercoris DSM 13279] Length = 445 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L++++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD E+GF+ +TY+ Sbjct: 204 LDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYEKGFKFSTYAT 263 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++I + L R++ L + PE+ I ++ Sbjct: 264 WWIRQAITRAIADQARTIRI--PVHMVETINKLVRVQRQLLQDLGRDPTPEE---IGAEM 318 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++S V + SL I ++ SQ D++ D Q V + + Sbjct: 319 DMSADRVREIQKISQEPVSLETPIG--EEEDSQLGDFI---EDAQAVVPADAASFSMLQE 373 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 LT+ + L RER++ E R + +P TLE + EF V+RER+RQIE++ K+ Sbjct: 374 QLTQVLDGLAERERKVIELRFGLVDGHPRTLEEVGREFGVTRERIRQIESKTLAKL 429 >gi|241764884|ref|ZP_04762887.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax delafieldii 2AN] gi|241365587|gb|EER60323.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax delafieldii 2AN] Length = 788 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 124/236 (52%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 548 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 607 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A K+ Sbjct: 608 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-LAAKME 662 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ DG IE + R++ Sbjct: 663 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDGANTAPIEAAMQAGLRDV 717 Query: 228 LTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 718 VKDILDGLTPREAKVLRMRFGIEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKLK 773 >gi|317968274|ref|ZP_07969664.1| putative type II alternative RNA polymerase sigma factor [Synechococcus sp. CB0205] Length = 382 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/237 (31%), Positives = 122/237 (51%), Gaps = 15/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+K+DP RGFR +TY+ WW Sbjct: 136 ARDRMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKYDPTRGFRFSTYAYWW 195 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K + I + + V +AK+L + Sbjct: 196 IRQGITRAIATQSRTIRLPVHVTEK-----LNRIKKAQRQIASEHGRLASVADLAKELGL 250 Query: 169 SESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 SE EVI + R+ SL+ + ++ D L H EQ L + + + + Sbjct: 251 SE-EVIRLTLMRVPRSVSLDTRVGRD--QDTELGDLLEDGHATPEQALTKTQLHDDLEAL 307 Query: 228 LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L L+ RE + R EN P TL + + +SRERVRQIE RA K+++ Sbjct: 308 LEE----LSGREAEVIRLRFGLENDTPQTLSQIGEDLHLSRERVRQIETRALLKLRQ 360 >gi|95930284|ref|ZP_01313022.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM 684] gi|95133747|gb|EAT15408.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM 684] Length = 296 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/285 (27%), Positives = 148/285 (51%), Gaps = 19/285 (6%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 +G+ + Y+H+I+K +L +EE LA + E GD A +++ S+LRLVVKIA Y Sbjct: 23 TSGDDAIKYYLHDIQKSKLLTAEEERALATKV-EAGDEQARAKMIESNLRLVVKIAKRYM 81 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GLP +++ EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ Sbjct: 82 NRGLPFLDLIEEGNMGLIKAVERFQVAKECRFSTYATWWIRQSIERALVNQSRTIRLPVH 141 Query: 130 ANQKRLFFNLRR-LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + N+ R LK + + N +P + IA+ + EV + + S+ Sbjct: 142 VSD-----NVNRMLKATKEVLKKLNHEPSE-AQIAEAMGAPVEEVRRLQQLVKKTYSIEH 195 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERKNRRNMLTRSMSVLNPRERRIFEAR 246 + +D ++ + D V+ E E +++ + + + +S L ER I R Sbjct: 196 PLGDND-------NYSLMDTLEDSSVINPAELLENQDQYDFVNKWLSSLKENERDILMLR 248 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + P TL+ + + V+RER+RQIEA++ K++ ++++ E Sbjct: 249 FGLNDCEPETLDTIGKRYGVTRERIRQIEAKSLDKLRRMMREEAE 293 >gi|37523928|ref|NP_927305.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] gi|35214934|dbj|BAC92300.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 344 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/256 (29%), Positives = 130/256 (50%), Gaps = 36/256 (14%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A +L+ ++LRLVV IA Y G +P +++ EGNIGLM+A +KFDPE+G+R +TY+ Sbjct: 104 LWAQRKLINANLRLVVSIAKKYIGRNVPFLDLIQEGNIGLMRATEKFDPEKGYRFSTYAT 163 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT--------DNNLKPEQ 158 WWI+ ++ I +++ +K +R+++ ++ T ++ L Sbjct: 164 WWIRQSITRAIANQARTIRLPIHMVEK-----VRKVRREMRMATLELGRRPSEDELASRL 218 Query: 159 VVAIAKKLNVSE--SEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + + K + E + +S++ + GD SL +I D + + D LV E Sbjct: 219 AIKVKKLRTIQEVSRQPVSLDMPVGSEGDISLGEMIE--DGTAERPFDELVQKALASE-- 274 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQI 272 L +M+VL P ER + R E +TL + F+++RER+RQI Sbjct: 275 -------------LYAAMNVLKPVEREVLALRFGLKGEEGLTLREVGERFDLTRERIRQI 321 Query: 273 EARAFKKVQESIQKQV 288 E+ A +K++ S +KQ+ Sbjct: 322 ESEALRKLRRSKRKQI 337 >gi|187918623|ref|YP_001884188.1| RNA polymerase sigma factor RpoS [Borrelia hermsii DAH] gi|119861471|gb|AAX17266.1| RNA polymerase sigma factor RpoS [Borrelia hermsii DAH] Length = 267 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 87/287 (30%), Positives = 149/287 (51%), Gaps = 30/287 (10%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LAK+ + GDL A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHRLITHEEEIELAKQIK-LGDLKAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL + +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKVEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDN-----NLKPEQVVAIAKKLNVSESEVISMNCRL 180 + L N ++ ++ NL Q V I L E E S++ +L Sbjct: 118 VPYRKENLILQINKYLMEEEKSPKKEDIMERFNLTTAQYVKIIPYL---EKEY-SLDKKL 173 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 G E+ + L+N + NS E L + K+ ++L + LN +ER Sbjct: 174 EGSEN-STLLNLYEDNSF-----------NPESTLEQNSTLKHLNHILE---TKLNDKER 218 Query: 241 RIFEARRLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I R +N TL+++SSE +S E VRQIE R KK++E + Sbjct: 219 YIIRKRYNLDNNDKKSTLKDISSELGISSETVRQIEKRVLKKLREEL 265 >gi|315651467|ref|ZP_07904490.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium saburreum DSM 3986] gi|315486287|gb|EFU76646.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium saburreum DSM 3986] Length = 389 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 82/278 (29%), Positives = 141/278 (50%), Gaps = 23/278 (8%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDL---SAAHRLVTSHLRLVVKIAMGYR 69 E + Y+ EI KIP+L EE LAK+ + + A ++ S+LRLVV IA Y Sbjct: 113 EDSIKMYLKEIGKIPLLSVDEEMNLAKKICDPDEAVRKEARKQMAESNLRLVVSIAKRYM 172 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT- 128 G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I Sbjct: 173 GRGMQFLDLIQEGNLGLLRAVEKFDYQKGFKFSTYATWWIRQAITRSIADQARTIRIPVH 232 Query: 129 ---TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 T N+ L +++ L +P++V AK + + S+V + S Sbjct: 233 MVETINR------LIKIQRKLVQEFGREPRPDEV---AKVMGIPVSKVREIMSFALEPVS 283 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + I D++ S D+L D ++ + + L + L RE+++ Sbjct: 284 METPI--GDEDDSHLGDFL---QDSNAKIPVNFAMDVLLHDQLMEVIKSLTEREQKVILL 338 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E+ P TLE + F ++RER+RQIEA++ +K++ Sbjct: 339 RFGLEDGKPRTLEEVGKVFGITRERIRQIEAKSLRKLR 376 >gi|298247391|ref|ZP_06971196.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297550050|gb|EFH83916.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 385 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 93/314 (29%), Positives = 143/314 (45%), Gaps = 62/314 (19%) Query: 8 IIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR----------------EHGDLSA 49 I GE G L Y+ E+ ++P+L ++E LA++ EH + + Sbjct: 85 IEAAGEPGDTLETYLREMGRVPLLTSEQEVQLAQQIERGKLEQERARLLKVPPEHAIMDS 144 Query: 50 AH----RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A RL ++LRLVV IA Y G G+ +++++ EGN GLM AV+KFD RGF+ +TY+ Sbjct: 145 AQNARDRLTEANLRLVVSIARKYMGRGMALADLIQEGNAGLMLAVEKFDYTRGFKFSTYA 204 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI------TDNNLKPE-- 157 WWI+ A+ I ANQ R RL H T + L E Sbjct: 205 TWWIRQAINRAI------------ANQARTI----RLPVHFHEAVNRLHRTSSQLFQELG 248 Query: 158 ---QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 IA+++++S V + AG + ++ D S D++ ++QV Sbjct: 249 REPSAEEIAERMHISVDTV--YDILEAGKQPISLESPVGDDGDSSLGDFV------EDQV 300 Query: 215 LIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 + R R + + LN RER I + L TL + +SRERV Sbjct: 301 TASPADITTRNILREQIAHVLDELNERERHIIQYHFGFLDGKEHTLAEIGENLHLSRERV 360 Query: 270 RQIEARAFKKVQES 283 RQIEA+A +K+++S Sbjct: 361 RQIEAKALRKLRQS 374 >gi|294812504|ref|ZP_06771147.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294325103|gb|EFG06746.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 436 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 89/296 (30%), Positives = 143/296 (48%), Gaps = 45/296 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-------------------REHGDLS--------AAH 51 Y+ EI +IP+L EE LA+R R DL A Sbjct: 142 YLREIGRIPLLTAAEEVELARRVEAGLFAEEKLAATPDLNSSRLAADLDRLVVMGRMAKR 201 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 202 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYATWWIRQ 261 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + + PE+V A +L++ Sbjct: 262 AMSRALADQARTIRV--PVHVVELINRVVRVQRRMLQEQGSEPTPEEVAA---QLDLP-P 315 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNML 228 E +S RLA + SL+A + + +D + D DG +E R L Sbjct: 316 ERVSEVLRLAQEPVSLHAPVG-------EEEDVALGDLIEDGDAASPVESAAFLLLREHL 368 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 369 EAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 424 >gi|224531828|ref|ZP_03672460.1| RNA polymerase sigma factor [Borrelia valaisiana VS116] gi|224511293|gb|EEF81699.1| RNA polymerase sigma factor [Borrelia valaisiana VS116] Length = 266 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 82/282 (29%), Positives = 147/282 (52%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LA + + G A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIKLAGQI-QRGSAQAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + LN +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTLKHLNYVLETK--LNEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L +P TL+++S E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNSPKKSTLKDISMELGISSETVRQIEKRVLKKLKEEI 265 >gi|78779769|ref|YP_397881.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|78713268|gb|ABB50445.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9312] Length = 313 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 86/304 (28%), Positives = 152/304 (50%), Gaps = 40/304 (13%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS----------------- 48 G +S Y+ I ++P+L EE L + + E G L+ Sbjct: 16 GNDPISWYLQNIGRVPLLTPAEEIELGNQVQKMMILTEDGQLNEKIKEFTTQQKRIIKIG 75 Query: 49 --AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ Sbjct: 76 RRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAF 135 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFN--LRRLKGHLQAITDNNLKPEQVVAIAK 164 WWI+ +M I +++ +++ R L L A+ + IA+ Sbjct: 136 WWIRQSMTRAIACQSRTIRLPVHLSERLAAIRKVSRELAHKLGAMPSR-------IEIAE 188 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +++ E+ S+ + SL+A +N D S + L+ D + +E ++K E+K Sbjct: 189 AMDIDVEELDSVLRQALSTSSLDAPVNGDDGRS--FLGDLIADSNTEEP--LDKVEQKMH 244 Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L + +S L+ +E+ + + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 245 QEQLGKWLSHLSEQEQHVLKLRFGLDGNERHTLAEIGRLLEVSRERVRQVELKALRKLRN 304 Query: 283 SIQK 286 +K Sbjct: 305 LTRK 308 >gi|167462413|ref|ZP_02327502.1| RNA polymerase sigma factor RpoD [Paenibacillus larvae subsp. larvae BRL-230010] Length = 367 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 101 YLKEIGRVHLLTADDEIELAKRIME-GDEEAKQRLAEANLRLVVSIARRYVGRGMLFLDL 159 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 160 IQEGNMGLMKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 217 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++ +S +V + SL I ++N S Sbjct: 218 LIRVSRQLLLELGREPTPEE---IAKEMELSTDKVREIMKISQEPVSLETPI--GEENDS 272 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + D D + + + L + L RE + R E+ TLE Sbjct: 273 NLGDF-IEDQDALAPA--DAASYELLKEQLEHVLDTLTEREENVLRLRFGLEDGRSRTLE 329 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 330 EVGKVFGVTRERIRQIEAKALRKLR 354 >gi|239931428|ref|ZP_04688381.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 430 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 89/293 (30%), Positives = 142/293 (48%), Gaps = 40/293 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR----------YREHGDLSA--AH--------------R 52 Y+ EI +IP+L EE LA+R R DL + AH R Sbjct: 137 YLREIGRIPLLTAAEEVELARRVEAGLFAEEKLRLTPDLDSRLAHDLDRLVVMGRMAKRR 196 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 197 LIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQA 256 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + +++ + L + R++ + PE+V A L++ E Sbjct: 257 MSRALADQARTIRV--PVHVVELINRVVRVQRRMLQERGREPTPEEVAA---HLDLP-PE 310 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + RLA + SL+A + D + D + DG +E R L Sbjct: 311 RVGEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLEAV 365 Query: 232 MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R + P TLE + F V+RER+RQIE++ K+++ Sbjct: 366 LSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 418 >gi|221068481|ref|ZP_03544586.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni KF-1] gi|220713504|gb|EED68872.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni KF-1] Length = 815 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 124/241 (51%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 570 ERASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 629 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ + + Sbjct: 630 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-L 684 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A K+ + E ++ + ++A E ++ D + S D++ DG I+ + Sbjct: 685 AAKMEIPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDGNNTAPIDAAMQA 739 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 740 GLRDVVKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKL 799 Query: 281 Q 281 + Sbjct: 800 K 800 >gi|325297456|ref|YP_004257373.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides salanitronis DSM 18170] gi|324317009|gb|ADY34900.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides salanitronis DSM 18170] Length = 286 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 79/274 (28%), Positives = 150/274 (54%), Gaps = 22/274 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R+ GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIRK-GDRAALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQARIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L++ + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELDIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQ 249 NS D LV D ++ E R+ + R++S L RE+ I F Q Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLSRE-----IDRALSTLTDREKEIIQMFFGIGTQ 243 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E +TLE + +F ++RERVRQI+ +A ++++++ Sbjct: 244 E--MTLEEIGDKFGLTRERVRQIKEKAIRRLRQN 275 >gi|148240837|ref|YP_001226224.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147849376|emb|CAK24927.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 339 Score = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 87/294 (29%), Positives = 142/294 (48%), Gaps = 37/294 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------KRYREHGDLSAAHRLVTSHL 58 Y+ I ++P+L EE LA +R+R A R++ ++L Sbjct: 55 YLSSIGRVPLLTAAEEIELAHHVQAMKELLDVPEGERTPRQRHRIRMGKRARDRMMAANL 114 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 115 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 174 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 S +++ ++K +RR+ H N L+ + I + E+IS Sbjct: 175 NSARTIRLPIHISEK--LSKMRRITRELSHRFGRQPNRLELANAMGIEPR---DLEELIS 229 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + A SL+A + S+ + L+ D +G E +E +R ++ L +S L Sbjct: 230 QSAPCA---SLDAHARGEEDRSTLGE--LIPDPNGDEP--MEGMDRSIQKEHLGGWLSQL 282 Query: 236 NPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 N RE++I R + P+TL + + VSRERVRQ+EA+A K++ +Q Sbjct: 283 NDREQKILRLRFGLDGAEPLTLAEIGRQINVSRERVRQLEAKAILKLRSMTDQQ 336 >gi|322384625|ref|ZP_08058303.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321150510|gb|EFX43991.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 371 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 84/265 (31%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAKR E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 105 YLKEIGRVHLLTADDEIELAKRIME-GDEEAKQRLAEANLRLVVSIARRYVGRGMLFLDL 163 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 164 IQEGNMGLMKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 221 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IAK++ +S +V + SL I ++N S Sbjct: 222 LIRVSRQLLLELGREPTPEE---IAKEMELSTDKVREIMKISQEPVSLETPI--GEENDS 276 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D+ + D D + + + L + L RE + R E+ TLE Sbjct: 277 NLGDF-IEDQDALAPA--DAASYELLKEQLEHVLDTLTEREENVLRLRFGLEDGRSRTLE 333 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + F V+RER+RQIEA+A +K++ Sbjct: 334 EVGKVFGVTRERIRQIEAKALRKLR 358 >gi|116491026|ref|YP_810570.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Oenococcus oeni PSU-1] gi|290890507|ref|ZP_06553582.1| hypothetical protein AWRIB429_0972 [Oenococcus oeni AWRIB429] gi|116091751|gb|ABJ56905.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Oenococcus oeni PSU-1] gi|290479903|gb|EFD88552.1| hypothetical protein AWRIB429_0972 [Oenococcus oeni AWRIB429] Length = 458 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 80/267 (29%), Positives = 137/267 (51%), Gaps = 14/267 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI ++ +L +E +AKR + G A L ++LRLVV IA Y G G+ Sbjct: 188 YLKEIGRVSLLNADQEVAIAKRIEKGGSDGERARQELAEANLRLVVSIAKRYVGRGMHFL 247 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 248 DLIQEGNMGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 305 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 L R++ L + PE++ A ++ ++ +V + SL I ++N Sbjct: 306 NKLIRIQRTLIQDLGRDPMPEEIGA---EMELTADKVREIQKIAQEPVSLETPI--GEEN 360 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-T 254 S D+ + D++G+ IE + ++ L + L RE + R L++ T Sbjct: 361 DSHLGDF-IEDNEGESP--IESTSDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRT 417 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 LE + F V+RER+RQIEA+A +K++ Sbjct: 418 LEEVGRVFGVTRERIRQIEAKALRKLR 444 >gi|281420133|ref|ZP_06251132.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281405933|gb|EFB36613.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 290 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 79/273 (28%), Positives = 142/273 (52%), Gaps = 16/273 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI + PM+ EE LA+ R+ G A ++L+ ++LR VV +A Y+ GL Sbjct: 18 LDKYLVEIGRAPMVSIDEEIELAQAIRKGGRAGERAKNKLIEANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A ++FD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 78 TLTDLIDEGNIGLIKAAERFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 +L ++ + N + V +A + V E + IS + +G S++A + Sbjct: 135 --VGSLNKVNQEINKFEQENQRRPSVEELAARTGVDEDK-ISQSMAASGHHVSIDAPFSD 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRIFEA-RRLQE 250 D NS D + D + ++ E ++ R +L L RE +I A + E Sbjct: 192 DDDNS--MADVMASGDDARTDKQVDHESMAQDLRQVLK---VCLKDRELKIICACYGIGE 246 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + + ++RERVRQI ++ K++ES Sbjct: 247 TEKGLEEIGDKMGLTRERVRQIREKSITKLRES 279 >gi|300871837|ref|YP_003786710.1| RNA polymerase sigma factor RpoD [Brachyspira pilosicoli 95/1000] gi|300689538|gb|ADK32209.1| RNA polymerase sigma factor, RpoD [Brachyspira pilosicoli 95/1000] Length = 314 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 124/239 (51%), Gaps = 20/239 (8%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 S H+LV S+LRLV+ IA Y G+P +++ EGNIGL++AVK+F+ +GF+ +TY +W Sbjct: 75 SIQHKLVKSNLRLVISIAKRYYNSGVPFIDIIDEGNIGLIEAVKRFEYRKGFKFSTYGVW 134 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQA---ITDNNLKPEQVVAIA 163 WIK ++ + +I + + R ++ RL K +Q +T + + IA Sbjct: 135 WIKQSI---------VKEISSKRHIIRFPMHIARLIKKSIQISKNLTQQLGREPSIDEIA 185 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 K++ + + S+ S+++ +SD N D + D + ++ Sbjct: 186 KEMKIDRKTLSSIIVFTQETASVDSFFKNSDNN-----DMTSFIEDKNFPSPHQDAFMES 240 Query: 224 RRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+ LT ++ L+ +ER + R + P TLE+ E ++RERVRQI+ +A KK+ Sbjct: 241 LRDTLTEALKALDEKERTVIIERFGLYGKEPKTLEDTGKELNITRERVRQIQIKALKKL 299 >gi|291439801|ref|ZP_06579191.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291342696|gb|EFE69652.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 390 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 89/293 (30%), Positives = 142/293 (48%), Gaps = 40/293 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR----------YREHGDLSA--AH--------------R 52 Y+ EI +IP+L EE LA+R R DL + AH R Sbjct: 97 YLREIGRIPLLTAAEEVELARRVEAGLFAEEKLRLTPDLDSRLAHDLDRLVVMGRMAKRR 156 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 157 LIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQA 216 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + +++ + L + R++ + PE+V A L++ E Sbjct: 217 MSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGREPTPEEVAA---HLDLP-PE 270 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + RLA + SL+A + D + D + DG +E R L Sbjct: 271 RVGEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLEAV 325 Query: 232 MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R + P TLE + F V+RER+RQIE++ K+++ Sbjct: 326 LSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 378 >gi|313884259|ref|ZP_07818025.1| RNA polymerase sigma factor RpoD [Eremococcus coleocola ACS-139-V-Col8] gi|312620706|gb|EFR32129.1| RNA polymerase sigma factor RpoD [Eremococcus coleocola ACS-139-V-Col8] Length = 376 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 133/276 (48%), Gaps = 37/276 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L E LAKR E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 110 YLKEIGRVDLLSADAEISLAKRI-EDGDELAKQELAEANLRLVVSIAKRYVGRGMSFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 169 IQEGNMGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 228 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 Q+ L +L R + + +L E+V I L +S+ V SL Sbjct: 229 RVQRNLLQDLGREPTPEEIGAEMDLPTEKVREI---LKISQEPV-----------SLETP 274 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNMLTRSMSVLNPRERRIFEAR 246 I D S D++ +++ + E + R L + L RE + R Sbjct: 275 IGEED--DSHLGDFI------EDEGAMSPESFTSSSLLREQLEDVLDTLTDREENVLRLR 326 Query: 247 -RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L + + TLE + F V+RER+RQIEA+A +K+ Sbjct: 327 FGLDDGNIRTLEQVGKVFGVTRERIRQIEAKALRKL 362 >gi|47679387|gb|AAT36674.1| DNA-directed RNA polymerase sigma A subunit [Oenococcus oeni PSU-1] Length = 465 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 80/266 (30%), Positives = 136/266 (51%), Gaps = 14/266 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI ++ +L +E +AKR + G A L ++LRLVV IA Y G G+ Sbjct: 195 YLKEIGRVSLLNADQEVAIAKRIEKGGSDGERARQELAEANLRLVVSIAKRYVGRGMHFL 254 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 255 DLIQEGNMGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 312 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 L R++ L + PE++ A ++ ++ +V + SL I ++N Sbjct: 313 NKLIRIQRTLIQDLGRDPMPEEIGA---EMELTADKVREIQKIAQEPVSLETPI--GEEN 367 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-T 254 S D+ + D++G+ IE + ++ L + L RE + R L++ T Sbjct: 368 DSHLGDF-IEDNEGESP--IESTSDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRT 424 Query: 255 LENLSSEFEVSRERVRQIEARAFKKV 280 LE + F V+RER+RQIEA+A +K+ Sbjct: 425 LEEVGRVFGVTRERIRQIEAKALRKL 450 >gi|291277050|ref|YP_003516822.1| RNA polymerase sigma-70 factor [Helicobacter mustelae 12198] gi|290964244|emb|CBG40093.1| RNA polymerase sigma factor (sigma-70) [Helicobacter mustelae 12198] Length = 614 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 118/246 (47%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KFD +R F+ +TY+ WW Sbjct: 375 AKNKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFDYKRNFKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ ++ K V IA+K+ + Sbjct: 435 IRQAISRAIADQARTIRIPI-----HMIETINRIHKIMRKYIQETGKEPDVEIIAEKVGL 489 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 S +V +S+ + DE DKNS+ D ++ Sbjct: 490 SVDKVKHVIKITKEPVSLEAPIGSDEDGKFGDFVEDKNSTNTMDQIM------------- 536 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 +++ R + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 537 --KEDLRAQIFEVLDQLNEREQAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 594 Query: 276 AFKKVQ 281 A KK++ Sbjct: 595 AIKKLK 600 >gi|299533869|ref|ZP_07047236.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni S44] gi|298718153|gb|EFI59143.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni S44] Length = 815 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 124/241 (51%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 570 ERASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 629 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ + + Sbjct: 630 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-L 684 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A K+ + E ++ + ++A E ++ D + S D++ DG I+ + Sbjct: 685 AAKMEIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDGNNTAPIDAAMQA 739 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 740 GLRDVVKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKL 799 Query: 281 Q 281 + Sbjct: 800 K 800 >gi|264677331|ref|YP_003277237.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni CNB-2] gi|262207843|gb|ACY31941.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni CNB-2] Length = 815 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 124/241 (51%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 570 ERASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 629 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ + + Sbjct: 630 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-L 684 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A K+ + E ++ + ++A E ++ D + S D++ DG I+ + Sbjct: 685 AAKMEIPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDGNNTAPIDAAMQA 739 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 740 GLRDVVKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKL 799 Query: 281 Q 281 + Sbjct: 800 K 800 >gi|159026614|emb|CAO86546.1| rpoD1 [Microcystis aeruginosa PCC 7806] Length = 416 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 78/263 (29%), Positives = 141/263 (53%), Gaps = 21/263 (7%) Query: 27 PMLE----KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 P+LE K +EY+ A + R + A ++V S+LRLVV IA Y GL +++ EG Sbjct: 154 PLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEG 213 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 ++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ + R+ Sbjct: 214 SLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRI 268 Query: 143 KGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 K + ++ + KP E+ +A ++ + + I+ + +L SL I + S+ Sbjct: 269 KKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRL 324 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENL 258 D++ D + E + + R++ N+L L+PRER + R ++ TLE + Sbjct: 325 GDFIEADGETPEDEVSKNLLREDLENVL----DTLSPRERDVLRLRYGLDDGRMKTLEEI 380 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 381 GQIFNVTRERIRQIEAKALRKLR 403 >gi|315638945|ref|ZP_07894116.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter upsaliensis JV21] gi|315480974|gb|EFU71607.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter upsaliensis JV21] Length = 657 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 83/250 (33%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 416 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 475 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ N K V IAK Sbjct: 476 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KNGKEPDVNDIAK 526 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ DKNS D ++ D D +EQ+ Sbjct: 527 EVGLSVDKVKQVIKITKEPISLEAPIGSEDDGKFGDFVEDKNSLSPMDNILKD-DLKEQI 585 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 586 --------------DEVLDQLNDREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQ 631 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 632 IESSAIKKLK 641 >gi|1710683|sp|P52328|RPSD2_BACSP RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|149623|gb|AAA25264.1| RNA polymerase sigma-subunit [Leptospira borgpetersenii] Length = 377 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 87/276 (31%), Positives = 135/276 (48%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LAKR +GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVPLLSADDEVELAKRIM-NGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 170 IQEGNMGLIKAVEKFDHNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 229 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 ++L L R + + L E+V I K E +S+ + D L Sbjct: 230 RVSRQLLQELGREPTPEEIAAEMELSVEKVREIMK----IAQEPVSLETPIGEEDDSHLG 285 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+ + D Y+ + E VL ER+ N+L + + R R Sbjct: 286 DFI--EDQEALTPADAAAYELLKEQLEDVLDTLTEREE--NVLRLRFGLDDGRTR----- 336 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 337 --------TLEEVGKVFGVTRERIRQIEAKALRKLR 364 >gi|320160330|ref|YP_004173554.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] gi|319994183|dbj|BAJ62954.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] Length = 543 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 88/300 (29%), Positives = 147/300 (49%), Gaps = 40/300 (13%) Query: 16 LSRYIHEIRKIPMLE-----KQEEYVLAKRY---REHGDLSAAHRLVTSHLRLVVKIAMG 67 L Y+ E+ +P +E +E +LA+ R + A L+ ++LRLVV IA Sbjct: 238 LMNYLREVHALPRVEFFVEHMPDEDILAEEVEGVRRRAE-DANQTLIRANLRLVVSIAKR 296 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y G G+ +++ EGN+GL++AV KFDP RG++ +TY+ WWI+ ++ YI ++I Sbjct: 297 YLGRGVSFLDLIQEGNLGLLRAVNKFDPTRGYKFSTYATWWIRQSISRYIAEQARTIRIP 356 Query: 128 TTANQK--RLFFNLRRLKGHLQ--------AITDNNLKPEQVVAIAK------------- 164 + RL R L L A+ L E AI K Sbjct: 357 VHLFESITRLLRVQRTLIQQLGREPTAEELALEAGFLSDEDAQAIRKARAEGKSIDPELM 416 Query: 165 -KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + N + S+V + +E ++ D++SSQ D++ D + ++ R+ Sbjct: 417 RRWNFATSKV--QRVLQSAEEPVSLERPVGDEDSSQLGDFI---EDDEALEPMDAAAREM 471 Query: 224 RRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + ++S+L+ RER++ E R + TLE +S F V+RER+RQIEA+A +K++ Sbjct: 472 LREQVQNALSILSERERQVLELRFGLIDGKDHTLEEVSRYFNVTRERIRQIEAKALRKLR 531 >gi|288574317|ref|ZP_06392674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] gi|288570058|gb|EFC91615.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] Length = 381 Score = 103 bits (258), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 87/277 (31%), Positives = 133/277 (48%), Gaps = 37/277 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L+ EE LAKR E GD A +++ ++LRLVV IA Y G G+ ++ Sbjct: 115 YLREIGKVDLLDASEEVELAKRV-EDGDQVAKQKIIDANLRLVVSIAKKYIGRGMLFLDL 173 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQK 133 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T Sbjct: 174 IQEGNLGLIRAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMV 233 Query: 134 RLFFNLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 R+ L + G +A+ + K E++ IA +L VS I D L Sbjct: 234 RVSRQLVQRMGREPTDEEISEAMEIESTKVEEIRRIA-QLPVSLETPIGEE----EDSQL 288 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 I D S + H+ E +L L+ RER + R Sbjct: 289 GDFIEDRDMPSPEDAASCNLLHEQIEDML-----------------DALSDREREVLRYR 331 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 332 FGLEDGRSYTLEEVGRRFGVTRERIRQIEAKALRKLR 368 >gi|309791990|ref|ZP_07686468.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] gi|308225984|gb|EFO79734.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] Length = 396 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 80/311 (25%), Positives = 147/311 (47%), Gaps = 48/311 (15%) Query: 7 SIIVNGEIGLSR---------YIHEIRKIPMLEKQEEYVLA------------------- 38 +++++ + GLS Y+ EI ++P+L ++E LA Sbjct: 81 TVVIDLDEGLSDALLGDSVRLYLREIGQVPLLTAEQEKRLAQTIERGQKAQVKIKDLDPT 140 Query: 39 -------KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 +R E G+ A ++ ++LRLVV IA YR GLP+ +++ EG++GL++A++ Sbjct: 141 SAEAVELRRQIEKGN-DARQQMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIE 199 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD ++GF+ +TY+ WWIK A+ + LV++ L L R++ + +T Sbjct: 200 KFDHDKGFKFSTYATWWIKQALSRALADQSRLVRLPV-----HLGETLNRIQAARRQLTQ 254 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + +A +L++S+ ++ R + ++ ++ S D++ H Sbjct: 255 RLGREPYDSELADELSMSQEKL--RELRRTAQDPVSLATPVGEEADSTLADFIPDPH--- 309 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERV 269 + R + ++ L RER++ E R P TLE + F V+RERV Sbjct: 310 ALDADDAAASGMLRQQIATALDQLTERERKVLELRYGLTDGQPRTLEEVGKAFGVTRERV 369 Query: 270 RQIEARAFKKV 280 RQIE +A +K+ Sbjct: 370 RQIEVKALRKL 380 >gi|189501483|ref|YP_001957200.1| RNA polymerase sigma factor [Candidatus Amoebophilus asiaticus 5a2] gi|189496924|gb|ACE05471.1| RNA polymerase sigma factor, sigma-70 family [Candidatus Amoebophilus asiaticus 5a2] Length = 287 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 79/274 (28%), Positives = 141/274 (51%), Gaps = 27/274 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +L +EE LAKR + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGRVDLLTPEEEVELAKRIK-SGDKIALEQLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 S++++EGN+GL+++ ++FD RGF+ +Y++WWI+ ++ Q I+R L ++GT Sbjct: 77 SDLINEGNLGLIKSAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNRVGTL 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNA 188 R F L + K E + IS +++G S++A Sbjct: 136 NKLSRTFSQL-----------EQKYKREPTAEELAEELEVTPGEISDTMKISGRHVSMDA 184 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI--FEAR 246 +++S + + LI++ K+ + R++S+L RE + + Sbjct: 185 PFVQGEEHSLLDVLEDDDEDK-PDDTLIDESLCKD----IERALSLLTEREAGVISYYFG 239 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 NP+TLE + + F ++RERVRQI+ +A KK+ Sbjct: 240 LKGTNPMTLEEIGTRFNLTRERVRQIKEKAIKKL 273 >gi|169883526|gb|ACA97858.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820] Length = 416 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 78/263 (29%), Positives = 141/263 (53%), Gaps = 21/263 (7%) Query: 27 PMLE----KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 P+LE K +EY+ A + R + A ++V S+LRLVV IA Y GL +++ EG Sbjct: 154 PLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEG 213 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 ++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ + R+ Sbjct: 214 SLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRI 268 Query: 143 KGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 K + ++ + KP E+ +A ++ + + I+ + +L SL I + S+ Sbjct: 269 KKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRL 324 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENL 258 D++ D + E + + R++ N+L L+PRER + R ++ TLE + Sbjct: 325 GDFIEADGETPEDEVSKNLLREDLENVL----DTLSPRERDVLRLRYGLDDGRMKTLEEI 380 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 381 GQIFNVTRERIRQIEAKALRKLR 403 >gi|1710685|sp|P52322|RPOD_MICAE RecName: Full=RNA polymerase sigma factor rpoD1 gi|786173|dbj|BAA08853.1| sigma factor [Microcystis aeruginosa] gi|1783286|dbj|BAA12850.1| principal sigma factor [Microcystis aeruginosa] Length = 416 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 78/263 (29%), Positives = 141/263 (53%), Gaps = 21/263 (7%) Query: 27 PMLE----KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 P+LE K +EY+ A + R + A ++V S+LRLVV IA Y GL +++ EG Sbjct: 154 PLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEG 213 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 ++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ + R+ Sbjct: 214 SLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRI 268 Query: 143 KGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 K + ++ + KP E+ +A ++ + + I+ + +L SL I + S+ Sbjct: 269 KKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRL 324 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENL 258 D++ D + E + + R++ N+L L+PRER + R ++ TLE + Sbjct: 325 GDFIEADGETPEDEVSKNLLREDLENVL----DTLSPRERDVLRLRYGLDDGRMKTLEEI 380 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 381 GQIFNVTRERIRQIEAKALRKLR 403 >gi|216263458|ref|ZP_03435453.1| RNA polymerase sigma factor (rpoS) [Borrelia afzelii ACA-1] gi|215980302|gb|EEC21123.1| RNA polymerase sigma factor (rpoS) [Borrelia afzelii ACA-1] Length = 266 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 81/282 (28%), Positives = 147/282 (52%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LA + + G A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIQLAGQI-QRGSAKAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKAPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + L +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTLQHLNYILETK--LTEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L +P TL+++S+E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNSPKKSTLKDISTELGISSETVRQIEKRVLKKLKEEI 265 >gi|295087657|emb|CBK69180.1| RNA polymerase sigma factor, sigma-70 family [Bacteroides xylanisolvens XB1A] Length = 286 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 148/272 (54%), Gaps = 18/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIR-KGDRVALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A+ ++ V + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE-LAVELEIPVDK---ISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 NS D LV D ++ E R+ + R++S L RE+ I + + + Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLARE-----IDRALSTLTDREKEIIQMFFGIGQQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 244 EMTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 275 >gi|326316262|ref|YP_004233934.1| RNA polymerase sigma-70 subunit RpoD [Acidovorax avenae subsp. avenae ATCC 19860] gi|323373098|gb|ADX45367.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax avenae subsp. avenae ATCC 19860] Length = 780 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 124/241 (51%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 535 ESASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 594 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ + + Sbjct: 595 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-L 649 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A K+ + E ++ + ++A E ++ D + S D++ DG I+ + Sbjct: 650 AAKMEIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDGANTAPIDAAMQA 704 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 705 GLRDVVKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKL 764 Query: 281 Q 281 + Sbjct: 765 K 765 >gi|261405623|ref|YP_003241864.1| RpoD subfamily RNA polymerase sigma-70 factor [Paenibacillus sp. Y412MC10] gi|329925852|ref|ZP_08280581.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] gi|261282086|gb|ACX64057.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. Y412MC10] gi|328939598|gb|EGG35946.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] Length = 377 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 81/264 (30%), Positives = 129/264 (48%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 111 YLKEIGRVPLLSADDEIELANRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 169 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 170 IQEGNMGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 227 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA ++ +S +V + SL I D S Sbjct: 228 LIRVSRQLLQELGREPSPEE---IAAEMELSVEKVREIMKIAQEPVSLETPIGEED--DS 282 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 283 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 339 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + F V+RER+RQIEA+A +K+ Sbjct: 340 EVGKVFGVTRERIRQIEAKALRKL 363 >gi|29346721|ref|NP_810224.1| RNA polymerase sigma factor rpoD (sigma-A) [Bacteroides thetaiotaomicron VPI-5482] gi|153808302|ref|ZP_01960970.1| hypothetical protein BACCAC_02591 [Bacteroides caccae ATCC 43185] gi|160882661|ref|ZP_02063664.1| hypothetical protein BACOVA_00615 [Bacteroides ovatus ATCC 8483] gi|160891864|ref|ZP_02072867.1| hypothetical protein BACUNI_04321 [Bacteroides uniformis ATCC 8492] gi|167762326|ref|ZP_02434453.1| hypothetical protein BACSTE_00679 [Bacteroides stercoris ATCC 43183] gi|218130148|ref|ZP_03458952.1| hypothetical protein BACEGG_01736 [Bacteroides eggerthii DSM 20697] gi|237712837|ref|ZP_04543318.1| conserved hypothetical protein [Bacteroides sp. D1] gi|237718434|ref|ZP_04548915.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_2_4] gi|255693898|ref|ZP_05417573.1| RNA polymerase sigma-70 factor [Bacteroides finegoldii DSM 17565] gi|260173882|ref|ZP_05760294.1| RNA polymerase sigma factor rpoD (sigma-A) [Bacteroides sp. D2] gi|262408807|ref|ZP_06085352.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_22] gi|270296469|ref|ZP_06202669.1| conserved hypothetical protein [Bacteroides sp. D20] gi|293371428|ref|ZP_06617859.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CMC 3f] gi|294648199|ref|ZP_06725739.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CC 2a] gi|294810777|ref|ZP_06769425.1| putative RNA polymerase sigma factor RpoD [Bacteroides xylanisolvens SD CC 1b] gi|298484065|ref|ZP_07002233.1| RNA polymerase sigma-70 factor [Bacteroides sp. D22] gi|299149080|ref|ZP_07042142.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_23] gi|315922146|ref|ZP_07918386.1| RNA polymerase sigma factor rpoD [Bacteroides sp. D2] gi|317476641|ref|ZP_07935886.1| sigma-70 family RNA polymerase sigma factor [Bacteroides eggerthii 1_2_48FAA] gi|317480344|ref|ZP_07939445.1| sigma-70 family RNA polymerase sigma factor [Bacteroides sp. 4_1_36] gi|329955895|ref|ZP_08296698.1| putative RNA polymerase sigma factor RpoD [Bacteroides clarus YIT 12056] gi|29338618|gb|AAO76418.1| RNA polymerase sigma factor rpoD (Sigma-A) [Bacteroides thetaiotaomicron VPI-5482] gi|149129205|gb|EDM20421.1| hypothetical protein BACCAC_02591 [Bacteroides caccae ATCC 43185] gi|156111976|gb|EDO13721.1| hypothetical protein BACOVA_00615 [Bacteroides ovatus ATCC 8483] gi|156858342|gb|EDO51773.1| hypothetical protein BACUNI_04321 [Bacteroides uniformis ATCC 8492] gi|167699969|gb|EDS16548.1| hypothetical protein BACSTE_00679 [Bacteroides stercoris ATCC 43183] gi|217987652|gb|EEC53980.1| hypothetical protein BACEGG_01736 [Bacteroides eggerthii DSM 20697] gi|229447165|gb|EEO52956.1| conserved hypothetical protein [Bacteroides sp. D1] gi|229452367|gb|EEO58158.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_2_4] gi|260620263|gb|EEX43134.1| RNA polymerase sigma-70 factor [Bacteroides finegoldii DSM 17565] gi|262353018|gb|EEZ02113.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_22] gi|270273873|gb|EFA19735.1| conserved hypothetical protein [Bacteroides sp. D20] gi|292633625|gb|EFF52183.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CMC 3f] gi|292636474|gb|EFF54952.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CC 2a] gi|294442110|gb|EFG10929.1| putative RNA polymerase sigma factor RpoD [Bacteroides xylanisolvens SD CC 1b] gi|298269746|gb|EFI11339.1| RNA polymerase sigma-70 factor [Bacteroides sp. D22] gi|298513841|gb|EFI37728.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_23] gi|313696021|gb|EFS32856.1| RNA polymerase sigma factor rpoD [Bacteroides sp. D2] gi|316903519|gb|EFV25372.1| sigma-70 family RNA polymerase sigma factor [Bacteroides sp. 4_1_36] gi|316907237|gb|EFV28946.1| sigma-70 family RNA polymerase sigma factor [Bacteroides eggerthii 1_2_48FAA] gi|328525275|gb|EGF52325.1| putative RNA polymerase sigma factor RpoD [Bacteroides clarus YIT 12056] Length = 286 Score = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 148/272 (54%), Gaps = 18/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIRK-GDRVALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 NS D LV D ++ E R+ + R++S L RE+ I + + + Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLARE-----IDRALSTLTDREKEIIQMFFGIGQQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 244 EMTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 275 >gi|124024683|ref|YP_001018990.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123964969|gb|ABM79725.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 344 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 80/273 (29%), Positives = 143/273 (52%), Gaps = 18/273 (6%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 EI L+ ++ ++++ L +Q+ + +R++ A R+++++LRLVV +A Y+ G Sbjct: 75 EIELAHHVQAMKELLELPEQD-HTPRQRHKIRMGKRARDRMMSANLRLVVSVAKKYQNQG 133 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S +++ ++ Sbjct: 134 LELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISE 193 Query: 133 KRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K +RR+ H N L+ +A + + ++ + + A SL+A Sbjct: 194 K--LSKMRRISRELSHRFGRQPNRLE------LAHAMGIQPQDLEDLIAQSAPCASLDAH 245 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL- 248 + S+ + L+ D +G E +E +R ++ L +S LN RE++I R Sbjct: 246 ARGEEDRSTLGE--LIPDPNGAEP--MEGLDRSIQKEHLGGWLSQLNEREQKILRLRFGL 301 Query: 249 -QENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 E P+TL + + VSRERVRQ+EA+A K+ Sbjct: 302 DGEEPLTLAEIGRQISVSRERVRQLEAKAILKL 334 >gi|29832222|ref|NP_826856.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29609340|dbj|BAC73391.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 389 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 90/295 (30%), Positives = 142/295 (48%), Gaps = 42/295 (14%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AA 50 +Y+ EI +IP+L EE LA+R E G DL A Sbjct: 95 QYLREIGRIPLLTAAEEVELARRV-EAGLFAEEKLSSTPDLDSQLGLDLDKLVVMGRMAK 153 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 154 RRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 213 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + L + R++ + PE+V A L++ Sbjct: 214 QAMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGYEPTPEEVAA---HLDLP- 267 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E +S RLA + SL+A + D + D + DG +E R L Sbjct: 268 GERVSEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDATSPVESAAFLLLREHLD 322 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 323 AVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 377 >gi|325954752|ref|YP_004238412.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Weeksella virosa DSM 16922] gi|323437370|gb|ADX67834.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Weeksella virosa DSM 16922] Length = 288 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 82/296 (27%), Positives = 153/296 (51%), Gaps = 55/296 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ +EE LA+R + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITAEEEVELAQRIK-AGDRVALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A ++FD RGF+ +Y++WWI+ ++ Q I+R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 + + L + H +A + I++ L++SE +V +SM+ Sbjct: 136 NKINKAYALLE--QEHERAPSAEE--------ISEVLDMSEGDVKESLKNSGRHVSMDAP 185 Query: 180 L--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L D +L ++N + S ++IE + R + R++ L P Sbjct: 186 LVEGEDSNLYDVLNIGESPSP------------DNTLMIE-----SLRVEIERALQTLTP 228 Query: 238 RERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE + RL +P+TLE + F+++RERVRQI+ +A ++++ + + ++ Sbjct: 229 READLI---RLYFGLNGAHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKI 281 >gi|18310989|ref|NP_562923.1| RNA polymerase sigma factor RpoD [Clostridium perfringens str. 13] gi|18145671|dbj|BAB81713.1| transcription initiation factor sigma A [Clostridium perfringens str. 13] Length = 373 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 138/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E LAK+ E G A +L ++LRLVV IA Y G G+ ++ Sbjct: 107 YLKEIGKVPLLSSEDEIELAKKI-EEGSNYAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 165 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 166 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 223 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ ++K++++ +V + ++A E ++ ++ S Sbjct: 224 LIRIQRQLVQELGRDPLPEE---LSKQMDMPVDKVREI-LKIA-QEPVSLETPIGEEEDS 278 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 279 HLGDFIPDDDAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 335 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 336 EVGKEFNVTRERIRQIEAKALRKLR 360 >gi|315645989|ref|ZP_07899110.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] gi|315278750|gb|EFU42064.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] Length = 376 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 81/264 (30%), Positives = 129/264 (48%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +E LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 110 YLKEIGRVPLLSADDEIELANRI-EQGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 169 IQEGNMGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 226 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L PE+ IA ++ +S +V + SL I D S Sbjct: 227 LIRVSRQLLQELGREPSPEE---IAAEMELSVEKVREIMKIAQEPVSLETPIGEED--DS 281 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + L RE + R ++ TLE Sbjct: 282 HLGDFI---EDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLE 338 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + F V+RER+RQIEA+A +K+ Sbjct: 339 EVGKVFGVTRERIRQIEAKALRKL 362 >gi|118586868|ref|ZP_01544302.1| DNA-directed RNA polymerase RpoD, sigma subunit, Sigma-42 [Oenococcus oeni ATCC BAA-1163] gi|71466858|emb|CAH41003.1| rpoD protein [Oenococcus oeni] gi|118432700|gb|EAV39432.1| DNA-directed RNA polymerase RpoD, sigma subunit, Sigma-42 [Oenococcus oeni ATCC BAA-1163] Length = 458 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 80/267 (29%), Positives = 135/267 (50%), Gaps = 14/267 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 Y+ EI ++ +L +E +AKR + G A L ++LRLVV IA Y G G+ Sbjct: 188 YLKEIGRVSLLNADQEVAIAKRIEKGGSDGERARQELAEANLRLVVSIAKRYVGRGMHFL 247 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 248 DLIQEGNMGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETI 305 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 L R++ L + PE++ A ++ ++ +V + SL I D Sbjct: 306 NKLIRIQRTLIQDLGRDPMPEEIGA---EMELTADKVREIQKIAQEPVSLETPIGEED-- 360 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-T 254 S D+ + D++G+ IE + ++ L + L RE + R L++ T Sbjct: 361 DSHLGDF-IEDNEGESP--IESTSDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRT 417 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 LE + F V+RER+RQIEA+A +K++ Sbjct: 418 LEEVGRVFGVTRERIRQIEAKALRKLR 444 >gi|120610093|ref|YP_969771.1| RpoD family RNA polymerase sigma factor [Acidovorax citrulli AAC00-1] gi|120588557|gb|ABM31997.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax citrulli AAC00-1] Length = 781 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 124/241 (51%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 536 ESASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 595 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ + + Sbjct: 596 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-L 650 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A K+ + E ++ + ++A E ++ D + S D++ DG I+ + Sbjct: 651 AAKMEIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDGANTAPIDAAMQA 705 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 706 GLRDVVKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKL 765 Query: 281 Q 281 + Sbjct: 766 K 766 >gi|187923827|ref|YP_001895469.1| RNA polymerase sigma factor RpoS [Burkholderia phytofirmans PsJN] gi|187715021|gb|ACD16245.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia phytofirmans PsJN] Length = 360 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 81/279 (29%), Positives = 140/279 (50%), Gaps = 27/279 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 82 IQHYLNRISVKPLLTVEEEQKYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 140 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 141 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 198 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 + R K HL+ + N + + + + K ++++++N A D L Sbjct: 199 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 258 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEA 245 + SS + D + Q + L LTR+ ++ L+ + R + E Sbjct: 259 DLDPASSLLDLLSDDQSQSPDAEVQHREL----------ETLTRAWLARLSDKHRHVIE- 307 Query: 246 RRLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RR N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 308 RRFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 346 >gi|253573078|ref|ZP_04850470.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 1_1_6] gi|251837335|gb|EES65434.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 1_1_6] Length = 286 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 147/272 (54%), Gaps = 18/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIR-KGDRVALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 NS D LV D ++ E R+ + R++S L RE+ I + + + Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLARE-----IDRALSTLTEREKEIIQMFFGIGQQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 244 EMTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 275 >gi|159899067|ref|YP_001545314.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159892106|gb|ABX05186.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 386 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 139/294 (47%), Gaps = 45/294 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------------EHGDL-----------SAAH 51 Y+ EI ++P+L EE LAK+ EH D +A Sbjct: 92 YLQEIGQVPLLTAAEEVDLAKKMEVAHAANDTLLQDDGMLEHSDRISLKRHIDTGRAARQ 151 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y YGL + ++V EGNIGLM+AV+KFD +G + +TY+ WWI+ Sbjct: 152 HLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWWIRQ 211 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ I +++ + ++R LQ PE+ IA+ + ++ S Sbjct: 212 AITRAIADQSRTIRLPVHMGEA--ISQVKRTSHKLQQTMQREPTPEE---IAEAMGITAS 266 Query: 172 EVISMNCRLAGDESLNAL---INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V R + S++ L + + + D++ D + ++ R + Sbjct: 267 KV-----RRTLEASMHPLSLEMPVGQEGEGRMGDFI---EDDRVSTPVDAAAMTMLREQI 318 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L RER+I + R L++ TLE + EF ++RER+RQIEA A +K+ Sbjct: 319 EEVLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKL 372 >gi|189467039|ref|ZP_03015824.1| hypothetical protein BACINT_03421 [Bacteroides intestinalis DSM 17393] gi|224535443|ref|ZP_03675982.1| hypothetical protein BACCELL_00305 [Bacteroides cellulosilyticus DSM 14838] gi|319901765|ref|YP_004161493.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides helcogenes P 36-108] gi|189435303|gb|EDV04288.1| hypothetical protein BACINT_03421 [Bacteroides intestinalis DSM 17393] gi|224522909|gb|EEF92014.1| hypothetical protein BACCELL_00305 [Bacteroides cellulosilyticus DSM 14838] gi|319416796|gb|ADV43907.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides helcogenes P 36-108] Length = 286 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 148/272 (54%), Gaps = 18/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIRK-GDRIALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 NS D LV D ++ E R+ + R++S L RE+ I + + + Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLARE-----IDRALSTLTDREKEIIQMFFGIGQQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 244 EMTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 275 >gi|152995337|ref|YP_001340172.1| RpoD family RNA polymerase sigma factor [Marinomonas sp. MWYL1] gi|150836261|gb|ABR70237.1| RNA polymerase, sigma 70 subunit, RpoD family [Marinomonas sp. MWYL1] Length = 338 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 142/278 (51%), Gaps = 26/278 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R GD A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 66 YLSEIGFSPLLTAEEE-VYFSRLSLKGDQKARTRMIESNLRLVVKISRRYLNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ + K L ++E +V S++ GD + +L+ Sbjct: 184 LRAARELTQKL-DHEPSAEEIAEMLDCPVEDVQKMLGLNE-KVSSIDATFGGDNNDKSLV 241 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR-NMLTRSMSVLNPRERRIFEARRLQ 249 Q + D D + + +E ++ ++TR + R EA Sbjct: 242 EILADTLHQGPEADRQDGDVLNSIELWLDELSEKQCEVITRRFGL------RGHEAS--- 292 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ +E ++RERVRQI+ A +K++ + K+ Sbjct: 293 ----TLEHVGAEIGLTRERVRQIQVEALRKLRLIMDKE 326 >gi|296451502|ref|ZP_06893237.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP08] gi|296880149|ref|ZP_06904116.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP07] gi|296259567|gb|EFH06427.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP08] gi|296428874|gb|EFH14754.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP07] Length = 301 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/269 (28%), Positives = 144/269 (53%), Gaps = 11/269 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + Y+ EI + ML EE LAK + A + + S+ RLVV IA Y+ + Sbjct: 30 AMKMYLKEIEEYKMLSAGEEVELAKEIINSSSV-AKEKFINSNYRLVVSIAKRYKRDSID 88 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ GNIGL++AV+K+D ++G++ +TY+ WWIK ++ YI + ++I +Q+ Sbjct: 89 MLDLIQAGNIGLIKAVEKYDYKKGYKFSTYATWWIKQSITRYIDDCENTIRIPIHLHQRI 148 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 F +K Q + + L+ + IA + +V+ + R SL+ + D Sbjct: 149 NF-----VKKKKQELLNVLLREPTIDEIADACGLEVDKVLELLRRDKNVVSLDTPL-KED 202 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENP 252 ++SS +++ D D ++ V+ E E+ N + + ++ L +E+++ R ++P Sbjct: 203 EDSS-LVEFIPSDADFKDVVMHEVEQH-NLKEKIEELLTGLGEQEQQVLRMRFGIDDDDP 260 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 261 KTLEQIGRVFGVTRERIRQIEAKAIRKLR 289 >gi|295098975|emb|CBK88064.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium cylindroides T2-87] Length = 368 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 85/295 (28%), Positives = 147/295 (49%), Gaps = 46/295 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------EHGDLSAAHR----------------L 53 Y+ EI +IP+L+ +EE ++AKR + E DL R L Sbjct: 74 YLKEIGQIPLLDPKEEPIIAKRIQDGEAAKKKLEEPDLDIEERKKLASVVADGEEAKQVL 133 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 ++S+LRLVV IA Y G G+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ ++ Sbjct: 134 ISSNLRLVVSIAKKYVGRGMLFLDLIQEGNCGLIKAVEKFDYTKGFKFSTYATWWIRQSI 193 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL-NVSESE 172 I ++I + L R++ L + PE+ IA+K+ N++ + Sbjct: 194 TRAIADQARTIRI--PVHMVETINKLTRIQRQLVQDLGRDPLPEE---IAEKMENITADK 248 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR---RNML 228 V + ++A D SL I D S D++ +++ + ++ N ++ + Sbjct: 249 VREIQ-KIALDPVSLETPIGEED--DSHLGDFI------EDKETLSPDDYTNNQLLKDEI 299 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE ++ R + TLE + EF V+RER+RQIEA+A +K++ Sbjct: 300 NNVLQGLTEREEKVLRLRFGLMDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLK 354 >gi|323526138|ref|YP_004228291.1| RNA polymerase sigma-70 subunit RpoD subfamily [Burkholderia sp. CCGE1001] gi|323383140|gb|ADX55231.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1001] Length = 358 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 79/278 (28%), Positives = 140/278 (50%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 80 IQHYLNRISVKPLLTVEEEQKYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 138 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 139 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 196 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ + N + + + + K ++++++N A SL+ Sbjct: 197 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTA---SLD 253 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S +V + LTR+ ++ L+ + R + E R Sbjct: 254 APLDLDPASSLLDLLSDDQSQSPDAEV------QHRELETLTRAWLARLSDKHRHVIE-R 306 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 307 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 344 >gi|119953545|ref|YP_945755.1| RNA polymerase sigma factor RpoS [Borrelia turicatae 91E135] gi|119862316|gb|AAX18084.1| RNA polymerase sigma factor RpoS [Borrelia turicatae 91E135] Length = 267 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 81/282 (28%), Positives = 150/282 (53%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LAK+ + GDL A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHRLITHEEEIELAKQIK-LGDLKAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL + +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKVEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + L N + + + P++ I ++ N++ ++ I + L + S Sbjct: 118 VPYRKENLILQIN--------KYLMEEEKSPKK-EDIMERFNLTTAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ + +E+ N + + LN +ER I Sbjct: 169 LDKKIEGSE-NSTLLN--LYEDNSFNPESTLEQNSTLKHLNHILETK--LNEKERYIIIK 223 Query: 246 RRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R +N TL+++S+E +S E VRQIE R KK++E + Sbjct: 224 RYNLDNSDKKSTLKDISNELGISSETVRQIEKRVLKKLKEEL 265 >gi|110803528|ref|YP_699284.1| RNA polymerase sigma factor RpoD [Clostridium perfringens SM101] gi|169343561|ref|ZP_02864560.1| RNA polymerase sigma factor RpoD [Clostridium perfringens C str. JGS1495] gi|170763881|ref|ZP_02634334.2| RNA polymerase sigma factor RpoD [Clostridium perfringens B str. ATCC 3626] gi|170764050|ref|ZP_02630759.2| RNA polymerase sigma factor RpoD [Clostridium perfringens E str. JGS1987] gi|170764227|ref|ZP_02638581.2| RNA polymerase sigma factor RpoD [Clostridium perfringens CPE str. F4969] gi|182420445|ref|ZP_02641259.2| RNA polymerase sigma factor RpoD [Clostridium perfringens NCTC 8239] gi|182624422|ref|ZP_02952206.1| RNA polymerase sigma factor RpoD [Clostridium perfringens D str. JGS1721] gi|110684029|gb|ABG87399.1| RNA polymerase sigma factor RpoD [Clostridium perfringens SM101] gi|169298121|gb|EDS80211.1| RNA polymerase sigma factor RpoD [Clostridium perfringens C str. JGS1495] gi|170663661|gb|EDT16344.1| RNA polymerase sigma factor RpoD [Clostridium perfringens E str. JGS1987] gi|170713105|gb|EDT25287.1| RNA polymerase sigma factor RpoD [Clostridium perfringens B str. ATCC 3626] gi|170715649|gb|EDT27831.1| RNA polymerase sigma factor RpoD [Clostridium perfringens CPE str. F4969] gi|177910425|gb|EDT72802.1| RNA polymerase sigma factor RpoD [Clostridium perfringens D str. JGS1721] gi|182382279|gb|EDT79758.1| RNA polymerase sigma factor RpoD [Clostridium perfringens NCTC 8239] Length = 366 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 138/265 (52%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E LAK+ E G A +L ++LRLVV IA Y G G+ ++ Sbjct: 100 YLKEIGKVPLLSSEDEIELAKKI-EEGSNYAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 159 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 216 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ ++K++++ +V + ++A E ++ ++ S Sbjct: 217 LIRIQRQLVQELGRDPLPEE---LSKQMDMPVDKVREI-LKIA-QEPVSLETPIGEEEDS 271 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 272 HLGDFIPDDDAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 328 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 329 EVGKEFNVTRERIRQIEAKALRKLR 353 >gi|19910022|dbj|BAB87262.1| RNA polymerase sigma factor [Guillardia theta] Length = 490 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 134/248 (54%), Gaps = 14/248 (5%) Query: 39 KRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 K++R H A R+V ++LRLVV IA Y G+ + +++ EG++GL++A +KFD E Sbjct: 193 KKFRSILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDSE 252 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +GF+ +TY+ WW+K A+ I +++ L+ + ++ + + + Sbjct: 253 KGFKFSTYATWWVKQAVTRAIADHSRTIRLPV-----HLYDTISAIRKTTRTLNIEIGRS 307 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 IA+K+++S ++ S+ SL + + D ++SQ D++ D + E Sbjct: 308 PTEEEIAEKMDMSVEKLRSVLQSAQPTLSLERPLKNDD-DASQLSDFIEADQESPE---- 362 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEA 274 E E+ R+ L ++ L+PRER + R L + + TLE + F V+RERVRQIEA Sbjct: 363 EHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEA 422 Query: 275 RAFKKVQE 282 +A +K+++ Sbjct: 423 KAIRKLRQ 430 >gi|269960386|ref|ZP_06174759.1| RNA polymerase sigma-38 factor [Vibrio harveyi 1DA3] gi|269834813|gb|EEZ88899.1| RNA polymerase sigma-38 factor [Vibrio harveyi 1DA3] Length = 255 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 129/247 (52%), Gaps = 30/247 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKI+ Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 15 RMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 74 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA--------IA 163 ++ ++ +++ K L LR + L D+ E++ A ++ Sbjct: 75 TIERALMNQTRTIRLPIHV-VKELNIYLRTAR-ELSQKLDHEPTAEEIAAQLDIPVEDVS 132 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 K L ++E + S++ + GD L D N+S D V D + Sbjct: 133 KMLRLNE-RISSVDTPIGGDGEKALLDIIPDANNS---DPEVSTQD------------DD 176 Query: 224 RRNMLTRSMSVLNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L + LNP+++ + ARR L P TLE + E ++RERVRQI+ +++ Sbjct: 177 IKSSLIHWLEELNPKQKEVL-ARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRL 235 Query: 281 QESIQKQ 287 +E + KQ Sbjct: 236 REILIKQ 242 >gi|170692344|ref|ZP_02883507.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia graminis C4D1M] gi|170142774|gb|EDT10939.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia graminis C4D1M] Length = 359 Score = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 81/279 (29%), Positives = 140/279 (50%), Gaps = 27/279 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 81 IQHYLNRISVKPLLTVEEEQKYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 139 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 140 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 197 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 + R K HL+ + N + + + + K ++++++N A D L Sbjct: 198 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 257 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEA 245 + SS + D + Q + L LTR+ ++ L+ + R + E Sbjct: 258 DLDPASSLLDLLSDDQSQSPDAEVQHREL----------ETLTRAWLARLSDKHRHVIE- 306 Query: 246 RRLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RR N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 307 RRFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 345 >gi|295676469|ref|YP_003604993.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1002] gi|295436312|gb|ADG15482.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1002] Length = 362 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 80/278 (28%), Positives = 141/278 (50%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQKYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ + N + + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S +V + E LTR+ ++ L+ + R + E R Sbjct: 258 APLDLDPASSLLDLLSDDQSQSPDAEVQHRELE------TLTRAWLARLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|307324812|ref|ZP_07604018.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] gi|306889694|gb|EFN20674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] Length = 414 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 91/295 (30%), Positives = 141/295 (47%), Gaps = 42/295 (14%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AA 50 +Y+ EI +IP+L EE LA+R E G DL A Sbjct: 120 QYLREIGRIPLLSAVEEVELARRV-EAGLFAEEKLGNTPDLDSQLAVDLDRLVVLGRVAK 178 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 179 RRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 238 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + L + R++ + PE+V A L Sbjct: 239 QAMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGYEPTPEEVAAHLDLLPERV 296 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 SEV+ RLA + SL+A + D + D + DG +E R L Sbjct: 297 SEVL----RLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLE 347 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 348 AVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 402 >gi|288927719|ref|ZP_06421566.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] gi|288330553|gb|EFC69137.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] Length = 287 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 76/268 (28%), Positives = 146/268 (54%), Gaps = 16/268 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI ++ +EE LA+R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGHEELISVEEEVELAQRIKK-GDRKALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 QDLINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 ++ ++ L N + + IA+K ++ E + I ++ G S++A + Sbjct: 132 VGSVNKINKILSKFEQENERRPSINEIAEKTDLPEDK-IEDAIKVTGRHISVDAPFVDGE 190 Query: 195 KNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENP 252 NS D L D + L+ +++ R + ++ LN RER + EA + + Sbjct: 191 DNS--LLDLLANTDTPTVDNELV----KESLRAEIADALQYLNERERNVIEAFFGINQME 244 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKV 280 +TLE + ++ ++RERVRQI+ +A +++ Sbjct: 245 MTLEEIGDKYGLTRERVRQIKEKAIRRL 272 >gi|209522220|ref|ZP_03270857.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. H160] gi|209497349|gb|EDZ97567.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. H160] Length = 363 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 80/278 (28%), Positives = 141/278 (50%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 85 IQHYLNRISVKPLLTVEEEQKYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 143 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 144 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 201 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ + N + + + + K ++++++N A SL+ Sbjct: 202 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTA---SLD 258 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S +V + E LTR+ ++ L+ + R + E R Sbjct: 259 APLDLDPASSLLDLLSDDQSQSPDAEVQHRELE------TLTRAWLARLSDKHRHVIE-R 311 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 312 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 349 >gi|329960773|ref|ZP_08299079.1| putative RNA polymerase sigma factor RpoD [Bacteroides fluxus YIT 12057] gi|328532374|gb|EGF59175.1| putative RNA polymerase sigma factor RpoD [Bacteroides fluxus YIT 12057] Length = 286 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 147/272 (54%), Gaps = 18/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIR-KGDRIALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 NS D LV D ++ E R+ + R++S L RE+ I + + + Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLARE-----IDRALSTLTEREKEIIQMFFGIGQQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 244 EMTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 275 >gi|332880149|ref|ZP_08447831.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332681908|gb|EGJ54823.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 286 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 75/277 (27%), Positives = 152/277 (54%), Gaps = 16/277 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL Sbjct: 17 SLDKYLQEIGREDLITVEEEVELAQRIRK-GDRVALEKLTRANLRFVVSVAKQYQNQGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 76 LPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVG 133 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 + + + + PE+ +A +L + + IS +++G S++A Sbjct: 134 SLNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEG 189 Query: 194 DKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 + NS D LV D ++ L+ + + + R++S L+ RE+ I + + Sbjct: 190 EDNS--LLDVLVNDDSPMADRTLVNESLSRE----IDRALSTLSEREKEIIQMFFGINHQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +TLE + +F ++RERVRQI+ +A ++++++ + ++ Sbjct: 244 EMTLEEIGDKFNLTRERVRQIKEKAIRRLRQNTKSKL 280 >gi|186475727|ref|YP_001857197.1| RNA polymerase sigma factor RpoS [Burkholderia phymatum STM815] gi|184192186|gb|ACC70151.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia phymatum STM815] Length = 364 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 80/278 (28%), Positives = 141/278 (50%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 86 IQHYLNRISVKPLLTVEEEQRYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 144 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 145 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 202 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ + N + + + + K ++++++N A SL+ Sbjct: 203 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTA---SLD 259 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S +V + E LTR+ ++ L+ + R + E R Sbjct: 260 APLDLDPASSLLDLLSDDQSQSPDAEVQHRELE------TLTRAWLARLSDKHRHVIE-R 312 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 313 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 350 >gi|318040801|ref|ZP_07972757.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CB0101] Length = 381 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 74/241 (30%), Positives = 122/241 (50%), Gaps = 13/241 (5%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H A R++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+K+DP RGFR +T Sbjct: 131 HHGRRARDRMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKYDPTRGFRFST 190 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ + I +++ +K L R+K + I + + V +A Sbjct: 191 YAYWWIRQGITRAIATQSRTIRLPVHVTEK-----LNRIKKAQRQIATEHGRLASVSDLA 245 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++L +SE V R+ SL+ + + +Q D L H EQ L R++ Sbjct: 246 RELGLSEEVVRLTLMRVPRSVSLDTRVGR--EQDTQLGDLLEDSHATPEQELT----RES 299 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L + L RE + R E+ P TL + + +SRERVRQIE+RA K++ Sbjct: 300 LHDDLESLLEELTAREAAVIRLRYGLEDDTPQTLSQIGEDLHLSRERVRQIESRALLKLR 359 Query: 282 E 282 + Sbjct: 360 Q 360 >gi|256827331|ref|YP_003151290.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Cryptobacterium curtum DSM 15641] gi|256583474|gb|ACU94608.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Cryptobacterium curtum DSM 15641] Length = 422 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 89/304 (29%), Positives = 141/304 (46%), Gaps = 61/304 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-----------------------REHG--------DL 47 Y+ EI K+P+L EE LA + REH L Sbjct: 123 YLKEIGKVPLLTAAEEIDLAMKIEAGVEAGEQLEAAEADNAEELSRREHRRLTRIEAVGL 182 Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A +L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ W Sbjct: 183 DAKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATW 242 Query: 108 WIKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ A+ I ++I T N Q++L L R + + +L P++ Sbjct: 243 WIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPTPEEIAEEMDLTPDR 302 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V I K +S+ E +S+ + +E SQ D++ D V + Sbjct: 303 VREIQK---ISQ-EPVSLETPIGEEE------------DSQLGDFI---EDDAAVVPPDA 343 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 + LT+ + L RER++ R E+ P TLE + EF V+RER+RQIE++ Sbjct: 344 ASFSMLQEQLTKVLDGLAERERKVISLRFGLEDGHPRTLEEVGREFGVTRERIRQIESKT 403 Query: 277 FKKV 280 K+ Sbjct: 404 LAKL 407 >gi|255655509|ref|ZP_05400918.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-23m63] Length = 294 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 77/269 (28%), Positives = 144/269 (53%), Gaps = 11/269 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + Y+ EI + ML EE LAK + A + + S+ RLVV IA Y+ + Sbjct: 23 AMKMYLKEIEEYKMLSAGEEVELAKEIINSSSV-AKEKFINSNYRLVVSIAKRYKRDSID 81 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ GNIGL++AV+K+D ++G++ +TY+ WWIK ++ YI + ++I +Q+ Sbjct: 82 MLDLIQAGNIGLIKAVEKYDYKKGYKFSTYATWWIKQSITRYIDDCENTIRIPIHLHQRI 141 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 F +K Q + + L+ + IA + +V+ + R SL+ + D Sbjct: 142 NF-----VKKKKQELLNVLLREPTIDEIADACGLEVDKVLELLRRDKNVVSLDTPL-KED 195 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENP 252 ++SS +++ D D ++ V+ E E+ N + + ++ L +E+++ R ++P Sbjct: 196 EDSS-LVEFIPSDADFKDVVMHEVEQH-NLKEKIEELLTGLGEQEQQVLRMRFGIDDDDP 253 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 254 KTLEQIGRVFGVTRERIRQIEAKAIRKLR 282 >gi|282861771|ref|ZP_06270835.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] gi|282563587|gb|EFB69125.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] Length = 355 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 87/298 (29%), Positives = 146/298 (48%), Gaps = 50/298 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDLS--------AAHR 52 Y+ EI +IP+L +E LA+R R DL A R Sbjct: 62 YLREIGRIPLLGAADEVELARRVEAGLFAEERLAATPGPDTRLAQDLGRLVVQGRMAERR 121 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 122 LIEANLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYATWWIRQA 181 Query: 113 MQEYILRSWSLVKIGTTANQ--KRLFFNLRRL---KGHLQAITDNNLKPEQVVAIAKKLN 167 M + +++ + R+ RRL +GH + + +A +L+ Sbjct: 182 MSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGHEPSAEE----------VAAQLD 231 Query: 168 VSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ V ++ RLA + SL+A + D + + D + DG +E R Sbjct: 232 LTPERVETI-LRLAQEPVSLHAPVGEEDDVA--FGDLI---EDGDAPSPVESAAFLLLRE 285 Query: 227 MLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L +S L RER++ + R ++ P TLE + F V+RER+RQIE++ ++++ Sbjct: 286 HLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLARLRD 343 >gi|260222953|emb|CBA33035.1| RNA polymerase sigma factor rpoD [Curvibacter putative symbiont of Hydra magnipapillata] Length = 519 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 127/241 (52%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E+ +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 274 EYASRAAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 333 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ V + Sbjct: 334 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASV-L 388 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A+K+ + E ++ + ++A E ++ D + S D++ D +E + Sbjct: 389 AEKMEIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSANTAPMEAAMQA 443 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E + TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 444 GLRDVVKDILDSLTPREAKVLRMRFGIEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKL 503 Query: 281 Q 281 + Sbjct: 504 K 504 >gi|116074244|ref|ZP_01471506.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116069549|gb|EAU75301.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 341 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 83/288 (28%), Positives = 142/288 (49%), Gaps = 37/288 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------KRYREHGDLSAAHRLVTSHL 58 Y+ I +IP+L EE LA +R++ A R++ ++L Sbjct: 57 YLSSIGRIPLLTPAEEIELAHHVQAMKQLLETPEDERTPRERHKIRMGKRARDRMMAANL 116 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 117 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 176 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 S +++ ++K +RR+ H N L+ +A + + ++ Sbjct: 177 NSARTIRLPIHISEK--LSKMRRISRELSHRFGRQPNRLE------LAHAMGIEPRDLED 228 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + + A SL+A + S+ + L+ D +G++ +E +R ++ L +S L Sbjct: 229 LISQSAPCASLDAHARGEEDRSTLGE--LIPDPNGEDS--MEGMDRSIQKEHLGGWLSQL 284 Query: 236 NPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N RE++I + R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 285 NEREQKILKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 332 >gi|330995823|ref|ZP_08319720.1| putative RNA polymerase sigma factor RpoD [Paraprevotella xylaniphila YIT 11841] gi|329574553|gb|EGG56118.1| putative RNA polymerase sigma factor RpoD [Paraprevotella xylaniphila YIT 11841] Length = 286 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 75/277 (27%), Positives = 152/277 (54%), Gaps = 16/277 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL Sbjct: 17 SLDKYLQEIGREDLITVEEEVELAQRIRK-GDRVALEKLTRANLRFVVSVAKQYQNQGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 76 LPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVG 133 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 + + + + PE+ +A +L + + IS +++G S++A Sbjct: 134 SLNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEG 189 Query: 194 DKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQEN 251 + NS D LV D ++ L+ + + + R++S L+ RE+ I + + Sbjct: 190 EDNS--LLDVLVNDDSPMADRTLVNESLARE----IDRALSTLSEREKEIIQMFFGINHQ 243 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +TLE + +F ++RERVRQI+ +A ++++++ + ++ Sbjct: 244 EMTLEEIGDKFNLTRERVRQIKEKAIRRLRQNTKSKL 280 >gi|283954552|ref|ZP_06372071.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 414] gi|283793956|gb|EFC32706.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 414] Length = 622 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 125/250 (50%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++++S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVSLSMDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 ++ LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLNQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|57168867|ref|ZP_00367997.1| RNA polymerase sigma factor RpoD [Campylobacter coli RM2228] gi|305431982|ref|ZP_07401149.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter coli JV20] gi|57019703|gb|EAL56389.1| RNA polymerase sigma factor RpoD [Campylobacter coli RM2228] gi|304445066|gb|EFM37712.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter coli JV20] Length = 621 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 380 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 440 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 490 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 491 EVGLSVDKVKQVIKITKEPISLEAPIGSEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 549 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 550 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 595 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 596 IESSAIKKLK 605 >gi|91783466|ref|YP_558672.1| RNA polymerase sigma factor RpoS [Burkholderia xenovorans LB400] gi|296157776|ref|ZP_06840610.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. Ch1-1] gi|91687420|gb|ABE30620.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia xenovorans LB400] gi|295892022|gb|EFG71806.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. Ch1-1] Length = 360 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 79/278 (28%), Positives = 140/278 (50%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 82 IQHYLNRISVKPLLTVEEEQKYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 140 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 141 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 198 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ + N + + + + K ++++++N A SL+ Sbjct: 199 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTA---SLD 255 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S +V + LTR+ ++ L+ + R + E R Sbjct: 256 APLDLDPASSLLDLLSDDQSQSPDAEV------QHRELETLTRAWLARLSDKHRHVIE-R 308 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 309 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 346 >gi|166368188|ref|YP_001660461.1| RNA polymerase sigma factor RpoD [Microcystis aeruginosa NIES-843] gi|166090561|dbj|BAG05269.1| principal RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 416 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 76/257 (29%), Positives = 138/257 (53%), Gaps = 17/257 (6%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K +EY+ A + R + A ++V S+LRLVV IA Y GL +++ EG++GL++ Sbjct: 160 LAKSKEYLSAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 219 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ + R+K + Sbjct: 220 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKI 274 Query: 149 IT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 ++ + KP E+ +A ++ + + I+ + +L SL I + S+ D++ Sbjct: 275 LSQEMRRKPTEEEIATKMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEA 330 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEV 264 D + E + + R++ N+L L+PRER + R ++ TLE + F V Sbjct: 331 DGETPEDEVSKNLLREDLENVL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386 Query: 265 SRERVRQIEARAFKKVQ 281 +RER+RQIEA+A +K++ Sbjct: 387 TRERIRQIEAKALRKLR 403 >gi|239979292|ref|ZP_04701816.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 357 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 88/293 (30%), Positives = 142/293 (48%), Gaps = 41/293 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAH--------------------------R 52 Y+ EI +IP+L +E LA+R E G +AA R Sbjct: 65 YLREIGRIPLLSAADEVELARRV-EAGVFAAAKLAGGCADAGLARDLRRLVVLGERAKGR 123 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RGF+ +TY+ WWI+ A Sbjct: 124 LIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWWIRQA 183 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + +++ + L + R + L E+V ++L +S +E Sbjct: 184 MSRALADQARTIRV--PVHVVELINRVVRTQRALLQEAGREPAAEEV---GERLGLS-AE 237 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + RLA + SL+A + D + L+ D D E R L Sbjct: 238 KVEEVLRLAHEPISLHAPVGGED---DVFLGDLIEDADAASPA--ESAALLLLRQHLDAV 292 Query: 232 MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ L RER++ + R ++ P TLE + F V+RERVRQIE++ ++++E Sbjct: 293 LATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRLRE 345 >gi|159896548|ref|YP_001542795.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159889587|gb|ABX02667.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 400 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 92/310 (29%), Positives = 149/310 (48%), Gaps = 51/310 (16%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGD------------LSAAHR 52 N I VN + L Y+ EI +P+L+ ++E LA R E GD LS R Sbjct: 94 NEGISVNDTVRL--YLREIGLVPLLKGEQEVELA-RAMEDGDKAQQELIENDHTLSDVER 150 Query: 53 L----------------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L T++LRLVV +A Y G GL + +++ EGN+GL++AV+KF+ Sbjct: 151 LALRRRIDRGEQAREHLTTANLRLVVSVAKKYIGRGLSLLDLIQEGNVGLIRAVEKFNYT 210 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDN 152 +GF+ +TY+ WWI+ A+ I ++I T N R+ RRL T Sbjct: 211 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--RMMRTARRL-------TQE 261 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 N + +A+ L+++ +V S+ R E ++ + SQ D+L D + Sbjct: 262 NGREPSDEELAQALDLTVEKVRSI--RKTSMEPVSLETPVGQEEDSQLGDFL---PDEKL 316 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVR 270 + + + R + + + L RE+R+ + R E+ TLE + EF V+RER+R Sbjct: 317 EAPSDAASHQMLREQVAQVLDQLTEREKRVLKLRFGLEDGTQRTLEEVGKEFGVTRERIR 376 Query: 271 QIEARAFKKV 280 QIE +A +K+ Sbjct: 377 QIEVKALRKL 386 >gi|297160766|gb|ADI10478.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1] Length = 453 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 90/295 (30%), Positives = 142/295 (48%), Gaps = 42/295 (14%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------DLSAAH------------- 51 +Y+ EI +IP+L EE LA+R E G D AH Sbjct: 159 QYLREIGRIPLLSAAEEVELARRV-EAGLFAEEKLSNTPDLDTQLAHDFDQLVVLGRMAK 217 Query: 52 -RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 218 RRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 277 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + L + R++ + PE+V A L++ Sbjct: 278 QAMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGYEPTPEEV---AHHLDLL- 331 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E +S RLA + SL+A + D + D + DG +E R L Sbjct: 332 PERVSEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLE 386 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 387 AVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 441 >gi|282896628|ref|ZP_06304643.1| sigA (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281198498|gb|EFA73384.1| sigA (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 390 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 131/246 (53%), Gaps = 17/246 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 RYR H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G+ Sbjct: 145 RYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGY 204 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-E 157 + +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP E Sbjct: 205 KFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTE 259 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +A ++ + + I+ + +L SL I + S+ D++ D + E + + Sbjct: 260 EEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSK 315 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEAR 275 R++ L R + L PRER + R ++ TLE + F V+RER+RQIEA+ Sbjct: 316 SLLRED----LERVLDSLGPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAK 371 Query: 276 AFKKVQ 281 A +K++ Sbjct: 372 ALRKLR 377 >gi|2764713|emb|CAA05353.1| sigma 70 [Campylobacter jejuni] Length = 622 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVGLSVDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|46445811|ref|YP_007176.1| RNA polymerase sigma factor [Candidatus Protochlamydia amoebophila UWE25] gi|46399452|emb|CAF22901.1| probable transcription initiation factor sigma 70 [Candidatus Protochlamydia amoebophila UWE25] Length = 554 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 78/243 (32%), Positives = 122/243 (50%), Gaps = 20/243 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 312 AKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 371 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +AK Sbjct: 372 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGREPSPEE---LAK 422 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + D SQ+ D+L D E Sbjct: 423 ELGITAERVREIYKIAQHPISLQAEV--GDGGESQFGDFL---EDTGADSPAEATGYSIL 477 Query: 225 RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ + +S L+ RER++ R L P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 478 KDKMGEVLSTLSDRERKVLIQRFGLLDGKPKTLEEVGVEFNVTRERIRQIEAKALRKMRH 537 Query: 283 SIQ 285 I+ Sbjct: 538 PIR 540 >gi|307747900|gb|ADN91170.1| RNA polymerase sigma factor rpoD [Campylobacter jejuni subsp. jejuni M1] Length = 622 Score = 103 bits (256), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVGLSVDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|1519644|gb|AAB07555.1| SigA [Chlorobaculum tepidum] Length = 299 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 87/304 (28%), Positives = 157/304 (51%), Gaps = 45/304 (14%) Query: 9 IVNGE-IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------AAHRLVTS 56 I N E + L RY+ EI K +L + + ++E D+ A +L+ Sbjct: 10 ITNRESLSLDRYLQEIGKYDLLTARRRGEAHEGHKEGYDMPVDTVEYKRAKRALDKLIKG 69 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM--- 113 +LR VV +A Y+ GL + ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Sbjct: 70 NLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQA 129 Query: 114 ---QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 Q I+R L ++GT + + L + + D N K +A L++ + Sbjct: 130 LAEQSRIVR-LPLNRVGTLNKISKAYSQLEQ-----EYERDPNTKE-----LADLLDM-D 177 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-- 227 S+ ++ ++AG S++A D N + D L D + L NR ++ Sbjct: 178 SQDVADTLKIAGRHVSVDAPFAQGDDN--RLLDVLQNDGHMPDYTL-------NRDSLSL 228 Query: 228 -LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + RS+SVL PRE + + +NP+TLE + +F+++RERVRQI+ +A +++++S Sbjct: 229 EVERSLSVLAPREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSA 288 Query: 285 QKQV 288 +V Sbjct: 289 YNKV 292 >gi|256847131|ref|ZP_05552577.1| RNA polymerase sigma factor RpoS [Lactobacillus coleohominis 101-4-CHN] gi|256715795|gb|EEU30770.1| RNA polymerase sigma factor RpoS [Lactobacillus coleohominis 101-4-CHN] Length = 381 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 86/278 (30%), Positives = 131/278 (47%), Gaps = 41/278 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LA R E GD +A L ++LRLVV IA Y G G+ ++ Sbjct: 115 YLKEIGRVNLLTADQEVELALRI-EKGDETAKQELAEANLRLVVSIAKRYVGRGMQFLDL 173 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 174 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 233 Query: 132 --QKRLFFNLRR--LKGHLQAITDNNLKP-EQVVAIAKKLNVSESEVISMNCRLA--GDE 184 Q++L +L R L + A D K ++ IA+ E +S+ + D Sbjct: 234 RIQRQLLQDLGREPLPEEIGAEMDMPTKKVRDILKIAQ-------EPVSLETPIGEEDDS 286 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 L I D S DH E + + L + L RE + Sbjct: 287 HLGDFIEDHDATSP-------ADHAAYEMM----------KKQLENVLDTLTDREENVLR 329 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 R ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 330 LRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 367 >gi|57237826|ref|YP_179074.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni RM1221] gi|86150708|ref|ZP_01068924.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 260.94] gi|86152585|ref|ZP_01070790.1| RNA polymerase sigma factor rpoD [Campylobacter jejuni subsp. jejuni HB93-13] gi|121612947|ref|YP_001000680.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 81-176] gi|157415258|ref|YP_001482514.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 81116] gi|167005602|ref|ZP_02271360.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 81-176] gi|205356712|ref|ZP_03223473.1| RNA polymerase sigma factor (sigma 70) [Campylobacter jejuni subsp. jejuni CG8421] gi|315124489|ref|YP_004066493.1| RNA polymerase sigma factor [Campylobacter jejuni subsp. jejuni ICDCCJ07001] gi|57166630|gb|AAW35409.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni RM1221] gi|85841878|gb|EAQ59124.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 260.94] gi|85843470|gb|EAQ60680.1| RNA polymerase sigma factor rpoD [Campylobacter jejuni subsp. jejuni HB93-13] gi|87249244|gb|EAQ72205.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 81-176] gi|157386222|gb|ABV52537.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 81116] gi|205345450|gb|EDZ32092.1| RNA polymerase sigma factor (sigma 70) [Campylobacter jejuni subsp. jejuni CG8421] gi|315018211|gb|ADT66304.1| RNA polymerase sigma factor [Campylobacter jejuni subsp. jejuni ICDCCJ07001] gi|315932129|gb|EFV11072.1| Phosphatidylserine decarboxylase [Campylobacter jejuni subsp. jejuni 327] Length = 622 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVGLSVDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|212550562|ref|YP_002308879.1| RNA polymerase primary sigma factor [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] gi|212548800|dbj|BAG83468.1| putative RNA polymerase primary sigma factor [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] Length = 286 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 74/281 (26%), Positives = 148/281 (52%), Gaps = 36/281 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +++ EI +L ++E LA+R R GD SA +LV ++LR VV +A Y+ GL + Sbjct: 18 LDKFLQEISHEELLSIEKEIELARRSR-LGDRSALDKLVRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNR----- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 +L ++ L + + +A++L + E +V IS++ A E Sbjct: 132 VGSLNKISKALSKFEQKHERKPSSEELAQELELPEDKVSETLRISNRHISIDAPFADGEE 191 Query: 186 LNALIN--SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 N+L++ ++D + + L+++ QE + ++ +LN RE+ I Sbjct: 192 -NSLLDVLTNDDTPAAYH-GLIHESLSQE---------------INNALLILNDREKEII 234 Query: 244 E-ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + + + + LE + F ++RERVRQI+ +A KK++++ Sbjct: 235 KMSFGIGQQEMNLEEIGDAFNLTRERVRQIKEKAIKKLKQN 275 >gi|94266972|ref|ZP_01290621.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93452327|gb|EAT02958.1| Sigma-70-like protein [delta proteobacterium MLMS-1] Length = 353 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 84/253 (33%), Positives = 136/253 (53%), Gaps = 27/253 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +RLV ++LRLVV +A Y G GL + +++ EGNIGLM+AV+KF+ RG++ +TY+ WW Sbjct: 115 AKNRLVQANLRLVVSVAKKYAGRGLQLLDLIQEGNIGLMKAVEKFEYRRGYKFSTYATWW 174 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKG--HLQAITDNNLKPEQVVAI 162 I+ A+ I ++I T N R LKG Q P++ + Sbjct: 175 IRQAVTRAIADQGRTIRIPVHMIDTIN--------RMLKGAKEFQRQHGREPTPDE---M 223 Query: 163 AKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 A+ L V ++V S+ ++A + SL+ + +S N S D++ D + E Sbjct: 224 AQHLGVEVAKVKSV-LKIAKEPLSLDTPVGNS--NDSFLADFI---EDTEAASPDEATIY 277 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKK 279 +N ++ L R + L+PRE + R + +TLE + F V+RER+RQIEA+A KK Sbjct: 278 ENLQSNLRRVLKTLSPREEMVLRLRFGLDTAMDLTLEEVGENFAVTRERIRQIEAKALKK 337 Query: 280 VQESIQKQVELSS 292 ++ ++ +LSS Sbjct: 338 LKHPARRN-QLSS 349 >gi|86150479|ref|ZP_01068704.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni CF93-6] gi|88596833|ref|ZP_01100070.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 84-25] gi|148926089|ref|ZP_01809775.1| RNA polymerase sigma factor (sigma-70) [Campylobacter jejuni subsp. jejuni CG8486] gi|218562617|ref|YP_002344396.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|85839074|gb|EAQ56338.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni CF93-6] gi|88191674|gb|EAQ95646.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 84-25] gi|112360323|emb|CAL35119.1| RNA polymerase sigma factor (sigma-70) [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|145845568|gb|EDK22660.1| RNA polymerase sigma factor (sigma-70) [Campylobacter jejuni subsp. jejuni CG8486] gi|284926231|gb|ADC28583.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni IA3902] gi|315058444|gb|ADT72773.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni S3] gi|315928360|gb|EFV07675.1| RNA polymerase sigma factor rpoD [Campylobacter jejuni subsp. jejuni DFVF1099] Length = 622 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVGLSVDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|317051905|ref|YP_004113021.1| sigma-70 family RNA polymerase sigma factor [Desulfurispirillum indicum S5] gi|316946989|gb|ADU66465.1| RNA polymerase sigma factor, sigma-70 family [Desulfurispirillum indicum S5] Length = 305 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 91/271 (33%), Positives = 140/271 (51%), Gaps = 18/271 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ I +I +L +EE LA+R GD A LV S+LR VVKIAM YR G+ + Sbjct: 35 LRDYLRRISRITLLTAEEEKELARRI-SAGDEQAFRVLVESNLRFVVKIAMKYRDIGINL 93 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGNIGL++A ++FDPERG R TY++WWIK ++ + I+ S + V++ Q R Sbjct: 94 LDLINEGNIGLLEAARRFDPERGNRFITYAVWWIKQSIIQAIISSSNTVRL--PGKQARF 151 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 L + D EQ + L++S E I R SL+ I D+ Sbjct: 152 ASKLNSARREFARDHDGREPTEQELRDEYGLDISNIEDILRATRSYI--SLDTPIGEDDE 209 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV---LNPRERRIFEAR-RLQEN 251 + +D L + EE+ R+ + T S+ L R+ + + R + E Sbjct: 210 RT--LKDVL------ESPEESSTEEQYVRQKISTEIRSIIAELESRDALVVDLRFGISEG 261 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TL+ + + +S+ERVRQIE RA K++Q Sbjct: 262 IPQTLDEVGTRLGLSKERVRQIEERALKRLQ 292 >gi|188994502|ref|YP_001928754.1| RNA polymerase sigma factor RpoD [Porphyromonas gingivalis ATCC 33277] gi|188594182|dbj|BAG33157.1| RNA polymerase sigma factor RpoD [Porphyromonas gingivalis ATCC 33277] Length = 287 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 80/274 (29%), Positives = 149/274 (54%), Gaps = 21/274 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLISVEEEVELAQAIK-RGDRKALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 L ++ Q N + +AK+L+++E + I+ +++G S++A + Sbjct: 132 VGTLNKIIKAQQKFEQENERRPSSAELAKELDIAEDK-IADTMKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI----FEARRLQ 249 NS D LV D ++ LI ++ + R++S L RE I F Q Sbjct: 191 DNS--LLDVLVNEDTPNTDKSLI----NESLAVEIERALSTLTEREAEIVKLFFGIAGCQ 244 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 245 E--MTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 276 >gi|291451171|ref|ZP_06590561.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|291354120|gb|EFE81022.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 397 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 88/293 (30%), Positives = 142/293 (48%), Gaps = 41/293 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAH--------------------------R 52 Y+ EI +IP+L +E LA+R E G +AA R Sbjct: 105 YLREIGRIPLLSAADEVELARRV-EAGVFAAAKLAGGCADAGLARDLRRLVVLGERAKGR 163 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RGF+ +TY+ WWI+ A Sbjct: 164 LIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWWIRQA 223 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + +++ + L + R + L E+V ++L +S +E Sbjct: 224 MSRALADQARTIRV--PVHVVELINRVVRTQRALLQEAGREPAAEEV---GERLGLS-AE 277 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + RLA + SL+A + D + L+ D D E R L Sbjct: 278 KVEEVLRLAHEPISLHAPVGGED---DVFLGDLIEDADAASPA--ESAALLLLRQHLDAV 332 Query: 232 MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ L RER++ + R ++ P TLE + F V+RERVRQIE++ ++++E Sbjct: 333 LATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRLRE 385 >gi|78222633|ref|YP_384380.1| sigma 28 (flagella/sporulation) [Geobacter metallireducens GS-15] gi|78193888|gb|ABB31655.1| RNA polymerase, sigma 38 subunit, RpoS [Geobacter metallireducens GS-15] Length = 326 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 79/278 (28%), Positives = 146/278 (52%), Gaps = 31/278 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI++ +L EE VLA R + GD +A +++ S+LRLVVKIA Y GLP ++ Sbjct: 61 YLREIQRTTLLTADEEKVLASRIAK-GDKAARDKMIESNLRLVVKIAKRYINRGLPFLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ + N Sbjct: 120 IEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDD---IN 176 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC---------RLAGDESLNAL 189 + LK + + N +P V +A ++NV+ + + + R G+ S L Sbjct: 177 -KMLKITRELVNRFNREP-TVKEVATEMNVNSAYIRRLMVLLKKTYSIERPMGENSDYFL 234 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I++ + SS L+ D N+ ++++ + L+ E++I R Sbjct: 235 IDTIEDTSSVSPAVLLEDL--------------NKYEIVSKWFASLSENEQKILTLRFGL 280 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 E+ P TL+ + F V+RER+RQIEA++ +K+++ I Sbjct: 281 EDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKYID 318 >gi|34540402|ref|NP_904881.1| RNA polymerase sigma-70 factor [Porphyromonas gingivalis W83] gi|34396715|gb|AAQ65780.1| RNA polymerase sigma-70 factor [Porphyromonas gingivalis W83] Length = 287 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 80/274 (29%), Positives = 149/274 (54%), Gaps = 21/274 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLISVEEEVELAQAIK-RGDRKALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 L ++ Q N + +AK+L+++E + I+ +++G S++A + Sbjct: 132 VGTLNKIIKAQQKFEQENERRPSSAELAKELDIAEDK-IADTMKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI----FEARRLQ 249 NS D LV D ++ LI ++ + R++S L RE I F Q Sbjct: 191 DNS--LLDVLVNEDTPNTDKSLI----NESLAVEIERALSTLTEREAEIVKLFFGIAGCQ 244 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E +TLE + +F ++RERVRQI+ +A +++++S Sbjct: 245 E--MTLEEIGDKFGLTRERVRQIKEKAIRRLRQS 276 >gi|226226008|ref|YP_002760114.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] gi|226089199|dbj|BAH37644.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] Length = 302 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 88/275 (32%), Positives = 147/275 (53%), Gaps = 16/275 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 +Y+H+I+K+P++ E R + GD +AA RLVT++LR V+ Y+G+GL Sbjct: 25 AFDQYLHDIQKLPLITDAAEERRLARLAQKGDEAAAERLVTANLRFVISYVKKYQGHGLD 84 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +SE+V+ GN GL++AV+KFDP++G + +Y++WW++ A+ + + V+I N + Sbjct: 85 LSELVAIGNEGLLKAVRKFDPDQGVKFISYAVWWVRQAVLKALAEQTRSVRIPLNQNSQL 144 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 +R +G + I L E A KL E + +++ E SL+A I+ Sbjct: 145 ----IRMARGEM--ILSQVLNREPTDAELSKLLEEPVEQVRNARQISSTEVSLDAPIDRQ 198 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEK-EERKNRRNMLTRSM-SVLNPRERRI-FEARRLQE 250 D+ +S + G+ IE + + R + R L PRER+I + L E Sbjct: 199 DREASTLGERFA----GETHADIEDGTDFRLMREFIDRVFRKYLTPRERKILYLYYGLDE 254 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + + V+RER+RQI RAF+K++ES Sbjct: 255 GAEAMTLERIGALMGVTRERIRQIRERAFEKLRES 289 >gi|315929035|gb|EFV08275.1| RNA polymerase sigma factor [Campylobacter jejuni subsp. jejuni 305] Length = 622 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVGLSVDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|72383143|ref|YP_292498.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL2A] gi|72002993|gb|AAZ58795.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL2A] Length = 340 Score = 102 bits (255), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 83/288 (28%), Positives = 139/288 (48%), Gaps = 37/288 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL--------------------SAAHRLVTSHL 58 Y+ I ++P+L EE LA ++ DL A R++ ++L Sbjct: 56 YLTSIGRVPLLTPAEEIELAHHVQQMKDLLNLPLEERSTRQKHKIKMGKRARDRMMAANL 115 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 116 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 175 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 S +++ ++K +RR+ H N L+ +A + + ++ Sbjct: 176 NSARTIRLPIHISEK--LSKMRRISRELSHRFGRQPNRLE------LANAMGIEPQDLED 227 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + + A SL+A + S+ + L+ D + E +E +R ++ L +S L Sbjct: 228 LVSQSAPCASLDAHARGEEDRSTLGE--LIPDPNSDEP--MEGMDRSIQKEHLGGWLSQL 283 Query: 236 NPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N RE++I R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 284 NEREQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 331 >gi|283956399|ref|ZP_06373879.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 1336] gi|283792119|gb|EFC30908.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. jejuni 1336] Length = 622 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPDVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVGLSVDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPMDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|269925235|ref|YP_003321858.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269788895|gb|ACZ41036.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 344 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 76/256 (29%), Positives = 118/256 (46%), Gaps = 40/256 (15%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A H+L+ +LRLVV IA Y G+G+P+++++ EGN+GLM+A +KFD RGFR +TY+ W Sbjct: 106 AARHKLIEHNLRLVVSIARRYVGHGMPLADLIEEGNLGLMRAAEKFDWRRGFRFSTYATW 165 Query: 108 WIKAAMQEYILRSW-----------SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 WI+ A+ + +L KIG +RL L R + + L P Sbjct: 166 WIRQAVTRGLAEGGRTIRLPVHVGEALTKIGR--ETQRLSLELGREPTNQELAEATGLSP 223 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLN---ALINSSDKNSSQWQDWLVYDHDGQEQ 213 E++ + +S+ L D N L ++ N D + D Sbjct: 224 ERIDEYKNASRLP----LSLEAPLGEDGETNLGEVLEDTEAANPEHIADHTMLGED---- 275 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 + R++ LN R+R I R P+TLE + V+RER RQ Sbjct: 276 --------------IKRALERLNERQRAIIIMRYGLYGGQPMTLEAAGRKLGVTRERARQ 321 Query: 272 IEARAFKKVQESIQKQ 287 IE A ++++S KQ Sbjct: 322 IEQEALNRLRQSDAKQ 337 >gi|56475838|ref|YP_157427.1| RNA polymerase sigma factor RpoS [Aromatoleum aromaticum EbN1] gi|56311881|emb|CAI06526.1| RNA sigma factor RpoS [Aromatoleum aromaticum EbN1] Length = 311 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 87/281 (30%), Positives = 148/281 (52%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L EE LA+R R GD A ++ +LRLVV IA Y G+P+ ++ Sbjct: 44 YLNEIGANPLLTAAEEAALARRVRT-GDFPARQIMIERNLRLVVNIAKHYLNRGIPLLDL 102 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 V EGN+GLM A++KFDPERGFR +TY+ WWI+ ++ I+ +++ ++ Sbjct: 103 VEEGNLGLMHALEKFDPERGFRFSTYATWWIRQNIERAIMNQSRTIRLPVHVVKE--LNQ 160 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNA 188 + R + L+A + EQV A +L+ S EV S++ L D +L + Sbjct: 161 VLRAQRTLEASGNGEFTLEQV---AHRLDKSVDEVRAILALSEHTASLDAPLEIDPTL-S 216 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 + S + ++ D + D + +EK ++ + +LN ++R + R Sbjct: 217 IGESLADDQAEPPDTHIQDAE------VEK--------LIQEWIGMLNEKQRLVIRHRYG 262 Query: 248 LQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L E V TLE L+S ++RERVRQI+ A +++ +++++ Sbjct: 263 LDECEVMTLEELASRLCLTRERVRQIQLEALGQLRRTVKRR 303 >gi|309786170|ref|ZP_07680798.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1617] gi|308925915|gb|EFP71394.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1617] Length = 237 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 122/243 (50%), Gaps = 24/243 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYILRSWSLVKIGT-TANQKRLFFNLRRLKGH-------LQAITDNNLKPEQVVAIAK 164 ++ I+ +++ + ++ R H + I + KP V+ Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +LN + S++ L GD L +D+ + +D D Q V E + Sbjct: 121 RLN---ERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQ 177 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R +L R +L +EA TLE++ E +++RERVRQI+ ++++E + Sbjct: 178 REVLARRFGLLG------YEA-------ATLEDVGREIDLTRERVRQIQVEGLRRLREIL 224 Query: 285 QKQ 287 Q Q Sbjct: 225 QTQ 227 >gi|124026883|ref|YP_001015998.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|123961951|gb|ABM76734.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL1A] Length = 340 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 83/288 (28%), Positives = 139/288 (48%), Gaps = 37/288 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL--------------------SAAHRLVTSHL 58 Y+ I ++P+L EE LA ++ DL A R++ ++L Sbjct: 56 YLTSIGRVPLLTPAEEIELAHHVQQMKDLLNLPLEERSTRQKHKIKMGKRARDRMMAANL 115 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 116 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 175 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 S +++ ++K +RR+ H N L+ +A + + ++ Sbjct: 176 NSARTIRLPIHISEK--LSKMRRISRELSHRFGRQPNRLE------LANAMGIEPQDLED 227 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + + A SL+A + S+ + L+ D + E +E +R ++ L +S L Sbjct: 228 LVSQSAPCASLDAHARGEEDRSTLGE--LIPDPNSDEP--MEGMDRSIQKEHLGGWLSQL 283 Query: 236 NPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N RE++I R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 284 NEREQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 331 >gi|318058872|ref|ZP_07977595.1| RNA polymerase principal sigma factor [Streptomyces sp. SA3_actG] gi|333027299|ref|ZP_08455363.1| putative RNA polymerase sigma (70) factor RpoD [Streptomyces sp. Tu6071] gi|332747151|gb|EGJ77592.1| putative RNA polymerase sigma (70) factor RpoD [Streptomyces sp. Tu6071] Length = 338 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 92/305 (30%), Positives = 141/305 (46%), Gaps = 66/305 (21%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DL--------SAAH 51 Y+ EI +IP+L +E LA+R E G DL +A Sbjct: 45 YLREIGRIPLLTAADEVDLARRV-EAGLFAEAKLAGPGPLDTRLALDLDRLVVLGRAAKR 103 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ S+LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RGF+ +TY+ WWI+ Sbjct: 104 RLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWWIRQ 163 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFN--LRRLKGHLQAITDNNLKPEQVVAIA----KK 165 AM + +++ + N +R +G LQ + +P A K Sbjct: 164 AMSRALADQARTIRVPVHVVE---LINRVVRVQRGLLQ---ERGHEPSHAEVAALLGLTK 217 Query: 166 LNVSE-----SEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V E E +S++ + G++ +L LI D S L+ E VL Sbjct: 218 ERVGEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAALLLLRRHLEDVL--- 274 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 S L RER++ + R ++ P TLE + + F V+RER+RQIEA+ Sbjct: 275 --------------STLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKT 320 Query: 277 FKKVQ 281 K++ Sbjct: 321 LAKLR 325 >gi|206889536|ref|YP_002248786.1| RNA polymerase sigma factor RpoD [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741474|gb|ACI20531.1| RNA polymerase sigma factor RpoD [Thermodesulfovibrio yellowstonii DSM 11347] Length = 479 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 + L+T +LRLVV IA Y G GLP+ +++ EGNIGLM+AV KF E+GF+ +TY+ W Sbjct: 235 DTKNELITRNLRLVVNIAKNYVGRGLPLLDLIEEGNIGLMKAVDKFKYEKGFKFSTYATW 294 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ ++ +++ + F+N R+ + +T + IA+KL Sbjct: 295 WIRQAITRALIDQTKTIRVPVHMME---FYN--RVTKASRELTQQLGREPNNEEIAEKLG 349 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 V +V + + L I D ++ +D++ D + + ER Sbjct: 350 VPVRKVEEVFRAIQDPIGLQTPIGDED---TELEDFI---GDKTSPSPVSEAERTELSEH 403 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R + L P+E ++ + R ++ TLE + ++RERVRQIE +A +K++ Sbjct: 404 IQRILKTLTPKEEKVIKMRFGIGEDRDHTLEEVGRYLSITRERVRQIETKALRKLK 459 >gi|302545597|ref|ZP_07297939.1| RNA polymerase sigma (70) factor RpoD [Streptomyces hygroscopicus ATCC 53653] gi|302463215|gb|EFL26308.1| RNA polymerase sigma (70) factor RpoD [Streptomyces himastatinicus ATCC 53653] Length = 443 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 90/295 (30%), Positives = 143/295 (48%), Gaps = 42/295 (14%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AA 50 +Y+ EI +IP+L EE LA+R E G DL A Sbjct: 149 QYLREIGRIPLLSAAEEVELARRV-EAGLFAEEKLASAPDLDSQLALDLDRLVVLGRMAK 207 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 208 RRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 267 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + L + R++ + PE+V A L+++ Sbjct: 268 QAMSRALADQARTIRV--PVHVVELINRVVRVQRRMLQERGYEPTPEEV---AIHLDLT- 321 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E +S RLA + SL+A + D + D + DG +E R L Sbjct: 322 PERVSEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLE 376 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 377 AVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 431 >gi|307729587|ref|YP_003906811.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1003] gi|307584122|gb|ADN57520.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1003] Length = 362 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 80/278 (28%), Positives = 141/278 (50%), Gaps = 25/278 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + Y++ I P+L +EE + R + G+ A ++ +LRLVV IA GY G+P+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQKYS-RLAKAGEFEARQVMIERNLRLVVSIAKGYLNRGVPL 142 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GLM A++KFDP RGFR +TY+ WWI+ +++ I+ V++ + R Sbjct: 143 LDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRE 200 Query: 136 FFNLRRLKGHLQAITDN--------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + R K HL+ + N + + + + K ++++++N A SL+ Sbjct: 201 LNQVLRAKRHLEKNSMNSGDAAERRDASIDDIAYLTGKTADEVTDILALNEHTA---SLD 257 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEAR 246 A ++ +S +V + E LTR+ ++ L+ + R + E R Sbjct: 258 APLDLDPASSLLDLLSDDQSQSPDAEVQHRELE------TLTRAWLARLSDKHRHVIE-R 310 Query: 247 RLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R N P TLE L+ E ++RERVRQI+ A +++ Sbjct: 311 RFGLNHIEPATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|289523410|ref|ZP_06440264.1| RNA polymerase sigma factor RpoD [Anaerobaculum hydrogeniformans ATCC BAA-1850] gi|289503102|gb|EFD24266.1| RNA polymerase sigma factor RpoD [Anaerobaculum hydrogeniformans ATCC BAA-1850] Length = 412 Score = 102 bits (254), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 88/273 (32%), Positives = 132/273 (48%), Gaps = 31/273 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KI +L +EE LAKR E + A +L+ ++LRLVV IA Y G GL ++ Sbjct: 146 YLREIGKISLLTPEEEVELAKRVEEG-EEEAKKKLIEANLRLVVSIAKKYIGRGLSFLDL 204 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 205 IQEGNLGLIRAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 264 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 ++L L R + L PE+V I + E +S+ + +E Sbjct: 265 RVSRQLVQQLGREPTIEEIAQSLGLPPEKVEDIQR----IAQEPVSLETPIGEEEDSQLG 320 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 DK S +D Q+L R L + L RER + R Sbjct: 321 DFLEDKESPNPEDATAG------QLL---------REQLEEMLGELTEREREVLRLRFGL 365 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E+ TLE + F V+RER+RQIEA+A +K+ Sbjct: 366 EDGHAHTLEEVGKRFNVTRERIRQIEAKALRKL 398 >gi|149916265|ref|ZP_01904786.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] gi|149809925|gb|EDM69776.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] Length = 80 Score = 102 bits (254), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 50/79 (63%), Positives = 61/79 (77%), Gaps = 1/79 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N KN+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL Sbjct: 3 NYKNLPA-PSPEGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEKQDTEAAHRMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVS 80 KIAMGYRGYGLP +EV+S Sbjct: 62 AKIAMGYRGYGLPTAEVIS 80 >gi|269929031|ref|YP_003321352.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269788388|gb|ACZ40530.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 359 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 70/238 (29%), Positives = 122/238 (51%), Gaps = 12/238 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +L+ +LRLVV IA YR GLP+ +++ EGNIGLM AV+++DPE G+R +TY+ + Sbjct: 123 AAREKLIRHNLRLVVSIAKKYRTSGLPLIDLIQEGNIGLMTAVERYDPELGYRFSTYATF 182 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ + +++ + L +RR + L+ + + +P +A+ L+ Sbjct: 183 WIRQAIGRAVANQSRTIRV--PVHMHDLISKVRRTEAQLEQL---HGRPATDQELAQALD 237 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + + SL+ I + S D L D ++++ R+ Sbjct: 238 LDVERIEQARSAIPRTSSLDKPIG--EDGESTIGDLL---PDPASDEVVDQAVTSAIRDQ 292 Query: 228 LTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + RS+ L+ RER + R + P TL ++ + +SRERVRQIE A K++ S Sbjct: 293 IRRSLESLSERERGVLTLRFGLGGQQPQTLAEIAEYYGISRERVRQIEKEALAKLRNS 350 >gi|311696748|gb|ADP99621.1| RNA polymerase, sigma 70 subunit, RpoD family [marine bacterium HP15] Length = 332 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 84/262 (32%), Positives = 131/262 (50%), Gaps = 38/262 (14%) Query: 36 VLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 + R R L+ A R L+ S+LRL V IA Y +G+P+S+++ + N+GL++AV++F Sbjct: 81 AFSSRCRRAFHLATACRRKLIQSNLRLAVHIARRYGQHGIPMSDLIQDANVGLIKAVERF 140 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDN 152 DP +GFR +TY+ WWI ++ + R LV + + +R+L K L+ Sbjct: 141 DPTKGFRFSTYAYWWISEEVKRCLQRGTRLVH-----TPENVVDEIRQLHKVSLRMHQSL 195 Query: 153 NLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQD 202 P Q +A+++ S S + IS + L D S+ L +S D D Sbjct: 196 GRTPSQ-SELAREMEASPSRIGELRALATREISTDVPLVEDGSVT-LGDSLDAG-----D 248 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLS 259 + DH + ++R+ L +S LN RE+ I R L E P TL+ +S Sbjct: 249 QMAPDHPMSD---------RDRQRTLKSMLSELNDREKDILSRRYGLGLPE-PETLQVIS 298 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 + +SRERVRQIE A KK+Q Sbjct: 299 DDLGISRERVRQIEKTALKKLQ 320 >gi|33241312|ref|NP_876254.1| DNA-directed RNA polymerase sigma subunit [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33238842|gb|AAQ00907.1| DNA-directed RNA polymerase sigma subunit [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 339 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 82/292 (28%), Positives = 144/292 (49%), Gaps = 31/292 (10%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDL--------------------SAAH 51 G + Y+ I ++P+L EE LA ++ L A Sbjct: 48 GTDSIGFYLSSIGRVPLLTPAEEIELAHHVQKMKGLLDIPKENINTRQRHQIRMGKRARD 107 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ ++LRLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ Sbjct: 108 RMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQ 167 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 M I S +++ ++K +RR+ + ++ N + V +A +L + Sbjct: 168 GMTRAIDNSARTIRLPIHISEK--LSKMRRIS---RELSHNLGRQPNRVELANELGMEPK 222 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 ++ + + A SL++ + S+ + L+ D + E +E +R ++ L+ Sbjct: 223 DLEDLMAQSAPCASLDSHARGEEDRSTLGE--LIPDPNYDEP--MECMDRNMQKEHLSGW 278 Query: 232 MSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S LN RE++I R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 279 LSQLNEREQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|224542125|ref|ZP_03682664.1| hypothetical protein CATMIT_01300 [Catenibacterium mitsuokai DSM 15897] gi|224524962|gb|EEF94067.1| hypothetical protein CATMIT_01300 [Catenibacterium mitsuokai DSM 15897] Length = 418 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 88/296 (29%), Positives = 152/296 (51%), Gaps = 40/296 (13%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN+ ++ +N + + Y+ EI ++ +L ++E LAKR E GD A L ++LRL Sbjct: 134 MNQLGSNVKINDPVKM--YLKEIGRVDLLTHEQEIELAKRILE-GDEQAKKELAAANLRL 190 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I Sbjct: 191 VVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQ 250 Query: 121 WSLVKIGT---------TANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVS 169 ++I T Q++L L R + + I + + + P +V I +K+++ Sbjct: 251 ARTIRIPVHMVETINKLTRIQRQLVQELGR-EPTAEEIAEKMDGMTPAKVREI-QKISL- 307 Query: 170 ESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRR 225 E +S+ + D L I D+ + D+ + D +VL+E +R+ + Sbjct: 308 --EPVSLETPIGEEDDSHLGDFI--EDEGAMSPDDYASNELLKDELNEVLLELTDREEK- 362 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + + R R TLE + EF V+RER+RQIEA+A +K++ Sbjct: 363 -VLRLRFGLDDGRTR-------------TLEEVGKEFNVTRERIRQIEAKALRKLK 404 >gi|317969130|ref|ZP_07970520.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0205] Length = 309 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 84/296 (28%), Positives = 144/296 (48%), Gaps = 46/296 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR--------EHGDLSAAH-------------RLV 54 +S Y+ I ++P+L EE L + + + G+ H R++ Sbjct: 20 ISWYLSTIGRVPLLTPAEEIELGNQVQAMMRLAEEDKGEAYTTHEKKIMRVGKRSKERMM 79 Query: 55 TSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQ 114 ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ +M Sbjct: 80 KANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIRQSMT 139 Query: 115 EYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-------IAKKLN 167 I A Q R L L AI +L+ + IA++++ Sbjct: 140 RAI------------ACQSRTIRLPVHLSERLTAIRKVSLELAHKLGAMPSRKEIAEEMD 187 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E+ S+ + SL+A +N + S + L+ D E +++ ER + Sbjct: 188 MPLDELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADQSNSEP--LDQVERGIHQEQ 243 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R ++ L +ER++ E R E TL + EVSRERVRQ+E +A +K++ Sbjct: 244 LGRWLTHLTDQERQVLELRFGLEGEERHTLAEIGRMLEVSRERVRQVELKALRKLR 299 >gi|94263094|ref|ZP_01286913.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93456637|gb|EAT06745.1| Sigma-70-like protein [delta proteobacterium MLMS-1] Length = 540 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 83/251 (33%), Positives = 136/251 (54%), Gaps = 23/251 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +RLV ++LRLVV +A Y G GL + +++ EGNIGLM+AV+KF+ RG++ +TY+ WW Sbjct: 302 AKNRLVQANLRLVVSVAKKYAGRGLQLLDLIQEGNIGLMKAVEKFEYRRGYKFSTYATWW 361 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N R LKG + + +P +A+ Sbjct: 362 IRQAVTRAIADQGRTIRIPVHMIDTIN--------RMLKGAKEFQRQHGREP-TPDEMAQ 412 Query: 165 KLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L V ++V S+ ++A + SL+ + +S N S D++ D + E +N Sbjct: 413 HLGVEVAKVKSV-LKIAKEPLSLDTPVGNS--NDSFLADFI---EDTEAASPDEATIYEN 466 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L R + L+PRE + R + +TLE + F V+RER+RQIEA+A KK++ Sbjct: 467 LQSNLRRVLKTLSPREEMVLRLRFGLDTAMDLTLEEVGENFAVTRERIRQIEAKALKKLK 526 Query: 282 ESIQKQVELSS 292 ++ +LSS Sbjct: 527 HPARRN-QLSS 536 >gi|332829288|gb|EGK01942.1| hypothetical protein HMPREF9455_00064 [Dysgonomonas gadei ATCC BAA-286] Length = 286 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 77/273 (28%), Positives = 151/273 (55%), Gaps = 20/273 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+ + GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQAIK-KGDRAALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 +L ++ N + +A++L++ + I+ + +++G S++A + Sbjct: 132 VGSLNKISKAFSKFEQENERKPSAEELAEQLDIP-VDKIADSLKVSGRHISMDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHDG-QEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQE 250 NS D LV D ++ LI ++ + + R++S L RE I F QE Sbjct: 191 DNS--LLDVLVNDDAPIADRTLI----NESLQQEIERALSTLTERESEIIKMFFGIGYQE 244 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F+++RERVRQI+ +A K+++++ Sbjct: 245 --MTLEEIGDKFQLTRERVRQIKEKAIKRLRQN 275 >gi|67459749|ref|YP_247373.1| RNA polymerase sigma factor RpoD [Rickettsia felis URRWXCal2] gi|75535861|sp|Q4UJT1|RPOD_RICFE RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|67005282|gb|AAY62208.1| RNA polymerase sigma factor [Rickettsia felis URRWXCal2] Length = 635 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 376 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 435 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 436 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 486 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 487 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPID 541 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 542 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 601 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 602 ALRKLQHPIRSK 613 >gi|34581080|ref|ZP_00142560.1| RNA polymerase sigma factor [Rickettsia sibirica 246] gi|229587226|ref|YP_002845727.1| RNA polymerase sigma factor RpoD [Rickettsia africae ESF-5] gi|28262465|gb|EAA25969.1| RNA polymerase sigma factor [Rickettsia sibirica 246] gi|228022276|gb|ACP53984.1| RNA polymerase sigma factor [Rickettsia africae ESF-5] Length = 634 Score = 102 bits (254), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 375 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 434 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 435 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 485 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 486 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPID 540 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 541 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 600 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 601 ALRKLQHPIRSK 612 >gi|89900350|ref|YP_522821.1| sigma 70 (RpoD) [Rhodoferax ferrireducens T118] gi|89345087|gb|ABD69290.1| sigma 70 (RpoD) [Rhodoferax ferrireducens T118] Length = 783 Score = 102 bits (254), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 127/241 (52%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E+ +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 538 EYSSRAAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 597 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ V + Sbjct: 598 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASV-L 652 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A+++ + E ++ + ++A E ++ D + S D++ D +E + Sbjct: 653 AERMEIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDAANTAPMEAAMQA 707 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E + TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 708 GLRDVVKDILDSLTPREAKVLRMRFGIEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKL 767 Query: 281 Q 281 + Sbjct: 768 K 768 >gi|157829159|ref|YP_001495401.1| RNA polymerase sigma factor RpoD [Rickettsia rickettsii str. 'Sheila Smith'] gi|165933888|ref|YP_001650677.1| RNA polymerase sigma factor RpoD [Rickettsia rickettsii str. Iowa] gi|157801640|gb|ABV76893.1| RNA polymerase sigma factor RpoD [Rickettsia rickettsii str. 'Sheila Smith'] gi|165908975|gb|ABY73271.1| RNA polymerase sigma factor [Rickettsia rickettsii str. Iowa] Length = 634 Score = 102 bits (254), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 375 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 434 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 435 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 485 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 486 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPID 540 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 541 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 600 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 601 ALRKLQHPIRSK 612 >gi|239814768|ref|YP_002943678.1| RNA polymerase, sigma 70 subunit, RpoD [Variovorax paradoxus S110] gi|239801345|gb|ACS18412.1| RNA polymerase, sigma 70 subunit, RpoD [Variovorax paradoxus S110] Length = 754 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 514 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 573 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A K+ Sbjct: 574 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDAGI-LAAKME 628 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D IE + R++ Sbjct: 629 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSSNTAPIEAAMQAGLRDV 683 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 684 VKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 739 >gi|124022438|ref|YP_001016745.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9303] gi|123962724|gb|ABM77480.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9303] Length = 444 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 208 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 267 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 268 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 322 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 323 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDTENPEQDVAKNLLREDLEG 378 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + FEV+RER+RQIEA+A +K++ Sbjct: 379 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAKALRKLR 431 >gi|319792617|ref|YP_004154257.1| RNA polymerase, sigma 70 subunit, rpod [Variovorax paradoxus EPS] gi|315595080|gb|ADU36146.1| RNA polymerase, sigma 70 subunit, RpoD [Variovorax paradoxus EPS] Length = 778 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 538 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 597 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A K+ Sbjct: 598 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDAGI-LAAKME 652 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D IE + R++ Sbjct: 653 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSSNTAPIEAAMQAGLRDV 707 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 708 VKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 763 >gi|15893252|ref|NP_360966.1| RNA polymerase sigma factor RpoD [Rickettsia conorii str. Malish 7] gi|47606046|sp|Q92FZ8|RPOD_RICCN RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|15620471|gb|AAL03867.1| RNA polymerase sigma factor [Rickettsia conorii str. Malish 7] Length = 634 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 375 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 434 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 435 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 485 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 486 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPID 540 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 541 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 600 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 601 ALRKLQHPIRSK 612 >gi|186686393|ref|YP_001869589.1| RNA polymerase sigma factor RpoD [Nostoc punctiforme PCC 73102] gi|8118663|gb|AAF73062.1|AF265349_1 primary vegetative sigma factor [Nostoc punctiforme] gi|186468845|gb|ACC84646.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 389 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 133/248 (53%), Gaps = 17/248 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A RYR H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+ Sbjct: 142 AFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEK 201 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP 156 G++ +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP Sbjct: 202 GYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKP 256 Query: 157 -EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E+ +A ++ + + I+ + +L SL I + S+ D++ D + E + Sbjct: 257 TEEEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQV 312 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 + R++ L + + L+PRER + R ++ TLE + F V+RER+RQIE Sbjct: 313 SKNLLRED----LEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIE 368 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 369 AKALRKLR 376 >gi|157965030|ref|YP_001499854.1| RNA polymerase sigma factor RpoD [Rickettsia massiliae MTU5] gi|157844806|gb|ABV85307.1| RNA polymerase sigma factor [Rickettsia massiliae MTU5] Length = 633 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 75/248 (30%), Positives = 127/248 (51%), Gaps = 21/248 (8%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ Sbjct: 378 LQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 437 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 WWI+ A+ I ++I T N + L+ Q + + +P I Sbjct: 438 WWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-TATEI 488 Query: 163 AKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 A +L++ +V + ++A + SL + D + Q D++ D I+ + Sbjct: 489 ANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPIDAAIQ 543 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++A +K Sbjct: 544 SNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRK 603 Query: 280 VQESIQKQ 287 +Q I+ + Sbjct: 604 LQHPIRSK 611 >gi|119512308|ref|ZP_01631394.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] gi|119463021|gb|EAW43972.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] Length = 391 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 133/248 (53%), Gaps = 17/248 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A RYR H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+ Sbjct: 144 AFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEK 203 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP 156 G++ +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP Sbjct: 204 GYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKP 258 Query: 157 -EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E+ +A ++ + + I+ + +L SL I + S+ D++ D + E + Sbjct: 259 TEEEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQV 314 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 + R++ L + + L+PRER + R ++ TLE + F V+RER+RQIE Sbjct: 315 SKNLLRED----LEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIE 370 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 371 AKALRKLR 378 >gi|51474026|ref|YP_067783.1| RNA polymerase sigma factor RpoD [Rickettsia typhi str. Wilmington] gi|81389911|sp|Q68VQ5|RPOD_RICTY RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|51460338|gb|AAU04301.1| RNA polymerase sigma factor RpoD [Rickettsia typhi str. Wilmington] Length = 635 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 376 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 435 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 436 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 486 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 487 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPID 541 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 542 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 601 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 602 ALRKLQHPIRSK 613 >gi|150015739|ref|YP_001307993.1| RNA polymerase sigma factor RpoD [Clostridium beijerinckii NCIMB 8052] gi|149902204|gb|ABR33037.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium beijerinckii NCIMB 8052] Length = 376 Score = 102 bits (253), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 79/265 (29%), Positives = 132/265 (49%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E AK E G+ A +L ++LRLVV IA Y G G+ ++ Sbjct: 110 YLKEIGKVPLLSSEQEITYAKEI-EEGNQKAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 168 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 169 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 226 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ I+K + + +V + SL I ++ S Sbjct: 227 LIRVQRQLLQELGRDPFPEE---ISKVMELPVDKVREIQKIAQEPVSLETPI--GEEEDS 281 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 282 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 338 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 339 EVGKEFNVTRERIRQIEAKALRKLR 363 >gi|91788957|ref|YP_549909.1| sigma 70 (RpoD) [Polaromonas sp. JS666] gi|91698182|gb|ABE45011.1| RNA polymerase, sigma 70 subunit, RpoD [Polaromonas sp. JS666] Length = 784 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 123/237 (51%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 544 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 603 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKL 166 WI+ A+ I ++I + + RL + HLQ +P+ + +A K+ Sbjct: 604 WIRQAITRSIADQARTIRI--PVHMIETINKMNRLSRQHLQEF---GFEPDASI-LAAKM 657 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E ++ + ++A E ++ D + S D++ D +E + R+ Sbjct: 658 EIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSANTAPLEAAMQAGLRD 712 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 713 VVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 769 >gi|298491609|ref|YP_003721786.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298233527|gb|ADI64663.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 390 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 132/246 (53%), Gaps = 17/246 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 RYR H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G+ Sbjct: 145 RYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGY 204 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-E 157 + +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP E Sbjct: 205 KFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTE 259 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +A ++ + + I+ + +L SL I + S+ D++ D + E + + Sbjct: 260 EEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSK 315 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEAR 275 R++ L + + L+PRER + R ++ TLE + F V+RER+RQIEA+ Sbjct: 316 NLLRED----LEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAK 371 Query: 276 AFKKVQ 281 A +K++ Sbjct: 372 ALRKLR 377 >gi|254382896|ref|ZP_04998252.1| RNA polymerase sigma factor rpoD [Streptomyces sp. Mg1] gi|194341797|gb|EDX22763.1| RNA polymerase sigma factor rpoD [Streptomyces sp. Mg1] Length = 362 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 88/294 (29%), Positives = 142/294 (48%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS----AAH----------------------- 51 Y+ EI +IP+L EE LA+R E G + A H Sbjct: 69 YLREIGRIPLLTAAEEVELARRV-EAGLFAEEKLAGHTDLDLQLTLDLDKLVVMGRMAKR 127 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ S+LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 128 RLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 187 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + N R ++ + + + +P V +A L ++ Sbjct: 188 AMSRALADQARTIRVPVHVVE---LIN-RVVRVQRRMLQERGYEP-TVEEVAVHLELTPE 242 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V+ + RLA + SL+A + D + D + DG +E R L Sbjct: 243 RVLEV-LRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFFLLREHLEA 296 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 297 VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 350 >gi|72161271|ref|YP_288928.1| sigma-70 factor [Thermobifida fusca YX] gi|71915003|gb|AAZ54905.1| sigma-70 factor [Thermobifida fusca YX] Length = 388 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 87/306 (28%), Positives = 148/306 (48%), Gaps = 49/306 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAK------------RYREHGDLSAAH--------------- 51 Y+ EI ++P+L +EE LAK R G + A + Sbjct: 90 YLREIGRVPLLTAEEEVELAKAIEIGLYAEQKLRAARTGPVPAQYSPEWFEDLNELVREG 149 Query: 52 -----RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 RL+ S+LRLVV +A Y G GL + +++ EGN+GL++AV+KFD RG++ +TY+ Sbjct: 150 KLAKRRLIESNLRLVVSVAKRYLGRGLALLDLIQEGNLGLIRAVEKFDYTRGYKFSTYAT 209 Query: 107 WWIKAAMQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 WWI+ A+ I +++ + RL RRL H + + L +++ Sbjct: 210 WWIRQAITRAIADQARTIRVPVHMVESINRLARTRRRL--HQELGREPTLH-----ELSR 262 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +LNV V+ ++ SL+ I D S + D+ + D D V E Sbjct: 263 ELNVDHDRVVEIHRVSQEPISLHTPIGEED---SAFGDF-IEDTDAVPPV--EAAAFVML 316 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ L + + L+ RE+R+ R E+ P TLE + +F V+RER+RQIE++ K+++ Sbjct: 317 QDQLAQVLGGLSEREQRVITLRFGLEDGKPHTLEEVGRKFGVTRERIRQIESKTLAKLRQ 376 Query: 283 SIQKQV 288 + ++ Sbjct: 377 PSRARI 382 >gi|15604688|ref|NP_221206.1| RNA polymerase sigma factor RpoD [Rickettsia prowazekii str. Madrid E] gi|464670|sp|P33451|RPOD_RICPR RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|434681|gb|AAB81404.1| major sigma factor of RNA polymerase [Rickettsia prowazekii] gi|3861383|emb|CAA15282.1| RNA POLYMERASE SIGMA FACTOR RPOD (rpoD) [Rickettsia prowazekii] gi|292572521|gb|ADE30436.1| RNA polymerase sigma factor [Rickettsia prowazekii Rp22] Length = 635 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 376 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 435 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 436 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 486 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 487 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPID 541 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 542 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 601 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 602 ALRKLQHPIRSK 613 >gi|111115602|ref|YP_710220.1| RNA polymerase sigma factor [Borrelia afzelii PKo] gi|110890876|gb|ABH02044.1| RNA polymerase sigma factor [Borrelia afzelii PKo] Length = 266 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 80/282 (28%), Positives = 146/282 (51%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE L + + G A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHKLITHEEEIQLVGQI-QRGSAKAKNKMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + + L + K + I K+ N+S ++ I + L + S Sbjct: 118 VP---------YRKENLILQINKYLTEEEKAPKKEEIMKRFNLSPAQYIKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ ++ +E++ N + + L +ER I + Sbjct: 169 LDKEIEGSE-NSTLLN--LYEDNSFNPEITLEQDSTLQHLNYILETK--LTEKERYIIKK 223 Query: 246 R-RLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L +P TL+++S+E +S E VRQIE R KK++E I Sbjct: 224 RYNLDNSPKKSTLKDISTELGISSETVRQIEKRVLKKLKEEI 265 >gi|298246437|ref|ZP_06970243.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297553918|gb|EFH87783.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 422 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 88/290 (30%), Positives = 145/290 (50%), Gaps = 47/290 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAK----------------RYREHGDLSAAHRLVTSHLRLVV 62 Y+ EI ++P+L EE LA+ RY G+ A RL ++LRLVV Sbjct: 140 YLREIGRVPLLTAHEEIRLAQLMERGKAERLKPAPNYRYISEGE-EAQKRLTEANLRLVV 198 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 +A Y G G+ + +++ EGNIGL++AV+KFD +GF+ +TY+ WWI+ A+ I Sbjct: 199 SVAKKYIGRGMNLLDLIQEGNIGLIRAVEKFDYNKGFKFSTYATWWIRQAITRAIADQAR 258 Query: 123 LVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 ++I T N+ +RL +L R + + E+V I K VS+ E Sbjct: 259 TIRIPVHMVETINRLIRISRRLLQDLGREPTSEEIAAQMEISAEKVREIIK---VSQ-EP 314 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 +S+ + G+E + L + + +++ L Q+L E+ E + Sbjct: 315 VSLETPI-GEEDDSHLGDFIEDHTA-----LAPADAASHQLLKEQVE---------DVLD 359 Query: 234 VLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L RER++ + R ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 360 SLTERERKVLQLRFGLDDGRSRTLEEVGKEFHVTRERIRQIEAKALRKLR 409 >gi|123969020|ref|YP_001009878.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|123199130|gb|ABM70771.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. AS9601] Length = 313 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 84/302 (27%), Positives = 153/302 (50%), Gaps = 44/302 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS-------------------AA 50 +S Y+ I ++P+L EE L + + E G L+ A Sbjct: 20 ISWYLQNIGRVPLLTPAEEIELGNQVQKMMILTEDGQLNEKVNEFTTQQKRTIKIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAITDNNLKPEQVVAIAKKL 166 +M I +++ +++ ++R+ L L A+ + IA+ + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LASIRKVSRDLAHKLGAMPSR-------IEIAEAM 190 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E+ S+ + SL+A +N D S + L+ D + +E +++ E+K + Sbjct: 191 EIDVEELDSVLRQALSTSSLDAPVNGDDGRS--FLGDLIADSNNEEP--LDQVEQKMHQE 246 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + +S L+ +E+ + + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 247 QLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLT 306 Query: 285 QK 286 +K Sbjct: 307 RK 308 >gi|318080032|ref|ZP_07987364.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] Length = 340 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 92/305 (30%), Positives = 141/305 (46%), Gaps = 66/305 (21%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DL--------SAAH 51 Y+ EI +IP+L +E LA+R E G DL +A Sbjct: 47 YLREIGRIPLLTAADEVDLARRV-EAGLFAEAKLAGPGPLDTRLALDLDRLVVLGRAAKR 105 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ S+LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RGF+ +TY+ WWI+ Sbjct: 106 RLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWWIRQ 165 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFN--LRRLKGHLQAITDNNLKPEQVVAIA----KK 165 AM + +++ + N +R +G LQ + +P A K Sbjct: 166 AMSRALADQARTIRVPVHVVE---LINRVVRVQRGLLQ---ERGHEPSHAEVAALLGLTK 219 Query: 166 LNVSE-----SEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V E E +S++ + G++ +L LI D S L+ E VL Sbjct: 220 ERVGEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAALLLLRRHLEDVL--- 276 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 S L RER++ + R ++ P TLE + + F V+RER+RQIEA+ Sbjct: 277 --------------STLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKT 322 Query: 277 FKKVQ 281 K++ Sbjct: 323 LAKLR 327 >gi|297539657|ref|YP_003675426.1| RNA polymerase sigma-70 subunit RpoD [Methylotenera sp. 301] gi|297259004|gb|ADI30849.1| RNA polymerase, sigma 70 subunit, RpoD [Methylotenera sp. 301] Length = 645 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 122/245 (49%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ +TY+ WW Sbjct: 404 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWW 463 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + ++P+ + +A+K+ + Sbjct: 464 IRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QILQETGVEPDPAL-LAEKMEM 518 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE S D++ DGQ ++ Sbjct: 519 PEDKIRKILKISKEPISMETPIGDDE------------DSHLGDFI---EDGQTLAPVDA 563 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + R+ + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 564 AIYASLRDATSEVLESLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 623 Query: 277 FKKVQ 281 +K++ Sbjct: 624 LRKLR 628 >gi|239948365|ref|ZP_04700118.1| RNA polymerase sigma factor, sigma-70 family [Rickettsia endosymbiont of Ixodes scapularis] gi|239922641|gb|EER22665.1| RNA polymerase sigma factor, sigma-70 family [Rickettsia endosymbiont of Ixodes scapularis] Length = 635 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 376 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 435 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 436 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRISRQMLNELGYEP-T 486 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 487 ATEIANRLSMPLDKVCKV-MKIAKEPISLENPV-GDDIDGGQLGDFI---EDKNAVAPID 541 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 542 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 601 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 602 ALRKLQHPIRSK 613 >gi|139436983|ref|ZP_01771143.1| Hypothetical protein COLAER_00117 [Collinsella aerofaciens ATCC 25986] gi|133776630|gb|EBA40450.1| Hypothetical protein COLAER_00117 [Collinsella aerofaciens ATCC 25986] Length = 454 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 123/236 (52%), Gaps = 12/236 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L++++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ Sbjct: 214 LEAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYQKGFKFSTYAT 273 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++I + L R++ L + PE++ A ++ Sbjct: 274 WWIRQAITRAIADQARTIRI--PVHMVETINKLVRVQRQLLQDLGRDPTPEEIGA---EM 328 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++S V + SL I ++ SQ D++ D Q V + + Sbjct: 329 DMSADRVREIQKISQEPVSLETPIG--EEEDSQLGDFI---EDSQAIVPPDAASFSMLQE 383 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 LT+ + L RER++ E R + +P TLE + EF V+RER+RQIE++ K+ Sbjct: 384 QLTQVLDSLADRERKVIELRFGLVDGHPRTLEEVGREFGVTRERIRQIESKTLAKL 439 >gi|162605994|ref|XP_001713512.1| RNA-polymerase sigma factor [Guillardia theta] gi|13794432|gb|AAK39807.1|AF165818_15 RNA-polymerase sigma factor [Guillardia theta] Length = 460 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 82/252 (32%), Positives = 132/252 (52%), Gaps = 34/252 (13%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H A R+V ++LRLVV IA Y G+ + +++ EG++GL++A +KFD E+GF+ +T Sbjct: 183 HNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDSEKGFKFST 242 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL----QAI--TDNNLKPE 157 Y+ WW+K A+ I A+ R RL HL AI T NL E Sbjct: 243 YATWWVKQAVTRAI------------ADHSRTI----RLPVHLYDTISAIRKTTRNLNIE 286 Query: 158 -----QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 IAK++++S ++ ++ SL + + D ++SQ D++ D + E Sbjct: 287 IGRSPTEEEIAKRMDMSVEKLRNVLQSAQPTLSLERPLKNDD-DTSQLSDFIEADQESPE 345 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVR 270 E E+ R+ L ++ L+PRER + R L + + TLE + F V+RERVR Sbjct: 346 ----EHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVR 401 Query: 271 QIEARAFKKVQE 282 QIEA+A +K+++ Sbjct: 402 QIEAKAIRKLRQ 413 >gi|261880495|ref|ZP_06006922.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] gi|270332834|gb|EFA43620.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] Length = 290 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 79/273 (28%), Positives = 139/273 (50%), Gaps = 14/273 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYG 72 L RY+ EI + P++ EE L+++ R+ G A +L+TS+LR VV +A Y+ G Sbjct: 17 ALDRYLVEIGRAPLISIDEEIELSQKIRKGGREGQRAKDKLITSNLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L ++++++EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LSLTDLINEGNIGLIKATEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALIN 191 L ++ + + + IA+ ++V E+ I M+ G S++A Sbjct: 135 ---VGTLSKINKEINNFEQRHERRPSTQEIAEAIDV-EAGKIRMSMMADGHHVSIDAPFQ 190 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQE 250 + NS D + D + + E N + SVL RE I E + Sbjct: 191 EDESNS--MADIMASGDDTRTDKRADHESMAQELNTVLE--SVLKEREITIIRECFGIGC 246 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + LE + ++RERVRQI ++ K++ES Sbjct: 247 HELGLEEIGDRLGLTRERVRQIREKSIAKLRES 279 >gi|223998999|ref|XP_002289172.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] gi|220974380|gb|EED92709.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] Length = 318 Score = 102 bits (253), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 123/239 (51%), Gaps = 12/239 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L S+LRLV+ IA Y+G GL + ++ EG +GL +A +KFDPERGFR +TY+ Sbjct: 75 LRAKAALTESNLRLVISIAKRYQGRGLNMQDLCQEGTLGLTRACEKFDPERGFRFSTYAT 134 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWIK + I +++ + + +R+ + LQ + E+V A K+ Sbjct: 135 WWIKQGIMRAIADQARTIRLPVHIHDQ--LSIVRKAERDLQNELGRDATKEEVAA---KV 189 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNRR 225 + ++ + G S+ + +S S + + D G +Q ++ + + + Sbjct: 190 GMKPDKIEFLKRASVGSISMEQELGTSGSERS----FTIQDTLGDPDQKPVDMAQYRMLQ 245 Query: 226 NMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + R + LN RE+ + R L + TLE + +F V+RER+RQIEARA K+++ Sbjct: 246 DDVGRLICTLNAREQAVIRMRFGLDDGKAKTLEEIGKKFSVTRERIRQIEARALHKLRQ 304 >gi|203284664|ref|YP_002222404.1| RNA polymerase sigma factor [Borrelia duttonii Ly] gi|201084107|gb|ACH93698.1| RNA polymerase sigma factor [Borrelia duttonii Ly] Length = 267 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 80/282 (28%), Positives = 150/282 (53%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LAK+ + G L A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHRLITHEEEIELAKQIK-LGSLKAKNQMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + L N + + + P++ I ++ N++ ++ + + L + S Sbjct: 118 VPYRKENLILQIN--------KYLMEEEKSPKK-EDIMERFNLTTAQYVKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ + +E+ N + + LN +ER I + Sbjct: 169 LDKKIEGSE-NSTLLN--LYEDNSFNPESTLEQNSTLKHLNYILETK--LNEKERYIIKK 223 Query: 246 RRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R +N TL+++S+E +S E VRQIE R KK++E + Sbjct: 224 RYNLDNSDKKSTLKDISTELGISSETVRQIEKRVLKKLREEL 265 >gi|17232755|ref|NP_489303.1| RNA polymerase sigma factor RpoD [Nostoc sp. PCC 7120] gi|75907632|ref|YP_321928.1| RNA polymerase sigma factor RpoD [Anabaena variabilis ATCC 29413] gi|133465|sp|P26683|RPOD_ANASP RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|142108|gb|AAA22043.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] gi|17134402|dbj|BAB76962.1| transcription initiation factor sigma [Nostoc sp. PCC 7120] gi|75701357|gb|ABA21033.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 390 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 133/248 (53%), Gaps = 17/248 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A RYR H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+ Sbjct: 143 AFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEK 202 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP 156 G++ +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP Sbjct: 203 GYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKP 257 Query: 157 -EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E+ +A ++ + + I+ + +L SL I + S+ D++ D + E + Sbjct: 258 TEEEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQV 313 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 + R++ L + + L+PRER + R ++ TLE + F V+RER+RQIE Sbjct: 314 SKNLLRED----LEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIE 369 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 370 AKALRKLR 377 >gi|303235908|ref|ZP_07322511.1| putative RNA polymerase sigma factor RpoD [Prevotella disiens FB035-09AN] gi|302483781|gb|EFL46773.1| putative RNA polymerase sigma factor RpoD [Prevotella disiens FB035-09AN] Length = 293 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 80/289 (27%), Positives = 146/289 (50%), Gaps = 42/289 (14%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ + + M+ EE LAKR RE GD A RL ++LR VV +A Y+ GL Sbjct: 23 ALEKYLQDTSREAMVGLDEEIELAKRIRE-GDEKALERLTKANLRFVVSVAKQYQNQGLA 81 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TA 130 + ++++EGN GL++A +K+D RGF+ +Y++WWI+ ++ + I +V++ +A Sbjct: 82 LPDLINEGNFGLIKAAQKYDETRGFKFISYAVWWIRQSIMQAISEQSRMVRVPINQMGSA 141 Query: 131 NQKRLFFN-----------LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 N+ R F N L L H+ +L E++V + L ++ ++V SM+ Sbjct: 142 NRIRKFINQFEQEHERYPSLSELTEHI------DLLEEKIV---EALAMATTQV-SMDAP 191 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 +E + L +KN+ D LV + E + +++ L+ RE Sbjct: 192 FTSNEEGSLLDVLPNKNAPSADDLLVAESLSTE---------------VANALASLSERE 236 Query: 240 RRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + I + P ++LE + ++RERVRQI+ +A +++++ Q + Sbjct: 237 QIIIKCFFGINQPEMSLEEIGERTGLTRERVRQIKEKAIIRLRKNSQSE 285 >gi|157804249|ref|YP_001492798.1| RNA polymerase sigma factor RpoD [Rickettsia canadensis str. McKiel] gi|157785512|gb|ABV74013.1| RNA polymerase sigma factor RpoD [Rickettsia canadensis str. McKiel] Length = 635 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 75/248 (30%), Positives = 127/248 (51%), Gaps = 21/248 (8%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ Sbjct: 380 LQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 439 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 WWI+ A+ I ++I T N + L+ Q + + +P I Sbjct: 440 WWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-TATEI 490 Query: 163 AKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 A +L++ +V + ++A + SL + D + Q D++ D I+ + Sbjct: 491 ANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPIDAAIQ 545 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++A +K Sbjct: 546 SNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRK 605 Query: 280 VQESIQKQ 287 +Q I+ + Sbjct: 606 LQHPIRSK 613 >gi|290960625|ref|YP_003491807.1| Principal sigma factor HrdA [Streptomyces scabiei 87.22] gi|260650151|emb|CBG73267.1| Principal sigma factor HrdA [Streptomyces scabiei 87.22] Length = 387 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 89/294 (30%), Positives = 142/294 (48%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AAH 51 Y+ EI +IP+L EE LA+R E G DL A Sbjct: 94 YLREIGRIPLLTAVEEVELARRV-EAGLFAEERLGTASGLDTRLALDLDRLVVMGRMAKR 152 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 153 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 212 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + P++V A L+++ Sbjct: 213 AMSRALADQARTIRV--PVHVVELINRVVRVQRRMLQERGYEPTPDEVAA---HLDLA-P 266 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E +S RLA + SL+A + D + D + DG +E R L Sbjct: 267 ERVSEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLEA 321 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 322 VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 375 >gi|257063660|ref|YP_003143332.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] gi|256791313|gb|ACV21983.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] Length = 394 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 136/294 (46%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLA-------------KRYREHG-----------------DLS 48 Y+ EI K+P+L EE LA ++ E G L Sbjct: 96 YLKEIGKVPLLTPSEEVDLAMKIEAGVAATAELEKAEEEGVELDRRERRRLTRVEQVGLD 155 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 156 AKDQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 215 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R++ L + PE+ I +K+ + Sbjct: 216 IRQAITRAIADQARTIRI--PVHMVETINKLVRIQRQLLQELGRDPSPEE---IGEKMGL 270 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S V + SL I ++ SQ D++ D V ++ + L Sbjct: 271 SAERVREIQKLSQEPVSLETPIG--EEEDSQLGDFI---EDDSAIVPVDAASFAMMQEQL 325 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ + L RER + R E+ P TLE + EF V+RER+RQIE++ K+ Sbjct: 326 SKVLDTLGERERNVVIKRFGLEDGQPHTLEEVGREFGVTRERIRQIESKTLAKL 379 >gi|113954631|ref|YP_732094.1| RNA polymerase sigma factor [Synechococcus sp. CC9311] gi|113881982|gb|ABI46940.1| RNA polymerase sigma factor [Synechococcus sp. CC9311] Length = 340 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 80/294 (27%), Positives = 143/294 (48%), Gaps = 31/294 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLA--------------------KRYREHGDLSAAHRLVT 55 + Y+ I ++P+L EE LA +R+R A R++ Sbjct: 53 IGHYLSSIGRVPLLTAAEEIELAHHVQAMKELLDIQEEERTPKQRHRIRMGKRARDRMMA 112 Query: 56 SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQE 115 ++LRLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M Sbjct: 113 ANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTR 172 Query: 116 YILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 I S +++ ++K L +++ + ++ + + +A + + ++ Sbjct: 173 AIDNSARTIRLPIHISEK-----LSKMRKITRELSHRFGRQPNRLELAHAMGIEPRDLEE 227 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + + A SL+A + S+ + L+ D +G E +E +R ++ L +S L Sbjct: 228 LIAQSAPCASLDAHARGEEDRSTLGE--LIPDPNGDEP--MEGMDRSIQKEHLGGWLSQL 283 Query: 236 NPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 N RE++I R E P+TL + + VSRERVRQ+E++A K++ Q Sbjct: 284 NEREQKILRLRFGLGGEEPLTLAEIGRQINVSRERVRQLESKAILKLRTMTNHQ 337 >gi|288926192|ref|ZP_06420119.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315608841|ref|ZP_07883815.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|288337084|gb|EFC75443.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315249448|gb|EFU29463.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 290 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 80/273 (29%), Positives = 142/273 (52%), Gaps = 14/273 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI PM+ EE LA+ R+ G A +LV ++LR VV +A Y+ G Sbjct: 17 ALDKYLAEISHEPMVSIDEETELAQAIRKGGREGERAKEKLVRANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LGLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSIMQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV-ISMNCRLAGDESLNALIN 191 + ++ + ++N +P + +A+ + E ++ S+N + S++A Sbjct: 135 VGAVSKINQVTSKF--VQEHNRRP-SIQELAQITGIDEQKIEQSLNAD-SHHMSIDAPFA 190 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQE 250 D NS D L D + ++ E + N + + +VL RE RI E + Sbjct: 191 EDDDNS--MADVLASGDDSRTDKQVDFESMASELNNVLK--NVLKEREIRIVKECFGIGC 246 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + LE + E ++RERVRQI ++ K++ES Sbjct: 247 HEKGLEEIGEEMGLTRERVRQIREKSILKIRES 279 >gi|126696812|ref|YP_001091698.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|126543855|gb|ABO18097.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9301] Length = 313 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 84/302 (27%), Positives = 153/302 (50%), Gaps = 44/302 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS-------------------AA 50 +S Y+ I ++P+L EE L + + E G L+ A Sbjct: 20 ISWYLQNIGRVPLLTPAEEIELGNQVQKMMILTEDGQLNEKTNEFTTQQKRTIKIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAITDNNLKPEQVVAIAKKL 166 +M I +++ +++ ++R+ L L A+ + IA+ + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LASIRKVSRDLAHKLGAMPSR-------IEIAEAM 190 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E+ S+ + SL+A +N D S + L+ D + +E +++ E+K + Sbjct: 191 EIDVEELDSVLRQALSTSSLDAPVNGDDGRS--FLGDLIADSNNEEP--LDQVEQKMHQE 246 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + +S L+ +E+ + + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 247 QLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLT 306 Query: 285 QK 286 +K Sbjct: 307 RK 308 >gi|148264661|ref|YP_001231367.1| RpoD family RNA polymerase sigma factor [Geobacter uraniireducens Rf4] gi|146398161|gb|ABQ26794.1| RNA polymerase, sigma 38 subunit, RpoS [Geobacter uraniireducens Rf4] Length = 336 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 81/276 (29%), Positives = 143/276 (51%), Gaps = 27/276 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI+K +L EE LA R + G+ +A +++ S+LRLVVKIA Y GLP ++ Sbjct: 66 YLREIQKTKLLTADEEKELAARI-DKGEKAARDKMIESNLRLVVKIAKRYINRGLPFLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV++F + R +TY+ WWI+ +++ ++ NQ R Sbjct: 125 IEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALV------------NQSRTI-- 170 Query: 139 LRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN---SS 193 RL H+ + L+ E V + ++ ++ E +M+ A L L+ S Sbjct: 171 --RLPVHVSDDINKMLRITRELVQKVNREPSIKEV-ATAMDVNSAYIRRLMVLLKKTYSI 227 Query: 194 DKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQ 249 ++ + D+ + D D E E NR M+++ L+ E+RI R Sbjct: 228 ERPMGENNDYFLIDTIEDTSTVSPAELLEDVNRYEMVSKWFETLSDSEKRILTLRFGLDD 287 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++P TL+ + F V+RER+RQIEA++ +K+++ ++ Sbjct: 288 KDPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKILE 323 >gi|317968319|ref|ZP_07969709.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CB0205] Length = 260 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 124/238 (52%), Gaps = 17/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WW Sbjct: 26 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 85 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKK 165 I+ M I S +++ ++K +RR+ H N L+ +A Sbjct: 86 IRQGMTRAIDNSARTIRLPIHVSEK--LSKMRRITRELSHRFGRQPNRLE------LAHA 137 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 + + E+ + + A SL+A D S+ + L+ D + E ++ +R ++ Sbjct: 138 MGMQPEELEELITQSAPCASLDAHARGDDDRSTLGE--LIADPNSNES--MDSMDRNLQK 193 Query: 226 NMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +S LN RER+I E R + P+TL + + VSRERVRQ+E++A K++ Sbjct: 194 EHLGTWLSQLNERERKIIELRFGLAGQEPLTLAEIGRQINVSRERVRQLESKAILKLR 251 >gi|209525810|ref|ZP_03274346.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209493783|gb|EDZ94102.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 407 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 129/238 (54%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP RG+R +TYS Sbjct: 166 LQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYSY 225 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + I+ + + IA +L Sbjct: 226 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQEKSRTATIDDIATEL 280 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++ + R+ SL + +DK+ ++ D L + E++L+ + + +N Sbjct: 281 KMTPDQIREVLLRVPRSVSLETKVG-TDKD-TELGDLLETEESTPEELLMRESLYRELQN 338 Query: 227 MLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L+ +ER + + R +P +L + ++SRERVRQIEA+A +K+++ Sbjct: 339 LL----ADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQ 392 >gi|116492861|ref|YP_804596.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Pediococcus pentosaceus ATCC 25745] gi|116103011|gb|ABJ68154.1| RNA polymerase, sigma 70 subunit, RpoD [Pediococcus pentosaceus ATCC 25745] Length = 379 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 84/278 (30%), Positives = 138/278 (49%), Gaps = 41/278 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LA R E GD A L ++LRLVV IA Y G G+ ++ Sbjct: 113 YLKEIGRVSLLTADQEVELALRI-EKGDPRARQELAEANLRLVVSIAKRYVGRGMQFLDL 171 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GLM+AV+KFD ++GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 172 IQEGNMGLMKAVEKFDYQKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 231 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q++L +L R + + ++ ++V I L +++ E +S+ + D L Sbjct: 232 RIQRQLLQDLGREPMPEEIGAEMDMPSDKVREI---LKIAQ-EPVSLETPIGEEDDSHLG 287 Query: 188 ALINSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 I D+ ++ D Y+ +G L ++EE N+L + + R R Sbjct: 288 DFIE--DQEATSPADHAAYELLKEQLEGVLDTLTDREE-----NVLRLRFGLDDGRTR-- 338 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + F V+RER+RQIEA+A +K+ Sbjct: 339 -----------TLEEVGKVFGVTRERIRQIEAKALRKL 365 >gi|219847900|ref|YP_002462333.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219542159|gb|ACL23897.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 381 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 89/304 (29%), Positives = 141/304 (46%), Gaps = 48/304 (15%) Query: 12 GEIGLSR----YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDL-- 47 GEI Y+ EI ++P+L ++E LAK RE +L Sbjct: 77 GEIAFDDPVRMYLQEIGQVPLLTAEQEVELAKAMEAGAIARQRLDREEYASARERFELER 136 Query: 48 ------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 A H L+ ++LRLVV IA Y YGL + ++V EGNIGLM+AV+KFD ++G + Sbjct: 137 AVQQGQDARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGHKF 196 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 +TY+ WWI+ A+ I +++ + ++R LQ PE+ Sbjct: 197 STYATWWIRQAITRAIADQSRTIRLPVHMGEA--ISQVKRTSHRLQQTMQREPTPEE--- 251 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNAL---INSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA + +S +V R + S++ L + + + D++ D + E Sbjct: 252 IADAMGISAGKV-----RRTLEASMHPLSLEMPVGQEGEGRMGDFI---EDDRISTPAEA 303 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 R L + L RER+I + R L++ TLE + EF ++RER+RQIEA A Sbjct: 304 AAASLLREQLEEVLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVA 363 Query: 277 FKKV 280 +K+ Sbjct: 364 LRKL 367 >gi|33863540|ref|NP_895100.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9313] gi|33640989|emb|CAE21447.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] Length = 461 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 225 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 284 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 285 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 339 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 340 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDTENPEQDVAKNLLREDLEG 395 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + FEV+RER+RQIEA+A +K++ Sbjct: 396 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAKALRKLR 448 >gi|157826344|ref|YP_001494064.1| RNA polymerase sigma factor RpoD [Rickettsia akari str. Hartford] gi|157800302|gb|ABV75556.1| RNA polymerase sigma factor RpoD [Rickettsia akari str. Hartford] Length = 635 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 128/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 376 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 435 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 436 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 486 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 487 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAIAPID 541 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 542 AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 601 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 602 ALRKLQHPIRSK 613 >gi|254527154|ref|ZP_05139206.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] gi|221538578|gb|EEE41031.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] Length = 313 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 84/302 (27%), Positives = 153/302 (50%), Gaps = 44/302 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS-------------------AA 50 +S Y+ I ++P+L EE L + + E G L+ A Sbjct: 20 ISWYLQNIGRVPLLTPAEEIELGNQVQKMMILTEDGQLNEKINEFTTQQKRTIKIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAITDNNLKPEQVVAIAKKL 166 +M I +++ +++ ++R+ L L A+ + IA+ + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LASIRKVSRDLAHKLGAMPSR-------IEIAEAM 190 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E+ S+ + SL+A +N D S + L+ D + +E +++ E+K + Sbjct: 191 EIDVEELDSVLRQALSTSSLDAPVNGDDGRS--FLGDLIADSNNEEP--LDQVEQKMHQE 246 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + +S L+ +E+ + + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 247 QLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLT 306 Query: 285 QK 286 +K Sbjct: 307 RK 308 >gi|157413850|ref|YP_001484716.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157388425|gb|ABV51130.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9215] Length = 313 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 84/302 (27%), Positives = 153/302 (50%), Gaps = 44/302 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS-------------------AA 50 +S Y+ I ++P+L EE L + + E G L+ A Sbjct: 20 ISWYLQNIGRVPLLTPAEEIELGNQVQKMMILTEDGQLNEKIKEFTTQQKRTIKIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAITDNNLKPEQVVAIAKKL 166 +M I +++ +++ ++R+ L L A+ + IA+ + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LASIRKVSRDLAHKLGAMPSR-------IEIAEAM 190 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E+ S+ + SL+A +N D S + L+ D + +E +++ E+K + Sbjct: 191 EIDVEELDSVLRQALSTSSLDAPVNGDDGRS--FLGDLIADSNNEEP--LDQVEQKMHQE 246 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + +S L+ +E+ + + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 247 QLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLT 306 Query: 285 QK 286 +K Sbjct: 307 RK 308 >gi|124267677|ref|YP_001021681.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Methylibium petroleiphilum PM1] gi|124260452|gb|ABM95446.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Methylibium petroleiphilum PM1] Length = 746 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 124/242 (51%), Gaps = 14/242 (5%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 501 EKASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 560 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVA 161 TY+ WWI+ A+ I ++I + + RL + HLQ +P+ Sbjct: 561 TYATWWIRQAITRSIADQARTIRI--PVHMIETINKMNRLSRQHLQEF---GFEPD-APT 614 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +A+K+ + E ++ + ++A E ++ D + S D++ D IE + Sbjct: 615 LAEKMEMPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNNTAPIEAAMQ 669 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKK 279 R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K Sbjct: 670 AGLRDVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKAIRK 729 Query: 280 VQ 281 ++ Sbjct: 730 LK 731 >gi|296136130|ref|YP_003643372.1| RNA polymerase, sigma 70 subunit, RpoD [Thiomonas intermedia K12] gi|295796252|gb|ADG31042.1| RNA polymerase, sigma 70 subunit, RpoD [Thiomonas intermedia K12] Length = 778 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 124/235 (52%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGN+GLM+AV KF+ RG++ +TY+ WW Sbjct: 539 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWW 598 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + N R + HLQ + +P+ V +A+K+ + Sbjct: 599 IRQAITRSIADQARTIRIPVHMIETINKVN-RISRQHLQ---ETGTEPDAAV-LAEKMEM 653 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D + S D++ D E + R+++ Sbjct: 654 PEDKVRKI-LKIAR-EPISMETPIGDDDDSHLGDFI---EDSGTLAPTEAAMQAGLRDVV 708 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 709 KEILDSLTPREAKVLRMRFGIEMANDHTLEEVGKQFDVTRERIRQIEAKALRKLK 763 >gi|203288197|ref|YP_002223212.1| RNA polymerase sigma factor [Borrelia recurrentis A1] gi|201085417|gb|ACH94991.1| RNA polymerase sigma factor [Borrelia recurrentis A1] Length = 267 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 80/282 (28%), Positives = 150/282 (53%), Gaps = 20/282 (7%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 M+I N ++ + Y+ +R+ ++ +EE LAK+ + G L A ++++ ++LRLV+KI Sbjct: 1 MNIFSNEDLNI--YLKSVREHRLITHEEEIELAKQIK-LGSLKAKNQMINANLRLVLKII 57 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y G GL I +++ EGN+GL++A +K+DP + + +TY+ +WIK ++Q + LVK Sbjct: 58 KRYAGKGLKIEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFWIKQSLQRALNTKTRLVK 117 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + L N + + + P++ I ++ N++ ++ + + L + S Sbjct: 118 VPYRKENLILQIN--------KYLMEEEKSPKK-EDIMERFNLTTAQYVKIIPYLEKEYS 168 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+ I S+ NS+ L D+ + +E+ N + + LN +ER I + Sbjct: 169 LDKKIEGSE-NSTLLN--LYEDNSLNPESTLEQNSTLKHLNYILETK--LNEKERYIIKK 223 Query: 246 RRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R +N TL+++S+E +S E VRQIE R KK++E + Sbjct: 224 RYNLDNSDKKSTLKDISTELGISSETVRQIEKRVLKKLREEL 265 >gi|292492664|ref|YP_003528103.1| RNA polymerase sigma factor RpoS [Nitrosococcus halophilus Nc4] gi|291581259|gb|ADE15716.1| RNA polymerase sigma factor RpoS [Nitrosococcus halophilus Nc4] Length = 325 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 80/271 (29%), Positives = 142/271 (52%), Gaps = 13/271 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 57 YLSEIGFAPLLTAEEE-VYHARLAQRGDPAGRKRMIESNLRLVVKIARRYMNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL+ AV+KFDPE GFR +TY+ WWI+ ++ ++ V++ ++ + Sbjct: 116 IEEGNLGLIHAVEKFDPEMGFRFSTYATWWIRQTIERALMNQTRTVRLPVHVVKE--IKS 173 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +R+ L +++ E+ +A++L+ S E+ M S++ S + + Sbjct: 174 YQRVASKLAQELEHDPTFEE---LAQQLDKSVEEIKRMWSLKDNIASMDTGYRSDQEKT- 229 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE-NPVTLE 256 D L + L++ ++ ++R + +S LN ++R + R LQ TLE Sbjct: 230 -LLDTLPDEGTPDPTTLLQNDDMQSRLELW---LSQLNNKQREVVIRRFGLQGYESQTLE 285 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + V+RERVRQI+ A K+++ + K+ Sbjct: 286 QVGQAIGVTRERVRQIQLEALKRLRRIMAKE 316 >gi|294340365|emb|CAZ88746.1| RNA polymerase sigma factor rpoD (Sigma-70) [Thiomonas sp. 3As] Length = 778 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 124/235 (52%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGN+GLM+AV KF+ RG++ +TY+ WW Sbjct: 539 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWW 598 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + N R + HLQ + +P+ V +A+K+ + Sbjct: 599 IRQAITRSIADQARTIRIPVHMIETINKVN-RISRQHLQ---ETGTEPDAAV-LAEKMEM 653 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D + S D++ D E + R+++ Sbjct: 654 PEDKVRKI-LKIAR-EPISMETPIGDDDDSHLGDFI---EDSGTLAPTEAAMQAGLRDVV 708 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 709 KEILDSLTPREAKVLRMRFGIEMANDHTLEEVGKQFDVTRERIRQIEAKALRKLK 763 >gi|121609019|ref|YP_996826.1| RpoD family RNA polymerase sigma factor [Verminephrobacter eiseniae EF01-2] gi|121553659|gb|ABM57808.1| RNA polymerase, sigma 70 subunit, RpoD family [Verminephrobacter eiseniae EF01-2] Length = 635 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 77/260 (29%), Positives = 134/260 (51%), Gaps = 17/260 (6%) Query: 26 IPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +P+ E + V+ KR E S A ++ ++LRLV+ IA Y GL +++ EGN Sbjct: 374 VPLTELK---VINKRMNEGEATSRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGN 430 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + N R + Sbjct: 431 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISR 489 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 HLQ +P+ + +A K+ + E ++ + ++A E ++ D + S D+ Sbjct: 490 QHLQEF---GFEPDASL-LAAKMEIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDF 543 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSE 261 + D IE + R+++ + L PRE ++ R E + TLE + + Sbjct: 544 I---EDASNTAPIEAAMQAGLRDVVKDILDGLTPREAKVLRMRFGIEMTSDHTLEEVGKQ 600 Query: 262 FEVSRERVRQIEARAFKKVQ 281 F+V+RER+RQIEA+A +K++ Sbjct: 601 FDVTRERIRQIEAKALRKLK 620 >gi|219847826|ref|YP_002462259.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219542085|gb|ACL23823.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 361 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 83/297 (27%), Positives = 143/297 (48%), Gaps = 52/297 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------EHGDLS-----------------AAHR 52 Y+ EI ++P+L +EE LA++YR ++ D + A R Sbjct: 68 YLQEIGQVPLLTAEEEVELARQYRRGKEARQRLQNEDYANDRERMRLEIEQARGEEARRR 127 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G + ++V EGNIGLM+AV+KFD +G R +TY+ WWI+ A Sbjct: 128 LIQANLRLVVSVAKKYIGSPMAFMDLVQEGNIGLMRAVEKFDYTKGNRFSTYATWWIRQA 187 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI-------AKK 165 + I L+++ ++ +LRR L+ + PE++ K+ Sbjct: 188 VTRAIAEQSRLIRLPVHLSES--IVHLRRAIYRLEQELEREPTPEELAHALNMSLRKVKR 245 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 L + ++ IS+ L D+ +D+ ++ + EQ +++ E Sbjct: 246 LLRASTQPISLEQPLNADQEGRVSETLADETAASPMEI-------AEQNMLQAE------ 292 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L +++ L RER+I + R L TLE + + F ++RER RQIEA A +++ Sbjct: 293 --LNAALNELPERERKILQLRYGLLDGQRRTLEEVGATFGITRERTRQIEAEALRRL 347 >gi|78486147|ref|YP_392072.1| sigma 70 (RpoD) [Thiomicrospira crunogena XCL-2] gi|78364433|gb|ABB42398.1| sigma 70 (RpoD) [Thiomicrospira crunogena XCL-2] Length = 594 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 85/280 (30%), Positives = 138/280 (49%), Gaps = 44/280 (15%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAH--------RLVTSHLRLVVKIAMGYRGYGLPI 75 +++ M+EK E+ + + + DLS A ++ ++LRLV+ IA Y GL Sbjct: 324 KRLAMIEKAEKMPINQYKTIYKDLSKAESIARIAKREMIEANLRLVISIAKKYTNRGLQF 383 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AV+KF+ RG++ +TY+ WWI+ A+ I ++I + Sbjct: 384 LDLIQEGNIGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIET 441 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDE- 184 L R++ L PE+ +A+++ + E +V ISM + DE Sbjct: 442 INKLNRIQRQLLQKMGREPTPEE---LAEEMEMPEDKVRKVMKIAKEPISMETPVGDDED 498 Query: 185 -SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL I S+ S Q D +G + + R ML S L PRE ++ Sbjct: 499 SSLGDFIEDSNILSPQDS----ADLEGMGETV---------REML----STLTPREAKVL 541 Query: 244 EAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 542 RMRFGLGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 581 >gi|33861845|ref|NP_893406.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33640213|emb|CAE19748.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 313 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 85/304 (27%), Positives = 151/304 (49%), Gaps = 40/304 (13%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS----------------- 48 G +S Y+ I ++P+L EE L + + E G L+ Sbjct: 16 GNDPISWYLSNIGRVPLLTPAEEIELGNQVQKMMVLTEDGQLNEKTKEFTPQDKRTIKIG 75 Query: 49 --AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ Sbjct: 76 RRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAF 135 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFN--LRRLKGHLQAITDNNLKPEQVVAIAK 164 WWI+ +M I +++ +++ R L L A+ + IA+ Sbjct: 136 WWIRQSMTRAIACQSRTIRLPVHLSERLATIRKISRELAHKLGAMPSR-------IEIAE 188 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + + E+ S+ + SL+A +N D S + L+ D + +E +++ E+K Sbjct: 189 AMEIDVEELDSVLRQALSTSSLDAPVNGDDGRS--FLGDLIADSNNEEP--LDQVEQKMH 244 Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L + +S L+ +E+ + + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 245 QEQLGKWLSHLSEQEQHVLKLRFGLDGNERHTLAEIGRLLEVSRERVRQVELKALRKLRN 304 Query: 283 SIQK 286 +K Sbjct: 305 LTRK 308 >gi|150005266|ref|YP_001300010.1| RNA polymerase sigma factor rpoD [Bacteroides vulgatus ATCC 8482] gi|212694793|ref|ZP_03302921.1| hypothetical protein BACDOR_04327 [Bacteroides dorei DSM 17855] gi|237710938|ref|ZP_04541419.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 9_1_42FAA] gi|237727237|ref|ZP_04557718.1| RNA polymerase sigma factor rpoD [Bacteroides sp. D4] gi|254883735|ref|ZP_05256445.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 4_3_47FAA] gi|265750524|ref|ZP_06086587.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_33FAA] gi|294777100|ref|ZP_06742557.1| putative RNA polymerase sigma factor RpoD [Bacteroides vulgatus PC510] gi|319643459|ref|ZP_07998082.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_40A] gi|149933690|gb|ABR40388.1| RNA polymerase sigma factor rpoD [Bacteroides vulgatus ATCC 8482] gi|212662647|gb|EEB23221.1| hypothetical protein BACDOR_04327 [Bacteroides dorei DSM 17855] gi|229434093|gb|EEO44170.1| RNA polymerase sigma factor rpoD [Bacteroides dorei 5_1_36/D4] gi|229454782|gb|EEO60503.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 9_1_42FAA] gi|254836528|gb|EET16837.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 4_3_47FAA] gi|263237420|gb|EEZ22870.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_33FAA] gi|294448969|gb|EFG17512.1| putative RNA polymerase sigma factor RpoD [Bacteroides vulgatus PC510] gi|317384864|gb|EFV65820.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_40A] Length = 286 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/274 (28%), Positives = 148/274 (54%), Gaps = 22/274 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIRK-GDRVALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQ 249 NS D LV D ++ E R+ + R++S L RE+ I F Q Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLARE-----IDRALSTLTEREKDIIQMFFGINTQ 243 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E +TLE + +F ++RERVRQI+ +A ++++++ Sbjct: 244 E--MTLEEIGDKFGLTRERVRQIKEKAIRRLRQN 275 >gi|238060708|ref|ZP_04605417.1| RNA polymerase sigma factor rpoD [Micromonospora sp. ATCC 39149] gi|237882519|gb|EEP71347.1| RNA polymerase sigma factor rpoD [Micromonospora sp. ATCC 39149] Length = 331 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 87/307 (28%), Positives = 145/307 (47%), Gaps = 68/307 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLS--------AAHR 52 Y+HEI + P+L+ E L+K Y EH DL A Sbjct: 40 YLHEISRTPLLDAATEVDLSKSIEAGLYAEHLLETDRVPAGVDRDDLERVAAEGERAKDL 99 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA Y G+P+ +++ EGN GL++AV+KFD ERGF+ +TY+ WWI+ A Sbjct: 100 FIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVAIAKKLNVS 169 + I + V++ L ++ R++ + +T ++ +PEQ IA L V+ Sbjct: 160 ISRAIAQQERTVRLPV-----HLVEDVNRMRNAARQLTRELGSDPEPEQ---IAAALGVT 211 Query: 170 ----------ESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +S++ + GD +L L+ SD S E +++ Sbjct: 212 VERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSP-------------EDIVLT 258 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEAR 275 ER+ +L L+ R I AR E+ +L ++S F +SRER+RQ+E + Sbjct: 259 GLERQRIEGLLNH----LDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQ 314 Query: 276 AFKKVQE 282 A +++E Sbjct: 315 ALGRLRE 321 >gi|291287615|ref|YP_003504431.1| RNA polymerase, sigma 32 subunit, RpoH [Denitrovibrio acetiphilus DSM 12809] gi|290884775|gb|ADD68475.1| RNA polymerase, sigma 32 subunit, RpoH [Denitrovibrio acetiphilus DSM 12809] Length = 301 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 76/277 (27%), Positives = 144/277 (51%), Gaps = 16/277 (5%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E L Y++ I + K +E+ + +R + GD A + L+ +L+ VV IA YR G Sbjct: 30 ETSLKHYLNSISAYKPMTKAQEFAIGERI-QAGDEDALNTLILCNLKFVVSIANRYRNTG 88 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LPI++++++GN+GL++A K+FD + + +Y++WWI+ ++ + + VK+ Q Sbjct: 89 LPIADIINQGNLGLVEAAKRFDHTKDVKFISYAVWWIRQSIIQALAEQSGTVKLPI--KQ 146 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALIN 191 + + ++ G + + + +A++L + E+++ ++ R++ + SL A I Sbjct: 147 AGILY---KINGATEKLNKKLNREPTASELAEQLEMDEADIENV-LRVSRNYLSLEAPIK 202 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--Q 249 + S + D L E+ +I K + L + L+ RE +I E R + Sbjct: 203 DGEDRS--FIDLLESGTKDIEEDIIS----KTLKTALDDIVDELDERESQIIEWRFGLNE 256 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E P TLE + ++SRERVRQ+E RA K+++ K Sbjct: 257 EAPKTLEEIGELMDISRERVRQLETRALSKLRKKAMK 293 >gi|313892356|ref|ZP_07825948.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] gi|313119215|gb|EFR42415.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] Length = 393 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 77/275 (28%), Positives = 132/275 (48%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-----------LVTSHLRLVVKIAMG 67 Y+ E P+L +EE LAK+ + L A + ++LRLVV IA Sbjct: 119 YLRECGATPLLSAEEEMTLAKQIEKGKMLDATEEDKLRAEDAKKEMANANLRLVVSIAKK 178 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y G G+P +++ EGNIGL++AV KFD ++G++ +TY+ WWI+ A+ I +++ Sbjct: 179 YPGRGMPFLDLIQEGNIGLLKAVDKFDYKKGYKFSTYATWWIRQAITRSIADQARTIRVP 238 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + N R + LQ E +AK++ +S ++ + A + ++ Sbjct: 239 VHMVETINKMN-RIGRKFLQEFGREASNEE----LAKEMGISVEKI--REAKKAAQDPIS 291 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 +K S D++ D + E+ RR + + ++ L RE+ + R Sbjct: 292 LETPIGEKEDSHLGDFI---EDQKTSSPEEEAAATMRREQIYKLLNELTEREKGVLALRF 348 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ P TLE + F V+RER+RQIE +A KK+ Sbjct: 349 GMDDGTPRTLEEVGKYFGVTRERIRQIEGKALKKL 383 >gi|294673146|ref|YP_003573762.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] gi|294474130|gb|ADE83519.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] Length = 290 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/292 (27%), Positives = 146/292 (50%), Gaps = 36/292 (12%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKI 64 SI E L++Y+ +I +IPM+ ++E LA+ R+ G A +LV ++LR VV + Sbjct: 9 SITTRTEESLNKYLTDISRIPMITPEQEVELAQTIRKGGRTGAKAKEKLVNANLRFVVSV 68 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y+ G+P+ +++SEGN+GL+ A KFD RGF+ +Y++WWI+ ++ + I +V Sbjct: 69 AKQYQHQGIPLIDLISEGNVGLITAADKFDETRGFKFISYAIWWIRQSILQAIADYSGMV 128 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI-------AKKLNVSESEVISMN 177 + +Q + ++ N E++ I +K SE+ V S++ Sbjct: 129 R--RPQSQIAISNKIKNATNAFMLKNQRNPSAEELSEIISLEIEKIEKAIQSEAHVASID 186 Query: 178 CRLAGDESL---NALINSSDKNSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRNMLTRS 231 ++ D++ +++ ++++ S + D+ D VL E+E R ++ +S Sbjct: 187 APISDDDTTTMADSIASTAEYASDRKVDYESMCSDVMLVLGAVLSERE-----RAIVVQS 241 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + P ER L+++ S +SRERVRQI R K+++S Sbjct: 242 FGIGCP-ER-------------GLDDIGSSMGLSRERVRQIRERGLDKIRKS 279 >gi|153952229|ref|YP_001397920.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. doylei 269.97] gi|152939675|gb|ABS44416.1| RNA polymerase sigma factor RpoD [Campylobacter jejuni subsp. doylei 269.97] Length = 622 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 81/250 (32%), Positives = 123/250 (49%), Gaps = 41/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 381 AKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T NQ N + ++ HLQ + K V IAK Sbjct: 441 IRQAISRAIADQARTIRIPIHMIETINQ----IN-KIIREHLQ----KDGKEPNVSVIAK 491 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 ++ +S +V IS+ + ++ D+NS D ++ D D +EQ+ Sbjct: 492 EVGLSIDKVKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRNSLSPIDHILKD-DLKEQI 550 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQ 271 + LN RE+ + R E+ TLE + E V+RERVRQ Sbjct: 551 --------------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQ 596 Query: 272 IEARAFKKVQ 281 IE+ A KK++ Sbjct: 597 IESSAIKKLK 606 >gi|87123382|ref|ZP_01079233.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86169102|gb|EAQ70358.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 293 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 85/288 (29%), Positives = 140/288 (48%), Gaps = 37/288 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLA--------------------KRYREHGDLSAAHRLVTSHL 58 Y+ I ++P+L EE LA +R++ A R++ ++L Sbjct: 9 YLSSIGRVPLLTAAEEIELAHHVQAMKQLLELPEAERTPRQRHQIRMGKRARDRMMAANL 68 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 69 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 128 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 S +++ ++K +RR+ H N L+ + I K ++IS Sbjct: 129 NSARTIRLPIHISEK--LSKMRRISRELSHRFGRQPNRLELAHAMGIEPK---DLEDLIS 183 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + A SL+A + S+ + L+ D +G E +E +R ++ L ++ L Sbjct: 184 QSAPCA---SLDAHARGEEDRSTLGE--LIPDPNGAEP--MEGMDRSIQKEHLGGWLAQL 236 Query: 236 NPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N RE++I R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 237 NDREQKILRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 284 >gi|329121328|ref|ZP_08249954.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] gi|327469737|gb|EGF15203.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] Length = 396 Score = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 77/275 (28%), Positives = 132/275 (48%), Gaps = 23/275 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-----------LVTSHLRLVVKIAMG 67 Y+ E P+L +EE LAK+ + L A + ++LRLVV IA Sbjct: 122 YLRECGATPLLSAEEEMTLAKQIEKGKMLDATEEDKLRAEDAKKEMANANLRLVVSIAKK 181 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y G G+P +++ EGNIGL++AV KFD ++G++ +TY+ WWI+ A+ I +++ Sbjct: 182 YPGRGMPFLDLIQEGNIGLLKAVDKFDYKKGYKFSTYATWWIRQAITRSIADQARTIRVP 241 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + N R + LQ E +AK++ +S ++ + A + ++ Sbjct: 242 VHMVETINKMN-RIGRKFLQEFGREASNEE----LAKEMGISVEKI--REAKKAAQDPIS 294 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 +K S D++ D + E+ RR + + ++ L RE+ + R Sbjct: 295 LETPIGEKEDSHLGDFI---EDQKTSSPEEEAAATMRREQIYKLLNELTEREKGVLALRF 351 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ P TLE + F V+RER+RQIE +A KK+ Sbjct: 352 GMDDGTPRTLEEVGKYFGVTRERIRQIEGKALKKL 386 >gi|189461487|ref|ZP_03010272.1| hypothetical protein BACCOP_02146 [Bacteroides coprocola DSM 17136] gi|198275894|ref|ZP_03208425.1| hypothetical protein BACPLE_02077 [Bacteroides plebeius DSM 17135] gi|189431821|gb|EDV00806.1| hypothetical protein BACCOP_02146 [Bacteroides coprocola DSM 17136] gi|198271523|gb|EDY95793.1| hypothetical protein BACPLE_02077 [Bacteroides plebeius DSM 17135] Length = 286 Score = 101 bits (251), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/274 (28%), Positives = 148/274 (54%), Gaps = 22/274 (8%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIRK-GDRIALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L + + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQ 249 NS D LV D ++ E R+ + R++S L RE+ I F Q Sbjct: 191 DNS--LLDVLVNDDSPMADRSLVNESLSRE-----IDRALSTLTEREKDIIQMFFGINTQ 243 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E +TLE + +F ++RERVRQI+ +A ++++++ Sbjct: 244 E--MTLEEIGDKFGLTRERVRQIKEKAIRRLRQN 275 >gi|171059243|ref|YP_001791592.1| RNA polymerase sigma-70 subunit RpoD [Leptothrix cholodnii SP-6] gi|170776688|gb|ACB34827.1| RNA polymerase, sigma 70 subunit, RpoD [Leptothrix cholodnii SP-6] Length = 754 Score = 101 bits (251), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 124/236 (52%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 515 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 574 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLN 167 I+ A+ I ++I + + RL + HLQ +P+ ++A+K+ Sbjct: 575 IRQAITRSIADQARTIRI--PVHMIETINKMNRLSRQHLQEF---GFEPD-APSLAEKME 628 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D IE + R++ Sbjct: 629 MPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNNTAPIEAAMQSGLRDV 683 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 684 VRDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKAIRKLK 739 >gi|158833963|gb|ABW81787.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 101 bits (251), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 91/149 (61%), Gaps = 6/149 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLGEIGYSPLLTAEEEIYFARRVL-CGDESSRRRMIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHI-VKELNVY 125 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 LR + L D++ PE+ IA++LN Sbjct: 126 LRAAR-ELSHKLDHDPSPEE---IAEQLN 150 >gi|303229406|ref|ZP_07316196.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-134-V-Col7a] gi|303230872|ref|ZP_07317619.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-049-V-Sch6] gi|302514632|gb|EFL56627.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-049-V-Sch6] gi|302515942|gb|EFL57894.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-134-V-Col7a] Length = 388 Score = 101 bits (251), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 85/303 (28%), Positives = 144/303 (47%), Gaps = 39/303 (12%) Query: 2 NRKNMSI------IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR--- 52 + KN+SI VN + + Y+ EI ++P+L EE VLAK+ + A ++ Sbjct: 88 SEKNISIDLSVDASVNIDDPVRMYLKEIGRVPLLSADEEIVLAKQIEAGAEEDATYKEIQ 147 Query: 53 --------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV KFD +G++ +TY Sbjct: 148 LSKKAKKKLVDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTY 207 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I ++I + L R+ L PE+ IA+ Sbjct: 208 ATWWIRQAITRAIADQARTIRI--PVHMVETINKLIRISRQLLQDKGREPTPEE---IAE 262 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL-----VYDHDGQEQVLIEKE 219 + ++ V + SL I ++ S D++ V D +L++++ Sbjct: 263 GMGITAERVREIQKIAQEPVSLETPIG--EEEDSHLGDFIEDQDAVAPDDAASYILLQEQ 320 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 + + L RE+++ R L++ P TLE + F V+RER+RQIE +A Sbjct: 321 --------IEDVFTCLTDREQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKAL 372 Query: 278 KKV 280 K+ Sbjct: 373 TKL 375 >gi|197247378|ref|YP_002147821.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197211081|gb|ACH48478.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Agona str. SL483] Length = 269 Score = 101 bits (251), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|160937287|ref|ZP_02084649.1| hypothetical protein CLOBOL_02177 [Clostridium bolteae ATCC BAA-613] gi|158439851|gb|EDP17600.1| hypothetical protein CLOBOL_02177 [Clostridium bolteae ATCC BAA-613] Length = 298 Score = 101 bits (251), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 81/269 (30%), Positives = 141/269 (52%), Gaps = 40/269 (14%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISEVVSEGNI 84 P+L K+EE LA +E D A ++++S+LRLV+ A Y Y L + +++ EGN+ Sbjct: 40 PLLTKEEEIELAYLIQEGSD-EARQKMISSNLRLVINQAKKYVTYTQSLTLLDLIQEGNL 98 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF--NLRRL 142 GL++AV+K++PE GFR +TY+ WWIK A I R+ S++ A + + F +++++ Sbjct: 99 GLIKAVEKYNPELGFRFSTYASWWIKQA----ITRAISVLD---KAIRLPVHFCEDIQKV 151 Query: 143 KGHLQAITDNN--LKPEQVVAIA-------KKLNVSESEVISMNCRLAGDESLNALINSS 193 K I N + PE++ I +K+ ++ + IS+ + + +L + + Sbjct: 152 KRATHEIMQQNDIVTPEKLKDITGFSEGKIEKILMNMNHTISLETPVGEEATLGDFVEDT 211 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QEN 251 S +EQ + +R+ ++R M L PRE+ I R +N Sbjct: 212 LTPSI------------EEQAMENAMQRE-----ISRQMECLRPREQTILALRFGLNGQN 254 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKV 280 P TLE + + V+RER+RQIE +A +K+ Sbjct: 255 PHTLEEVGKQMGVTRERIRQIEMKALRKL 283 >gi|332885662|gb|EGK05908.1| hypothetical protein HMPREF9456_02172 [Dysgonomonas mossii DSM 22836] Length = 286 Score = 101 bits (251), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 76/272 (27%), Positives = 149/272 (54%), Gaps = 18/272 (6%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+ + GD +A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQAIK-KGDRAALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 +L ++ N + +A++L++ + I+ + +++G S++A + Sbjct: 132 VGSLNKISKAFSKFEQENERKPSAEELAEQLDIP-VDKIADSLKVSGRHISMDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQEN 251 NS D LV D + K ++ + + R++S L RE I F QE Sbjct: 191 DNS--LLDVLVNDD---APIADRKLINESLQQEIERALSTLTERESEIIKMFFGIGYQE- 244 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +TLE + +F+++RERVRQI+ +A K+++++ Sbjct: 245 -MTLEEIGDKFQLTRERVRQIKEKAIKRLRQN 275 >gi|21220928|ref|NP_626707.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|289771799|ref|ZP_06531177.1| RNA polymerase principal sigma factor hrdA [Streptomyces lividans TK24] gi|19856645|sp|P18182|HRDA_STRCO RecName: Full=RNA polymerase principal sigma factor hrdA gi|6759560|emb|CAB69753.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|289701998|gb|EFD69427.1| RNA polymerase principal sigma factor hrdA [Streptomyces lividans TK24] Length = 396 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 86/294 (29%), Positives = 140/294 (47%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ EI +IP+L EE LA+R E G + A Sbjct: 103 YLREIGRIPLLSAAEEVDLARRV-EAGLFAEEKLRCSPGLDDRLALDLDRLVVLGRLAKR 161 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 162 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 221 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + P++V A L+++ Sbjct: 222 AMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGCEPTPQEVAA---HLDLA-P 275 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E + RLA + SL+A + D + D + DG +E R L Sbjct: 276 ERVGEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLRQHLEA 330 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 331 VLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRD 384 >gi|158833975|gb|ABW81793.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833979|gb|ABW81795.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 89/149 (59%), Gaps = 6/149 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLSEIGYSPLLTAAEEIYFARRVL-CGDESSRRRMIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY WWI+ ++ I+ +++ K L Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYDTWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 125 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 LR + L D++ PE+ IA++LN Sbjct: 126 LRAAR-ELSHKLDHDPSPEE---IAEQLN 150 >gi|256396128|ref|YP_003117692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora acidiphila DSM 44928] gi|256362354|gb|ACU75851.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora acidiphila DSM 44928] Length = 390 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 79/237 (33%), Positives = 126/237 (53%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A RL+ ++LRLVV IA Y G G+ I ++V EGN+GL++AV+KFD RG++ +TY+ W Sbjct: 152 AAKRRLIEANLRLVVSIAKRYLGRGMSILDLVQEGNLGLIRAVEKFDYTRGYKFSTYATW 211 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ AM + +++ + L + RL+ L + +N ++P IA+ L Sbjct: 212 WIRQAMSRALADQARTIRV--PVHVVELMNRVVRLQRRL--LQENGVEPTP-DDIAEVLG 266 Query: 168 VSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 V+ V+ + RLA + SL+A + D + D L+ D D + R Sbjct: 267 VAVERVVEV-LRLAQEPVSLHAPVGEEDDVA--LGD-LIEDADAVSPA--DSVAVVMLRE 320 Query: 227 MLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +S L RE+R+ + R P TLE + F V+RER+RQIEA+ K++ Sbjct: 321 HLDALLSTLGEREKRVVQLRYGLTDGQPHTLEEIGRTFGVTRERIRQIEAKTLAKLR 377 >gi|330826139|ref|YP_004389442.1| RNA polymerase sigma-710 subunit RpoD [Alicycliphilus denitrificans K601] gi|329311511|gb|AEB85926.1| RNA polymerase, sigma 70 subunit, RpoD [Alicycliphilus denitrificans K601] Length = 802 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 562 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 621 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A K+ Sbjct: 622 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-LAAKME 676 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D I+ + R++ Sbjct: 677 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSNNTAPIDAAMQAGLRDV 731 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 732 VKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 787 >gi|229496411|ref|ZP_04390127.1| RNA polymerase sigma-70 factor [Porphyromonas endodontalis ATCC 35406] gi|229316639|gb|EEN82556.1| RNA polymerase sigma-70 factor [Porphyromonas endodontalis ATCC 35406] Length = 287 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/274 (29%), Positives = 142/274 (51%), Gaps = 27/274 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + +++ EE LA+ R G+ A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREELIDVDEEVRLAQEIR-RGNRRAQDKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 +++ EGN+GL++A +KFD RGF+ +Y++WWI+ ++ Q I+R L ++G Sbjct: 77 PDLIDEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNQVGAQ 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 A ++K ++ N + + +A L+ SE +V + S++A Sbjct: 136 A----------KIKKAIEQFEQENERRPSIAELAIILDQSEEKVAVTLKSFSKHVSIDAP 185 Query: 190 INSSDKNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RR 247 + NS D LV D ++ L+ R + + R +S L+ RE I + Sbjct: 186 FVDGEDNS--LLDVLVNEDAPSTDRSLM----RDSLNTEIDRVLSTLSEREAEIIKLFFG 239 Query: 248 LQENP-VTLENLSSEFEVSRERVRQIEARAFKKV 280 + NP +TLE + +F ++RERVRQI+ +A +K+ Sbjct: 240 IGPNPEMTLEEIGDKFGLTRERVRQIKEKAIRKL 273 >gi|213417289|ref|ZP_03350433.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 277 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|302392313|ref|YP_003828133.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] gi|302204390|gb|ADL13068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] Length = 275 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 148/272 (54%), Gaps = 20/272 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +++Y +I +L K+EE LA++ + GD A +L+ +LRLVV IA ++G GL + Sbjct: 5 INQYYQDISH-DLLTKEEEISLARKA-QAGDSEAKDKLIRHNLRLVVSIANKHQGKGLDL 62 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK-- 133 ++V EGNIGL+ AV+KFDP++G+R +TY+ WWIK + I ++I QK Sbjct: 63 QDLVQEGNIGLITAVEKFDPDKGYRFSTYASWWIKQRVTRAIANQGKTIRIPVHVWQKTN 122 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL--IN 191 ++F ++K LQ E+ IA++ ++S E I R+ D++L +L Sbjct: 123 KIF----KVKDDLQTELGREPTAEE---IAEETDIS-LEKIKEVMRVITDQNLASLNQFV 174 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE 250 D+++ Q LV G +E ++ + L ++ L+ RE + R L++ Sbjct: 175 GDDRDTELGQ--LV--PSGSADDPVEGTSQQLLKEDLEELLTELSDREAEVIRLRFGLRD 230 Query: 251 N-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + P TL+ + E V+RER+RQI+ +A +++ Sbjct: 231 SRPRTLKEVGEELGVTRERIRQIQLKALNRLK 262 >gi|168009564|ref|XP_001757475.1| predicted protein [Physcomitrella patens subsp. patens] gi|162691169|gb|EDQ77532.1| predicted protein [Physcomitrella patens subsp. patens] Length = 591 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 131/245 (53%), Gaps = 36/245 (14%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++V S+LRLVV I Y+G G+ + +++ EG++GL++ +KFDP++GF+ +TY+ WWI+ Sbjct: 353 KMVNSNLRLVVSIVKNYQGRGMTLPDLIQEGSMGLIRGAEKFDPDKGFKFSTYAHWWIRQ 412 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKP--EQVVAIAK---- 164 A+ I ++++ L+ + R+ K I ++ +P E+V + Sbjct: 413 AVTRAIADQSRIIRLPI-----HLYEVISRINKAKKMLIQEHGRQPRDEEVAELVGMSVE 467 Query: 165 --KLNVSESEVISMNCRLAG---DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 K V ++ S RL G D+S+ +I +DK+ +D L+ QVL Sbjct: 468 KLKFIVKSAKTPSSMDRLIGKEKDQSIGEMI--ADKDVESPEDDLI------RQVL---- 515 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + + LNPRER + R ++ TLE + + F+V+RER+RQIEA+A Sbjct: 516 -----KQDVDGVLCTLNPREREVLRLRFGLDDGQSRTLEEIGTLFKVTRERIRQIEAKAM 570 Query: 278 KKVQE 282 +K+++ Sbjct: 571 RKLRQ 575 >gi|149916815|ref|ZP_01905317.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149822532|gb|EDM81921.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 421 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 131/264 (49%), Gaps = 22/264 (8%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 YV R H + ++ V ++LRLVV IA + +P+ ++V EGN+GLM+AV +FD Sbjct: 166 YVQKVRSSGHALRWSKNKFVKANLRLVVTIARRFDHGLMPLQDLVQEGNLGLMKAVDRFD 225 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDN 152 P RG+R +TY+ WWI+ A+ + V++ +A+ +R LRR+ L+A T Sbjct: 226 PTRGYRFSTYATWWIRHAINRALANKGRTVRLPAHVSADLQR----LRRVTRELEAKTGE 281 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PEQ +A+ +S++ V ++ +L D +++ S D ++ D L D Sbjct: 282 TPTPEQ---LAQAAGLSKTRVRKLS-KLTLDPTVSLDAPSHDDDARGLLDRL---EDASV 334 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIF---------EARRLQENPVTLENLSSEFE 263 V + E + L ++ L P E I EA + P+TL L Sbjct: 335 PVAADILEHQALNEHLRDALYNLQPIELDILKRRYGIATSEAESVDFEPMTLRQLGERHS 394 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +SRER+RQ++ RA K++ ++ Sbjct: 395 LSRERIRQLQERALTKLRREFARR 418 >gi|145589878|ref|YP_001156475.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145048284|gb|ABP34911.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 678 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 117/250 (46%), Gaps = 27/250 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR RE A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG Sbjct: 434 KRARE-----AKREMTVANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 488 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKGHLQAITDNN 153 ++ +TY+ WWI+ A+ I ++I T R+ + + GH Sbjct: 489 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGHEPDAATLA 548 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 LK E +K+ E ISM + DE S D++ DG Sbjct: 549 LKMEIPEDKIRKIMKIAKEPISMETPIGDDE------------DSHLGDFI---EDGNTL 593 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQ 271 E + R+++ + L PRE ++ R E TLE + +F+V+RER+RQ Sbjct: 594 APAEAALHDSMRDVVKDVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIRQ 653 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 654 IEAKALRKMR 663 >gi|72382695|ref|YP_292050.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus str. NATL2A] gi|124026414|ref|YP_001015529.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|72002545|gb|AAZ58347.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus str. NATL2A] gi|123961482|gb|ABM76265.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL1A] Length = 313 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 86/298 (28%), Positives = 150/298 (50%), Gaps = 36/298 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLSAAHRLVTSH------------ 57 +S Y+ I ++P+L EE L + + E G + + TSH Sbjct: 20 ISWYLSSIGRVPLLTPAEEIELGNQVQTLMSLTEDGQIKEQSKEFTSHQRRLIRIGRRAK 79 Query: 58 -------LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ +R++ L P + + IA+ + + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LATIRKVS--LDLAHKLGAMPSR-IEIAEAMEIEL 194 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S+ + SL+A +N D+ S D L+ D G+E ++K E+K + L R Sbjct: 195 EELDSILRQALTTSSLDAPVN-GDEGRSFLGD-LIADGSGEEP--LDKVEQKIHQEQLGR 250 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +S L+ +E+ + R L+ N TL + +VSRERVRQ+E +A +K++ +K Sbjct: 251 WLSHLSEQEQHVIRLRFGLEGNERHTLAEIGRLLQVSRERVRQVELKALRKLRNLTRK 308 >gi|156744261|ref|YP_001434390.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156235589|gb|ABU60372.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 399 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 138/299 (46%), Gaps = 56/299 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-------------------------- 52 Y+ EI ++P+L ++E +LAK + A HR Sbjct: 106 YLQEIGQVPLLSAEQEVMLAKA------MEAGHRARRALECEEYSSWQERMMYEQQVAQG 159 Query: 53 ------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L+ ++LRLVV IA Y YGL + ++V EGNIGLM+AV+KFD +G + +TY+ Sbjct: 160 NEARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYAT 219 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I +++ + ++R LQ + PE+ IA + Sbjct: 220 WWIRQAITRAIADQSRTIRLPVHMGEA--ISQVKRASHKLQQMMQREPTPEE---IADAM 274 Query: 167 NVSESEVISMNCRLAGDESLNAL---INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +S ++V R + S++ L + + + D++ D + E Sbjct: 275 GISSTKV-----RRTLEASMHPLSLEMPVGQEGEGRMGDFI---EDDRISTPAEAAAASM 326 Query: 224 RRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 R L + L RER+I + R L++ TLE + EF ++RER+RQIEA A +K+ Sbjct: 327 LREQLEEVLQKLPERERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKL 385 >gi|302560773|ref|ZP_07313115.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] gi|302478391|gb|EFL41484.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] Length = 404 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 89/306 (29%), Positives = 142/306 (46%), Gaps = 64/306 (20%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKR----------YREHGDLS----------------AAH 51 +Y+ EI +IP+L EE LA+R R DL A Sbjct: 110 QYLREIGRIPLLTAAEEVELARRVEAGLFAEEKLRLTPDLDSGLALDLDRLVVMGRMAKR 169 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 170 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 229 Query: 112 AMQEYILRSWSLVKIGTTANQ--KRLFFNLRRL---------KGHLQAITDNNLKPEQVV 160 AM + +++ + R+ RR+ G + A D L PE+V Sbjct: 230 AMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPGEVAAHLD--LPPERV- 286 Query: 161 AIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + L +++ E +S++ + D +L LI D S +E Sbjct: 287 --GEVLRLAQ-EPVSLHAPVGEEDDVALGDLIEDGDAASP-----------------VES 326 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 R L +S L RER++ + R + P TLE + F V+RER+RQIE++ Sbjct: 327 AAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESKT 386 Query: 277 FKKVQE 282 K+++ Sbjct: 387 LNKLRD 392 >gi|255020521|ref|ZP_05292585.1| RNA polymerase sigma factor RpoS [Acidithiobacillus caldus ATCC 51756] gi|254970041|gb|EET27539.1| RNA polymerase sigma factor RpoS [Acidithiobacillus caldus ATCC 51756] Length = 316 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/272 (27%), Positives = 141/272 (51%), Gaps = 15/272 (5%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + R + GD+ A R++ +LRLVV++A Y G+P+ ++ Sbjct: 48 YLQEIGHNPLLTAEEE-IYYGRLVQQGDVRARTRMIECNLRLVVRVARRYLHRGMPLLDL 106 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 107 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQNIERALMNQTRTIRLPVHV-MKELAVV 165 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 LR + Q + + V +A L+ +V C L D + +L NS ++ Sbjct: 166 LRAARCLEQELR----REPSVDEVAAALDRPVDQV--RGC-LEMDGRVTSLDNSGQRDQG 218 Query: 199 QWQDWLVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTL 255 + + ++ D + Q + ++ + R L ++ L+ + R + R + + TL Sbjct: 219 RDLNEVLSDAEAQGPEAMVAAQNLAVR---LQSWLAGLSEKHRLVLSWRFGLDGGDGATL 275 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E + + ++RERVRQI+ A ++ I+ + Sbjct: 276 EEVGTRLGITRERVRQIQVEALLILRRRIEAE 307 >gi|332707223|ref|ZP_08427276.1| RNA polymerase sigma factor RpoD-like protein [Lyngbya majuscula 3L] gi|332353957|gb|EGJ33444.1| RNA polymerase sigma factor RpoD-like protein [Lyngbya majuscula 3L] Length = 373 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 132/248 (53%), Gaps = 17/248 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A RYR H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+ Sbjct: 126 AFRYRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEK 185 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP 156 G++ +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP Sbjct: 186 GYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKP 240 Query: 157 -EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E+ +A ++ + + I+ + +L SL I + S+ D++ D + E + Sbjct: 241 TEEEIADRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDQV 296 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 + R++ L + L+PRER + R ++ TLE + F V+RER+RQIE Sbjct: 297 SKNLLRED----LESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIE 352 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 353 AKALRKLR 360 >gi|162447798|ref|YP_001620930.1| DNA-directed RNA polymerase subunit D [Acholeplasma laidlawii PG-8A] gi|161985905|gb|ABX81554.1| DNA-directed RNA polymerase subunit D [Acholeplasma laidlawii PG-8A] Length = 419 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 84/256 (32%), Positives = 129/256 (50%), Gaps = 37/256 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++ RLVV IA Y GL +++ EGN+GLM+AV KFD E+GF+ +TY+ WW Sbjct: 179 AKEKLVEANYRLVVSIAKKYTQRGLLFLDLIQEGNMGLMRAVDKFDYEKGFKFSTYATWW 238 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDN-NLKPEQ 158 I+ A+ + ++I T N Q++L L R ++ I + ++ PE+ Sbjct: 239 IRQAITRAVADQARTIRIPVHMVETINKMIRIQRQLVQELGR-DATIEEIAEKMDITPEK 297 Query: 159 VVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 V I + E IS+ + D SL I SD N+ D+++ QE V Sbjct: 298 VQNIQR----IAKEPISLEAPVGEEEDSSLGDFI--SDPNALNPHDYMM-----QEMV-- 344 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + L + L RE ++ R L TLE + EF V+RER+RQIEA Sbjct: 345 --------KKTLDEVLETLTDREEKVLRLRYGLLDGKTHTLEEVGREFGVTRERIRQIEA 396 Query: 275 RAFKKVQESIQKQVEL 290 +A +K++ S Q+Q +L Sbjct: 397 KALRKLR-SPQRQNKL 411 >gi|312195623|ref|YP_004015684.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311226959|gb|ADP79814.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 418 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 88/309 (28%), Positives = 145/309 (46%), Gaps = 60/309 (19%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREH--------------GDLS------------AAH 51 +Y+ +I ++ +L +EE LAKR GDL A Sbjct: 124 QYLSQIGRVRLLTAEEEVDLAKRVEAGLFAAEKLAAENGLVGDLRRELVWVERDGEIAKS 183 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 184 RLVEANLRLVVSIARRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 243 Query: 112 AMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ I ++I T N Q++L +L R + + +L P++V I Sbjct: 244 AITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIAKEMDLTPDKVREI 303 Query: 163 AKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS+ + +E L I SD V D +L++++ Sbjct: 304 QKVAQ----EPISLETPIGEEEDSHLGDFIEDSDA---------VVPVDAASFLLLQEQ- 349 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE+++ + R +P TLE + EF V+RER+RQIE++ Sbjct: 350 -------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLS 402 Query: 279 KVQESIQKQ 287 K++ + Q Sbjct: 403 KLRHPSRSQ 411 >gi|296107953|ref|YP_003619654.1| RNA polymerase primary sigma factor [Legionella pneumophila 2300/99 Alcoy] gi|295649855|gb|ADG25702.1| RNA polymerase primary sigma factor [Legionella pneumophila 2300/99 Alcoy] Length = 621 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 494 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 495 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 549 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 550 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 604 >gi|157414303|ref|YP_001485169.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157388878|gb|ABV51583.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9215] Length = 339 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/278 (28%), Positives = 146/278 (52%), Gaps = 26/278 (9%) Query: 13 EIGLSRYIHEIRK---IPMLEKQEEYV----LAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 EI L+ ++ ++K IP E+ + + + KR R+ R++ ++LRLVV +A Sbjct: 70 EIELAHHVQNMKKLLQIPETERTQRNLYQIKIGKRARD--------RMMAANLRLVVSVA 121 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S ++ Sbjct: 122 KKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIR 181 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + ++K +RR+ L + + + +A ++ + + ++ + + A S Sbjct: 182 LPIHISEK--LSKMRRVSREL---SHKFGRQPTRLEMATEMGIDQKDLEDLISQSAPCAS 236 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+A + S+ + L+ D + +E +E +R ++ L +S LN RE++I + Sbjct: 237 LDAHARGEEDRSTLGE--LIPDPNCEEP--MEGMDRTIQKEHLGTWLSQLNEREQKIMKL 292 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 293 RFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|254526617|ref|ZP_05138669.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] gi|221538041|gb|EEE40494.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] Length = 339 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/278 (28%), Positives = 146/278 (52%), Gaps = 26/278 (9%) Query: 13 EIGLSRYIHEIRK---IPMLEKQEEYV----LAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 EI L+ ++ ++K IP E+ + + + KR R+ R++ ++LRLVV +A Sbjct: 70 EIELAHHVQNMKKLLQIPETERTQRNLYQIKIGKRARD--------RMMAANLRLVVSVA 121 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S ++ Sbjct: 122 KKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIR 181 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 + ++K +RR+ L + + + +A ++ + + ++ + + A S Sbjct: 182 LPIHISEK--LSKMRRVSREL---SHKFGRQPTRLEMATEMGIDQKDLEDLISQSAPCAS 236 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L+A + S+ + L+ D + +E +E +R ++ L +S LN RE++I + Sbjct: 237 LDAHARGEEDRSTLGE--LIPDPNCEEP--MEGMDRTIQKEHLGTWLSQLNEREQKIMKL 292 Query: 246 R--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 293 RFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|319762043|ref|YP_004125980.1| RNA polymerase sigma factor rpod [Alicycliphilus denitrificans BC] gi|317116604|gb|ADU99092.1| RNA polymerase sigma factor RpoD [Alicycliphilus denitrificans BC] Length = 802 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 562 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 621 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A K+ Sbjct: 622 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-LAAKME 676 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D I+ + R++ Sbjct: 677 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSNNTAPIDAAMQAGLRDV 731 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 732 VKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 787 >gi|158334991|ref|YP_001516163.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158305232|gb|ABW26849.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 371 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 132/246 (53%), Gaps = 17/246 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R+R H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G+ Sbjct: 126 RHRLHAGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGY 185 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-E 157 + +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP E Sbjct: 186 KFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTE 240 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +A ++ + + I+ + +L SL I + S+ D++ D + E + + Sbjct: 241 EEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSK 296 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEAR 275 R++ L + L+PRER + + R ++ TLE + F V+RER+RQIEA+ Sbjct: 297 SLLRED----LETVLDTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAK 352 Query: 276 AFKKVQ 281 A +K++ Sbjct: 353 ALRKLR 358 >gi|330040254|ref|XP_003239821.1| RNA-polymerase sigma factor [Cryptomonas paramecium] gi|327206746|gb|AEA38923.1| RNA-polymerase sigma factor [Cryptomonas paramecium] Length = 414 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 128/236 (54%), Gaps = 12/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV IA Y G+ + ++V EG++GL++A +KFD E+GF+ +TY+ WW Sbjct: 159 AKERMIAANLRLVVSIAKRYSNRGMSLQDLVQEGSLGLIRATEKFDSEKGFKFSTYATWW 218 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK ++ I +++ L+ L +K + +T + IA K++V Sbjct: 219 IKQSVSRAIADHSRTIRLPV-----HLYDTLSAIKKTTRILTIELGRSPTEEEIACKMDV 273 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + ++ S+ SL I +D +++Q D++ D + + E E+ R+ L Sbjct: 274 TVDKLRSVLQSAQPTLSLEKPIK-NDGDTAQLSDFIEADQESPD----EHVEKSMLRDDL 328 Query: 229 TRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ L+ RER + R L + + TLE + F V+RERVRQIEA+A +K+++ Sbjct: 329 RDVINSLSLRERDVIRMRYGLDDGKIRTLEEIGQIFSVTRERVRQIEAKAIRKLRQ 384 >gi|256787912|ref|ZP_05526343.1| RNA polymerase principal sigma factor [Streptomyces lividans TK24] Length = 365 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 86/294 (29%), Positives = 140/294 (47%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ EI +IP+L EE LA+R E G + A Sbjct: 72 YLREIGRIPLLSAAEEVDLARRV-EAGLFAEEKLRCSPGLDDRLALDLDRLVVLGRLAKR 130 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 131 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 190 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + P++V A L+++ Sbjct: 191 AMSRALADQARTIRV--PVHVVELINRVVRVQRRMLQERGCEPTPQEVAA---HLDLA-P 244 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E + RLA + SL+A + D + D + DG +E R L Sbjct: 245 ERVGEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLRQHLEA 299 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 300 VLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRD 353 >gi|254416308|ref|ZP_05030062.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196176990|gb|EDX72000.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 416 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 124/238 (52%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ Sbjct: 175 LQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAY 234 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + I+ + + IAK+L Sbjct: 235 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQEQGRTATIEDIAKEL 289 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + +V + R+ SL I + ++ D L + E VL+ + +++ + Sbjct: 290 EMDAPQVREVLMRVPRSVSLE--IKVGKEKDTELGDLLETEETSPEDVLMREALQRDLQQ 347 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L RER + R +P +L + E+SRERVRQIEA+A +K+++ Sbjct: 348 LL----ADLTSRERDVICMRFGLGDGHPYSLAEIGRALELSRERVRQIEAKALQKLRQ 401 >gi|157737257|ref|YP_001489940.1| RNA polymerase sigma factor RpoD [Arcobacter butzleri RM4018] gi|157699111|gb|ABV67271.1| RNA polymerase sigma 70 factor [Arcobacter butzleri RM4018] Length = 626 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 128/246 (52%), Gaps = 14/246 (5%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR ++ D S R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G Sbjct: 378 KRGKQITDTSKT-RMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKG 436 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + + R+ ++ N K Sbjct: 437 YKFSTYATWWIRQAISRAIADQARTIRIPI-----HMIETINRINKIIRKGVQENGKEPD 491 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + IAK++ + +V + SL A I S + ++ D++ D + I+ Sbjct: 492 IEEIAKEVGLPVDKVKQVIKITKEPVSLEAPIGSDE--DGKFGDFV---PDEKAPTPIDN 546 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV--TLENLSSEFEVSRERVRQIEAR 275 +++ + + + +S LN RE+ + R L E+ TLE + E V+RERVRQIE+ Sbjct: 547 IMKEDLQGQIDQILSQLNEREQAVIRMRFGLMEDASDRTLEEIGKELNVTRERVRQIESS 606 Query: 276 AFKKVQ 281 A KK++ Sbjct: 607 AIKKLK 612 >gi|312964996|ref|ZP_07779236.1| RNA polymerase sigma factor RpoS [Escherichia coli 2362-75] gi|312290552|gb|EFR18432.1| RNA polymerase sigma factor RpoS [Escherichia coli 2362-75] Length = 237 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 121/243 (49%), Gaps = 24/243 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYILRSWSLVKIGT-TANQKRLFFNLRRLKGH-------LQAITDNNLKPEQVVAIAK 164 ++ I+ +++ + ++ R H + I + KP V+ Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +LN + S++ L GD L +D+ + +D D Q V E + Sbjct: 121 RLN---ERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQ 177 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R +L R +L +EA TLE++ E ++RERVRQI+ ++++E + Sbjct: 178 REVLARRFGLLG------YEA-------ATLEDVGREIGLTRERVRQIQVEGLRRLREIL 224 Query: 285 QKQ 287 Q Q Sbjct: 225 QTQ 227 >gi|52842571|ref|YP_096370.1| RNA polymerase sigma 70 factor (RpoD) [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52629682|gb|AAU28423.1| RNA polymerase sigma 70 factor (RpoD) [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 623 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 496 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 497 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 551 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 552 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 606 >gi|159039487|ref|YP_001538740.1| RpoD family RNA polymerase sigma factor [Salinispora arenicola CNS-205] gi|157918322|gb|ABV99749.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora arenicola CNS-205] Length = 329 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 89/307 (28%), Positives = 148/307 (48%), Gaps = 68/307 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------GDLSAAHRLVT-------- 55 Y+HEI + P+L+ E L+K Y EH + + RLV Sbjct: 38 YLHEISRTPLLDAATEVDLSKAIEAGLYAEHLLDEDRVPAGVERAELQRLVAEGERAKDL 97 Query: 56 ---SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++LRLVV IA Y G+P+ +++ EGN GL++AV+KFD ERGF+ +TY+ WWI+ A Sbjct: 98 FIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGFKFSTYATWWIRQA 157 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVAIAKKLNVS 169 + I + V++ L ++ R++ + +T ++ +PEQ IA L VS Sbjct: 158 ISRAIAQQERTVRLPV-----HLVEDVNRMRNVARQLTRELGSDPEPEQ---IATALGVS 209 Query: 170 ----------ESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +S++ + GD +L L+ SD S E++++ Sbjct: 210 VERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSP-------------EEIVLT 256 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEAR 275 ER+ +L S L+ R I AR E+ +L ++S F +SRER+RQ+E + Sbjct: 257 GLERQRIEGLL----SHLDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQ 312 Query: 276 AFKKVQE 282 A +++E Sbjct: 313 ALGRLRE 319 >gi|77163721|ref|YP_342246.1| RpoS [Nitrosococcus oceani ATCC 19707] gi|254436220|ref|ZP_05049727.1| RNA polymerase sigma factor RpoS [Nitrosococcus oceani AFC27] gi|76882035|gb|ABA56716.1| RNA polymerase, sigma 38 subunit, RpoS [Nitrosococcus oceani ATCC 19707] gi|207089331|gb|EDZ66603.1| RNA polymerase sigma factor RpoS [Nitrosococcus oceani AFC27] Length = 321 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/273 (29%), Positives = 146/273 (53%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE V R + G+ + R++ S+LRLVVKI+ Y GL + ++ Sbjct: 53 YLSEIGCAPLLTAEEE-VYHARLAKKGNPAGRKRMIESNLRLVVKISRRYMNRGLALLDL 111 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL+ AV+KFDPE GFR +TY+ WWI+ ++ ++ V++ ++ + Sbjct: 112 IEEGNLGLIHAVEKFDPEMGFRFSTYATWWIRQTIERALMNQTRTVRLPVHVVKE--IKS 169 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +R+ L +++ E+ +A++LN E+ R+ + A +++ +N+ Sbjct: 170 YQRVANKLAQELEHDPSFEE---LAQQLNKPVEEI----KRVWSLKDNTASMDTGYRNNQ 222 Query: 199 QWQ--DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE-NPVT 254 + D L + VL++ ++ ++R L +S LN ++R + R LQ P T Sbjct: 223 EKTLLDALPDEDAPDPTVLLQNDDMQSR---LKLWLSQLNDKQREVVIRRFGLQGYEPQT 279 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE + V+RERVRQI+ K+++ + K+ Sbjct: 280 LEQVGQAIGVTRERVRQIQLETLKRLRRILTKE 312 >gi|158833993|gb|ABW81802.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 90/149 (60%), Gaps = 6/149 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLGEIGYSPLLTAAEEIYFARRVL-CGDESSRRRMIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 125 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 LR + L D++ PE+ IA++LN Sbjct: 126 LRAAR-ELSHKLDHDPSPEE---IAEQLN 150 >gi|54295203|ref|YP_127618.1| RNA polymerase sigma factor rpoD (sigma-70) [Legionella pneumophila str. Lens] gi|53755035|emb|CAH16523.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella pneumophila str. Lens] Length = 621 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 494 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 495 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 549 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 550 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 604 >gi|270158971|ref|ZP_06187627.1| RNA polymerase sigma factor RpoD [Legionella longbeachae D-4968] gi|289166186|ref|YP_003456324.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella longbeachae NSW150] gi|269987310|gb|EEZ93565.1| RNA polymerase sigma factor RpoD [Legionella longbeachae D-4968] gi|288859359|emb|CBJ13295.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella longbeachae NSW150] Length = 622 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 495 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 496 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 550 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 551 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 605 >gi|148359903|ref|YP_001251110.1| RNA polymerase sigma 70 factor RpoD [Legionella pneumophila str. Corby] gi|148281676|gb|ABQ55764.1| RNA polymerase sigma 70 factor (RpoD) [Legionella pneumophila str. Corby] Length = 619 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 492 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 493 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 547 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 548 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 602 >gi|254497834|ref|ZP_05110600.1| RNA polymerase sigma 70 factor (RpoD) [Legionella drancourtii LLAP12] gi|254352912|gb|EET11681.1| RNA polymerase sigma 70 factor (RpoD) [Legionella drancourtii LLAP12] Length = 628 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 501 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 502 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 556 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 557 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 611 >gi|158833967|gb|ABW81789.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833969|gb|ABW81790.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833971|gb|ABW81791.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833973|gb|ABW81792.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833977|gb|ABW81794.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833987|gb|ABW81799.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 89/149 (59%), Gaps = 6/149 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLSEIGYSPLLTAAEEIYFARRVL-CGDESSRRRVIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY WWI+ ++ I+ +++ K L Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYDTWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 125 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 LR + L D++ PE+ IA++LN Sbjct: 126 LRAAR-ELSHKLDHDPSPEE---IAEQLN 150 >gi|88807657|ref|ZP_01123169.1| RNA polymerase sigma factor [Synechococcus sp. WH 7805] gi|88788871|gb|EAR20026.1| RNA polymerase sigma factor [Synechococcus sp. WH 7805] Length = 447 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 75/275 (27%), Positives = 148/275 (53%), Gaps = 25/275 (9%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 NG++ ++ + ++P++ + +L +R +E ++V S+LRLVV IA Y Sbjct: 181 NGKLPDTKEWAALVEMPVIRFRRRLMLGRRAKE--------KMVQSNLRLVVSIAKKYMN 232 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 233 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-- 290 Query: 131 NQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 L+ + R+K + ++ KP E+ +A + ++ + + I+ + +L SL Sbjct: 291 ---HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPI--SLET 345 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 I + S+ D++ D + EQ + + R++ +L + L+PRER + R Sbjct: 346 PIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEGVL----ATLSPRERDVLRLRYG 399 Query: 249 QENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 400 LDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 434 >gi|158833951|gb|ABW81781.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833953|gb|ABW81782.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833955|gb|ABW81783.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833957|gb|ABW81784.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833961|gb|ABW81786.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833965|gb|ABW81788.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833981|gb|ABW81796.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833983|gb|ABW81797.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833985|gb|ABW81798.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833989|gb|ABW81800.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 90/149 (60%), Gaps = 6/149 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLGEIGYSPLLTAAEEIYFARRVL-CGDESSRRRMIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 125 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 LR + L D++ PE+ IA++LN Sbjct: 126 LRAAR-ELSHKLDHDPSPEE---IAEQLN 150 >gi|54298252|ref|YP_124621.1| RNA polymerase sigma factor rpoD (sigma-70) [Legionella pneumophila str. Paris] gi|53752037|emb|CAH13463.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella pneumophila str. Paris] Length = 621 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 494 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 495 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 549 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 550 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 604 >gi|315636974|ref|ZP_07892198.1| DNA-directed RNA polymerase sigma subunit RpoD [Arcobacter butzleri JV22] gi|315478804|gb|EFU69513.1| DNA-directed RNA polymerase sigma subunit RpoD [Arcobacter butzleri JV22] Length = 626 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 128/246 (52%), Gaps = 14/246 (5%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR ++ D S R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G Sbjct: 378 KRGKQITDTSKT-RMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKG 436 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + + R+ ++ N K Sbjct: 437 YKFSTYATWWIRQAISRAIADQARTIRIPI-----HMIETINRINKIIRKGVQENGKEPD 491 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + IAK++ + +V + SL A I S + ++ D++ D + I+ Sbjct: 492 IEEIAKEVGLPVDKVKQVIKITKEPVSLEAPIGSDE--DGKFGDFV---PDEKAPTPIDN 546 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV--TLENLSSEFEVSRERVRQIEAR 275 +++ + + + +S LN RE+ + R L E+ TLE + E V+RERVRQIE+ Sbjct: 547 IMKEDLQGQIDQILSQLNEREQAVIRMRFGLMEDASDRTLEEIGKELNVTRERVRQIESS 606 Query: 276 AFKKVQ 281 A KK++ Sbjct: 607 AIKKLK 612 >gi|1575485|gb|AAB09543.1| LprpoD [Legionella pneumophila] Length = 620 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 493 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 494 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 548 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 549 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 603 >gi|318041167|ref|ZP_07973123.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0101] Length = 464 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/260 (28%), Positives = 141/260 (54%), Gaps = 25/260 (9%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+++ + +L +R +E ++V S+LRLVV IA Y GL +++ EG++G Sbjct: 213 MPLIKFRRRLMLGRRAKE--------KMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 264 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ + R+K Sbjct: 265 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKT 319 Query: 146 LQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 + ++ KP E+ +A + ++ + + I+ + +L SL I + S+ D+ Sbjct: 320 TKTLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDF 375 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSE 261 + D + EQ + + R++ +L + L+PRER + R ++ TLE + Sbjct: 376 IEADIENPEQDVAKNLLREDLEGVL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQI 431 Query: 262 FEVSRERVRQIEARAFKKVQ 281 F+V+RER+RQIEA+A +K++ Sbjct: 432 FDVTRERIRQIEAKALRKLR 451 >gi|296127362|ref|YP_003634614.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] gi|296019178|gb|ADG72415.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] Length = 309 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 123/246 (50%), Gaps = 34/246 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 S H+LV S+LRLV+ IA Y G+P +++ EGNIGL++AVK+F+ ++GF+ +TY +W Sbjct: 70 SIQHKLVKSNLRLVISIAKRYYNSGVPFIDIIDEGNIGLIEAVKRFEYKKGFKFSTYGVW 129 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------ 161 WIK ++ + I + KR ++ R H+ + +++ +V+ Sbjct: 130 WIKQSIVKEI-------------SSKR---HIIRFPMHIARLIKKSIQTSKVLTQKLGRE 173 Query: 162 -----IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 IAK++ + + + S+++ +SD N D D Sbjct: 174 PTTDEIAKEMKIDRKTLSYIMIFTQDTASVDSFFKNSDNN-----DMTSIIEDKNFPSPH 228 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 +K + R+ LT ++ L+ +ER + +R + TLE+ E ++RERVRQI+ Sbjct: 229 QKAFMDSLRDTLTEALKCLDEKERTVIISRFGLYGKEAKTLEDTGKELNITRERVRQIQI 288 Query: 275 RAFKKV 280 +A KK+ Sbjct: 289 KAIKKL 294 >gi|158833991|gb|ABW81801.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 90/149 (60%), Gaps = 6/149 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLGEICYSPLLTAAEEIYFARRVL-CGDGSSRRRMIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 125 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 LR + L D++ PE+ IA++LN Sbjct: 126 LRAAR-ELSHKLDHDPSPEE---IAEQLN 150 >gi|158833949|gb|ABW81780.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/149 (39%), Positives = 90/149 (60%), Gaps = 6/149 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLGEIGYSPLLTAAEEIYFARRVL-CGDESSRRRMIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 125 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 LR + L D++ PE+ IA++LN Sbjct: 126 LRAAR-ELSHKLDHDPSPEE---IAEQLN 150 >gi|133468|sp|P27785|RPOD_STRAU RecName: Full=RNA polymerase sigma factor rpoD Length = 317 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 88/294 (29%), Positives = 141/294 (47%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AAH 51 Y+ EI +IP+L EE LA+R E G DL A Sbjct: 24 YLREIGRIPLLTAAEEVDLARRV-EAGLFAEEKLGGAADLDSQLAVDLDRLVVMGRMAKR 82 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ S+LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 83 RLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 142 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + N R ++ + + + +P +A L ++ Sbjct: 143 AMSRALADQARTIRVPVHVVE---LIN-RVVRVQRRMLQERGYEP-TAEEVAVHLELTPE 197 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V+ + RLA + SL+A + D + D + DG +E R L Sbjct: 198 RVLEV-LRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFFLRCEHLEA 251 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 252 VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 305 >gi|307611207|emb|CBX00855.1| RNA polymerase sigma factor rpoD [Legionella pneumophila 130b] Length = 619 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+K+ + Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGREATPEE---LAEKMEL 492 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D + S D++ D + I+ + R Sbjct: 493 SEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDNNIESPIDMATAEGLREAT 547 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 548 LEILETLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 602 >gi|302534283|ref|ZP_07286625.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] gi|302443178|gb|EFL14994.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] Length = 361 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 88/295 (29%), Positives = 142/295 (48%), Gaps = 42/295 (14%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AA 50 +Y+ EI +IP+L EE LA+R E G DL A Sbjct: 67 QYLREIGRIPLLTAAEEVELARRV-EAGLFAEEKLAGATDLDSQLAVDLDKLVVMGRMAK 125 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ S+LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 126 RRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 185 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + N R ++ + + + +P +A L ++ Sbjct: 186 QAMSRALADQARTIRVPVHVVE---LIN-RVVRVQRRMLQERGYEP-TAEEVAAHLELTP 240 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 V+ + RLA + SL+A + D + D + DG +E R L Sbjct: 241 ERVLEV-LRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPMESAAFFLLREHLE 294 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 295 AVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 349 >gi|153304|gb|AAA26762.1| principal sigma-like factor [Streptomyces aureofaciens] gi|450077|prf||1920369A RNA polymerase:SUBUNIT=sigma Length = 393 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 88/295 (29%), Positives = 142/295 (48%), Gaps = 42/295 (14%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AA 50 +Y+ EI +IP+L EE LA+R E G DL A Sbjct: 99 QYLREIGRIPLLTAAEEVDLARRV-EAGLFAEEKLGGAADLDSQLAVDLDRLVVMGRMAK 157 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ S+LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 158 RRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 217 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + N R ++ + + + +P +A L ++ Sbjct: 218 QAMSRALADQARTIRVPVHVVE---LIN-RVVRVQRRMLQERGYEP-TAEEVAVHLELTP 272 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 V+ + RLA + SL+A + D + D + DG +E R L Sbjct: 273 ERVLEV-LRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFFLRCEHLE 326 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 327 AVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 381 >gi|296272949|ref|YP_003655580.1| RpoD subfamily RNA polymerase sigma-70 factor subunit [Arcobacter nitrofigilis DSM 7299] gi|296097123|gb|ADG93073.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arcobacter nitrofigilis DSM 7299] Length = 626 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 124/236 (52%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WW Sbjct: 387 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ ++ N K V IAK++ + Sbjct: 447 IRQAISRAIADQARTIRIPI-----HMIETINRINKIIRKGIQENGKEPNVDEIAKEVGL 501 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + SL A I S + ++ D++ D + ++ +++ +N + Sbjct: 502 PVDKVKQVIKITKEPVSLEAPIGSDE--DGKFGDFV---PDDKAPTPVDNIMKEDLQNQI 556 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ LN RE+ + R L ++ TLE + E V+RERVRQIE+ A KK++ Sbjct: 557 DQILAQLNEREQAVVRMRFGLMDDASDRTLEEIGKELSVTRERVRQIESSAIKKLK 612 >gi|148238947|ref|YP_001224334.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 7803] gi|147847486|emb|CAK23037.1| RNA polymerase sigma factor RpoD, sigma-70 family [Synechococcus sp. WH 7803] Length = 450 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 75/275 (27%), Positives = 148/275 (53%), Gaps = 25/275 (9%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 NG++ ++ + ++P++ + +L +R +E ++V S+LRLVV IA Y Sbjct: 184 NGKLPDTKEWAALVEMPVIRFRRRLMLGRRAKE--------KMVQSNLRLVVSIAKKYMN 235 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 236 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-- 293 Query: 131 NQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 L+ + R+K + ++ KP E+ +A + ++ + + I+ + +L SL Sbjct: 294 ---HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPI--SLET 348 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 I + S+ D++ D + EQ + + R++ +L + L+PRER + R Sbjct: 349 PIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEGVL----ATLSPRERDVLRLRYG 402 Query: 249 QENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 403 LDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 437 >gi|54401868|gb|AAV34620.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401871|gb|AAV34621.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401874|gb|AAV34622.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 299 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|320161271|ref|YP_004174495.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] gi|319995124|dbj|BAJ63895.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] Length = 409 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 87/302 (28%), Positives = 143/302 (47%), Gaps = 39/302 (12%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRY------REH---GDLSAAHR----- 52 +I + IGL Y+ E+ ++P+L +EE LA+R RE G++S R Sbjct: 106 NIDTDDTIGL--YLKEVSRVPLLTAEEEVELAQRIERGRMAREELARGNVSPKRRQELRR 163 Query: 53 -----------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 L+T++ RLV+ +A Y G G+P +++ EGNIGL++A KKFD RG + Sbjct: 164 LIEDGWAAREHLITANSRLVISVAKKYMGRGVPFLDLIQEGNIGLIRATKKFDYRRGHKF 223 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 +TY+ WWI+ A+ I +++ + L R++ L T + V Sbjct: 224 STYATWWIRQAVTRAIADQGRTIRVPVHMGDQ--INKLLRVQHQL---TQRLGREPSVEE 278 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +A+ L+V +V +M L+ + D+ S D++ D + + Sbjct: 279 LAEALDVPPRKVENMIQ--VARRPLSLETPTDDEEDSVLGDFI---EDEEAPPPDDTATY 333 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R L ++ L PRE RI + R L TLE + + V+RERVRQIEA+A + Sbjct: 334 NLLRQHLEEVLNTLPPREVRILQLRYGLLDGQAYTLEEVGRKMGVTRERVRQIEAQALSR 393 Query: 280 VQ 281 ++ Sbjct: 394 LR 395 >gi|254430902|ref|ZP_05044605.1| DNA-directed RNA polymerase sigma subunit [Cyanobium sp. PCC 7001] gi|197625355|gb|EDY37914.1| DNA-directed RNA polymerase sigma subunit [Cyanobium sp. PCC 7001] Length = 503 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/260 (28%), Positives = 141/260 (54%), Gaps = 25/260 (9%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+++ + +L +R +E ++V S+LRLVV IA Y GL +++ EG++G Sbjct: 252 MPLIKFRRRLMLGRRAKE--------KMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 303 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ + R+K Sbjct: 304 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKT 358 Query: 146 LQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 + ++ KP E+ +A + ++ + + I+ + +L SL I + S+ D+ Sbjct: 359 TKTLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLP--ISLETPIGKEE--DSRLGDF 414 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSE 261 + D + EQ + + R++ +L + L+PRER + R ++ TLE + Sbjct: 415 IEADIENPEQDVAKNLLREDLEGVL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQI 470 Query: 262 FEVSRERVRQIEARAFKKVQ 281 F+V+RER+RQIEA+A +K++ Sbjct: 471 FDVTRERIRQIEAKALRKLR 490 >gi|6010732|gb|AAF01232.1|AF184101_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 242 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|123966683|ref|YP_001011764.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123201049|gb|ABM72657.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9515] Length = 313 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 84/304 (27%), Positives = 151/304 (49%), Gaps = 40/304 (13%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS----------------- 48 G +S Y+ I ++P+L EE L + + E G L+ Sbjct: 16 GNDPISWYLSNIGRVPLLTPAEEIELGNQVQKMMTLTEDGQLNEKTKEFTPQQKRTIKIG 75 Query: 49 --AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ Sbjct: 76 RRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAF 135 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFN--LRRLKGHLQAITDNNLKPEQVVAIAK 164 WWI+ +M I +++ +++ R L L A+ + IA+ Sbjct: 136 WWIRQSMTRAIACQSRTIRLPVHLSERLATIRKVSRELAHKLGAMPSR-------IEIAE 188 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + + E+ S+ + SL+A +N D S + L+ D + +E +++ E+K Sbjct: 189 AMEIDVEELDSVLRQALSTSSLDAPVNGDDGRS--FLGDLIADSNNEEP--LDQVEQKMH 244 Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L + ++ L+ +E+ + + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 245 QEQLGKWLTHLSEQEQHVLKLRFGLDGNERHTLAEIGRLLEVSRERVRQVELKALRKLRN 304 Query: 283 SIQK 286 +K Sbjct: 305 LTRK 308 >gi|269215371|ref|ZP_06159225.1| RNA polymerase sigma factor RpoD [Slackia exigua ATCC 700122] gi|269131227|gb|EEZ62301.1| RNA polymerase sigma factor RpoD [Slackia exigua ATCC 700122] Length = 383 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 84/295 (28%), Positives = 138/295 (46%), Gaps = 42/295 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLA-------------KRYREHG-----------------DLS 48 Y+ EI K+P+L EE LA +R + G L Sbjct: 85 YLKEIGKVPLLTAAEEIDLAMKIEAGVAATAELERAEDEGIELNRRDKRRLTRVEAVGLD 144 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 145 AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 204 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R++ L + + PE+ I +K+ + Sbjct: 205 IRQAITRAIADQARTIRI--PVHMVETINKLVRIQRQLLQDLNRDPTPEE---IGEKMGL 259 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S V + SL I ++ SQ D++ D V + + L Sbjct: 260 SAERVREIQKISQEPVSLETPIG--EEEDSQLGDFI---EDDSAVVPPDAASFSMLQEQL 314 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ + L RER++ R E+ P TLE + EF V+RER+RQIE++ K++ Sbjct: 315 SKVLDGLAERERKVISLRFGLEDGHPHTLEEVGREFGVTRERIRQIESKTLAKLR 369 >gi|224024118|ref|ZP_03642484.1| hypothetical protein BACCOPRO_00840 [Bacteroides coprophilus DSM 18228] gi|224017340|gb|EEF75352.1| hypothetical protein BACCOPRO_00840 [Bacteroides coprophilus DSM 18228] Length = 317 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 79/275 (28%), Positives = 148/275 (53%), Gaps = 22/275 (8%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L +Y+ EI + ++ +EE LA+R R+ GD A +L ++LR VV +A Y+ GL Sbjct: 48 SLDKYLQEIGREDLITVEEEVELAQRIRK-GDRVALEKLTRANLRFVVSVAKQYQNQGLS 106 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 107 LPDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVG 164 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 + + + + PE+ +A +L + + IS +++G S++A Sbjct: 165 SLNKISKAFSKFEQENERRPSPEE---LADELEIP-VDKISDTLKVSGRHISVDAPFVEG 220 Query: 194 DKNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRL 248 + NS D LV D ++ E R+ + R++S L RE+ I F Sbjct: 221 EDNS--LLDVLVNDDSPMADRSLVNESLSRE-----IDRALSTLTEREKDIIQMFFGINT 273 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 QE +TLE + +F ++RERVRQI+ +A ++++++ Sbjct: 274 QE--MTLEEIGDKFGLTRERVRQIKEKAIRRLRQN 306 >gi|312898762|ref|ZP_07758151.1| RNA polymerase sigma factor RpoD [Megasphaera micronuciformis F0359] gi|310620193|gb|EFQ03764.1| RNA polymerase sigma factor RpoD [Megasphaera micronuciformis F0359] Length = 437 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 84/291 (28%), Positives = 142/291 (48%), Gaps = 35/291 (12%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAA------------HRLVTSH 57 VN + + Y+ EI ++P+L +EE LAKR E G A +L ++ Sbjct: 151 VNIDDPVRMYLKEIGRVPLLSAEEEITLAKRI-EAGSAEGATPEEVSAGNIAKKKLTDAN 209 Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I Sbjct: 210 LRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAI 269 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 ++I + L R+ L PE+ IA+K+ V V + Sbjct: 270 ADQARTIRI--PVHMVETINKLIRISRQLLQDKGREPLPEE---IAEKMGVPVERVREI- 323 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWL-----VYDHDGQEQVLIEKEERKNRRNMLTRSM 232 ++A E ++ ++ S D++ + D +L++++ + Sbjct: 324 MKIA-QEPVSLETPIGEEEDSHLGDFIEDQEAIAPDDAASFILLKEQ--------IEDVF 374 Query: 233 SVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 S L RER++ R L++ P TLE + F V+RER+RQIE +A K++ Sbjct: 375 SCLTDRERKVLYLRFGLKDGRPRTLEEVGQHFNVTRERIRQIEGKALSKLR 425 >gi|290967746|ref|ZP_06559301.1| RNA polymerase sigma factor RpoD [Megasphaera genomosp. type_1 str. 28L] gi|290782262|gb|EFD94835.1| RNA polymerase sigma factor RpoD [Megasphaera genomosp. type_1 str. 28L] Length = 423 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/281 (28%), Positives = 137/281 (48%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGD-----------LSAAHRLVTSHLRLVVKIAMG 67 Y+ EI ++P+L EE LAK + D + A +L ++LRLVV IA Sbjct: 146 YLKEIGRVPLLSADEEITLAKAIEKGNDENATVADKKNGIDAKKKLTDANLRLVVSIAKR 205 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y G G+ +++ EGN+GL++AV KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 206 YVGRGMLFLDLIQEGNLGLLKAVDKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRI- 264 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + L R+ L + PE+ IA+K+ + V + ++A E ++ Sbjct: 265 -PVHMVETINKLIRISRQLIQEKGRDPLPEE---IAEKMEIPVERVREI-MKIA-QEPVS 318 Query: 188 ALINSSDKNSSQWQDWL-----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 ++ S D++ V D +L++++ + S L RER++ Sbjct: 319 LETPIGEEEDSHLGDFIEDQEAVAPDDAASFILLKEQ--------IEEVFSCLTDRERKV 370 Query: 243 FEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L++ P TLE + F V+RER+RQIE +A K++ Sbjct: 371 LYLRFGLKDGRPRTLEEVGQYFNVTRERIRQIEGKALGKLR 411 >gi|330982601|gb|EGH80704.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 459 Score = 100 bits (250), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 83/270 (30%), Positives = 139/270 (51%), Gaps = 21/270 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 20 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 78 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 79 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 137 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNS 197 LR + Q + D+ PE++ + +K ++ +N R++ D SL SDK Sbjct: 138 LRAARELTQKL-DHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGP---DSDKT- 192 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVT 254 D L D L++ ++ + + +S L ++R + R R E+ T Sbjct: 193 --LLDTLTDDRPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVIRRFGLRGHESS-T 246 Query: 255 LENLSSEFEVSRER----VRQIEARAFKKV 280 LE++ E ++RER VR + + +V Sbjct: 247 LEDVGLEIGLTRERAGFEVRDVHPTHYGRV 276 >gi|148243603|ref|YP_001228760.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851913|emb|CAK29407.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 323 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 81/284 (28%), Positives = 139/284 (48%), Gaps = 31/284 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--------------------AAHRLVTSHL 58 Y+ I ++P+L EE LA + ++ LS A R++ ++L Sbjct: 39 YLSNIGRVPLLTAAEEIELAHQVQQMKQLSEIPAEERTPKQRQQVRMGCRARDRMMAANL 98 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 99 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 158 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 S +++ ++K +RR+ L T + + +A + + E+ + Sbjct: 159 NSARTIRLPIHISEK--LSKMRRITREL---THRFGRQPNRLELAHAMGMEPDELEELLS 213 Query: 179 RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 + A SL+A + S+ + L+ D + +E +R+ ++ L ++ LN R Sbjct: 214 QSAPCASLDAHARGEEDRSTLGE--LIPDPSCNDS--MESMDRRIQKEHLGTWITQLNER 269 Query: 239 ERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 E++I + R E P TL + + VSRERVRQ+EA+A K+ Sbjct: 270 EQKILKLRFGLEGAEPQTLAEIGRQINVSRERVRQLEAKAILKL 313 >gi|328882302|emb|CCA55541.1| RNA polymerase principal sigma factor HrdA [Streptomyces venezuelae ATCC 10712] Length = 336 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 85/295 (28%), Positives = 145/295 (49%), Gaps = 44/295 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDLS--------AAHR 52 Y+ EI +IP+L +EE LA+R R DL A + Sbjct: 43 YLREIGRIPLLTAEEEVDLARRVEAGLFAEEKLANTPDLDSRLASDLDRLVVLGRIAKRK 102 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ A Sbjct: 103 LIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQA 162 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + +++ + N R ++ + + + +P +A +L+++ E Sbjct: 163 MSRALADQARTIRVPVHVVE---LIN-RVIRVQRRMLQERGYEP-TAEEVAAQLDLA-PE 216 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLT 229 + RLA + SL+A + + +D + D DG +E R L Sbjct: 217 RVGEVLRLAQEPVSLHAPVG-------EEEDVALGDLIEDGDAASPVESAAFLLLRRHLE 269 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R ++ P TLE + F V+RER+RQIE++ K+++ Sbjct: 270 DVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLGKLRD 324 >gi|116075287|ref|ZP_01472547.1| RNA polymerase sigma factor [Synechococcus sp. RS9916] gi|116067484|gb|EAU73238.1| RNA polymerase sigma factor [Synechococcus sp. RS9916] Length = 479 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/261 (27%), Positives = 142/261 (54%), Gaps = 25/261 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+++ + +L +R +E ++V S+LRLVV IA Y GL +++ EG++ Sbjct: 227 EMPLIKFRRRLMLGRRAKE--------KMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSL 278 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ + R+K Sbjct: 279 GLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKK 333 Query: 145 HLQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + ++ KP E+ +A + ++ + + I+ + +L SL I + S+ D Sbjct: 334 TTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGD 389 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSS 260 ++ D + EQ + + R++ +L + L+PRER + R ++ TLE + Sbjct: 390 FIEADIENPEQDVAKNLLREDLEGVL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQ 445 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F+V+RER+RQIEA+A +K++ Sbjct: 446 IFDVTRERIRQIEAKALRKLR 466 >gi|1526450|dbj|BAA13238.1| RNA polymerase sigma subunit, truncated form of sigma-38 [Escherichia coli W3110] gi|23306704|gb|AAN15271.1| C-terminal truncated RNA polymerase sigma factor S [Escherichia coli] Length = 269 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|78780175|ref|YP_398287.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|123969439|ref|YP_001010297.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|126697226|ref|YP_001092112.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|78713674|gb|ABB50851.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9312] gi|123199549|gb|ABM71190.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. AS9601] gi|126544269|gb|ABO18511.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9301] Length = 339 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/285 (28%), Positives = 141/285 (49%), Gaps = 31/285 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL--------------------SAAHRLVTSHL 58 Y+ I ++P+L EE LA + L A R++ ++L Sbjct: 55 YLSSIGRVPLLTPAEEIELAHHVQNMKKLLQIPETDRTQRNLYQIKIGKRARDRMMAANL 114 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 115 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 174 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 S +++ ++K +RR+ L + + + +A ++ + + ++ + Sbjct: 175 NSARTIRLPIHISEK--LSKMRRVSREL---SHKFGRQPTRLEMATEMGIDQKDLEDLIS 229 Query: 179 RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 + A SL+A + S+ + L+ D + +E +E +R ++ L +S LN R Sbjct: 230 QSAPCASLDAHARGEEDRSTLGE--LIPDPNCEEP--MEGMDRTIQKEHLGTWLSQLNER 285 Query: 239 ERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E++I + R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 286 EQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|134036998|gb|ABO47837.1| truncated sigma 38 factor [Escherichia coli] gi|134037001|gb|ABO47839.1| truncated sigma 38 factor [Escherichia coli] Length = 240 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|4100832|gb|AAD00998.1| RpoS [Escherichia coli] Length = 269 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 48 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 106 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 107 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 154 >gi|329934715|ref|ZP_08284756.1| RNA polymerase principal sigma factor HrdA [Streptomyces griseoaurantiacus M045] gi|329305537|gb|EGG49393.1| RNA polymerase principal sigma factor HrdA [Streptomyces griseoaurantiacus M045] Length = 363 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 88/297 (29%), Positives = 144/297 (48%), Gaps = 46/297 (15%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AA 50 +Y+ EI +IP+L EE LA+R E G DL A Sbjct: 69 QYLREIGRIPLLTAAEEVELARRV-EAGLFAEEKLGSTPDLDSRLALDLDTLVVRGRMAK 127 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 128 RRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 187 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + N R ++ + + + +P +A +L++S Sbjct: 188 QAMSRALADQARTIRVPVHVVE---LIN-RVVRVQRRMLQERGYEP-SAEEVAAQLDLS- 241 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNM 227 E + RLA + SL+A + + +D + D DG +E R Sbjct: 242 PERVGEVLRLAQEPVSLHAPVG-------EEEDVALGDLIEDGDATSPVESAAFLLLREH 294 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 295 LDAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 351 >gi|3451022|gb|AAC32644.1| RNA polymerase sigma factor [Escherichia coli RS218] Length = 220 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|6010722|gb|AAF01227.1|AF184096_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 228 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 167 >gi|317060654|ref|ZP_07925139.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. D12] gi|313686330|gb|EFS23165.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. D12] Length = 276 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 133/252 (52%), Gaps = 23/252 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A ++L+ +LRLVV +A GYR G+ + +++SEGN+GL++A++KFD E+GFR + Sbjct: 37 QSGDEEAKNQLILCNLRLVVNVAKGYRSKGMNLIDLISEGNLGLIRAIEKFDVEKGFRFS 96 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVA 161 TY++WWIK ++ + I+ ++I + + L ++ ++ + I + P V Sbjct: 97 TYAVWWIKQSISKAIIFKGREIRIPSYR-----YDILNKINRYVTEEIKLYGVYP-SVEE 150 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD---GQEQVLIEK 218 +A+ LN+ ++V + SL+ I +Y D G E+ EK Sbjct: 151 VAEYLNMPVNKVEEIMIEFQEPMSLSTEIGED-----------IYLEDTLSGTEEHFEEK 199 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 K + L ++ L+ RE+ I + R L + TLE + F ++RERVRQIE Sbjct: 200 VYYKMMQQRLKDILNRLDTREQEILKLRFGLDGYEIHTLEEIGKNFNITRERVRQIEKNT 259 Query: 277 FKKVQESIQKQV 288 KK++ K++ Sbjct: 260 LKKLKRKYTKEL 271 >gi|23099399|ref|NP_692865.1| RNA polymerase sigma factor RpoD [Oceanobacillus iheyensis HTE831] gi|22777628|dbj|BAC13900.1| RNA polymerase sigma-43(-A) factor [Oceanobacillus iheyensis HTE831] Length = 380 Score = 100 bits (249), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 84/276 (30%), Positives = 129/276 (46%), Gaps = 35/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 114 YLKEIGRVNLLSAAEEIDLASSI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 172 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 173 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 232 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 Q+ L +L R + + L P++V I K E +S+ + D L Sbjct: 233 RVQRSLLQDLGREPTPEEIGEEMELGPDKVRDILK----IAQEPVSLETPIGEEDDSHLG 288 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + S DH E + + L + L RE + R Sbjct: 289 DFIEDQEAISPS-------DHAAYELL----------KEQLEDVLDTLTDREENVLRLRF 331 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 332 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 367 >gi|121595443|ref|YP_987339.1| RpoD family RNA polymerase sigma factor [Acidovorax sp. JS42] gi|120607523|gb|ABM43263.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax sp. JS42] Length = 797 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 557 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 616 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A K+ Sbjct: 617 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-LAAKME 671 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D ++ + R++ Sbjct: 672 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSNNTAPVDAAMQAGLRDV 726 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 727 VKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 782 >gi|332709863|ref|ZP_08429819.1| RNA polymerase, sigma subunit, RpsC/SigC [Lyngbya majuscula 3L] gi|332351234|gb|EGJ30818.1| RNA polymerase, sigma subunit, RpsC/SigC [Lyngbya majuscula 3L] Length = 417 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 128/238 (53%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ Sbjct: 176 LQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAY 235 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + I+ + + IA +L Sbjct: 236 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQERGRTATIDDIAVEL 290 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++V + R+ SL I + ++ D L + E+VL+ + +++ + Sbjct: 291 EMTAAQVREVLLRVPRSVSLE--IKVGKERDTELGDLLETEETSPEEVLMREALQRDLQQ 348 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L RER + R L +N P +L + ++SRERVRQIEA+A +K+++ Sbjct: 349 LL----ADLTNRERDVIRMRFGLGDNQPYSLAEIGRALDLSRERVRQIEAKALQKLRQ 402 >gi|302551232|ref|ZP_07303574.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302468850|gb|EFL31943.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 438 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 87/294 (29%), Positives = 139/294 (47%), Gaps = 40/294 (13%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRY----------REHGDLS----------------AAH 51 +Y+ EI ++P+L EE LA+R R DL A Sbjct: 144 QYLREIGRVPLLTAAEEVELARRVEAGLFAEEKLRLAPDLDSQLAVDLDRLVVMGRMAKR 203 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 204 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 263 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + PE+V A L + Sbjct: 264 AMSRALADQARTIRV--PVHVVELINRVVRVQRRMLQERGYEPTPEEVAA---HLELP-P 317 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E + RLA + SL+A + D + D + DG +E R L Sbjct: 318 ERVGEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLEA 372 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + F V+RER+RQIE++ K+++ Sbjct: 373 VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 426 >gi|328947378|ref|YP_004364715.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] gi|328447702|gb|AEB13418.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] Length = 283 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 78/276 (28%), Positives = 141/276 (51%), Gaps = 34/276 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 +++EI+KIP+L EE LA R GD +A +L+TS++R V+KIA Y GL ++ Sbjct: 15 HLNEIKKIPLLTNDEEIQLATRAAA-GDKAARDKLLTSNMRFVIKIASQYLNKGLEYEDL 73 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +SEG +GLM+A+ FD +G+ +Y++WWI+ ++ + I+ +++ + + Sbjct: 74 ISEGYLGLMKALDHFDVSKGYHFISYAVWWIRQSIMKAIVDFGRPIRLPVNKDAE----- 128 Query: 139 LRRLKGHLQAITDNNLKPEQVVA-------------IAKKLNVSESEVISMNCRLAGDES 185 L +K ++ + K E+ I + LN+S+ E+IS++ ++GD S Sbjct: 129 LTEIKRACHSVNPHGKKSEEEELEEVALKLGMTKHHIREMLNISQ-EMISLDSPISGD-S 186 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 AL+++ + +D + ++ E K + +S+ VLN R + Sbjct: 187 DTALVDTVSAGTFTPEDAAI-------DASLKTEIDKAFVGLDKKSVEVLNMRYGLNGQG 239 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TL+ + + +SRERVRQIE A K++ Sbjct: 240 ER------TLKEVGEKMNLSRERVRQIEKHAIAKIR 269 >gi|113954073|ref|YP_731235.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9311] gi|113881424|gb|ABI46382.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9311] Length = 440 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 75/275 (27%), Positives = 148/275 (53%), Gaps = 25/275 (9%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 NG++ ++ + ++P++ + +L +R +E ++V S+LRLVV IA Y Sbjct: 174 NGKLPETKEWAALVEMPVIRFRRRLMLGRRAKE--------KMVQSNLRLVVSIAKKYMN 225 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 226 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-- 283 Query: 131 NQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 L+ + R+K + ++ KP E+ +A + ++ + + I+ + +L SL Sbjct: 284 ---HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPI--SLET 338 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 I + S+ D++ D + EQ + + R++ +L + L+PRER + R Sbjct: 339 PIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEGVL----ATLSPRERDVLRLRYG 392 Query: 249 QENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 393 LDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 427 >gi|257463050|ref|ZP_05627452.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. D12] Length = 272 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 133/252 (52%), Gaps = 23/252 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A ++L+ +LRLVV +A GYR G+ + +++SEGN+GL++A++KFD E+GFR + Sbjct: 33 QSGDEEAKNQLILCNLRLVVNVAKGYRSKGMNLIDLISEGNLGLIRAIEKFDVEKGFRFS 92 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVA 161 TY++WWIK ++ + I+ ++I + + L ++ ++ + I + P V Sbjct: 93 TYAVWWIKQSISKAIIFKGREIRIPSYR-----YDILNKINRYVTEEIKLYGVYP-SVEE 146 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD---GQEQVLIEK 218 +A+ LN+ ++V + SL+ I +Y D G E+ EK Sbjct: 147 VAEYLNMPVNKVEEIMIEFQEPMSLSTEIGED-----------IYLEDTLSGTEEHFEEK 195 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 K + L ++ L+ RE+ I + R L + TLE + F ++RERVRQIE Sbjct: 196 VYYKMMQQRLKDILNRLDTREQEILKLRFGLDGYEIHTLEEIGKNFNITRERVRQIEKNT 255 Query: 277 FKKVQESIQKQV 288 KK++ K++ Sbjct: 256 LKKLKRKYTKEL 267 >gi|222111657|ref|YP_002553921.1| RNA polymerase sigma-70 subunit RpoD [Acidovorax ebreus TPSY] gi|221731101|gb|ACM33921.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax ebreus TPSY] Length = 801 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 561 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 620 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A K+ Sbjct: 621 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-LAAKME 675 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D ++ + R++ Sbjct: 676 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSSNTAPVDAAMQAGLRDV 730 Query: 228 LTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 731 VKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLK 786 >gi|295102137|emb|CBK99682.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii L2-6] Length = 461 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 80/262 (30%), Positives = 134/262 (51%), Gaps = 25/262 (9%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++ + +L + R G L+A L ++LRLVV IA + G+ L +++ EGNIGL Sbjct: 205 PLTEERRQELL--KTRRDG-LNARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGL 261 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFN-LRR 141 ++A +KFD +RGFR +TY+ WWI+ A+ I ++I T N+ R N L Sbjct: 262 IKAAEKFDCDRGFRFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVY 321 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 GH PE+ +AK +++S V + SL + + ++ S Sbjct: 322 QNGH-------EPTPEE---LAKAMDMSVERVREIQRMAQEPASLESPV--GEEEDSSLG 369 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLS 259 D++ D + + +R + +++ L PRE ++ R ++ P TLE + Sbjct: 370 DFVA---DENAEAPGKAADRAMVAQQINQALKSLTPREEKVIRLRFGLDDGRPRTLEEVG 426 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 +F V+RERVRQIEA+A +K+ Sbjct: 427 RDFGVTRERVRQIEAKAIRKLH 448 >gi|302869477|ref|YP_003838114.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC 27029] gi|315504060|ref|YP_004082947.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Micromonospora sp. L5] gi|302572336|gb|ADL48538.1| RNA polymerase sigma factor, sigma-70 family [Micromonospora aurantiaca ATCC 27029] gi|315410679|gb|ADU08796.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Micromonospora sp. L5] Length = 333 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 88/307 (28%), Positives = 146/307 (47%), Gaps = 68/307 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------GDLSAAHRLVT-------- 55 Y+HEI + P+L+ E L+K Y EH D RLV Sbjct: 42 YLHEISRTPLLDAAREVDLSKAIEAGLYAEHLLDEDRIPDGVDREDLERLVAEGERAKDL 101 Query: 56 ---SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++LRLVV IA Y G+P+ +++ EGN GL++AV+KFD ERGF+ +TY+ WWI+ A Sbjct: 102 FIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGFKFSTYATWWIRQA 161 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVAIAKKLNVS 169 + I + V++ L ++ R++ + +T ++ +PEQ IA L V+ Sbjct: 162 ISRAIAQQERTVRLPV-----HLVEDVNRMRNVARQLTRELGSDPEPEQ---IATALGVT 213 Query: 170 ----------ESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +S++ + GD +L L+ SD S E++++ Sbjct: 214 VERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSP-------------EEIVLT 260 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEAR 275 ER+ +L L+ R I AR E+ +L ++S F +SRER+RQ+E + Sbjct: 261 GLERQRIEGLLNH----LDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQ 316 Query: 276 AFKKVQE 282 A +++E Sbjct: 317 ALGRLRE 323 >gi|4100834|gb|AAD00999.1| RpoS [Escherichia coli] Length = 258 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 37 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 95 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 96 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 143 >gi|328955627|ref|YP_004372960.1| RNA polymerase, sigma 70 subunit, RpoD [Coriobacterium glomerans PW2] gi|328455951|gb|AEB07145.1| RNA polymerase, sigma 70 subunit, RpoD [Coriobacterium glomerans PW2] Length = 442 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L++++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD E+GF+ +TY+ Sbjct: 202 LEAKQALISANLRLVVSIAKRYVGRGMHFLDLIQEGNLGLIRAVEKFDYEKGFKFSTYAT 261 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++I + L R++ L + PE++ A ++ Sbjct: 262 WWIRQAITRAIADQARTIRI--PVHMVETINKLVRVQRQLLQELGRDPTPEEIGA---EM 316 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +S V + SL I ++ SQ D++ D Q V + R Sbjct: 317 EMSADRVREIQKISQEPVSLETPIG--EEEDSQLGDFI---EDAQAVVPPDAASFSMLRE 371 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + + L RER++ E R L + +P TLE + +F V+RER+RQIE++ K+ Sbjct: 372 QLVQVLDSLADRERKVIELRFGLNDGHPRTLEEVGRDFGVTRERIRQIESKTLAKL 427 >gi|124025264|ref|YP_001014380.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. NATL1A] gi|123960332|gb|ABM75115.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] Length = 420 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 182 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 241 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 242 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 296 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 297 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKTLLREDLEG 352 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 353 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 405 >gi|87123878|ref|ZP_01079728.1| Sigma-70 factor [Synechococcus sp. RS9917] gi|86168447|gb|EAQ69704.1| Sigma-70 factor [Synechococcus sp. RS9917] Length = 456 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 220 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 279 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 280 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 334 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 335 TIEKLRFIAKSAQLP--ISLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 390 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 391 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 443 >gi|114771658|ref|ZP_01449062.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] gi|114547730|gb|EAU50620.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] Length = 656 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 78/251 (31%), Positives = 122/251 (48%), Gaps = 42/251 (16%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 417 SAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 476 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRR------LKGHLQAITDN 152 WI+ A+ I ++I T N+ +++ + R L LQ D Sbjct: 477 WIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELASKLQMPLD- 535 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 K +V+ IAK E IS+ + D+ SQ D++ D Sbjct: 536 --KVRKVMKIAK-------EPISLETPIG------------DEEDSQLGDFI---EDKNA 571 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVR 270 + +E + N + TR ++ L PRE R+ R TLE + +F V+RER+R Sbjct: 572 ILPLESAIQGNLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 631 Query: 271 QIEARAFKKVQ 281 QIEA+A +K++ Sbjct: 632 QIEAKALRKLK 642 >gi|148654372|ref|YP_001274577.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148566482|gb|ABQ88627.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 402 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 138/293 (47%), Gaps = 44/293 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAK---------RYREHGDLS-----------------AAHR 52 Y+ EI ++P+L ++E +LAK R E + S A Sbjct: 109 YLQEIGQVPLLSAEQEVMLAKAMEAGHRARRALEREEYSSWQERVMYEQQVAQGNEARQH 168 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV IA Y YGL + ++V EGNIGLM+AV+KFD +G + +TY+ WWI+ A Sbjct: 169 LIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWWIRQA 228 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ + ++R LQ PE+ IA + +S ++ Sbjct: 229 ITRAIADQSRTIRLPVHMGEA--ISQVKRTSHKLQQTMQREPTPEE---IADAMGISSTK 283 Query: 173 VISMNCRLAGDESLNAL---INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 V R + S++ L + + + D++ D + E R L Sbjct: 284 V-----RRTLEASMHPLSLEMPVGQEGEGRMGDFI---EDDRISTPAEAAAASMLREQLE 335 Query: 230 RSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L RER+I + R L++ TLE + EF ++RER+RQIEA A +K+ Sbjct: 336 EVLQKLPERERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKL 388 >gi|158833959|gb|ABW81785.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 100 bits (249), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 47/100 (47%), Positives = 69/100 (69%), Gaps = 1/100 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L EE A+R GD S+ R++ S+LRLVVKI+ Y GLP+ ++ Sbjct: 8 YLSEIGYSPLLTAAEEIYFARRVL-CGDESSRRRMIESNLRLVVKISRRYINRGLPLLDL 66 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 67 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 106 >gi|317969651|ref|ZP_07971041.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0205] Length = 470 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 234 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 293 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 294 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKTLSQEFGRKPTEEEIAESMEM 348 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 349 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 404 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 405 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 457 >gi|163781693|ref|ZP_02176693.1| RNA polymerase sigma factor RpoD [Hydrogenivirga sp. 128-5-R1-1] gi|159882913|gb|EDP76417.1| RNA polymerase sigma factor RpoD [Hydrogenivirga sp. 128-5-R1-1] Length = 571 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 119/246 (48%), Gaps = 30/246 (12%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ S+LRLVV IA Y GL +++ EGNIGLM+AV K+D +G++ +TY+ Sbjct: 332 VKAKQVMIQSNLRLVVSIAKKYVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYAT 391 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPE 157 WWI+ A+ I ++I T N+ KRLF L R + + P+ Sbjct: 392 WWIRQAITRAIADQARTIRIPVHMIETINRIIKASKRLFQELGREPTPEEIAKHLGMTPD 451 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +V +K+ S E IS+ + DE DK+ ++++ Sbjct: 452 KV----RKVLRSAQEPISLETPIGDDEDTFLKDFIEDKSVPNPEEYV------------- 494 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 RK R L R + L+ +ER I R + TLE + F V+RER+RQIE++ Sbjct: 495 --SRKLLREQLERVLETLSDKEREILRYRYGLVDGTEYTLEQVGKMFNVTRERIRQIESK 552 Query: 276 AFKKVQ 281 A +K++ Sbjct: 553 AIRKLR 558 >gi|78185245|ref|YP_377680.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9902] gi|78169539|gb|ABB26636.1| Sigma-70 factor [Synechococcus sp. CC9902] Length = 451 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 215 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 274 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 275 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 329 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 330 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 385 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 386 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 438 >gi|160900477|ref|YP_001566059.1| RNA polymerase sigma 70 subunit RpoD [Delftia acidovorans SPH-1] gi|160366061|gb|ABX37674.1| RNA polymerase, sigma 70 subunit, RpoD [Delftia acidovorans SPH-1] Length = 808 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 123/241 (51%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 563 ERASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 622 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ + + Sbjct: 623 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASI-L 677 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A K+ + E ++ + ++A E ++ D + S D++ D ++ + Sbjct: 678 AAKMEIPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNNTAPVDAAMQA 732 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 733 GLRDVVKDILDGLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKL 792 Query: 281 Q 281 + Sbjct: 793 K 793 >gi|72383665|ref|YP_293020.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. NATL2A] gi|72003515|gb|AAZ59317.1| sigma-70 factor [Prochlorococcus marinus str. NATL2A] Length = 420 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 182 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 241 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 242 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 296 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 297 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKTLLREDLEG 352 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 353 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 405 >gi|158339245|ref|YP_001520422.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158309486|gb|ABW31103.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 268 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 78/279 (27%), Positives = 133/279 (47%), Gaps = 37/279 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ + P+L +EE LA++ + GDL A R++ +LRLVV IA ++ GLP+ ++ Sbjct: 11 YLKEMGRYPLLSHEEEIRLARQVKA-GDLKAKQRMIECNLRLVVSIAKKHQHLGLPLMDL 69 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF- 137 + EG+IGL AV KFD +G + +TY+ WWI A++ + +Q R + Sbjct: 70 IQEGSIGLNTAVDKFDLAQGCKFSTYAYWWISEAIKRAL------------KSQSRTIYI 117 Query: 138 ------NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 R+K ++ +T + + ++ + S + + SL+ + Sbjct: 118 PIHQWERAHRIKKAVRQLTQEKGRTPTLKELSAATGIKSSLIRNTLQSFQAVSSLDQPVG 177 Query: 192 SSDKNS----SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 K++ Q +D + DG E IE + LTR M+ L RER I + R Sbjct: 178 PEQKDALIDLIQTEDAPLSIMDGLE---IE--------DALTRCMAYLTERERFIVDQRY 226 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P ++ + + ++SRERVRQI A KK+ + Sbjct: 227 GLTDGQPKSMGAIGKQIDISRERVRQILNIAMKKMTRQV 265 >gi|313203522|ref|YP_004042179.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Paludibacter propionicigenes WB4] gi|312442838|gb|ADQ79194.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paludibacter propionicigenes WB4] Length = 287 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 79/271 (29%), Positives = 146/271 (53%), Gaps = 19/271 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R R GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIR-AGDRIALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A L++ + I+ +++G S++A + Sbjct: 135 LNKINKAFSKFEQENERKPSPEE---LADVLDIP-VDKIADTMKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQE 250 NS D ++ D ++VLI + K +L ++S RER I F + E Sbjct: 191 DNS--LLDVMINDDSPNADRVLINESLSKEIERVLAFTLS---DRERDIVKKFFGIGVAE 245 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TLE + EF ++RERVRQI+ +A +K++ Sbjct: 246 --MTLEEIGDEFGLTRERVRQIKEKAIRKLR 274 >gi|182418305|ref|ZP_02949600.1| RNA polymerase sigma factor RpoD [Clostridium butyricum 5521] gi|237666788|ref|ZP_04526773.1| RNA polymerase sigma factor RpoD [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377687|gb|EDT75231.1| RNA polymerase sigma factor RpoD [Clostridium butyricum 5521] gi|237657987|gb|EEP55542.1| RNA polymerase sigma factor RpoD [Clostridium butyricum E4 str. BoNT E BL5262] Length = 369 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 133/264 (50%), Gaps = 13/264 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E A++ E G+ A +L ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGKVPLLSSEQEIEYAQQI-EEGNQRAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 162 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 219 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ I+K +++ +V + SL I ++ S Sbjct: 220 LIRVQRQLLQELGRDPFPEE---ISKVMDLPVDKVREIQKIAQEPVSLETPI--GEEEDS 274 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 275 HLGDFIPDDEAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 331 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + EF V+RER+RQIEA+A +K+ Sbjct: 332 EVGKEFNVTRERIRQIEAKALRKL 355 >gi|209809124|ref|YP_002264662.1| RNA polymerase sigma factor [Aliivibrio salmonicida LFI1238] gi|208010686|emb|CAQ81073.1| RNA polymerase sigma factor [Aliivibrio salmonicida LFI1238] Length = 293 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 87/286 (30%), Positives = 141/286 (49%), Gaps = 38/286 (13%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG---L 73 S Y+ EI K +L EE ++ Y GDL + + L+ S+LRLVVKIA YR L Sbjct: 20 SLYLKEINKYKLLTASEELEHSRNYLS-GDLKSRNVLIESNLRLVVKIANKYRHRNQREL 78 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++ EGN+GLM+AV KFDPE G+R +TY++WWIK +++ + V++ Sbjct: 79 APLDIIEEGNLGLMKAVNKFDPELGYRFSTYAVWWIKESIESALFNHSRTVRLPVHIT-- 136 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN-- 191 + L +L+A D + K+ ++SE IS++C + +N ++ Sbjct: 137 ------KELNVYLRAARD------LSRTLKKEPSISE---ISVHCN-KDYKKVNKILGLV 180 Query: 192 ---------SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SSD SS + DH EQ + + N + L+ +++L RE++I Sbjct: 181 PSSSTCHSASSDDMSSNLIELCADDH---EQEPAQSLSKSNLESNLSSWLNLLQCREKQI 237 Query: 243 FEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R + TLE L + ++S+ERVRQI+ K+ +K Sbjct: 238 IINRYGLFGTDVKTLEELGQDLQLSKERVRQIQTETLTKLNTIFKK 283 >gi|33866315|ref|NP_897874.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8102] gi|33639290|emb|CAE08298.1| Putative principal RNA polymerase sigma factor [Synechococcus sp. WH 8102] Length = 471 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 235 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 294 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 295 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 349 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 350 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 405 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 406 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 458 >gi|33240812|ref|NP_875754.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33238341|gb|AAQ00407.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 313 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 83/301 (27%), Positives = 152/301 (50%), Gaps = 42/301 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLA-------------------KRYREHGDLS------AA 50 +S Y+ I ++P+L EE L K++ H S A Sbjct: 20 ISWYLATIGRVPLLTPAEEIELGNQVQVMMNLTEDGMVNEKTKKFTSHERRSIRIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLN 167 +M I +++ +++ +R++ H N L+ IA++++ Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LATIRKVSLDLAHKLGAMPNRLE------IAEEMD 191 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E+ S+ + SL+A +N D S + L+ D +E ++K E+ + Sbjct: 192 IEVEELDSILRQALTTSSLDAPVNGDDGRS--FLGDLIADSSVEEP--LDKVEQSIHQEQ 247 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L R ++ L+ +E+ + + R L+ N TL + EVSRERVRQ+E ++ +K++ + Sbjct: 248 LGRWLTHLSEQEQHVLKLRFGLEGNDRHTLAEIGRLLEVSRERVRQVELKSLRKLRNLTR 307 Query: 286 K 286 K Sbjct: 308 K 308 >gi|87123422|ref|ZP_01079273.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] gi|86169142|gb|EAQ70398.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] Length = 376 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 75/236 (31%), Positives = 114/236 (48%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 136 ARDRMIAANLRLVVTVAKKYQQRGLELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 195 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K Q I + + +A+KL + Sbjct: 196 IRQGITRAIATQSRTIRLPVHVTEK-----LNRIKRVQQEIASQEGRIATLTDLAQKLGL 250 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL + + +Q D L EQ L R + L Sbjct: 251 SEETVRLTLMRVPRSVSLE--LRVGKEQDTQLGDLLEDGKATPEQELT----RDALHHDL 304 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L RE + R +N P TL + +SRERVRQIE RA K+++ Sbjct: 305 EHLLDELTDREAAVIRLRFGLDNDTPCTLAQIGETMALSRERVRQIETRALLKLRQ 360 >gi|260435157|ref|ZP_05789127.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] gi|260413031|gb|EEX06327.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] Length = 458 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 222 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 281 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 282 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 336 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 337 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 392 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 393 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 445 >gi|254430889|ref|ZP_05044592.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] gi|197625342|gb|EDY37901.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] Length = 327 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 75/297 (25%), Positives = 141/297 (47%), Gaps = 44/297 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAK---------RYREHGDLSA-------------------- 49 Y+ EI ++ +L ++EE +LA+ R R G+L+A Sbjct: 25 YLREIGRVDLLRQEEEILLARLVQEREELLRQRGDGELTAWAGRCGVPPADLRQALHRGR 84 Query: 50 --AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 R++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+++DP RGFR +TY+ W Sbjct: 85 RAKERMLQANLRLVVAVAKKYQRRGLDLLDLIQEGTLGLERAVERYDPRRGFRFSTYAYW 144 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ + + +++ + L R++ +T + + + +A+ + Sbjct: 145 WIRQGITRALASQSRTIRLPVHVTE-----TLNRIRTCQGELTREHGRQPTLAELARAVG 199 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E+ + S + SL + ++ + D L DH EQ L ++ + + Sbjct: 200 LDEARLRSTLAHIPRPVSLEGRVGAN--ADTPLVDLLEDDHATPEQTLTRQQLHADLEAL 257 Query: 228 LTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L L+ RE + R + P TL + + ++SRERVRQIE+RA K+++ Sbjct: 258 L----DELSAREATVIRQRFGLDDDTPRTLAEIGEQLQLSRERVRQIESRALLKLRQ 310 >gi|83648911|ref|YP_437346.1| RNA polymerase sigma-70 factor RpoD [Hahella chejuensis KCTC 2396] gi|83636954|gb|ABC32921.1| RNA polymerase sigma-70 factor RpoD [Hahella chejuensis KCTC 2396] Length = 639 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 401 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ H+ PE+ +AKK+++ Sbjct: 461 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRHMLQEMGREATPEE---LAKKMDM 515 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D + I+ + + Sbjct: 516 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDSHAESPIDSATTEGLKEST 570 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++ L RE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 571 RRVLAGLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 >gi|6010720|gb|AAF01226.1|AF184095_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 254 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 46/100 (46%), Positives = 70/100 (70%), Gaps = 1/100 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 159 >gi|167932999|ref|ZP_02520086.1| RNA polymerase sigma factor RpoD [candidate division TM7 single-cell isolate TM7b] Length = 211 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 71/108 (65%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LA R + GD A ++ +++RLVV IA Y G GL ++ Sbjct: 54 YLREIGKIPLLSAEEEMELAHRVVQ-GDKKAKDKMAEANMRLVVSIAKRYSGRGLDFLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN GL++AV+KFDP++GF+ +TY+ WWI+ A+ I +++I Sbjct: 113 IQEGNTGLLRAVEKFDPDKGFKFSTYATWWIRQAITRAIADQARVIRI 160 >gi|300726043|ref|ZP_07059501.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299776650|gb|EFI73202.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 290 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 76/272 (27%), Positives = 140/272 (51%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI + PM+ +EE LA++ + G A +LVT++LR VV +A Y+ GL Sbjct: 18 LDKYLGEISRAPMISIEEEIDLAQQIKRGGREGERAKSKLVTANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ A+ + I +V++ NQ Sbjct: 78 TLTDLIDEGNIGLIKAAEKFDETRGFKFISYAVWWIRQAILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 +L ++ + + + ++++ ++ E E I+ + +G S++A Sbjct: 135 --VGSLSKVNQEINKFEQKYQRVPTIQELSQRTDIDE-EKIAQSMMASGKHVSIDAPFQE 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQEN 251 + NS D + D + ++ E N + +VLN RE I + + Sbjct: 192 GEDNS--MVDIMASGEDSRTDKEVDHESMSYDLNQVLE--TVLNEREITIIRDCFGIGCP 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + ++RERVRQI ++ K++ES Sbjct: 248 EKGLEEIGDLLGLTRERVRQIREKSITKLRES 279 >gi|116072877|ref|ZP_01470142.1| RNA polymerase sigma factor [Synechococcus sp. BL107] gi|116064403|gb|EAU70164.1| RNA polymerase sigma factor [Synechococcus sp. BL107] Length = 451 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 215 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 274 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 275 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 329 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 330 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 385 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 386 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 438 >gi|317176909|dbj|BAJ54698.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F16] Length = 671 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 492 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 546 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V N E ++ + + ++ D++ D I++ R++ + + Sbjct: 547 SLDKV--KNVIKVAKEPISLETPVGNDDDGKFGDFV---EDKNIVSSIDRIMREDLKAQI 601 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 602 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 657 >gi|238651104|ref|YP_002916962.1| RNA polymerase sigma factor RpoD [Rickettsia peacockii str. Rustic] gi|238625202|gb|ACR47908.1| RNA polymerase sigma factor RpoD [Rickettsia peacockii str. Rustic] Length = 634 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 75/252 (29%), Positives = 127/252 (50%), Gaps = 21/252 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 375 ERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 434 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N + L+ Q + + +P Sbjct: 435 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KILRTSRQMLNELGYEP-T 485 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA +L++ +V + ++A + SL + D + Q D++ D I+ Sbjct: 486 ATEIANRLSMPLDKVRKV-MKIAKEPISLENPV-GDDSDGGQLGDFI---EDKNAVAPID 540 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N R + R ++ L PRE R+ R TLE + +F+V+RER+RQIE++ Sbjct: 541 AAIQSNLREVTIRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK 600 Query: 276 AFKKVQESIQKQ 287 A +K+Q I+ + Sbjct: 601 ALRKLQHPIRSK 612 >gi|146739110|gb|ABQ42602.1| chloroplast RNA-polymerase sigma factor precursor [Heterosigma akashiwo] Length = 404 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 123/238 (51%), Gaps = 17/238 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLVV A Y+ G+ ++V EG GL +A +KFDP +GFR +TY+ WWIK Sbjct: 152 IINANLRLVVSTAKAYQYRGVSFQDLVQEGTCGLHKATEKFDPRKGFRFSTYATWWIKQG 211 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + +V++ + F++RR K + +L+ + +A+ ++ + Sbjct: 212 IMRAVTDQSRVVRLPVHVHDA--LFHIRRAKANFWT---EHLREPTLAELAEATGLTPQK 266 Query: 173 VISMNCRLAGDESLNALI------NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ + S++ + NS +K+ D + E E + ++ R Sbjct: 267 IVFYDTVKDKVSSIDKTVGIGTKTNSMEKSQIAISDMCKDSRNKPE----ETAQVESLRQ 322 Query: 227 MLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++R ++ L+PRE+ + R L + + TLE + S F V+RERVRQIEARA K+++ Sbjct: 323 DISRLINTLSPREQDVVRMRYGLDDGEIRTLEEIGSIFSVTRERVRQIEARALHKLRQ 380 >gi|78212231|ref|YP_381010.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9605] gi|78196690|gb|ABB34455.1| Sigma-70 factor [Synechococcus sp. CC9605] Length = 435 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 199 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 258 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 259 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 313 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 314 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 369 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 370 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 422 >gi|194477302|ref|YP_002049481.1| RNA polymerase sigma factor [Paulinella chromatophora] gi|171192309|gb|ACB43271.1| RNA polymerase sigma factor [Paulinella chromatophora] Length = 460 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 224 AKAKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 283 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 284 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 338 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 339 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 394 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 395 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 447 >gi|300113721|ref|YP_003760296.1| RNA polymerase sigma 70 subunit RpoD [Nitrosococcus watsonii C-113] gi|299539658|gb|ADJ27975.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus watsonii C-113] Length = 578 Score = 100 bits (248), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 76/248 (30%), Positives = 124/248 (50%), Gaps = 40/248 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A YR GL +++ EGNIGLM+AV KFD RG++ +TY+ WW Sbjct: 340 AKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQEGNIGLMKAVDKFDYHRGYKFSTYAHWW 399 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK-----RLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 I+ A+ I ++I +K R + LR+ KG +PE+ +A Sbjct: 400 IRQAITRAIDDQSRTIRIPVHVMEKLSKLNRASYQLRQEKG-------REGRPEE---LA 449 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++L++SE ++ M + K + L D D Q L+E E+ N Sbjct: 450 ERLDLSEQQIHRM--------------HEIAKQPISLETPLGKDEDSQLGELMEDEQVPN 495 Query: 224 RRNMLT---------RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 + R ++ L+PRE ++ R + TL ++ +F++SRER+RQI Sbjct: 496 PMEVAITAGLQTGAQRLLAALSPREAQVVAMRFGIGMDTDHTLGEVARQFDLSRERIRQI 555 Query: 273 EARAFKKV 280 EA+A K+ Sbjct: 556 EAQALGKL 563 >gi|312885799|ref|ZP_07745431.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] gi|311301606|gb|EFQ78643.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] Length = 285 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 74/270 (27%), Positives = 135/270 (50%), Gaps = 14/270 (5%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y++E+ + +L +EE VLA++ R GD +A RL ++LR VV +A Y+ GLP Sbjct: 17 SLETYLNELGRTDLLSAEEEVVLAQKIR-LGDQAALDRLTKTNLRFVVSVAKKYQHQGLP 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +S+++SEGN+GLM+A KKFD +GF+ +Y++WWI+ + I ++++ NQ Sbjct: 76 LSDLISEGNVGLMKAAKKFDETKGFKFISYAVWWIRQCILSAIAEHSRMIRL--PMNQ-- 131 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 ++ ++ L + + +A+ L SE +V S +A + D Sbjct: 132 -VGDITKMNKALALLEQQMERQPTTNELAEYLETSEDKVSDALYFATRTASYDAPFRTED 190 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 +N+ D L + + L+ ++ R +L S L R++ + + Sbjct: 191 ENN--LLDVLPGNEQATDHELMVLSNQQEVRQLL----STLTSRDQEVIRWTFGLDGKTA 244 Query: 255 LE--NLSSEFEVSRERVRQIEARAFKKVQE 282 L +++ +S ERVRQI +A + ++E Sbjct: 245 LPPIDIAPLLGISAERVRQIRNQALQTLRE 274 >gi|291298947|ref|YP_003510225.1| RpoD subfamily RNA polymerase sigma-70 subunit [Stackebrandtia nassauensis DSM 44728] gi|290568167|gb|ADD41132.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stackebrandtia nassauensis DSM 44728] Length = 330 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 89/306 (29%), Positives = 143/306 (46%), Gaps = 66/306 (21%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------------------EHGDL-----SAAHR 52 Y+HEI K P+L+ E LAK E G L A + Sbjct: 24 YLHEISKTPLLDAAAEVDLAKAVEAGLYAQRLIGDDQQPEGVTEAELGRLVLDGQKAKEQ 83 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA Y G+P+ +++ EGN GL++AV+KFD +RGF+ +TY+ WWI+ A Sbjct: 84 FIKANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYQRGFKFSTYATWWIRQA 143 Query: 113 MQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS- 169 + I + V++ + R+ R+L L A + +PEQ IA L V+ Sbjct: 144 ISRAIAQQERTVRLPVHLVEDVNRMRNTARQLTRELGA----DPEPEQ---IANALGVTV 196 Query: 170 ---------ESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +S++ + GD +L L+ SD+ + E V+I Sbjct: 197 ERVNELIRWSQDTVSLDTPIGDDGDTNLGDLVADSDEPTP-------------EDVVIAG 243 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARA 276 ER+ ML L+ R I +AR E+ +L ++ F +SRER+RQ+E +A Sbjct: 244 MERERIDMMLGH----LDERSAGIVKARYGLEDGREHSLTEVAHRFALSRERIRQLEIQA 299 Query: 277 FKKVQE 282 +++E Sbjct: 300 LARLKE 305 >gi|56750024|ref|YP_170725.1| group2 RNA polymerase sigma factor RpoD6 [Synechococcus elongatus PCC 6301] gi|56684983|dbj|BAD78205.1| group2 RNA polymerase sigma factor RpoD6 [Synechococcus elongatus PCC 6301] Length = 316 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 83/289 (28%), Positives = 142/289 (49%), Gaps = 33/289 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDL----------------------SAAHRL 53 +S Y+ I +IP+L +E L ++ + +L A R+ Sbjct: 26 VSWYLSSIGRIPLLTADQEIELGQKVQVMMNLLEETSSDRTFTEAETAAIQLGQRAKERM 85 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + ++LRLVV +A Y+G GL +++ EG +GL +AV+KFDP +G++ +TY+ WWI+ +M Sbjct: 86 IKANLRLVVSVAKKYQGKGLEFLDLIQEGALGLERAVEKFDPSKGYKFSTYAFWWIRQSM 145 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ ++ +R++ L A L Q +A A +L +++ E Sbjct: 146 TRAIACQSRTIRLPVHLTER--LSQIRKVTREL-AHELGRLPSRQEIAEAVQLPLNDLET 202 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 I R SL+A ++ D S + L+ D +G E + I E +R L + Sbjct: 203 ILRQSRQC--TSLDAPVSGEDGKS--FLGELIADPNGNEPMDI--MENAMQREQLDAWLE 256 Query: 234 VLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L P+ER++ R L + TL + EVSRERVRQ+E +A +K+ Sbjct: 257 HLTPQERQVLYLRFGLGDGERHTLAEIGRMMEVSRERVRQVEVKALRKL 305 >gi|310822395|ref|YP_003954753.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] gi|309395467|gb|ADO72926.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] Length = 245 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/259 (29%), Positives = 120/259 (46%), Gaps = 50/259 (19%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 GLS Y+ + L +++EY LA+ R+ GD SA L TS+L VV +A + G Sbjct: 11 GLSHYLRHLGGHHQLTREQEYELARAARK-GDESARQTLATSNLAFVVAVAKKFANRGAR 69 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+A++ FDP++ R ATY++WWI+A + Y+ + S V+ G Sbjct: 70 LDDLIQEGNVGLMKAIEHFDPKKNVRFATYAVWWIRAYITRYLKDNRSQVRGG------- 122 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 ESE SM D SL+A I+ + Sbjct: 123 -----------------------------------ESERGSMV-----DFSLDATID--E 140 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 + + + D L V + +E+ + L + + I + R Q+ P+T Sbjct: 141 EGETTFMDRLEDGGPSPSDVYLSREQDQEVHEALVKVRKRIGDLGWDILQERLTQDKPLT 200 Query: 255 LENLSSEFEVSRERVRQIE 273 LE L + VSRERVRQ+E Sbjct: 201 LEELGQRWGVSRERVRQVE 219 >gi|257438148|ref|ZP_05613903.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] gi|257199479|gb|EEU97763.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] Length = 461 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 80/262 (30%), Positives = 134/262 (51%), Gaps = 25/262 (9%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++ + +L + R G L+A L ++LRLVV IA + G+ L +++ EGNIGL Sbjct: 205 PLTEERRQELL--KIRRDG-LNARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGL 261 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFN-LRR 141 ++A +KFD +RGFR +TY+ WWI+ A+ I ++I T N+ R N L Sbjct: 262 IKAAEKFDCDRGFRFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVY 321 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 GH PE+ +AK +++S V + SL + + ++ S Sbjct: 322 QNGH-------EPTPEE---LAKAMDMSVERVREIQRMAQEPASLESPV--GEEEDSSLG 369 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLS 259 D++ D + + +R + +++ L PRE ++ R ++ P TLE + Sbjct: 370 DFVA---DENAEAPGKAADRAMVAQQINQALKSLTPREEKVIRLRFGLDDGRPRTLEEVG 426 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 +F V+RERVRQIEA+A +K+ Sbjct: 427 RDFGVTRERVRQIEAKAIRKLH 448 >gi|300114080|ref|YP_003760655.1| RpoD subfamily RNA polymerase sigma 70 subunit [Nitrosococcus watsonii C-113] gi|299540017|gb|ADJ28334.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nitrosococcus watsonii C-113] Length = 303 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 73/282 (25%), Positives = 138/282 (48%), Gaps = 36/282 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E K+P+L +EE A R GD A +R++ S+LR+V+K+A + GLP+ ++ Sbjct: 42 YMREAGKVPLLNAEEERYYA-RLALQGDREARNRIIESNLRIVIKVASRHVNRGLPLMDL 100 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK----- 133 + EGN+GL+ AV+KF+PE GFR +TY+ WWI+ A++ ++ +++ +K Sbjct: 101 IEEGNLGLINAVEKFNPELGFRFSTYASWWIRQAIERALMNQTRTIRLPVHVFKKIRSYQ 160 Query: 134 ------RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 R +N+ G + + L+ Q + L S + ++ + ++ L Sbjct: 161 KEVILFRQRYNIEPRSGEIAKLLHEPLERVQRYLSLQALETSLDDPLNEDT----EDCLA 216 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 L+ N + W ++D ++ + +S L R++ I + R Sbjct: 217 DLLPDERNNPALL--WEIFD----------------KKASIYNQLSQLPERQQEILKRRY 258 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + TLE + ++RERVRQI+ A K++++ I+ + Sbjct: 259 GLDGYEVTTLEEIGHNLGITRERVRQIQQAAIKRLRKIIESE 300 >gi|171464016|ref|YP_001798129.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171193554|gb|ACB44515.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 900 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/253 (30%), Positives = 119/253 (47%), Gaps = 33/253 (13%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR RE A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG Sbjct: 656 KRARE-----AKREMTVANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 710 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKGHLQAITDNN 153 ++ +TY+ WWI+ A+ I ++I T R+ + + GH Sbjct: 711 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGHEPDAATLA 770 Query: 154 LK---PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 LK PE + +K+ E +SM + DE S D++ DG Sbjct: 771 LKMEIPEDKI---RKIMKIAKEPVSMETPIGDDE------------DSHLGDFI---EDG 812 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRER 268 E + R+++ + L PRE ++ R E TLE + +F+V+RER Sbjct: 813 NTLAPAEAALHNSMRDVVKDVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRER 872 Query: 269 VRQIEARAFKKVQ 281 +RQIEA+A +K++ Sbjct: 873 IRQIEAKALRKMR 885 >gi|332528540|ref|ZP_08404528.1| RNA polymerase, sigma 70 subunit, rpod [Hylemonella gracilis ATCC 19624] gi|332042051|gb|EGI78389.1| RNA polymerase, sigma 70 subunit, rpod [Hylemonella gracilis ATCC 19624] Length = 784 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 124/236 (52%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 544 AAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 603 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + HLQ +P+ + +A+K+ Sbjct: 604 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPDASL-LAQKME 658 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D +E + R + Sbjct: 659 IPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTANTAPVEAAMQAGLREV 713 Query: 228 LTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE ++ R E + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 714 VKEILDGLTPREAKVLRMRFGIEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKLK 769 >gi|144900406|emb|CAM77270.1| RNA polymerase sigma factor rpod [Magnetospirillum gryphiswaldense MSR-1] Length = 664 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 81/275 (29%), Positives = 137/275 (49%), Gaps = 23/275 (8%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +V+GE GL I E R+I ++ E +K +E ++ ++LRLV+ IA Y Sbjct: 397 VVSGEAGLP--ITEFRRIIQTVQRGEREASKAKKE---------MIEANLRLVISIAKKY 445 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 446 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI-- 503 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + L R + PE+ +A+KL++ +V + ++A E ++ Sbjct: 504 PVHMIETINKLVRTSRQMLHEIGREPTPEE---LAEKLSMPLEKVRKV-LKIA-KEPISL 558 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR- 247 D+ S D++ D + ++ + N R TR ++ L PRE R+ R Sbjct: 559 ETPIGDEEDSHLGDFI---EDKNAVLPLDAAIQANLRETTTRVLASLTPREERVLRMRFG 615 Query: 248 -LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 616 IGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 650 >gi|81300366|ref|YP_400574.1| principal RNA polymerase sigma factor SigA [Synechococcus elongatus PCC 7942] gi|81169247|gb|ABB57587.1| principal RNA polymerase sigma factor SigA [Synechococcus elongatus PCC 7942] Length = 310 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 83/289 (28%), Positives = 142/289 (49%), Gaps = 33/289 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDL----------------------SAAHRL 53 +S Y+ I +IP+L +E L ++ + +L A R+ Sbjct: 20 VSWYLSSIGRIPLLTADQEIELGQKVQVMMNLLEETSSDRTFTEAETAAIQLGQRAKERM 79 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + ++LRLVV +A Y+G GL +++ EG +GL +AV+KFDP +G++ +TY+ WWI+ +M Sbjct: 80 IKANLRLVVSVAKKYQGKGLEFLDLIQEGALGLERAVEKFDPSKGYKFSTYAFWWIRQSM 139 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ ++ +R++ L A L Q +A A +L +++ E Sbjct: 140 TRAIACQSRTIRLPVHLTER--LSQIRKVTREL-AHELGRLPSRQEIAEAVQLPLNDLET 196 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 I R SL+A ++ D S + L+ D +G E + I E +R L + Sbjct: 197 ILRQSRQC--TSLDAPVSGEDGKS--FLGELIADPNGNEPMDI--MENAMQREQLDAWLE 250 Query: 234 VLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 L P+ER++ R L + TL + EVSRERVRQ+E +A +K+ Sbjct: 251 HLTPQERQVLYLRFGLGDGERHTLAEIGRMMEVSRERVRQVEVKALRKL 299 >gi|262273681|ref|ZP_06051494.1| RNA polymerase sigma factor RpoS [Grimontia hollisae CIP 101886] gi|262222096|gb|EEY73408.1| RNA polymerase sigma factor RpoS [Grimontia hollisae CIP 101886] Length = 246 Score = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 47/108 (43%), Positives = 73/108 (67%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 54 YLSEIGYSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 112 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 V EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 113 VEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 160 >gi|145596092|ref|YP_001160389.1| RpoD family RNA polymerase sigma factor [Salinispora tropica CNB-440] gi|145305429|gb|ABP56011.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora tropica CNB-440] Length = 332 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 88/307 (28%), Positives = 147/307 (47%), Gaps = 68/307 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------GDLSAAHRLVT-------- 55 Y+HEI + P+L+ E L+K Y EH + + RLV Sbjct: 40 YLHEISRTPLLDAATEVDLSKAIEAGLYAEHLLDEDRVPAGVEKAELQRLVAEGARAKDL 99 Query: 56 ---SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++LRLVV IA Y G+P+ +++ EGN GL++AV+KFD ERGF+ +TY+ WWI+ A Sbjct: 100 FIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVAIAKKLNVS 169 + I + V++ L ++ R++ + +T ++ +PEQ IA L V+ Sbjct: 160 ISRAIAQQERTVRLPV-----HLVEDVNRMRNVARQLTRELGSDPEPEQ---IATALGVT 211 Query: 170 ----------ESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +S++ + GD +L L+ SD S E +++ Sbjct: 212 VERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSP-------------EDIVLT 258 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEAR 275 ER+ +L S L+ R I AR E+ +L ++S F +SRER+RQ+E + Sbjct: 259 GLERQRIEGLL----SHLDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQ 314 Query: 276 AFKKVQE 282 A +++E Sbjct: 315 ALGRLRE 321 >gi|293392779|ref|ZP_06637097.1| DNA-directed RNA polymerase sigma subunit RpoS [Serratia odorifera DSM 4582] gi|291424638|gb|EFE97849.1| DNA-directed RNA polymerase sigma subunit RpoS [Serratia odorifera DSM 4582] Length = 202 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 72/108 (66%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 122 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 169 >gi|91204871|ref|YP_537226.1| RNA polymerase sigma factor RpoD [Rickettsia bellii RML369-C] gi|122426123|sp|Q1RKH7|RPOD_RICBR RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|91068415|gb|ABE04137.1| RNA polymerase sigma factor [Rickettsia bellii RML369-C] Length = 641 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 75/248 (30%), Positives = 127/248 (51%), Gaps = 21/248 (8%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ Sbjct: 386 LQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 445 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 WWI+ A+ I ++I T N + ++ Q + + +P I Sbjct: 446 WWIRQAITRAIADQARTIRIPVHMIETIN--------KIIRTSRQMLNELGYEPTP-AEI 496 Query: 163 AKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 A +L++ +V + ++A + SL + D N S D++ D I+ + Sbjct: 497 AARLSMPIDKVRKV-MKIAKEPISLENPVGDGDDN-SYLGDFI---EDKNAVAPIDAAIQ 551 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 N R + TR ++ L PRE R+ R TLE + +F+V+RER+RQIE++A +K Sbjct: 552 SNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRK 611 Query: 280 VQESIQKQ 287 +Q I+ + Sbjct: 612 LQHPIRSK 619 >gi|313647807|gb|EFS12253.1| RNA polymerase sigma factor rpoS [Shigella flexneri 2a str. 2457T] Length = 254 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 46/100 (46%), Positives = 70/100 (70%), Gaps = 1/100 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 159 >gi|258645217|ref|ZP_05732686.1| RNA polymerase sigma factor RpoD [Dialister invisus DSM 15470] gi|260402567|gb|EEW96114.1| RNA polymerase sigma factor RpoD [Dialister invisus DSM 15470] Length = 388 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 93/304 (30%), Positives = 145/304 (47%), Gaps = 47/304 (15%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-----------L 53 N S +N + + Y+ EI I +L +E LAK + A R L Sbjct: 100 NTSDSINIDDPVKMYLKEIGAIKLLTGSQEIELAKLVEKGSFDDATGRDKMAADEAKKAL 159 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 ++LRLVV IA Y G GL +++ EGN+GL++AV KFD +GF+ +TY+ WWI+ A+ Sbjct: 160 SDANLRLVVSIAKKYLGRGLQFLDLIQEGNLGLLKAVDKFDYTKGFKFSTYATWWIRQAI 219 Query: 114 QEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I +++ T N+ R+ L + KG + T+ L V++AK V Sbjct: 220 TRAIADQARTIRVPVHMVETINKLNRISRQLLQEKG--REATNEELAKAMGVSVAKIREV 277 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDH------DGQEQVLIEKEER 221 ++A D SL I +K S D+ + DH D +L+ Sbjct: 278 K---------KIAQDPISLETPI--GEKEDSHLGDF-IEDHEAIAPDDAAGSILL----- 320 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKK 279 R + + L RER++ E R L++ P TLE + F+V+RER+RQIE +A K Sbjct: 321 ---REQIDELLRELTDRERQVLELRFGLKDGRPRTLEEVGKYFDVTRERIRQIEGKALTK 377 Query: 280 VQES 283 +++S Sbjct: 378 LKKS 381 >gi|168703618|ref|ZP_02735895.1| transcription initiation factor sigma 70 [Gemmata obscuriglobus UQM 2246] Length = 521 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 124/237 (52%), Gaps = 16/237 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA YR GLP S+++ EGN GLM+AV K++ F+ TY+ WW++ Sbjct: 284 LAEANLRLVVSIAKNYRNRGLPFSDLIQEGNRGLMRAVDKYEWRLEFKFGTYATWWVRQG 343 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + V++ +Q L + +L+G L T E+ +A+ L V E Sbjct: 344 ITRALHDNARTVRV--PCHQISLLSRMEKLRGELTVATGREPTSEE---LAEALGVKPEE 398 Query: 173 VISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 S+ R+ G SLN + + + +D+L H ++ K R + + Sbjct: 399 ARSL--RIVGRHPVSLNDSVGGDGERA--LEDFLSDTHISPPGEHVDANLLKERIGEVLK 454 Query: 231 SMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 S++ PRER + E R L++ P TL+ ++ ++ ++RER+RQIEAR K+++ + Sbjct: 455 SLA---PREREVIELRFGLKDGTPKTLDEVAKQYGITRERIRQIEARGLLKLRQPTR 508 >gi|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] gi|254039966|gb|ACT56762.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] Length = 682 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 85/289 (29%), Positives = 138/289 (47%), Gaps = 49/289 (16%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 SI V I +S + H + M+ K E E +AK+ +V ++LRLV+ +A Sbjct: 415 SISVETGISISEFRH---IVSMVRKGECEASIAKK-----------EMVEANLRLVISVA 460 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GL +++ EGNIGLM+A +KFD G++ +TY+MWW+K A+ I ++ Sbjct: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 Query: 126 IGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVIS 175 I K ++ RR+ ++ PE++ + K L +++ E IS Sbjct: 521 IPVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAMPVEGVRKVLKITK-EPIS 575 Query: 176 MNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 + + GDE + L + DKN+ D + + N R TR ++ Sbjct: 576 LETPI-GDEDTSHLGDFIEDKNAVSPLDSAI---------------QANLRETTTRVLAS 619 Query: 235 LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 >gi|22298042|ref|NP_681289.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] gi|22294220|dbj|BAC08051.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 375 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 136/241 (56%), Gaps = 23/241 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++L+ ++LRLVV IA Y+ +G+ +++ EG++GL +AV+KFDP +GFR +TY+ WW Sbjct: 136 AKNQLLQANLRLVVNIAKKYQHHGVEFLDLIQEGSLGLERAVEKFDPTKGFRFSTYAYWW 195 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRL---KGHLQAITDNNLKPEQVVAIA 163 I+ ++ + +++ +K ++ RRL +G + ++ D IA Sbjct: 196 IRQSITRAVASQSRTIRLPIHMVEKLNKIKRAQRRLAAQRGAMPSLAD----------IA 245 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++LN+ S+V + + +L + S + ++ Q+ + ++V++ R++ Sbjct: 246 QELNLEVSQVRQVLMAVPKSVALEQRVGSDQE--TELQELIESPAPTPDEVIM----RES 299 Query: 224 RRNMLTRSMSVLNPRERRIFEARR-LQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + +S L+PRER++ E R L E P + L ++ +SRER+RQIE RA +K++ Sbjct: 300 LRTTLKQLLSDLSPRERQVMELRYGLGEQPALELAEVAVLLGLSRERIRQIEHRALQKLR 359 Query: 282 E 282 + Sbjct: 360 Q 360 >gi|33861053|ref|NP_892614.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33639785|emb|CAE18955.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 396 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 160 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 219 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 220 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 274 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 275 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVSKTLLREDLEG 330 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 331 VL----ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 383 >gi|225621460|ref|YP_002722719.1| R polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] gi|225216281|gb|ACN85015.1| R polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] Length = 309 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 123/240 (51%), Gaps = 22/240 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 S H+LV S+LRLV+ IA Y G+P +++ EGNIGL++AVK+F+ ++GF+ +TY +W Sbjct: 70 SIQHKLVKSNLRLVISIAKRYYNSGVPFIDIIDEGNIGLIEAVKRFEYKKGFKFSTYGVW 129 Query: 108 WIKAAMQEYILRSWSLVK-IGTTANQKRLFFNLRRL-KGHLQ---AITDNNLKPEQVVAI 162 WIK S+VK I + + R ++ RL K +Q +T + + I Sbjct: 130 WIKQ----------SIVKEISSKRHIIRFPMHIARLIKKSIQTSKTLTQKLGRDPTIDEI 179 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 +K++ + + + S+++ +SD N D D +K Sbjct: 180 SKEMKIDRKTLSYIMIFTQDTASVDSFFRNSDNN-----DMTSIIEDKNFPSPHQKAFMD 234 Query: 223 NRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R+ LT ++ L+ +ER + +R + TLE+ E ++RERVRQI+ +A KK+ Sbjct: 235 SLRDTLTEALKCLDEKERTVIISRYGLYGKEAKTLEDTGKELNITRERVRQIQIKAIKKL 294 >gi|163796954|ref|ZP_02190910.1| RNA polymerase sigma factor rpoD [alpha proteobacterium BAL199] gi|159177701|gb|EDP62252.1| RNA polymerase sigma factor rpoD [alpha proteobacterium BAL199] Length = 639 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 85/282 (30%), Positives = 136/282 (48%), Gaps = 37/282 (13%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++ + GL+ I E R+I + K RE G A +V ++LRLV+ IA Y Sbjct: 372 MISADAGLT--IGEFRRIVQ-------TVQKGEREAG--RAKKEMVEANLRLVISIAKKY 420 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 421 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 Query: 129 ----TANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSE--SEVISMNCRLA 181 T N +L R++ + + T L + V+ + K V + E IS+ + Sbjct: 481 HMIETIN--KLVRTSRQMLHEIGREPTPEELAEKLVMPLEKVRKVLKIAKEPISLETPIG 538 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 +E + DKN+ Q D ++ N R TR ++ L PRE R Sbjct: 539 DEEDSHLGDFIEDKNAVQPLDAAIH---------------ANLRETTTRVLASLTPREER 583 Query: 242 IFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 584 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 625 >gi|123965795|ref|YP_001010876.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9515] gi|123200161|gb|ABM71769.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] Length = 397 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 161 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 220 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 221 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 275 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 276 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVSKTLLREDLEG 331 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 332 VL----ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 384 >gi|91070600|gb|ABE11500.1| type II alternative RNA polymerase sigma factor, sigma-70 family [uncultured Prochlorococcus marinus clone HOT0M-8F9] Length = 340 Score = 99.8 bits (247), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 78/284 (27%), Positives = 141/284 (49%), Gaps = 31/284 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL--------------------SAAHRLVTSHL 58 Y+ I ++P+L EE LA + L + R++ ++L Sbjct: 56 YLSSIGRVPLLTPAEEIELAHHVQNMKKLLQIPETDRTQRNLYQIKIGKKSRDRMMAANL 115 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 116 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 175 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 S +++ ++K +RR+ + ++ + + +A ++ + + ++ + Sbjct: 176 NSARTIRLPIHISEK--LSKMRRVS---RELSHKFGRQPTRLEMATEMGIDQKDLEDLIS 230 Query: 179 RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 + A SL+A + S+ + L+ D + +E +E +R ++ L +S LN R Sbjct: 231 QSAPCASLDAHARGEEDRSTLGE--LIPDPNCEEP--MEGMDRTIQKEHLGTWLSQLNER 286 Query: 239 ERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 E++I + R E P+TL + + VSRERVRQ+EA+A K+ Sbjct: 287 EQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKL 330 >gi|87302644|ref|ZP_01085461.1| RNA polymerase sigma factor [Synechococcus sp. WH 5701] gi|87282988|gb|EAQ74945.1| RNA polymerase sigma factor [Synechococcus sp. WH 5701] Length = 469 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 233 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 292 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 293 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 347 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 348 TIEKLRFIAKSAQLP--ISLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEG 403 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 404 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 456 >gi|297199501|ref|ZP_06916898.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] gi|297147415|gb|EDY56986.2| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] Length = 428 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 90/295 (30%), Positives = 144/295 (48%), Gaps = 42/295 (14%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AA 50 +Y+ EI +IP+L EE LA+R E G DL A Sbjct: 134 QYLREIGRIPLLTAVEEVELARRV-EAGLFAEEKLSSTPDLDSQLALDLDRLVVLGRMAK 192 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 193 RRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIR 252 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 AM + +++ + L + R++ + PE+V A L+++ Sbjct: 253 QAMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGYEPTPEEVAA---HLDLA- 306 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E +S RLA + SL+A + D + D + DG +E R L Sbjct: 307 PERVSEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLREHLE 361 Query: 230 RSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R L + TLE + F V+RER+RQIE++ K+++ Sbjct: 362 AVLSTLGERERKVVQLRYGLADGRARTLEEIGRIFGVTRERIRQIESKTLNKLRD 416 >gi|255994475|ref|ZP_05427610.1| RNA polymerase sigma factor RpoD [Eubacterium saphenum ATCC 49989] gi|255993188|gb|EEU03277.1| RNA polymerase sigma factor RpoD [Eubacterium saphenum ATCC 49989] Length = 447 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 85/313 (27%), Positives = 151/313 (48%), Gaps = 51/313 (16%) Query: 9 IVNGEIGLSR----YIHEIRKIPMLEKQEEYVLAKR------------------------ 40 IV IG+ Y+ EI ++P+L ++EE +LA + Sbjct: 133 IVRTSIGIDDPVKMYLKEIGQVPLLTREEEKILATQVKHALAKQNEIRERLERLKEGSAT 192 Query: 41 YREHGDL---------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 Y++ L A H+L ++LRLVV IA ++ G+ +++ EGN+GLM+AV Sbjct: 193 YKKEMKLLDEYKQDYNKAMHQLCEANLRLVVSIAKNHKDRGMHFLDLIQEGNLGLMKAVD 252 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +R F+ +TY+ WWI+ A+ I ++I + L R+ L Sbjct: 253 KFDVDRNFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETIHKLTRISRTLLQELG 310 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDG 210 KPE+ IAK+++++ +V + R++ + SL I ++ S D++ D Sbjct: 311 REPKPEE---IAKEMDITTEKVRDI-LRISQEPVSLEKPI--GEEEDSHLGDFI---PDT 361 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRER 268 + ++ R+ L ++ L RER + + R + TLE + +F+V+RER Sbjct: 362 EVPSPLDVAFSSMLRDELLEVLNTLGERERNVLKLRFGLVDGKQRTLEEVGKQFDVTRER 421 Query: 269 VRQIEARAFKKVQ 281 +RQIE++A +K++ Sbjct: 422 IRQIESKAIRKLK 434 >gi|113477826|ref|YP_723887.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] gi|110168874|gb|ABG53414.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 384 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 71/253 (28%), Positives = 129/253 (50%), Gaps = 33/253 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +R H +A R+++S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ Sbjct: 136 HRLHQCRTAKRRMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYK 195 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDNNLK 155 +TY+ WWI+ + I +++ + +R++ +LRR + D + Sbjct: 196 FSTYAYWWIRQGITRTIANQGRTIRLPVHVVEQINKLRRVYRDLRRSLNRIP--NDTEIA 253 Query: 156 PEQVVAIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSS----QWQDWLVYDHD 209 E +++ + N+ + + +S+N RL DE+ L D +S Q D ++ Sbjct: 254 QELEISLPQLRNLQQIRRKTLSLNHRLGTDENTELLDFLEDNENSTPEAQMNDMMM---- 309 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRE 267 R+++L VL+ RE+ + R + P TL+ +S +SRE Sbjct: 310 --------------RQDILEVLNHVLSNREQDVISLRYGLITGEPHTLDEVSRMINLSRE 355 Query: 268 RVRQIEARAFKKV 280 RVRQI+A+A +K+ Sbjct: 356 RVRQIQAKAMRKL 368 >gi|126695861|ref|YP_001090747.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9301] gi|126542904|gb|ABO17146.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] Length = 394 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 158 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 217 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 218 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 272 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 273 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVSKTLLREDLEG 328 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 329 VL----ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 381 >gi|300867798|ref|ZP_07112441.1| RNA polymerase sigma factor RpoD [Oscillatoria sp. PCC 6506] gi|300334215|emb|CBN57613.1| RNA polymerase sigma factor RpoD [Oscillatoria sp. PCC 6506] Length = 391 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 132/248 (53%), Gaps = 17/248 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A R+R H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+ Sbjct: 144 AFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEK 203 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP 156 G++ +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP Sbjct: 204 GYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKP 258 Query: 157 -EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E+ +A ++ + + I+ + +L SL I + S+ D++ D + E + Sbjct: 259 TEEEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQV 314 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 + R++ L + L+PRER + R ++ TLE + F V+RER+RQIE Sbjct: 315 SKNLLRED----LESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIE 370 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 371 AKALRKLR 378 >gi|33946401|gb|AAQ55816.1| truncated stationary phase specific sigma factor [Pseudomonas syringae] Length = 252 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 57/163 (34%), Positives = 94/163 (57%), Gaps = 3/163 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 66 YLNEIGFSPLLSPAEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 124 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L Sbjct: 125 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVY 183 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 LR + Q + D+ PE++ + +K ++ +N R++ Sbjct: 184 LRAARELTQKL-DHEPSPEEIANLLEKPVAEVKRMLGLNERVS 225 >gi|1621026|gb|AAB17121.1| RpoS [Yersinia enterocolitica] Length = 277 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 65/205 (31%), Positives = 108/205 (52%), Gaps = 13/205 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Y GL + ++ Sbjct: 62 YLGEIGYSPLLTAEEEVYFARRAL-RGDVPSRRRMIESNLRLVVKIARRYSNRGLALLDL 120 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+ L++AV+KFDPE GFR +TYS WWI+ ++ I+ +++ + ++F Sbjct: 121 IEEGNLCLIRAVEKFDPEPGFRFSTYSHWWIRQTIERAIMNQTRTIRLPIHIVKELNVYF 180 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD + L Sbjct: 181 GTARELSHKLDHEPSAEEIAEQLNKPVDDVSRMLRLN---ERITSVDTPLGGDSEKSLLD 237 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVL 215 SD+N + +D D D ++ ++ Sbjct: 238 ILSDENENGPED-TTQDDDMKQSIV 261 >gi|254525463|ref|ZP_05137515.1| sigma-70 factor [Prochlorococcus marinus str. MIT 9202] gi|221536887|gb|EEE39340.1| sigma-70 factor [Prochlorococcus marinus str. MIT 9202] Length = 393 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 217 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 271 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 272 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVSKTLLREDLEG 327 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 328 VL----ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 380 >gi|158340954|ref|YP_001522121.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158311195|gb|ABW32807.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 79/279 (28%), Positives = 132/279 (47%), Gaps = 37/279 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ + P+L +EE LA++ + GDL A R++ +LRLVV IA ++ GLP+ ++ Sbjct: 11 YLKEMGRYPLLSHEEEIRLARQVKA-GDLKAKQRMIECNLRLVVSIAKKHQHLGLPLMDL 69 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF- 137 + EG+IGL AV KFD +G + +TY+ WWI A++ + +Q R + Sbjct: 70 IQEGSIGLNTAVDKFDLAQGCKFSTYAYWWISEAIKRAL------------KSQSRTIYI 117 Query: 138 ------NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 R+K ++ +T + + ++ + S + + SL+ + Sbjct: 118 PIHQWERAHRIKKAVRQLTQEKGRTPTLKELSAATGIKSSLIRNTLQSFQAVSSLDQPVG 177 Query: 192 SSDKNS----SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 K++ Q +D + DG E IE + LTR M+ L RER I + R Sbjct: 178 PEQKDALIDLIQTEDAALSIMDGLE---IE--------DALTRCMAYLTERERFIVDQRY 226 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P ++ + + VSRERVRQI A KK+ + Sbjct: 227 GLTDGQPKSMGVIGKQIGVSRERVRQILNIAMKKMTRQV 265 >gi|217034615|ref|ZP_03440022.1| hypothetical protein HP9810_881g8 [Helicobacter pylori 98-10] gi|216942910|gb|EEC22397.1| hypothetical protein HP9810_881g8 [Helicobacter pylori 98-10] Length = 671 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-ITDNNLKPEQVVAIAKKLN 167 IK A+ I ++I + + R+ ++ I +N +P+ Sbjct: 492 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDL--------- 537 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE------- 220 EV++ RL+ D+ N + K + + D DG+ +E + Sbjct: 538 ----EVVAEEVRLSLDKVKNVI--KVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDH 591 Query: 221 --RKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 592 IMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 651 Query: 276 AFKKVQ 281 A KK++ Sbjct: 652 AIKKLR 657 >gi|220906934|ref|YP_002482245.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 7425] gi|219863545|gb|ACL43884.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 378 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 132/246 (53%), Gaps = 17/246 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R+R H A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G+ Sbjct: 133 RHRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGY 192 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-E 157 + +TY+ WWI+ A+ I +++ L+ + R+K + ++ + KP E Sbjct: 193 KFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTE 247 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +A ++ + + I+ + +L SL I + S+ D++ D + E + + Sbjct: 248 EEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSK 303 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEAR 275 R++ L + L+PRER + + R ++ TLE + F V+RER+RQIEA+ Sbjct: 304 NLLRED----LETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAK 359 Query: 276 AFKKVQ 281 A +K++ Sbjct: 360 ALRKLR 365 >gi|1405331|dbj|BAA11832.1| chloroplast RNA polymerase sigma subunit [Cyanidium caldarium] Length = 591 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 118/236 (50%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+VT++LRLVV IA Y G+ + +++ EG+IGL++ V+KFD ERGFR +TY+ WW Sbjct: 352 AKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLIRGVEKFDAERGFRFSTYATWW 411 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ I S +++ + + ++ +A+ +P I + + + Sbjct: 412 IRQSITRAISDSSRSIRLPVHVHD-----TISLIRKQTKALQVELGRPPSEEEICESVGI 466 Query: 169 SESEV-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 ++ + M C SL + S D + + + +E R R Sbjct: 467 DRAKYRLVMECS-RNIVSLETPLRSGDDVHFLGESLIAPEERAEENC-----SRDTLRES 520 Query: 228 LTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + L+ RER + R P TLE + S F V+RER+RQIE++A KK++ Sbjct: 521 IEKVLHCLSTREREVIRMRFGLTDGRPRTLEEVGSRFNVTRERIRQIESKALKKLR 576 >gi|304383076|ref|ZP_07365551.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] gi|304335762|gb|EFM02017.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] Length = 290 Score = 99.4 bits (246), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 76/272 (27%), Positives = 137/272 (50%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI + P++ EE LA++ ++ G A +LVT++LR VV +A Y+ GL Sbjct: 18 LDKYLVEIGRAPLISIDEEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 78 TLTDLIDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 +L ++ + N + V ++ ++ E E I + G S++A Sbjct: 135 --VGSLNKINHEINKFEQENQRHPSVSELSDVTHIDE-EKIGQSLMADGHHVSIDAPFQE 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQEN 251 ++N D + D + L++ E N T VL RE I E + + Sbjct: 192 GEENC--MLDVMAGGEDSRTDRLVDHESMAQELN--TVLCKVLKDREITIIRECFGIGCH 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + ++RERVRQI ++ K+++S Sbjct: 248 EKGLEEIGDRLGLTRERVRQIREKSIAKLRDS 279 >gi|91216377|ref|ZP_01253344.1| RNA polymerase sigma factor rpoD (Sigma-A) [Psychroflexus torquis ATCC 700755] gi|91185515|gb|EAS71891.1| RNA polymerase sigma factor rpoD (Sigma-A) [Psychroflexus torquis ATCC 700755] Length = 287 Score = 99.4 bits (246), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 77/280 (27%), Positives = 142/280 (50%), Gaps = 33/280 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI K+ ++ +EE LA++ + DL A +L ++LR VV ++ Y+ GL + Sbjct: 18 LDKYLQEIGKVDLITAEEEVELAQKIKAGDDL-ALEKLTKANLRFVVSVSKQYQNQGLTL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q ++R L KIG+ Sbjct: 77 PDLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILSALAEQSRVVR-LPLNKIGSI 135 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA- 188 + F L + + +P IAK+L ++ ++V S++A Sbjct: 136 NKINKTFAILEQ----------RHQRPPSPDEIAKELEMTVNDVKESLKNSGRHLSMDAP 185 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 LI D N D L + + + E + + R++ L RE + RL Sbjct: 186 LIEGEDSN---LYDVLKFGESPNPENDLLHESLQTE---IERALETLTTREADVI---RL 236 Query: 249 -----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + P+TLE + F ++RERVRQI+ + ++++ + Sbjct: 237 YFGLGNQQPMTLEEIGETFGLTRERVRQIKEKGVRRLKHT 276 >gi|5921146|dbj|BAA84590.1| RNA polymerase sigma 70 [Helicobacter pylori] Length = 675 Score = 99.4 bits (246), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 71/246 (28%), Positives = 119/246 (48%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 436 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 496 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 550 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 S +V IS+ + D+ DKN + D ++ Sbjct: 551 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIASSIDHIM------------- 597 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 598 --REDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 655 Query: 276 AFKKVQ 281 A KK++ Sbjct: 656 AIKKLR 661 >gi|300870272|ref|YP_003785143.1| DNA directed RNA polymerase sigma subunit [Brachyspira pilosicoli 95/1000] gi|300687971|gb|ADK30642.1| DNA directed RNA polymerase sigma subunit [Brachyspira pilosicoli 95/1000] Length = 284 Score = 99.4 bits (246), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 77/276 (27%), Positives = 139/276 (50%), Gaps = 27/276 (9%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 +S Y + ++ +L ++EE L +R ++ GD A +L+ S+LR V+ IA Y+ GL Sbjct: 15 NISLYFADAKREKLLTREEEIELTQRLKK-GDSQARAKLIRSNLRFVISIAKQYKNSGLL 73 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GL+ A +FDP++G+ +Y+++WI+ ++ I L+++ N+ Sbjct: 74 LEDLIGEGNLGLIIATDRFDPDKGYHFISYAVYWIRQSILRAINEKSRLIRL--PLNKAM 131 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN---CRLAGDESLNALIN 191 +L R T + E + AI KK ++SMN L D +++ + + Sbjct: 132 DLVDLERAVHQCYYKTGHMPDVEDLAAILKKEPREIRNIMSMNNEYVSLEKDFNMDGVKD 191 Query: 192 S-----SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 DKNS +D L D + E++ I EE L+ E+ I AR Sbjct: 192 RLADVVEDKNSKTVEDILS-DKELTEELKIAMEE--------------LSDIEKEIINAR 236 Query: 247 R-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + TL+ + ++ ++ER+RQIE +A KK+ Sbjct: 237 YGLDQEKKTLKEVGEKYSFTKERIRQIEKKALKKMH 272 >gi|123968088|ref|YP_001008946.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. AS9601] gi|123198198|gb|ABM69839.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] Length = 394 Score = 99.4 bits (246), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 158 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 217 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 218 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 272 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 273 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVSKTLLREDLEG 328 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 329 VL----ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 381 >gi|1542976|gb|AAB08043.1| sigma factor [Thermoanaerobacterium thermosulfurigenes] Length = 261 Score = 99.4 bits (246), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 79/260 (30%), Positives = 138/260 (53%), Gaps = 22/260 (8%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L K+EE +L +R R +GD SA LV ++RLV K+A G+ G+ ++V EG IGL+ Sbjct: 4 LLTKEEEKILFERLR-NGDESAKDVLVECNIRLVDKVAAGFLKSGVEFDDLVQEGLIGLL 62 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLF---FNLRRL 142 A+ KFD +G++ +TY+ W+I+ +M+ YI ++++ N+K R+ + + + Sbjct: 63 TAIDKFDHTKGYKFSTYATWYIQQSMRRYIGNYGKIIRLPIHINEKINRILKARYLIEQK 122 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 KG L A T+ I++ +E E+ SLN +N ++ ++ + Sbjct: 123 KGSL-ATTEE---------ISRLTGYTEEEIEGYLSYATDVISLNQYVN-DERVDAELIN 171 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPVTLENLSSE 261 ++ D E++ IEKE +K R +L L RER I + R N TL + + Sbjct: 172 FIQDDTIDVEEMAIEKEIKKEIRKIL----DSLPERERMILKMRFGFGCNLKTLTEIGNI 227 Query: 262 FEVSRERVRQIEARAFKKVQ 281 F ++RER+RQI+ K+++ Sbjct: 228 FGLTRERIRQIQNNTIKELR 247 >gi|333030005|ref|ZP_08458066.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides coprosuis DSM 18011] gi|332740602|gb|EGJ71084.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides coprosuis DSM 18011] Length = 286 Score = 99.4 bits (246), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 79/280 (28%), Positives = 145/280 (51%), Gaps = 34/280 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+R ++ GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQRIKK-GDRVALEKLTKANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTT 129 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ Q I+R L ++G+ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNQVGSL 135 Query: 130 ANQKRLFFNLRR---LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 + F + + Q + D P V + L VS IS++ E Sbjct: 136 NKISKAFAKFEQEYERRPSPQELADELEMP--VDKVTDTLKVS-GRHISVDAPFVEGED- 191 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---F 243 N+L++ + S D + + E++ R++S L RE++I F Sbjct: 192 NSLLDVLVNDDSPMADRSLVNESLSEEI--------------DRALSTLEDREKQIIKMF 237 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 QE +TLE + +F ++RERVRQI+ +A ++++++ Sbjct: 238 FGIGCQE--MTLEEIGDKFGLTRERVRQIKEKAIRRLRQN 275 >gi|307721137|ref|YP_003892277.1| RNA polymerase, sigma 70 subunit, RpoD [Sulfurimonas autotrophica DSM 16294] gi|306979230|gb|ADN09265.1| RNA polymerase, sigma 70 subunit, RpoD [Sulfurimonas autotrophica DSM 16294] Length = 615 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 76/233 (32%), Positives = 125/233 (53%), Gaps = 13/233 (5%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WWI+ Sbjct: 379 KMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYQKGYKFSTYATWWIRQ 438 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ I ++I + N + ++ HLQ +N +P+ V IAK++ +S Sbjct: 439 AISRAIADQARTIRIPIHMIETINRIN-KIMRKHLQ---ENGKEPD-VDTIAKEVGLSVE 493 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +V ++ SL A I S D ++ D++ I K+ + R + + Sbjct: 494 KVKNVIKITKEPISLEAPIGSED--DGRFGDFIEDKTSLSPSDAILKD---DLRIQIEQV 548 Query: 232 MSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 549 LEQLNEREKAVIKLRFGIMDDESDRTLEEIGKELSVTRERVRQIESSAIKKLK 601 >gi|86608944|ref|YP_477706.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)] gi|86557486|gb|ABD02443.1| RNA polymerase sigma-70 factor family [Synechococcus sp. JA-2-3B'a(2-13)] Length = 320 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 84/295 (28%), Positives = 153/295 (51%), Gaps = 21/295 (7%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLR 59 NR + + +G+ ++ E+ + P+L ++E L + E G A LV ++LR Sbjct: 31 NRATQASLSEDSVGV--FLREMARYPLLNAEQEVKLGRLIAEGGAAGERAKRELVRANLR 88 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 LVV IA Y G+P +++ EG IGL++A +KF+ ERG++ +TY+ WWI+ + + Sbjct: 89 LVVSIAKKYLNRGVPFLDLIQEGTIGLIRAAEKFEYERGYKFSTYAYWWIRQGITRAVAN 148 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 LV+I +K ++R++ L N +P Q IA+ L +S ++ ++ Sbjct: 149 QGRLVRIPVHMVEK--LNQVKRIRRELTETL--NRRPTQ-AEIAEALEISPDKLDALLTL 203 Query: 180 L-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM---LTRSMSVL 235 L AG ++L +L K + L+ D + + E + + + L + L Sbjct: 204 LEAGRQTL-SLHTPVGKEEDRELMQLIEDANS-----LTPESQMDLHLLSAQLEEMLEQL 257 Query: 236 NPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +PRE+ I + R L++ + TL + F +SRERVRQI+ARA +K++ ++++ Sbjct: 258 SPREQEILKLRYGLKDGHLHTLSEIGQLFGLSRERVRQIQARAMRKLRHPRRQEI 312 >gi|110798581|ref|YP_696687.1| RNA polymerase sigma factor RpoD [Clostridium perfringens ATCC 13124] gi|15186722|dbj|BAB62883.1| RNA polymerase major sigma factor [Clostridium perfringens] gi|110673228|gb|ABG82215.1| RNA polymerase sigma factor RpoD [Clostridium perfringens ATCC 13124] Length = 366 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 77/265 (29%), Positives = 137/265 (51%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+ +L ++E LAK+ E G A +L ++LRLVV IA Y G G+ ++ Sbjct: 100 YLKEIGKVQLLSSEDEIELAKKI-EEGSNYAKKKLAEANLRLVVSIAKRYVGRGMLFLDL 158 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 159 IQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 216 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R++ L + PE+ ++K++++ +V + ++A E ++ ++ S Sbjct: 217 LIRIQRQLVQELGRDPLPEE---LSKQMDMPVDKVREI-LKIA-QEPVSLETPIGEEEDS 271 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D K + L + L PRE ++ R ++ TLE Sbjct: 272 HLGDFIPDDDAPAPAEAAAFTMLKEQ---LINVLDTLTPREEKVLRLRFGLDDGRARTLE 328 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 329 EVGKEFNVTRERIRQIEAKALRKLR 353 >gi|159904372|ref|YP_001551716.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159889548|gb|ABX09762.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9211] Length = 338 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 78/273 (28%), Positives = 145/273 (53%), Gaps = 16/273 (5%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRG 70 EI L+ ++ +++++ +EK++ L+ R R + A R++ ++LRLVV +A Y+ Sbjct: 69 EIELAHHVQKMKELLDIEKEK---LSARQRHQIRMGKRARDRMMAANLRLVVSVAKKYQN 125 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I S +++ Sbjct: 126 QGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHI 185 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 ++K +RR+ + ++ + V +A + + ++ + + A SL++ Sbjct: 186 SEK--LSKMRRIS---RELSHRFGRQPNRVELANAMGIEPQDLEDLVAQSAPCASLDSHA 240 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RL 248 + S+ + L+ D + E + +RK ++ L +S LN RE++I R Sbjct: 241 RGEEDRSTLGE--LIPDPNYDEP--MAGMDRKMQKEHLGGWLSQLNEREQKIMRLRFGLD 296 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 297 GEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 329 >gi|113475621|ref|YP_721682.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] gi|110166669|gb|ABG51209.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 410 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 126/238 (52%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A H++++++LRLVV IA Y+ G+ + +++ EG +GL +AV+KFDP+RG+R +TY+ Sbjct: 169 IEARHQMISTNLRLVVSIAKKYQNRGVELLDLIQEGTLGLERAVEKFDPQRGYRFSTYAY 228 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ ++K L ++K Q I +V IA++L Sbjct: 229 WWIRQGITRAIATQSRTIRLPIHVSEK-----LNKIKKVQQKIFQEKGYTAKVEEIAREL 283 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++V + ++ SL + ++ + L E++LI R++ Sbjct: 284 KITAAQVREVLVKIPHSVSLETKVGRD--RDTELGELLETKDASPEEMLI----RESLVQ 337 Query: 227 MLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L + L RER + R E+ +L ++S ++SRERVRQIE +A K+++ Sbjct: 338 ALKELLLDLTQRERYVITMRYGLEDGRACSLSEIASALKLSRERVRQIEVKALHKLRQ 395 >gi|107103136|ref|ZP_01367054.1| hypothetical protein PaerPA_01004205 [Pseudomonas aeruginosa PACS2] Length = 236 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 125/243 (51%), Gaps = 26/243 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ I+ +++ K L LR + L D+ PE++ + +K Sbjct: 61 IERAIMNQTRTIRLPIHV-VKELNVYLRAAR-ELTHKLDHEPSPEEIANLLEKPVAEVKR 118 Query: 173 VISMNCRLA------GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ +N R+ G +S L+++ + L+ D D E + Sbjct: 119 MLGLNERVTSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLSESI------------ 166 Query: 227 MLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ L ++R + R R E+ TLE + E ++RERVRQI+ A K+++E Sbjct: 167 --DQWLTELTDKQREVVIRRFGLRGHESS-TLEEVGQEIGLTRERVRQIQVEALKRLREI 223 Query: 284 IQK 286 ++K Sbjct: 224 LEK 226 >gi|162458769|ref|NP_001105507.1| sigma-like factor6 [Zea mays] gi|4336610|gb|AAD17856.1| sigma factor SIG6 [Zea mays] Length = 541 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 126/247 (51%), Gaps = 30/247 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+ RLV+ +A Y G GL I ++V +G GLM+ +KF+P +G R TY+ WWI+ Sbjct: 304 KMARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRFPTYAYWWIRQ 363 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVA------IAK 164 ++++ I ++ L+++ + ++ LR++ K ++ I D +VVA I K Sbjct: 364 SIKKSIFKNSRLIRLPES-----VYALLRKVGKARMECIMDGEQPTNEVVARRAGITIEK 418 Query: 165 --KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 KL +V SM R+ D+ + + D N +G E + R+ Sbjct: 419 LAKLRAKTRKVRSMQDRVWSDDGVTYQEITEDPNI-----------EGPEVSVDRLMMRQ 467 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+ LT +L+PRE+ I E R + P TL + + +S+ER+RQ++ +A K+ Sbjct: 468 QVRSFLT---GILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDKL 524 Query: 281 QESIQKQ 287 + SI Q Sbjct: 525 RNSISAQ 531 >gi|332527902|ref|ZP_08403939.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] gi|332112479|gb|EGJ12272.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] Length = 734 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 119/241 (49%), Gaps = 12/241 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ + Sbjct: 489 EKASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 548 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I ++I + N R + HLQ +P+ + Sbjct: 549 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQEF---GFEPD-APTL 603 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A+K+ + E ++ + E ++ D + S D++ D ++ + Sbjct: 604 AEKMEIPEDKI--RKIMMIAKEPISMETPIGDDDDSHLGDFI---EDTNNVAPVDAAMQA 658 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R ++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 659 GLREVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKAIRKL 718 Query: 281 Q 281 + Sbjct: 719 K 719 >gi|299131999|ref|ZP_07025194.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Afipia sp. 1NLS2] gi|298592136|gb|EFI52336.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Afipia sp. 1NLS2] Length = 709 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 80/268 (29%), Positives = 131/268 (48%), Gaps = 17/268 (6%) Query: 21 HEIRKIPMLEKQE-----EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 HEI+++ L E + VL + E A +V ++LRLV+ IA Y GL Sbjct: 438 HEIQQLAALTGLEIGEFRKIVLGVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQF 497 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + Sbjct: 498 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIET 555 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + R + PE+ +A+KL + +V + ++A E L+ D+ Sbjct: 556 INKIVRTSRQMLNEIGREPTPEE---LAEKLGMPLEKVRKV-LKIA-KEPLSLETPVGDE 610 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPV 253 S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 611 EDSHLGDFI---EDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDH 667 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 668 TLEEVGQQFSVTRERIRQIEAKALRKLK 695 >gi|78778882|ref|YP_396994.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9312] gi|78712381|gb|ABB49558.1| Sigma-70 factor [Prochlorococcus marinus str. MIT 9312] Length = 393 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 217 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 271 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 272 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVSKTLLREDLEG 327 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 328 VL----ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 380 >gi|282891123|ref|ZP_06299627.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str. Hall's coccus] gi|281498940|gb|EFB41255.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str. Hall's coccus] Length = 546 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 118/239 (49%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 304 AKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 363 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A Sbjct: 364 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGREPSPEE---LAN 414 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + D SQ+ D+L D E Sbjct: 415 ELGITAERVREIYKIAQHPISLQAEVG--DGGESQFGDFL---EDTGADSPAEATGYSIL 469 Query: 225 RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ + ++ L RER++ R L P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 470 KDKMNEVLATLTDRERKVLIQRFGLLDGKPKTLEEVGVEFNVTRERIRQIEAKALRKMR 528 >gi|166363676|ref|YP_001655949.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] gi|166086049|dbj|BAG00757.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 414 Score = 99.4 bits (246), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 123/237 (51%), Gaps = 13/237 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV +A Y+ GL + +++ EG +GL +AVKKFDP +G+R +TY+ WW Sbjct: 175 AKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVKKFDPTKGYRFSTYAYWW 234 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ M I ++++ +K L R+K + I+ + V IA++L + Sbjct: 235 IRQGMTRAIATKSQIIRLPVHITEK-----LNRIKKAQRKISQMRGRTATVEEIAQELAL 289 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + V + + SL I + ++ D L + E + + +++ R +L Sbjct: 290 TPEAVRELLMTVPRSVSLE--IKVGKEKDTELLDLLEIEAVSSENHFVYESLQRDIRELL 347 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L RER + E R L +L ++ E+SRERVRQIE +A +K+++S Sbjct: 348 ----ADLTAREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIELKALQKLRQS 400 >gi|126727888|ref|ZP_01743716.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] gi|126702829|gb|EBA01934.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] Length = 661 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 121/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 422 AAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 481 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R + PE+ +AKKL Sbjct: 482 WIRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAKKLQ 536 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 537 MPLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKET 591 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 592 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 647 >gi|157412913|ref|YP_001483779.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9215] gi|157387488|gb|ABV50193.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] Length = 393 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 217 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 271 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + EQ + + R++ Sbjct: 272 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVSKTLLREDLEG 327 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 328 VL----ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 380 >gi|194696078|gb|ACF82123.1| unknown [Zea mays] gi|323388703|gb|ADX60156.1| SIGMA70-like transcription factor [Zea mays] Length = 541 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 126/247 (51%), Gaps = 30/247 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+ RLV+ +A Y G GL I ++V +G GLM+ +KF+P +G R TY+ WWI+ Sbjct: 304 KMARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRFPTYAYWWIRQ 363 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVA------IAK 164 ++++ I ++ L+++ + ++ LR++ K ++ I D +VVA I K Sbjct: 364 SIKKSIFKNSRLIRLPES-----VYALLRKVGKARMECIMDGEQPTNEVVARRAGITIEK 418 Query: 165 --KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 KL +V SM R+ D+ + + D N +G E + R+ Sbjct: 419 LAKLRAKTRKVRSMQDRVWSDDGVTYQEITEDPNI-----------EGPEVSVDRLMMRQ 467 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+ LT +L+PRE+ I E R + P TL + + +S+ER+RQ++ +A K+ Sbjct: 468 QVRSFLT---GILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDKL 524 Query: 281 QESIQKQ 287 + SI Q Sbjct: 525 RNSISAQ 531 >gi|160872802|ref|ZP_02062934.1| RNA polymerase sigma factor RpoD (Sigma-70) [Rickettsiella grylli] gi|159121601|gb|EDP46939.1| RNA polymerase sigma factor RpoD (Sigma-70) [Rickettsiella grylli] Length = 642 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 402 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 461 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE ++KK+ + Sbjct: 462 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQATGKEPSPED---LSKKMGL 516 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E ++ + ++A + S+ I D + S D++ D I+ + R Sbjct: 517 PEDKIRKI-LKIAKEPISMETPIGDEDGD-SHLGDFI---EDAAALSPIDAATIEGLRET 571 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 572 AQRVLASLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 627 >gi|323345236|ref|ZP_08085459.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] gi|323093350|gb|EFZ35928.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] Length = 290 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 73/280 (26%), Positives = 140/280 (50%), Gaps = 30/280 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI + P++ ++E LA++ ++ G A RLVT++LR VV +A Y+ GL Sbjct: 18 LDKYLVEIGRAPLISIEDEIELAQKIKKGGPEGERAKERLVTANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 78 TLTDLIDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 +L ++ + N + + ++ N+ E ++ S++A Sbjct: 135 --VGSLNKINHEINKFEQENQRRPSISELSDATNIDEEKIGQSMMADGHHVSIDAPFQDG 192 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS---------VLNPRERRIF- 243 + N+ + D V+ ++ + RN+ SM+ VL RE I Sbjct: 193 EDNT-------MLD------VMPGGDDSRTDRNVDHESMAMELNSVLSRVLKDREITIIK 239 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E + + LE + + ++RERVRQI ++ K+++S Sbjct: 240 ECFGIGCHEKGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|154498377|ref|ZP_02036755.1| hypothetical protein BACCAP_02366 [Bacteroides capillosus ATCC 29799] gi|150272688|gb|EDM99866.1| hypothetical protein BACCAP_02366 [Bacteroides capillosus ATCC 29799] Length = 441 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 82/261 (31%), Positives = 137/261 (52%), Gaps = 24/261 (9%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L +EE L K R G+ +A RL ++LRLVV IA Y G G+ +++ EGN+GL+ Sbjct: 185 VLTPEEEKALKKDIR-RGE-AAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLI 242 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQK-RLFFNLRRL 142 +AV+KFD +G++ +TY+ WWI+ A+ I ++I T N+ R+ L + Sbjct: 243 KAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQE 302 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 GH + PE+ IA+++N+ +V + ++A E ++ ++ S D Sbjct: 303 LGH-------DPSPEE---IAEEMNMPVDKVREI-LKIA-QEPVSLETPIGEEEDSHLGD 350 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 + + D D E E + L + L PRE ++ + R E+ TLE + Sbjct: 351 F-IPDEDASEPS--EAASFTLLKEQLVDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGK 407 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 EF V+RER+RQIEA+A +K++ Sbjct: 408 EFNVTRERIRQIEAKALRKLR 428 >gi|291566491|dbj|BAI88763.1| group 2 RNA polymerase sigma factor SigC [Arthrospira platensis NIES-39] Length = 385 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 128/238 (53%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP RG+R +TYS Sbjct: 144 IQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYSY 203 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + I+ + + IA +L Sbjct: 204 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQEKSRTATIDDIATEL 258 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++ + R+ SL + +DK+ ++ D L + E++L+ R++ Sbjct: 259 KMTPDQIREVLLRVPRSVSLETKVG-TDKD-TELGDLLETEESTPEELLM----RESLYR 312 Query: 227 MLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L ++ L+ +ER + + R +P +L + ++SRERVRQIEA+A +K+++ Sbjct: 313 ELQHILADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQ 370 >gi|295133351|ref|YP_003584027.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] gi|294981366|gb|ADF51831.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] Length = 284 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 147/293 (50%), Gaps = 37/293 (12%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 + L Y+ +I I + +EE L ++ + GD A H LVTS+LR VV +A Y+ G Sbjct: 15 DASLDFYLKDIGPIARISSEEEVELTRKIK-AGDKKALHTLVTSNLRFVVSVAKQYQFKG 73 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +S++++EGN+GL++A +FD RGF+ +Y++WWI+ AM + I + +V++ N+ Sbjct: 74 LSLSDLIAEGNLGLIKAANRFDETRGFKFISYAVWWIRQAMVQSISENARVVRL--PLNK 131 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAG 182 L +R+ LQ + E+V + LN+ +E+ +S++ L+ Sbjct: 132 LTLINKIRKANSALQQLLQREASLEEV---SNFLNLPLTEIEEAGKSNATYLSLDKPLSN 188 Query: 183 DE---SLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 D +LN LI S ++ Q + H+ Q ++EK E++ + + LN Sbjct: 189 DNDDFTLNQLITSKIEDPDQGLLNVSTSHEINQLMTILEKREKE-----VIILLFGLNGG 243 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELS 291 E + +L ++S+ ++ ERVRQI+ K++ S + + S Sbjct: 244 EAK------------SLRDISTLLGLTSERVRQIKEMGLIKLRRSPKAAILFS 284 >gi|158341079|ref|YP_001522246.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158311320|gb|ABW32932.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 82/284 (28%), Positives = 133/284 (46%), Gaps = 47/284 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ + P+L +EE LA++ + GDL A R++ +LRLVV IA ++ GLP+ ++ Sbjct: 11 YLKEMGRYPLLSHEEEIRLARQVKA-GDLKAKQRMIECNLRLVVSIAKKHQHLGLPLMDL 69 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF- 137 + EG+IGL AV KFD +G + +TY+ WWI A++ + +Q R + Sbjct: 70 IQEGSIGLNTAVDKFDLAQGCKFSTYAYWWISEAIKRAL------------KSQSRTIYI 117 Query: 138 ------NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES---------EVISMNCRLAG 182 R+K ++ +T + + ++ + S + IS + G Sbjct: 118 PIHQWERAHRIKKAVRQLTQEKGRTPTLKELSAATGIKSSLIRNTLQSFQAISSLDQPVG 177 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 E +ALI + Q +D + DG E IE + LTR M+ L RER I Sbjct: 178 PEQKDALI-----DLIQTEDAALSIMDGLE---IE--------DALTRCMAYLTERERFI 221 Query: 243 FEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + R P ++ + +SRERVRQI A KK+ + Sbjct: 222 VDQRYGLTDGQPKSMGAIGKPIGISRERVRQILNIAMKKMTRQV 265 >gi|257458803|ref|ZP_05623926.1| RNA polymerase sigma factor RpoD [Campylobacter gracilis RM3268] gi|257443791|gb|EEV18911.1| RNA polymerase sigma factor RpoD [Campylobacter gracilis RM3268] Length = 626 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 119/237 (50%), Gaps = 13/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ W Sbjct: 386 NAKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATW 445 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ + K + IA+++ Sbjct: 446 WIRQAISRAIADQARTIRIPI-----HMIETINRINKITRKYMQEGGKEPDINVIAQEVG 500 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +S +V + SL A I + D ++ D++ D IE+ + + + Sbjct: 501 LSVDKVKQVIKITKEPISLEAPIGNED--DGKFGDFV---EDKSSVSPIEQILKSDLKEQ 555 Query: 228 LTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + LN RER + R E+ TLE + E ++RERVRQIE+ A KK++ Sbjct: 556 IDDILEQLNDRERTVIRMRFGLLDDESDRTLEEIGKELNITRERVRQIESSAIKKLK 612 >gi|260434805|ref|ZP_05788775.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] gi|260412679|gb|EEX05975.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] Length = 312 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 147/293 (50%), Gaps = 36/293 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLA-------------KRYREHGDLSAAHR---------- 52 +S Y+ I +IP+L EE L R E G+L+ A R Sbjct: 19 VSWYLATIGRIPLLTPAEEIELGNQVQAMMSLTEDGSREFEDGELTTAQRRLLRIGRRAK 78 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 79 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 138 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ +R++ L P + V IA+ +++ Sbjct: 139 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVS--LDLAHKLGAMPSR-VEIAEAMDIPL 193 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S+ + SL+A +N + S + L+ D E +E E++ L R Sbjct: 194 DELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADSSLDEP--LEIVEQRIHHEQLGR 249 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L+ +E+ + R L+ N TL + EVSRERVRQ+E +A +K++ Sbjct: 250 WLSHLSEQEQHVLRMRFGLEGNERHTLAEIGRLMEVSRERVRQVELKALRKLR 302 >gi|217967697|ref|YP_002353203.1| putative RNA polymerase, sigma 70 family subunit [Dictyoglomus turgidum DSM 6724] gi|217336796|gb|ACK42589.1| putative RNA polymerase, sigma 70 family subunit [Dictyoglomus turgidum DSM 6724] Length = 413 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 48/108 (44%), Positives = 71/108 (65%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A RL+ ++LRLVV +A Y G GL ++ Sbjct: 75 YLKEIGKIPLLTPEEEIELAKRV-EQGDEDAKKRLIEANLRLVVSVAKRYIGRGLSFLDL 133 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 134 IQEGNLGLIKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRI 181 Score = 41.2 bits (95), Expect = 0.18, Method: Compositional matrix adjust. Identities = 40/144 (27%), Positives = 72/144 (50%), Gaps = 12/144 (8%) Query: 145 HLQAITDNNLKPEQVVAIAKKL-NVSESEVISMNCR-----LAGDESLNALINSSDKNSS 198 HL+ L E++ AK+L +V E E+ + + G E L+ + + + Sbjct: 259 HLKTKGKKELTKEKINEEAKELRHVLEEEIKQQTEKVREISMMGQEPLSLEMPVGEDEDN 318 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLE 256 + D++ + ++K +K+ +L L+ RER I + R L++N P TLE Sbjct: 319 RLADFVENKDLSPADIAVQKSLKKDIEELLNE----LSEREREILKLRFGLEDNQPRTLE 374 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + F V+RER+RQIEA+A +++ Sbjct: 375 EVGKLFNVTRERIRQIEAKALRRL 398 >gi|296171852|ref|ZP_06852951.1| RNA polymerase sigma factor rpoD [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295893936|gb|EFG73705.1| RNA polymerase sigma factor rpoD [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 503 Score = 99.0 bits (245), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 83/318 (26%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E GD L Sbjct: 191 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAEMAERGDKLP 249 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 250 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 309 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 310 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 367 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 368 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 419 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 420 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 479 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 480 QIESKTMSKLRHPSRSQV 497 >gi|1519636|gb|AAB07551.1| SigA [Chloroflexus aurantiacus J-10-fl] Length = 343 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 137/293 (46%), Gaps = 44/293 (15%) Query: 19 YIHEIRKIPMLEKQEEYVL------------------AKRYREHGDL--------SAAHR 52 Y+ EI ++P+L ++E L R R +L A H Sbjct: 50 YLQEIGQVPLLTAEQEVELAKAMEAGAAARQRLDREDTPRPRARFELERAVQQGQDARHH 109 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV IA Y YGL + ++V EGNIGLM+AV+KFD ++G + +TY+ WWI+ A Sbjct: 110 LIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGHKFSTYATWWIRQA 169 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ + ++R LQ + PE+ IA + +S + Sbjct: 170 ITRAIADQSRTIRLPVHMGEA--ISQVKRTSHRLQQTMQRDATPEE---IADAMGISAGK 224 Query: 173 VISMNCRLAGDESLNAL---INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 V R + S++ L + + + D++ D + E R L Sbjct: 225 V-----RRTLEASMHPLSLEMPVGQEGEGRMGDFI---EDDRISTPAEAPAASLLREQLE 276 Query: 230 RSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L RER+I + R L++ TLE + EF ++RER+RQIEA A +K+ Sbjct: 277 EVLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVALRKL 329 >gi|91779694|ref|YP_554902.1| sigma 70 (RpoD) [Burkholderia xenovorans LB400] gi|91692354|gb|ABE35552.1| Sigma 70 (RpoD) [Burkholderia xenovorans LB400] Length = 628 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 68/247 (27%), Positives = 128/247 (51%), Gaps = 40/247 (16%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLVV +A Y G+P+ ++V EGNIGLM+AV +F+ RGF+ +TY+ WWI+ + Sbjct: 394 MIEANLRLVVSVAKKYVQSGMPLLDLVQEGNIGLMKAVDRFEYRRGFKFSTYATWWIRQS 453 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ + ++R+ G ++ T +P + +A +L +SE + Sbjct: 454 VSRAIADYGRTIRV--PVHMADAMHRVKRVAGEMRQETG---RPARSSELAARLGMSEEK 508 Query: 173 V----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 V +S++ + D +L ++ D ++ D L+ Sbjct: 509 VRSVQRVTRQPVSLDVPIGEEADTTLGEMVE--DSSTLAPLDALL--------------- 551 Query: 221 RKNRRNMLTRSMSVLNPRERRI----FEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + R + ++ VL PRE ++ F + E+ TLE L +F+V+RERVRQI+ +A Sbjct: 552 QADLRVAIDAALGVLTPREAKVIKLRFGVDAVSEH--TLEELGDQFDVTRERVRQIQNKA 609 Query: 277 FKKVQES 283 +K++ S Sbjct: 610 LQKLRHS 616 >gi|197336747|ref|YP_002158681.1| RNA polymerase sigma factor RpoS (Sigma-38) [Vibrio fischeri MJ11] gi|197313999|gb|ACH63448.1| RNA polymerase sigma factor RpoS (Sigma-38) [Vibrio fischeri MJ11] Length = 294 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 80/286 (27%), Positives = 139/286 (48%), Gaps = 38/286 (13%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG---YGL 73 S Y+ EI + +L +EE V ++ Y++ GDLSA + L+ S+LRLVVK+A YR L Sbjct: 21 SLYLKEINRYQLLTAEEELVYSRLYKK-GDLSARNTLIESNLRLVVKVANKYRKRNQTDL 79 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 I +++ EGN+GL++A+ KF+PE G+R +TY++WWI+ +++ + V++ Sbjct: 80 AILDIIEEGNLGLIKAIDKFNPELGYRFSTYAVWWIRESIESALFNHSRTVRLPVHIT-- 137 Query: 134 RLFFNLRRLKGHLQAITD--NNLKPE----QVVAIAKKLNVSESEVIS-----MNCRLAG 182 + L +L+A + +LK E + ++ + S++IS + C A Sbjct: 138 ------KELNTYLRAARELSKSLKREPSIRDISTYCEEEQIKVSKIISLIPNQLTCHSAC 191 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 + L+ N+ + D E L+ + LN RE+ I Sbjct: 192 SDELSPKFFELSSNNKALEPDNSLSQDNLEM-------------NLSSWIDSLNYREKEI 238 Query: 243 FEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R TLE+L + ++S+ERVRQI++ K+ +K Sbjct: 239 IINRYGLFGCKVKTLEDLGKDLDLSKERVRQIQSETLIKLNTIFKK 284 >gi|198283622|ref|YP_002219943.1| RpoD family RNA polymerase sigma-70 subunit [Acidithiobacillus ferrooxidans ATCC 53993] gi|218667581|ref|YP_002426250.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248143|gb|ACH83736.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus ferrooxidans ATCC 53993] gi|218519794|gb|ACK80380.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] Length = 316 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 79/280 (28%), Positives = 139/280 (49%), Gaps = 30/280 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISE 77 Y+ EI P+L +EE L ++ GD++A +RLV +LRLVV+IA Y R + LP+ + Sbjct: 56 YLQEIGHNPLLTAEEEVSLGLSAQQ-GDITARNRLVECNLRLVVRIARRYQRQHTLPLLD 114 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRL 135 ++ EGN+GL++A + FDP RGFR +TY+ WWI+ + I++ +V++ T N + Sbjct: 115 LIEEGNLGLIRAAELFDPTRGFRFSTYATWWIRQNIDRGIMQQSRVVRLPTHIIKNLSAV 174 Query: 136 FFNLRRLKGHLQA---ITDNNLKPEQVVAIAKKLNVSESEVISMNC--RLAGDESLNALI 190 + R++ +Q + D + VA + + V+S++ R G SL + Sbjct: 175 LRSSRQIAQTMQGDPRVEDVAQVMGKSVAYVEDCLQQDRRVVSLDAPSRWEGSPSLAQTL 234 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL-- 248 +D+ L E ++ + + R++ L+ R R I RR Sbjct: 235 VDADQAD-----------------LGASLEEQDLQRQIHRALLGLDVRHRTIL-IRRFGI 276 Query: 249 -QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ +L + E VS ERVRQ++ A +++ + Q Sbjct: 277 DGQDGASLSAIGKELGVSHERVRQLQEEALDLLRQHTELQ 316 >gi|152993293|ref|YP_001359014.1| RNA polymerase sigma factor RpoD [Sulfurovum sp. NBC37-1] gi|151425154|dbj|BAF72657.1| RNA polymerase sigma 70 factor [Sulfurovum sp. NBC37-1] Length = 612 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 119/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ E+G++ +TY+ WW Sbjct: 373 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYEKGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + N + ++ HLQ K + IAK++ + Sbjct: 433 IRQAISRAIADQARTIRIPIHMIETINRIN-KIIRKHLQETG----KEPDLETIAKEVGL 487 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V N E ++ D++ ++ D++ D + + + N + Sbjct: 488 TVDKV--KNVIKITKEPVSLETPVGDEDDGRFGDFI---EDKTTLSPTDAVLKDDLNNQI 542 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 543 DEVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 598 >gi|160902263|ref|YP_001567844.1| RpoD family RNA polymerase sigma factor [Petrotoga mobilis SJ95] gi|160359907|gb|ABX31521.1| RNA polymerase, sigma 70 subunit, RpoD family [Petrotoga mobilis SJ95] Length = 414 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 139/276 (50%), Gaps = 33/276 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI I +L E LA R ++ A LV ++LRLV+ IA Y G GL ++ Sbjct: 139 YLREIGGIKLLTPSRERQLAIRAKKGD-KKAKDELVKANLRLVISIAKRYTGRGLTFLDL 197 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLF 136 + EGNIGL++AV+KFD +RGF+ +TY+ WW++ A+ I ++I + R+ Sbjct: 198 IQEGNIGLIRAVEKFDWKRGFKFSTYATWWVRQAITRAIADQARTIRIPVHLVESINRMN 257 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKK-------LNVSESEVISMNCRLAGDESLNAL 189 +R+ HLQ T E++ + K + ++ E+IS++ ++G + A Sbjct: 258 IVIRK---HLQE-TGEYPSTEKLAELLDKPLEKMDEILLATKEIISVDAPISGSDDEEAY 313 Query: 190 INS--SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I D + Q ++ V +I KEE + + + L P+E + + R Sbjct: 314 IGDFLEDSEADQPEEIAVR--------MILKEE-------IEKVLESLRPKEATVLKMRY 358 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L TLE + + F V+RER+RQIE +A +K++ Sbjct: 359 GLLDGKMKTLEEVGNFFNVTRERIRQIEVKALRKLR 394 >gi|163848612|ref|YP_001636656.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222526547|ref|YP_002571018.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163669901|gb|ABY36267.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222450426|gb|ACM54692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 381 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 119/238 (50%), Gaps = 18/238 (7%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A H L+ ++LRLVV IA Y YGL + ++V EGNIGLM+AV+KFD ++G + +TY+ W Sbjct: 143 DARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGHKFSTYATW 202 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + ++R LQ PE+ IA + Sbjct: 203 WIRQAITRAIADQSRTIRLPVHMGEA--ISQVKRTSHRLQQTMQREPTPEE---IADAMG 257 Query: 168 VSESEVISMNCRLAGDESLNAL---INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +S +V R + S++ L + + + D++ D + E Sbjct: 258 ISAGKV-----RRTLEASMHPLSLEMPVGQEGEGRMGDFI---EDDRISTPAEAAAASLL 309 Query: 225 RNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 R L + L RER+I + R L++ TLE + EF ++RER+RQIEA A +K+ Sbjct: 310 REQLEEVLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVALRKL 367 >gi|239931595|ref|ZP_04688548.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291439967|ref|ZP_06579357.1| transcription initiation factor sigma [Streptomyces ghanaensis ATCC 14672] gi|291342862|gb|EFE69818.1| transcription initiation factor sigma [Streptomyces ghanaensis ATCC 14672] Length = 335 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 80/259 (30%), Positives = 135/259 (52%), Gaps = 22/259 (8%) Query: 33 EEYVLAKRYR-EHGDLS-----AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 EE VL RYR E G L+ A + L ++LRLVV +A Y G GL +++ EGN GL Sbjct: 74 EEPVLEPRYRRELGLLAEDGRRAKNHLTEANLRLVVSVAKRYTGRGLQFMDLIQEGNAGL 133 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +GF+ +TY+ WWIK + + ++I A + + + R++ L Sbjct: 134 IRAVEKFDYTKGFKFSTYATWWIKQGITRAMADQSRTIRIPVHAVE--VINRVARVRREL 191 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 T PE V A++ ++S ++ ++ SL+ + S++ ++ D L+ Sbjct: 192 IRATGTEPTPEDV---AERASISVEKLAELDAYAREPVSLD--LPLSEEGGGEFGD-LIV 245 Query: 207 DHDGQE--QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 D D +V+ ++ R++L + L+PRE I R E P TLE + + Sbjct: 246 DSDSPSPWEVVAFGHLQRAVRSVL----ADLSPREAGIISLRYGLFGERPRTLEEIGQVY 301 Query: 263 EVSRERVRQIEARAFKKVQ 281 V+RER+RQIE++ K++ Sbjct: 302 GVTRERIRQIESKTMSKLR 320 >gi|254248772|ref|ZP_04942092.1| Sigma-70 region 1.1 [Burkholderia cenocepacia PC184] gi|124875273|gb|EAY65263.1| Sigma-70 region 1.1 [Burkholderia cenocepacia PC184] Length = 805 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + +HLRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 566 AKREMTEAHLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 625 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 626 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 680 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 681 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 735 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 736 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 790 >gi|87310114|ref|ZP_01092246.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] gi|87287104|gb|EAQ79006.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] Length = 516 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 83/253 (32%), Positives = 134/253 (52%), Gaps = 39/253 (15%) Query: 44 HGDLSAAHRLVTS-HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 H L A R +TS +LRLVV IA +RG GL +++ EGN+GLM+AV+KFDP G++ A Sbjct: 265 HEGLCRAQRAITSANLRLVVSIAKSFRGRGLSYLDLIQEGNLGLMRAVEKFDPSLGYKFA 324 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ------AITDNNLKP 156 TY+ WWI+ A+ + + A+Q R R++ +Q AI + Sbjct: 325 TYATWWIRQAVMKGL------------ADQGRTIRLPARMQDRIQKINVAKAILSQEHRS 372 Query: 157 EQVVAI-AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E + + AK+ ++E EV++ + RL G ++ ++++D +S + D L EQ Sbjct: 373 EPPIELTAKQAELTEREVVAAD-RL-GRTIMSLDVSNNDDDS--FGDTLA--SGDAEQSS 426 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR------RLQENPVTLENLSSEFEVSRERV 269 +++ N L + L RE+ I R R+Q TLE +S F V+RER+ Sbjct: 427 ADEQRLPLAINQL---LQELTSREQEIVRRRFGMFDGRVQ----TLEEVSQAFSVTRERI 479 Query: 270 RQIEARAFKKVQE 282 RQIE+ A +K+++ Sbjct: 480 RQIESAAIRKLRQ 492 >gi|77919031|ref|YP_356846.1| DNA-directed RNA polymerase, sigma 70/sigma 32 subunit [Pelobacter carbinolicus DSM 2380] gi|77545114|gb|ABA88676.1| RNA polymerase, sigma 38 subunit, RpoS [Pelobacter carbinolicus DSM 2380] Length = 347 Score = 99.0 bits (245), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 75/281 (26%), Positives = 141/281 (50%), Gaps = 33/281 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI+K +L ++E +LA+R GD++A R++ S+LRLVVKIA Y GLP ++ Sbjct: 72 YLKEIQKTKLLTAEDERMLARRI-SQGDMAARDRMIESNLRLVVKIAKRYMNRGLPFLDL 130 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ ++ F Sbjct: 131 IEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDDINKFI 190 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---------GDESLNA 188 + R + + N +P +V IA+ + V + + + + G+ + Sbjct: 191 KISR-----ELVHQYNREP-KVEEIAEYMGVEPAYIRRLMVLVKKTYSIEHPMGENRDYS 244 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 LI++ + + V D D V L+ ER I R Sbjct: 245 LIDTIEDPKADNPSTFVDDIDKYAHV--------------CNWFETLSENEREILMLRFG 290 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ P TL+ + F V+RER+RQIEA++ +K++ +++Q Sbjct: 291 LDDQEPQTLDTIGRRFGVTRERIRQIEAKSLQKLRNLMEEQ 331 >gi|145347899|ref|XP_001418397.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144578626|gb|ABO96690.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 344 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 72/259 (27%), Positives = 131/259 (50%), Gaps = 15/259 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA + ++ ++LRLVV IA Y + +++ EG +GL++ +KFD +RG++ +TY+ W Sbjct: 90 SAKNEMIQANLRLVVSIAKKYANSNMSFQDLIQEGCVGLIRGAEKFDFQRGYKFSTYAHW 149 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ LF + R+ Q +N + IA +++ Sbjct: 150 WIRQAVTRSISDQSRTIRLPV-----HLFEIISRISKMEQKFALHNGRNPTTEEIAAEMD 204 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +S ++ + SL + +K + + +G E+V + +++ N+ Sbjct: 205 MSAEKITQIKKAAQAPVSLAQTMGGDNKGRTVEDTLVDVTAEGPEKVSGKSLLKEDLENV 264 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE--- 282 L + LNPRER + R L + V TLE + + F V+RER+RQIEA+A +K+++ Sbjct: 265 L----NTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIEAKALRKLKQPSR 320 Query: 283 -SIQKQVELSSSPPLLQKP 300 SI ++ S L KP Sbjct: 321 NSILQEYFADSDASSLPKP 339 >gi|113954655|ref|YP_729975.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113882006|gb|ABI46964.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 313 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 85/300 (28%), Positives = 146/300 (48%), Gaps = 50/300 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-------------------------AA 50 +S Y+ I +IP+L EE L + ++ +L+ A Sbjct: 20 ISWYLATIGRIPLLTAAEEIELGNQVQKFMELTQDGSVSPDSEEFSSKDRRMIRVGQRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 QRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK-PEQVVAIAKKLNVS 169 +M I A Q R L L I +L ++ A+ +L +S Sbjct: 140 QSMTRAI------------ACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPSRLEIS 187 Query: 170 ES------EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 E+ E+ S+ + SL+A +N D S + L+ D +E ++K E++ Sbjct: 188 EALDMPVEELDSLLRQALTTSSLDAPVNGEDGRS--FLGDLIADSSAEEP--LDKVEQRI 243 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R +S L+ +E+ + R L N TL + +VSRERVRQ+E ++ +K++ Sbjct: 244 HHEQLGRWLSHLSEQEQHVLTLRFGLNGNERHTLAQIGRLLDVSRERVRQVELKSLRKLR 303 >gi|124024644|ref|YP_001018951.1| type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9303] gi|123964930|gb|ABM79686.1| Putative type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9303] Length = 376 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 118/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 136 AKDQMIQANLRLVVAVAKKYQQRGIELLDLVQEGTLGLERAVEKFDPARGFRFSTYAYWW 195 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K Q I N + + +AK L + Sbjct: 196 IRQGITRAIATQSRTIRLPMHITEK-----LNRIKRVQQEIASNQGRLASIADLAKALGL 250 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL I + SQ D L+ D + + EK R N L Sbjct: 251 SEETVRLTLMRVPRSISLETRIGQ--EQDSQLGD-LLEDSNATPE---EKLTRDQLHNDL 304 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L+ RE + R E+ P TL + +SRERVRQIE+ A K+++ Sbjct: 305 EILLDELSNREATVIRRRFGLEDDTPQTLTQIGEAMHLSRERVRQIESHALLKLRQ 360 >gi|168012500|ref|XP_001758940.1| plastid sigma facor SIG2 [Physcomitrella patens subsp. patens] gi|12697780|dbj|BAB21618.1| PpSIG2 [Physcomitrella patens] gi|14669832|dbj|BAB62008.1| PpSIG2 [Physcomitrella patens] gi|162690077|gb|EDQ76446.1| plastid sigma facor SIG2 [Physcomitrella patens subsp. patens] Length = 579 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 73/258 (28%), Positives = 129/258 (50%), Gaps = 56/258 (21%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y+G G+ + +++ EG++GL++ +KFDP +GF+ +TY+ WW Sbjct: 336 AKDKMVNSNLRLVVSIAKNYQGRGMTLQDLIQEGSMGLVRGAEKFDPTKGFKFSTYAHWW 395 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I A+Q R RL HL + + AK++ V Sbjct: 396 IRQAVTRSI------------ADQSRTI----RLPIHLYEVISR-------INKAKRMLV 432 Query: 169 SE----------SEVISMNCRLAGDESLNALINSS------------DKNSSQWQDWLVY 206 E +E++ + E L +++ S+ D +++ + Sbjct: 433 QEHGREARNEEVAELVGLTV-----EKLKSVVKSAKAPGSMERPIGKDGDTTLGELVADT 487 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEV 264 D D E ++++ R++ +L LNPRER + R ++ TLE + F+V Sbjct: 488 DVDSPEDAIVKQLMRQDIEGVL----RTLNPREREVLRLRFGLDDGRSKTLEEIGQIFKV 543 Query: 265 SRERVRQIEARAFKKVQE 282 +RER+RQIEA+A +K+++ Sbjct: 544 TRERIRQIEAKAMRKLRQ 561 >gi|315586085|gb|ADU40466.1| DNA-directed RNA polymerase sigma subunit RpoD [Helicobacter pylori 35A] Length = 680 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 441 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 501 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 556 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 610 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 611 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 666 >gi|119487601|ref|ZP_01621211.1| RNA polymerase sigma-like factor [Lyngbya sp. PCC 8106] gi|119455770|gb|EAW36906.1| RNA polymerase sigma-like factor [Lyngbya sp. PCC 8106] Length = 404 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 127/238 (53%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP RG+R +TYS Sbjct: 163 IKAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYSY 222 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + I+ + + IA +L Sbjct: 223 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQEKGRIATIDDIAAEL 277 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++V + ++ SL + SDK++ + + ++Q++ E R Sbjct: 278 EMTPAQVREVLLKVPRSVSLETKVG-SDKDTELGELLETEEASPEDQLMRESLHRD---- 332 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVT--LENLSSEFEVSRERVRQIEARAFKKVQE 282 L + ++ L+ RER + + R N T L + E E+SRERVRQIEA+A +K+++ Sbjct: 333 -LQQLLADLSDRERDVIQMRYGLGNGHTYSLAEIGRELELSRERVRQIEAKALQKLRQ 389 >gi|332672929|gb|AEE69746.1| DNA-directed RNA polymerase sigma subunit RpoD [Helicobacter pylori 83] Length = 674 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 435 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 494 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 495 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 549 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 550 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 604 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 605 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 660 >gi|240142271|ref|YP_002966781.1| putative RNA polymerase sigma factor protein (Sigma-70) [Methylobacterium extorquens AM1] gi|240012215|gb|ACS43440.1| putative RNA polymerase sigma factor protein (Sigma-70) [Methylobacterium extorquens AM1] Length = 253 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 75/258 (29%), Positives = 117/258 (45%), Gaps = 31/258 (12%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L EE L YR G + RLV +H R+ +A + + ++ EG IG+M Sbjct: 13 LLSPDEESGLVDAYRNDGCRKSLDRLVRTHARMAFSVARRWSNNEAHMQDLAQEGMIGIM 72 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +A KF+P G R A Y WWI +++ R+ +V + ++ + +RL+G Sbjct: 73 RAADKFNPSFGKRFAQYCRWWILSSISS---RASEVVCVVDMPDRVFVAHRRKRLEGADA 129 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 A+ V A +++SE L GDE + D LV D Sbjct: 130 AL---------VGAAVTAVSISEP--------LGGDE-----------GGATVGDMLVSD 161 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 E ++ E R + +M L RER I RRL E P TLE ++ F+++RE Sbjct: 162 ETSPESAAVQSEMNWYYRTAVQTAMQGLTEREREILSRRRLAETPETLEVVADFFDLTRE 221 Query: 268 RVRQIEARAFKKVQESIQ 285 R+RQIE A KV+ +++ Sbjct: 222 RIRQIENAAMAKVERNLR 239 >gi|78185087|ref|YP_377522.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|116072338|ref|ZP_01469605.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] gi|78169381|gb|ABB26478.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9902] gi|116064860|gb|EAU70619.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] Length = 313 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 84/296 (28%), Positives = 148/296 (50%), Gaps = 42/296 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKR------YREHG-------DLS------------AA 50 +S Y+ I +IP+L EE L + + E G DL+ A Sbjct: 20 VSWYLSTIGRIPLLTAAEEIELGNQVQAMMAFTEDGSKDFKVEDLTTKQRRMLRIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLN 167 +M I +++ +++ +R++ H N L+ IA+ ++ Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVSLDLAHKLGAMPNRLE------IAEAMD 191 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E+ S+ + SL+A +N + S + L+ D E + I E++ Sbjct: 192 IPVEELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADSSADEPLDI--VEQRIHHEQ 247 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R +S L+ +E+ + R L+ N TL + EVSRERVRQ+E +A +K++ Sbjct: 248 LGRWLSHLSEQEQNVLRLRFGLEGNERHTLAEIGRMMEVSRERVRQVELKALRKLR 303 >gi|308061382|gb|ADO03270.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Cuz20] Length = 672 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 433 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 493 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 547 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V N E ++ + + ++ D++ D I+ R++ + + Sbjct: 548 SLDKV--KNVIKVTKEPISLETPVGNDDDGKFGDFV---EDKNIVSSIDHIMREDLKAQI 602 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 603 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 658 >gi|254430144|ref|ZP_05043847.1| RNA polymerase sigma factor [Cyanobium sp. PCC 7001] gi|197624597|gb|EDY37156.1| RNA polymerase sigma factor [Cyanobium sp. PCC 7001] Length = 318 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 82/294 (27%), Positives = 134/294 (45%), Gaps = 49/294 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--------------------AAHRLVTSHL 58 Y+ I ++P+L EE LA + L A R++ ++L Sbjct: 34 YLSNIGRVPLLTPAEEIELAHHVQAGKRLQEVPLEELTPKQKRQIRMAQRARDRMMAANL 93 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 94 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 153 Query: 119 RSWSLVKIGTTANQK---------RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 S +++ ++K L L R L+ +++PE++ ++L Sbjct: 154 NSARTIRLPIHISEKLSKMRRITRELSHRLGRQPNRLELSHAMDMRPEEL----EELMAQ 209 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 + S++ GDE + L L+ D E + +R ++ L Sbjct: 210 SAPCASLDAHARGDEDRSTLGE------------LIADPASNEH--FDSMDRHIQKEHLG 255 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S LN RE++I + R E P+TL + VSRERVRQ+EA+A K++ Sbjct: 256 AWLSQLNEREQKIIKLRFGLEGSEPLTLAEIGRLINVSRERVRQLEAKAIMKLR 309 >gi|78221616|ref|YP_383363.1| RNA polymerase sigma factor RpoD-like [Geobacter metallireducens GS-15] gi|78192871|gb|ABB30638.1| RNA polymerase, sigma 70 subunit, RpoD [Geobacter metallireducens GS-15] Length = 579 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 77/239 (32%), Positives = 128/239 (53%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 342 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 401 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N +L R+L +Q I PE+ IA+ Sbjct: 402 IRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQEIG-REPSPEE---IAE 452 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 ++N+ +V + ++A E ++ ++ S D++ D +E + N Sbjct: 453 RMNLPLDKVRKV-LKIA-KEPISLETPIGEEEDSHLGDFI---EDKGVVSPLEAVIKANL 507 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +R +S L PRE ++ R +++ TLE + +FEV+RER+RQIEA+A +K++ Sbjct: 508 SEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 566 >gi|297379310|gb|ADI34197.1| RNA polymerase sigma factor RpoD [Helicobacter pylori v225d] Length = 677 Score = 98.6 bits (244), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 438 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 497 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 498 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 552 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 553 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 607 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 608 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 663 >gi|260773542|ref|ZP_05882458.1| RNA polymerase sigma factor RpoS [Vibrio metschnikovii CIP 69.14] gi|260612681|gb|EEX37884.1| RNA polymerase sigma factor RpoS [Vibrio metschnikovii CIP 69.14] Length = 297 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 45/100 (45%), Positives = 70/100 (70%), Gaps = 1/100 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 52 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 110 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ Sbjct: 111 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALM 150 >gi|209884282|ref|YP_002288139.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] gi|209872478|gb|ACI92274.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] Length = 708 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 79/268 (29%), Positives = 131/268 (48%), Gaps = 17/268 (6%) Query: 21 HEIRKIPMLEKQE-----EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 HE++++ L E + VL + E A +V ++LRLV+ IA Y GL Sbjct: 437 HEVQQLAALTGLEIGEFRKIVLGVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQF 496 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + Sbjct: 497 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIET 554 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + R + PE+ +A+KL + +V + ++A E L+ D+ Sbjct: 555 INKIVRTSRQMLNEIGREPTPEE---LAEKLGMPLEKVRKV-LKIA-KEPLSLETPVGDE 609 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPV 253 S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 610 EDSHLGDFI---EDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDH 666 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 667 TLEEVGQQFSVTRERIRQIEAKALRKLK 694 >gi|195953901|ref|YP_002122191.1| RNA polymerase, sigma 70 subunit, RpoD family [Hydrogenobaculum sp. Y04AAS1] gi|195933513|gb|ACG58213.1| RNA polymerase, sigma 70 subunit, RpoD family [Hydrogenobaculum sp. Y04AAS1] Length = 578 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/256 (30%), Positives = 126/256 (49%), Gaps = 39/256 (15%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR +E D+ +V S+LRLVV IA Y GL +++ EGN+GLM+AV K+D ++G Sbjct: 335 KRVKESKDM-----MVKSNLRLVVSIAKKYINRGLHFLDLIQEGNMGLMKAVDKYDYKKG 389 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAI 149 F+ +TY+ WWIK A+ I ++I T N+ K+LF R + Sbjct: 390 FKFSTYATWWIKQAITRAIADQAKTIRIPVHMIETINKISKVSKKLFQEYGREPSPEEIA 449 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYD 207 N+ PE+V I K + E IS+ + DE L I S ++ + Sbjct: 450 KALNMSPEKVRKILKSIQ----EPISLETPIGDDEDTHLKDFIEDSSISNPE-------- 497 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVS 265 E R+ R + + ++ L+ +ER + R + + TLE + + F ++ Sbjct: 498 ---------EATARRLLREQIEKIINTLSDKEREVIMYRFGLVDGIEHTLEQVGTMFNLT 548 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIE++A +K++ Sbjct: 549 RERIRQIESKAIRKIR 564 >gi|228949811|ref|ZP_04112021.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228809869|gb|EEM56280.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] Length = 295 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 84/289 (29%), Positives = 142/289 (49%), Gaps = 43/289 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG-LP 74 + +Y++EI +L ++ +Y+E GD+ + L+ S+LRLVV +A + YG Sbjct: 11 MGKYLNEICNYDILTDEQSMEHIIKYKEKGDIDSRDLLICSNLRLVVSVAKSFPCYGNCD 70 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ-- 132 + E++ EG IGLM+ ++ +D +G +L+TY WWI+ + +Y+ + S V++ TT + Sbjct: 71 LMEMIQEGTIGLMKGLEDYDYTKGNKLSTYITWWIRQRISKYLSINRSDVRVATTMQKKI 130 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K ++ KG NL ++V A+KL ES VI L D N + Sbjct: 131 TEVKNCYYENMGEKG-------TNLTTKEV---AEKLGYKESIVIDA---LVTDRITNTI 177 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVL--------------IEKEERKNRRNMLTRSMSVL 235 S ++ Q + L+ D Q+ L I EE K + L L Sbjct: 178 ---SIEDDVQNEKTLL---DKQQSTLAILANKNAPNPSEVIATEEEKFEFDELM--FVTL 229 Query: 236 NPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQE 282 NPRE + R ++ + TLE+ + V+RERV+QIE +A +K+++ Sbjct: 230 NPREESVLRYRFGFDDGIELTLEDTARILGVTRERVQQIEKKAIEKMKQ 278 >gi|261837545|gb|ACX97311.1| transcription initiation factor sigma-80 [Helicobacter pylori 51] Length = 684 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 445 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 504 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 505 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 559 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 560 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 614 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 615 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 670 >gi|73666941|ref|YP_302957.1| RNA polymerase sigma factor rpoD [Ehrlichia canis str. Jake] gi|72394082|gb|AAZ68359.1| RNA polymerase, sigma 70 subunit, RpoD [Ehrlichia canis str. Jake] Length = 622 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 123/238 (51%), Gaps = 19/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL ++V EGNIGLM+AV KFD +RG++ +TY+ WW Sbjct: 385 AKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I ++I + + ++ L+ + + + ++ KLN+ Sbjct: 445 VRQAITRAIADQARTIRIPV-----HMIETVNKINRTLRQMLHEMGREPTLEELSAKLNI 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRR 225 + ++ + + SL + I D +SS + D + +++ ++ E+ + R Sbjct: 500 NVDKIRKVMKIVKDPVSLESPI--GDDDSSTFGDCI------EDKRAVKPEDAAVLADLR 551 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + T+ +S L P+E RI R TLE + F V+RER+RQIEA+A +K+ Sbjct: 552 EITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKL 609 >gi|253997427|ref|YP_003049491.1| RNA polymerase sigma-70 subunit RpoD [Methylotenera mobilis JLW8] gi|253984106|gb|ACT48964.1| RNA polymerase, sigma 70 subunit, RpoD [Methylotenera mobilis JLW8] Length = 646 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ +TY+ WW Sbjct: 405 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWW 464 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + ++P+ + +A+K+ + Sbjct: 465 IRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QILQETGIEPDPAL-LAEKMEM 519 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE + D + D VY Sbjct: 520 PEDKIRKILKISKEPISMETPIGDDEDSHLGDFIEDSTTLAPVDAAVY------------ 567 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + R+ + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 568 ---ASLRDATSEVLESLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 624 Query: 277 FKKVQ 281 +K++ Sbjct: 625 LRKLR 629 >gi|308062951|gb|ADO04838.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Sat464] Length = 666 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 427 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 487 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 541 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V N E ++ + + ++ D++ D I+ R++ + + Sbjct: 542 SLDKV--KNVIKVTKEPISLETPVGNDDDGKFGDFV---EDKNIVSSIDHIMREDLKAQI 596 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 597 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 652 >gi|208434051|ref|YP_002265717.1| RNA polymerase sigma-80 factor [Helicobacter pylori G27] gi|208431980|gb|ACI26851.1| RNA polymerase sigma-80 factor [Helicobacter pylori G27] Length = 682 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 443 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 502 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 503 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 557 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 558 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 612 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 613 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 668 >gi|283779933|ref|YP_003370688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283438386|gb|ADB16828.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 545 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 76/247 (30%), Positives = 128/247 (51%), Gaps = 19/247 (7%) Query: 41 YREHGDLSAAHRLVTS-HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 YRE+ D AA R++++ +LRLVV IA YR GL +++ EGN GLM+AV KF+ RG+ Sbjct: 285 YRENYD--AAKRVLSAGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKFEYARGY 342 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I +++ + +R + L PE+V Sbjct: 343 KFSTYATWWIRQAITRAIADQSRTIRV--PVHMIDTMSKVRAVTRQLVQELGREPTPEEV 400 Query: 160 VAIAKKLNVSESEVISMNCR--LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +A L + ++ + R L+ D+ + D + S + ++L D +E+ + Sbjct: 401 ARVA-GLTLDDARCVLKMARQPLSLDQPVG------DHDDSYFGEFLA---DHREEDPLY 450 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ ++ + +M LN RER I R + TLE + F V+RERVRQIE + Sbjct: 451 DTHQQALKHQIEEAMQGLNYREREILRLRYGLTDGYAYTLEEVGKIFSVTRERVRQIETK 510 Query: 276 AFKKVQE 282 A +K+Q+ Sbjct: 511 AVRKLQQ 517 >gi|309791233|ref|ZP_07685765.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] gi|308226795|gb|EFO80491.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] Length = 391 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 83/294 (28%), Positives = 138/294 (46%), Gaps = 46/294 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ EI ++P+L ++E LAK E GD++ + Sbjct: 98 YLQEIGQVPLLTAEKEVELAKSM-EAGDIARQRIDREEYTSGRERMELERAYALGCESRQ 156 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y YGL + ++V EGNIGLM+AV+KFD +G + +TY+ WWI+ Sbjct: 157 HLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWWIRQ 216 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ I +++ + ++R LQ PE+ IA+ + +S Sbjct: 217 AITRAIADQSRTIRLPVHMGEA--ISQVKRTSHKLQQSMQREPTPEE---IAEAMGISAG 271 Query: 172 EVISMNCRLAGDESLNAL---INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V R + S++ L + + + D++ D + E R + Sbjct: 272 KV-----RRTLEASMHPLSLEMPVGQEGEGRMGDFI---EDDRISTPSEAAAAAMLREQI 323 Query: 229 TRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L RER+I + R L++ TLE + EF ++RER+RQIEA A +K+ Sbjct: 324 EEVLQKLPERERKIIQLRYGLKDGRYRTLEEVGVEFGITRERIRQIEAVALRKL 377 >gi|282877365|ref|ZP_06286188.1| putative RNA polymerase sigma factor RpoD [Prevotella buccalis ATCC 35310] gi|281300417|gb|EFA92763.1| putative RNA polymerase sigma factor RpoD [Prevotella buccalis ATCC 35310] Length = 290 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/282 (27%), Positives = 144/282 (51%), Gaps = 32/282 (11%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + P++ EE LA++ ++ G A +LVT++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGRAPLISIDEEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LSLTDLIDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALIN 191 +L ++ + N + + ++ N+ E + IS + G S++A Sbjct: 135 ---VGSLNKINHEINRFEQENHRRPSISELSDATNIDEDK-ISQSMMADGHHVSIDAPFQ 190 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM-----SVLNP--RERRIF- 243 + N+ + D V+ E+ + R++ SM +VLN +ER I Sbjct: 191 DGEDNT-------MLD------VMPSGEDSRTDRHVDHESMAQELDAVLNKVLKEREIII 237 Query: 244 --EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E + + LE + + ++RERVRQI ++ K+++S Sbjct: 238 IKECFGIGRHEKGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|261838959|gb|ACX98724.1| sigma 70 (RpoD) [Helicobacter pylori 52] Length = 685 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 446 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 505 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 506 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 560 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 561 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 615 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 616 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 671 >gi|322420057|ref|YP_004199280.1| RpoD subfamily RNA polymerase sigma-70 factor [Geobacter sp. M18] gi|320126444|gb|ADW14004.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M18] Length = 330 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/286 (26%), Positives = 150/286 (52%), Gaps = 23/286 (8%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 +++ + + + Y+ EI+K +L EE LA R + GD +A R++ S+LRLVVKIA Sbjct: 48 AVVEHFDDAIKLYLREIQKTKLLTADEEKELAARI-DLGDKAARDRMIVSNLRLVVKIAK 106 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y GLP +++ EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ Sbjct: 107 RYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRL 166 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 + N + L+ + + N +P + +A L V+ + V + L S+ Sbjct: 167 PVHVSDD---IN-KMLRVTRELVQKMNREP-TIKEVADTLEVNVTYVRRLMVLLKKTYSI 221 Query: 187 NALINSSDKNSSQWQDWLVYD--HDGQE---QVLIEKEERKNRRNMLTRSMSVLNPRERR 241 ++ + D+ + D D VL+E N+ ++++ L+ E++ Sbjct: 222 -------ERPMGENNDYFLIDTIEDTSTISPAVLLED---LNKYELVSKWFETLSDAEKK 271 Query: 242 IFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I R E +P TL+ + F V+RER+RQIEA++ +K+++ ++ Sbjct: 272 ILTLRFGLEDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKILE 317 >gi|15644718|ref|NP_206888.1| RNA polymerase sigma factor RpoD [Helicobacter pylori 26695] gi|2500785|sp|P55993|RPOD_HELPY RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|2313167|gb|AAD07156.1| RNA polymerase sigma-70 factor (rpoD) [Helicobacter pylori 26695] Length = 671 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 492 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 546 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 547 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 601 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 602 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 657 >gi|330469769|ref|YP_004407512.1| RNA polymerase, sigma 70 subunit, rpod subfamily protein [Verrucosispora maris AB-18-032] gi|328812740|gb|AEB46912.1| RNA polymerase, sigma 70 subunit, rpod subfamily protein [Verrucosispora maris AB-18-032] Length = 333 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 85/307 (27%), Positives = 148/307 (48%), Gaps = 68/307 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLS--------AAHR 52 Y+HEI + P+L+ +E L+K Y EH +L+ A Sbjct: 42 YLHEISRTPLLDAAKEVDLSKAIEAGLYAEHLLGEDRVPEGVTRDELTRLVAEGERAKDL 101 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA Y G+P+ +++ EGN GL++AV+KFD ERG++ +TY+ WWI+ A Sbjct: 102 FIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGYKFSTYATWWIRQA 161 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVAIAKKLNVS 169 + I + V++ L ++ R++ + +T ++ +PEQ IA L V+ Sbjct: 162 ISRAIAQQERTVRLPV-----HLVEDVNRMRNVARQLTRELGSDPEPEQ---IAAALGVT 213 Query: 170 ----------ESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +S++ + GD +L L+ SD S E++++ Sbjct: 214 VERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSP-------------EEIVLT 260 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEAR 275 ER+ +L L+ R I AR E+ +L ++S F +SRER+RQ+E + Sbjct: 261 GLERQRIEGLLNH----LDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQ 316 Query: 276 AFKKVQE 282 A +++E Sbjct: 317 ALGRLRE 323 >gi|217032875|ref|ZP_03438353.1| hypothetical protein HPB128_1g12 [Helicobacter pylori B128] gi|298736968|ref|YP_003729498.1| RNA polymerase primary sigma factor [Helicobacter pylori B8] gi|216945415|gb|EEC24081.1| hypothetical protein HPB128_1g12 [Helicobacter pylori B128] gi|298356162|emb|CBI67034.1| RNA polymerase primary sigma factor [Helicobacter pylori B8] Length = 679 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 440 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 499 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 500 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 554 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 555 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 609 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 610 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 665 >gi|317011933|gb|ADU82541.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Lithuania75] Length = 680 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 441 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 501 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 556 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 610 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 611 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 666 >gi|297180571|gb|ADI16783.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured gamma proteobacterium HF0010_11B23] Length = 605 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 78/266 (29%), Positives = 124/266 (46%), Gaps = 42/266 (15%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K YR G L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG Sbjct: 359 KAYR--GLLRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 416 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNL 154 ++ +TY+ WWI+ A+ I ++I T N+ L RL + Sbjct: 417 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK------LNRLSRQMMQEIGREP 470 Query: 155 KPEQVVAIAKKLNVSES----------EVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 PE+ ++K+L++ E E ISM + DE S D+L Sbjct: 471 TPEE---MSKRLDIPEDKMRKVMKIAKEPISMETPIGDDE------------DSNLGDFL 515 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 D I+ + ++ ++ L RE ++ R N TLE + +F Sbjct: 516 ---EDTSINSPIDDASIRGLKDATDEILASLTAREAKVLRMRFGIGMNNDHTLEEVGKQF 572 Query: 263 EVSRERVRQIEARAFKKVQESIQKQV 288 +V+RER+RQIEA+A +K++ + V Sbjct: 573 DVTRERIRQIEAKALRKLRHPTRSDV 598 >gi|317179521|dbj|BAJ57309.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F30] Length = 666 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 427 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 487 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 541 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 542 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 596 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 597 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 652 >gi|317179895|dbj|BAJ57681.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F32] Length = 671 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 492 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 546 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 547 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 601 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 602 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 657 >gi|210134292|ref|YP_002300731.1| RNA polymerase sigma factor RpoD [Helicobacter pylori P12] gi|210132260|gb|ACJ07251.1| RNA polymerase sigma-80 factor [Helicobacter pylori P12] Length = 680 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 441 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 501 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 556 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 610 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 611 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 666 >gi|197119058|ref|YP_002139485.1| RNA polymerase sigma-38 factor, stationary phase [Geobacter bemidjiensis Bem] gi|197088418|gb|ACH39689.1| RNA polymerase sigma-38 factor, stationary phase [Geobacter bemidjiensis Bem] Length = 333 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 76/286 (26%), Positives = 150/286 (52%), Gaps = 23/286 (8%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 +++ + + + Y+ EI+K +L EE LA R + GD +A R++ S+LRLVVKIA Sbjct: 47 AVVEHFDDAIKLYLREIQKTKLLTADEEKELAARI-DLGDKAARDRMIVSNLRLVVKIAK 105 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y GLP +++ EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ Sbjct: 106 RYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRL 165 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 + N + L+ + + N +P + +A L V+ + V + L S+ Sbjct: 166 PVHVSDD---IN-KMLRVTRELVQKMNREP-SIKEVADTLEVNVTYVRRLMVLLKKTYSI 220 Query: 187 NALINSSDKNSSQWQDWLVYD--HDGQE---QVLIEKEERKNRRNMLTRSMSVLNPRERR 241 ++ + D+ + D D VL+E N+ ++++ L+ E++ Sbjct: 221 -------ERPMGENNDYFLIDTIEDTSTISPAVLLED---LNKYELVSKWFETLSDAEKK 270 Query: 242 IFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I R ++P TL+ + F V+RER+RQIEA++ +K+++ ++ Sbjct: 271 ILTLRFGLDDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKIVE 316 >gi|159901184|ref|YP_001547431.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159894223|gb|ABX07303.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 375 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 92/306 (30%), Positives = 139/306 (45%), Gaps = 69/306 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAK----------RYREHGDL---------------SAAHRL 53 Y+ EI ++ +L EE +LAK R H L +A L Sbjct: 82 YLREIGQVHLLTAHEETMLAKQLERGERAMIRLARHEYLLEEKARLQQQVLESEAARQHL 141 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + ++LRLVV IA Y G G+ +++ EGNIGLM+A +KFD +GF+ +TY+ WWI+ A+ Sbjct: 142 IQANLRLVVSIAKKYVGRGMSFLDLIQEGNIGLMRATEKFDYHKGFKFSTYATWWIRQAI 201 Query: 114 QEYI---LRSWSL-VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 I R+ L V +G T N+ ++R LQ + E+ I + L + Sbjct: 202 TRSISDHSRTIRLPVHVGETINR------VKRTAHKLQQALEREPSAEE---IGEALGLP 252 Query: 170 ESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +V +S+ + GD L I D SS+ D E +L Sbjct: 253 ADKVRRVLEVARQPVSLETPVGNEGDSVLGDFIE--DDRSSEPLDH------ATEHLL-- 302 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 R L + L+ RERRI E R + TLE + EF ++RER+RQIEA+ Sbjct: 303 -------REQLDEVLCKLDERERRIIELRYGLVDGKYRTLEEVGREFGITRERIRQIEAK 355 Query: 276 AFKKVQ 281 +K++ Sbjct: 356 VLRKLR 361 >gi|217140|dbj|BAA01749.1| principal sigma factor [Synechococcus elongatus PCC 7942] Length = 384 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 75/238 (31%), Positives = 130/238 (54%), Gaps = 19/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 148 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 207 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 208 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEM 262 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RR 225 + + I+ + +L SL I + S+ D++ + DG+ E E KN R Sbjct: 263 TIEKLRFIAKSAQLPI--SLETPIGK--EEDSRLGDFI--EADGETP---EDEVAKNLLR 313 Query: 226 NMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +S L+PRER + R L + + TLE + F V+RER+RQIEA+A +K++ Sbjct: 314 EDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 371 >gi|308182264|ref|YP_003926391.1| RNA polymerase sigma factor RpoD [Helicobacter pylori PeCan4] gi|308064449|gb|ADO06341.1| RNA polymerase sigma factor RpoD [Helicobacter pylori PeCan4] Length = 682 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 443 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 502 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 503 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 557 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 558 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 612 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 613 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 668 >gi|297181479|gb|ADI17666.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured gamma proteobacterium HF0130_23I23] Length = 602 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/259 (29%), Positives = 123/259 (47%), Gaps = 42/259 (16%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K YR G L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG Sbjct: 356 KAYR--GLLRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 413 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNL 154 ++ +TY+ WWI+ A+ I ++I T N+ L RL + Sbjct: 414 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK------LNRLSRQMMQEIGREP 467 Query: 155 KPEQVVAIAKKLNVSES----------EVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 PE+ ++K+L++ E E ISM + DE S D+L Sbjct: 468 TPEE---MSKRLDIPEDKMRKVMKIAKEPISMETPIGDDE------------DSNLGDFL 512 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 D I+ ++ ++ ++ L RE ++ R N TLE + +F Sbjct: 513 ---EDSSINSPIDDASIRSLKDSTDEILASLTAREAKVLRMRFGIGMNNDHTLEEVGKQF 569 Query: 263 EVSRERVRQIEARAFKKVQ 281 +V+RER+RQIEA+A +K++ Sbjct: 570 DVTRERIRQIEAKALRKLR 588 >gi|295103972|emb|CBL01516.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 457 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 80/262 (30%), Positives = 133/262 (50%), Gaps = 25/262 (9%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++ + +L + R G L+A L ++LRLVV IA + G+ L +++ EGNIGL Sbjct: 201 PLSEERRQELL--KTRRDG-LNARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGL 257 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFN-LRR 141 ++A +KFD +RGFR +TY+ WWI+ A+ I ++I T N+ R N L Sbjct: 258 IKAAEKFDCDRGFRFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVY 317 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 GH PE+ +AK +++S V + SL + + ++ S Sbjct: 318 QNGH-------EPTPEE---LAKAMDMSVERVREIQRMAQEPASLESPV--GEEEDSSLG 365 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLS 259 D++ D + + +R + ++ L PRE ++ R ++ P TLE + Sbjct: 366 DFVA---DENAEAPGKAADRAMVAQQINLALKSLTPREEKVIRLRFGLDDGRPRTLEEVG 422 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 +F V+RERVRQIEA+A +K+ Sbjct: 423 RDFGVTRERVRQIEAKAIRKLH 444 >gi|156742920|ref|YP_001433049.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156234248|gb|ABU59031.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 348 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 82/294 (27%), Positives = 136/294 (46%), Gaps = 40/294 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHG-----------------------DLSAAH- 51 + Y+ EI ++P+L EE LA+R E G D++AA Sbjct: 52 IQHYLQEIGRVPLLTAAEEIELAERM-ERGAAAERRLASGEDLSPQLRQALLADVAAAQE 110 Query: 52 ---RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ ++LRLVV IA Y G GL + +++ EGNIGLM+AV+KFD +G R +TY+ WW Sbjct: 111 ARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDYHKGNRFSTYATWW 170 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ ++ ++R L + PE++ + Sbjct: 171 IRQAVTRAIAEQGRTIRLPVHMSES--VGQVKRTADRLAQALERQPTPEEIATALGQPTE 228 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 V+ + R SL + +++ D+L D + +E ++ R L Sbjct: 229 RIERVLEASRRPV---SLETPVGEDGEHT--LGDFL---QDSELPTPVEAASQQLLRRDL 280 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ LN RERRI + R + TLE + ++RER RQIEA A +++ Sbjct: 281 AAALDRLNERERRIIDLRYGLVDGQRRTLEEVGRVLGMTRERARQIEAEALRRL 334 >gi|317010368|gb|ADU84115.1| RNA polymerase sigma factor RpoD [Helicobacter pylori SouthAfrica7] Length = 685 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 446 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 505 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 506 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKYMQENGKEPDLELVAEEVGL 560 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V ++ SL + + D ++ D++ D I+ R++ + + Sbjct: 561 SLDKVKNVIKVTKEPISLETPVGNDD--DGKFGDFV---EDKNIVSSIDHIMREDLKAQI 615 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 616 DGVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 671 >gi|168000881|ref|XP_001753144.1| predicted protein [Physcomitrella patens subsp. patens] gi|162695843|gb|EDQ82185.1| predicted protein [Physcomitrella patens subsp. patens] Length = 581 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 130/245 (53%), Gaps = 16/245 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A +LV S+LRLVV I Y+G G+ + +++ G++GL++ +KFDPE GF+ +TY+ W Sbjct: 340 CAKDKLVNSNLRLVVSIVKNYQGRGMTLPDLIQRGSLGLIRGAEKFDPEMGFKFSTYATW 399 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKK 165 WI+ A+ I ++++ ++ + R+ I ++ + ++ VA A Sbjct: 400 WIRQAVTRSITDQSRIIRLPV-----HIYEVISRINKSRMMIAEDQGRQARDEEVATAVG 454 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 ++V + + I + RL S++ LI DK+ W+ + + L + +++ Sbjct: 455 ISVEKLDFILKSARLPA--SMDQLIG-RDKDLPLWEMVADKGFNSADDFLTNEVLKQDID 511 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +L L+P ER + R ++ +TL+++ F+V+RER+RQIE RA +K++ Sbjct: 512 GVL----QTLSPTEREVLRLRFGLDDAQSMTLKDIGIFFKVTRERIRQIEVRALRKLRHP 567 Query: 284 IQKQV 288 ++ + Sbjct: 568 TRRNI 572 >gi|160942567|ref|ZP_02089814.1| hypothetical protein FAEPRAM212_00042 [Faecalibacterium prausnitzii M21/2] gi|158446151|gb|EDP23154.1| hypothetical protein FAEPRAM212_00042 [Faecalibacterium prausnitzii M21/2] Length = 457 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 80/262 (30%), Positives = 133/262 (50%), Gaps = 25/262 (9%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++ + +L + R G L+A L ++LRLVV IA + G+ L +++ EGNIGL Sbjct: 201 PLSEERRQELL--KTRRDG-LNARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGL 257 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFN-LRR 141 ++A +KFD +RGFR +TY+ WWI+ A+ I ++I T N+ R N L Sbjct: 258 IKAAEKFDCDRGFRFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVY 317 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 GH PE+ +AK +++S V + SL + + ++ S Sbjct: 318 QNGH-------EPTPEE---LAKAMDMSVERVREIQRMAQEPASLESPV--GEEEDSSLG 365 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLS 259 D++ D + + +R + ++ L PRE ++ R ++ P TLE + Sbjct: 366 DFVA---DENAEAPGKAADRAMVAQQINLALKSLTPREEKVIRLRFGLDDGRPRTLEEVG 422 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 +F V+RERVRQIEA+A +K+ Sbjct: 423 RDFGVTRERVRQIEAKAIRKLH 444 >gi|288927698|ref|ZP_06421545.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] gi|288330532|gb|EFC69116.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] Length = 290 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 76/272 (27%), Positives = 135/272 (49%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI + P++ EE LA++ R+ G A +LVT++LR VV +A Y+ GL Sbjct: 18 LDKYLVEIGRAPLISIDEEIELAQKIRKGGPEGEKAKDKLVTANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 78 TLTDLIDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 +L ++ + N + V ++ N+ E E I + G S++A Sbjct: 135 --VGSLNKINHEINKFEQENQRHPSVSELSDATNIDE-EKIGQSLMADGHHVSIDAPFQD 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQEN 251 + N D + D + + E N + VL RE I E + + Sbjct: 192 GEDNC--MLDVMASGDDSRTDKQADHESMALELNSVL--AKVLKDREITIIRECFGIGCH 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + + ++RERVRQI ++ K+++S Sbjct: 248 EKGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|213964575|ref|ZP_03392775.1| RNA polymerase sigma factor A [Corynebacterium amycolatum SK46] gi|213952768|gb|EEB64150.1| RNA polymerase sigma factor A [Corynebacterium amycolatum SK46] Length = 520 Score = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 154/318 (48%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR---------------------- 40 RK+ ++ + + + Y+ +I K+ +L +EE LAKR Sbjct: 208 RKDAALTASAD-SVRAYLKQIGKVALLTAEEEVSLAKRIEAGLYAQYKIDEAKQAGERIA 266 Query: 41 YREHGDLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 Y + DL A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 267 YAQKRDLREISRDGQRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 326 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 327 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 384 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++E +V+ + SL+ I D+ SQ D++ D + Sbjct: 385 EPTPEE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 436 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVR 270 + ++ ++ L + L+ RE + R L + P TL+ + + V+RER+R Sbjct: 437 VIAVDAVSFTLLQDQLGDVLETLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIR 496 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 497 QIESKTMSKLRHPSRSQV 514 >gi|77165531|ref|YP_344056.1| hypothetical protein Noc_2066 [Nitrosococcus oceani ATCC 19707] gi|76883845|gb|ABA58526.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus oceani ATCC 19707] Length = 579 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 75/248 (30%), Positives = 123/248 (49%), Gaps = 40/248 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A YR GL +++ EGNIGLM+AV KFD RG++ +TY+ WW Sbjct: 341 AKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQEGNIGLMKAVDKFDYHRGYKFSTYAHWW 400 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK-----RLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 I+ A+ I ++I +K R + LR+ KG +PE+ +A Sbjct: 401 IRQAITRAIDDQSRTIRIPVHVMEKLSKLNRASYQLRQEKG-------REGRPEE---LA 450 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++L +SE ++ M + K + L D D Q L+E E+ N Sbjct: 451 ERLALSEQQIHRM--------------HEIAKQPISLETPLGKDEDSQLGELMEDEQVPN 496 Query: 224 RRNMLTRS---------MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 + + ++ L+PRE ++ R + TL ++ +F++SRER+RQI Sbjct: 497 PMEVAITAGLQTGAQQLLAALSPREAQVVAMRFGIGMDTDHTLGEVAQQFDLSRERIRQI 556 Query: 273 EARAFKKV 280 EA+A K+ Sbjct: 557 EAQALGKL 564 >gi|254434698|ref|ZP_05048206.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] gi|207091031|gb|EDZ68302.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] Length = 595 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 75/248 (30%), Positives = 123/248 (49%), Gaps = 40/248 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A YR GL +++ EGNIGLM+AV KFD RG++ +TY+ WW Sbjct: 357 AKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQEGNIGLMKAVDKFDYHRGYKFSTYAHWW 416 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK-----RLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 I+ A+ I ++I +K R + LR+ KG +PE+ +A Sbjct: 417 IRQAITRAIDDQSRTIRIPVHVMEKLSKLNRASYQLRQEKG-------REGRPEE---LA 466 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++L +SE ++ M + K + L D D Q L+E E+ N Sbjct: 467 ERLALSEQQIHRM--------------HEIAKQPISLETPLGKDEDSQLGELMEDEQVPN 512 Query: 224 RRNMLTRS---------MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 + + ++ L+PRE ++ R + TL ++ +F++SRER+RQI Sbjct: 513 PMEVAITAGLQTGAQQLLAALSPREAQVVAMRFGIGMDTDHTLGEVAQQFDLSRERIRQI 572 Query: 273 EARAFKKV 280 EA+A K+ Sbjct: 573 EAQALGKL 580 >gi|81299460|ref|YP_399668.1| RNA polymerase sigma factor RpoD [Synechococcus elongatus PCC 7942] gi|93141306|sp|P38023|RPOD1_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD1 gi|81168341|gb|ABB56681.1| Sigma-70 factor [Synechococcus elongatus PCC 7942] Length = 399 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 129/238 (54%), Gaps = 19/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 163 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 222 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 223 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEM 277 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RR 225 + + I+ + +L SL I + S+ D++ + DG+ E E KN R Sbjct: 278 TIEKLRFIAKSAQLPI--SLETPIGK--EEDSRLGDFI--EADGETP---EDEVAKNLLR 328 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +S L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 329 EDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 386 >gi|56750888|ref|YP_171589.1| RNA polymerase sigma factor RpoD [Synechococcus elongatus PCC 6301] gi|56685847|dbj|BAD79069.1| principal RNA polymerase sigma factor RpoD1 [Synechococcus elongatus PCC 6301] Length = 399 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 74/238 (31%), Positives = 129/238 (54%), Gaps = 19/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 163 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 222 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 223 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEM 277 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RR 225 + + I+ + +L SL I + S+ D++ + DG+ E E KN R Sbjct: 278 TIEKLRFIAKSAQLPI--SLETPIGK--EEDSRLGDFI--EADGETP---EDEVAKNLLR 328 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +S L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 329 EDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 386 >gi|190575994|ref|YP_001973839.1| RNA polymerase sigma factor RpoD [Stenotrophomonas maltophilia K279a] gi|190013916|emb|CAQ47556.1| putative RNA polymerase sigma factor RpoD [Stenotrophomonas maltophilia K279a] Length = 617 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/265 (29%), Positives = 126/265 (47%), Gaps = 32/265 (12%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 LE+ +E A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+ Sbjct: 358 LEELKEISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 417 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R+ + Sbjct: 418 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQ 475 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSS 198 PE+ +AK++++ E ++ ISM + DE S Sbjct: 476 QYGREATPEE---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DS 520 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLE 256 D++ D + IE N + ++ L PRE ++ R + N TLE Sbjct: 521 HLGDFI---EDTNVESPIENTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLE 577 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F+V+RER+RQIEA+A +K++ Sbjct: 578 EVGKQFDVTRERIRQIEAKALRKLR 602 >gi|269798255|ref|YP_003312155.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Veillonella parvula DSM 2008] gi|282850493|ref|ZP_06259872.1| RNA polymerase sigma factor RpoD [Veillonella parvula ATCC 17745] gi|294792116|ref|ZP_06757264.1| RNA polymerase sigma factor RpoD [Veillonella sp. 6_1_27] gi|294793987|ref|ZP_06759124.1| RNA polymerase sigma factor RpoD [Veillonella sp. 3_1_44] gi|269094884|gb|ACZ24875.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Veillonella parvula DSM 2008] gi|282579986|gb|EFB85390.1| RNA polymerase sigma factor RpoD [Veillonella parvula ATCC 17745] gi|294455557|gb|EFG23929.1| RNA polymerase sigma factor RpoD [Veillonella sp. 3_1_44] gi|294457346|gb|EFG25708.1| RNA polymerase sigma factor RpoD [Veillonella sp. 6_1_27] Length = 386 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 80/291 (27%), Positives = 139/291 (47%), Gaps = 37/291 (12%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-----------LVTSHL 58 VN + + Y+ EI ++P+L EE VLAK+ A ++ LV ++L Sbjct: 100 VNIDDPVRMYLKEIGRVPLLSADEEIVLAKQIEAGAQEDATYKDIQLSKKAKKKLVDANL 159 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV IA Y G G+ +++ EGN+GL++AV KFD +G++ +TY+ WWI+ A+ I Sbjct: 160 RLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIA 219 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-------VAIAKKLNVSES 171 ++I + L R+ L PE++ V +++ Sbjct: 220 DQARTIRI--PVHMVETINKLIRISRQLLQDKGREPLPEEIAEGMGITVERVREIQKIAQ 277 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 E +S+ + +E +S + + QD + D D +L++++ + Sbjct: 278 EPVSLETPIGEEE------DSHLGDFIEDQDAIAPD-DAASYILLQEQ--------IEDV 322 Query: 232 MSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L RE+++ R L++ P TLE + F V+RER+RQIE +A K+ Sbjct: 323 FTCLTDREQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKL 373 >gi|269126637|ref|YP_003300007.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268311595|gb|ACY97969.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 444 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 131/251 (52%), Gaps = 19/251 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y GL + +VV EGN+GL++AV+KFD +GF+ +TY+MWW Sbjct: 207 AKSHMLEANLRLVVSVAKKYSDRGLSLLDVVQEGNLGLIRAVEKFDYTKGFKFSTYAMWW 266 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+Q S +++ + + L R++ + PE++ A +L+ Sbjct: 267 IRQAIQRGFADSARTIRL--PVHVLEMLSKLSRVERDMHQRLGREPTPEELAA---ELDK 321 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S ++V + SL++ I + ++ D L+ D D E E +R+ + L Sbjct: 322 SPAQVRELLRTSRQPISLDSTIG--EDGETRIGD-LIEDIDSPEAS--EMVDRQLMADQL 376 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RS+S+L+PRE I R P TL+ + ++RER+RQ+E +ES+ K Sbjct: 377 RRSLSILSPREEMIMSMRFGLYDGTPRTLDEIGKHLGLTRERIRQLE-------KESLSK 429 Query: 287 QVELSSSPPLL 297 S++ PLL Sbjct: 430 LRHPSNATPLL 440 >gi|78212423|ref|YP_381202.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78196882|gb|ABB34647.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9605] Length = 312 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 83/293 (28%), Positives = 148/293 (50%), Gaps = 36/293 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGDLSAAHR---------- 52 +S Y+ I +IP+L EE L + + E G+L+ A R Sbjct: 19 VSWYLATIGRIPLLTPAEEIELGNQVQAMMAFTEDGSREIEDGELTTAQRRLLRIGRRAK 78 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 79 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 138 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ +R++ L P + V IA+ +++ Sbjct: 139 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVS--LDLAHKLGAMPSR-VEIAEAMDIPL 193 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S+ + SL+A +N + S + L+ D E + I E++ L R Sbjct: 194 DELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADSSLDEPLDI--VEQRIHHEQLGR 249 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L+ +E+ + R L+ N TL + EVSRERVRQ+E +A +K++ Sbjct: 250 WLSHLSEQEQHVLRMRFGLEGNERHTLAEIGRLMEVSRERVRQVELKALRKLR 302 >gi|328954372|ref|YP_004371706.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] gi|328454696|gb|AEB10525.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] Length = 436 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 79/262 (30%), Positives = 130/262 (49%), Gaps = 31/262 (11%) Query: 37 LAKRYREHGD--LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 LAK+ RE + + A ++ ++LRLVV IA Y GL S+++ EGN+GLM+AV ++D Sbjct: 186 LAKKIREKENEVVRARDEMIKANLRLVVSIAKKYLHRGLSFSDLIQEGNLGLMKAVTRYD 245 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGH---L 146 G+RL+T++ WWI+ + I ++I + R F++L + G L Sbjct: 246 YTTGYRLSTFASWWIRQTITRAIYDKTRTIRIPVHLQEIRNRCYRAFYDLLKELGREPLL 305 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + I + + PE + + L+ E IS+ + GDE + D++ Sbjct: 306 KEIAERSGVPEDKILVVTNLS---DEPISLETPV-GDE------------GDRLGDFIRN 349 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEV 264 D I E + + + +S L PRE +I + R E TLE + EF+V Sbjct: 350 DQAISPFDSIISSELSEKTDAI---LSTLTPREEKIMKMRFGIGAEVEHTLEEIGREFKV 406 Query: 265 SRERVRQIEARAFKKVQESIQK 286 SRER+RQIE +A K+++ +K Sbjct: 407 SRERIRQIEKKALKRLKHPTRK 428 >gi|113478384|ref|YP_724445.1| RNA polymerase sigma factor RpoD [Trichodesmium erythraeum IMS101] gi|110169432|gb|ABG53972.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 386 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 130/238 (54%), Gaps = 19/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 150 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 209 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A + ++ Sbjct: 210 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATSMEM 264 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RR 225 + + I+ + +L SL I + S+ D++ + DG+ E E KN R Sbjct: 265 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFI--ESDGETP---EDEVSKNLLR 315 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L ++ L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 316 EDLESVLNSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 373 >gi|284928680|ref|YP_003421202.1| hypothetical protein UCYN_00890 [cyanobacterium UCYN-A] gi|284809139|gb|ADB94844.1| hypothetical protein UCYN_00890 [cyanobacterium UCYN-A] Length = 420 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 78/268 (29%), Positives = 142/268 (52%), Gaps = 18/268 (6%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 + I + KI LE Q+ Y+ + R + A ++V S+LRLVV IA Y GL + Sbjct: 154 KTISNLEKIWELE-QKSYLPKFKRRLYLGRKAKDKMVHSNLRLVVSIAKKYMNRGLSFQD 212 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ L+ Sbjct: 213 LIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYE 267 Query: 138 NLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + R+K + ++ + KP E+ +A ++ + + I+ + +L SL I + Sbjct: 268 TISRIKKTTKLLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE- 324 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--V 253 S+ D++ D + E + + R++ N+L L+PRER + R ++ Sbjct: 325 -DSRLGDFIEADGETPEDEVAKNLLREDLENVL----DTLSPRERDVLRLRYGLDDGRMK 379 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + F V+RER+RQIEA+A +K++ Sbjct: 380 TLEEIGQIFNVTRERIRQIEAKALRKLR 407 >gi|225620189|ref|YP_002721446.1| DNA-directed RNA polymerase sigma-70/sigma-32 subunit RpoD [Brachyspira hyodysenteriae WA1] gi|225215008|gb|ACN83742.1| RpoD, DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Brachyspira hyodysenteriae WA1] Length = 287 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 76/280 (27%), Positives = 143/280 (51%), Gaps = 35/280 (12%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 +S Y + +K +L ++EE L KR +E GD A +L+ S+LR V+ IA Y+ GL Sbjct: 18 NISLYFADAKKEKLLTREEEIELTKRLKE-GDAEARSKLIRSNLRFVITIAKQYKNSGLL 76 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++SEGN+GL+ A +FDP++G+ +Y+++WI+ ++ I L+++ N+ Sbjct: 77 LEDLISEGNLGLIIAADRFDPDKGYHFISYAVYWIRQSILRAINEKSRLIRL--PLNKAM 134 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +L R Q + P+ V +A LN +++ L+ + S++ Sbjct: 135 DLVDLER--AVHQYYYKSGYTPD-VNELATILNKDPNDI------------LHIMSMSTE 179 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM------------LTRSMSVLNPRERRI 242 S + + Y++DG + LI+ E K +N+ L ++ L+ E++I Sbjct: 180 HISLEGE----YNYDGMKDRLIDTIEDKTSKNVEETAINKELMEELKTAIESLSDIEKQI 235 Query: 243 FEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 AR + + TL+ + F ++ER+RQIE +A +K+ Sbjct: 236 INARYGIDQERKTLKEVGEMFSFTKERIRQIEKKALRKMH 275 >gi|207093142|ref|ZP_03240929.1| RNA polymerase sigma factor RpoD [Helicobacter pylori HPKX_438_AG0C1] Length = 319 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 80 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 139 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 140 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 194 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V N E ++ + + ++ D++ D I+ R++ + + Sbjct: 195 SLDKV--KNVIKVTKEPISLETPVGNDDDGKFGDFV---EDKNIVSSIDHIMREDLKVQI 249 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 250 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 305 >gi|292491943|ref|YP_003527382.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] gi|291580538|gb|ADE14995.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] Length = 578 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 75/248 (30%), Positives = 122/248 (49%), Gaps = 40/248 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A YR GL +++ EGNIGLM+AV KFD RG++ +TY+ WW Sbjct: 340 AKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQEGNIGLMRAVDKFDYRRGYKFSTYAHWW 399 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK-----RLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 I+ A+ I ++I +K R + LR+ KG +PE+ +A Sbjct: 400 IRQAITRAIDDQSRTIRIPVHVMEKLSKLNRASYQLRQEKG-------REGRPEE---LA 449 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++L +SE ++ M + K + L D D Q L+E E+ N Sbjct: 450 ERLALSEQQIHHM--------------HEIAKQPISLETPLGKDEDSQLGELMEDEQVPN 495 Query: 224 RRNMLTRS---------MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 + + ++ L PRE ++ R + TL ++ +F++SRER+RQI Sbjct: 496 PMEVAISAGLQAGTQQLLATLTPREAQVVAMRFGIGMDTDHTLGEVAQQFDLSRERIRQI 555 Query: 273 EARAFKKV 280 EA+A K+ Sbjct: 556 EAQALSKL 563 >gi|158335266|ref|YP_001516438.1| RNA polymerase sigma factor SigC [Acaryochloris marina MBIC11017] gi|158305507|gb|ABW27124.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 423 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 128/238 (53%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ Sbjct: 182 IKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAY 241 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + ++ + + + IA+++ Sbjct: 242 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKLSQSKGRTASIEDIAQEM 296 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ ++ + R+ SL I ++ D L D E++++ R++ + Sbjct: 297 DMTPEQIRELLVRVPRSVSLE--IKVGKDKDTELGDLLETDDISPEELIM----RESLQQ 350 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 L + ++ L PRER + R L + +L + ++SRERVRQIE++A +K+++ Sbjct: 351 ELKQLLADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIESKALQKLRQ 408 >gi|62550939|emb|CAI79314.1| putative RNA polymerase sigma-32 [Aeromonas caviae] Length = 100 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 48/96 (50%), Positives = 66/96 (68%), Gaps = 2/96 (2%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 ++ M++I G L YI + IP+L +E+ LA+R ++ GDL AA +LV SHLR VV Sbjct: 6 QRTMALIPQGS--LEGYIQAVNSIPVLSAEEKRELAERLQQDGDLEAARQLVMSHLRFVV 63 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +A Y GYGLP +++V EGNIGLM+AVK+FDP G Sbjct: 64 HVAKSYSGYGLPQADLVQEGNIGLMKAVKRFDPSVG 99 >gi|313673328|ref|YP_004051439.1| RNA polymerase, sigma 70 subunit, rpod [Calditerrivibrio nitroreducens DSM 19672] gi|312940084|gb|ADR19276.1| RNA polymerase, sigma 70 subunit, RpoD [Calditerrivibrio nitroreducens DSM 19672] Length = 601 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 78/252 (30%), Positives = 123/252 (48%), Gaps = 52/252 (20%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L+ S+LRLVV IA Y GL +++ EGNIGLM+AV+KF+ +RG++ +TY+ WWI+ Sbjct: 367 KLIQSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYQRGYKFSTYATWWIRQ 426 Query: 112 AMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 A+ I ++I T N+ + ++ LQ PE+ IA+K++ Sbjct: 427 AITRAIADQARTIRIPVHMIETINK------MMKISRQLQVDLGREPTPEE---IAEKMD 477 Query: 168 VSESEV----------ISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVY----DHDGQ 211 V +V +S+ + DE SL I DK S D +VY +H Q Sbjct: 478 VPVEKVKKVLRIAKEPVSLETPIGEDEDSSLGDFI--EDKKSKNPLDEVVYLKLSEHTKQ 535 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERV 269 + L+PRE + R + + TLE + +F V+RER+ Sbjct: 536 -------------------ILDTLSPREASVLRLRFGIDCSSDHTLEEVGKKFNVTRERI 576 Query: 270 RQIEARAFKKVQ 281 RQIEA+A +K++ Sbjct: 577 RQIEAKALRKLR 588 >gi|284990384|ref|YP_003408938.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] gi|284063629|gb|ADB74567.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] Length = 429 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 152/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHG---- 45 RK+ + + + + Y+ +I K+ +L +EE LAKR E G Sbjct: 117 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVDLAKRIEAGLYGAERLRQAEEEGQKLS 175 Query: 46 -----DLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 DL+ A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 176 PQMRRDLNWIVRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 235 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 236 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 293 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 294 EPTPEE---LAKEMDITPDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 345 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ LT + L+ RE + R P TL+ + + V+RER+R Sbjct: 346 VVAVDAVSFTLMQDQLTSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 405 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 406 QIESKTMSKLRHPSRSQV 423 >gi|159903037|ref|YP_001550381.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9211] gi|159888213|gb|ABX08427.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] Length = 425 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 129/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 189 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 249 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEM 303 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ Sbjct: 304 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDSENPELDVAKTLLREDLEG 359 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 360 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 412 >gi|221195781|ref|ZP_03568834.1| RNA polymerase sigma factor RpoD [Atopobium rimae ATCC 49626] gi|221184255|gb|EEE16649.1| RNA polymerase sigma factor RpoD [Atopobium rimae ATCC 49626] Length = 455 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 125/249 (50%), Gaps = 30/249 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E L A +L++++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ + Sbjct: 211 EQVGLDAKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 270 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNN 153 TY+ WWI+ A+ I ++I T N Q++L +L R + + Sbjct: 271 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPTPEEIGAEMG 330 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + P++V I K +S+ E +S+ + +E SQ D++ D Sbjct: 331 MSPDRVREIQK---ISQ-EPVSLETPIGEEE------------DSQLGDFI---EDSTAI 371 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQ 271 + R L + + L RER++ + R E+ P TLE + EF V+RER+RQ Sbjct: 372 APPDAASDSMLREQLEQVLDGLADRERKVIKFRFGLEDGRPRTLEEVGREFGVTRERIRQ 431 Query: 272 IEARAFKKV 280 IE++ K+ Sbjct: 432 IESKTLAKL 440 >gi|282856776|ref|ZP_06266037.1| RNA polymerase sigma factor RpoD [Pyramidobacter piscolens W5455] gi|282585399|gb|EFB90706.1| RNA polymerase sigma factor RpoD [Pyramidobacter piscolens W5455] Length = 642 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 81/278 (29%), Positives = 138/278 (49%), Gaps = 39/278 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L ++E LA + E GD A +++ ++LRLVV IA Y G G+ ++ Sbjct: 376 YLREIGKVPLLSGEKERELAIKV-EAGDAEAKQQIIDANLRLVVSIAKKYIGRGMLFLDL 434 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 435 IQEGNLGLIRAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMV 494 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LN 187 ++L L R + + ++ +V I + + +S+ + +E L Sbjct: 495 RISRQLVQKLGREPSDEEIAHEMEIESGRVEEIRRIAQLP----VSLETPIGEEEDSQLG 550 Query: 188 ALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 I D+N +D + H+ E++L L+ RER + Sbjct: 551 DFIE--DRNMPSPEDAAAGNLLHEQIEEML-----------------DALSDREREVLRY 591 Query: 246 RRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 592 RFGLEDGRSYTLEEVGRRFGVTRERIRQIEAKALRKLR 629 >gi|149914287|ref|ZP_01902818.1| RNA polymerase sigma factor RpoD [Roseobacter sp. AzwK-3b] gi|149811806|gb|EDM71639.1| RNA polymerase sigma factor RpoD [Roseobacter sp. AzwK-3b] Length = 662 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 73/235 (31%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 424 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 483 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 484 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 538 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ + N R Sbjct: 539 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNVVLPLDSAIQDNLRETT 593 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 648 >gi|54401876|gb|AAV34623.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401880|gb|AAV34625.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401882|gb|AAV34626.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401884|gb|AAV34627.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401886|gb|AAV34628.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401888|gb|AAV34629.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 238 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 78/263 (29%), Positives = 126/263 (47%), Gaps = 34/263 (12%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 GEIG S P+L +EE A+R GD+++ R++ S+LRLVVKIA Y Sbjct: 2 GEIGYS---------PLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNR 51 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TA 130 GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 52 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIV 111 Query: 131 NQKRLFFNLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 + ++ R H + I + KP V+ +LN + S++ L GD Sbjct: 112 KELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGD 168 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 L +D+ + +D D Q V E +R +L R +L + Sbjct: 169 SEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------Y 222 Query: 244 EARRLQENPVTLENLSSEFEVSR 266 EA TLE++ E ++R Sbjct: 223 EA-------ATLEDVGREIGLTR 238 >gi|193884351|dbj|BAG54997.1| Sigma70 [Ralstonia solanacearum] Length = 758 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 113/234 (48%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 516 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 575 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 576 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 630 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ R E ++ D + S D++ D E + R ++ Sbjct: 631 PEDKI--RKIRKIAKEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 685 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 686 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKL 739 >gi|86134980|ref|ZP_01053562.1| RNA polymerase sigma-70 factor [Polaribacter sp. MED152] gi|85821843|gb|EAQ42990.1| RNA polymerase sigma-70 factor [Polaribacter sp. MED152] Length = 287 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 76/288 (26%), Positives = 147/288 (51%), Gaps = 39/288 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y EI KI ++ EE LA + + GD A +LV ++LR VV +A Y+ GL + Sbjct: 18 LEKYFQEIGKIDLITADEEVELALKIK-AGDQRALDKLVKANLRFVVSVAKQYQNQGLKL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV-----KIGTTA 130 S++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V KIG+ + Sbjct: 77 SDLINEGNLGLVKAAKRFDETRGFKFISYAVWWIRQSIMQSLAEQSRIVRLPLNKIGSIS 136 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +++ L + N + V IA +L+ + V + + + +G Sbjct: 137 KINKVYSKLEQ----------RNERIPTYVEIANELDTTVRNV-AQSMKNSGRHV----- 180 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV--------LNPRERRI 242 S D + +D +Y+ VL E + +N++ +S+ + L+ +E ++ Sbjct: 181 -SMDAPFREGEDSNLYN------VLKSDESPRPDKNLMKQSLDIEIDRALETLSHKEAKV 233 Query: 243 FEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + N +L + F+++RERVRQ++ RA +++Q + +V Sbjct: 234 IKMFFGLGNHTASSLSEIGETFDLTRERVRQVKQRAIRRLQNKSRTEV 281 >gi|254522302|ref|ZP_05134357.1| RNA polymerase sigma-70 factor [Stenotrophomonas sp. SKA14] gi|219719893|gb|EED38418.1| RNA polymerase sigma-70 factor [Stenotrophomonas sp. SKA14] Length = 617 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/265 (29%), Positives = 126/265 (47%), Gaps = 32/265 (12%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 LE+ +E A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+ Sbjct: 358 LEELKEISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 417 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R+ + Sbjct: 418 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQ 475 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSS 198 PE+ +AK++++ E ++ ISM + DE S Sbjct: 476 QYGREATPEE---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DS 520 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLE 256 D++ D + IE N + ++ L PRE ++ R + N TLE Sbjct: 521 HLGDFI---EDTNVESPIENTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLE 577 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F+V+RER+RQIEA+A +K++ Sbjct: 578 EVGKQFDVTRERIRQIEAKALRKLR 602 >gi|73540591|ref|YP_295111.1| RNA polymerase sigma factor RpoD [Ralstonia eutropha JMP134] gi|72118004|gb|AAZ60267.1| Sigma-70 region 1.2 [Ralstonia eutropha JMP134] Length = 783 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 71/245 (28%), Positives = 122/245 (49%), Gaps = 17/245 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR RE A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG Sbjct: 539 KRARE-----AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 593 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + + R+ + T N P Sbjct: 594 YKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP-- 649 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 +A+K+ + E ++ + ++A E ++ D + S D++ D E Sbjct: 650 -ATLAEKMEMPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTLAPAEA 703 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 704 ALHGSMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 763 Query: 277 FKKVQ 281 +K++ Sbjct: 764 LRKLR 768 >gi|253700182|ref|YP_003021371.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] gi|251775032|gb|ACT17613.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] Length = 333 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 76/286 (26%), Positives = 150/286 (52%), Gaps = 23/286 (8%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 +++ + + + Y+ EI+K +L EE LA R + GD +A R++ S+LRLVVKIA Sbjct: 47 AVVEHFDDAIKLYLREIQKTKLLTADEEKELAARI-DLGDKAARDRMIVSNLRLVVKIAK 105 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y GLP +++ EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ Sbjct: 106 RYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRL 165 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 + N + L+ + + N +P + +A L V+ + V + L S+ Sbjct: 166 PVHVSDD---IN-KMLRVTRELVQKMNREP-TIKEVADTLEVNITYVRRLMVLLKKTYSI 220 Query: 187 NALINSSDKNSSQWQDWLVYD--HDGQE---QVLIEKEERKNRRNMLTRSMSVLNPRERR 241 ++ + D+ + D D VL+E N+ ++++ L+ E++ Sbjct: 221 -------ERPMGENNDYFLIDTIEDTSTISPAVLLED---LNKYELVSKWFETLSDAEKK 270 Query: 242 IFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I R ++P TL+ + F V+RER+RQIEA++ +K+++ ++ Sbjct: 271 ILTLRFGLDDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKIVE 316 >gi|158833997|gb|ABW81804.1| RNA polymerase sigma 38 [Candidatus Regiella insecticola] Length = 268 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 71/108 (65%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 51 YLGEIGYSPLLTAEEEVYFARRAL-CGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDL 109 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 110 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 157 >gi|298490007|ref|YP_003720184.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298231925|gb|ADI63061.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 417 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 132/238 (55%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 176 LQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 235 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I+ + + +A +L Sbjct: 236 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKISQEKGRTPTLEDLAIEL 290 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ ++V + R+ SL + DK+ ++ + L D E++L+ + +K+ + Sbjct: 291 DMTPTQVREVLLRVPRSVSLETKVG-KDKD-TELGELLETDSITPEEMLMRESLQKDLHH 348 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L RER + R L + +P +L + ++SRERVRQIE++A +K+++ Sbjct: 349 LL----ADLTSRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 402 >gi|327539483|gb|EGF26098.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodopirellula baltica WH47] Length = 562 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 79/274 (28%), Positives = 142/274 (51%), Gaps = 29/274 (10%) Query: 22 EIRKIPMLEKQEEYVLAKR------YREHGDLSAAHRLVTS-HLRLVVKIAMGYRGYGLP 74 E+R + L + L++R YR+ D AA R++++ +LRLVV IA YR GL Sbjct: 280 ELRSLMRLTYETPRTLSRRVDRCDTYRD--DYDAAKRVLSAGNLRLVVSIAKKYRNRGLS 337 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++ EGN GLM+AV KF+ RG++ +TY+ WWI+ A+ I +++ Sbjct: 338 FLDLIQEGNTGLMRAVDKFEHARGYKFSTYATWWIRQAITRAIADQSRTIRVPV-----H 392 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKK--LNVSESEVISMNCR--LAGDESLNALI 190 + + +++ + + + + ++K+ L++ ++ VI R L+ D+ + Sbjct: 393 MIDTMNKIRQITRDLVQEHGREPTAEEVSKRSGLSLDDTRVILKMSRQPLSLDQPVG--- 449 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D + S + ++L D V +E K++ ++ +M LN RER I R Sbjct: 450 ---DHDDSVFGEFLQDHRDDDPLVETNREALKHQIDL---AMETLNYREREILRLRYGLA 503 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + TLE + F+V+RERVRQIE++A +K+Q+ Sbjct: 504 DGYTYTLEEVGRIFQVTRERVRQIESKAVRKLQQ 537 >gi|114330327|ref|YP_746549.1| RNA polymerase sigma factor RpoD [Nitrosomonas eutropha C91] gi|114307341|gb|ABI58584.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosomonas eutropha C91] Length = 749 Score = 98.2 bits (243), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 118/245 (48%), Gaps = 32/245 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 507 SAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 566 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ Q + + +PE V +A+K+ Sbjct: 567 WIRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGQEPEPAV-LAEKME 621 Query: 168 VSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 ++E ++ ISM + DE + D ++ + D +Y Sbjct: 622 MTEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDVSTMEPADAAIY----------- 670 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEAR 275 R + + L PRE ++ R E TLE + +F+V+RER+RQIEA+ Sbjct: 671 ----AGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERIRQIEAK 726 Query: 276 AFKKV 280 A +K+ Sbjct: 727 ALRKL 731 >gi|317181391|dbj|BAJ59175.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F57] Length = 665 Score = 97.8 bits (242), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 426 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 486 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 540 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V N E ++ + + ++ D++ D I+ R++ + + Sbjct: 541 SLDKV--KNVIKVTKEPISLETPVGNDDDGKFGDFV---EDKNIVSSIDHIMREDLKVQI 595 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 596 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 651 >gi|218245044|ref|YP_002370415.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 8801] gi|257058068|ref|YP_003135956.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] gi|218165522|gb|ACK64259.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] gi|256588234|gb|ACU99120.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 379 Score = 97.8 bits (242), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 143 AKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 202 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 203 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKILSQEMRRKPTEEEIATRMEM 257 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 258 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGENPEDEVSKNLLREDLEN 313 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 314 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 366 >gi|158833999|gb|ABW81805.1| RNA polymerase sigma 38 [Candidatus Regiella insecticola] Length = 268 Score = 97.8 bits (242), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 46/100 (46%), Positives = 68/100 (68%), Gaps = 1/100 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 51 YLGEIGYSPLLTAEEEVYFARRAL-CGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDL 109 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 110 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 149 >gi|163868737|ref|YP_001609951.1| RNA polymerase sigma factor RpoD [Bartonella tribocorum CIP 105476] gi|161018398|emb|CAK01956.1| RNA polymerase sigma factor [Bartonella tribocorum CIP 105476] Length = 671 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKKEMVESNLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 493 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 547 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D++ S D++ D + I+ + N R+ Sbjct: 548 PLEKVRKV-LKIA-KEPISLETPVGDEDDSHLGDFI---EDRNALLPIDAAIQANLRDTT 602 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 603 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|163848723|ref|YP_001636767.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222526666|ref|YP_002571137.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163670012|gb|ABY36378.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222450545|gb|ACM54811.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 360 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 88/292 (30%), Positives = 141/292 (48%), Gaps = 42/292 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDLS--------AAHR 52 Y+ EI ++P+L +EE LA++Y RE L A R Sbjct: 67 YLQEIGQVPLLTAEEEVELARQYSRGKEARQRLRNEDFANDRERMRLEMEMARGEEARRR 126 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G + ++V EGNIGLM+AV+KFD +G R +TY+ WWI+ A Sbjct: 127 LIQANLRLVVSVAKKYIGSPMAFMDLVQEGNIGLMRAVEKFDYTKGNRFSTYATWWIRQA 186 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I L+++ ++ +LRR L+ + E+ +A LN+S + Sbjct: 187 VTRAIAEQSRLIRLPVHLSES--IVHLRRAIYRLEQELEREPTAEE---LAHALNMSVRK 241 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNRRNMLTR 230 V + SL +N+ Q+ V + E V +E E+K LT Sbjct: 242 VKRLIRASTQPISLEQPLNNE-------QEGRVSETLADETVASPMEIAEQKMLHAELTA 294 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +++ L RER+I + R + TLE + + F ++RER RQIEA A +++ Sbjct: 295 ALNELPERERKILQLRYGLIDGQRRTLEEVGATFGITRERTRQIEAEALRRL 346 >gi|188526895|ref|YP_001909582.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Shi470] gi|188143135|gb|ACD47552.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Shi470] Length = 661 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 422 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 482 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGL 536 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V N E ++ + + ++ D++ D I+ R++ + + Sbjct: 537 SLDKV--KNVIKVTKEPISLETPVGNDDDGKFGDFV---EDKNIVSSIDHIMREDLKVQI 591 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 592 ESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 647 >gi|218438948|ref|YP_002377277.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218171676|gb|ACK70409.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 376 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 140 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 199 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 200 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKILSQEMRRKPTEEEIATRMEM 254 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 255 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLEN 310 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 311 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 363 >gi|192289891|ref|YP_001990496.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris TIE-1] gi|192283640|gb|ACF00021.1| RNA polymerase, sigma 70 subunit, RpoD family [Rhodopseudomonas palustris TIE-1] Length = 698 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 460 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 519 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 520 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 574 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 575 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 629 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 630 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 684 >gi|114764808|ref|ZP_01443990.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601] gi|114542694|gb|EAU45717.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601] Length = 661 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 423 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 482 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 483 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 537 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 538 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 592 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 593 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 647 >gi|318042101|ref|ZP_07974057.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CB0101] Length = 309 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 84/300 (28%), Positives = 142/300 (47%), Gaps = 46/300 (15%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------AA 50 G +S Y+ I ++P+L EE L + + L+ + Sbjct: 16 GSDPISWYLSTIGRVPLLTPAEEIELGNQVQAMMRLTEEEPENGYTDQQKKTIRVGRRSK 75 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 76 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 135 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-------IA 163 +M I A Q R L L AI +L + IA Sbjct: 136 QSMTRAI------------ACQSRTIRLPVHLSERLTAIRKVSLDLAHKLGAMPSRKEIA 183 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + +++ E+ S+ + SL+A +N + S + L+ D+ E +++ ER Sbjct: 184 EAMDMPIDELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADNSHVEP--LDQVERGM 239 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R +S L +ER++ E R E TL + +VSRERVRQ+E +A +K++ Sbjct: 240 HHEQLGRWLSHLTEQERQVLELRFGLEGEERHTLAEIGRMLDVSRERVRQVELKALRKLR 299 >gi|313112817|ref|ZP_07798464.1| putative RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] gi|310624887|gb|EFQ08195.1| putative RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] Length = 458 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/242 (30%), Positives = 122/242 (50%), Gaps = 22/242 (9%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L+A L ++LRLVV IA + G+ L +++ EGNIGL++A +KFD +RGFR +TY+ Sbjct: 219 LNARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGLIKAAEKFDCDRGFRFSTYAT 278 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFN-LRRLKGHLQAITDNNLKPEQVVA 161 WWI+ A+ I ++I T N+ R N L GH PE+ Sbjct: 279 WWIRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVYQNGH-------EPTPEE--- 328 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +AK +++S V + SL + + ++ S D++ D + + +R Sbjct: 329 LAKAMDMSVERVREIQRMAQEPASLESPV--GEEEDSSLGDFVA---DENAEAPGKAADR 383 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKK 279 + ++ L PRE ++ R ++ P TLE + +F V+RERVRQIEA+A +K Sbjct: 384 AMVAQQINLALKSLTPREEKVIRLRFGLDDGRPRTLEEVGRDFGVTRERVRQIEAKAIRK 443 Query: 280 VQ 281 + Sbjct: 444 LH 445 >gi|296161690|ref|ZP_06844493.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295888004|gb|EFG67819.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 628 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 127/235 (54%), Gaps = 16/235 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLVV +A Y G+P+ ++V EGNIGLM+AV +F+ RGF+ +TY+ WWI+ + Sbjct: 394 MIEANLRLVVSVAKKYVQSGMPLLDLVQEGNIGLMKAVDRFEYRRGFKFSTYATWWIRQS 453 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ + ++R+ G ++ T + + +A +L +SE + Sbjct: 454 VSRAIADYGRTIRV--PVHMADAMHRVKRVAGEMRQETGRQARSSE---LAARLGMSEEK 508 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 V S+ SL+ I D +++ + +V D ++ + + R + ++ Sbjct: 509 VRSVQRVTRQPVSLDVPIG-EDADTTLGE--MVEDPSALAP--LDALLQADLRVAIDAAL 563 Query: 233 SVLNPRERRI----FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 VL PRE ++ F + E+ TLE L +F+V+RERVRQI+ +A +K++ S Sbjct: 564 GVLTPREAKVIKLRFGVDAVSEH--TLEELGDQFDVTRERVRQIQNKALQKLRHS 616 >gi|254821650|ref|ZP_05226651.1| RNA polymerase sigma factor [Mycobacterium intracellulare ATCC 13950] Length = 488 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 83/318 (26%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E GD L Sbjct: 176 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTEMTERGDKLP 234 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 235 AAQRRDMQWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 294 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 295 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 352 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 353 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 404 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 405 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 464 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 465 QIESKTMSKLRHPSRSQV 482 >gi|32474487|ref|NP_867481.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] gi|32445025|emb|CAD75027.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] Length = 568 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/274 (28%), Positives = 142/274 (51%), Gaps = 29/274 (10%) Query: 22 EIRKIPMLEKQEEYVLAKR------YREHGDLSAAHRLVTS-HLRLVVKIAMGYRGYGLP 74 E+R + L + L++R YR+ D AA R++++ +LRLVV IA YR GL Sbjct: 286 ELRSLMRLTYETPRTLSRRVDRCDTYRD--DYDAAKRVLSAGNLRLVVSIAKKYRNRGLS 343 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++ EGN GLM+AV KF+ RG++ +TY+ WWI+ A+ I +++ Sbjct: 344 FLDLIQEGNTGLMRAVDKFEHARGYKFSTYATWWIRQAITRAIADQSRTIRVPV-----H 398 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKK--LNVSESEVISMNCR--LAGDESLNALI 190 + + +++ + + + + ++K+ L++ ++ VI R L+ D+ + Sbjct: 399 MIDTMNKIRQITRDLVQEHGREPTAEEVSKRSGLSLDDTRVILKMSRQPLSLDQPVG--- 455 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D + S + ++L D V +E K++ ++ +M LN RER I R Sbjct: 456 ---DHDDSVFGEFLQDHRDDDPLVETNREALKHQIDL---AMETLNYREREILRLRYGLA 509 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + TLE + F+V+RERVRQIE++A +K+Q+ Sbjct: 510 DGYTYTLEEVGRIFQVTRERVRQIESKAVRKLQQ 543 >gi|37519772|ref|NP_923149.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] gi|35210763|dbj|BAC88144.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] Length = 356 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 140/278 (50%), Gaps = 35/278 (12%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGY 71 +GL Y+ EI +IP+L+ +EE +LA+ + G A +LV ++LRLVV IA Y Sbjct: 82 VGL--YLQEIGRIPLLKPEEEVMLARAIAQGGPKGEWAKRKLVQANLRLVVSIAKKYLNR 139 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G+P +++ EG++GL++A +KF+ ERG++ +TY+ WWI+ A+ + V++ Sbjct: 140 GVPFLDLIQEGSMGLIRAAEKFEHERGYKFSTYAYWWIRQAITRAVASQARTVRLPVHLV 199 Query: 132 Q-----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES- 185 + K++ L + G + + E + + + +S+N + +E Sbjct: 200 EKINRVKKVRRTLAQELGRTPSQGELAEALELAEEDLEHILRAARRTVSLNITVGKEEDT 259 Query: 186 -LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNRRNMLTRSMSVLNPRERRI- 242 L LI S + Q V I++E R ++L R L PRER I Sbjct: 260 ELIHLIEDSQTD--------------QPDVHIDRESMRVEVSDLLDRH---LTPRERDIL 302 Query: 243 ---FEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 F R Q+ TL+ + F++SRER+RQI+A+AF Sbjct: 303 QLRFGLRDGQQR--TLDQVGRMFDLSRERIRQIQAKAF 338 >gi|296125976|ref|YP_003633228.1| RNA polymerase, sigma 32 subunit, RpoH [Brachyspira murdochii DSM 12563] gi|296017792|gb|ADG71029.1| RNA polymerase, sigma 32 subunit, RpoH [Brachyspira murdochii DSM 12563] Length = 285 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/279 (27%), Positives = 143/279 (51%), Gaps = 35/279 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y + +K +L ++EE L KR +E GD A +L+ S+LR V+ IA Y+ GL + Sbjct: 17 ISLYFADAKKEKLLTREEEIELTKRLKE-GDAEARSKLIRSNLRFVITIAKQYKNSGLLL 75 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGN+GL+ A +FDP++G+ +Y+++WI+ ++ I L+++ N+ Sbjct: 76 EDLISEGNMGLIIAADRFDPDKGYHFISYAVYWIRQSILRAINEKSRLIRL--PLNKAMD 133 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 +L R Q + P+ V +A LN +++ L+ + S++ Sbjct: 134 LVDLERTVH--QYYYKSGYTPD-VNELAAILNKDPNDI------------LHIMSMSTEH 178 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM------------LTRSMSVLNPRERRIF 243 S + + Y++DG + LI+ E K +N+ L ++ L+ E++I Sbjct: 179 ISLEGE----YNYDGMKDRLIDTIEDKTSKNVEETAINKELMEELKTAIESLSDIEKQII 234 Query: 244 EARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 AR + + TL+ + F ++ER+RQIE +A +K+ Sbjct: 235 NARYGIDQERKTLKEVGEMFSFTKERIRQIEKKALRKMH 273 >gi|4100836|gb|AAD01000.1| RpoS [Escherichia coli] Length = 259 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 45/108 (41%), Positives = 72/108 (66%), Gaps = 2/108 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +E Y + R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 39 YLGEIGYSPLLTAEEVYFARRALR--GDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 96 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 97 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 144 >gi|254469018|ref|ZP_05082424.1| sigma 70 [beta proteobacterium KB13] gi|207087828|gb|EDZ65111.1| sigma 70 [beta proteobacterium KB13] Length = 658 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 418 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 477 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T +P +A+K+ + Sbjct: 478 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQATGQEPEP---AVLAEKMEM 532 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE + D + D VY Sbjct: 533 PEDKIRKILKISKEPISMETPIGDDEDSHLGDFIEDLGTLTPDDAAVY------------ 580 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + RN+ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 581 ---SSLRNVTNEILEGLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 637 Query: 277 FKKVQ 281 +K++ Sbjct: 638 LRKLR 642 >gi|39934363|ref|NP_946639.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris CGA009] gi|39648212|emb|CAE26731.1| RNA polymerase sigma 70 subunit, RpoD [Rhodopseudomonas palustris CGA009] Length = 698 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 460 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 519 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 520 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 574 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 575 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 629 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 630 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 684 >gi|91978433|ref|YP_571092.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris BisB5] gi|91684889|gb|ABE41191.1| RNA polymerase sigma factor RpoD-like [Rhodopseudomonas palustris BisB5] Length = 711 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 473 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 532 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 533 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 587 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 588 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 642 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 643 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 697 >gi|158833995|gb|ABW81803.1| RNA polymerase sigma 38 [Candidatus Regiella insecticola] Length = 268 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 71/108 (65%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 51 YLGEIGYSPLLTAEEEVYFARRAL-CGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDL 109 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 110 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRL 157 >gi|257784627|ref|YP_003179844.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Atopobium parvulum DSM 20469] gi|257473134|gb|ACV51253.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Atopobium parvulum DSM 20469] Length = 455 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 125/246 (50%), Gaps = 30/246 (12%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A +L++++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ Sbjct: 215 LDAKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYAT 274 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPE 157 WWI+ A+ I ++I T N Q++L + R + ++ + P+ Sbjct: 275 WWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDFGRDPTPEEIGSEMGMSPD 334 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +V I K +S+ E +S+ + +E SQ D++ D + Sbjct: 335 RVREIQK---ISQ-EPVSLETPIGEEE------------DSQLGDFI---EDSTAVAPPD 375 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 R L + + L RER++ + R E+ P TLE + EF V+RER+RQIE++ Sbjct: 376 AASDSMLREQLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGKEFGVTRERIRQIESK 435 Query: 276 AFKKVQ 281 K++ Sbjct: 436 TLAKLR 441 >gi|163747450|ref|ZP_02154802.1| RNA polymerase sigma factor RpoD [Oceanibulbus indolifex HEL-45] gi|161379303|gb|EDQ03720.1| RNA polymerase sigma factor RpoD [Oceanibulbus indolifex HEL-45] Length = 671 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 493 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 547 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 548 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 602 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 603 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|221636011|ref|YP_002523887.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Thermomicrobium roseum DSM 5159] gi|221157983|gb|ACM07101.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Thermomicrobium roseum DSM 5159] Length = 334 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 118/237 (49%), Gaps = 12/237 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ +LRLVV IA YR LP+ +++ EGNIGLM AV+++DPE G+R +TY+ +W Sbjct: 99 AREKLIRHNLRLVVSIAKRYRSSELPLIDLIQEGNIGLMTAVERYDPELGYRFSTYATFW 158 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + L +RR + I +P +A+ L + Sbjct: 159 IRQAIGRAVANLSRTIRV--PVHMHDLIAKIRRAEAQ---IEQQKGRPATNEELAELLGI 213 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + ++ SL+ I + S D L D + ++E+ R + Sbjct: 214 DVARIEQARTQIPRTSSLDKPIG--EDGESSIGDLL---PDPRSDDVVEEALTNAIREQI 268 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RS+ L RER + R E P TL ++ ++SRERVRQ+E A +K++ S Sbjct: 269 RRSLEQLTERERTVLVMRFGLDGEQPRTLAEIADALKISRERVRQVEKEALQKLRNS 325 >gi|189424079|ref|YP_001951256.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] gi|189420338|gb|ACD94736.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] Length = 586 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 74/247 (29%), Positives = 128/247 (51%), Gaps = 14/247 (5%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A R EH A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +R Sbjct: 338 AIREGEHKARIAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQR 397 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKP 156 G++ +TY+ WWI+ A+ I ++I + + +L + Q + +N +P Sbjct: 398 GYKFSTYATWWIRQAITRAIADQARTIRIPV-----HMIETINKLIRTSRQLVQENGREP 452 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 IA ++ + +V + ++A E ++ ++ S D++ D + Sbjct: 453 SP-EEIADRMQLPLDKVRKV-LKIAK-EPISLETPIGEEEDSHLGDFI---EDKGVVNPL 506 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 E + N +R +S L PRE ++ R +++ TLE + +FEV+RER+RQIEA Sbjct: 507 EAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEA 566 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 567 KALRKLR 573 >gi|28899327|ref|NP_798932.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus RIMD 2210633] gi|28807551|dbj|BAC60816.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus RIMD 2210633] Length = 319 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 78/251 (31%), Positives = 129/251 (51%), Gaps = 31/251 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 57 YLGEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 115 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ K L Sbjct: 116 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHV-VKELNIY 174 Query: 139 LRRLKGHLQAITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALI 190 LR + Q + D+ E++ A ++K L ++E + S++ + GD L Sbjct: 175 LRTARELSQKL-DHEPTAEEIAAQLDIPVEDVSKMLRLNE-RISSVDTPIGGDGEKALLD 232 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--- 247 D N+S D V D + ++ L + LNP+++ + ARR Sbjct: 233 IIPDANNS---DPEVSTQD------------DDIKSSLIHWLEELNPKQKEVL-ARRFGL 276 Query: 248 LQENPVTLENL 258 L P TLE + Sbjct: 277 LGYEPSTLEEV 287 >gi|316935466|ref|YP_004110448.1| RpoD subfamily RNA polymerase sigma 70 subunit [Rhodopseudomonas palustris DX-1] gi|315603180|gb|ADU45715.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodopseudomonas palustris DX-1] Length = 698 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 460 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 519 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 520 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 574 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 575 PLEKVRKV-LKIAK-EPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 629 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 630 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 684 >gi|322421611|ref|YP_004200834.1| RpoD subfamily RNA polymerase sigma-70 factor [Geobacter sp. M18] gi|320127998|gb|ADW15558.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M18] Length = 583 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 81/259 (31%), Positives = 128/259 (49%), Gaps = 36/259 (13%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 +LA EH A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ Sbjct: 333 LLAIEEGEHKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 392 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITD 151 +RG++ +TY+ WWI+ A+ I ++I T N +L R+L +Q I Sbjct: 393 QRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQEIG- 446 Query: 152 NNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 PE++ + K L +++ E IS+ + +E S D+ Sbjct: 447 REPSPEEIAERMALPLDKVRKVLKIAK-EPISLETPIGEEE------------DSHLGDF 493 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSE 261 + D +E + N +R +S L PRE ++ R +++ TLE + + Sbjct: 494 I---EDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQD 550 Query: 262 FEVSRERVRQIEARAFKKV 280 FEV+RER+RQIEA+A +K+ Sbjct: 551 FEVTRERIRQIEAKALRKL 569 >gi|240850913|ref|YP_002972313.1| RNA polymerase sigma factor RpoD [Bartonella grahamii as4aup] gi|240268036|gb|ACS51624.1| RNA polymerase sigma factor RpoD [Bartonella grahamii as4aup] Length = 671 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKKEMVESNLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 493 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 547 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D++ S D++ D + I+ + N R+ Sbjct: 548 PLEKVRKV-LKIA-KEPISLETPVGDEDDSHLGDFI---EDRNALLPIDAAIQANLRDTT 602 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 603 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|148559099|ref|YP_001259363.1| RNA polymerase sigma factor RpoD [Brucella ovis ATCC 25840] gi|148370356|gb|ABQ60335.1| RNA polymerase sigma-70 factor [Brucella ovis ATCC 25840] Length = 672 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLTM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|145224520|ref|YP_001135198.1| RNA polymerase sigma factor [Mycobacterium gilvum PYR-GCK] gi|315444851|ref|YP_004077730.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|145217006|gb|ABP46410.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium gilvum PYR-GCK] gi|315263154|gb|ADT99895.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 488 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 152/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-------------YREHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + E G+ L+ Sbjct: 176 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYCTQLMAEFAEKGEKLT 234 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 235 TAQRRDYMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 294 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 295 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 352 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 353 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 404 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 405 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 464 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 465 QIESKTMSKLRHPSRSQV 482 >gi|49475878|ref|YP_033919.1| RNA polymerase sigma factor RpoD [Bartonella henselae str. Houston-1] gi|49238686|emb|CAF27936.1| RNA polymerase sigma factor rpod [Bartonella henselae str. Houston-1] Length = 667 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + + PE+ ++ KL++ Sbjct: 489 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGRDPTPEE---LSSKLSM 543 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D++ S D++ D + I+ + N R+ Sbjct: 544 PLEKVRKV-LKIA-KEPISLETPVGDEDDSHLGDFI---EDRNALLPIDAAIQANLRDTT 598 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 653 >gi|86751238|ref|YP_487734.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris HaA2] gi|86574266|gb|ABD08823.1| sigma 70 (RpoD) [Rhodopseudomonas palustris HaA2] Length = 714 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 476 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 535 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 536 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 590 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 591 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 645 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 646 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 700 >gi|115523078|ref|YP_779989.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris BisA53] gi|115517025|gb|ABJ05009.1| RNA polymerase, sigma 70 subunit, RpoD [Rhodopseudomonas palustris BisA53] Length = 704 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 466 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 525 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 526 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 580 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 581 PLEKVRKV-LKIAK-EPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 635 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 636 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 690 >gi|222053802|ref|YP_002536164.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] gi|221563091|gb|ACM19063.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] Length = 586 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 80/246 (32%), Positives = 131/246 (53%), Gaps = 22/246 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ + Sbjct: 343 EHKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFS 402 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I T N +L R+L +Q I PE+ Sbjct: 403 TYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQEIG-REPSPEE 456 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA+++++ +V + ++A + SL I ++ S D++ D +E Sbjct: 457 ---IAERMSLPLDKVRKV-LKIAKEPISLETPIG--EEEDSHLGDFI---EDKGVVSPLE 507 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + N +R +S L PRE ++ R +++ TLE + +FEV+RER+RQIEA+ Sbjct: 508 AVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAK 567 Query: 276 AFKKVQ 281 A +K++ Sbjct: 568 ALRKLR 573 >gi|87125501|ref|ZP_01081346.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86166801|gb|EAQ68063.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 312 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 83/293 (28%), Positives = 145/293 (49%), Gaps = 36/293 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAK------RYREHGDLSAAH------------------ 51 +S Y+ I +IP+L EE L R E G L+ H Sbjct: 20 ISWYLATIGRIPLLTPAEEIELGNQVQEMMRLTEDGTLAPDHDGFSSHDRRMIRVGKRAK 79 Query: 52 -RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ +R++ L P + V IA+ +++ Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVS--LDLAHKLGAMPSR-VEIAEAMDMPL 194 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ ++ + SL+A +N + S + L+ D E ++K E+ L R Sbjct: 195 DELDALLRQALTTSSLDAPVNGEEGRS--FLGDLIADTSHDEP--LDKVEQSIHHEQLGR 250 Query: 231 SMSVLNPRERRIFEAR-RLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L+ +E+ + R L N TL + EVSRERVRQ+E +A +K++ Sbjct: 251 WLSHLSEQEQYVLGLRFGLNGNERHTLAEIGRLMEVSRERVRQVELKALRKLR 303 >gi|254424926|ref|ZP_05038644.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196192415|gb|EDX87379.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 404 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 168 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 227 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A ++ Sbjct: 228 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQELGRKPTEEEIATRMEM 282 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ + Sbjct: 283 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDEVSKSLLREDLES 338 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L S L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 339 VL----STLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 391 >gi|197120055|ref|YP_002140482.1| RNA polymerase sigma-70 factor RpoD [Geobacter bemidjiensis Bem] gi|197089415|gb|ACH40686.1| RNA polymerase sigma-70 factor RpoD [Geobacter bemidjiensis Bem] Length = 584 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 81/260 (31%), Positives = 129/260 (49%), Gaps = 36/260 (13%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 +LA EH A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ Sbjct: 334 LLAIEEGEHKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 393 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITD 151 +RG++ +TY+ WWI+ A+ I ++I T N +L R+L +Q I Sbjct: 394 QRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQEIG- 447 Query: 152 NNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 PE++ + K L +++ E IS+ + +E S D+ Sbjct: 448 REPSPEEIAERMALPLDKVRKVLKIAK-EPISLETPIGEEE------------DSHLGDF 494 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSE 261 + D +E + N +R +S L PRE ++ R +++ TLE + + Sbjct: 495 I---EDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQD 551 Query: 262 FEVSRERVRQIEARAFKKVQ 281 FEV+RER+RQIEA+A +K++ Sbjct: 552 FEVTRERIRQIEAKALRKLR 571 >gi|253702377|ref|YP_003023566.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] gi|251777227|gb|ACT19808.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] Length = 584 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 81/259 (31%), Positives = 128/259 (49%), Gaps = 36/259 (13%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 +LA EH A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ Sbjct: 334 LLAIEEGEHKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 393 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITD 151 +RG++ +TY+ WWI+ A+ I ++I T N +L R+L +Q I Sbjct: 394 QRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQEI-G 447 Query: 152 NNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 PE++ + K L +++ E IS+ + +E S D+ Sbjct: 448 REPSPEEIAERMALPLDKVRKVLKIAK-EPISLETPIGEEE------------DSHLGDF 494 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSE 261 + D +E + N +R +S L PRE ++ R +++ TLE + + Sbjct: 495 I---EDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQD 551 Query: 262 FEVSRERVRQIEARAFKKV 280 FEV+RER+RQIEA+A +K+ Sbjct: 552 FEVTRERIRQIEAKALRKL 570 >gi|260911629|ref|ZP_05918210.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] gi|260634235|gb|EEX52344.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] Length = 290 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/272 (27%), Positives = 135/272 (49%), Gaps = 14/272 (5%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI + P++ EE LA++ R+ G A +LVT++LR VV +A Y+ GL Sbjct: 18 LDKYLVEIGRAPLISIDEEIELAQKIRKGGPEGEKAKDKLVTANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 78 TLTDLIDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINS 192 +L ++ + N + V ++ N+ E E I + G S++A Sbjct: 135 --VGSLNKINHEINKFEQENQRHPSVSELSDATNLDE-EKIGQSLMADGHHVSIDAPFQD 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQEN 251 + N D + D + + E N + VL RE I E + + Sbjct: 192 GEDNC--MLDVMASGDDSRTDKQADHESMALELNSVL--AKVLKDREITIIRECFGIGCH 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + + ++RERVRQI ++ K+++S Sbjct: 248 EKGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|300023333|ref|YP_003755944.1| RNA polymerase, sigma 70 subunit, RpoD [Hyphomicrobium denitrificans ATCC 51888] gi|299525154|gb|ADJ23623.1| RNA polymerase, sigma 70 subunit, RpoD [Hyphomicrobium denitrificans ATCC 51888] Length = 666 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 488 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 542 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + IE + N R+ Sbjct: 543 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDRNAVLPIEAAIQSNLRDTT 597 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|254461643|ref|ZP_05075059.1| RNA polymerase sigma-70 factor RpoD [Rhodobacterales bacterium HTCC2083] gi|206678232|gb|EDZ42719.1| RNA polymerase sigma-70 factor RpoD [Rhodobacteraceae bacterium HTCC2083] Length = 660 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 122/250 (48%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N+ +++ + R L LQ + Sbjct: 482 IRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAAKLQMPLE-- 539 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 K +V+ IAK E IS+ + D+ SQ D++ D Sbjct: 540 -KVRKVMKIAK-------EPISLETPIG------------DEEDSQLGDFI---EDKNAV 576 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 + ++ ++N + TR +S L PRE R+ R TLE + +F V+RER+RQ Sbjct: 577 LPLDSAIQENLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 636 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 637 IEAKALRKLK 646 >gi|194289649|ref|YP_002005556.1| RNA polymerase sigma 70 (sigma d) factor [Cupriavidus taiwanensis LMG 19424] gi|193223484|emb|CAQ69489.1| RNA polymerase sigma 70 (sigma D) factor [Cupriavidus taiwanensis LMG 19424] Length = 655 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 119/246 (48%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A H + ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 416 AKHEMTQANLRLVISIAKKYTNRGMQFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 475 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I +++ ++ L RL + T P +A++L++ Sbjct: 476 VRQAVTRAIADQARTIRVPVHMIEQ--INKLNRLSREIMQQTGKEPDP---AVLAERLDM 530 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +E +V +SM + GD SL +I SD + D Q + Sbjct: 531 TEDKVRSIMKIAKEPVSMETPVGEDGDTSLGDMIADSDTATP---------ADAALQAGL 581 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 R R ML L+PRE ++ R TLE + +F+V+RER+RQIE+ Sbjct: 582 ----RAVVREMLDE----LSPREAKVLRMRFGIDMSTDYTLEEVGKQFDVTRERIRQIES 633 Query: 275 RAFKKV 280 +A KK+ Sbjct: 634 KAMKKL 639 >gi|146338438|ref|YP_001203486.1| RNA polymerase sigma factor RpoD [Bradyrhizobium sp. ORS278] gi|146191244|emb|CAL75249.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. ORS278] Length = 703 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 465 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 524 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 525 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 579 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 580 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 634 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 635 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 689 >gi|296161119|ref|ZP_06843929.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295888642|gb|EFG68450.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 705 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/279 (27%), Positives = 141/279 (50%), Gaps = 32/279 (11%) Query: 24 RKIPMLEKQEEYVLAKRYR------------------EHGDLSAAHRLVTSHLRLVVKIA 65 R +P ++ ++E +LA + R E L A ++ ++LRLV+ IA Sbjct: 423 RNLPAIDLEQEKLLALQQRVVLPLDEFREVCRALSASEAKTLRAKGEMIEANLRLVISIA 482 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++ Sbjct: 483 KRYTNRGLLFLDLIQEGNIGLMRAVDKFEYRRGYKFSTYATWWIRQAVSRSIADQARTIR 542 Query: 126 IGTTANQKRLFFNLRRLKG-HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 + + +L +LK Q + + +P+ + +A+++ + E +V +M + Sbjct: 543 VPV-----HMIESLNKLKRISRQILQETGSEPDAAL-LAQRMEMQEQKVRAMLRIVREPV 596 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL+A + +D S D + D + + + R+ ++ ++ L PRE +I Sbjct: 597 SLDASVGENDDTS--IGDLI---EDSTAILPDDAALHASMRDAISEALMTLTPREAKILR 651 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E+ TLE L +FE++RER+RQIE +A +K++ Sbjct: 652 LRFGIESGRDHTLEELGEQFELTRERIRQIEVKALRKLR 690 >gi|126730240|ref|ZP_01746051.1| RNA polymerase sigma factor RpoD [Sagittula stellata E-37] gi|126708973|gb|EBA08028.1| RNA polymerase sigma factor RpoD [Sagittula stellata E-37] Length = 667 Score = 97.8 bits (242), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 489 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 543 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 544 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 598 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 653 >gi|307152414|ref|YP_003887798.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306982642|gb|ADN14523.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 377 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 141 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 200 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 201 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKILSQEMRRKPTEEEIATRMEM 255 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 256 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLEN 311 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 312 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 364 >gi|33519536|ref|NP_878368.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia floridanus] gi|33517199|emb|CAD83581.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia floridanus] Length = 617 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 118/244 (48%), Gaps = 32/244 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ +A+++ + Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQILQETGCEPTPEE---LAERMFM 492 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 SE ++ +SM + DE S D++ D + ++ Sbjct: 493 SEDKIRKVLKIAKEPVSMETPIGDDE------------DSHLGDFI---EDTNLDLPLDS 537 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 N R +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 ATSDNLRAATNDVLSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 597 Query: 277 FKKV 280 +K+ Sbjct: 598 LRKL 601 >gi|90422490|ref|YP_530860.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris BisB18] gi|90104504|gb|ABD86541.1| sigma 70 (RpoD) [Rhodopseudomonas palustris BisB18] Length = 702 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 464 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 523 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 524 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 578 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 579 PLEKVRKV-LKIAK-EPLSLETPVGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 633 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 634 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 688 >gi|32266044|ref|NP_860076.1| RNA polymerase sigma factor RpoD [Helicobacter hepaticus ATCC 51449] gi|32262093|gb|AAP77142.1| RNA polymerase sigma 70 factor [Helicobacter hepaticus ATCC 51449] Length = 623 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 119/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++GF+ +TY+ WW Sbjct: 384 AKAKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGFKFSTYATWW 443 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ ++ K + IAK++ + Sbjct: 444 IRQAISRAIADQARTIRIPI-----HMIETINRIHKIMRKHVQETGKEPDIDFIAKEVGL 498 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V ++ SL+A I S D ++ D++ I KE+ K + + Sbjct: 499 PIDKVKNVIKITKEPVSLDAPIGSDD--DGKFGDFVEDKSSVGPMDYILKEDLKVQ---I 553 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 554 DEVLEQLNDREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 609 >gi|148257986|ref|YP_001242571.1| RNA polymerase sigma factor RpoD [Bradyrhizobium sp. BTAi1] gi|146410159|gb|ABQ38665.1| RNA polymerase, sigma 70 subunit, RpoD [Bradyrhizobium sp. BTAi1] Length = 702 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 464 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 523 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 524 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 578 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 579 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 633 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 634 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 688 >gi|256371989|ref|YP_003109813.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] gi|256008573|gb|ACU54140.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] Length = 302 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/268 (28%), Positives = 137/268 (51%), Gaps = 18/268 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 ++ ++ K P+ E+ LAKR RE GD A +V ++LRLVV A Y+ G+ ++++ Sbjct: 40 FLDDLAKHPLPSAAEQVELAKRVRE-GDEDAKAEMVAANLRLVVHWARRYQDRGVELADL 98 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK-RLFF 137 + EG GL++AV+KFD RGF+ +TY+ WW++ ++Q + +++ A ++ R Sbjct: 99 IQEGTFGLIRAVEKFDWRRGFKFSTYATWWVRQSLQRAVHNHGQAIRLPMEAAERSRRVD 158 Query: 138 NLRRLKGHLQAITDNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 N+ R + D P E+ +A+A L+ S+ + R+ SL+ + + Sbjct: 159 NVTR-----ELAADLGRAPTEEEIAMAANLSASQLADVRHAARVVA--SLDQAVGPEGET 211 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQ-ENPVT 254 S D +V Q+ E+ + R ML R++ L+ ER++ R LQ + P + Sbjct: 212 S--LGDLVV----AQDTSFEEEVDESISREMLRRAVEELDELERQVVTLRFGLQGDRPAS 265 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQE 282 LE + + R R++EA A K+ E Sbjct: 266 LEATARILGIGPRRARRLEASALAKLAE 293 >gi|114328948|ref|YP_746105.1| RNA polymerase sigma factor RpoD [Granulibacter bethesdensis CGDNIH1] gi|114317122|gb|ABI63182.1| RNA polymerase sigma factor rpoD [Granulibacter bethesdensis CGDNIH1] Length = 654 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 416 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 475 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + +PE+ +A+KL + Sbjct: 476 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPQPEE---LAEKLGM 530 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N R Sbjct: 531 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKAAIIPLDAAIQANLREAT 585 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 586 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLK 640 >gi|300112902|ref|YP_003759477.1| RpoD subfamily RNA polymerase sigma 70 subunit [Nitrosococcus watsonii C-113] gi|299538839|gb|ADJ27156.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nitrosococcus watsonii C-113] Length = 310 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/273 (28%), Positives = 145/273 (53%), Gaps = 17/273 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A R + G+ + R++ S+LRLVVKI+ Y GL + ++ Sbjct: 42 YLSEIGFAPLLTAEEEVYYA-RLAKKGNSAGRKRMIESNLRLVVKISRRYMNRGLALLDL 100 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL+ AV+KFDPE GFR +TY+ WWI+ ++ ++ V++ ++ + Sbjct: 101 IEEGNLGLIHAVEKFDPEMGFRFSTYATWWIRQTIERALMNQTRTVRLPVHVVKE--IKS 158 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +R+ L +++ E+ +A++L+ E+ R+ + A +++ +N+ Sbjct: 159 YQRVANKLAQELEHDPSFEE---LAQQLDKPVEEI----KRVWSLKDNTASMDTGYRNNQ 211 Query: 199 QWQ--DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE-NPVT 254 + D L + VL++ ++ + R L +S LN ++R + R LQ P T Sbjct: 212 EKTLLDALPDEGAPDPTVLLQNDDMQAR---LELWLSQLNDKQREVVIRRFGLQGYEPQT 268 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LE + V+RERVRQI+ K+++ + K+ Sbjct: 269 LEQVGQAIGVTRERVRQIQLETLKRLRRILAKE 301 >gi|315453594|ref|YP_004073864.1| RNA polymerase sigma factor (sigma-70) [Helicobacter felis ATCC 49179] gi|315132646|emb|CBY83274.1| RNA polymerase sigma factor (sigma-70) [Helicobacter felis ATCC 49179] Length = 621 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 121/238 (50%), Gaps = 17/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ E+ +R +TY+ WW Sbjct: 382 AKNKMARSNLRLVVSIAKRYTSRGLPFLDLIQEGNIGLMKAVDKFEHEKNYRFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +AK++ + Sbjct: 442 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKYMQENGKEPDLDLVAKEVGL 496 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRN 226 +V ++ SL + + + D ++ D++ D + ++ R++ + Sbjct: 497 PLDKVKNVIKITKEPISLESPVGNDD--DGKFGDFVENDKVVGSMDHIM-----REDLKT 549 Query: 227 MLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 550 QIDGVLDQLNEREKSVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 607 >gi|260425299|ref|ZP_05779279.1| RNA polymerase sigma factor RpoD [Citreicella sp. SE45] gi|260423239|gb|EEX16489.1| RNA polymerase sigma factor RpoD [Citreicella sp. SE45] Length = 665 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 427 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 487 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 541 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 542 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 596 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 597 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 651 >gi|187736115|ref|YP_001878227.1| RNA polymerase, sigma 70 subunit, RpoD family [Akkermansia muciniphila ATCC BAA-835] gi|187426167|gb|ACD05446.1| RNA polymerase, sigma 70 subunit, RpoD family [Akkermansia muciniphila ATCC BAA-835] Length = 688 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 125/239 (52%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 447 AKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ L R++ L PE+ IA+ Sbjct: 507 IRQAITRSIADQARTIRIPVHMIETINK------LMRVQKQLVQEYGREPTPEE---IAE 557 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 ++++ V S+ SL A + SD S + D++ D + +E+ Sbjct: 558 EIHLPVERVRSVLKMAQQPISLQAPVGDSDDTS--FGDFI---EDKAAENPMEEASFSFL 612 Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + L RER + E R L++ +P TLE + +F V+RER+RQIEA+A +K++ Sbjct: 613 KEKIKDVLDTLTDREREVIEQRFGLRDGSPRTLEEVGRQFSVTRERIRQIEAKALRKLR 671 >gi|33862619|ref|NP_894179.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33634535|emb|CAE20521.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 313 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 81/297 (27%), Positives = 147/297 (49%), Gaps = 44/297 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-------------------------AA 50 +S Y+ I +IP+L EE L + + L+ A Sbjct: 20 VSWYLTTIGRIPLLTPAEEIELGNQVQTMMSLTQDGSVAPDDKEFTTHQRRMIRIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAITDNNLKPEQVVAIAKKL 166 +M I +++ +++ +R+ L L AI + IA+ + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVSLDLAHKLGAIPSRS-------EIAEAM 190 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ E+ S+ + SL+A +N ++ S + L+ D E ++K E++ Sbjct: 191 DIPVDELDSLLRQALTTSSLDAPVNGEERRS--FLGDLIADSSLGEP--LDKVEQRIHHE 246 Query: 227 MLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R +S L+ +E+ + + R E + TL + EVSRERVRQ+E +A +K++ Sbjct: 247 QLGRWLSHLSEQEQHVLKLRFGLETHDRHTLAEIGRLMEVSRERVRQVELKALRKLR 303 >gi|68171251|ref|ZP_00544654.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Ehrlichia chaffeensis str. Sapulpa] gi|88657966|ref|YP_507558.1| RNA polymerase sigma factor RpoD [Ehrlichia chaffeensis str. Arkansas] gi|67999333|gb|EAM85979.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Ehrlichia chaffeensis str. Sapulpa] gi|88599423|gb|ABD44892.1| RNA polymerase sigma factor RpoD [Ehrlichia chaffeensis str. Arkansas] Length = 622 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 68/239 (28%), Positives = 124/239 (51%), Gaps = 19/239 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL ++V EGNIGLM+AV KFD +RG++ +TY+ WW Sbjct: 385 AKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I ++I + + ++ L+ + + + ++ +LN+ Sbjct: 445 VRQAITRAIADQARTIRIPV-----HMIETVNKINRTLRQMLHEMGREPTLEELSARLNI 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRR 225 + ++ + + SL + I D +SS + D + +++ ++ E+ + R Sbjct: 500 NVDKIRKVMKIVKDPVSLESPI--GDDDSSTFGDCI------EDKRAVKPEDAAVLADLR 551 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + T+ +S L P+E RI R TLE + F V+RER+RQIEA+A +K++ Sbjct: 552 EITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLR 610 >gi|254704732|ref|ZP_05166560.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] Length = 257 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 123/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 19 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 78 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 79 IRQAITRSIADQARTIRIPVHMIETINK-----IVRTSRQMLHEI-GREPTPEE---LAE 129 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 130 KLAMPLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANL 184 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+ TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 185 RDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 243 >gi|118475308|ref|YP_891711.1| RNA polymerase sigma factor RpoD [Campylobacter fetus subsp. fetus 82-40] gi|118414534|gb|ABK82954.1| RNA polymerase sigma factor [Campylobacter fetus subsp. fetus 82-40] Length = 623 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/241 (31%), Positives = 125/241 (51%), Gaps = 21/241 (8%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ W Sbjct: 382 DAKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATW 441 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKL 166 WI+ A+ I ++I + + R+ K + + + + +P+ V IA+++ Sbjct: 442 WIRQAISRAIADQARTIRIPI-----HMIETINRINKINRKYLQEEGKEPD-VSIIAREV 495 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKN 223 +S +V + SL A I S D ++ D+ V D EQ+L + + Sbjct: 496 GLSIDKVKQVIKITKEPISLEAPIGSED--DGKYGDF-VEDKTTLSPMEQIL-----KGD 547 Query: 224 RRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK+ Sbjct: 548 LKEQIDEVLDQLNDREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKL 607 Query: 281 Q 281 + Sbjct: 608 K 608 >gi|87307232|ref|ZP_01089377.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] gi|87289972|gb|EAQ81861.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] Length = 507 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 132/263 (50%), Gaps = 39/263 (14%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E QEEY AKR L +LRLVV IA YR GL +++ EGN GLM+A Sbjct: 249 EFQEEYDAAKRL-----------LSAGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRA 297 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 V KF+ +RG++ +TY+ WWI+ A+ I +++ ++ G ++A+ Sbjct: 298 VDKFEYQRGYKFSTYATWWIRQAITRAIADQSRTIRVPV---------HMIDTMGKVRAV 348 Query: 150 TDNNLK------PEQVVAIAKKLNVSESEVISMNCR--LAGDESLNALINSSDKNSSQWQ 201 T + L+ + VA L++ ++ VI R L+ D+ + D + S + Sbjct: 349 TRDLLQELGRDPTAEEVAERAGLSIDDARVILKMNRNPLSLDQPVG------DHDDSFFG 402 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLS 259 ++L D +++ + + ++ ++ L + LN RER I R + TLE + Sbjct: 403 EFL---EDHRDEDPLYETHQQALKDRLCEVLEALNHREREIIRLRYGLTDGYSYTLEEVG 459 Query: 260 SEFEVSRERVRQIEARAFKKVQE 282 F V+RERVRQIE++A +K+Q+ Sbjct: 460 KIFSVTRERVRQIESKAVRKLQQ 482 >gi|238018971|ref|ZP_04599397.1| hypothetical protein VEIDISOL_00831 [Veillonella dispar ATCC 17748] gi|237864455|gb|EEP65745.1| hypothetical protein VEIDISOL_00831 [Veillonella dispar ATCC 17748] Length = 387 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 83/303 (27%), Positives = 146/303 (48%), Gaps = 43/303 (14%) Query: 4 KNMSIIVNGEIGLS------RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR----- 52 KN+SI ++ + G++ Y+ EI ++P+L EE VLAK+ A ++ Sbjct: 89 KNISIDLSVDSGVNIDDPVRMYLKEIGRVPLLSADEEIVLAKQIEAGAAEDATYKDVQLA 148 Query: 53 ------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 LV ++LRLVV IA Y G G+ +++ EGN+GL++AV KFD +G++ +TY+ Sbjct: 149 KKAKKKLVDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYAT 208 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV------- 159 WWI+ A+ I ++I + L R+ L PE++ Sbjct: 209 WWIRQAITRAIADQARTIRI--PVHMVETINKLIRISRQLLQDKGREPLPEEIAEGMGIT 266 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V +++ E +S+ + +E +S + + QD + D D +L++++ Sbjct: 267 VERVREIQKIAQEPVSLETPIGEEE------DSHLGDFIEDQDAIAPD-DAASYILLQEQ 319 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 + + L RE+++ R L++ P TLE + F V+RER+RQIE +A Sbjct: 320 --------IEDVFTCLTDREQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKAL 371 Query: 278 KKV 280 K+ Sbjct: 372 TKL 374 >gi|149184445|ref|ZP_01862763.1| RNA polymerase sigma factor RpoD [Erythrobacter sp. SD-21] gi|148831765|gb|EDL50198.1| RNA polymerase sigma factor RpoD [Erythrobacter sp. SD-21] Length = 668 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 123/236 (52%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLN 167 I+ A+ I ++I + + +L + Q + D +P +A+KL+ Sbjct: 490 IRQAITRSIADQARTIRIPV-----HMIETINKLVRCSRQFLHDQGREP-TPEEMAEKLS 543 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + +V + ++A E ++ D+ S D++ D + ++ + N + Sbjct: 544 MPLEKVRKV-MKIAK-EPISLETPIGDEEDSHLGDFI---EDKNAIIPVDAAIQANLKET 598 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 VTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 654 >gi|2338708|gb|AAC46374.1| sigma factor RpoS [Vibrio cholerae] Length = 168 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 45/100 (45%), Positives = 70/100 (70%), Gaps = 1/100 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE + A+R GD +A R++ S+LRLVVKI+ Y GL + ++ Sbjct: 6 YLSEIGFSPLLTAEEEVLYARRAL-RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDL 64 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ Sbjct: 65 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALM 104 >gi|57239060|ref|YP_180196.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Welgevonden] gi|58579003|ref|YP_197215.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Welgevonden] gi|58617062|ref|YP_196261.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Gardel] gi|57161139|emb|CAH58052.1| RNA polymerase sigma-70 factor [Ehrlichia ruminantium str. Welgevonden] gi|58416674|emb|CAI27787.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Gardel] gi|58417629|emb|CAI26833.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Welgevonden] Length = 622 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 124/245 (50%), Gaps = 19/245 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E A ++ ++LRLVV IA Y GL ++V EGNIGLM+AV KFD +RG++ + Sbjct: 379 ERAATQAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFS 438 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WW++ A+ I ++I + N R L+ L I + + + Sbjct: 439 TYATWWVRQAITRAIADQARTIRIPVHMIETVNKIN-RTLRQMLHEIG----REPTLEEL 493 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER- 221 + +LN++ ++ + + SL + I D +SS + D + +++ + E+ Sbjct: 494 SARLNINVDKIRKVMKIVKDPVSLESPI--GDDDSSTFGDCI------EDKRAVRPEDAA 545 Query: 222 --KNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARA 276 + R + T+ +S L P+E RI R TLE + F V+RER+RQIEA+A Sbjct: 546 VLADLREITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKA 605 Query: 277 FKKVQ 281 +K++ Sbjct: 606 LRKLR 610 >gi|83951483|ref|ZP_00960215.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] gi|83836489|gb|EAP75786.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] Length = 660 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 482 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 536 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ + N + Sbjct: 537 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQDNLKETT 591 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 592 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 646 >gi|238024932|ref|YP_002909164.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia glumae BGR1] gi|237879597|gb|ACR31929.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia glumae BGR1] Length = 805 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/279 (27%), Positives = 139/279 (49%), Gaps = 30/279 (10%) Query: 23 IRKIPMLEKQEEYVL---------------AKRYREHGDLSA--AHRLVT-SHLRLVVKI 64 +R IP + +Q++ +L R G+L A A R +T ++LRLV+ I Sbjct: 522 VRNIPAIHEQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVISI 581 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I + Sbjct: 582 AKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI 641 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 +I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A E Sbjct: 642 RI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIA-KE 694 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 695 PISMETPIGDDDDSHLGDFI---EDSNTVAPADAALHASMRDVVKDVLDSLTPREAKVLR 751 Query: 245 ARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 752 MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 790 >gi|288799880|ref|ZP_06405339.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] gi|288333128|gb|EFC71607.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] Length = 290 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/285 (27%), Positives = 142/285 (49%), Gaps = 38/285 (13%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + P++ +E LA++ ++ G A +LVT++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGRAPLISIDDEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LTLTDLIDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAG 182 +L ++ + N + V ++ N+ E ++ +S++ Sbjct: 135 ---VGSLNKINHEINKFEQENQRHPSVSELSDATNIDEEKIGQSLMADGHHVSIDAPFQD 191 Query: 183 DESLNALIN---SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 E N +++ SSD + + Q DH+ Q E E N+ VL RE Sbjct: 192 GED-NCMLDVMPSSDDSRTDRQ----VDHESMAQ---ELEAVLNK---------VLKDRE 234 Query: 240 RRIF-EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 I E + + LE + + ++RERVRQI ++ K+++S Sbjct: 235 ITIIRECFGIGCHEKGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|581612|emb|CAA37172.1| unnamed protein product [Streptomyces coelicolor A3(2)] Length = 396 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 85/294 (28%), Positives = 139/294 (47%), Gaps = 42/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ EI +IP+L EE LA+R E G + A Sbjct: 103 YLREIGRIPLLSAAEEVDLARRV-EAGLFAEEKLRCSPGLDDRLALDLDRLVVLGRLAKR 161 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ ++LRLVV +A Y G GL + ++V EGN+GL++AV+KFD RG++ +TY+ WWI+ Sbjct: 162 RLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQ 221 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + +++ + L + R++ + P++V A L+++ Sbjct: 222 AMSRALADQARTIRV--PVHVVELINRVVRVQRRMLQERGCEPTPQEVAA---HLDLA-P 275 Query: 172 EVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E + RLA + SL+A + D + D + DG +E R L Sbjct: 276 ERVGEVLRLAQEPVSLHAPVGEEDDVA--LGDLI---EDGDAASPVESAAFLLLRQHLEA 330 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +S L RER++ + R P TLE + V+RER+RQIE++ K+++ Sbjct: 331 VLSTLGERERKVVQLRYGLADGRPRTLEEIGRLGGVTRERIRQIESKTLSKLRD 384 >gi|206901861|ref|YP_002251028.1| RNA polymerase sigma factor RpoD [Dictyoglomus thermophilum H-6-12] gi|206740964|gb|ACI20022.1| RNA polymerase sigma factor RpoD [Dictyoglomus thermophilum H-6-12] Length = 413 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 47/108 (43%), Positives = 71/108 (65%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI KIP+L +EE LAKR E GD A +L+ ++LRLVV +A Y G GL ++ Sbjct: 75 YLKEIGKIPLLTPEEEIELAKRV-EQGDEEAKKKLIEANLRLVVSVAKRYIGRGLSFLDL 133 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 134 IQEGNLGLIKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRI 181 Score = 40.0 bits (92), Expect = 0.40, Method: Compositional matrix adjust. Identities = 40/144 (27%), Positives = 73/144 (50%), Gaps = 12/144 (8%) Query: 145 HLQAITDNNLKPEQVVAIAKKL-NVSESEVISMNCR-----LAGDESLNALINSSDKNSS 198 HL+A + E++ AK+L +V E E+ + + G E L+ + + + Sbjct: 259 HLKAKNNKVPTKEEINEKAKELKHVLEEEIRQQTEKVREISMMGQEPLSLEMPVGEDEDN 318 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLE 256 + D++ + ++K +K+ +L L+ RER I + R L++N P TLE Sbjct: 319 RLADFVENKDLSPADIAVQKSLKKDIEELLNE----LSEREREILKLRFGLEDNQPRTLE 374 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + F V+RER+RQIEA+A +++ Sbjct: 375 EVGKLFNVTRERIRQIEAKALRRL 398 >gi|296532787|ref|ZP_06895466.1| RNA polymerase sigma factor RpoD [Roseomonas cervicalis ATCC 49957] gi|296266895|gb|EFH12841.1| RNA polymerase sigma factor RpoD [Roseomonas cervicalis ATCC 49957] Length = 639 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 126/249 (50%), Gaps = 13/249 (5%) Query: 36 VLAKRYREHGDLSAAHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 V A R D++ A + ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ Sbjct: 387 VYATVSRGERDMTQAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 446 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 RG++ +TY+ WWI+ A+ I ++I + L R + Sbjct: 447 YRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREP 504 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 +PE+ +A+KL + +V + ++A E ++ D+ S D++ D + Sbjct: 505 QPEE---LAEKLGMPLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKAAII 556 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 ++ + N R TR ++ L PRE R+ R TLE + +F V+RER+RQI Sbjct: 557 PLDAAIQSNLREATTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQI 616 Query: 273 EARAFKKVQ 281 EA+A +K++ Sbjct: 617 EAKALRKLK 625 >gi|312113102|ref|YP_004010698.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodomicrobium vannielii ATCC 17100] gi|311218231|gb|ADP69599.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodomicrobium vannielii ATCC 17100] Length = 697 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 459 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 518 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL++ Sbjct: 519 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMMHEIGREPTPEE---LAEKLSM 573 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 574 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 628 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 629 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 683 >gi|85715949|ref|ZP_01046926.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] gi|85697147|gb|EAQ35028.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] Length = 716 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 478 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 537 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 538 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 592 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 593 PLEKVRKV-LKIAK-EPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 647 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 648 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 702 >gi|261755428|ref|ZP_05999137.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] gi|261745181|gb|EEY33107.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] Length = 235 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 74/235 (31%), Positives = 122/235 (51%), Gaps = 20/235 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A Sbjct: 1 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 60 Query: 113 MQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + I ++I T N+ +R + L I PE+ +A+KL + Sbjct: 61 ITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEI-GREPTPEE---LAEKLAM 111 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 112 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 166 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 167 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 221 >gi|109948008|ref|YP_665236.1| RNA polymerase sigma factor RpoD [Helicobacter acinonychis str. Sheeba] gi|109715229|emb|CAK00237.1| RNA polymerase sigma-70 factor [Helicobacter acinonychis str. Sheeba] Length = 659 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 420 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEYEKGFKFSTYATWW 479 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +A+++ + Sbjct: 480 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHMQENGKEPDLEVVAEEVGL 534 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V N E ++ + + ++ D++ D I+ R++ + + Sbjct: 535 SLDKV--KNVIKVTKEPISLETPVGNDDDGKFGDFV---EDKNIVSSIDHIMREDLKVQI 589 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 590 EGVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 645 >gi|328542886|ref|YP_004302995.1| RNA polymerase sigma factor [polymorphum gilvum SL003B-26A1] gi|326412632|gb|ADZ69695.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1] Length = 666 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 84/273 (30%), Positives = 135/273 (49%), Gaps = 27/273 (9%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E GL I E RKI M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 403 ETGLE--ITEFRKIVAMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 449 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 450 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PV 507 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 508 HMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLQMPLEKVRKV-LKIA-KEPISLET 562 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 563 PIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIG 619 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 620 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|4103484|gb|AAD01787.1| sigma-D factor [Myxococcus xanthus] Length = 297 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 74/259 (28%), Positives = 119/259 (45%), Gaps = 50/259 (19%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 GLS Y+ + L +++EY LA+R R+ GD SA +S+L VV +A + G Sbjct: 11 GLSHYLRNLGGHQQLTREQEYELARRARK-GDESARQTTASSNLAFVVAVAKKFANRGAR 69 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+A++ FDP++ R ATY++WWI+A + Y+ + S V+ G Sbjct: 70 LDDLIQEGNVGLMKAIEHFDPKKNVRFATYAVWWIRAYITRYLKDNRSQVRGG------- 122 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 E+E SM D SL+A I+ + Sbjct: 123 -----------------------------------EAERGSMV-----DFSLDATID--E 140 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 + + D L + +QV + E+ + L + + I R Q+ P+T Sbjct: 141 DGETTFLDRLEDNSPSPQQVFLAHEQDTEIQEALAKVRKRIGDLGWDILTERLTQDKPLT 200 Query: 255 LENLSSEFEVSRERVRQIE 273 LE L + VSRE VRQ+E Sbjct: 201 LEELGQRWGVSREPVRQVE 219 >gi|148241988|ref|YP_001227145.1| RNA polymerase sigma factor RpoD [Synechococcus sp. RCC307] gi|147850298|emb|CAK27792.1| RNA polymerase sigma factor RpoD, sigma-70 family [Synechococcus sp. RCC307] Length = 401 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 129/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 165 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 224 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A + ++ Sbjct: 225 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 279 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + +Q + + R++ Sbjct: 280 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPDQDVAKNLLREDLEG 335 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+PRER + R ++ TLE + F+V+RER+RQIEA+A K++ Sbjct: 336 VL----ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALLKLR 388 >gi|71891846|ref|YP_277575.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia pennsylvanicus str. BPEN] gi|71795952|gb|AAZ40703.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia pennsylvanicus str. BPEN] Length = 611 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + + PE+ +A+++ + Sbjct: 433 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEIGHEPTPEE---LAERMLM 487 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE ++ + ++A E ++ D S D++ D + ++ N R Sbjct: 488 SEDKIRKV-LKIAK-EPISMETPVGDDEDSHLGDFI---EDTNHDLPLDSATSDNLRTAT 542 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L PRE ++ R + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 543 HDILSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 597 >gi|282881579|ref|ZP_06290248.1| sigma-70 region 2 [Prevotella timonensis CRIS 5C-B1] gi|281304565|gb|EFA96656.1| sigma-70 region 2 [Prevotella timonensis CRIS 5C-B1] Length = 290 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/271 (25%), Positives = 135/271 (49%), Gaps = 12/271 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L +Y+ EI + P++ EE LA++ ++ G A +LVT++LR VV +A Y+ GL Sbjct: 18 LDKYLVEIGRAPLISIDEEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQGL 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 78 TLTDLIDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ- 134 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 +L ++ + + + + ++ N+ E ++ S++A Sbjct: 135 --VGSLNKINHEINRFEQEHHRRPSITELSDATNIDEEKIGQSMMADGHHVSIDAPFQDG 192 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQENP 252 + N+ D + D + ++ E N + VL RE I E + + Sbjct: 193 EDNT--MLDVMPSGDDSRTDRQVDHESMAQELNTVLN--KVLKDREITIIKECFGIGCHE 248 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + + ++RERVRQI ++ K+++S Sbjct: 249 KGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|186681474|ref|YP_001864670.1| RNA polymerase sigma factor SigC [Nostoc punctiforme PCC 73102] gi|186463926|gb|ACC79727.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 416 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 128/238 (53%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 175 LQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 234 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I + + +A +L Sbjct: 235 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKIAQEKGRTPTLEDLATEL 289 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++V + R+ SL + DK+ ++ + L D E++L+ + +++ + Sbjct: 290 EMTPTQVREVLLRVPRSVSLETKVG-KDKD-TELGELLETDCVTPEEMLMRESLQRDLHH 347 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L S L RER + R +P +L + ++SRERVRQIE++A +K+++ Sbjct: 348 LL----SDLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401 >gi|298373668|ref|ZP_06983657.1| RNA polymerase sigma-70 factor [Bacteroidetes oral taxon 274 str. F0058] gi|298274720|gb|EFI16272.1| RNA polymerase sigma-70 factor [Bacteroidetes oral taxon 274 str. F0058] Length = 287 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/276 (27%), Positives = 141/276 (51%), Gaps = 31/276 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ ++E LA+R R+ GD +A +LV ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREELITIEQEVELAQRIRK-GDHAALDKLVRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLIDEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQ--- 131 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDES 185 L ++ Q + + V IA L +S ++ IS++ E Sbjct: 132 VGALNKINKAFQRFEQEHERLPSVEEIATDLEISLDKITDTMKVSGRHISVDAPFVDGED 191 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 N L++ +SS D + E +L E E + ++L RER I + Sbjct: 192 -NTLLDVLMNDSSPATDQKLM----SESLLTEIERALD---------ALLQERERDIVKM 237 Query: 246 -RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + +TLE + +F ++RERVRQI+ +A +++ Sbjct: 238 FFGIGCAEMTLEEIGDQFGLTRERVRQIKEKAIRRL 273 >gi|194290318|ref|YP_002006225.1| RNA polymerase sigma factor rpod [Cupriavidus taiwanensis LMG 19424] gi|193224153|emb|CAQ70162.1| RNA POLYMERASE SIGMA D (SIGMA-70) FACTOR TRANSCRIPTION REGULATOR PROTEIN [Cupriavidus taiwanensis LMG 19424] Length = 683 Score = 97.4 bits (241), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 444 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 503 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 504 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 558 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R+++ Sbjct: 559 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRDVV 613 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 614 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 668 >gi|228988887|ref|ZP_04148936.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228770801|gb|EEM19317.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 295 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 83/289 (28%), Positives = 142/289 (49%), Gaps = 43/289 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG-LP 74 + +Y++EI +L ++ +Y+E GD+ + L+ S+LRLVV +A + YG Sbjct: 11 MGKYLNEICNYDILTDEQSMEHIIKYKEKGDIDSRDLLICSNLRLVVSVAKSFPCYGNCD 70 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ-- 132 + E++ EG IGLM+ ++ +D +G +L+TY WWI+ + +Y+ + S V++ TT + Sbjct: 71 LMEMIQEGTIGLMKGLEDYDYTKGNKLSTYITWWIRQRISKYLSINRSDVRVATTMQKKI 130 Query: 133 ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K ++ KG NL ++V A++L ES VI L D N + Sbjct: 131 TEVKNCYYENMGEKG-------TNLTTKEV---AERLGYKESIVIDA---LVTDRITNTI 177 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVL--------------IEKEERKNRRNMLTRSMSVL 235 S ++ Q + L+ D Q+ L I EE K + L L Sbjct: 178 ---SIEDDVQNEKTLL---DKQQSTLAILANKNAPNPSEVIATEEEKFEFDELM--FVTL 229 Query: 236 NPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQE 282 NPRE + R ++ + TLE+ + V+RERV+QIE +A +K+++ Sbjct: 230 NPREESVLRYRFGFDDGIELTLEDTARILGVTRERVQQIEKKAIEKMKQ 278 >gi|154252764|ref|YP_001413588.1| RNA polymerase sigma factor RpoD [Parvibaculum lavamentivorans DS-1] gi|154156714|gb|ABS63931.1| RNA polymerase, sigma 70 subunit, RpoD [Parvibaculum lavamentivorans DS-1] Length = 656 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 418 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 477 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 478 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPTPEE---LAEKLGM 532 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 533 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 587 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 588 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 642 >gi|75676624|ref|YP_319045.1| RNA polymerase sigma factor RpoD [Nitrobacter winogradskyi Nb-255] gi|74421494|gb|ABA05693.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrobacter winogradskyi Nb-255] Length = 717 Score = 97.4 bits (241), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 479 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 538 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 539 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 593 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 594 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 648 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 649 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 703 >gi|330936784|gb|EGH40944.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. pisi str. 1704B] Length = 176 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 46/100 (46%), Positives = 69/100 (69%), Gaps = 1/100 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++EI P+L +EE A R + GD + R++ S+LRLVVKIA Y GL + ++ Sbjct: 67 YLNEIGFSPLLSPEEEVHFA-RLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDL 125 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 126 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 165 >gi|302036356|ref|YP_003796678.1| RNA polymerase sigma factor RpoD (Sigma-70) [Candidatus Nitrospira defluvii] gi|300604420|emb|CBK40752.1| RNA polymerase sigma factor RpoD (Sigma-70) [Candidatus Nitrospira defluvii] Length = 601 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 121/231 (52%), Gaps = 12/231 (5%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WWI+ A Sbjct: 366 LVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWIRQA 425 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I ++I + L R HL PE+ IA+++++ + Sbjct: 426 ITRAIADQARTIRI--PVHMIETINKLIRTSRHLVQKLGREPTPEE---IAERMDLPLDK 480 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 V + ++A E ++ ++ S D++ D + +E R + + + ++ Sbjct: 481 VRKI-LKIA-REPISLETPIGEEEDSHLGDFI---EDKKAVSPLEAAIRYDLQRQINGAL 535 Query: 233 SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L PRE ++ R + TLE + +FEV+RER+RQIEA+A +K++ Sbjct: 536 ETLTPREEKVLRKRFGIGEATDHTLEEVGQDFEVTRERIRQIEAKALRKLR 586 >gi|154148465|ref|YP_001406295.1| RNA polymerase sigma factor RpoD [Campylobacter hominis ATCC BAA-381] gi|153804474|gb|ABS51481.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Campylobacter hominis ATCC BAA-381] Length = 624 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 118/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +G++ +TY+ WW Sbjct: 385 AKSLMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYRKGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + N K + +AK++ + Sbjct: 445 IRQAISRAIADQARTIRIPI-----HMIETINRINKINRKYVQENGKEPDITILAKEVGL 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S ++ + SL A + + D ++ D++ D I++ + + + + Sbjct: 500 SIDKIKQVIKITKEPISLEAPVGNED--DGKFGDFV---EDKGTISPIDQILKNDLKEQI 554 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + LN RER + R E+ TLE + E V+RERVRQIEA A KK++ Sbjct: 555 DKVLDQLNERERAVIRMRFGLLDDESDRTLEEIGKELSVTRERVRQIEASAIKKLK 610 >gi|222824021|ref|YP_002575595.1| RNA polymerase sigma 70 factor [Campylobacter lari RM2100] gi|222539243|gb|ACM64344.1| RNA polymerase sigma 70 factor [Campylobacter lari RM2100] Length = 625 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 118/246 (47%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 384 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 443 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + ++ ++ K V IAK++ + Sbjct: 444 IRQAISRAIADQARTIRIPI-----HMIETINQINKIIREYLQKEGKEPDVSIIAKEVGL 498 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 S +V IS+ ++ ++ D+ S D ++ D D +EQ+ Sbjct: 499 SVDKVKQVIKITKEPISLEAPISNEDDGKFGDFVEDRTSISPMDHILKD-DLKEQI---- 553 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 554 ----------DEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQIESS 603 Query: 276 AFKKVQ 281 A KK++ Sbjct: 604 AIKKLK 609 >gi|158334481|ref|YP_001515653.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158304722|gb|ABW26339.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 126/255 (49%), Gaps = 21/255 (8%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 IP+ + Q+E L + +A ++V S+LRLVV IA Y L +++ EG IG Sbjct: 68 IPVSQLQKELKLGQ--------TANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIG 119 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L + V+KFDP +G+R +TY+ WWI+ AM I +++ N+K LR++K Sbjct: 120 LQRGVEKFDPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEK--LNKLRKVKRQ 177 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 L + V +A ++ +S +V + SL+ + D+ +++ + L Sbjct: 178 LSLKLHRD---PTVAELATEMELSPKKVEAFLSYARHSISLD--VQVGDQQNTELWELLE 232 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFE 263 H E + + L + ++VLNP++R + R + +NP+TL + Sbjct: 233 DPHASPEDYATASYLQSD----LAKLLNVLNPQQREVITLRYGLIDQNPLTLAKVGERLN 288 Query: 264 VSRERVRQIEARAFK 278 VSRE VR++E AF+ Sbjct: 289 VSREWVRRVEREAFQ 303 >gi|92118365|ref|YP_578094.1| RNA polymerase sigma factor RpoD [Nitrobacter hamburgensis X14] gi|91801259|gb|ABE63634.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrobacter hamburgensis X14] Length = 717 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 479 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 538 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 539 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 593 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 594 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 648 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 649 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 703 >gi|306844486|ref|ZP_07477075.1| RNA polymerase sigma factor RpoD [Brucella sp. BO1] gi|306275097|gb|EFM56853.1| RNA polymerase sigma factor RpoD [Brucella sp. BO1] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|59714198|ref|YP_206973.1| sigma-Q factor RpoQ, quorum-sensing regulated RpoS-like sigma subunit [Vibrio fischeri ES114] gi|59482446|gb|AAW88085.1| sigma-Q factor RpoQ, quorum-sensing regulated RpoS-like sigma subunit [Vibrio fischeri ES114] Length = 294 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 86/296 (29%), Positives = 140/296 (47%), Gaps = 58/296 (19%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG---YGL 73 S Y+ EI + +L +EE ++ Y++ GD+SA + L+ S+LRLVVK+A YR L Sbjct: 21 SLYLKEINRYQLLTAEEELAYSRLYKK-GDVSARNTLIESNLRLVVKVANKYRKRNQTDL 79 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK--IGTTAN 131 I +++ EGN+GL++A+ KF+PE G+R +TY++WWI+ +++ + V+ + T Sbjct: 80 AILDIIEEGNLGLIKAIDKFNPELGYRFSTYAVWWIRESIESALFNHSRTVRLPVHITKE 139 Query: 132 QKRLFFNLRRLKGHLQ---AITD---------------NNLKPEQVV---AIAKKLNVSE 170 R L L+ +I D +L P Q+ A + +L+ Sbjct: 140 LNTYLRAARELSKSLKREPSIRDISTYCEEEQIKVSKIISLIPNQLTCHSACSDELSPKF 199 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S N L D SL+ N+ + N S W D L Y EKE NR + Sbjct: 200 FELSSNNKALEPDSSLSQ--NNLEMNLSSWIDSLNYR---------EKEIIINRYGLFGC 248 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + TLE+L + ++S+ERVRQI++ K+ +K Sbjct: 249 KVK--------------------TLEDLGKDLDLSKERVRQIQSETLIKLNTIFKK 284 >gi|113867637|ref|YP_726126.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Ralstonia eutropha H16] gi|113526413|emb|CAJ92758.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Ralstonia eutropha H16] Length = 656 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 118/246 (47%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A H + ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 417 AKHEMTQANLRLVISIAKKYTNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 476 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I +++ ++ L RL + T P +A++L++ Sbjct: 477 VRQAVTRAIADQARTIRVPVHMIEQ--INKLNRLSREIMQQTGKEPDP---AVLAERLDM 531 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +E +V +SM + GD SL +I SD + D Q + Sbjct: 532 TEDKVRSIMKIAKEPVSMETPVGEDGDTSLGDMIADSDTATP---------ADAALQAGL 582 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 R R ML L PRE ++ R TLE + +F+V+RER+RQIE+ Sbjct: 583 ----RAVVREMLDE----LTPREAKVLRMRFGIDMSTDYTLEEVGKQFDVTRERIRQIES 634 Query: 275 RAFKKV 280 +A KK+ Sbjct: 635 KAMKKL 640 >gi|225627926|ref|ZP_03785962.1| RNA polymerase sigma factor RpoD [Brucella ceti str. Cudo] gi|256160209|ref|ZP_05457903.1| RNA polymerase sigma factor RpoD [Brucella ceti M490/95/1] gi|256255415|ref|ZP_05460951.1| RNA polymerase sigma factor RpoD [Brucella ceti B1/94] gi|260169148|ref|ZP_05755959.1| RNA polymerase sigma factor RpoD [Brucella sp. F5/99] gi|261222619|ref|ZP_05936900.1| RNA polymerase sigma factor RpoD [Brucella ceti B1/94] gi|261758658|ref|ZP_06002367.1| RNA polymerase sigma factor [Brucella sp. F5/99] gi|265998584|ref|ZP_06111141.1| RNA polymerase sigma factor RpoD [Brucella ceti M490/95/1] gi|225617089|gb|EEH14135.1| RNA polymerase sigma factor RpoD [Brucella ceti str. Cudo] gi|260921203|gb|EEX87856.1| RNA polymerase sigma factor RpoD [Brucella ceti B1/94] gi|261738642|gb|EEY26638.1| RNA polymerase sigma factor [Brucella sp. F5/99] gi|262553208|gb|EEZ09042.1| RNA polymerase sigma factor RpoD [Brucella ceti M490/95/1] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|256061534|ref|ZP_05451676.1| RNA polymerase sigma factor RpoD [Brucella neotomae 5K33] gi|261325543|ref|ZP_05964740.1| RNA polymerase sigma factor RpoD [Brucella neotomae 5K33] gi|261301523|gb|EEY05020.1| RNA polymerase sigma factor RpoD [Brucella neotomae 5K33] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|154245186|ref|YP_001416144.1| RNA polymerase sigma factor RpoD [Xanthobacter autotrophicus Py2] gi|154159271|gb|ABS66487.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthobacter autotrophicus Py2] Length = 666 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 84/272 (30%), Positives = 134/272 (49%), Gaps = 25/272 (9%) Query: 13 EIGLSRYIHEIRKI-PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 E GL I E RKI M++K E K R+ A +V ++LRLV+ IA Y Sbjct: 403 ETGLE--IAEFRKIVQMVQKGE-----KEARQ-----AKKEMVEANLRLVISIAKKYTNR 450 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + Sbjct: 451 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVH 508 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 509 MIETINKIVRTSRQMLHEIGREPTPEE---LAEKLGMPLEKVRKV-LKIA-KEPISLETP 563 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQ 249 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 564 IGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGM 620 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 621 NTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|148259873|ref|YP_001234000.1| RNA polymerase sigma factor RpoD [Acidiphilium cryptum JF-5] gi|326403199|ref|YP_004283280.1| RNA polymerase sigma factor RpoD [Acidiphilium multivorum AIU301] gi|146401554|gb|ABQ30081.1| RNA polymerase, sigma 70 subunit, RpoD [Acidiphilium cryptum JF-5] gi|325050060|dbj|BAJ80398.1| RNA polymerase sigma factor RpoD [Acidiphilium multivorum AIU301] Length = 638 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 76/259 (29%), Positives = 126/259 (48%), Gaps = 13/259 (5%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+ E + Y R E A ++ ++LRLV+ IA Y GL +++ EGNI Sbjct: 377 QLPIEEFRRVYSTVSRG-ERDSTRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNI 435 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R Sbjct: 436 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLVRTSR 493 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + PE+ +A+KL + +V + ++A E ++ D+ S D++ Sbjct: 494 QMLHEIGREPTPEE---LAEKLGMPLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI 548 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 D + ++ N R TR +S L PRE R+ R TLE + +F Sbjct: 549 ---EDKNAIIPLDAAVHANLREAATRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQF 605 Query: 263 EVSRERVRQIEARAFKKVQ 281 V+RER+RQIEA+A +K++ Sbjct: 606 NVTRERIRQIEAKALRKLK 624 >gi|293375429|ref|ZP_06621710.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325844412|ref|ZP_08168139.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] gi|292645982|gb|EFF64011.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325489086|gb|EGC91470.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] Length = 464 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 80/246 (32%), Positives = 121/246 (49%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A RLV S+LRLVV IA + G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 226 AKKRLVESNLRLVVSIARRHIGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 285 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L L R + + PE+ Sbjct: 286 IRQAITRAIADQARTIRIPVHMIETINKLVRIQRQLVQELGREPLPEEIAEKMEITPEKA 345 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I L +S+ E IS+ + D SL I +D S D +++ Sbjct: 346 REI---LKISQ-EPISLESPVGDEADSSLGDFIPDADALSPS---------DFTSNEMLK 392 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 KE L + L RE R+ R E+ TLE + EF V+RER+RQIEA+ Sbjct: 393 KE--------LAEVLETLTDREERVLRLRFGLEDGHTRTLEEVGKEFGVTRERIRQIEAK 444 Query: 276 AFKKVQ 281 A +K++ Sbjct: 445 ALRKLR 450 >gi|239832356|ref|ZP_04680685.1| RNA polymerase sigma factor RpoD [Ochrobactrum intermedium LMG 3301] gi|239824623|gb|EEQ96191.1| RNA polymerase sigma factor RpoD [Ochrobactrum intermedium LMG 3301] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 123/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 494 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIG-REPTPEE---LAE 544 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 545 KLAMPLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANL 599 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+ TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 RDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|27382460|ref|NP_773989.1| RNA polymerase sigma factor RpoD [Bradyrhizobium japonicum USDA 110] gi|1742976|emb|CAA67902.1| primary sigma factor [Bradyrhizobium japonicum] gi|27355631|dbj|BAC52614.1| primary sigma factor [Bradyrhizobium japonicum USDA 110] Length = 719 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 481 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 540 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 541 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLNEIGREPTPEE---LAEKLGM 595 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E L+ D+ S D++ D + I+ + N R Sbjct: 596 PLEKVRKV-LKIA-KEPLSLETPVGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 650 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 651 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 705 >gi|224438138|ref|ZP_03659073.1| RNA polymerase sigma factor RpoD [Helicobacter cinaedi CCUG 18818] gi|313144578|ref|ZP_07806771.1| RNA polymerase sigma factor RpoD [Helicobacter cinaedi CCUG 18818] gi|313129609|gb|EFR47226.1| RNA polymerase sigma factor RpoD [Helicobacter cinaedi CCUG 18818] Length = 623 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 119/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++GF+ +TY+ WW Sbjct: 384 AKAKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGFKFSTYATWW 443 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ ++ K + IAK++ + Sbjct: 444 IRQAISRAIADQARTIRIPI-----HMIETINRIHKIMRKHIQETGKEPDIEYIAKEVGL 498 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V ++ SL+A I S D ++ D++ I KE+ K + + Sbjct: 499 PIDKVKNVIKITKEPVSLDAPIGSDD--DGKFGDFVEDKSSVGPMDYILKEDLKVQ---I 553 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 554 DDVLEQLNDREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 609 >gi|119386779|ref|YP_917834.1| RNA polymerase sigma factor RpoD [Paracoccus denitrificans PD1222] gi|119377374|gb|ABL72138.1| RNA polymerase, sigma 70 subunit, RpoD [Paracoccus denitrificans PD1222] Length = 664 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 426 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 486 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 540 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 541 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 595 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 596 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 650 >gi|319406862|emb|CBI80497.1| RNA polymerase sigma factor [Bartonella sp. 1-1C] Length = 669 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 431 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 490 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 491 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 545 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+++S D++ D + I+ + N R+ Sbjct: 546 PLEKVRKV-LKIAK-EPISLETPVGDEDASHLGDFI---EDRNALLPIDAAIQANLRDTT 600 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 601 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 655 >gi|89055941|ref|YP_511392.1| RNA polymerase sigma factor RpoD [Jannaschia sp. CCS1] gi|88865490|gb|ABD56367.1| RNA polymerase, sigma 70 subunit, RpoD [Jannaschia sp. CCS1] Length = 668 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 490 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 544 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 545 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 599 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 654 >gi|62290370|ref|YP_222163.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 1 str. 9-941] gi|254708148|ref|ZP_05169976.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M163/99/10] gi|261315652|ref|ZP_05954849.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M163/99/10] gi|62196502|gb|AAX74802.1| RpoD, RNA polymerase sigma-70 factor [Brucella abortus bv. 1 str. 9-941] gi|261304678|gb|EEY08175.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M163/99/10] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|17986815|ref|NP_539449.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. 16M] gi|23502348|ref|NP_698475.1| RNA polymerase sigma factor RpoD [Brucella suis 1330] gi|82700292|ref|YP_414866.1| RNA polymerase sigma factor RpoD [Brucella melitensis biovar Abortus 2308] gi|161619426|ref|YP_001593313.1| RNA polymerase sigma factor RpoD [Brucella canis ATCC 23365] gi|189024598|ref|YP_001935366.1| RNA polymerase sigma factor RpoD [Brucella abortus S19] gi|237815873|ref|ZP_04594870.1| RNA polymerase sigma factor RpoD [Brucella abortus str. 2308 A] gi|254689668|ref|ZP_05152922.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 6 str. 870] gi|254694158|ref|ZP_05155986.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 3 str. Tulya] gi|254697811|ref|ZP_05159639.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 2 str. 86/8/59] gi|254702196|ref|ZP_05164024.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 5 str. 513] gi|254714701|ref|ZP_05176512.1| RNA polymerase sigma factor RpoD [Brucella ceti M644/93/1] gi|254717762|ref|ZP_05179573.1| RNA polymerase sigma factor RpoD [Brucella ceti M13/05/1] gi|254730700|ref|ZP_05189278.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 4 str. 292] gi|256045103|ref|ZP_05448004.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. Rev.1] gi|256114033|ref|ZP_05454810.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 3 str. Ether] gi|256257919|ref|ZP_05463455.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 9 str. C68] gi|256369896|ref|YP_003107407.1| RNA polymerase sigma factor [Brucella microti CCM 4915] gi|260546908|ref|ZP_05822647.1| RNA polymerase sigma factor [Brucella abortus NCTC 8038] gi|260565297|ref|ZP_05835781.1| RNA polymerase sigma factor [Brucella melitensis bv. 1 str. 16M] gi|260566021|ref|ZP_05836491.1| RNA polymerase sigma factor [Brucella suis bv. 4 str. 40] gi|260755199|ref|ZP_05867547.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 6 str. 870] gi|260758418|ref|ZP_05870766.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 4 str. 292] gi|260762244|ref|ZP_05874587.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 2 str. 86/8/59] gi|260884215|ref|ZP_05895829.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 9 str. C68] gi|261214461|ref|ZP_05928742.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 3 str. Tulya] gi|261219607|ref|ZP_05933888.1| RNA polymerase sigma factor RpoD [Brucella ceti M13/05/1] gi|261322495|ref|ZP_05961692.1| RNA polymerase sigma factor RpoD [Brucella ceti M644/93/1] gi|261752768|ref|ZP_05996477.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 5 str. 513] gi|265991536|ref|ZP_06104093.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. Rev.1] gi|265995374|ref|ZP_06107931.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 3 str. Ether] gi|294852799|ref|ZP_06793472.1| RNA polymerase primary sigma factor [Brucella sp. NVSL 07-0026] gi|297248755|ref|ZP_06932473.1| RNA polymerase primary sigma factor [Brucella abortus bv. 5 str. B3196] gi|306843169|ref|ZP_07475787.1| RNA polymerase sigma factor RpoD [Brucella sp. BO2] gi|17982448|gb|AAL51713.1| RNA polymerase sigma factor rpod [Brucella melitensis bv. 1 str. 16M] gi|23348329|gb|AAN30390.1| RNA polymerase sigma-70 factor [Brucella suis 1330] gi|82616393|emb|CAJ11454.1| Sigma-70 factor family:Sigma-70 factor, region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essent [Brucella melitensis biovar Abortus 2308] gi|161336237|gb|ABX62542.1| RNA polymerase sigma factor rpoD [Brucella canis ATCC 23365] gi|189020170|gb|ACD72892.1| RNA polymerase sigma factor [Brucella abortus S19] gi|237789171|gb|EEP63382.1| RNA polymerase sigma factor RpoD [Brucella abortus str. 2308 A] gi|256000059|gb|ACU48458.1| RNA polymerase sigma factor [Brucella microti CCM 4915] gi|260095958|gb|EEW79835.1| RNA polymerase sigma factor [Brucella abortus NCTC 8038] gi|260151365|gb|EEW86459.1| RNA polymerase sigma factor [Brucella melitensis bv. 1 str. 16M] gi|260155539|gb|EEW90619.1| RNA polymerase sigma factor [Brucella suis bv. 4 str. 40] gi|260668736|gb|EEX55676.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 4 str. 292] gi|260672676|gb|EEX59497.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 2 str. 86/8/59] gi|260675307|gb|EEX62128.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 6 str. 870] gi|260873743|gb|EEX80812.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 9 str. C68] gi|260916068|gb|EEX82929.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 3 str. Tulya] gi|260924696|gb|EEX91264.1| RNA polymerase sigma factor RpoD [Brucella ceti M13/05/1] gi|261295185|gb|EEX98681.1| RNA polymerase sigma factor RpoD [Brucella ceti M644/93/1] gi|261742521|gb|EEY30447.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 5 str. 513] gi|262766487|gb|EEZ12276.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 3 str. Ether] gi|263002320|gb|EEZ14895.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. Rev.1] gi|294821388|gb|EFG38387.1| RNA polymerase primary sigma factor [Brucella sp. NVSL 07-0026] gi|297175924|gb|EFH35271.1| RNA polymerase primary sigma factor [Brucella abortus bv. 5 str. B3196] gi|306286647|gb|EFM58210.1| RNA polymerase sigma factor RpoD [Brucella sp. BO2] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|229526927|ref|ZP_04416329.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] gi|229336054|gb|EEO01074.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] Length = 547 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 309 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 368 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 369 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 423 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 424 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 478 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 479 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 533 >gi|254719520|ref|ZP_05181331.1| RNA polymerase sigma factor RpoD [Brucella sp. 83/13] gi|265984525|ref|ZP_06097260.1| RNA polymerase sigma factor RpoD [Brucella sp. 83/13] gi|306837542|ref|ZP_07470416.1| RNA polymerase sigma factor RpoD [Brucella sp. NF 2653] gi|264663117|gb|EEZ33378.1| RNA polymerase sigma factor RpoD [Brucella sp. 83/13] gi|306407378|gb|EFM63583.1| RNA polymerase sigma factor RpoD [Brucella sp. NF 2653] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|16332132|ref|NP_442860.1| RNA polymerase sigma factor RpoD [Synechocystis sp. PCC 6803] gi|47717353|sp|P74565|RPOD_SYNY3 RecName: Full=RNA polymerase sigma factor rpoD gi|1653761|dbj|BAA18672.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 425 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 127/236 (53%), Gaps = 17/236 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 249 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEM 303 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 304 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLEN 359 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 360 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKL 411 >gi|225852960|ref|YP_002733193.1| RNA polymerase sigma factor RpoD [Brucella melitensis ATCC 23457] gi|256263561|ref|ZP_05466093.1| RNA polymerase sigma factor [Brucella melitensis bv. 2 str. 63/9] gi|225641325|gb|ACO01239.1| RNA polymerase sigma factor RpoD [Brucella melitensis ATCC 23457] gi|263093589|gb|EEZ17614.1| RNA polymerase sigma factor [Brucella melitensis bv. 2 str. 63/9] gi|326409500|gb|ADZ66565.1| RNA polymerase sigma factor RpoD [Brucella melitensis M28] gi|326539207|gb|ADZ87422.1| RNA polymerase sigma factor RpoD [Brucella melitensis M5-90] Length = 672 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 494 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 548 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R+ Sbjct: 549 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRDTT 603 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 604 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|89070863|ref|ZP_01158102.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] gi|89043551|gb|EAR49761.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] Length = 657 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 419 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 478 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 479 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 533 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 534 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 588 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 589 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 643 >gi|194367344|ref|YP_002029954.1| RNA polymerase sigma factor RpoD [Stenotrophomonas maltophilia R551-3] gi|194350148|gb|ACF53271.1| RNA polymerase, sigma 70 subunit, RpoD [Stenotrophomonas maltophilia R551-3] Length = 618 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 76/265 (28%), Positives = 125/265 (47%), Gaps = 32/265 (12%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L+ +E A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+ Sbjct: 359 LDDLKELSRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 418 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R+ + Sbjct: 419 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQ 476 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSS 198 PE+ +AK++++ E ++ ISM + DE S Sbjct: 477 QYGREATPEE---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DS 521 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLE 256 D++ D + IE N + ++ L PRE ++ R + N TLE Sbjct: 522 HLGDFI---EDTNVESPIENTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLE 578 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +F+V+RER+RQIEA+A +K++ Sbjct: 579 EVGKQFDVTRERIRQIEAKALRKLR 603 >gi|163843732|ref|YP_001628136.1| RNA polymerase sigma factor RpoD [Brucella suis ATCC 23445] gi|163674455|gb|ABY38566.1| RNA polymerase sigma factor RpoD [Brucella suis ATCC 23445] Length = 666 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 123/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 488 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIG-REPTPEE---LAE 538 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 539 KLAMPLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANL 593 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+ TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 RDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|163742972|ref|ZP_02150355.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161383655|gb|EDQ08041.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] Length = 662 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 424 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 483 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 484 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 538 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 539 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 593 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 648 >gi|110679091|ref|YP_682098.1| RNA polymerase sigma factor RpoD [Roseobacter denitrificans OCh 114] gi|109455207|gb|ABG31412.1| RNA polymerase sigma-70 factor RpoD [Roseobacter denitrificans OCh 114] Length = 661 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 423 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 482 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 483 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 537 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 538 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 592 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 593 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 647 >gi|296535367|ref|ZP_06897567.1| possible DNA-directed RNA polymerase sigma subunit SigA [Roseomonas cervicalis ATCC 49957] gi|296264309|gb|EFH10734.1| possible DNA-directed RNA polymerase sigma subunit SigA [Roseomonas cervicalis ATCC 49957] Length = 1063 Score = 97.1 bits (240), Expect = 3e-18, Method: Composition-based stats. Identities = 70/236 (29%), Positives = 119/236 (50%), Gaps = 13/236 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A +V +L+ VV +A Y +P ++V EG IGL++A+ +FDP+RGFR TY+ Sbjct: 825 IDARQEIVEGNLKRVVWLARRYARAAVPFLDLVQEGQIGLLRAIDRFDPDRGFRFGTYAT 884 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ +M Y+ V++ ++ +R L+A T P+++ A Sbjct: 885 WWIRQSMSRYVQDQGRTVRVPVHMLER--IAKAKRASEALRAKTGVVPTPQELAA----- 937 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 E++V+S+ LA D I+ D S +D + E + + R Sbjct: 938 -ALEADVVSVERALAADLE---GISFDDMGSLPDEDAALVAPLVDEATPLTALLHHDLRR 993 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +L S+ L+ R+ RI + R NP+TLE + + V+RER+RQIEA++ K++ Sbjct: 994 LLAASLRRLDARQARIIDLRFGLTDGNPLTLEEVGQFYGVTRERIRQIEAKSLKRL 1049 >gi|148657222|ref|YP_001277427.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148569332|gb|ABQ91477.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 349 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 83/303 (27%), Positives = 133/303 (43%), Gaps = 56/303 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHG----------DLS----------------A 49 + Y+ EI ++P+L EE LA+R DLS A Sbjct: 53 IQHYLQEIGRVPLLTAAEEVELAERMERGAAAARRLASAEDLSPQLRQALLDDVAAGQEA 112 Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ ++LRLVV IA Y G GL + +++ EGNIGLM+AV+KFD +G R +TY+ WWI Sbjct: 113 RRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDHRKGNRFSTYATWWI 172 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-------- 161 + A+ I +++ ++ ++R L + + PE++ Sbjct: 173 RQAVTRAIAEQGRTIRLPVHMSES--VGQVKRAADRLAQVLERQPTPEEIATALGQPTER 230 Query: 162 IAKKLNVSESEV-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I + L S V + M G+ +L + SD + +E Sbjct: 231 IERVLEASRRPVSLEMPVGEDGEHTLGDFLQDSDLPTP-----------------VEAAS 273 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + R L ++ LN RERRI + R + TLE + ++RER RQIEA A + Sbjct: 274 HQLLRRDLAAALDRLNERERRIIDLRYGLVDGQRRTLEEVGRVLGMTRERARQIEAEALR 333 Query: 279 KVQ 281 +++ Sbjct: 334 RLR 336 >gi|126659035|ref|ZP_01730176.1| RNA polymerase sigma factor RpoD [Cyanothece sp. CCY0110] gi|126619692|gb|EAZ90420.1| RNA polymerase sigma factor RpoD [Cyanothece sp. CCY0110] Length = 416 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 180 AKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 240 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMRRKPTEEEIATRMEM 294 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 295 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLEN 350 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 351 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 403 >gi|121601699|ref|YP_989245.1| RNA polymerase sigma factor RpoD [Bartonella bacilliformis KC583] gi|120613876|gb|ABM44477.1| RNA polymerase sigma factor RpoD [Bartonella bacilliformis KC583] Length = 666 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 488 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 542 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D++ S D++ D + I+ + N R+ Sbjct: 543 PLEKVQKV-LKIAK-EPISLETPVGDEDDSHLGDFI---EDRNALLPIDAAIQANLRDTT 597 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|169630092|ref|YP_001703741.1| RNA polymerase sigma factor [Mycobacterium abscessus ATCC 19977] gi|169242059|emb|CAM63087.1| Probable RNA polymerase sigma factor RpoD (Sigma-A) [Mycobacterium abscessus] Length = 467 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 155 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQIVTELTEKGEKLP 213 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 214 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 273 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 274 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 331 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 332 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 383 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 384 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 443 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 444 QIESKTMSKLRHPSRSQV 461 >gi|163738642|ref|ZP_02146056.1| RNA polymerase, sigma 38 subunit, RpoS [Phaeobacter gallaeciensis BS107] gi|161387970|gb|EDQ12325.1| RNA polymerase, sigma 38 subunit, RpoS [Phaeobacter gallaeciensis BS107] Length = 662 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 424 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 483 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 484 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 538 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 539 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 593 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 648 >gi|153009018|ref|YP_001370233.1| RNA polymerase sigma factor RpoD [Ochrobactrum anthropi ATCC 49188] gi|151560906|gb|ABS14404.1| RNA polymerase, sigma 70 subunit, RpoD [Ochrobactrum anthropi ATCC 49188] Length = 671 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 123/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 493 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIG-REPTPEE---LAE 543 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 544 KLAMPLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANL 598 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+ TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 RDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|310816221|ref|YP_003964185.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare Y25] gi|308754956|gb|ADO42885.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare Y25] Length = 658 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 420 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 479 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 480 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPTPEE---LAEKLQM 534 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 535 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 589 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 590 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 644 >gi|332653408|ref|ZP_08419153.1| RNA polymerase sigma factor RpoD [Ruminococcaceae bacterium D16] gi|332518554|gb|EGJ48157.1| RNA polymerase sigma factor RpoD [Ruminococcaceae bacterium D16] Length = 446 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 125/239 (52%), Gaps = 22/239 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A RL ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 209 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 268 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQK-RLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 I+ A+ I ++I T N+ R+ L + GH + PE+ IA Sbjct: 269 IRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQELGH-------DPSPEE---IA 318 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +++++ V + ++A E ++ ++ S D+ + D D E E Sbjct: 319 EEMSMPVERVREI-LKIA-QEPVSLETPIGEEEDSHLGDF-IPDEDASEPA--EAASFTL 373 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L +S L PRE ++ + R E+ TLE + EF V+RER+RQIEA+A +K+ Sbjct: 374 LKEQLVEVLSTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKL 432 >gi|56696627|ref|YP_166988.1| RNA polymerase sigma factor RpoD [Ruegeria pomeroyi DSS-3] gi|56678364|gb|AAV95030.1| RNA polymerase sigma-70 factor RpoD [Ruegeria pomeroyi DSS-3] Length = 660 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 482 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 536 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 537 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 591 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 592 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 646 >gi|83941156|ref|ZP_00953618.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] gi|83955715|ref|ZP_00964295.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83840009|gb|EAP79185.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83846976|gb|EAP84851.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] Length = 660 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 482 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 536 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 537 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 591 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 592 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 646 >gi|254511749|ref|ZP_05123816.1| Sigma-70, region 3 family [Rhodobacteraceae bacterium KLH11] gi|221535460|gb|EEE38448.1| Sigma-70, region 3 family [Rhodobacteraceae bacterium KLH11] Length = 662 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 424 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 483 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 484 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 538 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 539 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 593 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 648 >gi|330993917|ref|ZP_08317847.1| RNA polymerase sigma factor rpoD [Gluconacetobacter sp. SXCC-1] gi|329758863|gb|EGG75377.1| RNA polymerase sigma factor rpoD [Gluconacetobacter sp. SXCC-1] Length = 659 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 76/258 (29%), Positives = 126/258 (48%), Gaps = 13/258 (5%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ E + Y R E A ++ ++LRLV+ IA Y GL +++ EGNIG Sbjct: 398 LPVGEFRRVYATVSRG-ERDSARAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 456 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R Sbjct: 457 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQ 514 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + PE+ +A+KL + +V + ++A E ++ D+ S D++ Sbjct: 515 MLHEIGREPAPEE---LAEKLGMPLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI- 568 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFE 263 D + ++ + N R TR +S L PRE R+ R TLE + +F Sbjct: 569 --EDKAAVIPLDAAIQTNLREATTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFN 626 Query: 264 VSRERVRQIEARAFKKVQ 281 V+RER+RQIEA+A +K++ Sbjct: 627 VTRERIRQIEAKALRKLK 644 >gi|269926188|ref|YP_003322811.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789848|gb|ACZ41989.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 463 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 81/286 (28%), Positives = 138/286 (48%), Gaps = 36/286 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKR---------YREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ YI K P ++ + +LA + R+ G+ A +L+ ++ RLVV IA Sbjct: 184 ITEYIERSNKCPDVKTVSQVLLANKSIVINHWNKVRKEGE-GAKCKLIEANTRLVVSIAK 242 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y G GL + +++ EGNIGLM+A KFD RG++ +TY+ WWI+ A+ I +++ Sbjct: 243 KYLGRGLSLLDLIQEGNIGLMRAADKFDYTRGYKFSTYATWWIRQAVTRAIADQSRTIRL 302 Query: 127 G-----TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 T + + L++ GH I L E + + K + + ++ + Sbjct: 303 PVHVCETVSKIHKTSQKLQQELGHEPTI--EQLSSELGMPMKKVVQIQQASKFPV----- 355 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNRRNMLTRSMSVLNPRE 239 SL A I + S D+L H VL ++K R + + L P+E Sbjct: 356 ---SLEAPIG--EDGDSMLGDFLEDVH-----VLNPVQKAANDILREQINSVLQNLPPKE 405 Query: 240 RRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R++ E R + TLE + +EF ++RERVRQIE A ++++E+ Sbjct: 406 RKVLELRFGLVDGKCRTLEEVGNEFAITRERVRQIECTALRRLREN 451 >gi|117928920|ref|YP_873471.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] gi|117649383|gb|ABK53485.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] Length = 413 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 80/305 (26%), Positives = 143/305 (46%), Gaps = 63/305 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR----------------------------YREHGDLSAA 50 Y++EI + P+L+ +E LAKR R+ G + A Sbjct: 119 YLNEIGRTPLLDAAQEVELAKRIEAGVYADVKLNDPTLQLTEEERRDLEAIRDDGARAKA 178 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H ++ ++LRLVV +A Y G+ +V+ EGN+GL++AV+KFD +G++ +TY+MWWI+ Sbjct: 179 H-MLEANLRLVVSVAKRYSNRGMAFLDVIQEGNLGLIRAVEKFDYTKGYKFSTYAMWWIR 237 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + +++ T Q+ L R + + + PEQ+ Sbjct: 238 QAITRALADQARTIRLPVHVVEQLNKLTRLQRELHQQFGREPTAEELAAELDRTPEQI-- 295 Query: 162 IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +++ + + +S++ + DE L LI D + D L Y Q +I Sbjct: 296 --EEMLRNARQPVSLDNPVGDDEDTLLGDLIE--DMEAPAASDALEY------QAMI--- 342 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + R+++ L+PRE R+ R + P TL+ + + ++RERVRQIE A Sbjct: 343 ------DTVHRALAGLDPREARVIALRFGLVGGRPHTLDEIGRDVGLTRERVRQIEREAL 396 Query: 278 KKVQE 282 K+++ Sbjct: 397 AKLRD 401 >gi|319898528|ref|YP_004158621.1| RNA polymerase sigma factor [Bartonella clarridgeiae 73] gi|319402492|emb|CBI76035.1| RNA polymerase sigma factor [Bartonella clarridgeiae 73] Length = 669 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 431 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 490 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 491 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 545 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+++S D++ D + I+ + N R+ Sbjct: 546 PLEKVRKV-LKIA-KEPISLETPVGDEDASHLGDFI---EDRNALLPIDAAIQANLRDTT 600 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 601 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 655 >gi|269836760|ref|YP_003318988.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269786023|gb|ACZ38166.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 538 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 81/267 (30%), Positives = 135/267 (50%), Gaps = 34/267 (12%) Query: 29 LEKQEEYVLAKRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 L +++E L R+ E GD+ A +L ++LRLVV +A Y G G+ + ++V EGN+G Sbjct: 279 LLRRDEAALQARWEEFVVRGDI-ARKKLTEANLRLVVSVAKKYGGRGMSMLDLVQEGNLG 337 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLK 143 L++AV+KF +GF+ +TY+ WWI+ A+ I ++I ++ RL RRL+ Sbjct: 338 LIRAVEKFQHHKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVEQINRLIRTSRRLQ 397 Query: 144 GHL-------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 L + + L P++V I L +S+ E +S+ + +E N Sbjct: 398 QELGREPTSEEIAAEMGLPPDKVREI---LKISQ-EPVSLEMPIGEEEDSN--------- 444 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-T 254 D++ D + + K + + + L RERR+ E R L + T Sbjct: 445 ---LGDFI---EDSKALAPSDAASLKLLKEQVDDVLGSLGDRERRVLELRFGLDDGRTRT 498 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 LE + EF V+RER+RQIEA+A +K++ Sbjct: 499 LEEVGREFGVTRERIRQIEAKALRKLR 525 >gi|254432880|ref|ZP_05046583.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Cyanobium sp. PCC 7001] gi|197627333|gb|EDY39892.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Cyanobium sp. PCC 7001] Length = 331 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 123/239 (51%), Gaps = 25/239 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 99 RMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIRQ 158 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-------IAK 164 +M I A Q R L L AI +L + IA+ Sbjct: 159 SMTRAI------------ACQSRTIRLPVHLSERLSAIRKVSLDLAHKLGAMPSRHEIAE 206 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +++ E+ + + SL+A +N D+ S D + D E+ +++ ER Sbjct: 207 AMDMPLDELDGLLRQALTTSSLDAPVN-GDEGRSFLGDLIA---DSSEEEPLDRVERGLN 262 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L M+ L+ +ER + + R E + TL + + +VSRERVRQ+E +A +K++ Sbjct: 263 HEQLDHWMNHLSEQERHVLQLRFGLEGRDRHTLAEIGRQLDVSRERVRQVELKALRKLR 321 >gi|149197872|ref|ZP_01874921.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149139093|gb|EDM27497.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 274 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/270 (27%), Positives = 140/270 (51%), Gaps = 23/270 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ I ++P++ + +E LA+ +G SA +L+ +LRLVVKIA ++ G+P++++ Sbjct: 11 YMKNIAELPLISRDDEVELAELIN-NGSESAREQLIVGNLRLVVKIAHDFKSLGVPLADL 69 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +SEGNIGLM+AV+KF P G + ++Y WWIK A++ + +++I + K + Sbjct: 70 ISEGNIGLMKAVEKFKPGMGAKFSSYGAWWIKQAIRRCVAEQSRVIRIPVQSAVK--MYK 127 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM----NCRLAGDESLNALINS-S 193 ++R+ HL E++ + + ++E+ +S N ++A +L S Sbjct: 128 IQRVAMHL---------AEELGRVPSEKEIAEAADMSQRSVHNLKVAATSPTISLSTSLK 178 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV-LNPRERRIFEARRLQENP 252 D +D L D ++ + + ++ +++L + L RE+ I R Sbjct: 179 DGEDGVLEDML---PDLMAKMPGGEMDDRDVKSLLQDCVDQHLTEREKLIINMRYGLNGG 235 Query: 253 V--TLENLSSEFEVSRERVRQIEARAFKKV 280 TL+ +S +RERVRQI+ +A KK+ Sbjct: 236 EQHTLDEISELIGRTRERVRQIQHKALKKL 265 >gi|99081981|ref|YP_614135.1| RNA polymerase sigma factor RpoD [Ruegeria sp. TM1040] gi|99038261|gb|ABF64873.1| RNA polymerase, sigma 38 subunit, RpoS [Ruegeria sp. TM1040] Length = 664 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 426 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 486 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 540 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 541 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 595 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 596 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 650 >gi|326384438|ref|ZP_08206118.1| RNA polymerase sigma factor [Gordonia neofelifaecis NRRL B-59395] gi|326196783|gb|EGD53977.1| RNA polymerase sigma factor [Gordonia neofelifaecis NRRL B-59395] Length = 466 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ LS Sbjct: 154 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATERLRRVMESGEKLS 212 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 213 VAQRRDLSWISRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 272 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 273 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 330 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 331 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 382 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 383 VVAVDAVSFTLLQDQLQDVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 442 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 443 QIESKTMSKLRHPSRSQV 460 >gi|33239946|ref|NP_874888.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33237472|gb|AAP99540.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 438 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 128/234 (54%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ Sbjct: 205 KMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQ 264 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVS 169 A+ I +++ L+ + R+K + ++ KP E+ +A + ++ + Sbjct: 265 AITRAIADQSRTIRLPV-----HLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIE 319 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 + I+ + +L SL I + S+ D++ D + E + + R++ +L Sbjct: 320 KLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDSENPELDVAKTLLREDLEGVL- 374 Query: 230 RSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L+PRER + R ++ TLE + F+V+RER+RQIEA+A +K++ Sbjct: 375 ---ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 425 >gi|296116667|ref|ZP_06835277.1| RNA polymerase sigma factor RpoD [Gluconacetobacter hansenii ATCC 23769] gi|295976879|gb|EFG83647.1| RNA polymerase sigma factor RpoD [Gluconacetobacter hansenii ATCC 23769] Length = 659 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 76/258 (29%), Positives = 126/258 (48%), Gaps = 13/258 (5%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ E + Y R E A ++ ++LRLV+ IA Y GL +++ EGNIG Sbjct: 398 LPVGEFRRVYATVSRG-ERDSARAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 456 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R Sbjct: 457 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQ 514 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + PE+ +A+KL + +V + ++A E ++ D+ S D++ Sbjct: 515 MLHEIGREPAPEE---LAEKLGMPLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI- 568 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFE 263 D + ++ + N R TR +S L PRE R+ R TLE + +F Sbjct: 569 --EDKTAVIPLDAAIQTNLREATTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFN 626 Query: 264 VSRERVRQIEARAFKKVQ 281 V+RER+RQIEA+A +K++ Sbjct: 627 VTRERIRQIEAKALRKLK 644 >gi|332284638|ref|YP_004416549.1| RNA polymerase sigma factor RpoD [Pusillimonas sp. T7-7] gi|330428591|gb|AEC19925.1| RNA polymerase sigma factor RpoD [Pusillimonas sp. T7-7] Length = 749 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 120/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 510 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 569 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + Q + + +P+ +A+K+++ Sbjct: 570 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--NRQILQETGAEPDPAT-LAQKMDM 624 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + D+ + D + +W ++ Sbjct: 625 PEDKVRKILKIAKEPISMETPIGDDDDSHLGDFIEDTGTLSPSEWALH------------ 672 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 673 ---GSMRDVVKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKA 729 Query: 277 FKKVQ 281 +K++ Sbjct: 730 LRKLR 734 >gi|218674803|ref|ZP_03524472.1| RNA polymerase sigma factor RpoD [Rhizobium etli GR56] Length = 254 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 122/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 16 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 75 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 76 IRQAITRSIADQARTIRIPVHMIETINK-----IVRTSRQMLHEI-GREPTPEE---LAE 126 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 127 KLAMPLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANL 181 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 182 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 240 >gi|159044804|ref|YP_001533598.1| RNA polymerase sigma factor RpoD [Dinoroseobacter shibae DFL 12] gi|157912564|gb|ABV93997.1| RNA polymerase sigma factor [Dinoroseobacter shibae DFL 12] Length = 664 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 121/236 (51%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 426 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 486 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 540 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V + ++A + SL I D+ SQ D++ D + ++ ++N + Sbjct: 541 PLEKVRKV-MKIAKEPISLETPIG--DEEDSQLGDFI---EDKNAVLPLDSAIQENLKET 594 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 595 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 650 >gi|259416365|ref|ZP_05740285.1| RNA polymerase sigma factor RpoD [Silicibacter sp. TrichCH4B] gi|259347804|gb|EEW59581.1| RNA polymerase sigma factor RpoD [Silicibacter sp. TrichCH4B] Length = 664 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 426 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 486 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 540 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 541 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 595 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 596 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 650 >gi|163733984|ref|ZP_02141425.1| RNA polymerase sigma-70 factor RpoD [Roseobacter litoralis Och 149] gi|161392520|gb|EDQ16848.1| RNA polymerase sigma-70 factor RpoD [Roseobacter litoralis Och 149] Length = 660 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 482 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 536 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 537 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 591 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 592 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 646 >gi|308232215|ref|ZP_07415319.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu001] gi|308373480|ref|ZP_07667590.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu005] gi|308214639|gb|EFO74038.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu001] gi|308337452|gb|EFP26303.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu005] Length = 413 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 101 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 159 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 160 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 219 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 220 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 277 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 278 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 329 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 330 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 389 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 390 QIESKTMSKLRHPSRSQV 407 >gi|303233350|ref|ZP_07320019.1| RNA polymerase sigma factor RpoD [Atopobium vaginae PB189-T1-4] gi|302480479|gb|EFL43570.1| RNA polymerase sigma factor RpoD [Atopobium vaginae PB189-T1-4] Length = 441 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 86/282 (30%), Positives = 136/282 (48%), Gaps = 49/282 (17%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 GEI LSR E+R++ +EE V L A L +++LRL V IA Y G Sbjct: 181 GEIELSR--SEMRRL----MREEQV---------GLDAKQALTSANLRLTVSIAKRYVGR 225 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--- 128 G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 226 GMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMV 285 Query: 129 -TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA- 181 T N Q++L L R + + N+ P+++ I K +S+ E +S+ + Sbjct: 286 ETINKLVRIQRQLLQELGRDPSPEEIGKEMNMSPDKIREIQK---ISQ-EPVSLETPIGE 341 Query: 182 -GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 D SL I S V D ++ R L + + L RER Sbjct: 342 EEDSSLGDFIEDS---------TAVAPPDAASDSML--------REQLNQVLDSLADRER 384 Query: 241 RIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ + R E+ P TLE + EF V+RER+RQIE++ K+ Sbjct: 385 KVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKL 426 >gi|255261823|ref|ZP_05341165.1| RNA polymerase sigma factor RpoD (Sigma-A) [Thalassiobium sp. R2A62] gi|255104158|gb|EET46832.1| RNA polymerase sigma factor RpoD (Sigma-A) [Thalassiobium sp. R2A62] Length = 658 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 420 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 479 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 480 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 534 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 535 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 589 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 590 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 644 >gi|221639823|ref|YP_002526085.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides KD131] gi|332558839|ref|ZP_08413161.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides WS8N] gi|221160604|gb|ACM01584.1| RNA polymerase sigma factor [Rhodobacter sphaeroides KD131] gi|332276551|gb|EGJ21866.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides WS8N] Length = 668 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 490 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 544 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 545 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 599 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 654 >gi|172035791|ref|YP_001802292.1| RNA polymerase sigma factor RpoD [Cyanothece sp. ATCC 51142] gi|171697245|gb|ACB50226.1| group 1 sigma-70 RNA polymerase sigma factor A [Cyanothece sp. ATCC 51142] Length = 416 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 180 AKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 240 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMRRKPTEEEIATRMEM 294 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 295 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLEN 350 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 351 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 403 >gi|49474476|ref|YP_032518.1| RNA polymerase sigma factor RpoD [Bartonella quintana str. Toulouse] gi|49239980|emb|CAF26393.1| RNA polymerase sigma factor rpod [Bartonella quintana str. Toulouse] Length = 670 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 432 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 492 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 546 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D++ S D++ D + I+ + N R+ Sbjct: 547 PLEKVRKV-LKIA-KEPISLETPVGDEDDSHLGDFI---EDRNALLPIDAAIQANLRDTT 601 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 602 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 656 >gi|299472559|emb|CBN79861.1| chloroplast RNA-polymerase sigma factor precursor [Ectocarpus siliculosus] Length = 694 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 119/234 (50%), Gaps = 9/234 (3%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLVV +A YR L +++ EG GL++A +KFDPERGF+ +TY+ WWIK + Sbjct: 127 MLAANLRLVVSVAKRYRFQKLSFQDLIQEGTFGLVKAAEKFDPERGFKFSTYATWWIKQS 186 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I ++++ + F N R++ +TD N K +A+ L VS Sbjct: 187 IMRGIADQSRIIRLPVHVHD---FLN--RVRKATLEMTDKNGKLPTDDELAEHLEVSAVR 241 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTR 230 + S+ A N + K S+ + G E+ ++ + + +T Sbjct: 242 IQYYRDAAQATLSMEAPRNIASKTSTSPGKKVEMGQGVSGPEKTPDKQAQSDVMKQKVTE 301 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L+ RE+ + +AR P TLE + +F ++RERVRQIEARA K+++ Sbjct: 302 LLMTLSIREQEVVKARFGLGGALPRTLEEVGRDFRLTRERVRQIEARALHKLRQ 355 >gi|162149105|ref|YP_001603566.1| RNA polymerase sigma factor RpoD [Gluconacetobacter diazotrophicus PAl 5] gi|161787682|emb|CAP57278.1| RNA polymerase sigma factor rpoD (Sigma-A) [Gluconacetobacter diazotrophicus PAl 5] Length = 656 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 417 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 476 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 477 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPAPEE---LAEKLGM 531 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N R Sbjct: 532 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKTAVIPLDAAIQTNLREAT 586 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 587 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLK 641 >gi|148242910|ref|YP_001228067.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851220|emb|CAK28714.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 293 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 79/283 (27%), Positives = 136/283 (48%), Gaps = 26/283 (9%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E+ L R + + P Q + KR L A RLV ++LRLVV +A G Sbjct: 27 EVSLGRQVRAWQDHPGGPGQAPAAVQKR-----GLRARGRLVQANLRLVVHLAKKQHLRG 81 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L + ++V EG+IGL +A +K+DP G+R +TY+ WWIK A+ I +++ ++ Sbjct: 82 LAMEDLVQEGSIGLQRAAEKYDPSTGYRFSTYAYWWIKQALHRAIQLQTPALRLPCRVSE 141 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLN----VSESEVISMNCRLAGDESLN 187 + LR + L +PE++ A+ ++++ + ++VIS C L D + Sbjct: 142 R--LGRLRSTRQRLSQELGRQPRPEELAEAMGERIDQLQELERAQVISRGCSL--DTPMG 197 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV--LNPRERRIFEA 245 SD + D L D +++ E+ R L +S L+ RE + +A Sbjct: 198 -----SDPDHGSLVDLLEDDRTSP----MDQLEQALRSEQLAELLSSAGLSEREATVVQA 248 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R +E+ + + L+ F +SRER RQ+E A +K++ + Q Sbjct: 249 RHSEEH-IPYQQLADRFGISRERTRQLEHNALRKLRHCAEAQT 290 >gi|254488657|ref|ZP_05101862.1| Sigma-70, region 3 family [Roseobacter sp. GAI101] gi|214045526|gb|EEB86164.1| Sigma-70, region 3 family [Roseobacter sp. GAI101] Length = 671 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 493 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 547 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 548 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 602 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 603 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|158425267|ref|YP_001526559.1| RNA polymerase sigma factor RpoD [Azorhizobium caulinodans ORS 571] gi|158332156|dbj|BAF89641.1| sigma-70 [Azorhizobium caulinodans ORS 571] Length = 690 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 452 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 511 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 512 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLGM 566 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 567 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 621 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 622 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 676 >gi|107026824|ref|YP_624335.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia AU 1054] gi|105896198|gb|ABF79362.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia AU 1054] Length = 805 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 566 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 625 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 626 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 680 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 681 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTVAPADAAPHASMRDVV 735 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 736 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 790 >gi|146276891|ref|YP_001167050.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides ATCC 17025] gi|145555132|gb|ABP69745.1| RNA polymerase, sigma 70 subunit, RpoD [Rhodobacter sphaeroides ATCC 17025] Length = 667 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 489 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 543 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 544 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 598 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 653 >gi|254476970|ref|ZP_05090356.1| Sigma-70, region 3 family [Ruegeria sp. R11] gi|214031213|gb|EEB72048.1| Sigma-70, region 3 family [Ruegeria sp. R11] Length = 661 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 423 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 482 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 483 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 537 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 538 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 592 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 593 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 647 >gi|149183340|ref|ZP_01861778.1| RNA polymerase sigma factor RpoD [Bacillus sp. SG-1] gi|148848937|gb|EDL63149.1| RNA polymerase sigma factor RpoD [Bacillus sp. SG-1] Length = 330 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 58/155 (37%), Positives = 87/155 (56%), Gaps = 10/155 (6%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L QEE LA R E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 116 YLKEIGRVDLLSAQEEISLANRI-EEGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDL 174 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN--- 131 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N Sbjct: 175 IQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI 234 Query: 132 --QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 Q++L +L R + + +L PE+V I K Sbjct: 235 RVQRQLLQDLGREPSPEEIAEEMDLTPEKVREILK 269 >gi|126738765|ref|ZP_01754461.1| RNA polymerase sigma factor RpoD [Roseobacter sp. SK209-2-6] gi|126719946|gb|EBA16653.1| RNA polymerase sigma factor RpoD [Roseobacter sp. SK209-2-6] Length = 663 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 425 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 484 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 485 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 539 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 540 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 594 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 595 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 649 >gi|126733203|ref|ZP_01748950.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. CCS2] gi|126716069|gb|EBA12933.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. CCS2] Length = 660 Score = 96.7 bits (239), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 482 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 536 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 537 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 591 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 592 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 646 >gi|73541439|ref|YP_295959.1| sigma-70 region 1.2 [Ralstonia eutropha JMP134] gi|72118852|gb|AAZ61115.1| Sigma-70 region 1.2 [Ralstonia eutropha JMP134] Length = 653 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/247 (28%), Positives = 119/247 (48%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A H + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 414 AKHEMTQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 473 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I +++ ++ L RL L T P +A+++++ Sbjct: 474 VRQAVTRAIADQARTIRVPVHMIEQ--INKLNRLSRELMQQTGKEPDP---AVLAERMDM 528 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E +V +SM + GD SL +I SD + + Sbjct: 529 PEEKVRAIMKIAREPVSMETPVGEDGDTSLGDMIADSDTATPA-------------DAAL 575 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEA 274 + R+ R ML L PRE ++ R + TLE + +F+V+RER+RQIE+ Sbjct: 576 QASLREVVREMLDE----LTPREAKVLRMRFGIDMATDYTLEEVGKQFDVTRERIRQIES 631 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 632 KAMRKLR 638 >gi|319405291|emb|CBI78905.1| RNA polymerase sigma factor [Bartonella sp. AR 15-3] Length = 669 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 431 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 490 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 491 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 545 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+++S D++ D + I+ + N R+ Sbjct: 546 PLEKVRKV-LKIA-KEPISLETPVGDEDASHLGDFI---EDRNALLPIDAAIQANLRDTT 600 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 601 TRILASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 655 >gi|254464472|ref|ZP_05077883.1| Sigma-70 region 3 family [Rhodobacterales bacterium Y4I] gi|206685380|gb|EDZ45862.1| Sigma-70 region 3 family [Rhodobacterales bacterium Y4I] Length = 662 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 424 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 483 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A KL + Sbjct: 484 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LADKLQM 538 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 539 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 593 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 648 >gi|86137897|ref|ZP_01056473.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. MED193] gi|85825489|gb|EAQ45688.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. MED193] Length = 663 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 425 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 484 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 485 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 539 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 540 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 594 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 595 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 649 >gi|294678570|ref|YP_003579185.1| RNA polymerase sigma factor RpoD [Rhodobacter capsulatus SB 1003] gi|1173126|sp|P46400|RPOD_RHOCA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|881516|gb|AAA70413.1| RpoD [Rhodobacter capsulatus SB 1003] gi|294477390|gb|ADE86778.1| RNA polymerase sigma factor RpoD [Rhodobacter capsulatus SB 1003] Length = 674 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 496 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 550 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 551 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 605 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 606 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660 >gi|297180868|gb|ADI17073.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured alpha proteobacterium HF0010_30A23] Length = 668 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKAEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R + PE++ A Sbjct: 490 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREATPEELAARLGMPLE 547 Query: 162 -IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K + +++ E IS+ + D+ S D++ D + +E Sbjct: 548 KVRKVMKIAK-EPISLETPIG------------DEEDSHLGDFI---KDENAIIPVEAAI 591 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 N R TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A + Sbjct: 592 NNNLRESTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 651 Query: 279 KVQ 281 K++ Sbjct: 652 KLK 654 >gi|209545152|ref|YP_002277381.1| RNA polymerase sigma factor RpoD [Gluconacetobacter diazotrophicus PAl 5] gi|209532829|gb|ACI52766.1| RNA polymerase, sigma 70 subunit, RpoD [Gluconacetobacter diazotrophicus PAl 5] Length = 650 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 411 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 470 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 471 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPAPEE---LAEKLGM 525 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N R Sbjct: 526 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKTAVIPLDAAIQTNLREAT 580 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 581 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLK 635 >gi|319403851|emb|CBI77437.1| RNA polymerase sigma factor [Bartonella rochalimae ATCC BAA-1498] Length = 669 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 431 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 490 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 491 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 545 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+++S D++ D + I+ + N R+ Sbjct: 546 PLEKVRKV-LKIA-KEPISLETPVGDEDASHLGDFI---EDRNALLPIDAAIQANLRDTT 600 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 601 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 655 >gi|297163178|gb|ADI12890.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1] Length = 336 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 88/305 (28%), Positives = 141/305 (46%), Gaps = 52/305 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSA----AHR---- 52 Y+ I ++ +L ++E LAKR Y E G+L A HR Sbjct: 42 YLKLIARVRLLTAEQEVDLAKRIEAGLYAERLLRERPGLDRHSRGELGALAEDGHRAKTH 101 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV +A Y G GL +++ EGN GL++A +KFD +GF+ +TY+ WWIK A Sbjct: 102 LVEANLRLVVSVAKRYTGRGLAFLDLIQEGNTGLIRAAEKFDYAKGFKFSTYATWWIKQA 161 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK-------K 165 + + +++ + L + R++ L T PEQV A+ + Sbjct: 162 VSRALADQSRTIRV--PVHTVELINRIARVRRELILDTGAEPTPEQVAEKAEVPVGRLAE 219 Query: 166 LNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L+ E +S++ L+ GD LI SD S W D + + L+++ R Sbjct: 220 LDGYTKEPVSLHVALSDEGDSEFGDLIVDSD-TPSPW-DMVTFS-------LLQQALRTL 270 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 M R +++ R +F R TLE + + V+RER+RQIE+R K++ Sbjct: 271 LAEMTPREAGIISLR-YGLFGGR-----ARTLEEIGQVYGVTRERIRQIESRTMSKLRHP 324 Query: 284 IQKQV 288 + Q Sbjct: 325 SRSQA 329 >gi|94311542|ref|YP_584752.1| RNA polymerase sigma factor RpoD [Cupriavidus metallidurans CH34] gi|93355394|gb|ABF09483.1| RNA polymerase sigma D factor (housekeeping sigma factor) [Cupriavidus metallidurans CH34] Length = 855 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/245 (28%), Positives = 122/245 (49%), Gaps = 17/245 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR RE A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG Sbjct: 611 KRARE-----AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 665 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + + R+ + T N P Sbjct: 666 YKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP-- 721 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 +A+K+ + E ++ + ++A E ++ D + S D++ D E Sbjct: 722 -ATLAEKMEMPEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEA 775 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 776 ALDGSMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 835 Query: 277 FKKVQ 281 +K++ Sbjct: 836 LRKLR 840 >gi|113868683|ref|YP_727172.1| RNA polymerase sigma factor RpoD [Ralstonia eutropha H16] gi|113527459|emb|CAJ93804.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Ralstonia eutropha H16] Length = 827 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 588 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 647 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 648 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 702 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R+++ Sbjct: 703 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRDVV 757 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 758 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 812 >gi|84687692|ref|ZP_01015565.1| RNA polymerase sigma factor [Maritimibacter alkaliphilus HTCC2654] gi|84664275|gb|EAQ10766.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2654] Length = 670 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 432 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 492 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 546 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 547 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 601 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 602 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 656 >gi|120553093|ref|YP_957444.1| RNA polymerase, sigma 32 subunit, RpoH [Marinobacter aquaeolei VT8] gi|120322942|gb|ABM17257.1| RNA polymerase, sigma 32 subunit, RpoH [Marinobacter aquaeolei VT8] Length = 330 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/242 (30%), Positives = 124/242 (51%), Gaps = 16/242 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H L+ HRL+ S+LRL V IA Y +G+ +S+++ + N+GL++AV+++DP +GFR +T Sbjct: 91 HLALACRHRLIQSNLRLAVHIARRYGHHGIAMSDLIQDANVGLIKAVERYDPGKGFRFST 150 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAI 162 Y+ WWI ++ + R +V T N L+++ L Q++ + E + Sbjct: 151 YAYWWISEEVRRCLQRGVRVVH--TPENVVEEIRQLQKVSMRLHQSLGREPTQSE----L 204 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A+++ + S + + A + S + + + S D L D + +R Sbjct: 205 AREMEATPSRIGELRALAAREVSTD--VPLVEDGSVTLADSLDAGADTRPDQPFRARDRM 262 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R L R M L+ RER I R L E P TL+ +S + +SRERVRQIE A +K Sbjct: 263 IR---LERMMGALSDRERDILTRRYGLGLIE-PETLQTISEQLGLSRERVRQIEKGALRK 318 Query: 280 VQ 281 +Q Sbjct: 319 LQ 320 >gi|67921267|ref|ZP_00514786.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67857384|gb|EAM52624.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 414 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 178 AKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 237 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 238 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMRRKPTEEEIATRMEM 292 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 293 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLEN 348 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 349 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 401 >gi|319760203|ref|YP_004124141.1| RNA polymerase sigma factor [Candidatus Blochmannia vafer str. BVAF] gi|318038917|gb|ADV33467.1| RNA polymerase sigma factor [Candidatus Blochmannia vafer str. BVAF] Length = 620 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 118/244 (48%), Gaps = 32/244 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ ++K++ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGCEPTPEE---LSKRMLI 495 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 SE ++ +SM + DE S D++ D + ++ Sbjct: 496 SEDKIRKVLKIAKEPVSMETPIGDDE------------DSHLGDFI---EDTNLDLPLDS 540 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 N + +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 541 ATSDNLKAATNDVLSGLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 600 Query: 277 FKKV 280 +K+ Sbjct: 601 LRKL 604 >gi|77463967|ref|YP_353471.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides 2.4.1] gi|126462810|ref|YP_001043924.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides ATCC 17029] gi|77388385|gb|ABA79570.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides 2.4.1] gi|126104474|gb|ABN77152.1| RNA polymerase, sigma 70 subunit, RpoD family [Rhodobacter sphaeroides ATCC 17029] Length = 668 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 490 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 544 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 545 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 599 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 654 >gi|254293486|ref|YP_003059509.1| RNA polymerase sigma factor RpoD [Hirschia baltica ATCC 49814] gi|254042017|gb|ACT58812.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hirschia baltica ATCC 49814] Length = 683 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 74/244 (30%), Positives = 119/244 (48%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 445 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 504 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q+++ + R + L E+ Sbjct: 505 IRQAITRSIADQARTIRIPVHMIETINKIVRTQRQMLHEIGREPTPEELAEKLGLPLEK- 563 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E IS+ + DE S D++ D + ++ Sbjct: 564 --IRKVLKIAK-EPISLETPIGDDE------------DSNLGDFI---EDKMALLPVDAA 605 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAF 277 + N R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A Sbjct: 606 IQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKAL 665 Query: 278 KKVQ 281 +K++ Sbjct: 666 RKLK 669 >gi|83594214|ref|YP_427966.1| RNA polymerase sigma factor RpoD [Rhodospirillum rubrum ATCC 11170] gi|83577128|gb|ABC23679.1| Sigma 70 (RpoD) [Rhodospirillum rubrum ATCC 11170] Length = 696 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 119/250 (47%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N+ +++ + R L LQ + Sbjct: 518 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELAEKLQMPLE-- 575 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 K +V+ IAK E IS+ + +E + DKN+ Q D + Sbjct: 576 -KVRKVLKIAK-------EPISLETPIGDEEDSHLGDFIEDKNAVQPLDAAI-------- 619 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 N R TR ++ L PRE R+ R TLE + +F V+RER+RQ Sbjct: 620 -------NSNLRETCTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 672 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 673 IEAKALRKLK 682 >gi|37522141|ref|NP_925518.1| RNA polymerase sigma factor RpoD [Gloeobacter violaceus PCC 7421] gi|35213141|dbj|BAC90513.1| principal RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 400 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 126/237 (53%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 164 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 223 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A ++ Sbjct: 224 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQELGRKPTEEEIATRMEM 278 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E +K + R Sbjct: 279 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPE----DKVAKNLLRE 330 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L ++ L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 331 DLEAVLNTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 387 >gi|255532556|ref|YP_003092928.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|255345540|gb|ACU04866.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 289 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/276 (27%), Positives = 145/276 (52%), Gaps = 37/276 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +I + + +EE+ L R +GD A HRL+ +LR VV +A Y+ GL + ++ Sbjct: 21 YLSEIGRISLTDPEEEFRLVSAIR-NGDQEALHRLIKGNLRFVVSVAKKYQDKGLKLGDL 79 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 ++EGNIGL++A +FD RGF+ T+++WW++ A+ + I A Q+RL Sbjct: 80 INEGNIGLIKAAHRFDATRGFKFITFAVWWVRQAILQAI------------AEQRRLI-- 125 Query: 139 LRRLKGH-LQAITDNNLKPEQVVAIAKKLN-VSESEVISMNCRLAGDESLNALINSSDKN 196 RL G+ L I+ N + V+ + ++L + E +++ D+ ++ N++ Sbjct: 126 --RLPGNQLLGISRLN---QAVLKLEQQLERMPTVEELAVYTGFTVDKVMDYTANAAFTY 180 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT----------RSMSVLNPRERR-IFEA 245 S D ++ + G + + +E ++ + T R++ +L+ RE++ I Sbjct: 181 S---LDDVIKEESGSTLMEVIADEATHQTDHFTLAASLSTDLNRALDILSKREQKIIILF 237 Query: 246 RRLQENPVT-LENLSSEFEVSRERVRQIEARAFKKV 280 L P T +E++ ++S+ER+RQ++ +A K + Sbjct: 238 YGLNGYPQTAIEDMQKILKLSKERIRQLKDKAHKTL 273 >gi|298292324|ref|YP_003694263.1| RNA polymerase, sigma 70 subunit, RpoD [Starkeya novella DSM 506] gi|296928835|gb|ADH89644.1| RNA polymerase, sigma 70 subunit, RpoD [Starkeya novella DSM 506] Length = 666 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 488 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLGM 542 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 543 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 597 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|39998179|ref|NP_954130.1| RNA polymerase sigma factor RpoD [Geobacter sulfurreducens PCA] gi|39985125|gb|AAR36480.1| RNA polymerase sigma factor RpoD [Geobacter sulfurreducens PCA] gi|298507117|gb|ADI85840.1| RNA polymerase sigma-70 factor RpoD [Geobacter sulfurreducens KN400] Length = 577 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 78/240 (32%), Positives = 128/240 (53%), Gaps = 22/240 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 340 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 399 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N +L R+L +Q I PE+ IA+ Sbjct: 400 IRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQEIG-REPSPEE---IAE 450 Query: 165 KLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++N+ +V + ++A + SL I ++ S D++ D +E + N Sbjct: 451 RMNLPLDKVRKV-LKIAKEPISLETPIG--EEEDSHLGDFI---EDKGVVSPLEAVIKAN 504 Query: 224 RRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++ L PRE ++ R +++ TLE + +FEV+RER+RQIEA+A +K++ Sbjct: 505 LSEQTARVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 564 >gi|85705219|ref|ZP_01036318.1| RNA polymerase sigma factor [Roseovarius sp. 217] gi|85670092|gb|EAQ24954.1| RNA polymerase sigma factor [Roseovarius sp. 217] Length = 661 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 423 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 482 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 483 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 537 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ + N + Sbjct: 538 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNVILPLDSAIQDNLKETT 592 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 593 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 647 >gi|284052417|ref|ZP_06382627.1| RNA polymerase sigma factor RpoD [Arthrospira platensis str. Paraca] gi|291570496|dbj|BAI92768.1| principal RNA polymerase sigma factor SigA [Arthrospira platensis NIES-39] Length = 387 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 151 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 210 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 211 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEM 265 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ + Sbjct: 266 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSKNLLREDLES 321 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 322 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 374 >gi|260434101|ref|ZP_05788072.1| RNA polymerase sigma factor RpoD [Silicibacter lacuscaerulensis ITI-1157] gi|260417929|gb|EEX11188.1| RNA polymerase sigma factor RpoD [Silicibacter lacuscaerulensis ITI-1157] Length = 662 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 424 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 483 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 484 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 538 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 539 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAVLPLDSAIQENLKETT 593 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 648 >gi|225851205|ref|YP_002731439.1| RNA polymerase sigma factor RpoD (Sigma-70) [Persephonella marina EX-H1] gi|225645895|gb|ACO04081.1| RNA polymerase sigma factor RpoD (Sigma-70) [Persephonella marina EX-H1] Length = 577 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 122/240 (50%), Gaps = 26/240 (10%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++V S+LRLVV IA Y GL +++ EGNIGLM+AV KFD ++G++ +TY+ WWI+ Sbjct: 341 QKIVQSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFDYKKGYKFSTYATWWIR 400 Query: 111 AAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 A+ I ++I T N+ L R+ + PE+ IAKK+ Sbjct: 401 QAITRAIADQARTIRIPVHMIETINK------LVRVARSMVQELGREPTPEE---IAKKV 451 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKN 223 + +V E ++ D + S D++ +++ ++ E+ R+ Sbjct: 452 GMPPEKV--RKILRTSQEPISLETPIGDDDESHLGDFI------EDKTVMSPEQHVLRQA 503 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L +S L+ RE ++ R E+ TLE + +F V+RER+RQIEA+A +K++ Sbjct: 504 LRQQLEEVLSTLSEREEQVLRYRFGLEDDTEYTLEQVGKKFGVTRERIRQIEAKALRKLR 563 >gi|228471226|ref|ZP_04056039.1| RNA polymerase sigma-70 factor [Porphyromonas uenonis 60-3] gi|228307041|gb|EEK16123.1| RNA polymerase sigma-70 factor [Porphyromonas uenonis 60-3] Length = 286 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 79/291 (27%), Positives = 137/291 (47%), Gaps = 34/291 (11%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N SI L RY+ EI + ++ +EE LA+ G+ A ++LV ++LR VV + Sbjct: 7 NQSITNRESASLDRYLQEIGRTSLISPEEEVELAREIH-RGNRRALNKLVEANLRFVVSV 65 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYIL 118 A Y+ GL + ++++EGNIG+++A +KFD RGF+ +Y++WWI+ ++ Q I+ Sbjct: 66 AKQYQNQGLSLPDLINEGNIGMIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIV 125 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGH---LQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 R L ++G + +L G Q I D PE + A K+ + + Sbjct: 126 R-LPLNQVGLQQKMNKAIVKFEQLNGRRPSPQEIADELELPEDKIREALKVQGKHQSLDA 184 Query: 176 MNCRLAGDESLNALIN--SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 + L+ L+N + +SS + L + D R + Sbjct: 185 PFVEGEDNNMLDVLVNEDTPSTDSSLINESLSAEID--------------------RILE 224 Query: 234 VLNPRERRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 L RE + P +TLE + ++SRERVRQI+ +A +++++S Sbjct: 225 QLGDREAEVLRCFFGIGCPEMTLEEIGERTKLSRERVRQIKEKAIRRLKQS 275 >gi|254441274|ref|ZP_05054767.1| Sigma-70 region 3 family [Octadecabacter antarcticus 307] gi|198251352|gb|EDY75667.1| Sigma-70 region 3 family [Octadecabacter antarcticus 307] Length = 655 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/250 (30%), Positives = 122/250 (48%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 417 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 476 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N+ +++ + R L LQ + Sbjct: 477 IRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAAKLQMPLE-- 534 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 K +V+ IAK E IS+ + D+ SQ D++ D Sbjct: 535 -KVRKVMKIAK-------EPISLETPIG------------DEEDSQLGDFI---EDKNAV 571 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 + ++ ++N + TR ++ L PRE R+ R TLE + +F V+RER+RQ Sbjct: 572 LPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 631 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 632 IEAKALRKLK 641 >gi|158316157|ref|YP_001508665.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158111562|gb|ABW13759.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec] Length = 400 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 86/306 (28%), Positives = 139/306 (45%), Gaps = 56/306 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDLSAAH--------R 52 Y+ I ++ +L +EE LAKR R DL A + Sbjct: 107 YLKAIGRVRLLTAEEEVDLAKRIEAGLFASEKLAAIRRTSPRLRRDLEAIEQDGQIAKRK 166 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y G G+ + +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 167 LVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 226 Query: 113 MQEYILRSWSLVKIG---------TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + I ++I T Q++L +L R + T +L P +V I Sbjct: 227 VTRAIADQGRTIRIPVHMVETINKVTRIQRQLLQDLGREPSPEEIATQVDLAPHRVEEI- 285 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L V ++ V +L I ++ SQ D++ D V E Sbjct: 286 --LKVGQTPV-----------ALETPIG--EEQDSQLGDFI---EDNDAIVPFEAASFVL 327 Query: 224 RRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + L+ RE+++ + R P TLE + EF V+RER+RQIE+R K+ Sbjct: 328 LQEQIDSVLHTLSEREKKVIQLRFGLTDGQPRTLEQVGREFGVTRERIRQIESRTLAKLS 387 Query: 282 ESIQKQ 287 + Q Sbjct: 388 HPARSQ 393 >gi|169351085|ref|ZP_02868023.1| hypothetical protein CLOSPI_01864 [Clostridium spiroforme DSM 1552] gi|169292147|gb|EDS74280.1| hypothetical protein CLOSPI_01864 [Clostridium spiroforme DSM 1552] Length = 415 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 137/277 (49%), Gaps = 36/277 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +E LAK+ E GD +A L ++LRLVV IA Y G G+ ++ Sbjct: 147 YLKEIGRVELLSHDDEIKLAKKILE-GDEAAKKELAAANLRLVVSIAKRYVGRGMLFLDL 205 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-- 132 + EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I T N+ Sbjct: 206 IQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLT 265 Query: 133 --KRLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 +RL + + I + + + PE+V I K IS+ SL Sbjct: 266 RIQRLLIQELGREPTAEEIAERIDGMTPEKVREIQK---------ISLEPV-----SLET 311 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEAR 246 I D S D++ E V+ + N ++ L + L RE ++ R Sbjct: 312 PIGEED--DSHLGDFI-----EDEGVMSPDDYAANELLKDELNEVLLELTDREEKVLRLR 364 Query: 247 RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ TLE + EF V+RER+RQIEA+A +K++ Sbjct: 365 FGLDDGRTRTLEEVGKEFSVTRERIRQIEAKALRKLK 401 >gi|313886597|ref|ZP_07820310.1| putative RNA polymerase sigma factor RpoD [Porphyromonas asaccharolytica PR426713P-I] gi|332300881|ref|YP_004442802.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Porphyromonas asaccharolytica DSM 20707] gi|312923953|gb|EFR34749.1| putative RNA polymerase sigma factor RpoD [Porphyromonas asaccharolytica PR426713P-I] gi|332177944|gb|AEE13634.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Porphyromonas asaccharolytica DSM 20707] Length = 286 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 78/282 (27%), Positives = 141/282 (50%), Gaps = 16/282 (5%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N SI L RY+ EI + ++ +EE LA+ G+ A ++LV ++LR VV + Sbjct: 7 NQSITNRESASLDRYLQEIGRTSLISPEEEVELAREIH-RGNRRALNKLVEANLRFVVSV 65 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y+ GL + ++++EGNIG+++A +KFD RGF+ +Y++WWI+ ++ + + +V Sbjct: 66 AKQYQNQGLSLPDLINEGNIGMIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIV 125 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 ++ NQ L + + + + P++ IA +L + E ++ + Sbjct: 126 RL--PLNQVGLQQKMNKAIVKFEQLNGRRPSPQE---IAAELELPEDKIREALKVQGKHQ 180 Query: 185 SLNA-LINSSDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SL+A + D N D LV D + LI + + R + L RE + Sbjct: 181 SLDAPFVEGEDNN---MLDVLVNEDTPSTDSSLINESLSAE----IDRILDQLGDREAEV 233 Query: 243 FEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 P +TLE + ++SRERVRQI+ +A +++++S Sbjct: 234 LRCFFGIGCPEMTLEEIGERTKLSRERVRQIKEKAIRRLKQS 275 >gi|260576520|ref|ZP_05844509.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodobacter sp. SW2] gi|259021243|gb|EEW24550.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodobacter sp. SW2] Length = 668 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 490 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 544 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 545 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 599 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 654 >gi|84502758|ref|ZP_01000877.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] gi|84389153|gb|EAQ01951.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] Length = 663 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 425 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 484 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 485 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 539 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 540 PLEKVRKV-MKIAK-EPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 594 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 595 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 649 >gi|149202116|ref|ZP_01879089.1| RNA polymerase sigma factor RpoD [Roseovarius sp. TM1035] gi|149144214|gb|EDM32245.1| RNA polymerase sigma factor RpoD [Roseovarius sp. TM1035] Length = 661 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 423 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 482 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 483 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 537 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ + N + Sbjct: 538 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNVILPLDSAIQDNLKETT 592 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR +S L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 593 TRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 647 >gi|58038783|ref|YP_190747.1| RNA polymerase sigma factor RpoD [Gluconobacter oxydans 621H] gi|58001197|gb|AAW60091.1| RNA polymerase sigma factor RpoD [Gluconobacter oxydans 621H] Length = 652 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 413 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 472 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 473 IRQAITRSIADQAKTIRI--PVHMIETINKLVRTSRQMLHEIGREPAPEE---LAEKLGM 527 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N R Sbjct: 528 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKTAVIPLDAAIQTNLREAT 582 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 583 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLK 637 >gi|22298160|ref|NP_681407.1| RNA polymerase sigma factor RpoD [Thermosynechococcus elongatus BP-1] gi|22294339|dbj|BAC08169.1| principal RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 418 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 133/250 (53%), Gaps = 17/250 (6%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 V A R+R A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD Sbjct: 169 VPAFRHRLFVGRKAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDH 228 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNL 154 E+G++ +TY+ WWI+ A+ I +++ L+ + R+K + ++ + Sbjct: 229 EKGYKFSTYATWWIRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGR 283 Query: 155 KP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 KP E+ +A ++ + + I+ + +L SL I + S+ D++ D + E Sbjct: 284 KPTEEEIADRMEMTIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPED 339 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQ 271 + + R++ L + L+PRER + + R ++ TLE + F V+RER+RQ Sbjct: 340 QVSKHLLRED----LETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTRERIRQ 395 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 396 IEAKALRKLR 405 >gi|319944403|ref|ZP_08018677.1| DNA-directed RNA polymerase sigma subunit RpoD [Lautropia mirabilis ATCC 51599] gi|319742364|gb|EFV94777.1| DNA-directed RNA polymerase sigma subunit RpoD [Lautropia mirabilis ATCC 51599] Length = 785 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGN+GLM+AV KF+ RGF+ +TY+ WW Sbjct: 546 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEFRRGFKFSTYATWW 605 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + ++P+ +A+K+++ Sbjct: 606 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGVEPDPAT-LAEKMDM 660 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D + D ++D Sbjct: 661 PEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTTTLAPSDAALHD----------- 709 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + R ++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 710 ----SMREVVKEVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIRQIEAKA 765 Query: 277 FKKVQ 281 +K++ Sbjct: 766 LRKLR 770 >gi|114797662|ref|YP_761566.1| RNA polymerase sigma factor RpoD [Hyphomonas neptunium ATCC 15444] gi|114737836|gb|ABI75961.1| RNA polymerase sigma factor RpoD [Hyphomonas neptunium ATCC 15444] Length = 666 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 74/244 (30%), Positives = 119/244 (48%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q+++ + R + L E+ Sbjct: 488 IRQAITRSIADQARTIRIPVHMIETINKIIRTQRQMLHEIGREPTPEELAEKLGLPLEK- 546 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E IS+ + DE S D++ D + ++ Sbjct: 547 --IRKVLKIAK-EPISLETPIGDDE------------DSNLGDFI---EDKMALLPVDAA 588 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAF 277 + N R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A Sbjct: 589 IQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKAL 648 Query: 278 KKVQ 281 +K++ Sbjct: 649 RKLK 652 >gi|291614899|ref|YP_003525056.1| RNA polymerase, sigma 70 subunit, RpoD [Sideroxydans lithotrophicus ES-1] gi|291585011|gb|ADE12669.1| RNA polymerase, sigma 70 subunit, RpoD [Sideroxydans lithotrophicus ES-1] Length = 654 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 115/234 (49%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 414 AKRDMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 473 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + ++ + I +A K+ + Sbjct: 474 IRQAITRSIADQARTIRIPV-----HMIETINKMNRISRQILQETGMEADAATLAIKMEM 528 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D IE + RN+ Sbjct: 529 PEDKIRKI-LKIAK-EPISMETPVGDDDDSHLGDFI---EDANSLAPIEAAVYDSLRNVT 583 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 584 KDILDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 637 >gi|258406014|ref|YP_003198756.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfohalobium retbaense DSM 5692] gi|257798241|gb|ACV69178.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfohalobium retbaense DSM 5692] Length = 587 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 127/245 (51%), Gaps = 16/245 (6%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 347 LRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 406 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++I + L R +L + +PE+ IA+++ Sbjct: 407 WWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPQPEE---IAERM 461 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR- 225 + E + ++A E ++ D+ S D++ ++ + EE N + Sbjct: 462 DYP-VEKVKKVLKIA-KEPISLETPIGDEEDSSLGDFI-----EDKKAVAPAEEAVNSKL 514 Query: 226 -NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ +S L PRE ++ R +++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 515 AEQISTVLSELTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRH 574 Query: 283 SIQKQ 287 ++ Q Sbjct: 575 PVRSQ 579 >gi|111225055|ref|YP_715849.1| alternative primary sigma 70 transcriptional factor [Frankia alni ACN14a] gi|111152587|emb|CAJ64329.1| Alternative primary sigma 70 transcriptional factor [Frankia alni ACN14a] Length = 373 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 88/294 (29%), Positives = 137/294 (46%), Gaps = 60/294 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH---------GDL------------SAAHR 52 Y+ EI K+P+L +E L+KR + EH DL +A + Sbjct: 80 YLREIGKVPLLNAAQEVELSKRVEAGLFAEHKLESDPDLPADLRRDLGLLVKDGHAAKQQ 139 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 140 LVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWWIRQA 199 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I T Q++L L R + + ++ EQVV Sbjct: 200 IGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQVV--- 256 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + +S+ + GD L I SD S D Y G Q IE Sbjct: 257 -ELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSP--ADAASY---GAMQDEIE---- 306 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 N+L LNPRER + R L + TL + + ++RER+RQIE Sbjct: 307 ----NVL----GGLNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIE 352 >gi|83309796|ref|YP_420060.1| RNA polymerase sigma factor RpoD [Magnetospirillum magneticum AMB-1] gi|82944637|dbj|BAE49501.1| DNA-directed RNA polymerase [Magnetospirillum magneticum AMB-1] Length = 679 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL++ Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPTPEE---LAEKLSM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N R Sbjct: 556 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPLDAAIQANLRETT 610 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 611 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 665 >gi|103486468|ref|YP_616029.1| RNA polymerase sigma factor RpoD [Sphingopyxis alaskensis RB2256] gi|98976545|gb|ABF52696.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingopyxis alaskensis RB2256] Length = 669 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 431 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 490 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A++L++ Sbjct: 491 IRQAITRSIADQARTIRI--PVHMIETINKLVRCSRQFLHESGREPTPEE---MAERLSM 545 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N + + Sbjct: 546 PLEKVRKV-MKIAK-EPISLETPIGDEEDSHLGDFI---EDKNAVIPVDAAVQSNLKETV 600 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 601 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 655 >gi|317013514|gb|ADU80950.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Gambia94/24] Length = 681 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/242 (30%), Positives = 120/242 (49%), Gaps = 25/242 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI---TDNNLKPEQV-VAIAK 164 IK A+ I ++I N + ++ H+Q D + E+V +++ K Sbjct: 502 IKQAISRAIADQARTIRIPIHMIDTINRIN-KVMRKHIQETGKEPDLEVVAEEVGLSLDK 560 Query: 165 KLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 NV + E IS+ + D+ DKN D ++ R+ Sbjct: 561 VKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM---------------RE 605 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK Sbjct: 606 DLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKK 665 Query: 280 VQ 281 ++ Sbjct: 666 LR 667 >gi|240169695|ref|ZP_04748354.1| RNA polymerase sigma factor [Mycobacterium kansasii ATCC 12478] Length = 518 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 206 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAEMAERGEKLP 264 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 265 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 324 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 325 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 382 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 383 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 434 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 435 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 494 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 495 QIESKTMSKLRHPSRSQV 512 >gi|148266058|ref|YP_001232764.1| RpoD family RNA polymerase sigma factor [Geobacter uraniireducens Rf4] gi|146399558|gb|ABQ28191.1| RNA polymerase, sigma 70 subunit, RpoD [Geobacter uraniireducens Rf4] Length = 586 Score = 96.7 bits (239), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 76/238 (31%), Positives = 127/238 (53%), Gaps = 20/238 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 349 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 408 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N +L R+L +Q I PE+ IA+ Sbjct: 409 IRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQEIG-REPSPEE---IAE 459 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 ++++ +V + ++A E ++ ++ S D++ D +E + N Sbjct: 460 RMSLPLDKVRKV-LKIA-KEPISLETPIGEEEDSHLGDFI---EDKGVVSPLEAVIKANL 514 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +R +S L PRE ++ R +++ TLE + +FEV+RER+RQIEA+A +K+ Sbjct: 515 SEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKL 572 >gi|308371101|ref|ZP_07423832.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu003] gi|308379284|ref|ZP_07485758.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu010] gi|308405944|ref|ZP_07494511.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu012] gi|308329814|gb|EFP18665.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu003] gi|308357496|gb|EFP46347.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu010] gi|308365045|gb|EFP53896.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu012] gi|323718698|gb|EGB27860.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis CDC1551A] Length = 530 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 218 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 276 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 277 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 336 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 337 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 394 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 395 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 446 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 447 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 506 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 507 QIESKTMSKLRHPSRSQV 524 >gi|91070519|gb|ABE11426.1| type II alternative RNA polymerase sigma factor, sigma-70 family [uncultured Prochlorococcus marinus clone HOT0M-3E5] Length = 231 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 125/231 (54%), Gaps = 11/231 (4%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ Sbjct: 1 MMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQG 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M I S +++ ++K +RR+ L +P + + +A ++ + + + Sbjct: 61 MTRAIDNSARTIRLPIHISEK--LSKMRRVSRELS--HKFGRQPTR-LEMATEMGIDQKD 115 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + + + A SL+A + S+ + L+ D + +E +E +R ++ L + Sbjct: 116 LEDLISQSAPCASLDAHARGEEDRSTLGE--LIPDPNCEEP--MEGMDRTIQKEHLGTWL 171 Query: 233 SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 S LN RE++I R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 172 SQLNEREQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 222 >gi|313891780|ref|ZP_07825385.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] gi|329121139|ref|ZP_08249770.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] gi|313119774|gb|EFR42961.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] gi|327471301|gb|EGF16755.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] Length = 374 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 80/275 (29%), Positives = 138/275 (50%), Gaps = 35/275 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-----------LVTSHLRLVVKIAMG 67 Y+ EI + +L +EE LAK + L A L ++LRLVV IA Sbjct: 102 YLKEIGTVDLLTAEEEVTLAKAVEKGLLLGATEEEKINADKAKKALSDANLRLVVSIAKK 161 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y G GL +++ EGN+GL++AV KFD +G++ +TY+ WWI+ ++ I +++ Sbjct: 162 YLGRGLQFLDLIQEGNLGLLKAVDKFDYTKGYKFSTYATWWIRQSITRAIADQARTIRV- 220 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SL 186 + L R+ L + + +P + IAK ++VS +V + ++A D SL Sbjct: 221 -PVHMVETINKLNRISRQL--LQEKGREPTE-YEIAKAMDVSVGKVREVK-KIAQDPISL 275 Query: 187 NALINSSDKNSSQWQDWL-----VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 I +K S D++ + D + +L++++ + ++ L RER+ Sbjct: 276 ETPI--GEKEDSHLGDFIEDQDAIAPDDATDSILLKEQ--------IEELLTNLTDRERQ 325 Query: 242 IFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEA 274 + E R L++ P TLE + + F+V+RER+RQIE Sbjct: 326 VLELRFGLKDGRPRTLEEVGNNFDVTRERIRQIEG 360 >gi|254452739|ref|ZP_05066176.1| RNA polymerase sigma-70 factor RpoD [Octadecabacter antarcticus 238] gi|198267145|gb|EDY91415.1| RNA polymerase sigma-70 factor RpoD [Octadecabacter antarcticus 238] Length = 637 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/250 (30%), Positives = 122/250 (48%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 399 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 458 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N+ +++ + R L LQ + Sbjct: 459 IRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAAKLQMPLE-- 516 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 K +V+ IAK E IS+ + D+ SQ D++ D Sbjct: 517 -KVRKVMKIAK-------EPISLETPIG------------DEEDSQLGDFI---EDKNAV 553 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 + ++ ++N + TR ++ L PRE R+ R TLE + +F V+RER+RQ Sbjct: 554 LPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 613 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 614 IEAKALRKLK 623 >gi|50955189|ref|YP_062477.1| ECF subfamily RNA polymerase sigma-70 factor [Leifsonia xyli subsp. xyli str. CTCB07] gi|50951671|gb|AAT89372.1| RNA polymerase, sigma-70 family factor [Leifsonia xyli subsp. xyli str. CTCB07] Length = 308 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 135/263 (51%), Gaps = 35/263 (13%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 EK+E +VL+ + A R + ++LRLVV IA Y G GL + +++ EGN+GL++A Sbjct: 61 EKRELHVLSDDGKR-----AFERFIEANLRLVVSIAKRYAGRGLAVMDLIQEGNLGLVRA 115 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGH-- 145 V+KFD G + +TY+ WWI+ ++ I + +++I +K +L R L G Sbjct: 116 VEKFDYRTGNKFSTYATWWIRQSILRGIADTARVIRIPVHTVEKIDKLDRIRRDLGGELG 175 Query: 146 ----LQAITD-NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSS 198 L+ I D +L P +V KL +S+SE +S+ + +E L LI D Sbjct: 176 RTPTLEEIADAASLTPAEV----HKLQMSDSETVSLAVPVGENEGAELGDLIEDGDAPGP 231 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 + + + H E+ L R + R V+ R R + R+ P+TL+ + Sbjct: 232 SERVEVEFRHRDLEERL---------RELPLRDAKVV--RMRFGLDGRK----PMTLDEV 276 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 + + ++RERVRQ+E R+ K+++ Sbjct: 277 GAVYGITRERVRQLETRSLKRLR 299 >gi|15611152|ref|NP_222803.1| RNA polymerase sigma factor RpoD [Helicobacter pylori J99] gi|11387124|sp|Q9ZMY3|RPOD_HELPJ RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|4154591|gb|AAD05665.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99] Length = 681 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAI---TDNNLKPEQV-V 160 IK A+ I ++I + + R ++ H+Q D + E+V + Sbjct: 502 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGL 556 Query: 161 AIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++ K NV + E IS+ + D+ DKN D ++ Sbjct: 557 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM------------- 603 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 604 --REDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 661 Query: 276 AFKKVQ 281 A KK++ Sbjct: 662 AIKKLR 667 >gi|261415107|ref|YP_003248790.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|261371563|gb|ACX74308.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|302326239|gb|ADL25440.1| RNA polymerase sigma-70 factor [Fibrobacter succinogenes subsp. succinogenes S85] Length = 270 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 74/274 (27%), Positives = 140/274 (51%), Gaps = 26/274 (9%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I + + L RY+ +IR+ L ++EE +L ++ +E GD A +L+++++R V+K+A+ Y Sbjct: 3 IDSTDTTLKRYLEDIRRTAPLSREEEQILFQKAKE-GDKIARKKLISANMRFVLKVAIQY 61 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RG +P+ ++VSEG +GL++A++ F+ RG + +Y +WWIKA + I +L+++ Sbjct: 62 RGCPIPLPDLVSEGAMGLVRAIESFEHTRGLKFISYGVWWIKAYITRAINEQGNLIRL-- 119 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 ANQ +R+ + N + +++ I ++ VS + + + E L Sbjct: 120 PANQ---HLRVRKALHEQSRGKEINEEIRELIQIGQR-GVSFDSPLKADSKATYAEVLPD 175 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 S+ + S+ Q D EQ L E+E R + + +N Sbjct: 176 SGASNPEADSEIQSVEALARDLMEQ-LPEREAR------VITGIFGIN------------ 216 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 QE P TL + +S ERVRQ+ +A +++++ Sbjct: 217 QEAPQTLREVGESMNISHERVRQLRDQALRRIRK 250 >gi|119489756|ref|ZP_01622514.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] gi|119454330|gb|EAW35480.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] Length = 391 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 127/237 (53%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 155 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 214 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 215 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEM 269 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ Sbjct: 270 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSKNLLRED--- 322 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 323 -LESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 378 >gi|88607510|ref|YP_505167.1| RNA polymerase sigma factor RpoD [Anaplasma phagocytophilum HZ] gi|88598573|gb|ABD44043.1| RNA polymerase sigma factor RpoD [Anaplasma phagocytophilum HZ] Length = 627 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 123/239 (51%), Gaps = 19/239 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL ++V EGNIGLM+AV KFD +RG++ +TY+ WW Sbjct: 390 AKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I ++I + N R L+ L I + + ++ +LN+ Sbjct: 450 VRQAITRAIADQARTIRIPVHMIETVNKIN-RTLRQMLHEIG----REPTLEELSARLNI 504 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRR 225 + ++ + + SL + I D +SS + D + +++ ++ E + R Sbjct: 505 NVEKIRKVMKIVKDPVSLESPIG--DDDSSTFGDCI------EDKRAVKPENAAVLADLR 556 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + T+ +S L P+E RI R TLE + F V+RER+RQIEA+A +K++ Sbjct: 557 EITTKVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTRERIRQIEAKALRKLR 615 >gi|317008763|gb|ADU79343.1| RNA polymerase sigma factor RpoD [Helicobacter pylori India7] Length = 676 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 437 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 496 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAI---TDNNLKPEQV-V 160 IK A+ I ++I + + R ++ H+Q D + E+V + Sbjct: 497 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGL 551 Query: 161 AIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++ K NV + E IS+ + D+ DKN D ++ Sbjct: 552 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM------------- 598 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 599 --REDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 656 Query: 276 AFKKVQ 281 A KK++ Sbjct: 657 AIKKLR 662 >gi|209523577|ref|ZP_03272131.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209495982|gb|EDZ96283.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 387 Score = 96.3 bits (238), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 128/237 (54%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 151 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 210 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ + KP E+ +A ++ Sbjct: 211 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEM 265 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ + Sbjct: 266 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDQVSKNLLREDLES 321 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 322 VL----DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 374 >gi|288926119|ref|ZP_06420047.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315608396|ref|ZP_07883384.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|288337159|gb|EFC75517.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315249856|gb|EFU29857.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 290 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 74/285 (25%), Positives = 141/285 (49%), Gaps = 38/285 (13%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ +EE LA+ + G + A +LVT++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGRAPMVTIEEEIELAQAIKRGGRDAERAKEKLVTANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LTLTDLIDEGNIGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL-- 180 +L ++ + + + V ++ + ++ E ++ +S++ Sbjct: 135 ---VGSLNKVNHEINRFEQEHHRRPSVQELSDRTHIDEEKIQQSMMADGHHVSIDAPFQE 191 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER--KNRRNMLTRSMSVLNPR 238 D S+ ++ SD + + Q DHD L +R K R ++ R + + Sbjct: 192 GEDNSMVDVMAGSDDSRTDRQ----VDHDSMAMELNSVLDRVLKEREQIIIRECFGIGCQ 247 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E+ LE + + ++RERVRQI ++ K++ES Sbjct: 248 EK-------------GLEEIGDQLGLTRERVRQIREKSITKLRES 279 >gi|118591038|ref|ZP_01548438.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] gi|118436560|gb|EAV43201.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] Length = 662 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 424 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 483 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 484 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLQM 538 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 539 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 593 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 594 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 648 >gi|87300555|ref|ZP_01083397.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 5701] gi|87284426|gb|EAQ76378.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 5701] Length = 398 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 70/240 (29%), Positives = 117/240 (48%), Gaps = 13/240 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+K+DP RGFR +TY+ WW Sbjct: 158 ARDRMIQANLRLVVAVAKKYQKRGVELLDLVQEGTLGLERAVEKYDPTRGFRFSTYAYWW 217 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K + ++ + + +A+ L Sbjct: 218 IRQGVTRAIATQSRTIRLPVHVTEK-----LNRIKKAQRQFASDHGRTASLAELAEALQW 272 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL A + + D L D EQ L R+ + L Sbjct: 273 SEEAVRLTLLRVPRSISLEAKVGRD--QDTPLGDLLEATSDTPEQSLT----RQQLHSDL 326 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L+ RE + R + P TL + ++SRERVRQIE RA K+++ ++ Sbjct: 327 DALLDELSEREAEVIRLRFGLADDTPRTLAQIGEGMQLSRERVRQIETRALHKLRQPARR 386 >gi|307636779|gb|ADN79229.1| RNA polymerase sigma factor [Helicobacter pylori 908] gi|325995367|gb|ADZ50772.1| RNA polymerase sigma factor [Helicobacter pylori 2018] gi|325996964|gb|ADZ49172.1| RNA polymerase sigma factor [Helicobacter pylori 2017] Length = 681 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/242 (30%), Positives = 120/242 (49%), Gaps = 25/242 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI---TDNNLKPEQV-VAIAK 164 IK A+ I ++I N + ++ H+Q D + E+V +++ K Sbjct: 502 IKQAISRAIADQARTIRIPIHMIDTINRIN-KVMRKHIQETGKEPDLEVVAEEVGLSLDK 560 Query: 165 KLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 NV + E IS+ + D+ DKN D ++ R+ Sbjct: 561 VKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM---------------RE 605 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK Sbjct: 606 DLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKK 665 Query: 280 VQ 281 ++ Sbjct: 666 LR 667 >gi|315499353|ref|YP_004088157.1| RNA polymerase, sigma 70 subunit, rpod [Asticcacaulis excentricus CB 48] gi|315417365|gb|ADU14006.1| RNA polymerase, sigma 70 subunit, RpoD [Asticcacaulis excentricus CB 48] Length = 696 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 458 AKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 518 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 572 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 573 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 627 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 628 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 682 >gi|148242803|ref|YP_001227960.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851113|emb|CAK28607.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 309 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 85/297 (28%), Positives = 145/297 (48%), Gaps = 40/297 (13%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS---------------AA 50 G +S Y+ I ++P+L EE L + + E G+ + + Sbjct: 16 GNDPVSWYLSSIGRVPLLTPAEEIELGNQVQTMMTLVEQGEEATYTAREKKLIRVGRRSK 75 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 76 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 135 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNL-RRLKGHLQAITDNNLKPEQVVA---IAKKL 166 +M I + RL +L RL +A D K + + IA +L Sbjct: 136 QSMTR---------AIACQSRTIRLPVHLSERLATVRKATMDLAHKLGAMPSRREIATEL 186 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E+ + + SL+A I+ + S + L+ D +E ++ ER+ Sbjct: 187 GMGLEELDGLLRQALTTSSLDAPISGEEGRS--FLGELIADPRNEEP--LDAVERRMHHE 242 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R +S L +E+++ E R E TL + EVSRERVRQ+E +A +K++ Sbjct: 243 QLGRWLSYLTAQEKQVLEMRFGLGGEQRHTLAEIGRLMEVSRERVRQVELKALRKLR 299 >gi|84515379|ref|ZP_01002741.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] gi|84510662|gb|EAQ07117.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] Length = 659 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 421 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 480 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 481 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 535 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 536 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 590 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 591 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 645 >gi|25991936|gb|AAN76995.1|AF481769_1 primary sigma 70 transcriptional factor [Frankia sp. ACN14a] Length = 385 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 88/294 (29%), Positives = 137/294 (46%), Gaps = 60/294 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH---------GDL------------SAAHR 52 Y+ EI K+P+L +E L+KR + EH DL +A + Sbjct: 92 YLREIGKVPLLNAAQEVELSKRVEAGLFAEHKLESDPDLPADLRRDLGLLVKDGHAAKQQ 151 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 152 LVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWWIRQA 211 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I T Q++L L R + + ++ EQVV Sbjct: 212 IGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQVV--- 268 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + +S+ + GD L I SD S D Y G Q IE Sbjct: 269 -ELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSP--ADAASY---GAMQDEIE---- 318 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 N+L LNPRER + R L + TL + + ++RER+RQIE Sbjct: 319 ----NVL----GGLNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIE 364 >gi|2267165|gb|AAC64856.1| sigma 80 [Helicobacter pylori] Length = 685 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 446 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 505 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAI---TDNNLKPEQV-V 160 IK A+ I ++I + + R ++ H+Q D + E+V + Sbjct: 506 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGL 560 Query: 161 AIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++ K NV + E IS+ + D+ DKN D ++ Sbjct: 561 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM------------- 607 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 608 --REDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 665 Query: 276 AFKKVQ 281 A KK++ Sbjct: 666 AIKKLR 671 >gi|150397423|ref|YP_001327890.1| RNA polymerase sigma factor RpoD [Sinorhizobium medicae WSM419] gi|150028938|gb|ABR61055.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium medicae WSM419] Length = 684 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 83/273 (30%), Positives = 136/273 (49%), Gaps = 27/273 (9%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 421 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 467 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 468 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PV 525 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 526 HMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPISLET 580 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 581 PVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIG 637 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 638 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 670 >gi|15966067|ref|NP_386420.1| RNA polymerase sigma factor RpoD [Sinorhizobium meliloti 1021] gi|307305622|ref|ZP_07585369.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti BL225C] gi|307317625|ref|ZP_07597064.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti AK83] gi|7388096|sp|Q59753|RPOD_RHIME RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|1050336|gb|AAA88524.1| sigma factor [Sinorhizobium meliloti] gi|15075337|emb|CAC46893.1| RNA polymerase sigma factor transcription regulation protein [Sinorhizobium meliloti 1021] gi|306896783|gb|EFN27530.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti AK83] gi|306902325|gb|EFN32921.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti BL225C] Length = 684 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 83/273 (30%), Positives = 136/273 (49%), Gaps = 27/273 (9%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 421 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 467 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 468 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PV 525 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 526 HMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPISLET 580 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 581 PVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIG 637 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 638 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 670 >gi|2522316|gb|AAB81010.1| RNA polymerase principal sigma factor RpoD [Helicobacter pylori] Length = 680 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 441 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAI---TDNNLKPEQV-V 160 IK A+ I ++I + + R ++ H+Q D + E+V + Sbjct: 501 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGL 555 Query: 161 AIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++ K NV + E IS+ + D+ DKN D ++ Sbjct: 556 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM------------- 602 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 603 --REDLKAQIESVLDQLNEREKAVIRMRFGLLDDESERTLEEIGKELNVTRERVRQIESS 660 Query: 276 AFKKVQ 281 A KK++ Sbjct: 661 AIKKLR 666 >gi|83746506|ref|ZP_00943557.1| RpoD [Ralstonia solanacearum UW551] gi|83726837|gb|EAP73964.1| RpoD [Ralstonia solanacearum UW551] Length = 391 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 152 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 211 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 212 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 266 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 267 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 321 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 322 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 376 >gi|227822807|ref|YP_002826779.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii NGR234] gi|227341808|gb|ACP26026.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii NGR234] Length = 684 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 83/273 (30%), Positives = 136/273 (49%), Gaps = 27/273 (9%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 421 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 467 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 468 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PV 525 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 526 HMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPISLET 580 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 581 PVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIG 637 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 638 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 670 >gi|254504180|ref|ZP_05116331.1| Sigma-70 region 3 family [Labrenzia alexandrii DFL-11] gi|222440251|gb|EEE46930.1| Sigma-70 region 3 family [Labrenzia alexandrii DFL-11] Length = 671 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 77/240 (32%), Positives = 123/240 (51%), Gaps = 22/240 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 493 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIG-REPTPEE---LAE 543 Query: 165 KLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 KL + +V + ++A + SL I D+ S D++ D + I+ + N Sbjct: 544 KLQMPLEKVRKV-LKIAKEPISLETPI--GDEEDSHLGDFI---EDKNAVLPIDAAIQSN 597 Query: 224 RRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|15889446|ref|NP_355127.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens str. C58] gi|20141718|sp|P33452|RPOD_AGRT5 RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|15157308|gb|AAK87912.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens str. C58] Length = 684 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 138/276 (50%), Gaps = 27/276 (9%) Query: 10 VNGEIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Sbjct: 418 LSTETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKK 464 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 465 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI- 523 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 524 -PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPIS 577 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 578 LETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRF 634 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 635 GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 670 >gi|268680166|ref|YP_003304597.1| RNA polymerase sigma factor RpoD [Sulfurospirillum deleyianum DSM 6946] gi|268618197|gb|ACZ12562.1| RNA polymerase sigma factor RpoD [Sulfurospirillum deleyianum DSM 6946] Length = 617 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 125/246 (50%), Gaps = 14/246 (5%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR ++ D S R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G Sbjct: 369 KRGKKIADESKT-RMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKG 427 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + N + ++ HLQ K Sbjct: 428 YKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRIN-KIIRKHLQ----EEGKEPD 482 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + IA ++ +S +V ++ SL A I + D ++ D++ D +E Sbjct: 483 IETIALEVGLSADKVKNVIKITKEPISLEAPIGNED--DGKFGDFV---EDKTSIAPLEH 537 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 + + + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 538 ILKSDLKEQIDDVLDQLNDREKAVIRMRFGLMHDESDRTLEEIGKELNVTRERVRQIESS 597 Query: 276 AFKKVQ 281 A KK++ Sbjct: 598 AIKKLK 603 >gi|72161811|ref|YP_289468.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71915543|gb|AAZ55445.1| RNA polymerase sigma factor [Thermobifida fusca YX] Length = 438 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 124/241 (51%), Gaps = 13/241 (5%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E G + AH ++ ++LRLVV +A Y G+P+ +VV EGN+GL++AV+KFD +G++ + Sbjct: 196 EDGRRAKAH-MLEANLRLVVSVAKKYSDRGMPLLDVVQEGNLGLIRAVEKFDYAKGYKFS 254 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+MWWI+ A+Q S +++ + L L RL+ + P+++ Sbjct: 255 TYAMWWIRQAIQRGFADSARTIRL--PVHVLELLSKLSRLERDMHQTLGREPTPDELAQE 312 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 K E++ + + SL++ I + ++ D L+ D D E E +R+ Sbjct: 313 LGKTPAQIEELLRITRQPI---SLDSTIG--EDGETRIGD-LIEDVDASEAS--EVVDRQ 364 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L R++ L PRE I R P TL+ + ++RER+RQ+E ++ K+ Sbjct: 365 LMADQLRRALDDLEPREATIMSLRFGLFDGRPRTLDEIGKHLGLTRERIRQLEKQSLSKL 424 Query: 281 Q 281 + Sbjct: 425 R 425 >gi|258542087|ref|YP_003187520.1| RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-01] gi|256633165|dbj|BAH99140.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-01] gi|256636222|dbj|BAI02191.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-03] gi|256639277|dbj|BAI05239.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-07] gi|256642331|dbj|BAI08286.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-22] gi|256645386|dbj|BAI11334.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-26] gi|256648441|dbj|BAI14382.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-32] gi|256651494|dbj|BAI17428.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-01-42C] gi|256654485|dbj|BAI20412.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-12] Length = 672 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 78/277 (28%), Positives = 134/277 (48%), Gaps = 16/277 (5%) Query: 10 VNGEIGLSRYIHEIRK---IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 N +GL + ++ + +P+ E + Y R E A ++ ++LRLV+ IA Sbjct: 392 ANTVVGLRDQVAQLAQETGLPIGEFRRVYATVARG-ERDSARAKKEMIEANLRLVISIAK 450 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 451 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 510 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 + L R + PE+ +A+KL + +V + ++A E + Sbjct: 511 --PVHMIETINKLVRTSRQMLHEIGREPAPEE---LAEKLGMPLEKVRKV-LKIA-KEPI 563 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + D+ S D++ D + ++ + N R TR ++ L PRE R+ R Sbjct: 564 SLETPIGDEEDSHLGDFI---EDKTAIIPLDAAIQTNLREATTRVLASLTPREERVLRMR 620 Query: 247 R--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 621 FGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLK 657 >gi|317132028|ref|YP_004091342.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ethanoligenens harbinense YUAN-3] gi|315470007|gb|ADU26611.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ethanoligenens harbinense YUAN-3] Length = 372 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 46/108 (42%), Positives = 72/108 (66%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++P+L +EE LAKR E GD++A RL ++LRLVV IA Y G G+ ++ Sbjct: 106 YLKEIGRVPLLSGEEEIELAKRMGE-GDVAARKRLSEANLRLVVSIAKRYVGRGMQFLDL 164 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 165 IQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRI 212 Score = 40.0 bits (92), Expect = 0.38, Method: Compositional matrix adjust. Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 2/59 (3%) Query: 225 RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L + L RE ++ R ++ P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 301 KEQLGDVLKTLTQREAKVLRLRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKALRKLR 359 >gi|148240072|ref|YP_001225459.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147848611|emb|CAK24162.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 313 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 80/293 (27%), Positives = 148/293 (50%), Gaps = 36/293 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLSA-------------------A 50 +S Y+ I +IP+L EE L + + E G ++A Sbjct: 20 ISWYLATIGRIPLLTPAEEIELGNQVQQLMQLTEDGSIAADSDQFDGKQRRLIRVGQRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 QRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ +R++ L P + + IA+ +++ Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVS--LDLAHKLGAMPSR-LEIAEAMDMPV 194 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S+ + SL+A +N + S + L+ D +E +++ E++ L R Sbjct: 195 EELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADSSLEEP--LDRVEQRMHHEQLGR 250 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 MS L+ +E+ + R L N TL + +VSRERVRQ+E +A +K++ Sbjct: 251 WMSHLSDQEQHVLTLRFGLNGNERHTLAEIGRLLDVSRERVRQVELKALRKLR 303 >gi|110633818|ref|YP_674026.1| RNA polymerase sigma factor RpoD [Mesorhizobium sp. BNC1] gi|110284802|gb|ABG62861.1| RNA polymerase, sigma 38 subunit, RpoS [Chelativorans sp. BNC1] Length = 668 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 490 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 544 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 545 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKSAILPIDAAIQANLRETT 599 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 654 >gi|269103529|ref|ZP_06156226.1| RNA polymerase sigma factor RpoD [Photobacterium damselae subsp. damselae CIP 102761] gi|268163427|gb|EEZ41923.1| RNA polymerase sigma factor RpoD [Photobacterium damselae subsp. damselae CIP 102761] Length = 619 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 498 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q+ ++ Sbjct: 499 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLQLPMDAAT 542 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + N R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 543 QTNLRAATNEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 602 Query: 279 KVQ 281 K++ Sbjct: 603 KLR 605 >gi|308183886|ref|YP_003928019.1| RNA polymerase sigma factor RpoD [Helicobacter pylori SJM180] gi|308059806|gb|ADO01702.1| RNA polymerase sigma factor RpoD [Helicobacter pylori SJM180] Length = 679 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 440 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 499 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAI---TDNNLKPEQV-V 160 IK A+ I ++I + + R ++ H+Q D + E+V + Sbjct: 500 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGL 554 Query: 161 AIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++ K NV + E IS+ + D+ DKN D ++ Sbjct: 555 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM------------- 601 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 602 --REDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 659 Query: 276 AFKKVQ 281 A KK++ Sbjct: 660 AIKKLR 665 >gi|307944279|ref|ZP_07659620.1| RNA polymerase sigma factor RpoD [Roseibium sp. TrichSKD4] gi|307772625|gb|EFO31845.1| RNA polymerase sigma factor RpoD [Roseibium sp. TrichSKD4] Length = 669 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 122/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 431 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 490 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 491 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIG-REPTPEE---LAE 541 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 542 KLQMPLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNL 596 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 597 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 655 >gi|171320298|ref|ZP_02909351.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171094445|gb|EDT39506.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 338 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 99 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 158 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 159 IRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QILQETGLEPDPAT-LAEKMEM 213 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 214 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 268 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 269 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 323 >gi|329848685|ref|ZP_08263713.1| RNA polymerase sigma factor rpoD [Asticcacaulis biprosthecum C19] gi|328843748|gb|EGF93317.1| RNA polymerase sigma factor rpoD [Asticcacaulis biprosthecum C19] Length = 699 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 461 AKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 520 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 521 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 575 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 576 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 630 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 631 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 685 >gi|146329704|ref|YP_001209965.1| RNA polymerase sigma-70 factor [Dichelobacter nodosus VCS1703A] gi|146233174|gb|ABQ14152.1| RNA polymerase sigma-70 factor [Dichelobacter nodosus VCS1703A] Length = 623 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/241 (31%), Positives = 115/241 (47%), Gaps = 26/241 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ +TY+ WW Sbjct: 385 AKEEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-VAIA---- 163 I+ A+ I ++I + L R+ LQ + PE++ VA+ Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRMLQQKNGRDPTPEELSVAMDMPED 502 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +K+ E ISM + DE S D+L D +E Sbjct: 503 KIRKVWKIAKEPISMETPIGDDE------------DSHLGDFL---EDSNVISPLEAATT 547 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKK 279 + ++ L PRE R+ R + N TLE + +F+V+RER+RQIEA+A +K Sbjct: 548 RGLSEATNEVLASLTPREERVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRK 607 Query: 280 V 280 + Sbjct: 608 L 608 >gi|15609840|ref|NP_217219.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Rv] gi|15842241|ref|NP_337278.1| RNA polymerase sigma factor [Mycobacterium tuberculosis CDC1551] gi|31793875|ref|NP_856368.1| RNA polymerase sigma factor [Mycobacterium bovis AF2122/97] gi|121638578|ref|YP_978802.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148662544|ref|YP_001284067.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Ra] gi|148823893|ref|YP_001288647.1| RNA polymerase sigma factor [Mycobacterium tuberculosis F11] gi|167970074|ref|ZP_02552351.1| RNA polymerase sigma factor RpoD [Mycobacterium tuberculosis H37Ra] gi|218754439|ref|ZP_03533235.1| RNA polymerase sigma factor [Mycobacterium tuberculosis GM 1503] gi|224991070|ref|YP_002645759.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|253798215|ref|YP_003031216.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 1435] gi|254551759|ref|ZP_05142206.1| RNA polymerase sigma factor [Mycobacterium tuberculosis '98-R604 INH-RIF-EM'] gi|260187720|ref|ZP_05765194.1| RNA polymerase sigma factor [Mycobacterium tuberculosis CPHL_A] gi|289448358|ref|ZP_06438102.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis CPHL_A] gi|289553511|ref|ZP_06442721.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 605] gi|289762874|ref|ZP_06522252.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis GM 1503] gi|294994205|ref|ZP_06799896.1| RNA polymerase sigma factor [Mycobacterium tuberculosis 210] gi|297635311|ref|ZP_06953091.1| RNA polymerase sigma factor [Mycobacterium tuberculosis KZN 4207] gi|297732307|ref|ZP_06961425.1| RNA polymerase sigma factor [Mycobacterium tuberculosis KZN R506] gi|306780885|ref|ZP_07419222.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu002] gi|306790106|ref|ZP_07428428.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu004] gi|306798608|ref|ZP_07436910.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu006] gi|306804467|ref|ZP_07441135.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu008] gi|306807495|ref|ZP_07444163.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu007] gi|306968762|ref|ZP_07481423.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu009] gi|307080806|ref|ZP_07489976.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu011] gi|313659640|ref|ZP_07816520.1| RNA polymerase sigma factor [Mycobacterium tuberculosis KZN V2475] gi|61234251|sp|P0A602|RPOD_MYCTU RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|61234258|sp|P0A603|RPOD_MYCBO RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|1072023|gb|AAA81643.1| sigma factor [Mycobacterium bovis] gi|1072025|gb|AAA81644.1| sigma factor [Mycobacterium tuberculosis str. Erdman] gi|1171102|gb|AAA86043.1| sigma factor MysA [Mycobacterium tuberculosis H37Rv] gi|2181994|emb|CAB09463.1| RNA POLYMERASE SIGMA FACTOR SIGA (SIGMA-A) [Mycobacterium tuberculosis H37Rv] gi|13882532|gb|AAK47092.1| RNA polymerase principal sigma factor SigA [Mycobacterium tuberculosis CDC1551] gi|31619469|emb|CAD94907.1| RNA POLYMERASE SIGMA FACTOR SIGA (SIGMA-A) [Mycobacterium bovis AF2122/97] gi|121494226|emb|CAL72704.1| RNA polymerase sigma factor sigA [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148506696|gb|ABQ74505.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Ra] gi|148722420|gb|ABR07045.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis F11] gi|224774185|dbj|BAH26991.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|253319718|gb|ACT24321.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 1435] gi|289421316|gb|EFD18517.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis CPHL_A] gi|289438143|gb|EFD20636.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 605] gi|289710380|gb|EFD74396.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis GM 1503] gi|308326286|gb|EFP15137.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu002] gi|308333457|gb|EFP22308.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu004] gi|308341125|gb|EFP29976.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu006] gi|308346090|gb|EFP34941.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu007] gi|308348951|gb|EFP37802.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu008] gi|308353649|gb|EFP42500.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu009] gi|308361450|gb|EFP50301.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu011] gi|326904319|gb|EGE51252.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis W-148] gi|328457987|gb|AEB03410.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 4207] Length = 528 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 216 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 274 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 275 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 334 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 335 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 392 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 393 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 444 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 445 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 504 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 505 QIESKTMSKLRHPSRSQV 522 >gi|285019606|ref|YP_003377317.1| RNA polymerase sigma-70 factor, rpod protein [Xanthomonas albilineans GPE PC73] gi|283474824|emb|CBA17323.1| probable rna polymerase sigma-70 factor, rpod protein [Xanthomonas albilineans] Length = 620 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 123/246 (50%), Gaps = 12/246 (4%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 370 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 429 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 430 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQYGREATPE 487 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +AK++++ E ++ + ++A E ++ D S D++ D + IE Sbjct: 488 E---LAKEMDMPEDKIRKV-MKIA-KEPISMETPIGDDEDSHLGDFI---EDTNVESPIE 539 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 N + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 540 NTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 599 Query: 276 AFKKVQ 281 A +K++ Sbjct: 600 ALRKLR 605 >gi|54401878|gb|AAV34624.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 238 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 77/263 (29%), Positives = 126/263 (47%), Gaps = 34/263 (12%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 GEIG S P+L +E+ A+R GD+++ R++ S+LRLVVKIA Y Sbjct: 2 GEIGYS---------PLLTAEEKVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNR 51 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TA 130 GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 52 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIV 111 Query: 131 NQKRLFFNLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 + ++ R H + I + KP V+ +LN + S++ L GD Sbjct: 112 KELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGD 168 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 L +D+ + +D D Q V E +R +L R +L + Sbjct: 169 SEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------Y 222 Query: 244 EARRLQENPVTLENLSSEFEVSR 266 EA TLE++ E ++R Sbjct: 223 EA-------ATLEDVGREIGLTR 238 >gi|302877609|ref|YP_003846173.1| RNA polymerase, sigma 70 subunit, RpoD [Gallionella capsiferriformans ES-2] gi|302580398|gb|ADL54409.1| RNA polymerase, sigma 70 subunit, RpoD [Gallionella capsiferriformans ES-2] Length = 655 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 415 AKRDMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 474 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + ++ + I + +A+K+ + Sbjct: 475 IRQAITRSIADQARTIRIPV-----HMIETINKMNRISRQILQETGQEADAATLAEKMEM 529 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +E ++ + ++A E ++ D + S D++ D V IE ++ R+ Sbjct: 530 TEDKIHKI-LKIAK-EPISMETPVGDDDDSHLGDFI---EDSNTTVPIEAAVYESLRSAT 584 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L RE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 585 SDILDSLTQREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 639 >gi|240142885|ref|YP_002967398.1| putative RNA polymerase, sigma 70 (sigma D) factor [Methylobacterium extorquens AM1] gi|240012832|gb|ACS44057.1| putative RNA polymerase, sigma 70 (sigma D) factor [Methylobacterium extorquens AM1] Length = 531 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 128/241 (53%), Gaps = 13/241 (5%) Query: 44 HGDLSAA-HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 HGDL A LVTS+LRLV +A Y LPI ++V EGNIGLM+A++KFD RG++ + Sbjct: 285 HGDLRKARDTLVTSNLRLVFSVAKKYTNRPLPILDLVQEGNIGLMRAIEKFDYRRGWKFS 344 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++WWIK ++ I +++ ++K + R L+A P + +A Sbjct: 345 TYAIWWIKQSISRSIADHGRTIRLPVHLHEKAA--KIDRTAARLRAELGRPPSPPE-LAQ 401 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A ++V + E + R E+++ + + ++ D LV D + V + + Sbjct: 402 ALDIDVRQVERLMNMSR----ETVSLDLPVGEDGDVRFGD-LVEDEKAPDPVGL--ADLA 454 Query: 223 NRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ ++ ++ L RE+ I R + +TLE + F +SRERVRQ+E++A +++ Sbjct: 455 KLKDAVSDAVGDLPEREQTIIRMRFGIGYADQMTLEEIGQHFRISRERVRQVESKAIQRL 514 Query: 281 Q 281 + Sbjct: 515 R 515 >gi|1072017|gb|AAA81640.1| sigma factor [Mycobacterium bovis] gi|1072019|gb|AAA81641.1| sigma factor [Mycobacterium bovis] Length = 528 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 216 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 274 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 275 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 334 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 335 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 392 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 393 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 444 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 445 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 504 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 505 QIESKTMSKLRHPSRSQV 522 >gi|258653895|ref|YP_003203051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nakamurella multipartita DSM 44233] gi|258557120|gb|ACV80062.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nakamurella multipartita DSM 44233] Length = 448 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-------------YREHG---- 45 RK+ + + + + Y+ +I K+ +L +EE LAKR + E G Sbjct: 136 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVDLAKRIEAGLYSSERMRQFEEAGERLP 194 Query: 46 -----DLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 DL A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 195 NQMRRDLRWIKRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 254 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 255 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 312 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 313 EPTPEE---LAKEMDITPDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 364 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 365 VVAVDAVSFTLLQDQLQAVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 424 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 425 QIESKTMSKLRHPSRSQV 442 >gi|190892699|ref|YP_001979241.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|190697978|gb|ACE92063.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|327189666|gb|EGE56814.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CNPAF512] Length = 685 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 507 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 561 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 562 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETT 616 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 617 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671 >gi|108562514|ref|YP_626830.1| RNA polymerase sigma factor RpoD [Helicobacter pylori HPAG1] gi|107836287|gb|ABF84156.1| RNA polymerase sigma-80 factor [Helicobacter pylori HPAG1] Length = 692 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 453 AKNKMAQSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 512 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAI---TDNNLKPEQV-V 160 IK A+ I ++I + + R ++ H+Q D + E+V + Sbjct: 513 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGL 567 Query: 161 AIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++ K NV + E IS+ + D+ DKN D ++ Sbjct: 568 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM------------- 614 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 615 --REDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 672 Query: 276 AFKKVQ 281 A KK++ Sbjct: 673 AIKKLR 678 >gi|1072021|gb|AAA81642.1| sigma factor [Mycobacterium bovis] Length = 528 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 150/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 216 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 274 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 275 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 334 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 335 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 392 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 393 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 444 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 445 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 504 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K+ + QV Sbjct: 505 QIESKTMSKLHHPSRSQV 522 >gi|86358552|ref|YP_470444.1| RNA polymerase sigma factor RpoD [Rhizobium etli CFN 42] gi|86282654|gb|ABC91717.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN 42] Length = 685 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 507 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 561 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 562 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETT 616 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 617 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671 >gi|87301519|ref|ZP_01084359.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87283736|gb|EAQ75690.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 322 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 87/289 (30%), Positives = 141/289 (48%), Gaps = 39/289 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLA------KRYREHGDLS--------------AAHRLVTSHL 58 Y+ I ++P+L EE LA K E D S A R++ ++L Sbjct: 38 YLSNIGRVPLLTAAEEIELAHHVQAMKLLLELPDASLTPRQRHQIRMGGRARDRMMAANL 97 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV +A Y+ GL + ++V EG IGL +AV KFDP G++ +TY+ WWI+ M I Sbjct: 98 RLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAID 157 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESE-VI 174 S +++ ++K +RR+ H N L+ ++ A +++ + E +I Sbjct: 158 NSARTIRLPIHVSEK--LSKMRRITRELSHRFGRQPNRLE----LSHAMGMDIKDLEDLI 211 Query: 175 SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 S + A SL+A + S+ + L+ D E ++ +R ++ L +S Sbjct: 212 SQSAPCA---SLDAHARGEEDRSTLGE--LIADPASTEP--MDHMDRSIQKEHLGTWLSQ 264 Query: 235 LNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 LN RE+ I R E P+TL + + VSRERVRQ+EA+A K++ Sbjct: 265 LNEREQEILRLRFGLEGKEPLTLAEIGRKINVSRERVRQLEAKAIMKLR 313 >gi|320103437|ref|YP_004179028.1| RpoD subfamily RNA polymerase sigma-70 factor [Isosphaera pallida ATCC 43644] gi|319750719|gb|ADV62479.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Isosphaera pallida ATCC 43644] Length = 286 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 81/269 (30%), Positives = 135/269 (50%), Gaps = 23/269 (8%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L +EE LA+R GD SA R++ ++LRLV +A YRG GL ++V EGN+GL+ Sbjct: 32 LLTAEEERELARRVL-RGDASARRRMIEANLRLVAMVAARYRGLGLDWEDLVGEGNLGLI 90 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL-------R 140 +AV +DP+RG R +TY+ WI+ ++ V + TTA RL ++ R Sbjct: 91 RAVSSYDPDRGVRFSTYAAHWIRQTIR---------VALTTTAATIRLPAHMVTKLALWR 141 Query: 141 RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 R + L T N + +A +L S S +SM + + +++ S+ Sbjct: 142 RAEARL---TRNLGRSPTFEEVADELGWSSSTRLSMKRAMESGRVHHEEPGATEGRGSES 198 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENL 258 + + D + + E ER++ L RS+ L RER + R + P L + Sbjct: 199 RRPIDQAVDPRPEPAWEI-ERRDELLELRRSLQRLGERERLVLALRYGLGDIAPKPLREV 257 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ V+RE VR+IEARA +++ E ++ + Sbjct: 258 ATTLGVTREWVRRIEARALRQLHEEVEPE 286 >gi|167829080|ref|ZP_02460551.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia pseudomallei 9] Length = 285 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 46 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 105 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 106 IRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QILQETGLEPDPAT-LAEKMEM 160 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 161 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 215 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 216 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 270 >gi|118594360|ref|ZP_01551707.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] gi|118440138|gb|EAV46765.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] Length = 654 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 414 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 473 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + + R+ + T +P ++ Sbjct: 474 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQSTGQEPEPSELAEKMEMPEE 531 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +S+ E ISM + DE + D + D VY Sbjct: 532 KIRKILKISK-EPISMETPIGDDEDSHLGDFIEDVGTLTPDDAAVYG------------- 577 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 + R++ + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A + Sbjct: 578 --SLRSVTSEILEGLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALR 635 Query: 279 KVQ 281 K++ Sbjct: 636 KLR 638 >gi|91779751|ref|YP_554959.1| sigma 70 (RpoD) [Burkholderia xenovorans LB400] gi|91692411|gb|ABE35609.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia xenovorans LB400] Length = 647 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 126/255 (49%), Gaps = 12/255 (4%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L++ E A E L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+ Sbjct: 388 LDEFREVCRALSASEAKTLRAKGEMIEANLRLVISIAKRYTNRGLLFLDLIQEGNIGLMR 447 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV KF+ RG++ +TY+ WWI+ A+ I +++ + +L +LK + Sbjct: 448 AVDKFEYRRGYKFSTYATWWIRQAVSRSIADQARTIRVPV-----HMIESLNKLKRISRK 502 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 I +A+ + + E +V +M + SL+A + +D S D + Sbjct: 503 ILQETGNEPDAALLAQLMEMQEQKVRAMLRIVKEPVSLDASVGENDDTS--IGDLI---E 557 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSR 266 D + + R+ ++ ++ L PRE +I R E+ TLE L +FE++R Sbjct: 558 DSAAILPDDAALHAGMRDAISEALMTLTPREAKILRLRFGIESSRDHTLEELGEQFELTR 617 Query: 267 ERVRQIEARAFKKVQ 281 ER+RQIE +A +K++ Sbjct: 618 ERIRQIEVKALRKLR 632 >gi|257056422|ref|YP_003134254.1| RNA polymerase, sigma 70 subunit, RpoD [Saccharomonospora viridis DSM 43017] gi|256586294|gb|ACU97427.1| RNA polymerase, sigma 70 subunit, RpoD [Saccharomonospora viridis DSM 43017] Length = 439 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 84/320 (26%), Positives = 150/320 (46%), Gaps = 47/320 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL--------- 53 RK+ + + + + Y+ +I K+ +L +EE LAKR E G L AA RL Sbjct: 127 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRI-EAG-LYAAERLRIAEEEGEK 183 Query: 54 -----------------------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 + ++LRLVV +A Y G G+ +++ EGN+GL++AV Sbjct: 184 LSTQMRRDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAV 243 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 +KFD +GF+ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 244 EKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDL 301 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 PE+ +AK++++S +V+ + SL+ I D+ SQ D++ D Sbjct: 302 GREPTPEE---LAKEMDISPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDS 353 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRER 268 + V ++ ++ L + L+ RE + R P TL+ + + V+RER Sbjct: 354 EAVVAVDAVSFTLLQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRER 413 Query: 269 VRQIEARAFKKVQESIQKQV 288 +RQIE++ K++ + QV Sbjct: 414 IRQIESKTMSKLRHPSRSQV 433 >gi|217977790|ref|YP_002361937.1| RNA polymerase sigma factor RpoD [Methylocella silvestris BL2] gi|217503166|gb|ACK50575.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocella silvestris BL2] Length = 683 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 122/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 445 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 504 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 505 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIG-REPTPEE---LAE 555 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 556 KLAMPLEKVRKV-LKIAK-EPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNL 610 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 611 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 669 >gi|111018672|ref|YP_701644.1| sigma factor, sigma 70 type, group 2 [Rhodococcus jostii RHA1] gi|110818202|gb|ABG93486.1| sigma factor, sigma 70 type, probable group 2 [Rhodococcus jostii RHA1] Length = 520 Score = 96.3 bits (238), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 68/239 (28%), Positives = 121/239 (50%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R + ++LRLVV IA Y+G GL + ++V EGN+GL++AV+KFD + GF+ +TY+ WW Sbjct: 283 AKRRFLEANLRLVVSIARRYQGRGLDLLDLVQEGNLGLIRAVEKFDYKTGFKFSTYATWW 342 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++I ++ L + + L T P + +A L+ Sbjct: 343 IRQAITRALADQSRVIRIPVHMVEQ--IDQLGKERARLTKETGREPTPSE---LATALDT 397 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + + SL+ L ++++ + ++D L + EE RR Sbjct: 398 TIEHIGDLEKYDQRVLSLDVLTDNAEHDGLDFEDDLA----------VVAEEVAERRRFY 447 Query: 229 TRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 SVL+P R + RL+ +P TL+ + + V+RER+RQIE++ K ++E Sbjct: 448 ETLESVLSPLSERDAQVIRLRYGLTGSDPYTLDEIGKIYGVTRERIRQIESKLLKAMKE 506 >gi|144616|gb|AAA23168.1| sigma-A protein (sigA) [Chlamydia muridarum] Length = 571 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 77/246 (31%), Positives = 116/246 (47%), Gaps = 28/246 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKQEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ + + Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LGE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + V + SL A + D S + D+L E +E Sbjct: 428 ELGFTPDRVREIYKIAQHPISLQAEVG--DSGESSFGDFL-------EDTAVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKKVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESI 284 K++ I Sbjct: 539 KMRHPI 544 >gi|325293528|ref|YP_004279392.1| RNA polymerase sigma factor RpoD [Agrobacterium sp. H13-3] gi|325061381|gb|ADY65072.1| RNA polymerase sigma factor RpoD [Agrobacterium sp. H13-3] Length = 684 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 83/276 (30%), Positives = 138/276 (50%), Gaps = 27/276 (9%) Query: 10 VNGEIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Sbjct: 418 LSTETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKK 464 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 465 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI- 523 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 524 -PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPIS 577 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 578 LETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRF 634 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 635 GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 670 >gi|254710518|ref|ZP_05172329.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94] gi|256032011|ref|ZP_05445625.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1] gi|261318089|ref|ZP_05957286.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94] gi|265989123|ref|ZP_06101680.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1] gi|261297312|gb|EEY00809.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94] gi|264661320|gb|EEZ31581.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1] Length = 672 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 123/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 434 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 493 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 494 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIG-REPTPEE---LAE 544 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 545 KLAMPLEKVRKV-LKIAK-EPISLETPVGDEEDSLLGDFI---EDKNALLPIDAAIQANL 599 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+ TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 RDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 658 >gi|167842198|ref|ZP_02468882.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis MSMB43] Length = 680 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDSNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|329890710|ref|ZP_08269053.1| RNA polymerase sigma factor rpoD [Brevundimonas diminuta ATCC 11568] gi|328846011|gb|EGF95575.1| RNA polymerase sigma factor rpoD [Brevundimonas diminuta ATCC 11568] Length = 640 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 402 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 461 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + + PE+ +A++L + Sbjct: 462 IRQAITRSIADQARTIRI--PVHMIETINKIVRTQRQMLHEIGREATPEE---LAERLAM 516 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 517 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 571 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 572 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 626 >gi|296159636|ref|ZP_06842459.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295890080|gb|EFG69875.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 680 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|91777317|ref|YP_552525.1| RNA polymerase sigma factor RpoD [Burkholderia xenovorans LB400] gi|91689977|gb|ABE33175.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia xenovorans LB400] Length = 680 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|134292973|ref|YP_001116709.1| RNA polymerase sigma factor RpoD [Burkholderia vietnamiensis G4] gi|134136130|gb|ABO57244.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia vietnamiensis G4] Length = 809 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 525 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 584 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 585 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 644 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 645 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIA-K 697 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 698 EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 754 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 755 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 794 >gi|116253144|ref|YP_768982.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. viciae 3841] gi|115257792|emb|CAK08890.1| putative RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. viciae 3841] Length = 685 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 507 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 561 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 562 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETT 616 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 617 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671 >gi|90418027|ref|ZP_01225939.1| DNA-directed RNA polymerase major sigma factor [Aurantimonas manganoxydans SI85-9A1] gi|90337699|gb|EAS51350.1| DNA-directed RNA polymerase major sigma factor [Aurantimonas manganoxydans SI85-9A1] Length = 668 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 430 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 489 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 490 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 544 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 545 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNAILPIDAAIQGNLRETT 599 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 600 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 654 >gi|172062815|ref|YP_001810466.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria MC40-6] gi|171995332|gb|ACB66250.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria MC40-6] Length = 805 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 521 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 580 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 581 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 640 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 641 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIA-K 693 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 694 EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 750 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 751 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 790 >gi|159903877|ref|YP_001551221.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159889053|gb|ABX09267.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9211] Length = 313 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 79/298 (26%), Positives = 150/298 (50%), Gaps = 36/298 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLS-------------------AA 50 +S Y+ I ++P+L EE L + + E G + A Sbjct: 20 ISWYLSTIGRVPLLTPAEEIELGNQVQVMMNLTEDGSIDVKSEEFTSHQRRLIRIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ +R++ L P + +A+ + + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LATIRKISSDLAH--KLGAMPSR-AELAEAMEIDA 194 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S+ + SL+A +N D S + L+ D +E ++K E++ + L R Sbjct: 195 EELDSILRQALTTSSLDAPVNGDDGRS--FLGDLIADSSLEEP--LDKVEQRIHQEQLGR 250 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L+ +E+ + + R L+ N TL + +VSRERVRQ+E ++ +K++ +K Sbjct: 251 WLTHLSEQEQHVLKLRFGLEGNERHTLAEIGRLLQVSRERVRQVELKSLRKLRNLTRK 308 >gi|323137010|ref|ZP_08072090.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocystis sp. ATCC 49242] gi|322397771|gb|EFY00293.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocystis sp. ATCC 49242] Length = 670 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 432 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +++KL + Sbjct: 492 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LSEKLAM 546 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + IE + N R Sbjct: 547 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIEAAIQSNLRETT 601 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 602 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 656 >gi|319441597|ref|ZP_07990753.1| RNA polymerase sigma factor [Corynebacterium variabile DSM 44702] Length = 536 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 155/318 (48%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRY-------------REHG---- 45 RK+ + + + + Y+ +I K+ +L ++E LAKR +E G Sbjct: 224 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATYKMEQIKESGEKVS 282 Query: 46 -----DL--------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 DL A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 283 PMQKRDLREIDRDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 342 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 343 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 400 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++E +V+ + SL+ I D+ SQ D++ D + Sbjct: 401 EPTPEE---LAKEMDITEDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 452 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVR 270 + ++ ++ L + L+ RE + + R L + P TL+ + + V+RER+R Sbjct: 453 VIAVDAVSFTLLQDQLQDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIR 512 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 513 QIESKTMSKLRHPSRSQV 530 >gi|330836587|ref|YP_004411228.1| RNA polymerase, sigma 70 subunit, RpoD [Spirochaeta coccoides DSM 17374] gi|329748490|gb|AEC01846.1| RNA polymerase, sigma 70 subunit, RpoD [Spirochaeta coccoides DSM 17374] Length = 685 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/248 (28%), Positives = 125/248 (50%), Gaps = 38/248 (15%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A RL ++LRLVV IA Y GLP +++V EGNIGL++AV+KF+ + F+ +TY+ W Sbjct: 448 AAKDRLTQANLRLVVSIAKKYTNRGLPFNDLVQEGNIGLIKAVEKFEFRKNFKFSTYATW 507 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + + ++K A+ + + IAKKL Sbjct: 508 WIRQAITRAISDQGRTIRVPV-----HMIEQINKVKKEENALIQSLGRNPTDEEIAKKLG 562 Query: 168 VSESEV----------ISMNCRLAGDES--LNALINSSD-KNSSQWQDWLVYDHDGQEQV 214 E +V IS+ + +E L+ I D +N + +++ QEQ Sbjct: 563 WPEEKVKGVKNVAREPISLETPVGEEEDSLLSDFIEDKDAENPASQTSYMLL----QEQ- 617 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQI 272 L + ++ L PRE+ + + R ++ +TLE + F+V+RER+RQI Sbjct: 618 -------------LQKELATLPPREKDVLKMRFGLDDGFALTLEEVGLSFKVTRERIRQI 664 Query: 273 EARAFKKV 280 EA++ +++ Sbjct: 665 EAKSLRRM 672 >gi|320531403|ref|ZP_08032370.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 171 str. F0337] gi|320136375|gb|EFW28356.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 171 str. F0337] Length = 537 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 84/310 (27%), Positives = 141/310 (45%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH------GDLSAAHR--------------- 52 Y+ +I K+ +L ++E LAKR Y EH DL A R Sbjct: 243 YLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEKGNDLPAKLRRELHWVAQDGQRAKN 302 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 303 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQ 362 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 363 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKVVEV 422 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 423 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 468 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 469 -------LHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 521 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 522 KLRHPSRSQV 531 >gi|17546934|ref|NP_520336.1| RNA polymerase sigma factor RpoD [Ralstonia solanacearum GMI1000] gi|17429234|emb|CAD15922.1| probable rna polymerase sigma d (sigma-70) factor transcription regulator protein [Ralstonia solanacearum GMI1000] Length = 755 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 516 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 575 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 576 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 630 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 631 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 685 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 686 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 740 >gi|115358008|ref|YP_775146.1| RNA polymerase sigma factor RpoD [Burkholderia ambifaria AMMD] gi|115283296|gb|ABI88812.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria AMMD] Length = 805 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 566 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 625 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 626 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 680 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 681 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 735 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 736 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 790 >gi|256830224|ref|YP_003158952.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfomicrobium baculatum DSM 4028] gi|256579400|gb|ACU90536.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfomicrobium baculatum DSM 4028] Length = 588 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 74/252 (29%), Positives = 126/252 (50%), Gaps = 30/252 (11%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 348 LDAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 407 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV------ 160 WWI+ A+ I ++I + L R +L + PE++ Sbjct: 408 WWIRQAITRAIADQARTIRI--PVHMIETINKLVRTSRYLVQELGRDPSPEEIAERMDYP 465 Query: 161 --AIAKKLNVSESEVISMNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIE 217 + K L +++ E IS+ + GDE ++L + DK + D +V ++ Sbjct: 466 LEKVKKVLKIAK-EPISLETPI-GDEEDSSLGDFIEDKKAVAPADEVVNTKLAEQ----- 518 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + + +S L PRE ++ R +++ TLE + F V+RER+RQIEA+ Sbjct: 519 ----------IAQVLSDLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAK 568 Query: 276 AFKKVQESIQKQ 287 A +K++ ++ Q Sbjct: 569 ALRKLRHPVRSQ 580 >gi|254419911|ref|ZP_05033635.1| Sigma-70 region 3 family [Brevundimonas sp. BAL3] gi|196186088|gb|EDX81064.1| Sigma-70 region 3 family [Brevundimonas sp. BAL3] Length = 648 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 122/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 410 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 469 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I PE+ +A+ Sbjct: 470 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEI-GREPTPEE---LAE 520 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + I+ + N Sbjct: 521 KLAMPLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNL 575 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 576 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 634 >gi|87307035|ref|ZP_01089181.1| RNA polymerase sigma factor rpoD [Blastopirellula marina DSM 3645] gi|87290408|gb|EAQ82296.1| RNA polymerase sigma factor rpoD [Blastopirellula marina DSM 3645] Length = 519 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 77/246 (31%), Positives = 122/246 (49%), Gaps = 22/246 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L +LRLVV IA YR GL +++ EGN GLM+AV KF+ RGF+ TY+ WW Sbjct: 282 AKRELSEGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRAVDKFEYRRGFKFCTYATWW 341 Query: 109 IKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 I+ A+ + ++I T + + + L + KG + + + V A Sbjct: 342 IRQAITRAVADQSRTIRIPVHMVETMSRVRNVARQLLQEKGREPTLEETARRAGTTVEEA 401 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +++ IS++ R G NS D SQ+ D L DG+ + ++ Sbjct: 402 RRVLAMSRYPISLD-RPVG--------NSED---SQFGDLL---PDGEAESPAIGAAQEM 446 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++R + L+ RER I + R + TLE + F+V+RER+RQIEA+A +K+Q Sbjct: 447 LRTRISRVLKTLSYREREIIKLRYGLGDGYSYTLEEVGHIFKVTRERIRQIEAKAVRKLQ 506 Query: 282 ESIQKQ 287 + + Q Sbjct: 507 QPSRSQ 512 >gi|330821204|ref|YP_004350066.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia gladioli BSR3] gi|327373199|gb|AEA64554.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia gladioli BSR3] Length = 805 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 566 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 625 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 626 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 680 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 681 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDSNTVAPADAALHASMRDVV 735 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 736 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 790 >gi|149200222|ref|ZP_01877244.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149136664|gb|EDM25095.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 279 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 76/273 (27%), Positives = 137/273 (50%), Gaps = 29/273 (10%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ I +P++ ++E LAK E G A +L+ ++L+LVVKIA Y+ G+P++++ Sbjct: 11 YMQSIATLPLVSVEDEIELAKLI-EAGSEDAREKLIIANLKLVVKIAHDYKSLGVPLADL 69 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 +SEGNIGLM+AV+KF P G + ++Y WWIK A++ + +++I + K Sbjct: 70 ISEGNIGLMKAVEKFRPGHGAKFSSYGAWWIKQAIRRAVAEQGRVIRIPVQSAVK----- 124 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN-CRLAGDESLNALINSSDKNS 197 +R++ + + + + +A+ S V M+ A SLN + + ++ Sbjct: 125 IRKIHHEAMLLAEKLGRVPSMEEVAEATGFSVRSVRGMSVASTAPAVSLNTTLKTGEEGV 184 Query: 198 SQ--WQDWLV------YDHDGQEQVLIEKEERK--NRRNMLTRSMSVLNPRERRIFEARR 247 + D L+ + +QVL+E + K R M+ + L+ +++ Sbjct: 185 LEDVIPDTLLKLPGDNMNETDVKQVLLEVIDSKLTEREQMIIKMRYGLDGHQQK------ 238 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 TLE LS +RERVRQI+ +A +K+ Sbjct: 239 ------TLEELSDMVGRTRERVRQIQYQALRKL 265 >gi|28198503|ref|NP_778817.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa Temecula1] gi|182681181|ref|YP_001829341.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa M23] gi|28056587|gb|AAO28466.1| RNA polymerase sigma-70 factor [Xylella fastidiosa Temecula1] gi|182631291|gb|ACB92067.1| RNA polymerase, sigma 70 subunit, RpoD [Xylella fastidiosa M23] Length = 623 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 120/253 (47%), Gaps = 32/253 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ Sbjct: 376 YGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFK 435 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + L R+ + PE+ Sbjct: 436 FSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPEE-- 491 Query: 161 AIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 +AK++++ E ++ ISM + DE S D++ D Sbjct: 492 -LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI---EDP 535 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRER 268 + ++ N + ++ L PRE ++ R + N TLE + +F+V+RER Sbjct: 536 NVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 595 Query: 269 VRQIEARAFKKVQ 281 +RQIEA+A +K++ Sbjct: 596 IRQIEAKALRKLR 608 >gi|222086540|ref|YP_002545074.1| RNA polymerase sigma factor protein (sigma-70) [Agrobacterium radiobacter K84] gi|221723988|gb|ACM27144.1| RNA polymerase sigma factor protein (sigma-70) [Agrobacterium radiobacter K84] Length = 687 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 449 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 508 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 509 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 563 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 564 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETT 618 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 619 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 673 >gi|187929499|ref|YP_001899986.1| RNA polymerase sigma factor RpoD [Ralstonia pickettii 12J] gi|187726389|gb|ACD27554.1| RNA polymerase, sigma 70 subunit, RpoD [Ralstonia pickettii 12J] Length = 829 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 590 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 649 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 650 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 704 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 705 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 759 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 760 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 814 >gi|1765926|emb|CAA70052.1| RNA polymerase sigma-70 subunit [Rhizobium etli] Length = 685 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 507 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 561 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 562 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETT 616 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 617 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671 >gi|71274854|ref|ZP_00651142.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Dixon] gi|71902125|ref|ZP_00684157.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] gi|170729898|ref|YP_001775331.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa M12] gi|71164586|gb|EAO14300.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Dixon] gi|71728114|gb|EAO30313.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] gi|167964691|gb|ACA11701.1| RNA polymerase sigma-70 factor [Xylella fastidiosa M12] Length = 623 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 120/253 (47%), Gaps = 32/253 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ Sbjct: 376 YGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFK 435 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + L R+ + PE+ Sbjct: 436 FSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPEE-- 491 Query: 161 AIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 +AK++++ E ++ ISM + DE S D++ D Sbjct: 492 -LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI---EDP 535 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRER 268 + ++ N + ++ L PRE ++ R + N TLE + +F+V+RER Sbjct: 536 NVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 595 Query: 269 VRQIEARAFKKVQ 281 +RQIEA+A +K++ Sbjct: 596 IRQIEAKALRKLR 608 >gi|309781724|ref|ZP_07676457.1| RNA polymerase sigma factor RpoD [Ralstonia sp. 5_7_47FAA] gi|308919365|gb|EFP65029.1| RNA polymerase sigma factor RpoD [Ralstonia sp. 5_7_47FAA] Length = 821 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 582 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 641 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 642 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 696 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 697 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 751 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 752 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 806 >gi|294055048|ref|YP_003548706.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] gi|293614381|gb|ADE54536.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] Length = 639 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 75/244 (30%), Positives = 118/244 (48%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 381 AKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N QK+L L + + NL E+V Sbjct: 441 IRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQELGHEPTAEEVADEMNLPIERV 500 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +I K + IS+ + + N DK + D Y +L EK Sbjct: 501 QSIMKMAQ----QPISLQSPVGDSDDTNFGDFIEDKGAENPYDMTAY------SLLREK- 549 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAF 277 +T + L RERR+ R + TLE + +F+V+RER+RQIEA+A Sbjct: 550 --------ITDVLDSLTERERRVLSLRFGLADGYSRTLEEVGRQFKVTRERIRQIEAKAL 601 Query: 278 KKVQ 281 +K++ Sbjct: 602 RKMR 605 >gi|209550278|ref|YP_002282195.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209536034|gb|ACI55969.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 685 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 507 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 561 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 562 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETT 616 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 617 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671 >gi|150007022|ref|YP_001301765.1| RNA polymerase sigma factor rpoD [Parabacteroides distasonis ATCC 8503] gi|154495210|ref|ZP_02034215.1| hypothetical protein PARMER_04266 [Parabacteroides merdae ATCC 43184] gi|218256952|ref|ZP_03474423.1| hypothetical protein PRABACTJOHN_00076 [Parabacteroides johnsonii DSM 18315] gi|255015941|ref|ZP_05288067.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_1_7] gi|256841904|ref|ZP_05547409.1| RNA polymerase sigma factor RpoS [Parabacteroides sp. D13] gi|262384222|ref|ZP_06077357.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_1_33B] gi|298377447|ref|ZP_06987400.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_19] gi|301308863|ref|ZP_07214815.1| RNA polymerase sigma-70 factor [Bacteroides sp. 20_3] gi|149935446|gb|ABR42143.1| RNA polymerase sigma factor rpoD [Parabacteroides distasonis ATCC 8503] gi|154085357|gb|EDN84402.1| hypothetical protein PARMER_04266 [Parabacteroides merdae ATCC 43184] gi|218225859|gb|EEC98509.1| hypothetical protein PRABACTJOHN_00076 [Parabacteroides johnsonii DSM 18315] gi|256736220|gb|EEU49549.1| RNA polymerase sigma factor RpoS [Parabacteroides sp. D13] gi|262293925|gb|EEY81858.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_1_33B] gi|298265861|gb|EFI07521.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_19] gi|300833387|gb|EFK64005.1| RNA polymerase sigma-70 factor [Bacteroides sp. 20_3] Length = 286 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 76/278 (27%), Positives = 149/278 (53%), Gaps = 20/278 (7%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y+ EI + ++ +EE LA+ + GD A +L ++LR VV +A Y+ GL + Sbjct: 18 LDKYLQEIGREDLITVEEEVELAQAIK-RGDRRALEKLTRANLRFVVSVAKQYQNQGLSL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++EGN+GL++A +KFD RGF+ +Y++WWI+ ++ + + +V++ NQ Sbjct: 77 PDLINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL--PLNQVGS 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSD 194 + + + + PE+ +A +L++ + IS +++G S++A + Sbjct: 135 LNKISKAFSKFEQENERRPSPEE---LADELDIP-VDKISDTLKVSGRHISVDAPFVEGE 190 Query: 195 KNSSQWQDWLVYDHDG-QEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQE 250 NS D LV D ++ L+ + K + R+++ L RE I F QE Sbjct: 191 DNS--LLDVLVNDDAPIADRSLMNESLAKE----IDRALATLTERECEIIKMFFGIGCQE 244 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +TLE + +F ++RERVRQI+ +A +++++ + ++ Sbjct: 245 --MTLEEIGDKFGLTRERVRQIKEKAIRRLRQGTRSKL 280 >gi|329114160|ref|ZP_08242922.1| RNA polymerase sigma factor RpoD [Acetobacter pomorum DM001] gi|326696236|gb|EGE47915.1| RNA polymerase sigma factor RpoD [Acetobacter pomorum DM001] Length = 672 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 75/258 (29%), Positives = 126/258 (48%), Gaps = 13/258 (5%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ E + Y R E A ++ ++LRLV+ IA Y GL +++ EGNIG Sbjct: 411 LPIGEFRRVYATVARG-ERDSARAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 469 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R Sbjct: 470 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQ 527 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + PE+ +A+KL + +V + ++A E ++ D+ S D++ Sbjct: 528 MLHEIGREPAPEE---LAEKLGMPLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI- 581 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFE 263 D + ++ + N R TR ++ L PRE R+ R TLE + +F Sbjct: 582 --EDKTAIIPLDAAIQTNLREATTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFN 639 Query: 264 VSRERVRQIEARAFKKVQ 281 V+RER+RQIEA+A +K++ Sbjct: 640 VTRERIRQIEAKALRKLK 657 >gi|325518128|gb|EGC97914.1| RNA polymerase sigma factor RpoD [Burkholderia sp. TJI49] Length = 682 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 398 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 457 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 458 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 517 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 518 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIAK- 570 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 571 EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 627 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 628 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 667 >gi|241663618|ref|YP_002981978.1| RNA polymerase sigma factor RpoD [Ralstonia pickettii 12D] gi|240865645|gb|ACS63306.1| RNA polymerase, sigma 70 subunit, RpoD [Ralstonia pickettii 12D] Length = 821 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 582 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 641 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 642 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 696 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 697 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 751 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 752 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 806 >gi|319408880|emb|CBI82537.1| RNA polymerase sigma factor [Bartonella schoenbuchensis R1] Length = 667 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMVEANLRLVISIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ ++ KL++ Sbjct: 489 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILHEIGREPTPEE---LSSKLSM 543 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D++ S D++ D + I+ + N R+ Sbjct: 544 PLEKVRKV-LKIAK-EPISLETPVGDEDDSHLGDFI---EDRNALLPIDAAIQANLRDTT 598 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 653 >gi|161521349|ref|YP_001584776.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans ATCC 17616] gi|189352484|ref|YP_001948111.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans ATCC 17616] gi|160345399|gb|ABX18484.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia multivorans ATCC 17616] gi|189336506|dbj|BAG45575.1| RNA polymerase primary sigma factor [Burkholderia multivorans ATCC 17616] Length = 804 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 520 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 579 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 580 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 639 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 640 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIA-K 692 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 693 EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 749 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 750 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 789 >gi|33240031|ref|NP_874973.1| putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33237557|gb|AAP99625.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 310 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 81/307 (26%), Positives = 138/307 (44%), Gaps = 53/307 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAK----------RYREHGDLSA---------------- 49 LS ++ EI + P+L +EE + + R GD A Sbjct: 4 LSDFLGEIGRHPLLTPEEELTMGRKVQAMVGLIERCHRAGDQGADCVYTEAERRTIKIGE 63 Query: 50 --AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 + ++T++LRLVV +A Y+G GL + +++ EG IGL +AV+K+DP+RG R +TY+ W Sbjct: 64 KAKNHMITANLRLVVNLAKKYQGKGLDLLDLIQEGTIGLTRAVEKYDPKRGHRFSTYAYW 123 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ + + ++I N+K L +L+ + P +AKKL+ Sbjct: 124 WIRQGLNRALSTQSRTIRIPVNINEK-----LTKLRAAKSELMQEYGTPPSAEQLAKKLS 178 Query: 168 VS--------ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 VS E E+ S+ L G + S + S+ D L D ++ E Sbjct: 179 VSKQIIGDLLECEMRSITVSLQG-------VIQSKTDPSELGDVLPSDEIPPMELAELAE 231 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARA 276 + ++L ++ L P+ER I R + TL ++ SRE RQ+ RA Sbjct: 232 RNDSAWSLLNKAN--LTPKERTIVSLRFGLDGTNEWRTLAEVAKHMNCSREYCRQVVQRA 289 Query: 277 FKKVQES 283 +K++++ Sbjct: 290 LRKLRKT 296 >gi|328474970|gb|EGF45764.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 220] Length = 346 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 47/108 (43%), Positives = 69/108 (63%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRI 214 >gi|315122849|ref|YP_004063338.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313496251|gb|ADR52850.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 683 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 77/240 (32%), Positives = 119/240 (49%), Gaps = 22/240 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ +A Y GL +++ EGNIGLM+AV+KFD G++ +TY MWW Sbjct: 445 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAVEKFDWCLGYKFSTYGMWW 504 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIA 163 +K A+ I ++I T N ++ RR+ N +K E IA Sbjct: 505 VKQAVTRSIADQSRTIRIPVHMIETIN--KVVRTARRMS--------NTIKREPTPDEIA 554 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 KKL + V + SL I D+++S D++ D ++ + N Sbjct: 555 KKLAMPLERVQKVLKITKEPISLETPIG--DEDTSHLGDFI---EDKNAVSPVDSAIQAN 609 Query: 224 RRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 610 LRENTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 669 >gi|4128212|gb|AAD03549.1| principal sigma factor [Burkholderia cepacia] Length = 621 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QILQETGLEPDPAT-LAEKMEM 496 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 497 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 551 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 552 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 606 >gi|30248253|ref|NP_840323.1| RNA polymerase sigma factor RpoD [Nitrosomonas europaea ATCC 19718] gi|30180138|emb|CAD84140.1| DNA-dependent RNA polymerase sigma subunits (sigma70/32) [Nitrosomonas europaea ATCC 19718] Length = 751 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 117/245 (47%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 510 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 569 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +PE V +A+K+ + Sbjct: 570 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGQEPEPAV-LAEKMEM 624 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE + D ++ + D VY Sbjct: 625 PEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDASTMEPADAAVY------------ 672 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 R + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 673 ---AGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERIRQIEAKA 729 Query: 277 FKKVQ 281 +K++ Sbjct: 730 LRKLR 734 >gi|71899844|ref|ZP_00681993.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] gi|71730361|gb|EAO32443.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] Length = 623 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 120/253 (47%), Gaps = 32/253 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ Sbjct: 376 YGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFK 435 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + L R+ + PE+ Sbjct: 436 FSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPEE-- 491 Query: 161 AIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 +AK++++ E ++ ISM + DE S D++ D Sbjct: 492 -LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI---EDP 535 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRER 268 + ++ N + ++ L PRE ++ R + N TLE + +F+V+RER Sbjct: 536 NVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 595 Query: 269 VRQIEARAFKKVQ 281 +RQIEA+A +K++ Sbjct: 596 IRQIEAKALRKLR 608 >gi|23013315|ref|ZP_00053224.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 333 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 81/274 (29%), Positives = 135/274 (49%), Gaps = 23/274 (8%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++GE GL I E R+I ++ E RE A ++ ++LRLV+ IA Y Sbjct: 67 ISGEAGLP--ISEYRRIVQTVQRGE-------RESS--RAKKEMIEANLRLVISIAKKYT 115 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 116 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--P 173 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R + PE+ +A+KL++ +V + ++A E ++ Sbjct: 174 VHMIETINKLVRTSRQMLHEIGREPTPEE---LAEKLSMPLEKVRKV-LKIA-KEPISLE 228 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 D+ S D++ D + ++ + N R TR ++ L PRE R+ R Sbjct: 229 TPIGDEEDSHLGDFI---EDKNAVLPLDAAIQANLRETTTRVLASLTPREERVLRMRFGI 285 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 286 GMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 319 >gi|162450883|ref|YP_001613250.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161161465|emb|CAN92770.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 463 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 119/238 (50%), Gaps = 15/238 (6%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V ++LRLV A R G+P+ +++ EGN+GL++A +KFD RG+R +TY+MWWIK A+ Sbjct: 231 VRANLRLVAAAARQLRHRGVPLLDLIQEGNLGLIRAAEKFDYRRGYRFSTYAMWWIKQAL 290 Query: 114 QEYILRSWSLVKIGT-TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +L ++++ A +R RR L+ PE+V A++ +S + Sbjct: 291 SRALLYQGQVIRVPVHIAETRRRALQARR---ELEQEHAREAAPEEV---AERSGLSMEK 344 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + ++ L+A + D + ++ D+ + +++L+ + +L Sbjct: 345 LQALREMALPPVYLDAPVG--DDDGARQGDFFASEGAAPDELLVHRRLHAQVSALL---- 398 Query: 233 SVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L PRER + R + P TL + F VSRERVRQIE A K++ ++Q Sbjct: 399 ESLTPRERDVLRLRFGLDGGQPHTLAEIGGMFSVSRERVRQIEESALSKLRTLSRRQA 456 >gi|319782038|ref|YP_004141514.1| RNA polymerase sigma factor RpoD [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317167926|gb|ADV11464.1| RNA polymerase sigma factor RpoD [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 673 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 435 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 494 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 495 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 549 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 550 PLEKVRKV-LKIAK-EPISLETPVGDEEDSHLGDFI---EDKMAILPIDAAIQANLRETT 604 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 605 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 659 >gi|182680201|ref|YP_001834347.1| RNA polymerase sigma factor RpoD [Beijerinckia indica subsp. indica ATCC 9039] gi|182636084|gb|ACB96858.1| RNA polymerase, sigma 70 subunit, RpoD family [Beijerinckia indica subsp. indica ATCC 9039] Length = 685 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 507 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 561 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 562 PLEKVRKV-LKIAK-EPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 616 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 617 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671 >gi|167583913|ref|ZP_02376301.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ubonensis Bu] Length = 681 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 397 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 456 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 457 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 516 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 517 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIAK- 569 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 570 EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 626 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 627 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 666 >gi|15618665|ref|NP_224951.1| RNA polymerase sigma factor [Chlamydophila pneumoniae CWL029] gi|15836289|ref|NP_300813.1| RNA polymerase sigma factor [Chlamydophila pneumoniae J138] gi|33242115|ref|NP_877056.1| RNA polymerase sigma factor [Chlamydophila pneumoniae TW-183] gi|6831651|sp|Q9Z7F0|RPOD_CHLPN RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Sigma-66; AltName: Full=Sigma-70 gi|4377063|gb|AAD18894.1| RNA Polymerase Sigma-66 [Chlamydophila pneumoniae CWL029] gi|8979129|dbj|BAA98964.1| RNA polymerase sigma-66 [Chlamydophila pneumoniae J138] gi|33236625|gb|AAP98713.1| sigma factor 70 [Chlamydophila pneumoniae TW-183] Length = 572 Score = 95.9 bits (237), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 428 ELGLTPDRVREIYKIAQHPISLQAEVGEGSESS--FGDFL-------EDTAVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|222149282|ref|YP_002550239.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis S4] gi|221736266|gb|ACM37229.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis S4] Length = 681 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 83/273 (30%), Positives = 136/273 (49%), Gaps = 27/273 (9%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 418 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 464 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 465 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PV 522 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 523 HMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPISLET 577 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 578 PVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIG 634 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 635 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 667 >gi|167648221|ref|YP_001685884.1| RNA polymerase sigma factor RpoD [Caulobacter sp. K31] gi|167350651|gb|ABZ73386.1| RNA polymerase, sigma 70 subunit, RpoD [Caulobacter sp. K31] Length = 649 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 411 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 470 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 471 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 525 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 526 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 580 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 581 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 635 >gi|16752284|ref|NP_445653.1| RNA polymerase sigma factor [Chlamydophila pneumoniae AR39] gi|7190028|gb|AAF38883.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pneumoniae AR39] Length = 591 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 336 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 395 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 396 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 446 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 447 ELGLTPDRVREIYKIAQHPISLQAEVGEGSESS--FGDFL-------EDTAVESPAEATG 497 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 498 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 557 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 558 KMRHPIR 564 >gi|158313089|ref|YP_001505597.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158108494|gb|ABW10691.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec] Length = 423 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 87/294 (29%), Positives = 137/294 (46%), Gaps = 60/294 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH---------GDL------------SAAHR 52 Y+ EI K+P+L +E L+KR + EH DL +A + Sbjct: 130 YLREIGKVPLLNAAQEVELSKRVEAGLFAEHKLDTDQDLADDLRRDLGVLVTDGQAAKQQ 189 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 190 LVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWWIRQA 249 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I T Q++L L R + + ++ EQVV Sbjct: 250 IGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQVV--- 306 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + +S+ + GD L I SD S D Y G Q I+ Sbjct: 307 -ELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSP--ADAASY---GAMQDEID---- 356 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 N+L LNPRER + R L + TL + + ++RER+RQIE Sbjct: 357 ----NVL----GALNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIE 402 >gi|313893234|ref|ZP_07826811.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 158 str. F0412] gi|313442587|gb|EFR61002.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 158 str. F0412] Length = 386 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 80/291 (27%), Positives = 139/291 (47%), Gaps = 37/291 (12%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-----------LVTSHL 58 VN + + Y+ EI ++P+L EE VLAK+ A ++ LV ++L Sbjct: 100 VNIDDPVRMYLKEIGRVPLLSADEEIVLAKQIEAGAAEDATYKDIQLAKKAKKKLVDANL 159 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV IA Y G G+ +++ EGN+GL++AV KFD +G++ +TY+ WWI+ A+ I Sbjct: 160 RLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIA 219 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-------VAIAKKLNVSES 171 ++I + L R+ L PE++ V +++ Sbjct: 220 DQARTIRI--PVHMVETINKLIRISRQLLQDKGREPLPEEIAEGMGITVERVREIQKIAQ 277 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 E +S+ + +E +S + + QD + D D +L++++ + Sbjct: 278 EPVSLETPIGEEE------DSHLGDFIEDQDAIAPD-DAASYILLQEQ--------IEDV 322 Query: 232 MSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L RE+++ R L++ P TLE + F V+RER+RQIE +A K+ Sbjct: 323 FTCLTDREQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKL 373 >gi|295690890|ref|YP_003594583.1| RNA polymerase sigma 70 factor subunit RpoD [Caulobacter segnis ATCC 21756] gi|295432793|gb|ADG11965.1| RNA polymerase, sigma 70 subunit, RpoD [Caulobacter segnis ATCC 21756] Length = 652 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 414 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 473 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 474 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 528 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 529 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 583 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 584 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 638 >gi|170699447|ref|ZP_02890491.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria IOP40-10] gi|170135647|gb|EDT03931.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria IOP40-10] Length = 683 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 444 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 503 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 504 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 558 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 559 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 613 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 614 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 668 >gi|312795733|ref|YP_004028655.1| RNA polymerase sigma factor rpoD [Burkholderia rhizoxinica HKI 454] gi|312167508|emb|CBW74511.1| RNA polymerase sigma factor rpoD [Burkholderia rhizoxinica HKI 454] Length = 778 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 539 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 598 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 599 IRQAITRSIADQARTIRI--PVHMIETINKMNRIS--RQILQETGLEPDPAT-LAEKMEM 653 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 654 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 708 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 709 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 763 >gi|186472768|ref|YP_001860110.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] gi|184195100|gb|ACC73064.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] Length = 685 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 446 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 506 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 560 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D N+ D ++ Sbjct: 561 PEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTVAPSDAALH------------ 608 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 609 ---ASMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 665 Query: 277 FKKVQ 281 +K++ Sbjct: 666 LRKLR 670 >gi|187921407|ref|YP_001890439.1| RNA polymerase sigma factor RpoD [Burkholderia phytofirmans PsJN] gi|187719845|gb|ACD21068.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phytofirmans PsJN] Length = 681 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 442 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 501 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 502 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 556 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 557 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTVAPADAALHASMRDVV 611 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 612 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 666 >gi|41408918|ref|NP_961754.1| RNA polymerase sigma factor [Mycobacterium avium subsp. paratuberculosis K-10] gi|41397277|gb|AAS05137.1| SigA [Mycobacterium avium subsp. paratuberculosis K-10] Length = 509 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 80/302 (26%), Positives = 144/302 (47%), Gaps = 42/302 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LSAAHR------------ 52 Y+ +I K+ +L +EE LAKR E G+ L AA R Sbjct: 212 YLKQIGKVALLNAEEEVELAKRIEAGLYATQLMSEMAERGEKLPAAQRRDMMWICRDGDR 271 Query: 53 ----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 272 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 331 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I + + L R++ L PE+ +AK++++ Sbjct: 332 IRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDPGREPTPEE---LAKEMDI 386 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V+ + SL+ I D+ SQ D++ D + V ++ ++ L Sbjct: 387 TPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFTLLQDQL 441 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L+ RE + R P TL+ + + V+RER+RQIE++ K++ + Sbjct: 442 QSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 501 Query: 287 QV 288 QV Sbjct: 502 QV 503 >gi|254416030|ref|ZP_05029786.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196177205|gb|EDX72213.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 380 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 126/237 (53%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 144 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 203 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A ++ Sbjct: 204 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKILSQELGRKPTEEEIADRMEM 258 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ Sbjct: 259 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDQVSKNLLRED--- 311 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + L+PRER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 312 -LESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 367 >gi|32130003|sp|Q87DT7|RPOD_XYLFT RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|307579626|gb|ADN63595.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa subsp. fastidiosa GB514] Length = 618 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 120/253 (47%), Gaps = 32/253 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ Sbjct: 371 YGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFK 430 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + L R+ + PE+ Sbjct: 431 FSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPEE-- 486 Query: 161 AIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 +AK++++ E ++ ISM + DE S D++ D Sbjct: 487 -LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI---EDP 530 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRER 268 + ++ N + ++ L PRE ++ R + N TLE + +F+V+RER Sbjct: 531 NVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 590 Query: 269 VRQIEARAFKKVQ 281 +RQIEA+A +K++ Sbjct: 591 IRQIEAKALRKLR 603 >gi|15837951|ref|NP_298639.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa 9a5c] gi|20140311|sp|Q9PDM9|RPOD_XYLFA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|9106350|gb|AAF84159.1|AE003967_3 RNA polymerase sigma-70 factor [Xylella fastidiosa 9a5c] Length = 618 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 120/253 (47%), Gaps = 32/253 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ Sbjct: 371 YGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFK 430 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + L R+ + PE+ Sbjct: 431 FSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPEE-- 486 Query: 161 AIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 +AK++++ E ++ ISM + DE S D++ D Sbjct: 487 -LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI---EDP 530 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRER 268 + ++ N + ++ L PRE ++ R + N TLE + +F+V+RER Sbjct: 531 NVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 590 Query: 269 VRQIEARAFKKVQ 281 +RQIEA+A +K++ Sbjct: 591 IRQIEAKALRKLR 603 >gi|83716798|ref|YP_438821.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] gi|83650623|gb|ABC34687.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] Length = 800 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 516 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 575 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 576 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 635 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 636 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIA-K 688 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 689 EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 745 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 746 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 785 >gi|298492420|ref|YP_003722597.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298234338|gb|ADI65474.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 389 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 87/317 (27%), Positives = 143/317 (45%), Gaps = 76/317 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---EHGDLSAA------------------------- 50 + E+ + P+L+ EE LA+R R E DL AA Sbjct: 82 FFKEMARYPLLKPDEEVELARRVRFLEEVKDLQAALEEELGQQPSRSEVAAKFEMTEKQL 141 Query: 51 -----------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G+ Sbjct: 142 ESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGY 201 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPE 157 + +TY+ WWI+ A+ I +++ +K +L R LK Q + N + E Sbjct: 202 KFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELK---QKLARNPSEAE 258 Query: 158 QVVAI------AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 A+ ++L + +S+N R+ G E L++ L+ D D Q Sbjct: 259 MATALEISIQQLRQLQQLRRQALSLNHRV-GKEEDTELMD------------LLEDEDNQ 305 Query: 212 EQVLIEKEERKNRRNMLTRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEV 264 E K NM+ + + VL PRE+ + R P TLE + + F + Sbjct: 306 ------SPEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNL 359 Query: 265 SRERVRQIEARAFKKVQ 281 SRERVRQI+++A +K++ Sbjct: 360 SRERVRQIQSKAMRKLR 376 >gi|1519634|gb|AAC44891.1| sigma 70-type sigma factor SigA [Rhodobacter sphaeroides] Length = 666 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 488 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 542 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ SQ D++ D + ++ ++N + Sbjct: 543 PLEKVRKV-MKIA-KEPISLETPIGDEEDSQLGDFI---EDKNAILPLDSAIQENLKETT 597 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERLRQIEAKALRKLK 652 >gi|71065817|ref|YP_264544.1| putative sigma-70 factor (RpoD) [Psychrobacter arcticus 273-4] gi|71038802|gb|AAZ19110.1| putative sigma-70 factor (RpoD) [Psychrobacter arcticus 273-4] Length = 647 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 408 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 467 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 468 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 525 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ DG ++ Sbjct: 526 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDGTISSPVDDAT 569 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 R + L RE R+ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 570 AAGLREATRDVLGNLTEREARVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 629 Query: 279 KVQ 281 K++ Sbjct: 630 KLR 632 >gi|269302545|gb|ACZ32645.1| RNA polymerase sigma factor RpoD [Chlamydophila pneumoniae LPCoLN] Length = 570 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 315 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 374 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 375 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 425 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 426 ELGLTPDRVREIYKIAQHPISLQAEVGEGGESS--FGDFL-------EDTAVESPAEATG 476 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 477 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 536 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 537 KMRHPIR 543 >gi|300781032|ref|ZP_07090886.1| RNA polymerase sigma factor rpoD [Corynebacterium genitalium ATCC 33030] gi|300532739|gb|EFK53800.1| RNA polymerase sigma factor rpoD [Corynebacterium genitalium ATCC 33030] Length = 536 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 82/324 (25%), Positives = 155/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREHG------------ 45 RK+ + + + + Y+ +I K+ +L+ ++E LAKR Y +H Sbjct: 218 RKDAQLTASAD-SVRAYLKQIGKVALLDAEQEVSLAKRIEAGLYAQHRLDEMQRAADEGD 276 Query: 46 -----------DLSAAHR--------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 DL A R L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 277 KDAKLTPAVKRDLRAVARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 336 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 337 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 394 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 395 LQDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 447 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + R L + P TL+ + + V Sbjct: 448 -EDSEAVVAVDAVSFTLLQDQLQDVLHTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 506 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 507 TRERIRQIESKTMSKLRHPSRSQV 530 >gi|197106036|ref|YP_002131413.1| RNA polymerase sigma factor RpoD [Phenylobacterium zucineum HLK1] gi|196479456|gb|ACG78984.1| RNA polymerase sigma factor RpoD [Phenylobacterium zucineum HLK1] Length = 638 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 400 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 459 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 460 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 514 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 515 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQSNLRETT 569 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 570 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 624 >gi|218848158|ref|YP_002454701.1| RNA polymerase sigma factor, sigma-70 family [Bacillus cereus G9842] gi|218546289|gb|ACK98682.1| RNA polymerase sigma factor, sigma-70 family [Bacillus cereus G9842] Length = 295 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 85/299 (28%), Positives = 143/299 (47%), Gaps = 40/299 (13%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 N++N S EIG +Y++EI +L ++ +Y+E GD+ + L+ S+LRL Sbjct: 3 FNKRNSS-----EIG--KYLNEICNYDILTDEQSMEHIIKYKEKGDIDSRELLICSNLRL 55 Query: 61 VVKIAMGYRGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 VV +A + YG + E++ EG IGLM+ ++ +D +G +L+TY WWI+ + +Y+ Sbjct: 56 VVSVAKSFPCYGNCDLMEMIQEGTIGLMKGLEDYDYTKGNKLSTYITWWIRQRISKYLSI 115 Query: 120 SWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + S V++ TT + K ++ KG NL +V A++L ES VI Sbjct: 116 NRSDVRVATTMQKKITEVKNCYYENMGEKG-------TNLTTMEV---AERLGYKESIVI 165 Query: 175 SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS--- 231 L D N + S ++ Q + L+ +L K M T Sbjct: 166 DA---LVTDRITNTI---SIEDDVQNEKTLLDRQQSTLAILANKNAPNPSEVMATEEEKF 219 Query: 232 ------MSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQE 282 LNPRE + R ++ + TLE+ + V+RERV+QIE +A +K+++ Sbjct: 220 EFDELMFVTLNPREESVLRYRFGFDDGIELTLEDTARILGVTRERVQQIEKKAIEKMKQ 278 >gi|296445787|ref|ZP_06887740.1| RNA polymerase, sigma 70 subunit, RpoD [Methylosinus trichosporium OB3b] gi|296256767|gb|EFH03841.1| RNA polymerase, sigma 70 subunit, RpoD [Methylosinus trichosporium OB3b] Length = 669 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 431 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 490 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +++KL + Sbjct: 491 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LSEKLAM 545 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + IE + N R Sbjct: 546 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIEAAIQSNLRETT 600 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 601 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 655 >gi|257791063|ref|YP_003181669.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eggerthella lenta DSM 2243] gi|317488219|ref|ZP_07946788.1| RNA polymerase sigma factor RpoD [Eggerthella sp. 1_3_56FAA] gi|325830757|ref|ZP_08164141.1| RNA polymerase sigma factor RpoD [Eggerthella sp. HGA1] gi|257474960|gb|ACV55280.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eggerthella lenta DSM 2243] gi|316912661|gb|EFV34201.1| RNA polymerase sigma factor RpoD [Eggerthella sp. 1_3_56FAA] gi|325487164|gb|EGC89607.1| RNA polymerase sigma factor RpoD [Eggerthella sp. HGA1] Length = 409 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 85/303 (28%), Positives = 137/303 (45%), Gaps = 60/303 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------EHGDLS 48 Y+ EI K+P+L EE LA + E + Sbjct: 111 YLKEIGKVPLLTAAEEIDLAMKIEAGVAAMEELEKAEDEGIELERREKRRLGRIEQVGID 170 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 171 AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 230 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L L R + + L E+V Sbjct: 231 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPSPEEIGKEMGLPAERV 290 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K +S+ E +S+ + +E SQ D++ D V + Sbjct: 291 REIQK---ISQ-EPVSLETPIGEEE------------DSQLGDFI---EDDAAVVPPDAA 331 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + L++ + L RER++ R E+ P TLE + EF V+RER+RQIE++ Sbjct: 332 SFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTL 391 Query: 278 KKV 280 K+ Sbjct: 392 AKL 394 >gi|221197050|ref|ZP_03570097.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD2M] gi|221203722|ref|ZP_03576740.1| sigma-70, non-essential region family [Burkholderia multivorans CGD2] gi|221175888|gb|EEE08317.1| sigma-70, non-essential region family [Burkholderia multivorans CGD2] gi|221183604|gb|EEE16004.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD2M] Length = 682 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 398 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 457 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 458 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 517 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 518 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIAK- 570 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 571 EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 627 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 628 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 667 >gi|221236078|ref|YP_002518515.1| RNA polymerase sigma factor RpoD [Caulobacter crescentus NA1000] gi|220965251|gb|ACL96607.1| RNA polymerase sigma factor rpoD [Caulobacter crescentus NA1000] Length = 653 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 415 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 474 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 475 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 529 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 530 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 584 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 585 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 639 >gi|82703177|ref|YP_412743.1| RNA polymerase sigma factor RpoD [Nitrosospira multiformis ATCC 25196] gi|82411242|gb|ABB75351.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosospira multiformis ATCC 25196] Length = 707 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 117/245 (47%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 467 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 526 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +PE V +A+K+ + Sbjct: 527 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGQEPEPAV-LAQKMEM 581 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE + D + D VY Sbjct: 582 PEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDSATMAPADAAVY------------ 629 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + R++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 630 ---ASLRDVTKDILDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 686 Query: 277 FKKVQ 281 +K++ Sbjct: 687 LRKLR 691 >gi|51244645|ref|YP_064529.1| RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] gi|50875682|emb|CAG35522.1| probable RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] Length = 534 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 127/251 (50%), Gaps = 44/251 (17%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLV+ ++ + GL S+++ EGNIGLM+AV+KFD RGF+ +TY+ WW Sbjct: 296 AKEALVRANLRLVISVSKRFVNRGLQFSDLIQEGNIGLMKAVEKFDYRRGFKFSTYATWW 355 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ---------- 158 I+ ++ I A+Q R RL H+ + L+ + Sbjct: 356 IRQSITRGI------------ADQGRTI----RLPVHMIETINRMLRVSKDFYLEEHREP 399 Query: 159 -VVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDH----DGQE 212 V +A +L +E + + ++A D SL+ + D + D++V + DG Sbjct: 400 SVEEVAGQLG-TEVDKVKSALKIAKDAISLDTPVG--DDGETYLGDFIVDKNCLGPDGFA 456 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVR 270 V KE L++ +S L+PRE ++ + R L++ TLE + F V+RER+R Sbjct: 457 MVASLKE-------CLSQVLSSLSPREEKVLKMRYGILEKREYTLEEVGRCFNVTRERIR 509 Query: 271 QIEARAFKKVQ 281 QIEA+A K++ Sbjct: 510 QIEAQAISKLK 520 >gi|170736023|ref|YP_001777283.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia MC0-3] gi|169818211|gb|ACA92793.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia MC0-3] Length = 683 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 444 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 503 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 504 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 558 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 559 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 613 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 614 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 668 >gi|241205658|ref|YP_002976754.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240859548|gb|ACS57215.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 685 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 507 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 561 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 562 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNALLPIDAAIQANLRETT 616 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 617 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671 >gi|163761137|ref|ZP_02168214.1| RNA polymerase sigma factor protein (sigma-70) [Hoeflea phototrophica DFL-43] gi|162281688|gb|EDQ31982.1| RNA polymerase sigma factor protein (sigma-70) [Hoeflea phototrophica DFL-43] Length = 680 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 83/273 (30%), Positives = 136/273 (49%), Gaps = 27/273 (9%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 417 ETGIS--ISEFRRIVQMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 463 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 464 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PV 521 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 522 HMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPISLET 576 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--L 248 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 577 PVGDEEDSHLGDFI---EDKNAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIG 633 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 634 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 666 >gi|319788464|ref|YP_004147939.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoxanthomonas suwonensis 11-1] gi|317466976|gb|ADV28708.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoxanthomonas suwonensis 11-1] Length = 618 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 122/243 (50%), Gaps = 12/243 (4%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ Sbjct: 371 YGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 430 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + L R+ + PE+ Sbjct: 431 FSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQYGREATPEE-- 486 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 +AK++++ E ++ + ++A E ++ D S D++ D + I+ Sbjct: 487 -LAKEMDMPEDKIRKV-MKIAK-EPISMETPIGDDEDSHLGDFI---EDTNVESPIDSTT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 N + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 NTNLMETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 279 KVQ 281 K++ Sbjct: 601 KLR 603 >gi|323529251|ref|YP_004231403.1| RNA polymerase sigma-70 subunit RpoD [Burkholderia sp. CCGE1001] gi|323386253|gb|ADX58343.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1001] Length = 680 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D N+ D ++ Sbjct: 556 PEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTVAPADAALH------------ 603 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + R+++ + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 604 ---ASMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 660 Query: 277 FKKVQ 281 +K++ Sbjct: 661 LRKLR 665 >gi|221212356|ref|ZP_03585333.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD1] gi|221167455|gb|EED99924.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD1] Length = 682 Score = 95.9 bits (237), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 398 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 457 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 458 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 517 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 518 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIAK- 570 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 571 EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 627 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 628 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 667 >gi|327485473|gb|AEA79879.1| RNA polymerase sigma factor RpoH [Vibrio cholerae LMA3894-4] Length = 185 Score = 95.5 bits (236), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 62/187 (33%), Positives = 105/187 (56%), Gaps = 11/187 (5%) Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++++ WIKA + EY+LR+W +VKI TT Q++LFFNLR+ K L + +V + Sbjct: 2 SFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNG-----EVETV 56 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A++L V +EV M RLA ++ + D+N + ++Y D L + E + Sbjct: 57 ARELGVEPAEVREMESRLAAQDAAFEMSAEDDENGMAYTAPVLYLEDKHSD-LADNLEAE 115 Query: 223 NRRNMLTRSMSV----LNPRERRIFEARRL-QENPVTLENLSSEFEVSRERVRQIEARAF 277 N T+ +S+ L+ R + I AR L +N TL++L+ + VS ER+RQ+E A Sbjct: 116 NWEAHTTQRLSMALASLDERSQHIVRARWLDDDNKTTLQDLAEMYGVSAERIRQLEKNAM 175 Query: 278 KKVQESI 284 +K++E++ Sbjct: 176 RKLKEAV 182 >gi|254778811|ref|YP_003056916.1| RNA polymerase sigma factor RpoD [Helicobacter pylori B38] gi|254000722|emb|CAX28640.1| RNA polymerase sigma factor rpoD (Sigma-70) [Helicobacter pylori B38] Length = 679 Score = 95.5 bits (236), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA + GLP +++ EGNIGLM+AV KF+ E+GF+ +TY+ WW Sbjct: 440 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 499 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAI---TDNNLKPEQV-V 160 IK A+ I ++I + + R ++ H+Q D + E+V + Sbjct: 500 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGL 554 Query: 161 AIAKKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++ K NV + E IS+ + D+ DKN D ++ Sbjct: 555 SLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIM------------- 601 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 R++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 602 --REDLKVQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 659 Query: 276 AFKKVQ 281 A KK++ Sbjct: 660 AIKKLR 665 >gi|16127277|ref|NP_421841.1| RNA polymerase sigma factor RpoD [Caulobacter crescentus CB15] gi|1710678|sp|P52324|RPOD_CAUCR RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|1079588|gb|AAA82054.1| RNA polymerase principal sigma factor [Caulobacter crescentus CB15] gi|13424691|gb|AAK25009.1| RNA polymerase sigma factor RpoD [Caulobacter crescentus CB15] gi|1585612|prf||2201399A sigma73 factor Length = 652 Score = 95.5 bits (236), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 414 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 473 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 474 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 528 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 529 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 583 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 584 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 638 >gi|302382122|ref|YP_003817945.1| RNA polymerase, sigma 70 subunit, RpoD [Brevundimonas subvibrioides ATCC 15264] gi|302192750|gb|ADL00322.1| RNA polymerase, sigma 70 subunit, RpoD [Brevundimonas subvibrioides ATCC 15264] Length = 652 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 414 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 473 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 474 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 528 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 529 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 583 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 584 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 638 >gi|269102892|ref|ZP_06155589.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] gi|268162790|gb|EEZ41286.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] Length = 282 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 75/263 (28%), Positives = 137/263 (52%), Gaps = 22/263 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ ++R +L K+EE L+ + + GD A +L+ S+LRLVV IA + GL + ++ Sbjct: 10 YLKQLRSRALLTKEEEIELSIKV-QAGDQKARAKLIESNLRLVVSIAKKMQHRGLDLDDL 68 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLF 136 ++EGNIGL+ AV+KF+P+ G+R +TY+ WWIK AM I V++ +++ ++ Sbjct: 69 INEGNIGLITAVEKFNPDYGYRFSTYATWWIKQAMDRAIHNHSREVRLPVHISKELCTIY 128 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + + + +T +QV A+ +++ R + SL+ + K Sbjct: 129 SAFKEMSTKSEQVT-----IDQVSALTGSPKEEIEKILKYERRYS---SLDDQFDEGAKF 180 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR---LQENPV 253 S ++ DH + + EE ++ +L ++ L PR++ I ARR P Sbjct: 181 SE-----IIPDHSKLDHTELLNEE--DQTEVLAMLLAELKPRDQEII-ARRFGLFGYEPH 232 Query: 254 TLENLSSEFEVSRERVRQIEARA 276 TL+ +++ ++RERVRQ++ A Sbjct: 233 TLQEVATAVNLTRERVRQLQILA 255 >gi|157273328|gb|ABV27227.1| sigma 38 RpoS [Candidatus Chloracidobacterium thermophilum] Length = 549 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 79/249 (31%), Positives = 120/249 (48%), Gaps = 37/249 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A ++ ++LRLVV IA Y R GL S+++ EGNIGLM+AV+KFD RG++ +TY+ Sbjct: 306 ARREMIEANLRLVVSIAKNYINRSRGLQFSDLIQEGNIGLMRAVEKFDYRRGYKFSTYAT 365 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQ----KRLFFN-LRRLKGHLQAITDNNLKPE 157 WWI+ A+ I +++ T N+ RL L R H + +L Sbjct: 366 WWIRQAVTRAIADQGRTIRVPVHMVETINKIVRTARLMVQELGREPTHEELAQRTDLP-- 423 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 V + + L +++ E IS+ + D N D+NS + +V Sbjct: 424 -VAKVRQALKIAQ-EPISLETPIGDDGESNLGSFIEDRNSLNPAEMIVG----------- 470 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-----RLQENPVTLENLSSEFEVSRERVRQI 272 K R +S L PRE +I + R QE TLE + F V+RER+RQI Sbjct: 471 ----KGLREATLEVLSTLTPREEQILKMRFGLDGDGQER--TLEEVGRYFHVTRERIRQI 524 Query: 273 EARAFKKVQ 281 EA+A +K++ Sbjct: 525 EAKALRKLR 533 >gi|116691983|ref|YP_837516.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia HI2424] gi|116649983|gb|ABK10623.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia HI2424] Length = 805 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 566 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 625 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 626 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 680 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 681 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 735 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 736 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 790 >gi|299066184|emb|CBJ37368.1| RNA polymerase sigma70 factor [Ralstonia solanacearum CMR15] Length = 777 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 538 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 597 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 598 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 652 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 653 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 707 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 708 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 762 >gi|237746700|ref|ZP_04577180.1| RNA polymerase primary sigma factor [Oxalobacter formigenes HOxBLS] gi|229378051|gb|EEO28142.1| RNA polymerase primary sigma factor [Oxalobacter formigenes HOxBLS] Length = 827 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 588 AKKEMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 647 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A K+++ Sbjct: 648 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAVKMDM 702 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + RN++ Sbjct: 703 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTLAPADAALHASMRNVV 757 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 758 KDVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 812 >gi|76817579|ref|YP_335991.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710b] gi|76582052|gb|ABA51526.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710b] Length = 800 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 516 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 575 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 576 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 635 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 636 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIA-K 688 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 689 EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 745 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 746 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 785 >gi|260464077|ref|ZP_05812272.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mesorhizobium opportunistum WSM2075] gi|259030248|gb|EEW31529.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mesorhizobium opportunistum WSM2075] Length = 674 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 496 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 550 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 551 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKMAILPIDAAIQANLRETT 605 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 606 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660 >gi|206562773|ref|YP_002233536.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia J2315] gi|198038813|emb|CAR54775.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia J2315] Length = 621 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QILQETGLEPDPAT-LAEKMEM 496 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 497 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 551 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 552 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 606 >gi|88809137|ref|ZP_01124646.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88787079|gb|EAR18237.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 313 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 80/293 (27%), Positives = 149/293 (50%), Gaps = 36/293 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGDLSA-------------------A 50 +S Y+ I +IP+L EE L + + E G ++A Sbjct: 20 ISWYLATIGRIPLLTPAEEIELGNQVQKLMQLTEDGSIAADSELFDSKQRRLIRVGQRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 QRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ ++R++ L P + + IA+ +++ Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LTSIRKVS--LDLAHKLGAMPSR-LEIAEAMDMPV 194 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S+ + SL+A +N + S + L+ D +E +++ E++ L R Sbjct: 195 EELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADSSLEEP--LDRVEQRIHHEQLGR 250 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 MS L+ +E+ + R L N TL + +VSRERVRQ+E +A +K++ Sbjct: 251 WMSHLSDQEQHVLTLRFGLNGNERHTLAEIGRLLDVSRERVRQVELKALRKLR 303 >gi|53716429|ref|YP_105146.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 23344] gi|53722776|ref|YP_111761.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei K96243] gi|67643221|ref|ZP_00441969.1| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|124381664|ref|YP_001025512.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] gi|126447609|ref|YP_001077577.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] gi|134278673|ref|ZP_01765387.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|167000270|ref|ZP_02266089.1| RNA polymerase sigma factor RpoD [Burkholderia mallei PRL-20] gi|167743532|ref|ZP_02416306.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 14] gi|167820721|ref|ZP_02452401.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 91] gi|167850557|ref|ZP_02476065.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei B7210] gi|167899150|ref|ZP_02486551.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 7894] gi|167907493|ref|ZP_02494698.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei NCTC 13177] gi|167915832|ref|ZP_02502923.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 112] gi|167923671|ref|ZP_02510762.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei BCC215] gi|217422551|ref|ZP_03454054.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|226195650|ref|ZP_03791237.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] gi|237508723|ref|ZP_04521438.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei MSHR346] gi|242312268|ref|ZP_04811285.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] gi|254177429|ref|ZP_04884085.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|254186160|ref|ZP_04892678.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|254194055|ref|ZP_04900487.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] gi|254203084|ref|ZP_04909446.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|254208417|ref|ZP_04914766.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|254265453|ref|ZP_04956318.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] gi|254301213|ref|ZP_04968657.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|254359397|ref|ZP_04975669.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|52213190|emb|CAH39230.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei K96243] gi|52422399|gb|AAU45969.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 23344] gi|126240463|gb|ABO03575.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] gi|134250457|gb|EBA50537.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|147746129|gb|EDK53207.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|147751104|gb|EDK58172.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|148028584|gb|EDK86544.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|157811356|gb|EDO88526.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|157933846|gb|EDO89516.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|160698469|gb|EDP88439.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|169650806|gb|EDS83499.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] gi|217394782|gb|EEC34801.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|225932135|gb|EEH28135.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] gi|235000928|gb|EEP50352.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei MSHR346] gi|238524506|gb|EEP87939.1| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|242135507|gb|EES21910.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] gi|243063759|gb|EES45945.1| RNA polymerase sigma factor RpoD [Burkholderia mallei PRL-20] gi|254216455|gb|EET05840.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] gi|261826434|gb|ABM99450.2| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] Length = 680 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|330813718|ref|YP_004357957.1| RNA polymerase sigma factor RpoD [Candidatus Pelagibacter sp. IMCC9063] gi|327486813|gb|AEA81218.1| RNA polymerase sigma factor RpoD [Candidatus Pelagibacter sp. IMCC9063] Length = 621 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 122/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 383 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 442 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R + + PE+ ++K Sbjct: 443 IRQAITRSIADQARTIRIPVHMIETINK------IVRTSRQMMSEYGREPTPEE---LSK 493 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D++ S D++ D + ++ + Sbjct: 494 KLAMPLEKVRKV-LKIAK-EPISLETPVGDEDDSSLGDFI---EDTNALIPVDAAIQTGL 548 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +N T+ ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 549 KNSTTKVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 607 >gi|283457795|ref|YP_003362387.1| DNA-directed RNA polymerase, sigma subunit [Rothia mucilaginosa DY-18] gi|283133802|dbj|BAI64567.1| DNA-directed RNA polymerase, sigma subunit [Rothia mucilaginosa DY-18] Length = 460 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 84/309 (27%), Positives = 141/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREHG---------DLSAAHR------------ 52 Y+ +I K+ +L Q+E LAKR Y EH DL A R Sbjct: 167 YLKQIGKVSLLNAQQEVDLAKRIEAGLYAEHKLAENPDMDKDLKKALRWVVHDGKRAKNH 226 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 227 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWWIRQA 286 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 287 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMTPEKVIEVQ 346 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 347 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 391 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 392 ------LHSVLDTLSEREAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 445 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 446 LRHPSRSQV 454 >gi|152990473|ref|YP_001356195.1| RNA polymerase sigma factor RpoD [Nitratiruptor sp. SB155-2] gi|151422334|dbj|BAF69838.1| RNA polymerase sigma 70 factor [Nitratiruptor sp. SB155-2] Length = 608 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 123/236 (52%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WW Sbjct: 369 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 428 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + N + ++ HLQ K V IA+++ + Sbjct: 429 IRQAISRAIADQARTIRIPIHMIETINRIN-KIVRKHLQETG----KEPDVETIAEEVGM 483 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V ++ SL A I + + ++ D++ + +I KE+ K++ + Sbjct: 484 PVEKVKNVIKITKEPVSLEAPIGNEE--DGKFGDFIEDKNAPNPLEVIMKEDMKSK---I 538 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 539 EEILENLNEREKAVVRMRFGLMPDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 594 >gi|209517800|ref|ZP_03266635.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] gi|209501746|gb|EEA01767.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] Length = 680 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|54025729|ref|YP_119971.1| RNA polymerase sigma factor [Nocardia farcinica IFM 10152] gi|54017237|dbj|BAD58607.1| putative principal sigma factor [Nocardia farcinica IFM 10152] Length = 454 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-------------YREHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + E G+ L Sbjct: 142 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAEKMREFAESGEKLP 200 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 201 VAMRRDYNWIVRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 260 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 261 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 318 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 319 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 370 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 371 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 430 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 431 QIESKTMSKLRHPSRSQV 448 >gi|329946883|ref|ZP_08294295.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 170 str. F0386] gi|328526694|gb|EGF53707.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 170 str. F0386] Length = 543 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 84/310 (27%), Positives = 141/310 (45%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH------GDLSAAHR--------------- 52 Y+ +I K+ +L ++E LAKR Y EH DL A R Sbjct: 249 YLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEEGNDLPAKLRRELHWVAQDGQRAKN 308 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 309 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQ 368 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 369 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKVVEV 428 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 429 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 474 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 475 -------LHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 527 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 528 KLRHPSRSQV 537 >gi|218248849|ref|YP_002374220.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 8801] gi|257061911|ref|YP_003139799.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] gi|218169327|gb|ACK68064.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] gi|256592077|gb|ACV02964.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 417 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 129/238 (54%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A +++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ Sbjct: 176 IRAKEQMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAY 235 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I ++++ +K L ++K + ++ + + ++K+L Sbjct: 236 WWIRQGITRAISTQSRIIRLPVHITEK-----LNKIKRAQRKLSQEKGRKATIEEMSKEL 290 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++S ++ + R+ SL + + ++ D L + E+ LI + RK+ + Sbjct: 291 DMSAEQIREVLLRIPRSVSLE--VKVGKEKDTELVDLLETECQSPEESLISESLRKDLQV 348 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L L RE+ + + R E+ +L ++ E+SRERVRQIEA+A +K+++ Sbjct: 349 LLED----LTEREQDVIKLRYGFEDGTCYSLADIGRVLELSRERVRQIEAKALQKLRQ 402 >gi|126443442|ref|YP_001063518.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] gi|126222933|gb|ABN86438.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] Length = 736 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 452 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 511 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 512 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 571 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 572 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIAK- 624 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 625 EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 681 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 682 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 721 >gi|118465794|ref|YP_882772.1| RNA polymerase sigma factor [Mycobacterium avium 104] gi|254776035|ref|ZP_05217551.1| RNA polymerase sigma factor [Mycobacterium avium subsp. avium ATCC 25291] gi|118167081|gb|ABK67978.1| sigma factor MysA [Mycobacterium avium 104] Length = 496 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 184 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMSEMAERGEKLP 242 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 243 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 302 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 303 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 360 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 361 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 412 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 413 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 472 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 473 QIESKTMSKLRHPSRSQV 490 >gi|325068636|ref|ZP_08127309.1| RNA polymerase, sigma 70 subunit, RpoD [Actinomyces oris K20] Length = 542 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 84/310 (27%), Positives = 141/310 (45%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH------GDLSAAHR--------------- 52 Y+ +I K+ +L ++E LAKR Y EH DL A R Sbjct: 248 YLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEEGNDLPAKLRRELHWVAQDGQRAKN 307 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 308 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQ 367 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 368 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKVVEV 427 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 428 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 473 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 474 -------LHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 526 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 527 KLRHPSRSQV 536 >gi|167577173|ref|ZP_02370047.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis TXDOH] gi|167615343|ref|ZP_02383978.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis Bt4] Length = 680 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|114704974|ref|ZP_01437882.1| RNA polymerase sigma factor protein (sigma-70) [Fulvimarina pelagi HTCC2506] gi|114539759|gb|EAU42879.1| RNA polymerase sigma factor protein (sigma-70) [Fulvimarina pelagi HTCC2506] Length = 682 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 444 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 503 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 504 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 558 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 559 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKNAVLPIDAAIQGNLRETT 613 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 668 >gi|54307643|ref|YP_128663.1| RNA polymerase sigma factor RpoD [Photobacterium profundum SS9] gi|46912066|emb|CAG18861.1| putative DNA-directed RNA polymerase, sigmasubunit [Photobacterium profundum SS9] Length = 612 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPIPEELAERMQMPED 491 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q+ ++ Sbjct: 492 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLQLPMDAAT 535 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 N R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 536 ATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 595 Query: 279 KVQ 281 K++ Sbjct: 596 KLR 598 >gi|121597172|ref|YP_991115.1| RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|126456327|ref|YP_001076416.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] gi|121224970|gb|ABM48501.1| RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|126230095|gb|ABN93508.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] Length = 736 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 82/280 (29%), Positives = 141/280 (50%), Gaps = 24/280 (8%) Query: 16 LSRYIHEIRKIP--MLEKQEEYVL-------AKRYREHGDLSA--AHRLVT-SHLRLVVK 63 LSR I IR+ +L+ Q VL R G+L A A R +T ++LRLV+ Sbjct: 452 LSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 511 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 512 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 571 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A Sbjct: 572 IRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIAK- 624 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 625 EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVL 681 Query: 244 EARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 682 RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 721 >gi|78063051|ref|YP_372959.1| RNA polymerase sigma factor RpoD [Burkholderia sp. 383] gi|77970936|gb|ABB12315.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. 383] Length = 808 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 569 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 628 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 629 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 683 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 684 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 738 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 739 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 793 >gi|307726543|ref|YP_003909756.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] gi|307587068|gb|ADN60465.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] Length = 803 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 77/278 (27%), Positives = 138/278 (49%), Gaps = 30/278 (10%) Query: 24 RKIPMLEKQEEYVL---------------AKRYREHGDLSA--AHRLVT-SHLRLVVKIA 65 R IP + +Q++ +L R G+L A A R +T ++LRLV+ IA Sbjct: 521 RNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVISIA 580 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++ Sbjct: 581 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 640 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 I + + R+ Q + + L+P+ +A+K+ + E ++ + ++A E Sbjct: 641 I--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIA-KEP 693 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 ++ D + S D++ D + + R+++ + L PRE ++ Sbjct: 694 ISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRM 750 Query: 246 RRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 751 RFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 788 >gi|325924346|ref|ZP_08185890.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas gardneri ATCC 19865] gi|325545211|gb|EGD16521.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas gardneri ATCC 19865] Length = 625 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 375 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 434 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 435 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 492 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 493 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 534 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 535 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 594 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 595 RERIRQIEAKALRKLR 610 >gi|90411915|ref|ZP_01219923.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] gi|90327173|gb|EAS43545.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] Length = 612 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPIPEELAERMQMPED 491 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q+ ++ Sbjct: 492 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLQLPMDAAT 535 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 N R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 536 ATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 595 Query: 279 KVQ 281 K++ Sbjct: 596 KLR 598 >gi|71082746|ref|YP_265465.1| RNA polymerase sigma factor RpoD [Candidatus Pelagibacter ubique HTCC1062] gi|71061859|gb|AAZ20862.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1062] Length = 595 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 357 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 416 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I A+Q R R+ H+ T N + Q + +++ Sbjct: 417 IRQAITRSI------------ADQARTI----RIPVHMIE-TINKIVRTQRLILSEFGRE 459 Query: 169 SESEVISMNCRLAGDESLNALINS----------SDKNSSQWQDWLVYDHDGQEQVLIEK 218 + E ++ R+ D+ L S D+ S D++ D + +E+ Sbjct: 460 ATPEELAQKLRMPLDKVRKVLKISKEPVSLEKPVGDEEDSSLGDFI---EDTKALAPLEQ 516 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 + N T+ +S L PRE R+ R TLE + +F V+RER+RQIEA+A Sbjct: 517 AIKSNLSEATTKILSTLTPREERVLRMRFGVGMNTDHTLEEVGLQFSVTRERIRQIEAKA 576 Query: 277 FKKVQ 281 +K++ Sbjct: 577 LRKLK 581 >gi|296437079|gb|ADH19249.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11222] Length = 571 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 117/247 (47%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ + + Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LGE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + V + SL A + D S + D+L E +E Sbjct: 428 ELGFTPDRVREIYKIAQHPISLQAEVG--DGGESSFGDFL-------EDTAVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|91762832|ref|ZP_01264797.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] gi|91718634|gb|EAS85284.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] Length = 607 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 369 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 428 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I A+Q R R+ H+ T N + Q + +++ Sbjct: 429 IRQAITRSI------------ADQARTI----RIPVHMIE-TINKIVRTQRLILSEFGRE 471 Query: 169 SESEVISMNCRLAGDESLNALINS----------SDKNSSQWQDWLVYDHDGQEQVLIEK 218 + E ++ R+ D+ L S D+ S D++ D + +E+ Sbjct: 472 ATPEELAQKLRMPLDKVRKVLKISKEPVSLEKPVGDEEDSSLGDFI---EDTKALAPLEQ 528 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 + N T+ +S L PRE R+ R TLE + +F V+RER+RQIEA+A Sbjct: 529 AIKSNLSEATTKILSTLTPREERVLRMRFGVGMNTDHTLEEVGLQFSVTRERIRQIEAKA 588 Query: 277 FKKVQ 281 +K++ Sbjct: 589 LRKLK 593 >gi|315185771|gb|EFU19537.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta thermophila DSM 6578] Length = 338 Score = 95.5 bits (236), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 78/262 (29%), Positives = 131/262 (50%), Gaps = 35/262 (13%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 +EE L +R RE +R++T++LRLVV IA Y+ GL + +++ EGNIGL++AV+ Sbjct: 90 EEERRLDQRLRE-----LKNRMITANLRLVVSIAKKYQHRGLSLLDLIDEGNIGLIEAVE 144 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 +FD +G R +TY WWI+ A+ + + A++ R+ R+ H+ Sbjct: 145 RFDYTKGCRFSTYGTWWIRQAI------------VKSLADKSRVI----RIPIHMLNTIK 188 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNC----RLA-----GDESLNALINSSDKNSSQWQD 202 N + +A + +E E+ R+A E+ + I ++N + D Sbjct: 189 NVFMLSKELAQELGRDPTEEELSRYTGLPDRRVAEIMQVSQETASLDITVDEENMTTLGD 248 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSS 260 + D D Q EK + R++L ++S L+ RER + R E P+TLE Sbjct: 249 LVSDDED---QGPFEKVFHRYLRDVLLEALSDLSERERNVISLRFGLNGEGPLTLEETGK 305 Query: 261 EFEVSRERVRQIEARAFKKVQE 282 ++RERVRQI+ +A K++E Sbjct: 306 LLGITRERVRQIQEKALAKLRE 327 >gi|78049468|ref|YP_365643.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|325926137|ref|ZP_08187498.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas perforans 91-118] gi|78037898|emb|CAJ25643.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|325543482|gb|EGD14904.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas perforans 91-118] Length = 625 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 375 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 434 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 435 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 492 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 493 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 534 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 535 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 594 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 595 RERIRQIEAKALRKLR 610 >gi|323144090|ref|ZP_08078731.1| RNA polymerase sigma factor RpoD [Succinatimonas hippei YIT 12066] gi|322416132|gb|EFY06825.1| RNA polymerase sigma factor RpoD [Succinatimonas hippei YIT 12066] Length = 648 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 411 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 470 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+K+ + Sbjct: 471 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEKGREPTPEE---LAEKMGL 525 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D V E ++ +N + Sbjct: 526 PEDKIRKV-MKIAK-EPISLETPVGDDDDSHLGDFI---EDSSIVVPAEAATSESLKNAI 580 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + PRE ++ R P TLE + +F V+RER+RQIEA+A +K++ Sbjct: 581 NNVLDEMPPREAQVLRMRFGIGMPSDHTLEEVGRQFGVTRERIRQIEAKALRKLR 635 >gi|294666254|ref|ZP_06731505.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|292603963|gb|EFF47363.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 625 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 375 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 434 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 435 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 492 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 493 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 534 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 535 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 594 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 595 RERIRQIEAKALRKLR 610 >gi|294625247|ref|ZP_06703887.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292600475|gb|EFF44572.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] Length = 621 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 371 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 430 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 431 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 488 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 489 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 530 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 531 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 590 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 591 RERIRQIEAKALRKLR 606 >gi|75907387|ref|YP_321683.1| RNA polymerase sigma factor SigC [Anabaena variabilis ATCC 29413] gi|75701112|gb|ABA20788.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena variabilis ATCC 29413] Length = 416 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 130/238 (54%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L + ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 175 LQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 234 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I + + +A +L Sbjct: 235 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKIAQEKGRTPTLEDLAIEL 289 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ ++V + R+ SL + DK+ ++ + L D E++L+ + +++ ++ Sbjct: 290 DMTPTQVREVLLRVPRSVSLETKVG-KDKD-TELGELLETDGVTPEEMLMRESLQRDLQH 347 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L RER + R +P +L + ++SRERVRQIE++A +K+++ Sbjct: 348 LL----ADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401 >gi|21244512|ref|NP_644094.1| RNA polymerase sigma factor RpoD [Xanthomonas axonopodis pv. citri str. 306] gi|32130007|sp|Q8PG33|RPOD_XANAC RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|21110182|gb|AAM38630.1| RNA polymerase sigma-70 factor [Xanthomonas axonopodis pv. citri str. 306] Length = 625 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 375 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 434 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 435 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 492 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 493 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 534 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 535 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 594 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 595 RERIRQIEAKALRKLR 610 >gi|254470295|ref|ZP_05083699.1| sigma 70 [Pseudovibrio sp. JE062] gi|211960606|gb|EEA95802.1| sigma 70 [Pseudovibrio sp. JE062] Length = 701 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 120/250 (48%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 463 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 522 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N+ +++ + R L LQ + Sbjct: 523 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELSEKLQMPLE-- 580 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 K +V+ IAK E IS+ + D+ S D++ D Sbjct: 581 -KVRKVLKIAK-------EPISLETPIG------------DEEDSHLGDFI---EDKNAI 617 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 + I+ + N R TR ++ L PRE R+ R TLE + +F V+RER+RQ Sbjct: 618 LPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 677 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 678 IEAKALRKLK 687 >gi|226306303|ref|YP_002766263.1| RNA polymerase sigma factor SigA [Rhodococcus erythropolis PR4] gi|226185420|dbj|BAH33524.1| RNA polymerase sigma factor SigA [Rhodococcus erythropolis PR4] Length = 452 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + G+ L Sbjct: 140 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAVQIMQDLADKGEKLP 198 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 199 AAQRRDMSWICRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 258 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 259 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 316 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 317 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 368 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 369 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 428 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 429 QIESKTMSKLRHPSRSQV 446 >gi|111023781|ref|YP_706753.1| RNA polymerase sigma factor [Rhodococcus jostii RHA1] gi|110823311|gb|ABG98595.1| sigma factor, sigma 70 type, probable group 1 (principle sigma factor) [Rhodococcus jostii RHA1] Length = 457 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR----------YREHGD----LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR +E D L Sbjct: 145 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQIMQELSDSGEKLP 203 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 204 AAQRRDMSWICRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 263 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 264 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 321 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 322 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 373 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 374 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 433 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 434 QIESKTMSKLRHPSRSQV 451 >gi|86610159|ref|YP_478921.1| RNA polymerase sigma factor SigC [Synechococcus sp. JA-2-3B'a(2-13)] gi|86558701|gb|ABD03658.1| RNA polymerase sigma-70 factor family [Synechococcus sp. JA-2-3B'a(2-13)] Length = 366 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 68/248 (27%), Positives = 129/248 (52%), Gaps = 21/248 (8%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 + KR +EH ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP+ Sbjct: 123 IGKRAKEH--------MIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPK 174 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G+R +TY+ WWI+ + I +++ +K L ++K + ++ + Sbjct: 175 KGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKLSQEKGRT 229 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA +L ++ +V + R+ SL + DK+ ++ D L D E+ ++ Sbjct: 230 PTIEDIASELEMTPPQVRELLVRVPRSVSLETKVG-KDKD-TELGDLLETDDISPEETMM 287 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT--LENLSSEFEVSRERVRQIEA 274 + ++ + +L S L RER + R + T L + ++SRERVRQIEA Sbjct: 288 REALHRDLQQLL----SDLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQIEA 343 Query: 275 RAFKKVQE 282 +A +K+++ Sbjct: 344 KALQKLRQ 351 >gi|300690868|ref|YP_003751863.1| RNA polymerase sigma70 factor [Ralstonia solanacearum PSI07] gi|299077928|emb|CBJ50567.2| RNA polymerase sigma70 factor [Ralstonia solanacearum PSI07] Length = 876 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 637 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 696 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 697 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 751 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 752 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 806 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 807 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 861 >gi|300703499|ref|YP_003745101.1| RNA polymerase sigma70 factor [Ralstonia solanacearum CFBP2957] gi|299071162|emb|CBJ42476.1| RNA polymerase sigma70 factor [Ralstonia solanacearum CFBP2957] Length = 873 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 634 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 693 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 694 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 748 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 749 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 803 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 804 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 858 >gi|295700835|ref|YP_003608728.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] gi|295440048|gb|ADG19217.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] Length = 680 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|237804965|ref|YP_002889119.1| RNA polymerase sigma factor [Chlamydia trachomatis B/TZ1A828/OT] gi|231273265|emb|CAX10180.1| RNA polymerase sigma factor [Chlamydia trachomatis B/TZ1A828/OT] Length = 571 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 117/247 (47%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ + + Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LGE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + V + SL A + D S + D+L E +E Sbjct: 428 ELGFTPDRVREIYKIAQHPISLQAEVG--DGGESSFGDFL-------EDTAVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|15605346|ref|NP_220132.1| RNA polymerase sigma factor [Chlamydia trachomatis D/UW-3/CX] gi|76789354|ref|YP_328440.1| RNA polymerase sigma factor [Chlamydia trachomatis A/HAR-13] gi|166154830|ref|YP_001654948.1| RNA polymerase sigma factor [Chlamydia trachomatis 434/Bu] gi|166155705|ref|YP_001653960.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/UCH-1/proctitis] gi|255311437|ref|ZP_05354007.1| RNA polymerase sigma factor [Chlamydia trachomatis 6276] gi|255317738|ref|ZP_05358984.1| RNA polymerase sigma factor [Chlamydia trachomatis 6276s] gi|255348997|ref|ZP_05381004.1| RNA polymerase sigma factor [Chlamydia trachomatis 70] gi|255503536|ref|ZP_05381926.1| RNA polymerase sigma factor [Chlamydia trachomatis 70s] gi|255507214|ref|ZP_05382853.1| RNA polymerase sigma factor [Chlamydia trachomatis D(s)2923] gi|301336109|ref|ZP_07224353.1| RNA polymerase sigma factor [Chlamydia trachomatis L2tet1] gi|1710679|sp|P18333|RPOD_CHLTR RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Sigma-66; AltName: Full=Sigma-70 gi|144609|gb|AAA23165.1| RNA polymerase sigma-subunit [Chlamydia trachomatis] gi|3329060|gb|AAC68218.1| RNA Polymerase Sigma-66 [Chlamydia trachomatis D/UW-3/CX] gi|76167884|gb|AAX50892.1| RpoD [Chlamydia trachomatis A/HAR-13] gi|165930818|emb|CAP04316.1| RNA polymerase sigma factor [Chlamydia trachomatis 434/Bu] gi|165931693|emb|CAP07270.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/UCH-1/proctitis] gi|289525658|emb|CBJ15139.1| RNA polymerase sigma factor [Chlamydia trachomatis Sweden2] gi|296435222|gb|ADH17400.1| RNA polymerase sigma factor [Chlamydia trachomatis E/150] gi|296436151|gb|ADH18325.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9768] gi|296438011|gb|ADH20172.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11074] gi|296438941|gb|ADH21094.1| RNA polymerase sigma factor [Chlamydia trachomatis E/11023] gi|297140513|gb|ADH97271.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9301] gi|297748745|gb|ADI51291.1| RpoD [Chlamydia trachomatis D-EC] gi|297749625|gb|ADI52303.1| RpoD [Chlamydia trachomatis D-LC] Length = 571 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 117/247 (47%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ + + Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LGE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + V + SL A + D S + D+L E +E Sbjct: 428 ELGFTPDRVREIYKIAQHPISLQAEVG--DGGESSFGDFL-------EDTAVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|15835519|ref|NP_297278.1| RNA polymerase sigma factor [Chlamydia muridarum Nigg] gi|270285702|ref|ZP_06195096.1| RNA polymerase sigma factor [Chlamydia muridarum Nigg] gi|270289710|ref|ZP_06196012.1| RNA polymerase sigma factor [Chlamydia muridarum Weiss] gi|301337097|ref|ZP_07225299.1| RNA polymerase sigma factor [Chlamydia muridarum MopnTet14] gi|7388084|sp|P56835|RPOD_CHLMU RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Sigma-66; AltName: Full=Sigma-70 gi|7190932|gb|AAF39698.1| RNA polymerase sigma factor RpoD [Chlamydia muridarum Nigg] Length = 571 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/246 (31%), Positives = 116/246 (47%), Gaps = 28/246 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ + + Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LGE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + V + SL A + D S + D+L E +E Sbjct: 428 ELGFTPDRVREIYKIAQHPISLQAEVG--DSGESSFGDFL-------EDTAVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESI 284 K++ I Sbjct: 539 KMRHPI 544 >gi|226366217|ref|YP_002784000.1| RNA polymerase sigma factor [Rhodococcus opacus B4] gi|226244707|dbj|BAH55055.1| RNA polymerase sigma factor SigA [Rhodococcus opacus B4] gi|254553058|dbj|BAH85841.1| RNA polymerase sigma A factor [Rhodococcus opacus] Length = 457 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR----------YREHGD----LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR +E D L Sbjct: 145 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQIMQELSDSGEKLP 203 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 204 AAQRRDMSWICRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 263 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 264 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 321 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 322 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 373 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 374 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 433 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 434 QIESKTMSKLRHPSRSQV 451 >gi|84622216|ref|YP_449588.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188574947|ref|YP_001911876.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzae PXO99A] gi|84366156|dbj|BAE67314.1| RNA polymerase sigma-70 factor [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188519399|gb|ACD57344.1| RNA polymerase sigma-70 factor [Xanthomonas oryzae pv. oryzae PXO99A] Length = 624 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 374 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 433 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 434 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 491 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 492 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 533 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 534 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 593 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 594 RERIRQIEAKALRKLR 609 >gi|13472238|ref|NP_103805.1| RNA polymerase sigma factor RpoD [Mesorhizobium loti MAFF303099] gi|14022983|dbj|BAB49591.1| RNA polymerase sigma subunit [Mesorhizobium loti MAFF303099] Length = 674 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 496 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 550 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 551 PLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI---EDKMAILPIDAAIQANLRETT 605 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 606 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660 >gi|255017998|ref|ZP_05290124.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL F2-515] Length = 209 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 46/99 (46%), Positives = 66/99 (66%), Gaps = 1/99 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LAKR E GD+ A RL ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVDLLTADEEIALAKRI-EAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I Sbjct: 167 IQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAI 205 >gi|158338579|ref|YP_001519756.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158308820|gb|ABW30437.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/278 (27%), Positives = 136/278 (48%), Gaps = 31/278 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L +EE LA++ + G+ A +++ ++LRLVV IA ++ GLP+ Sbjct: 8 LHYYLKEIGRFPLLTHEEEITLARQV-QAGNPRAKRKMIEANLRLVVSIAKKHQNRGLPL 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN 131 +++ EGN+GL AV KF+PE+G R +TY+ WWI + + +V++ N Sbjct: 67 LDLIQEGNLGLSIAVDKFEPEQGNRFSTYAYWWILQGVTRSLQNKGRVVRLPVKHWQVGN 126 Query: 132 Q-KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG---DESLN 187 Q KR L + G + + E + KK S E +S++ + G D +L Sbjct: 127 QIKRTRHQLSQELGREPTVVEIADAMEMDLTRLKKYLHSLQETVSLD-KFVGSEQDTTLG 185 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 LI +D S + + L+ +++L+ R+R + R Sbjct: 186 DLIEGNDSTQSY-------------------LDLLLQDEELSGYLALLDDRQRFVISERY 226 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E+ P ++E + + +SRERVRQI +A + +++ Sbjct: 227 GLEDGKPKSMEKIGQKLGISRERVRQIIKKAMQTLEKC 264 >gi|322379076|ref|ZP_08053479.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS1] gi|322379940|ref|ZP_08054217.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS5] gi|321147638|gb|EFX42261.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS5] gi|321148568|gb|EFX43065.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS1] Length = 634 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ E+ ++ +TY+ WW Sbjct: 395 AKNKMARSNLRLVVSIAKRYTSRGLPFLDLIQEGNIGLMKAVDKFEHEKNYKFSTYATWW 454 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I ++I + + R+ ++ N K + +AK++ + Sbjct: 455 IKQAISRAIADQARTIRIPI-----HMIDTINRINKVMRKYMQENGKEPDLDLVAKEVGL 509 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V ++ SL + + + D ++ D++ D +E R++ + + Sbjct: 510 PLDKVRNVIKITKEPISLESPVGNDD--DGKFGDFV---EDKNVVGSMEHIMREDLKAQI 564 Query: 229 TRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 565 DGVLDQLNEREKSVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 620 >gi|317403353|gb|EFV83866.1| RNA polymerase sigma-70 factor [Achromobacter xylosoxidans C54] Length = 813 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 574 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 633 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 634 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 688 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 689 PEDKIRKI-LKIA-KEPISMETPIGDDDDSHLGDFI---EDTSTLAPSDAALHGSMRDVV 743 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 744 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 798 >gi|300728464|ref|ZP_07061824.1| RNA polymerase sigma-43 factor [Prevotella bryantii B14] gi|299774265|gb|EFI70897.1| RNA polymerase sigma-43 factor [Prevotella bryantii B14] Length = 251 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 76/270 (28%), Positives = 130/270 (48%), Gaps = 51/270 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI K +L +QEE L+ + ++GD SA +L T++LR VV IA Y+ GL I Sbjct: 18 LQTYLSEIGKENLLSEQEEQELSAKI-QNGDESAIEKLTTANLRFVVSIAKRYQDRGLGI 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++++SEGN GL++A +KFD +G R Y++ +I+ A++ I + + + + Sbjct: 77 NDLISEGNFGLIKAARKFDAAKGQRFVQYAVHFIRQAIENAIQEQSGIYTLPHSMDD--- 133 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + +S+ S++ L ++ + L SD Sbjct: 134 -----------------------------PVELKQSKAFSVDAPLVQGKTASLLHVLSDP 164 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI---FEARRLQENP 252 N+ ++ D + VL R L RS+SVLN RERR+ F Q Sbjct: 165 NA------VIPDKPYLDDVL---------RQGLIRSLSVLNDRERRVVSMFYGLNDQNAG 209 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +T E + ++ + RERVR I +A +K+++ Sbjct: 210 LTYEEIGTQLGLKRERVRDIRKKAERKMKK 239 >gi|156563504|dbj|BAF76047.1| Sigma70 [Ralstonia solanacearum] Length = 755 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 516 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 575 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T N P +A+K+ + Sbjct: 576 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGNEPDP---ATLAEKMEM 630 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R ++ Sbjct: 631 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDTNTLAPAEAALHGSMRGVV 685 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 686 KDVLDSLAPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 740 >gi|39996625|ref|NP_952576.1| RNA polymerase sigma-70 factor family [Geobacter sulfurreducens PCA] gi|39983506|gb|AAR34899.1| RNA polymerase sigma-70 factor family [Geobacter sulfurreducens PCA] gi|298505638|gb|ADI84361.1| RNA polymerase sigma-38 factor, stationary phase [Geobacter sulfurreducens KN400] Length = 328 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/279 (27%), Positives = 144/279 (51%), Gaps = 31/279 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI++ +L EE LA R GD +A +++ S+LRLVVKIA Y GLP ++ Sbjct: 63 YLREIQRTRLLTADEEKELAGRI-AKGDKAARDKMIESNLRLVVKIAKRYINRGLPFLDL 121 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV++F + R +TY+ WWI+ +++ ++ +++ + N Sbjct: 122 IEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDD---IN 178 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC---------RLAGDESLNAL 189 + LK + + N +P V +A ++ V+ + V + R G+ S L Sbjct: 179 -KMLKITRELVQRLNREP-SVKEVATEMKVNSAYVRRLMVLLKKTYSIERPMGENSDYFL 236 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I++ + S+ L+ D N+ ++++ + L+ E+ I R Sbjct: 237 IDTIEDTSTVSPAVLLEDL--------------NKYEIVSKWFASLSENEQTILTLRFGL 282 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ P TL+ + F V+RER+RQIEA++ +K+++ I++ Sbjct: 283 EDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKYIEE 321 >gi|16331621|ref|NP_442349.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803] gi|2500787|sp|Q59996|RPSC_SYNY3 RecName: Full=Probable RNA polymerase sigma-C factor gi|1001684|dbj|BAA10419.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 404 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 126/240 (52%), Gaps = 13/240 (5%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E ++A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R + Sbjct: 159 EKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFS 218 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TYS WWI+ + I ++++ +K L ++K + I+ ++ + Sbjct: 219 TYSYWWIRQGITRAIATQSRMIRLPVHITEK-----LNKIKRAQRKISQEKGHTPKIDEV 273 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A++L ++ +V + ++ SL + DK+ ++ D L D E L+ R+ Sbjct: 274 AEELGMTPEQVREVLTQVPRSVSLELKVG-QDKD-TELMDLLETDTQSPEDELM----RE 327 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 +N + + L PRE+ + R ++ V +L + +SRERVRQIEA+A +K+ Sbjct: 328 ALQNDMQEILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKALQKL 387 >gi|319949012|ref|ZP_08023109.1| RNA polymerase sigma factor [Dietzia cinnamea P4] gi|319437300|gb|EFV92323.1| RNA polymerase sigma factor [Dietzia cinnamea P4] Length = 460 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 153/318 (48%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L+ Sbjct: 148 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATWYMAQVTERGEKLT 206 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 207 TAQRRDFKWIERDGVRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 266 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 267 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 324 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 325 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 376 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R L + P TL+ + + V+RER+R Sbjct: 377 VVAVDAVSFTLLQDQLRSVLDTLSEREAGVVRLRFGLTDGLPRTLDEIGQVYGVTRERIR 436 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 437 QIESKTMSKLRHPSRSQV 454 >gi|282900303|ref|ZP_06308254.1| Sigma 28 (Flagella/Sporulation) [Cylindrospermopsis raciborskii CS-505] gi|281194808|gb|EFA69754.1| Sigma 28 (Flagella/Sporulation) [Cylindrospermopsis raciborskii CS-505] Length = 399 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 82/309 (26%), Positives = 141/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---EHGDLSAA------------------------- 50 + E+ + P+L+ EE LA+R R E DL AA Sbjct: 92 FFKEMARYPLLKPDEEVELARRVRFLEEVKDLQAALEEQLGHSVSKSEVASKFDLNEKQL 151 Query: 51 -----------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G+ Sbjct: 152 ESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGY 211 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I +++ +K L +LK + + + Sbjct: 212 KFSTYAYWWIRQAITRAIANDARTIRLPIHIVEK-----LNKLKKAQRELKQKFARNPTE 266 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V +A+ L ++ ++ + SLN + + ++ D L+ D D Q Sbjct: 267 VEMAEFLEMTVQQLRQLQQLRRQALSLNHRVGKEE--DTELMD-LLEDEDNQ------SP 317 Query: 220 ERKNRRNMLTRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 E K NM+ + + VL PRE+ + R P TLE + + F +SRERVRQI Sbjct: 318 EAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQI 377 Query: 273 EARAFKKVQ 281 +++A +K++ Sbjct: 378 QSKAMRKLR 386 >gi|153005080|ref|YP_001379405.1| RNA polymerase sigma-32 subunit RpoH [Anaeromyxobacter sp. Fw109-5] gi|152028653|gb|ABS26421.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. Fw109-5] Length = 241 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 55/149 (36%), Positives = 85/149 (57%), Gaps = 6/149 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ +R P L + EE+ LA R R+ GD+ A +LV +L VV IA R + + Sbjct: 16 LAPYLKAVRDFPPLSRDEEHALALRARK-GDVRAKQKLVRHNLAFVVAIARKQRRGTVRL 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI--GTTANQK 133 +++ EGN+GLM+AV+KFDP G R +TY++WWI+A + +Y+ + S V+ GT A Sbjct: 75 DDLIQEGNVGLMRAVEKFDPHAGTRFSTYAVWWIRAYIGKYLKEARSTVRPQSGTVAQPD 134 Query: 134 RLFFNLRRLKG---HLQAITDNNLKPEQV 159 + +G HL+ I D+ PE Sbjct: 135 LSLDSAIDEEGDATHLERIEDDGPGPEDT 163 >gi|167566502|ref|ZP_02359418.1| RNA polymerase sigma factor RpoD [Burkholderia oklahomensis EO147] gi|167573583|ref|ZP_02366457.1| RNA polymerase sigma factor RpoD [Burkholderia oklahomensis C6786] Length = 681 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 442 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 501 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 502 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 556 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 557 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 611 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 612 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 666 >gi|4105839|gb|AAD02575.1| RNA polymerase sigma factor [Cyanidium caldarium] Length = 589 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 78/262 (29%), Positives = 136/262 (51%), Gaps = 18/262 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +R+V ++LRLV+ A +R G+ ++V EG+IGL++ V+K+D RGFR +TY+ WW Sbjct: 331 AKNRMVAANLRLVICFAKRFRNRGVAFQDLVQEGSIGLIRGVEKYDANRGFRFSTYASWW 390 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + + +L + ++ N+ + +RR L I +P ++ IA K+ + Sbjct: 391 IRQGIHKALLECSKMFRLPVHVNE--MIKEIRRCSYELMNILGR--EPTKL-EIAMKVGM 445 Query: 169 SESEVISMNCRLAGDESLNALINSSDKN--SSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 E +VI + R SL + SD + S D + + + + R Sbjct: 446 PEEKVIFLLQRAQTALSLEMPLRGSDSSLESRTLGDVVSSTASPSPE---DSAFGTSLRY 502 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVT--LENLSSEFEVSRERVRQIEARAFKKVQES- 283 L R++S L+ RER + R ++ T L + S F V+RERVRQIE RA +K+++ Sbjct: 503 DLERALSQLDFREREVIRMRFGLDDGRTKSLGEVGSLFCVTRERVRQIETRALRKLRDPR 562 Query: 284 ----IQKQVE-LSSSPPLLQKP 300 +++ +E +S P ++KP Sbjct: 563 CNIFLKEYMEWISDERPGMKKP 584 >gi|142114|gb|AAA22047.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] Length = 416 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 130/238 (54%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L + ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 175 LQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 234 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I + + +A +L Sbjct: 235 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKIAQEKGRTPTLEDLAIEL 289 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ ++V + R+ SL + DK+ ++ + L D E++L+ + +++ ++ Sbjct: 290 DMTPTQVREVLLRVPRSVSLETKVG-KDKD-TELGELLETDGVTPEEMLMRESLQRDLQH 347 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L RER + R +P +L + ++SRERVRQIE++A +K+++ Sbjct: 348 LL----ADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401 >gi|302525743|ref|ZP_07278085.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] gi|302434638|gb|EFL06454.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] Length = 476 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 150/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHG---- 45 RK+ + + + + Y+ +I K+ +L +EE LAKR E G Sbjct: 164 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERVRTAEEEGEKLV 222 Query: 46 -----DLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 DL A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 223 TQMRRDLKWIVRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 282 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 283 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 340 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK++++S +V+ + SL+ I D+ SQ D++ D + Sbjct: 341 EPTPEE---LAKEMDISPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 392 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 393 VVAVDAVSFTLLQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 452 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 453 QIESKTMSKLRHPSRSQV 470 >gi|188993312|ref|YP_001905322.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. campestris str. B100] gi|167735072|emb|CAP53284.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. campestris] Length = 624 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 374 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 433 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 434 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 491 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 492 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 533 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 534 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 593 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 594 RERIRQIEAKALRKLR 609 >gi|120403451|ref|YP_953280.1| RNA polymerase sigma factor [Mycobacterium vanbaalenii PYR-1] gi|119956269|gb|ABM13274.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium vanbaalenii PYR-1] Length = 478 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + G+ L Sbjct: 166 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAELADKGEKLP 224 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 225 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 284 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 285 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 342 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 343 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 394 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 395 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 454 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 455 QIESKTMSKLRHPSRSQV 472 >gi|87119778|ref|ZP_01075675.1| RNA polymerase sigma factor [Marinomonas sp. MED121] gi|86165254|gb|EAQ66522.1| RNA polymerase sigma factor [Marinomonas sp. MED121] Length = 614 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R+ + PE++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEELAVRMDMPED 493 Query: 162 -IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ + DG E I+ Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI--EDDGAESP-IDTAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R T +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 538 IEGLREATTSVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KVQ 281 K++ Sbjct: 598 KLR 600 >gi|85373960|ref|YP_458022.1| RNA polymerase sigma factor RpoD [Erythrobacter litoralis HTCC2594] gi|84787043|gb|ABC63225.1| RNA polymerase sigma-70 factor [Erythrobacter litoralis HTCC2594] Length = 675 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 122/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 437 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 496 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ R H Q PE+ +A+ Sbjct: 497 IRQAITRSIADQARTIRIPVHMIETINK---LVRTSRQFLHEQG---REPTPEE---MAE 547 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L++ +V + ++A E ++ D+ S D++ D + ++ + N Sbjct: 548 RLSMPLEKVRKV-MKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAIIPVDAAIQANL 602 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 603 KETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 661 >gi|33864481|ref|NP_896041.1| putative type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33641261|emb|CAE22391.1| Putative type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] Length = 376 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 117/236 (49%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV +A Y+ G+ + ++V EG +GL +AV+KFDP RGFR +TY+ WW Sbjct: 136 AKDQMIQANLRLVVAVAKKYQQRGIELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 195 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K Q I + + + +AK L + Sbjct: 196 IRQGITRAIATQSRTIRLPMHITEK-----LNRIKRVQQEIASSQGRLASIADLAKALGL 250 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL I + +Q D L+ D + + EK R N L Sbjct: 251 SEETVRLTLMRVPRSISLETRIGQ--EQDTQLGD-LLEDSNATPE---EKLTRNQLHNDL 304 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L+ RE + R E+ P TL + +SRERVRQIE A K+++ Sbjct: 305 EILLDELSNREATVIRRRFGLEDDTPQTLTQIGEAMHLSRERVRQIETHALLKLRQ 360 >gi|262276866|ref|ZP_06054659.1| RNA polymerase sigma factor RpoD [alpha proteobacterium HIMB114] gi|262223969|gb|EEY74428.1| RNA polymerase sigma factor RpoD [alpha proteobacterium HIMB114] Length = 613 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 122/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R + + + PE+ ++K Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINK------IVRTQRQMMSEFGREPTPEE---LSK 485 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 KL + +V + ++A E ++ D+ S D++ D + ++ + Sbjct: 486 KLAMPLEKVRKV-LKIAK-EPVSLETPVGDEEDSTLGDFI---EDSNALIPVDAAVQTAL 540 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +N T+ ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 541 KNTTTKVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 599 >gi|254455607|ref|ZP_05069036.1| RNA polymerase sigma factor [Candidatus Pelagibacter sp. HTCC7211] gi|207082609|gb|EDZ60035.1| RNA polymerase sigma factor [Candidatus Pelagibacter sp. HTCC7211] Length = 608 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 370 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 429 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I A+Q R R+ H+ T N + Q + +++ Sbjct: 430 IRQAITRSI------------ADQARTI----RIPVHMIE-TINKIVRTQRLILSEFGRE 472 Query: 169 SESEVISMNCRLAGDESLNALINS----------SDKNSSQWQDWLVYDHDGQEQVLIEK 218 + E ++ R+ D+ L S D+ S D++ D + +E+ Sbjct: 473 ATPEELAQKLRMPLDKVRKVLKISKEPVSLEKPVGDEEDSSLGDFI---EDTKALAPLEQ 529 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 + N T+ +S L PRE R+ R TLE + +F V+RER+RQIEA+A Sbjct: 530 AIKSNLGEATTKILSTLTPREERVLRMRFGVGMNTDHTLEEVGLQFSVTRERIRQIEAKA 589 Query: 277 FKKVQ 281 +K++ Sbjct: 590 LRKLK 594 >gi|220907205|ref|YP_002482516.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 7425] gi|219863816|gb|ACL44155.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 455 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 121/241 (50%), Gaps = 23/241 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ WW Sbjct: 216 AKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWW 275 Query: 109 IKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 I+ + I +++ + K+ + + KGH +I D + E V Sbjct: 276 IRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGHTPSIEDIATELEMTVPQV 335 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++L V +S+ ++ D ++ D L D E++++ R++ Sbjct: 336 RELLVRVPRSVSLETKVGKD------------KDTELGDLLETDDLSPEEMMM----RES 379 Query: 224 RRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + ++ L RER + R + +L ++ ++SRERVRQIEA+A +K++ Sbjct: 380 LHRELEKLLADLTSRERDVISMRFGLGDGHAYSLADIGRALDLSRERVRQIEAKALQKLR 439 Query: 282 E 282 + Sbjct: 440 Q 440 >gi|163856346|ref|YP_001630644.1| RNA polymerase sigma factor RpoD [Bordetella petrii DSM 12804] gi|163260074|emb|CAP42375.1| RNA polymerase sigma-70 factor [Bordetella petrii] Length = 806 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 567 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 626 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 627 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 681 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 682 PEDKIRKI-LKIA-KEPISMETPIGDDDDSHLGDFI---EDTSTLAPSDAALHGSMRDVV 736 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 737 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 791 >gi|68536164|ref|YP_250869.1| RNA polymerase sigma factor [Corynebacterium jeikeium K411] gi|68263763|emb|CAI37251.1| RNA polymerase sigma factor A [Corynebacterium jeikeium K411] Length = 544 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 83/318 (26%), Positives = 156/318 (49%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR--------YR-----EHGD-LS 48 RK+ + + + + Y+ +I K+ +L ++E LAKR YR E G+ LS Sbjct: 232 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAAYRLQEIKESGEKLS 290 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 HR L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 291 PMHRRDLREIDRDGRRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 350 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 351 FDYVKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 408 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +A++++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 409 EPTPEE---LAREMDITVDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 460 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + + R L + P TL+ + + V+RER+R Sbjct: 461 VVAVDAVSFTLLQDQLQDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIR 520 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 521 QIESKTMSKLRHPSRSQV 538 >gi|17229184|ref|NP_485732.1| RNA polymerase sigma factor SigC [Nostoc sp. PCC 7120] gi|20141790|sp|Q03066|RPSC_ANASP RecName: Full=RNA polymerase sigma-C factor gi|17135512|dbj|BAB78058.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] Length = 416 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 130/238 (54%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L + ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 175 LQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 234 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I + + +A +L Sbjct: 235 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKIAQEKGRTPTLEDLAIEL 289 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ ++V + R+ SL + DK+ ++ + L D E++L+ + +++ ++ Sbjct: 290 DMTPTQVREVLLRVPRSVSLETKVG-KDKD-TELGELLETDGVTPEEMLMRESLQRDLQH 347 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L RER + R +P +L + ++SRERVRQIE++A +K+++ Sbjct: 348 LL----ADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401 >gi|260578861|ref|ZP_05846767.1| RNA polymerase principal sigma factor SigA [Corynebacterium jeikeium ATCC 43734] gi|258603008|gb|EEW16279.1| RNA polymerase principal sigma factor SigA [Corynebacterium jeikeium ATCC 43734] Length = 552 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 83/318 (26%), Positives = 156/318 (49%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR--------YR-----EHGD-LS 48 RK+ + + + + Y+ +I K+ +L ++E LAKR YR E G+ LS Sbjct: 240 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAAYRLQEIKESGEKLS 298 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 HR L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 299 PMHRRDLREIDRDGRRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 358 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 359 FDYVKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 416 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +A++++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 417 EPTPEE---LAREMDITVDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 468 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + + R L + P TL+ + + V+RER+R Sbjct: 469 VVAVDAVSFTLLQDQLQDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIR 528 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 529 QIESKTMSKLRHPSRSQV 546 >gi|229491308|ref|ZP_04385134.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] gi|229321847|gb|EEN87642.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] Length = 430 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + G+ L Sbjct: 118 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAVQIMQDLADKGEKLP 176 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 177 AAQRRDMSWICRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 236 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 237 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 294 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 295 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 346 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 347 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 406 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 407 QIESKTMSKLRHPSRSQV 424 >gi|21233164|ref|NP_639081.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66770104|ref|YP_244866.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. campestris str. 8004] gi|32130006|sp|Q8P4H2|RPOD_XANCP RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|21115012|gb|AAM42993.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66575436|gb|AAY50846.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. campestris str. 8004] Length = 624 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 374 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 433 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 434 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 491 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 492 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 533 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 534 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 593 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 594 RERIRQIEAKALRKLR 609 >gi|330444010|ref|YP_004376996.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pecorum E58] gi|328807120|gb|AEB41293.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pecorum E58] Length = 562 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 118/247 (47%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 307 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 366 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 367 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPSPEE---LAE 417 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + S + D+L E +E Sbjct: 418 ELGLTPDRVREIYKIAQHPISLQAEVGEG--GESAFGDFL-------EDTAVESPAEATG 468 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 469 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 528 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 529 KMRHPIR 535 >gi|148553355|ref|YP_001260937.1| RNA polymerase sigma factor RpoD [Sphingomonas wittichii RW1] gi|148498545|gb|ABQ66799.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingomonas wittichii RW1] Length = 674 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A++L++ Sbjct: 496 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQILHEIGREPTPEE---LAERLSM 550 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N + + Sbjct: 551 PLEKVRKV-MKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAIIPVDAAIQSNLKETV 605 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 606 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660 >gi|325913856|ref|ZP_08176215.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas vesicatoria ATCC 35937] gi|325539931|gb|EGD11568.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas vesicatoria ATCC 35937] Length = 624 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 374 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 433 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 434 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 491 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 492 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 533 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 534 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 593 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 594 RERIRQIEAKALRKLR 609 >gi|187478819|ref|YP_786843.1| RNA polymerase sigma factor RpoD [Bordetella avium 197N] gi|115423405|emb|CAJ49939.1| RNA polymerase sigma factor 70 [Bordetella avium 197N] Length = 726 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 487 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 546 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 547 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 601 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 602 PEDKIRKI-LKIA-KEPISMETPIGDDDDSHLGDFI---EDTSTLAPSDAALHGSMRDVV 656 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 657 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 711 >gi|300784507|ref|YP_003764798.1| RNA polymerase primary sigma factor [Amycolatopsis mediterranei U32] gi|299794021|gb|ADJ44396.1| RNA polymerase primary sigma factor [Amycolatopsis mediterranei U32] Length = 467 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 150/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHG---- 45 RK+ + + + + Y+ +I K+ +L +EE LAKR E G Sbjct: 155 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERVRTAEEEGEKLV 213 Query: 46 -----DLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 DL A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 214 TQMRRDLKWIVRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 273 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 274 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 331 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK++++S +V+ + SL+ I D+ SQ D++ D + Sbjct: 332 EPTPEE---LAKEMDISPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 383 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 384 VVAVDAVSFTLLQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 443 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 444 QIESKTMSKLRHPSRSQV 461 >gi|209965297|ref|YP_002298212.1| RNA polymerase sigma factor RpoD [Rhodospirillum centenum SW] gi|209958763|gb|ACI99399.1| DNA-directed RNA polymerase, sigma subunit RpoD [Rhodospirillum centenum SW] Length = 648 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 114/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 410 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 469 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R + PE++ Sbjct: 470 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPTPEELAERLMMPLE 527 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E IS+ + +E + DKN+ D + Sbjct: 528 KVRKVLKIAK-EPISLETPIGDEEDSHLGDFIEDKNAVLPLDAAI--------------- 571 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + N R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A + Sbjct: 572 QANLRETTTRILATLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 631 Query: 279 KVQ 281 K++ Sbjct: 632 KLK 634 >gi|183982025|ref|YP_001850316.1| RNA polymerase sigma factor SigA [Mycobacterium marinum M] gi|183175351|gb|ACC40461.1| RNA polymerase sigma factor SigA [Mycobacterium marinum M] Length = 501 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + G+ L Sbjct: 189 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAELTDRGEKLP 247 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 248 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 307 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 308 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 365 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 366 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 417 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 418 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 477 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 478 QIESKTMSKLRHPSRSQV 495 >gi|85708548|ref|ZP_01039614.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] gi|85690082|gb|EAQ30085.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] Length = 674 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R PE++ A Sbjct: 496 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQFLHEEGREPTPEEMAARLSMPLE 553 Query: 162 -IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K + +++ E IS+ + D+ S D++ D + ++ Sbjct: 554 KVRKVMKIAK-EPISLETPIG------------DEEDSHLGDFI---EDKNAVIPVDAAI 597 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + N + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A + Sbjct: 598 QANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 657 Query: 279 KVQ 281 K++ Sbjct: 658 KLK 660 >gi|297559739|ref|YP_003678713.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296844187|gb|ADH66207.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 364 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 136/297 (45%), Gaps = 54/297 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREHG----------DLS--------AAHRLVT 55 Y+ EI ++P+L ++E LAK Y +H +L+ A L+ Sbjct: 73 YLREIGRVPLLSAEQEVELAKAVEVGLYAQHCAPVEGVRTAEELACLVEEGRRAKRSLIE 132 Query: 56 SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQE 115 ++LRLVV IA Y G GL + ++V EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ Sbjct: 133 ANLRLVVSIAKRYMGRGLLLLDLVQEGNLGLIRAVEKFDYGKGFKFSTYATWWIRQAITR 192 Query: 116 YILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 I ++I T N Q +L L R + + ++VV I + Sbjct: 193 AIADQARTIRIPVHMVETINKVVRVQHQLHQQLGREPSVEEISSAAGFVGQRVVEIQRIA 252 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 E +S+ + +ES D+ + D +E + Sbjct: 253 R----EPVSLQSPIGEEES----------------DFGDFIEDSDAVAPVEAAAFTVLQE 292 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + L+ RERRI R +P TLE + EF V+RER+RQIEA+ K++ Sbjct: 293 QLGAILGGLSDRERRIIRLRFGMADGHPHTLEEVGREFGVTRERIRQIEAKTLAKLR 349 >gi|330448778|ref|ZP_08312425.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328492969|dbj|GAA06922.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 616 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q+ ++ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLQLPMDAAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 N R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 ATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|293604556|ref|ZP_06686961.1| DNA-directed RNA polymerase sigma subunit RpoD [Achromobacter piechaudii ATCC 43553] gi|292817137|gb|EFF76213.1| DNA-directed RNA polymerase sigma subunit RpoD [Achromobacter piechaudii ATCC 43553] Length = 770 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 531 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 590 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 591 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 645 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 646 PEDKIRKI-LKIA-KEPISMETPIGDDDDSHLGDFI---EDTSTLAPSDAALHGSMRDVV 700 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 701 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 755 >gi|157164653|ref|YP_001467098.1| RNA polymerase sigma factor RpoD [Campylobacter concisus 13826] gi|112799942|gb|EAT97286.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Campylobacter concisus 13826] Length = 617 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 124/237 (52%), Gaps = 15/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +G++ +TY+ WW Sbjct: 378 AKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYRKGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLN 167 I+ A+ I ++I + + R+ K + + + + +P+ V IAK++ Sbjct: 438 IRQAISRAIADQARTIRIPI-----HMIETINRINKINRKYLQEEGKEPD-VSVIAKEVG 491 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +S +V + SL A I +++ ++ D++ D I++ + + R Sbjct: 492 LSVDKVKQVIKITKEPISLEAPI--ANEEDGKFGDFV---EDKTSLSPIDQILKSDLREQ 546 Query: 228 LTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +S LN RE+ + R E+ TLE + V+RERVRQIE+ A KK++ Sbjct: 547 IDDVLSQLNEREKAVISMRFGLLEDESDRTLEEIGKALNVTRERVRQIESSAIKKLK 603 >gi|90580773|ref|ZP_01236576.1| RNA polymerase sigma factor [Vibrio angustum S14] gi|90438041|gb|EAS63229.1| RNA polymerase sigma factor [Vibrio angustum S14] Length = 616 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q+ ++ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLQLPMDAAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 N R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 ATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|114570679|ref|YP_757359.1| RNA polymerase sigma factor RpoD [Maricaulis maris MCS10] gi|114341141|gb|ABI66421.1| RNA polymerase, sigma 70 subunit, RpoD [Maricaulis maris MCS10] Length = 710 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 472 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 531 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 532 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 586 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 587 PLEKVRKV-MKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIQANLRETT 641 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 642 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 696 >gi|154173683|ref|YP_001408074.1| RNA polymerase sigma factor RpoD [Campylobacter curvus 525.92] gi|112802903|gb|EAU00247.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Campylobacter curvus 525.92] Length = 614 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 124/237 (52%), Gaps = 15/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ +G++ +TY+ WW Sbjct: 375 AKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYRKGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLN 167 I+ A+ I ++I + + R+ K + + + + +P+ V IAK++ Sbjct: 435 IRQAISRAIADQARTIRIPI-----HMIETINRINKINRKYLQEEGKEPD-VSVIAKEVG 488 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +S +V + SL A I +++ ++ D++ D IE+ + + R Sbjct: 489 LSVDKVKQVIKITKEPISLEAPI--ANEEDGKFGDFV---EDKSSLSPIEQILKGDLREQ 543 Query: 228 LTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +S LN RE+ + R E+ TLE + V+RERVRQIE+ A KK++ Sbjct: 544 IDDVLSQLNDREKAVICMRFGLLEDESDRTLEEIGKALNVTRERVRQIESSAIKKLK 600 >gi|58580221|ref|YP_199237.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzae KACC10331] gi|58424815|gb|AAW73852.1| RNA polymerase sigma-70 factor [Xanthomonas oryzae pv. oryzae KACC10331] Length = 629 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 379 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 438 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 439 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 496 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 497 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 538 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 539 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 598 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 599 RERIRQIEAKALRKLR 614 >gi|311105374|ref|YP_003978227.1| RNA polymerase sigma factor RpoD [Achromobacter xylosoxidans A8] gi|310760063|gb|ADP15512.1| RNA polymerase sigma factor RpoD [Achromobacter xylosoxidans A8] Length = 750 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 511 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 570 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 571 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 625 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 626 PEDKIRKI-LKIA-KEPISMETPIGDDDDSHLGDFI---EDTSTLAPSDAALHGSMRDVV 680 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 681 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 735 >gi|304391338|ref|ZP_07373282.1| RNA polymerase sigma factor RpoD [Ahrensia sp. R2A130] gi|303296694|gb|EFL91050.1| RNA polymerase sigma factor RpoD [Ahrensia sp. R2A130] Length = 692 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 116/239 (48%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 454 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 513 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ +R + L I E +A Sbjct: 514 IRQAITRSIADQARTIRIPVHMIETINKI-----VRTSRQMLHEIGREPTPEELSTKLAM 568 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L E + ++A E ++ D+ S D++ D + I+ + N Sbjct: 569 PL-----EKVRKVLKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNL 619 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 620 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 678 >gi|297622151|ref|YP_003710288.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila WSU 86-1044] gi|297377452|gb|ADI39282.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila WSU 86-1044] Length = 555 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 116/236 (49%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 313 AKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 372 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R L T PE+ +A +L + Sbjct: 373 IRQAVTRAIADQARTIRI--PVHMIETINKVLRGAKKLMMETGREPTPEE---LANELGL 427 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S + + SL A + D SQ+ D+L D E ++ + Sbjct: 428 SAERIREIYKIAQHPISLQAEV--GDGGESQFGDFL---EDTGADSPAEATGYSILKDKM 482 Query: 229 TRSMSVLNPRERRIFEARRLQEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RER++ +R N P TLE + EF V+RER+RQIEA+A +K++ Sbjct: 483 NEVLLTLTDRERKVL-IQRFGLNDGKPKTLEEVGVEFNVTRERIRQIEAKALRKMR 537 >gi|255325126|ref|ZP_05366232.1| RNA polymerase major sigma subunit [Corynebacterium tuberculostearicum SK141] gi|311739588|ref|ZP_07713423.1| RNA polymerase sigma factor rpoD [Corynebacterium pseudogenitalium ATCC 33035] gi|255297691|gb|EET77002.1| RNA polymerase major sigma subunit [Corynebacterium tuberculostearicum SK141] gi|311305404|gb|EFQ81472.1| RNA polymerase sigma factor rpoD [Corynebacterium pseudogenitalium ATCC 33035] Length = 490 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y +H GD Sbjct: 172 RKDAQLTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAQHRMDEMEKARAEGD 230 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 +A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 231 KAAKLSPMEKRDLRSIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 290 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 291 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 348 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 349 LQDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 401 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L ++ L+ RE + R L + P TL+ + + V Sbjct: 402 -EDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 460 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 461 TRERIRQIESKTMSKLRHPSRSQV 484 >gi|93005952|ref|YP_580389.1| sigma 70 (RpoD) [Psychrobacter cryohalolentis K5] gi|92393630|gb|ABE74905.1| sigma 70 (RpoD) [Psychrobacter cryohalolentis K5] Length = 648 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 409 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 468 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ L PE+ + ++L + Sbjct: 469 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEE---LGERLEM 523 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E++V + ++A E ++ D S D++ DG ++ R Sbjct: 524 DEAKVRKV-LKIAK-EPISMETPIGDDEDSHLGDFI---EDGTISSPVDDATAAGLREAT 578 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE R+ + R + P TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 579 RDVLGNLTEREARVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 633 >gi|257464575|ref|ZP_05628946.1| RNA polymerase sigma factor RpoD [Actinobacillus minor 202] gi|257450235|gb|EEV24278.1| RNA polymerase sigma factor RpoD [Actinobacillus minor 202] Length = 621 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/285 (28%), Positives = 142/285 (49%), Gaps = 26/285 (9%) Query: 11 NGEIGLSRYIHEIR----KIPMLEKQEEYVLAKRYRE------HGDLSA---AHRLVTSH 57 G L+ Y+ +IR + LE+Q +A+ RE +G+L A +V ++ Sbjct: 333 GGAPKLANYVEKIRINIVNLQNLEQQSGLTIAQ-IREIGGRIANGELKARRAKKEMVEAN 391 Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 392 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 451 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 ++I + L R+ PE+ +A+++N+ E ++ + Sbjct: 452 ADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMNMPEDKIRKV- 505 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 ++A E ++ D + S D++ D ++ ++ ++ R + L P Sbjct: 506 LKIAK-EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRIATNEVLEGLTP 561 Query: 238 RERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 RE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 562 REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 606 >gi|118618666|ref|YP_906998.1| RNA polymerase sigma factor [Mycobacterium ulcerans Agy99] gi|118570776|gb|ABL05527.1| RNA polymerase sigma factor SigA [Mycobacterium ulcerans Agy99] Length = 501 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + G+ L Sbjct: 189 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAELTDRGEKLP 247 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 248 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 307 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 308 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 365 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 366 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 417 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 418 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 477 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 478 QIESKTMSKLRHPSRSQV 495 >gi|289667862|ref|ZP_06488937.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 624 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 374 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 433 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 434 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 491 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 492 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 533 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 534 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 593 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 594 RERIRQIEAKALRKLR 609 >gi|289664793|ref|ZP_06486374.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 624 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 374 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 433 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 434 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 491 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 492 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 533 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 534 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 593 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 594 RERIRQIEAKALRKLR 609 >gi|260753821|ref|YP_003226714.1| RNA polymerase sigma factor RpoD [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|258553184|gb|ACV76130.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 671 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 121/236 (51%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A++L++ Sbjct: 493 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQILHEIGREPTPEE---LAERLSM 547 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V + ++A + SL I D+ S D++ D + ++ + N + Sbjct: 548 PLEKVRKV-MKIAKEPISLETPI--GDEEDSHLGDFI---EDKNAIIPVDAAIQANLKET 601 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 602 VTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|89075585|ref|ZP_01161990.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] gi|89048725|gb|EAR54297.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] Length = 616 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q+ ++ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLQLPMDAAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 N R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 ATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|166713725|ref|ZP_02244932.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzicola BLS256] Length = 624 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 121/256 (47%), Gaps = 32/256 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 374 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 433 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 434 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREATPE 491 Query: 158 QVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + +AK++++ E ++ ISM + DE S D++ Sbjct: 492 E---LAKEMDMPEDKIRKVMKIAKEPISMETPIGDDE------------DSHLGDFI--- 533 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVS 265 D + I+ N + ++ L PRE ++ R + N TLE + +F+V+ Sbjct: 534 EDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 593 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 594 RERIRQIEAKALRKLR 609 >gi|257469126|ref|ZP_05633220.1| RpoD family RNA polymerase sigma factor [Fusobacterium ulcerans ATCC 49185] Length = 116 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 45/103 (43%), Positives = 72/103 (69%), Gaps = 1/103 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +IRK +L+K EE L + + GD A ++L+ S+LRLVV IA GY GL Sbjct: 7 ISLYLADIRKYKILDKDEELNLLIKAK-AGDEEAKNQLILSNLRLVVNIAKGYINKGLSF 65 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 +++SEGN+GL+ A++KFD +GFR +TY++WWIK ++ + ++ Sbjct: 66 IDLISEGNLGLIYAIEKFDITKGFRFSTYAVWWIKQSISKAVI 108 >gi|324997280|ref|ZP_08118392.1| RNA polymerase sigma factor [Pseudonocardia sp. P1] Length = 469 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 79/318 (24%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR--------------YREHGDLS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR + + LS Sbjct: 157 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYGAERIRKLFESNDKLS 215 Query: 49 ----------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 216 PQMRRDLRWIVRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 275 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 276 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 333 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 334 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 385 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L ++ L+ RE + R P TL+ + + V+RER+R Sbjct: 386 VVAVDAVSFTLLQDQLQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 445 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 446 QIESKTMSKLRHPSRSQV 463 >gi|218528655|ref|YP_002419471.1| RNA polymerase sigma factor RpoD [Methylobacterium chloromethanicum CM4] gi|240137186|ref|YP_002961655.1| sigma D (sigma 70) factor of RNA polymerase [Methylobacterium extorquens AM1] gi|218520958|gb|ACK81543.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium chloromethanicum CM4] gi|240007152|gb|ACS38378.1| sigma D (sigma 70) factor of RNA polymerase [Methylobacterium extorquens AM1] Length = 666 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 488 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 542 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 543 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 597 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|317063372|ref|ZP_07927857.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] gi|313689048|gb|EFS25883.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] Length = 118 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 45/103 (43%), Positives = 72/103 (69%), Gaps = 1/103 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S Y+ +IRK +L+K EE L + + GD A ++L+ S+LRLVV IA GY GL Sbjct: 9 ISLYLADIRKYKILDKDEELNLLIKAK-AGDEEAKNQLILSNLRLVVNIAKGYINKGLSF 67 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 +++SEGN+GL+ A++KFD +GFR +TY++WWIK ++ + ++ Sbjct: 68 IDLISEGNLGLIYAIEKFDITKGFRFSTYAVWWIKQSISKAVI 110 >gi|258545971|ref|ZP_05706205.1| DNA-directed RNA polymerase, sigmasubunit [Cardiobacterium hominis ATCC 15826] gi|258518776|gb|EEV87635.1| DNA-directed RNA polymerase, sigmasubunit [Cardiobacterium hominis ATCC 15826] Length = 617 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 112/242 (46%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ +TY+ WW Sbjct: 379 AKEEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ L PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRTLVQKNGREPTPEELAEAMDMPEE 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L ++ E ISM + DE S D++ D +E Sbjct: 497 KIRKVLKIA-KEPISMETPIGDDE------------DSHLGDFI---EDSNVMSPLEAAT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + ++ L PRE R+ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 TRGLSEATNEVLASLTPREERVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALR 600 Query: 279 KV 280 K+ Sbjct: 601 KL 602 >gi|56552519|ref|YP_163358.1| RNA polymerase sigma factor RpoD [Zymomonas mobilis subsp. mobilis ZM4] gi|241762241|ref|ZP_04760323.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|56544093|gb|AAV90247.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis ZM4] gi|241373288|gb|EER62907.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis ATCC 10988] Length = 671 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A++L++ Sbjct: 493 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQILHEIGREPTPEE---LAERLSM 547 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N + + Sbjct: 548 PLEKVRKV-MKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAIIPVDAAIQANLKETV 602 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 603 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 657 >gi|288920765|ref|ZP_06415065.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] gi|288347841|gb|EFC82118.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] Length = 425 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 87/294 (29%), Positives = 137/294 (46%), Gaps = 60/294 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREHG-------------DL--------SAAHR 52 Y+ EI K+P+L +E L+KR + EH DL +A + Sbjct: 132 YLREIGKVPLLNAAQEVELSKRVEAGLFAEHKLETDEGLAEDLRRDLGLLVTDGQAAKQQ 191 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 192 LVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWWIRQA 251 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I T Q++L L R + + ++ EQVV Sbjct: 252 IGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELAFELDMPIEQVV--- 308 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + +S+ + GD L I SD S D Y G Q I+ Sbjct: 309 -ELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSP--ADAASY---GAMQDEID---- 358 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 N+L LNPRER + R L + TL + + ++RER+RQIE Sbjct: 359 ----NVL----GALNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIE 404 >gi|254559198|ref|YP_003066293.1| sigma D factor of RNA polymerase [Methylobacterium extorquens DM4] gi|254266476|emb|CAX22240.1| sigma D (sigma 70) factor of RNA polymerase [Methylobacterium extorquens DM4] Length = 666 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 488 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 542 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 543 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 597 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|1905967|gb|AAC45085.1| RNA polymerase sigma 80 subunit [Bordetella pertussis 18323] Length = 733 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 494 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 553 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 554 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 608 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 609 PEDKIRKI-LKIAK-EPISMETPIGDDDDSHLGDFI---EDTATLAPSDAALHGSMRDVV 663 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 664 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 718 >gi|118581452|ref|YP_902702.1| RpoD family RNA polymerase sigma factor [Pelobacter propionicus DSM 2379] gi|118504162|gb|ABL00645.1| RNA polymerase, sigma 70 subunit, RpoD [Pelobacter propionicus DSM 2379] Length = 582 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 124/239 (51%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 345 AKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 404 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N + ++ Q + +N +P IA+ Sbjct: 405 IRQAITRAIADQARTIRIPVHMIETIN--------KLIRTSRQLVQENGREPAP-EEIAE 455 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 ++ + +V + ++A E ++ ++ S D++ D IE + N Sbjct: 456 RMQLPLDKVRKV-LKIA-KEPISLETPIGEEEDSHLGDFI---EDKAVISPIEAVIKANL 510 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +R +S L PRE ++ R +++ TLE + +F V+RER+RQIEA+A +K++ Sbjct: 511 SEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFAVTRERIRQIEAKALRKLR 569 >gi|188579854|ref|YP_001923299.1| RNA polymerase sigma factor RpoD [Methylobacterium populi BJ001] gi|179343352|gb|ACB78764.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium populi BJ001] Length = 667 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 489 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 543 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 544 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 598 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 653 >gi|220927258|ref|YP_002502560.1| RNA polymerase sigma factor RpoD [Methylobacterium nodulans ORS 2060] gi|219951865|gb|ACL62257.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium nodulans ORS 2060] Length = 665 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 427 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 487 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 541 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 542 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 596 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 597 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 651 >gi|227504950|ref|ZP_03934999.1| RNA polymerase major sigma subunit [Corynebacterium striatum ATCC 6940] gi|227198459|gb|EEI78507.1| RNA polymerase major sigma subunit [Corynebacterium striatum ATCC 6940] Length = 465 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRY----------------REHGD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR R GD Sbjct: 147 RKDAQLTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAQYRMDEMEKARAEGD 205 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 +A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 206 KAAKLSPMEKRDLRSIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 265 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 266 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 323 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + D +P + +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 324 --LQDLGREPTP-IELAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 376 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L ++ L+ RE + R L + P TL+ + + V Sbjct: 377 -EDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 435 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 436 TRERIRQIESKTMSKLRHPSRSQV 459 >gi|124023660|ref|YP_001017967.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123963946|gb|ABM78702.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 313 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/297 (26%), Positives = 146/297 (49%), Gaps = 44/297 (14%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-------------------------AA 50 +S Y+ I +IP+L EE L + + L+ A Sbjct: 20 VSWYLTTIGRIPLLTPAEEIELGNQVQTMMSLTQDGSVAPDDKEFTTHQRRMIRIGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGHLQAITDNNLKPEQVVAIAKKL 166 +M I +++ +++ +R+ L L A+ + IA+ + Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVSLDLAHKLGAMPSRS-------EIAEAM 190 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ E+ S+ + SL+A +N + S + L+ D E ++K E++ Sbjct: 191 DIPVDELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADSSLGEP--LDKVEQRIHHE 246 Query: 227 MLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R +S L+ +E+ + + R E + TL + EVSRERVRQ+E +A +K++ Sbjct: 247 QLGRWLSHLSEQEQHVLKLRFGLETHDRHTLAEIGRLMEVSRERVRQVELKALRKLR 303 >gi|258592807|emb|CBE69116.1| RNA polymerase sigma factor RpoS [NC10 bacterium 'Dutch sediment'] Length = 286 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 87/282 (30%), Positives = 146/282 (51%), Gaps = 42/282 (14%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+ I ++P+L+K+EE L K + GD A +LV ++LR VVK+A+ YRG GL Sbjct: 17 ALGAYLKRIAQVPLLKKEEELKLGK-ATQRGDEKALKQLVEANLRFVVKVALRYRGCGLS 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGNIGL++A +++ P+ + TY++WWI+ A+ + + S V++ + R Sbjct: 76 LPDLINEGNIGLLEAARRYSPDYNVKFITYAVWWIRQAIMQALAISGGAVRL--PLRKAR 133 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L L ++ L L+ E + + ++L++S S++ R AG Sbjct: 134 LASQLDDVRADLS----QQLQAEPTDSEVTEELDLSASDLEGALHR-AG----------- 177 Query: 194 DKNSSQWQDWLVYDHDGQEQ----VLIEKEE---------RKNRRNMLTRSMSVLNPRER 240 Q + D G EQ L E ++ R++ R + R + LN RER Sbjct: 178 -------QLAFLSDEIGLEQRIGMELYESKQLPPADYELIRRSLREEVERMLRSLNDRER 230 Query: 241 RIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 I E R +E +TL+ + ++SRERVRQIE RA +K+ Sbjct: 231 LIVELRFGLGKEEAMTLKEVGKRLKLSRERVRQIEERAKQKL 272 >gi|148657263|ref|YP_001277468.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148569373|gb|ABQ91518.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 345 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 88/291 (30%), Positives = 139/291 (47%), Gaps = 40/291 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLA----------KRYREHGDLSAAHRL--------------- 53 Y+ EI ++ +L +EE LA +R + H S A RL Sbjct: 52 YLREIGQVSLLSAEEEITLANDIRAGREAQERLKSHRFESLAERLLLERRVMQAEEARRR 111 Query: 54 -VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA Y G L ++V EGNIGLM+AV+KFD +G R +TY+ WWI+ A Sbjct: 112 LIQANLRLVVSIAKKYIGGPLSFMDLVQEGNIGLMRAVEKFDAGKGNRFSTYATWWIRQA 171 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSES 171 + I L+++ + + LRR+ L+ +L+ E V IA +++ E Sbjct: 172 ITRAIAEQSRLIRLPVHLSD--VIAQLRRVARRLE----QSLEREPTVEEIAAAIDMPEH 225 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +V + A SL I S + L+ D D +E R+ ++ L ++ Sbjct: 226 KVKLLLQASAQPISLEQPITSDGEGQIS---ELLADDDA--DAPMEIATRRMLQHDLAQA 280 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 + L RER + + R + TLE + S F ++RER RQIEA A +++ Sbjct: 281 LMELPDRERAVLQLRYGLTDGRRRTLEEVGSAFGITRERTRQIEADALRQL 331 >gi|87301096|ref|ZP_01083937.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87284064|gb|EAQ76017.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 308 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 83/301 (27%), Positives = 143/301 (47%), Gaps = 48/301 (15%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDL---------------------SAA 50 G +S Y+ I ++P+L EE L + + L A Sbjct: 15 GSDPISWYLGTIGRVPLLTPAEEIELGNQVQAMMQLIDSGVEDPPSLRQKQLLRLGRRAK 74 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 75 ERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 134 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK-PEQVVAIAKKLNVS 169 +M I A Q R L L A+ +L+ ++ A+ + ++ Sbjct: 135 QSMTRAI------------ACQSRTIRLPVHLSERLSAVRRVSLELAHKLGAMPSRSEIA 182 Query: 170 ESEVISMNCRLAG-------DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 E+ I + L G SL+A +N + S + L+ D E +++ ER Sbjct: 183 EAMAIPIQ-ELDGLLRQSLTTSSLDAPVNGEEGRS--FLGDLIADSSHDEP--LDQVERG 237 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 L R +S L+ +ER++ + R + TL + +VSRERVRQ+E +A +K+ Sbjct: 238 MHHEQLERWLSYLSEQERQVLDLRFGLDGHERHTLAEIGRLLDVSRERVRQVELKALRKL 297 Query: 281 Q 281 + Sbjct: 298 R 298 >gi|304322159|ref|YP_003855802.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] gi|303301061|gb|ADM10660.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] Length = 650 Score = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 412 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 471 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE++ A KL++ Sbjct: 472 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQILNEIGREPTPEELAA---KLSM 526 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 527 PLEKVRKV-MKIAK-EPISLETPIGDEEDSHLGDFI---EDKNAILPIDAAIQSNLRETT 581 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 582 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 636 >gi|219558712|ref|ZP_03537788.1| RNA polymerase sigma factor [Mycobacterium tuberculosis T17] Length = 530 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/319 (25%), Positives = 151/319 (47%), Gaps = 45/319 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR---------------------- 40 RK+ + + + + Y+ +I K+ +L +EE LAKR Sbjct: 218 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 276 Query: 41 ---YRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 +R+ GD + H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+ Sbjct: 277 GIHHRDMMWICRDGDRAKNH-LLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 335 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 336 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLG 393 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 394 REPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSE 445 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 V ++ ++ L + L+ RE + R P TL+ + + V+RER+ Sbjct: 446 AVVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERI 505 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE++ K++ + QV Sbjct: 506 RQIESKTMSKLRHPSRSQV 524 >gi|300933014|ref|ZP_07148270.1| RNA polymerase sigma factor [Corynebacterium resistens DSM 45100] Length = 571 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 81/302 (26%), Positives = 149/302 (49%), Gaps = 42/302 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------YR-----EHGD-LSAAHR------------ 52 Y+ +I K+ +L ++E LAKR YR E G+ LS HR Sbjct: 274 YLKQIGKVALLNAEQEVSLAKRIEAGLYAAYRLQEIKESGEKLSPMHRRDLREIERDGRR 333 Query: 53 ----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 334 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYVKGYKFSTYATWW 393 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I + + L R++ L PE+ +A+++++ Sbjct: 394 IRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPSPEE---LAREMDI 448 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V+ + SL+ I D+ SQ D++ D + V ++ ++ L Sbjct: 449 TVDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFTLLQDQL 503 Query: 229 TRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L+ RE + + R L + P TL+ + + V+RER+RQIE++ K++ + Sbjct: 504 QDVLHTLSDREAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 563 Query: 287 QV 288 QV Sbjct: 564 QV 565 >gi|71282406|ref|YP_270983.1| RNA polymerase sigma-70 factor [Colwellia psychrerythraea 34H] gi|71148146|gb|AAZ28619.1| RNA polymerase sigma-70 factor [Colwellia psychrerythraea 34H] Length = 616 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPEELAERMVMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ DG ++ ++ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDGSGELPVDSAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 +N + ++ L RE ++ R + TLE + +F+V+RER+RQIEA+A + Sbjct: 539 SENLKGATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|296284010|ref|ZP_06862008.1| RNA polymerase sigma factor RpoD [Citromicrobium bathyomarinum JL354] Length = 667 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 120/247 (48%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKP---- 156 I+ A+ I ++I T N+ R F + + + + + + P Sbjct: 489 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKV 548 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V+ IAK E IS+ + D+ S D++ D + + Sbjct: 549 RKVMKIAK-------EPISLETPIG------------DEEDSHLGDFI---EDKNAIIPV 586 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + + N + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA Sbjct: 587 DAAIQSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 646 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 647 KALRKLK 653 >gi|33597397|ref|NP_885040.1| RNA polymerase sigma factor RpoD [Bordetella parapertussis 12822] gi|33573824|emb|CAE38132.1| RNA polymerase sigma factor 70 [Bordetella parapertussis] Length = 760 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 521 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 580 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 581 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 635 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 636 PEDKIRKI-LKIA-KEPISMETPIGDDDDSHLGDFI---EDTATLAPSDAALHGSMRDVV 690 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 691 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 745 >gi|33602137|ref|NP_889697.1| RNA polymerase sigma factor RpoD [Bordetella bronchiseptica RB50] gi|33576575|emb|CAE33653.1| RNA polymerase sigma factor 70 [Bordetella bronchiseptica RB50] Length = 722 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 483 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 542 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 543 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 597 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 598 PEDKIRKI-LKIAK-EPISMETPIGDDDDSHLGDFI---EDTATLAPSDAALHGSMRDVV 652 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 653 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 707 >gi|332185826|ref|ZP_08387573.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. S17] gi|332014184|gb|EGI56242.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. S17] Length = 671 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 120/247 (48%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 433 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 492 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKP---- 156 I+ A+ I ++I T N+ R F + + + + + + P Sbjct: 493 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKV 552 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V+ IAK E IS+ + D+ S D++ D + + Sbjct: 553 RKVMKIAK-------EPISLETPIG------------DEEDSHLGDFI---EDKNAVIPV 590 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + + N + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA Sbjct: 591 DAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 650 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 651 KALRKLK 657 >gi|289570879|ref|ZP_06451106.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T17] gi|289544633|gb|EFD48281.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T17] Length = 528 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/319 (25%), Positives = 151/319 (47%), Gaps = 45/319 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR---------------------- 40 RK+ + + + + Y+ +I K+ +L +EE LAKR Sbjct: 216 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 274 Query: 41 ---YRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 +R+ GD + H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+ Sbjct: 275 GIHHRDMMWICRDGDRAKNH-LLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 333 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 334 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLG 391 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 392 REPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSE 443 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 V ++ ++ L + L+ RE + R P TL+ + + V+RER+ Sbjct: 444 AVVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERI 503 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE++ K++ + QV Sbjct: 504 RQIESKTMSKLRHPSRSQV 522 >gi|520418|gb|AAA50747.1| major sigma factor [Chlamydophila psittaci] Length = 571 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 428 ELGLTPDRVREIYKIAQHPISLQAEVGEGGESS--FGDFL-------EDTGVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|326387391|ref|ZP_08209000.1| RNA polymerase sigma factor RpoD [Novosphingobium nitrogenifigens DSM 19370] gi|326208047|gb|EGD58855.1| RNA polymerase sigma factor RpoD [Novosphingobium nitrogenifigens DSM 19370] Length = 667 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 120/247 (48%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKP---- 156 I+ A+ I ++I T N+ R F + + + + + + P Sbjct: 489 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKV 548 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V+ IAK E IS+ + D+ S D++ D + + Sbjct: 549 RKVMKIAK-------EPISLETPIG------------DEEDSHLGDFI---EDKNAIIPV 586 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + + N + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA Sbjct: 587 DAAIQSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 646 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 647 KALRKLK 653 >gi|237803044|ref|YP_002888238.1| RNA polymerase sigma factor [Chlamydia trachomatis B/Jali20/OT] gi|231274278|emb|CAX11073.1| RNA polymerase sigma factor [Chlamydia trachomatis B/Jali20/OT] Length = 571 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 117/247 (47%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ + + Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LGE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + V + SL A + D S + D+L E +E Sbjct: 428 ELGFTPDRVREIYKIAQHPISLQAEVG--DGGESSFGDFL-------EDTAVESPAEVTG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|226355184|ref|YP_002784924.1| RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] gi|226317174|gb|ACO45170.1| putative RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] Length = 399 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 81/295 (27%), Positives = 137/295 (46%), Gaps = 38/295 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYRE----------HGDLSAAHR------------- 52 L +Y+HEI +I +L EE LA+RY E + DL HR Sbjct: 100 LRQYLHEIGQIELLSAVEEMDLARRYEEGEAARNELESNPDLDDRHRRHLQRLVEDGEAA 159 Query: 53 ---LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L ++LRLVV IA Y GL + +++ EGN GL++AV+KF+ RG++ +TY+ WWI Sbjct: 160 KKSLTEANLRLVVSIAKKYANRGLNLLDLIQEGNQGLIRAVEKFEYRRGYKFSTYATWWI 219 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNNLKPEQVVAIAKKLNV 168 + A+ I +++ + L R+ L+ ++ L E A+ + Sbjct: 220 RQALTRAIADKSRTIRV--PVHMVETINKLSRISRQLEMELSREPLAEEMAEAMGPGWDA 277 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + + G E ++ D+ S + D+L + G ++ + L Sbjct: 278 EK----VTDTQKVGHEPISLETPIGDEGDSFYGDFLPDERFGSP---VQNASQTLLSEAL 330 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++S L RE + + R + TLE + V+RERVRQIE++A +K++ Sbjct: 331 ERALSSLGEREALVLKLRNGFVDGREHTLEEVGQLLSVTRERVRQIESKALRKLK 385 >gi|170747007|ref|YP_001753267.1| RNA polymerase sigma factor RpoD [Methylobacterium radiotolerans JCM 2831] gi|170653529|gb|ACB22584.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium radiotolerans JCM 2831] Length = 659 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 421 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 480 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 481 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 535 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 536 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 590 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 591 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 645 >gi|152656|gb|AAA26473.1| sigma factor [Stigmatella aurantiaca] Length = 706 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 127/242 (52%), Gaps = 26/242 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 468 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 527 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ L R +L PE+ IA+ Sbjct: 528 IRQAITRAIADQARTIRIPVHMIETINK------LIRTSRYLVQEIGREPTPEE---IAE 578 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 K+ + +V + ++A E ++ ++ S D++ +++ L+ + Sbjct: 579 KMELPLDKVRKV-LKIAK-EPISLETPIGEEEDSHLGDFI------EDKSLVSPADAVIN 630 Query: 225 RNMLTRS---MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 N+ R+ ++ L PRE ++ R +++ TLE + +FEV+RER+RQIEA+A +K Sbjct: 631 MNLAARTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRK 690 Query: 280 VQ 281 ++ Sbjct: 691 LR 692 >gi|33593188|ref|NP_880832.1| RNA polymerase sigma factor RpoD [Bordetella pertussis Tohama I] gi|33563563|emb|CAE42462.1| RNA polymerase sigma factor 70 [Bordetella pertussis Tohama I] gi|332382599|gb|AEE67446.1| RNA polymerase sigma factor RpoD [Bordetella pertussis CS] Length = 760 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 121/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 521 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 580 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+++ Sbjct: 581 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAQKMDM 635 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 636 PEDKIRKI-LKIA-KEPISMETPIGDDDDSHLGDFI---EDTATLAPSDAALHGSMRDVV 690 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 691 KEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLR 745 >gi|29840756|ref|NP_829862.1| RNA polymerase sigma factor [Chlamydophila caviae GPIC] gi|29835106|gb|AAP05740.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila caviae GPIC] Length = 572 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 428 ELGLTPDRVREIYKIAQHPISLQAEVGEGGESS--FGDFL-------EDTGVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|294011419|ref|YP_003544879.1| RNA polymerase primary sigma factor [Sphingobium japonicum UT26S] gi|292674749|dbj|BAI96267.1| RNA polymerase primary sigma factor [Sphingobium japonicum UT26S] Length = 681 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 120/247 (48%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 443 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 502 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKP---- 156 I+ A+ I ++I T N+ R F + + + + + + P Sbjct: 503 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKV 562 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V+ IAK E IS+ + D+ S D++ D + + Sbjct: 563 RKVMKIAK-------EPISLETPIG------------DEEDSHLGDFI---EDKNAIIPV 600 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + + N + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA Sbjct: 601 DAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 660 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 661 KALRKLK 667 >gi|163850052|ref|YP_001638095.1| RNA polymerase sigma factor RpoD [Methylobacterium extorquens PA1] gi|163661657|gb|ABY29024.1| RNA polymerase sigma factor RpoD [Methylobacterium extorquens PA1] Length = 718 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 480 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 539 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 540 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 594 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 595 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 649 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 650 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 704 >gi|255531277|ref|YP_003091649.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|255344261|gb|ACU03587.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 286 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 74/277 (26%), Positives = 142/277 (51%), Gaps = 33/277 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 + +Y+++I +I +L +EE VLA++ R+ GD SA RLV ++LR VV +A Y+ G+ + Sbjct: 18 IEKYLYDIARIDLLSVEEEIVLAQKIRK-GDQSALDRLVKANLRFVVSVAKKYQNQGIRL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 S++++EGN+GL++A ++FD +GF+ ++++WWI+ ++ I +V++ ANQ Sbjct: 77 SDLIAEGNLGLIKAAQRFDETKGFKFISFAVWWIRQSIMIAIAEQKRIVRL--PANQIGG 134 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI----------SMNCRLAGDES 185 + + L+ + E+V + + E +V+ S++ +A +ES Sbjct: 135 IMKINKAMADLEQQLERVPSLEEVCEF---IELPEEKVVDYLHHAPMTTSLDTVIA-EES 190 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L + + + + D V H V ++ + R M L RE+ I Sbjct: 191 GFTLAETIEDTNVEKTDTTVLQH----SVTVD----------VKRLMRGLPEREKEILSM 236 Query: 246 -RRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKV 280 L P + L+ + + + +ERVRQI+ +A K + Sbjct: 237 FYGLGGYPAIGLDEIGGKMNLGKERVRQIKDKALKTL 273 >gi|254423226|ref|ZP_05036944.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196190715|gb|EDX85679.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 431 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 124/236 (52%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ WW Sbjct: 192 AKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWW 251 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L ++K + I+ + + IAK+L++ Sbjct: 252 IRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQTQGRTAKAEDIAKELDM 306 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +++ + ++ SL+ + ++ D L + E L+ + ++ +L Sbjct: 307 TVAQIREVLLKVPRSVSLDTKVGKD--RDTELGDLLETEDISPEDRLMRESLKRELHQLL 364 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 T L RE+ + R ++ P +L + E+SRERVRQIE++A +K+++ Sbjct: 365 TD----LTTREQEVITLRFGLDDGVPYSLAEIGRTLELSRERVRQIESKALQKLRQ 416 >gi|256375646|ref|YP_003099306.1| RNA polymerase sigma factor [Actinosynnema mirum DSM 43827] gi|255919949|gb|ACU35460.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 435 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 82/320 (25%), Positives = 151/320 (47%), Gaps = 47/320 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL--------- 53 RK+ + + + + Y+ +I K+ +L +EE LAKR E G L AA RL Sbjct: 123 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRI-EAG-LYAAERLRRAEDESEK 179 Query: 54 -----------------------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 + ++LRLVV +A Y G G+ +++ EGN+GL++AV Sbjct: 180 LTPQMRRDLRWIVRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAV 239 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 +KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 240 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDL 297 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D Sbjct: 298 GREPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDS 349 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRER 268 + V ++ ++ L ++ L+ RE + R P TL+ + + V+RER Sbjct: 350 EAVVAVDAVSFTLLQDQLQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRER 409 Query: 269 VRQIEARAFKKVQESIQKQV 288 +RQIE++ K++ + QV Sbjct: 410 IRQIESKTMSKLRHPSRSQV 429 >gi|307155201|ref|YP_003890585.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306985429|gb|ADN17310.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 295 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/287 (27%), Positives = 142/287 (49%), Gaps = 38/287 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLA-------------------KRYREHGDLSAAHRLVTSHLR 59 Y+ EI + P+L Q+E LA KR + G A +++ ++LR Sbjct: 12 YLQEIGRTPLLNAQQEIELATQVQKMMALIDKENPTPEEKRIIQQGK-RAKRKMINANLR 70 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 LVV IA Y+ GL +++ EG+IGL++ V+KFDP +G++ +TY+ WWI+ AM I Sbjct: 71 LVVSIAKKYQRRGLSFLDLIQEGSIGLIRGVEKFDPSKGYKFSTYAYWWIRQAMTRAIAD 130 Query: 120 SWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNNLKP-EQVVAIAKKLNVSESEVISM 176 +++ + T + +L R+L G L +P EQ +A A +L++ E I Sbjct: 131 QSRTIRLPSHLTESLNKLKRVTRQLTGEL------GRRPTEQELANALELSLHELHAIRQ 184 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 SLN + + ++ ++ L + + + + E R+M+ + L Sbjct: 185 ADHRTRSYSLNMKM---EDEQTELEELLADNSETPNDFVAQIE----LRSMVDELLESLP 237 Query: 237 PRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 PR++ I R +N ++LE + + +SRERVRQ++ RA + ++ Sbjct: 238 PRQQEIIALRYGLKNGRQMSLEEVGNYCNLSRERVRQLQNRAMRTLK 284 >gi|89897819|ref|YP_514929.1| RNA polymerase sigma factor [Chlamydophila felis Fe/C-56] gi|89331191|dbj|BAE80784.1| DNA-directed RNA polymerase sigma 70 [Chlamydophila felis Fe/C-56] Length = 570 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 315 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 374 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 375 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 425 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 426 ELGLTPDRVREIYKIAQHPISLQAEVGEGGESS--FGDFL-------EDTGVESPAEATG 476 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 477 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 536 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 537 KMRHPIR 543 >gi|293977922|ref|YP_003543352.1| sigma-70 family RNA polymerase sigma factor [Candidatus Sulcia muelleri DMIN] gi|292667853|gb|ADE35488.1| RNA polymerase sigma factor, sigma-70 family [Candidatus Sulcia muelleri DMIN] Length = 342 Score = 94.7 bits (234), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LR V+ IA Y+ GL +S++++EGN GL++ + +FD +GF+ +Y +WW Sbjct: 105 ALDNLVKANLRFVISIAKQYQNQGLSLSDLINEGNFGLIKGINRFDERKGFKCISYCVWW 164 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ + I V+ T K F+N ++ + P + I+ LNV Sbjct: 165 IRQSILQAISDKARCVRYPTN---KLAFYN--KVNKTYSKLEQKLKMPPSIKYISDYLNV 219 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE +V SL+A + D +S D + D + +EKE + +L Sbjct: 220 SEKDVEEALINSIKHTSLDAPLGEGD--NSNLYDVIKIDESPKTDHSLEKESLQQDIKIL 277 Query: 229 TRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++S RE +I L + LE ++ +++RER RQIE A K++++S +K+ Sbjct: 278 LETLS---ERESQIITLHYGLGCFSMNLEKIAYLLKLTRERCRQIEMHAIKRLKKSSRKE 334 Query: 288 VELS 291 + LS Sbjct: 335 ILLS 338 >gi|23008120|ref|ZP_00049697.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 307 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 69 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 128 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 129 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 183 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 184 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 238 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 239 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 293 >gi|328915181|gb|AEB56014.1| transcription initiation factor sigma 70 [Chlamydophila psittaci 6BC] Length = 561 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 307 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 366 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 367 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 417 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 418 ELGLTPDRVREIYKIAQHPISLQAEVGEGGESS--FGDFL-------EDTGVESPAEATG 468 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 469 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 528 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 529 KMRHPIR 535 >gi|288818771|ref|YP_003433119.1| RNA polymerase sigma factor RpoD [Hydrogenobacter thermophilus TK-6] gi|288788171|dbj|BAI69918.1| RNA polymerase sigma factor RpoD [Hydrogenobacter thermophilus TK-6] gi|308752357|gb|ADO45840.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hydrogenobacter thermophilus TK-6] Length = 570 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 115/251 (45%), Gaps = 44/251 (17%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V +LRLVV IA Y GL +++ EGNIGLM+AV K+D +G++ +TY+ WW Sbjct: 333 AKQVMVKCNLRLVVSIAKKYVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWW 392 Query: 109 IKAAMQEYILRSWSLVKI---------GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T K+LF L R PE++ Sbjct: 393 IRQAITRAIADQARTIRIPVHMIETINDITKAHKKLFQELGR-----------EPFPEEI 441 Query: 160 -------VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 V A+K+ + E IS+ + DE + DK+ +E Sbjct: 442 AKYLGISVEKARKVMRTSQEPISLETPIGDDEETHLKDFIEDKSVLS----------PEE 491 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVR 270 QV RK R L + +S L +E+ I R + TLE + F V+RER+R Sbjct: 492 QV-----SRKLLREQLIKVLSTLGEKEKEILMYRYGLVDGTEYTLEQIGKMFNVTRERIR 546 Query: 271 QIEARAFKKVQ 281 QIE +A +K++ Sbjct: 547 QIETKAIRKLR 557 >gi|240948851|ref|ZP_04753207.1| RNA polymerase sigma factor RpoD [Actinobacillus minor NM305] gi|240296666|gb|EER47277.1| RNA polymerase sigma factor RpoD [Actinobacillus minor NM305] Length = 621 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/280 (28%), Positives = 141/280 (50%), Gaps = 26/280 (9%) Query: 16 LSRYIHEIR----KIPMLEKQEEYVLAKRYRE------HGDLSA---AHRLVTSHLRLVV 62 L+ Y+ +IR + LE+Q +A+ RE +G+L A +V ++LRLV+ Sbjct: 338 LANYVEKIRINIVNLQNLEQQSGLTIAQ-IREIGGRIANGELKARRAKKEMVEANLRLVI 396 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 397 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 456 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 ++I + L R+ PE+ +A+++N+ E ++ + ++A Sbjct: 457 TIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMNMPEDKIRKV-LKIAK 510 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 E ++ D + S D++ D ++ ++ ++ R + L PRE ++ Sbjct: 511 -EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRIATNEVLEGLTPREAKV 566 Query: 243 FEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 567 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 606 >gi|152995072|ref|YP_001339907.1| RNA polymerase sigma-70 subunit RpoD [Marinomonas sp. MWYL1] gi|150835996|gb|ABR69972.1| RNA polymerase, sigma 70 subunit, RpoD [Marinomonas sp. MWYL1] Length = 612 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 119/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R+ + PE++ A Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEELAARMDMPED 491 Query: 162 -IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ + DG E I+ Sbjct: 492 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI--EDDGAESP-IDIAT 535 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R T ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 536 IEGLRESTTMVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 595 Query: 279 KVQ 281 K++ Sbjct: 596 KLR 598 >gi|87200249|ref|YP_497506.1| RNA polymerase sigma factor RpoD [Novosphingobium aromaticivorans DSM 12444] gi|87135930|gb|ABD26672.1| RNA polymerase, sigma 70 subunit, RpoD [Novosphingobium aromaticivorans DSM 12444] Length = 667 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 429 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 488 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R PE+ +A++L++ Sbjct: 489 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQFLHEQGREPTPEE---MAERLSM 543 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + ++ + N + + Sbjct: 544 PLEKVRKV-MKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAIIPVDAAIQANLKETV 598 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 599 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 653 >gi|62185569|ref|YP_220354.1| RNA polymerase sigma factor [Chlamydophila abortus S26/3] gi|62148636|emb|CAH64409.1| major sigma factor [Chlamydophila abortus S26/3] Length = 571 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 428 ELGLTPDRVREIYKIAQHPISLQAEVGEGGESS--FGDFL-------EDTGVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|307295455|ref|ZP_07575291.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingobium chlorophenolicum L-1] gi|306878494|gb|EFN09714.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingobium chlorophenolicum L-1] Length = 681 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 120/247 (48%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 443 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 502 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKP---- 156 I+ A+ I ++I T N+ R F + + + + + + P Sbjct: 503 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKV 562 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V+ IAK E IS+ + D+ S D++ D + + Sbjct: 563 RKVMKIAK-------EPISLETPIG------------DEEDSHLGDFI---EDKNAIIPV 600 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + + N + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA Sbjct: 601 DAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 660 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 661 KALRKLK 667 >gi|299472557|emb|CBN79859.1| chloroplast RNA-polymerase sigma factor precursor [Ectocarpus siliculosus] Length = 835 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/260 (27%), Positives = 130/260 (50%), Gaps = 33/260 (12%) Query: 34 EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 E +A +EH +++++LRLVV +A GYRG GL +++ EG +GL++A +KF Sbjct: 293 ELAVADEAKEH--------MISANLRLVVSMARGYRGRGLAFPDLIQEGTMGLVKACEKF 344 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL----QAI 149 +PE GF+ TY+ WWIK ++ I ++++ T + ++R+ L + Sbjct: 345 NPEMGFQFYTYARWWIKKSILTGIANQSRVIRLPTQVHA--FLSSIRKYTYELTVDGKVP 402 Query: 150 TDNNLKPEQVVAIAKKLN-----VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 TD L +++ A +K+ ++ IS++ R + S A +D +Q + Sbjct: 403 TDEELG-DKLGATVEKIQHYRQAALRTDSISLDIRASNKVSDGA----ADDLGTQIGEKS 457 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEF 262 D + Q K +T ++ L RE+++ AR + TLE + + Sbjct: 458 TPDPEDATQAFYMK-------GKVTALLATLKDREQKVVRARYGLDGATSKTLEEIGRDL 510 Query: 263 EVSRERVRQIEARAFKKVQE 282 ++RERVRQIE++A K+++ Sbjct: 511 GLTRERVRQIESKALSKLRQ 530 >gi|19910024|dbj|BAB87263.1| RNA polymerase sigma factor [Cyanophora paradoxa] Length = 431 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 87/313 (27%), Positives = 149/313 (47%), Gaps = 60/313 (19%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKR---------YREH------------------------ 44 RY+ EI +I +L+ ++E LAKR +EH Sbjct: 116 RYLQEIGEISLLKAEDEIELAKRIETFRKLEKVKEHMKWKTGVEPTDEEWARAAALSDAE 175 Query: 45 --------GDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLMQAVKKF 93 G L A RLV ++LR VV +A Y RG + + +++ EGNIGL++AV+KF Sbjct: 176 ELRHMVRVGTL-ARDRLVRANLRWVVAVAKKYHKQRGT-MSMQDLIQEGNIGLIRAVEKF 233 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 DP G+R TY+ WWI+ A+ I S +++ ++K + R+K A++ + Sbjct: 234 DPRMGYRFTTYATWWIRQAITRSIQNSSREIRLPAHRHEK-----INRIKRATVALSRSL 288 Query: 154 LKPEQVVAIAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + IA+ + + S + + SL+ IN SD S+ D++ +++G Sbjct: 289 GRQPTEAEIAEHVGLDPSRMRKFVESAAAVATVSLDVPINESDNQSATIGDFIRSENEGP 348 Query: 212 EQVLIEKEERKNRRNMLTRSMS-VLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRER 268 ++ ER+ R + R+++ L+ RE + R ++ P TL + V+RER Sbjct: 349 ----ADRAERELMRESVARTLAKALSEREYMVLRMRFGLDDGEPKTLNQVGETLGVTRER 404 Query: 269 VRQIEARAFKKVQ 281 VRQIE +A +K++ Sbjct: 405 VRQIEMKALRKLR 417 >gi|283851053|ref|ZP_06368337.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio sp. FW1012B] gi|283573449|gb|EFC21425.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio sp. FW1012B] Length = 588 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 125/243 (51%), Gaps = 16/243 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 350 AKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 409 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R +L + PE+ IA++++ Sbjct: 410 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEE---IAERMDY 464 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR--N 226 E + ++A E ++ D+ S D++ ++ L EE N + Sbjct: 465 P-LEKVKKVLKIAK-EPISLETPIGDEEDSSLGDFI-----EDKKALAPAEEVVNTKLGE 517 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + + +S L PRE ++ R +++ TLE + F V+RER+RQIEA+A +K++ + Sbjct: 518 QIGKVLSDLTPREEQVLRKRFGLGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPV 577 Query: 285 QKQ 287 + Q Sbjct: 578 RSQ 580 >gi|260906542|ref|ZP_05914864.1| RNA polymerase principal sigma factor [Brevibacterium linens BL2] Length = 473 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 84/309 (27%), Positives = 143/309 (46%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----GDLS-----------------AAHR 52 Y+ +I K+ +L EE LAKR Y EH G ++ A + Sbjct: 180 YLKQIGKVALLNAAEEVDLAKRIEAGMYAEHLLDAGGITEPRESMDYKWIIHDGRIAKNH 239 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 240 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQA 299 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 300 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPSPEELAKELDMTPERVVEVQ 359 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 360 KYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPSDSVSFTLLQEQ-- 404 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R L + P TL+ + + V+RER+RQIE++ K Sbjct: 405 ------LHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAK 458 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 459 LRHPSRSQV 467 >gi|323450165|gb|EGB06048.1| hypothetical protein AURANDRAFT_11909 [Aureococcus anophagefferens] Length = 325 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/254 (27%), Positives = 123/254 (48%), Gaps = 38/254 (14%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLV+ +A Y GL +++ EGN GL +A +FDP +GFR +TY++WWI+ A Sbjct: 82 LIQRNLRLVLSVAKRYGDCGLAFTDLCQEGNFGLAKACDRFDPSKGFRFSTYAVWWIRQA 141 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + +++ T ++K LRR+K H A+ + IA+++++ + Sbjct: 142 VAHAVAHQSRTIRLPTHVHEK-----LRRMKKHKVALEKQTGRDATDDEIAREMSLDADK 196 Query: 173 VISMNCRLAGDESL----------------NALINSSDKNSSQWQDWLVYD------HDG 210 + + G S N +S + +Q D L++D D Sbjct: 197 LRRLRRAARGTVSTDVDAENLGSRRGAAPGNGRRGASYASGAQLAD-LLHDATQHPERDA 255 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF--EARRLQENPVTLENLSSEFEVSRER 268 E +L ++ R ++ R VLN R F + RR P TL ++ F+++RER Sbjct: 256 AESLLKDEVRRMLDDDLEDREEDVLN----RHFGLDGRR----PETLAEIAVRFDLTRER 307 Query: 269 VRQIEARAFKKVQE 282 +RQIE AF K+++ Sbjct: 308 IRQIEKSAFAKLRQ 321 >gi|329943340|ref|ZP_08292114.1| RNA polymerase sigma factor rpoD [Chlamydophila psittaci Cal10] gi|332287916|ref|YP_004422817.1| RNA polymerase sigma factor [Chlamydophila psittaci 6BC] gi|313848489|emb|CBY17493.1| major sigma factor [Chlamydophila psittaci RD1] gi|325507028|gb|ADZ18666.1| RNA polymerase sigma factor [Chlamydophila psittaci 6BC] gi|328814887|gb|EGF84877.1| RNA polymerase sigma factor rpoD [Chlamydophila psittaci Cal10] Length = 571 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 120/247 (48%), Gaps = 28/247 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V S+LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 317 AKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 376 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ + R L T PE+ +A+ Sbjct: 377 IRQAVTRAIADQARTIRIPVHMIETINK------VLRGAKKLMMETGKEPTPEE---LAE 427 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ V + SL A + ++S + D+L E +E Sbjct: 428 ELGLTPDRVREIYKIAQHPISLQAEVGEGGESS--FGDFL-------EDTGVESPAEATG 478 Query: 225 RNMLTRSM----SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +ML M L RER + R L P TLE + S F V+RER+RQIEA+A + Sbjct: 479 YSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALR 538 Query: 279 KVQESIQ 285 K++ I+ Sbjct: 539 KMRHPIR 545 >gi|118602160|ref|YP_903375.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] gi|118567099|gb|ABL01904.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] Length = 600 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 127/264 (48%), Gaps = 44/264 (16%) Query: 36 VLAKRYREHGD---LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 L K YR GD A +++ ++LRLV+ IA Y GL +++ EGN+GLM+AV K Sbjct: 348 TLNKMYR-RGDRRAKKAKSQMIEANLRLVISIAKKYANRGLQFLDLIQEGNVGLMKAVDK 406 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQA 148 F+ RG++ +TY+ WWI+ A+ I ++I T N+ L R++ L Sbjct: 407 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK------LNRVRRQLLQ 460 Query: 149 ITDNNLKPEQVVAIAKKLNVSE----------SEVISMNCRLAGDESLNALINSSDKNSS 198 PE+ +A ++ + E E +SM + DE N D N S Sbjct: 461 KFGREASPEE---LATEMELPEYKIIKILKISKEPLSMETPVGDDEDSNIGDFIEDTNLS 517 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLE 256 +E +++ R + +S L+PRE ++ + R + N TLE Sbjct: 518 SP---------------VEITTKESLRETTSELLSNLSPREAKVLKMRFGIDMNTDHTLE 562 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + +F+V+RER+RQIEA+A +K+ Sbjct: 563 EVGRQFDVTRERIRQIEAKALRKL 586 >gi|116073370|ref|ZP_01470632.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116068675|gb|EAU74427.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 313 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/293 (27%), Positives = 145/293 (49%), Gaps = 36/293 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS-------------------------AA 50 +S Y+ I +IP+L EE L + ++ L+ A Sbjct: 20 ISWYLATIGRIPLLTPAEEIELGNQVQQLMALTQDGTIPIDSDQFSSKDRRIIRVGRRAK 79 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV +A Y+G GL + ++V EG++GL +AV+KFDP RG++ +TY+ WWI+ Sbjct: 80 ERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIR 139 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +M I +++ +++ +R++ L P + + IA+ +++ Sbjct: 140 QSMTRAIACQSRTIRLPVHLSER--LTTIRKVS--LDLAHKLGAMPSR-LEIAEAMDMPL 194 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E+ S+ + SL+A +N + S + L+ D+ E + K E+ L R Sbjct: 195 EELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADNSSDEP--LAKVEQSIHHEQLGR 250 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L+ +E+ + R L N TL + EVSRER+RQ+E +A +K++ Sbjct: 251 WLSHLSDQEQHVLNLRFGLNGNERHTLAEIGRLLEVSRERIRQVELKALRKLR 303 >gi|94498543|ref|ZP_01305098.1| sigma 70 (RpoD) [Sphingomonas sp. SKA58] gi|94421986|gb|EAT07032.1| sigma 70 (RpoD) [Sphingomonas sp. SKA58] Length = 682 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 120/247 (48%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 444 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 503 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKP---- 156 I+ A+ I ++I T N+ R F + + + + + + P Sbjct: 504 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKV 563 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V+ IAK E IS+ + D+ S D++ D + + Sbjct: 564 RKVMKIAK-------EPISLETPIG------------DEEDSHLGDFI---EDKNAIIPV 601 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + + N + +TR ++ L PRE R+ R TLE + +F V+RER+RQIEA Sbjct: 602 DAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 661 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 662 KALRKLK 668 >gi|294085800|ref|YP_003552560.1| sigma-70 factor RpoD [Candidatus Puniceispirillum marinum IMCC1322] gi|292665375|gb|ADE40476.1| Sigma 70 (RpoD) [Candidatus Puniceispirillum marinum IMCC1322] Length = 674 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 118/250 (47%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N+ +++ + R L L D Sbjct: 496 IRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELAEKLSMPID-- 553 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 K +V+ IAK E IS+ + +E + DKN+ Q D ++ Sbjct: 554 -KVRKVLKIAK-------EPISLETPIGDEEDSHLGDFIEDKNAVQPLDAAIH------- 598 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 N R TR ++ L RE R+ R TLE + +F V+RER+RQ Sbjct: 599 --------ANLRETTTRVLASLTAREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 650 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 651 IEAKALRKLK 660 >gi|269125851|ref|YP_003299221.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268310809|gb|ACY97183.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 559 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/311 (25%), Positives = 140/311 (45%), Gaps = 63/311 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------------------------EHGDLSAA 50 Y+ +I K+P+L ++E LAKR E G + A Sbjct: 265 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEERLATMGDQLSEEDKADLEWIAEDGRRAKA 324 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 325 H-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIR 383 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + ++ PE+V+ Sbjct: 384 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIE 443 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ + D L++++ Sbjct: 444 VQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------IVPADAVSFTLLQEQ 490 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 491 --------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTM 542 Query: 278 KKVQESIQKQV 288 K++ + QV Sbjct: 543 SKLRHPSRSQV 553 >gi|170744799|ref|YP_001773454.1| RNA polymerase sigma factor RpoD [Methylobacterium sp. 4-46] gi|168199073|gb|ACA21020.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium sp. 4-46] Length = 666 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 428 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 487 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL + Sbjct: 488 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAM 542 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ + N R Sbjct: 543 PLEKVRKV-LKIA-KEPISLETPIGDEEDSHLGDFI---EDKNVVLPIDAAIQSNLRETT 597 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 >gi|161833810|ref|YP_001598006.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri GWSS] gi|152206300|gb|ABS30610.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri GWSS] Length = 351 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LR V+ IA Y+ GL +S++++EGN GL++ + +FD +GF+ +Y +WW Sbjct: 114 ALDNLVKANLRFVISIAKQYQNQGLSLSDLINEGNFGLIKGINRFDERKGFKCISYCVWW 173 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ + I V+ T K F+N ++ + P + I+ LNV Sbjct: 174 IRQSILQAISDKARCVRYPTN---KLAFYN--KVNKTYSKLEQKLKMPPSIKYISDYLNV 228 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE +V SL+A + D +S D + D + +EKE + +L Sbjct: 229 SEKDVEEALINSIKHTSLDAPLGEGD--NSNLYDVIKIDESPKTDHSLEKESLQQDIKIL 286 Query: 229 TRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++S RE +I L + LE ++ +++RER RQIE A K++++S +K+ Sbjct: 287 LETLS---ERESQIITLHYGLGCFSMNLEKIAYLLKLTRERCRQIEMHAIKRLKKSSRKE 343 Query: 288 VELS 291 + LS Sbjct: 344 ILLS 347 >gi|118469122|ref|YP_887090.1| RNA polymerase sigma factor [Mycobacterium smegmatis str. MC2 155] gi|555680|gb|AAA85642.1| sigma factor MysA [Mycobacterium smegmatis] gi|118170409|gb|ABK71305.1| sigma factor MysA [Mycobacterium smegmatis str. MC2 155] Length = 466 Score = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/319 (24%), Positives = 148/319 (46%), Gaps = 45/319 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE------------------- 43 RK+ + + + + Y+ +I K+ +L +EE LAKR Sbjct: 154 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQKLAELAEKGEKLP 212 Query: 44 ------------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 GD + H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+ Sbjct: 213 VQQRRDMQWICRDGDRAKNH-LLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 271 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 272 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLG 329 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 330 REPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSE 381 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 V ++ ++ L + L+ RE + R P TL+ + + V+RER+ Sbjct: 382 AVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERI 441 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE++ K++ + QV Sbjct: 442 RQIESKTMSKLRHPSRSQV 460 >gi|91203809|emb|CAJ71462.1| strongly similar to transcription initiation factor sigma RpoD [Candidatus Kuenenia stuttgartiensis] Length = 551 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 128/247 (51%), Gaps = 14/247 (5%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+EH SA +L ++LRLVV IA YR GL +++ EGN GLM+AV K++ RG++ Sbjct: 302 YKEHE--SAKRKLSGANLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYK 359 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + + +++ + + + + + Sbjct: 360 FSTYATWWIRQAITRSIADQARTIRIPV-----HMIETMSKIRNISKKLLQDKGREPTIE 414 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 IA+++ +S E + SL+ + S+ +S + D++ D + + + Sbjct: 415 EIAREVKISVPEARRVLKISRHQISLDRPVGESEDSS--FGDFI---EDEKAESPVAAAT 469 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 ++ ++ + + L RER I + R + TLE + F+V+RERVRQIEA+A + Sbjct: 470 QEMLKDKIESVLETLTYREREIIKLRYGIGDGYTYTLEEVGKIFKVTRERVRQIEAKAVR 529 Query: 279 KVQESIQ 285 K+Q I+ Sbjct: 530 KLQHPIR 536 >gi|262202178|ref|YP_003273386.1| RNA polymerase sigma factor RpoD [Gordonia bronchialis DSM 43247] gi|262085525|gb|ACY21493.1| RNA polymerase sigma factor RpoD [Gordonia bronchialis DSM 43247] Length = 489 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 151/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHG---- 45 RK+ + + + + Y+ +I K+ +L +EE LAKR E G Sbjct: 177 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATERLRRIMESGEKIT 235 Query: 46 -----DLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 DL+ A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 236 TAQKRDLNWISRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 295 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 296 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 353 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 354 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 405 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 406 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 465 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 466 QIESKTMSKLRHPSRSQV 483 >gi|227503480|ref|ZP_03933529.1| RNA polymerase major sigma subunit [Corynebacterium accolens ATCC 49725] gi|227075983|gb|EEI13946.1| RNA polymerase major sigma subunit [Corynebacterium accolens ATCC 49725] Length = 493 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y +H GD Sbjct: 175 RKDAQLTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAQHRMDEMEKARAEGD 233 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 +A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 234 KAAKLSPMEKRDLRSIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 293 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 294 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 351 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 352 LQDLGREPTPQE---LAKEMDITEEKVMEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 404 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L ++ L+ RE + R L + P TL+ + + V Sbjct: 405 -EDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 463 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 464 TRERIRQIESKTMSKLRHPSRSQV 487 >gi|94502401|ref|ZP_01308854.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] gi|94451042|gb|EAT14014.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] Length = 341 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 123/244 (50%), Gaps = 11/244 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LR V+ IA Y+ GL +S++++EGN GL++ + +FD +GF+ +Y +WW Sbjct: 104 ALDNLVKANLRFVISIAKQYQNQGLSLSDLINEGNFGLIKGINRFDERKGFKCISYCVWW 163 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ + I V+ T K F+N ++ + P + I+ LNV Sbjct: 164 IRQSILQAISDKARCVRYPTN---KLAFYN--KVNKTYSKLEQKLKMPPSIKYISDYLNV 218 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE +V SL+A + D +S D + D + +EKE + +L Sbjct: 219 SEKDVEEALINSIKHTSLDAPLGEGD--NSNLYDVIKIDESPKTDHSLEKESLQQDIKIL 276 Query: 229 TRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++S RE +I L + LE ++ +++RER RQIE A K++++S +K+ Sbjct: 277 LETLS---ERESQIITLHYGLGCFSMNLEKIAYLLKLTRERCRQIEMHAIKRLKKSSRKE 333 Query: 288 VELS 291 + LS Sbjct: 334 ILLS 337 >gi|303245332|ref|ZP_07331616.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio fructosovorans JJ] gi|302493181|gb|EFL53043.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio fructosovorans JJ] Length = 588 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 125/243 (51%), Gaps = 16/243 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 350 AKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 409 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R +L + PE+ IA++++ Sbjct: 410 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEE---IAERMDY 464 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR--N 226 E + ++A E ++ D+ S D++ ++ L EE N + Sbjct: 465 P-LEKVKKVLKIAK-EPISLETPIGDEEDSSLGDFI-----EDKKALAPAEEVVNTKLGE 517 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + + +S L PRE ++ R +++ TLE + F V+RER+RQIEA+A +K++ + Sbjct: 518 QIGKVLSDLTPREEQVLRKRFGLGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPV 577 Query: 285 QKQ 287 + Q Sbjct: 578 RSQ 580 >gi|33866155|ref|NP_897714.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639130|emb|CAE08136.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8102] Length = 313 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 82/294 (27%), Positives = 150/294 (51%), Gaps = 38/294 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVL--------------AKRYREHGDLS------------A 49 +S Y+ I +IP+L EE L +K + +H +L+ A Sbjct: 20 VSWYLATIGRIPLLTPAEEIELGNQVQAMMTLTEDGSKTFEDH-ELTGKQRRMLRIGRRA 78 Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WWI Sbjct: 79 KERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWWI 138 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + +M I +++ +++ +R++ L P + V IA+ +++ Sbjct: 139 RQSMTRAIACQSRTIRLPVHLSER--LTTIRKVS--LDLAHKLGAMPSR-VEIAEAMDIP 193 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E+ S+ + SL+A +N + S + L+ D E + I E++ L Sbjct: 194 LDELDSLLRQALTTSSLDAPVNGEEGRS--FLGDLIADSSLDEPLDI--VEQRIHHEQLG 249 Query: 230 RSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +S L+ +E+ + + R L+ N TL + +VSRERVRQ+E +A +K++ Sbjct: 250 RWLSHLSEQEQHVLKLRFGLEGNERHTLAEIGRLMDVSRERVRQVELKALRKLR 303 >gi|116620135|ref|YP_822291.1| RpoD family RNA polymerase sigma factor [Candidatus Solibacter usitatus Ellin6076] gi|116223297|gb|ABJ82006.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Solibacter usitatus Ellin6076] Length = 563 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/243 (31%), Positives = 124/243 (51%), Gaps = 26/243 (10%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 319 TAKKELIEANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 378 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 W++ A+ I ++I T N +L R++ L N +A Sbjct: 379 WVRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQMVQELGREPSNE-------ELA 429 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEE 220 K+L + S+V + R+A E ++ ++ S D++V D +G + V+ Sbjct: 430 KRLQLPVSKVRKV-LRVA-QEPISLETPIGEEEESHLGDFIV-DQNGISPSDAVI----- 481 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 N R + + L PRE +I + R E+ TLE + F V+RER+RQIEA+A + Sbjct: 482 NLNLREQTAQVLKTLTPREEKIIKMRFGLEDGSEHTLEEVGQNFAVTRERIRQIEAKALR 541 Query: 279 KVQ 281 K++ Sbjct: 542 KLR 544 >gi|317484461|ref|ZP_07943373.1| RNA polymerase sigma factor RpoD [Bilophila wadsworthia 3_1_6] gi|316924285|gb|EFV45459.1| RNA polymerase sigma factor RpoD [Bilophila wadsworthia 3_1_6] Length = 590 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 34/255 (13%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 350 MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 409 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQV--- 159 WWI+ A+ I ++I T N+ L R +L + PE++ Sbjct: 410 WWIRQAITRAIADQARTIRIPVHMIETINK------LIRTSRYLVQELGRDPTPEEIADR 463 Query: 160 ----VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 V KK+ E IS+ + GDE ++L + + + V + EQ+ Sbjct: 464 MEYPVDKVKKVLKIAKEPISLETPI-GDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQI- 521 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 ++ L PRE ++ R +++ TLE + F V+RER+RQIE Sbjct: 522 -------------ASVLADLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIE 568 Query: 274 ARAFKKVQESIQKQV 288 A+A +K++ ++ QV Sbjct: 569 AKALRKLRHPVRSQV 583 >gi|18477828|emb|CAC83737.1| RNA polymerase sigma 70 [Rhodococcus fascians] Length = 474 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 150/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 162 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLFAVEKMRESAEKGEKLP 220 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 221 VAQRRDMTWICRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 280 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 281 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 338 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 339 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 390 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 391 VVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 450 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 451 QIESKTMSKLRHPSRSQV 468 >gi|331696864|ref|YP_004333103.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951553|gb|AEA25250.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudonocardia dioxanivorans CB1190] Length = 461 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 82/320 (25%), Positives = 151/320 (47%), Gaps = 47/320 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL--------- 53 RK+ + + + + Y+ +I K+ +L +EE LAKR E G L AA RL Sbjct: 149 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRI-EAG-LYAAERLRRAIESGEK 205 Query: 54 -----------------------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 + ++LRLVV +A Y G G+ +++ EGN+GL++AV Sbjct: 206 VSPQLRRDLRWIVRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAV 265 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 +KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 266 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDL 323 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D Sbjct: 324 GREPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDS 375 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRER 268 + V ++ ++ L ++ L+ RE + R P TL+ + + V+RER Sbjct: 376 EAVVAVDAVSFTLLQDQLQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRER 435 Query: 269 VRQIEARAFKKVQESIQKQV 288 +RQIE++ K++ + QV Sbjct: 436 IRQIESKTMSKLRHPSRSQV 455 >gi|306836272|ref|ZP_07469254.1| RNA polymerase sigma factor rpoD [Corynebacterium accolens ATCC 49726] gi|304567864|gb|EFM43447.1| RNA polymerase sigma factor rpoD [Corynebacterium accolens ATCC 49726] Length = 492 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y +H GD Sbjct: 174 RKDAQLTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAQHRMDEMEKARAEGD 232 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 +A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 233 KAAKLSPMEKRDLRSIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 292 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 293 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 350 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 351 LQDLGREPTPQE---LAKEMDITEEKVMEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 403 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L ++ L+ RE + R L + P TL+ + + V Sbjct: 404 -EDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 462 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 463 TRERIRQIESKTMSKLRHPSRSQV 486 >gi|312139434|ref|YP_004006770.1| sigma-70 factor siga [Rhodococcus equi 103S] gi|325672677|ref|ZP_08152373.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] gi|311888773|emb|CBH48085.1| sigma-70 factor SigA [Rhodococcus equi 103S] gi|325556554|gb|EGD26220.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] Length = 459 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/304 (25%), Positives = 143/304 (47%), Gaps = 46/304 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHR-------------------------- 52 Y+ +I K+ +L +EE LAKR E G L A H+ Sbjct: 162 YLKQIGKVALLNAEEEVELAKRI-EAG-LFATHKMNEMAEKGEKPSPTDRRNLNWITRDG 219 Query: 53 ------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ Sbjct: 220 NRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYAT 279 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ + ++I + + L R++ L PE+ +AK++ Sbjct: 280 WWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAKEM 334 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ +V+ + SL+ I D+ SQ D++ D + V ++ ++ Sbjct: 335 DITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFTLLQD 389 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L+ RE + R P TL+ + + V+RER+RQIE++ K++ Sbjct: 390 QLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPS 449 Query: 285 QKQV 288 + QV Sbjct: 450 RSQV 453 >gi|325283594|ref|YP_004256135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus proteolyticus MRP] gi|324315403|gb|ADY26518.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus proteolyticus MRP] Length = 487 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 81/299 (27%), Positives = 140/299 (46%), Gaps = 51/299 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--------------------------AAHR 52 Y+HEI ++P+L +EE LA+R E G+ + AA R Sbjct: 190 YLHEIGRVPLLTLEEEIALARRI-EDGEFARVELEEKGEELDDRGRRALQRRMEDGAAAR 248 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ R ++ +TY+ WWI+ Sbjct: 249 QGLIEANLRLVVSIAKKYTGRGLNFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYATWWIR 308 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVS 169 A+ I ++I + L R LQ PE++ A+ + + Sbjct: 309 QAINRAIADQARTIRI--PVHMVETINKLTRTARQLQQELSREALPEEIAEAMGPGWDAN 366 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEERKNR 224 + E + + E ++ D+ S + D++ D+ D + L+ +E Sbjct: 367 KVEEVQKVSQ----EPVSLETPIGDEKDSFYGDFIPDDNLDSPVDNAAKTLLSEE----- 417 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +++ L RE + + R+ + TLE + F V+RER+RQIE +A +K++ Sbjct: 418 ---LEKALGKLTEREAMVLKFRKGLVDGREHTLEEVGQRFNVTRERIRQIENKALRKLK 473 >gi|239906706|ref|YP_002953447.1| RNA polymerase sigma factor SigA [Desulfovibrio magneticus RS-1] gi|239796572|dbj|BAH75561.1| RNA polymerase sigma factor SigA [Desulfovibrio magneticus RS-1] Length = 588 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 126/243 (51%), Gaps = 16/243 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 350 AKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 409 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R +L + PE+ IA++++ Sbjct: 410 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEE---IAERMDY 464 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR--N 226 +V + ++A E ++ D+ S D++ ++ L EE N + Sbjct: 465 PLEKVKKV-LKIAK-EPISLETPIGDEEDSSLGDFI-----EDKKALAPAEEVVNTKLGE 517 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + + +S L PRE ++ R +++ TLE + F V+RER+RQIEA+A +K++ + Sbjct: 518 QIGKVLSDLTPREEQVLRKRFGLGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPV 577 Query: 285 QKQ 287 + Q Sbjct: 578 RSQ 580 >gi|86158019|ref|YP_464804.1| sigma 32 (RpoH) [Anaeromyxobacter dehalogenans 2CP-C] gi|197122674|ref|YP_002134625.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] gi|220917457|ref|YP_002492761.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] gi|85774530|gb|ABC81367.1| sigma 32 (RpoH) [Anaeromyxobacter dehalogenans 2CP-C] gi|196172523|gb|ACG73496.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] gi|219955311|gb|ACL65695.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] Length = 241 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 54/149 (36%), Positives = 87/149 (58%), Gaps = 6/149 (4%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ +R P L +++E+ LA R R+ G++SA +LV +L VV IA R + + Sbjct: 16 LAPYLKAVRDFPPLTREDEHALAIRARK-GEVSAKQKLVRHNLAFVVAIARKQRRGTVRL 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI--GTTANQK 133 +++ EGN+GLM+AV+KFDP G R +TY++WWI+A + +Y+ + S V+ GT A Sbjct: 75 DDLIQEGNVGLMRAVEKFDPHAGTRFSTYAVWWIRAYIGKYLKEARSTVRPQSGTVAQPD 134 Query: 134 RLFFNLRRLKG---HLQAITDNNLKPEQV 159 + +G HL+ I D+ PE Sbjct: 135 LSLDSAIDEEGDATHLERIEDDGPGPEDT 163 >gi|94985446|ref|YP_604810.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] gi|94555727|gb|ABF45641.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] Length = 403 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/295 (27%), Positives = 138/295 (46%), Gaps = 38/295 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYRE----------HGDL----------------SA 49 L +Y+HEI ++P+L EE LA+RY E + DL +A Sbjct: 104 LRQYLHEIGRVPLLTVAEEMDLARRYEEGEAARQALDSNPDLDDRTRRQLQRQVEDGAAA 163 Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ ++LRLVV IA Y GL + +++ EGN GL++AV+KF+ RG++ +TY+ WWI Sbjct: 164 KQALIEANLRLVVSIAKRYTNRGLGLLDLIQEGNQGLIRAVEKFEYRRGYKFSTYATWWI 223 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNNLKPEQVVAIAKKLNV 168 + ++ I +++ + L R+ L+ ++ L E A+ + Sbjct: 224 RQSLTRAIADKSRTIRV--PVHMVETINRLSRMTRQLEMELSREPLPAEIAEAMGPGWDA 281 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ++ E + G E ++ + ++ S + D+L D I+ + L Sbjct: 282 AKVE----ETQKVGWEPMSLEMPIGEEGDSTYGDFLPDDRFASP---IQNASQALLSEAL 334 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R+ LN RE + R + + TLE + V+RERVRQIE +A +K++ Sbjct: 335 ERAFGTLNEREALVLRLRHGFVDGHEHTLEEVGQLLSVTRERVRQIENKALRKLK 389 >gi|282900041|ref|ZP_06308000.1| sigC (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] gi|281195073|gb|EFA70011.1| sigC (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] Length = 432 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 127/238 (53%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 191 IQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 250 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I + + +A +L Sbjct: 251 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKIAQEKGRTPTLEDLALEL 305 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ ++V + R+ SL + DK+ ++ + L D E+ L+ + +K+ + Sbjct: 306 DMTPNQVREVLLRVPRSVSLETKVG-KDKD-TELGELLETDTITPEETLMRESLQKDIHH 363 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L S L RER + R + +L + E+SRERVRQIE++A +K+++ Sbjct: 364 LL----SDLTTREREVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQ 417 >gi|87311289|ref|ZP_01093411.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] gi|87286029|gb|EAQ77941.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] Length = 567 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 81/263 (30%), Positives = 122/263 (46%), Gaps = 32/263 (12%) Query: 38 AKRYREHGDL--SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 +RYR D L + +LRLVV IA YR GL +++ EGN GLM+AV K++ Sbjct: 312 CERYRRQFDEYEKVKRELSSGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEY 371 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA---------NQKRLFFNLRRLKGHL 146 RGF+ +TY+ WWI+ A+ I ++I QKRL LRR Sbjct: 372 RRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDVLSKLRNVQKRLLQELRR----- 426 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + D IA++ + EV + SL+ I S+ +S + + Sbjct: 427 EPTMDE---------IARRAEIDLEEVRRVMDIGRQPVSLDRPIGESEDSS-----FGEF 472 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEV 264 D E+ I + R+ + + L RER I + R + TLE + F+V Sbjct: 473 IEDSHEETPIRSASNQILRDRIQGLLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKV 532 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 +RERVRQIEA+A +K+Q ++ Q Sbjct: 533 TRERVRQIEAKAVRKLQHPVRSQ 555 >gi|291566702|dbj|BAI88974.1| group 2 RNA polymerase sigma factor SigB [Arthrospira platensis NIES-39] Length = 334 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/300 (23%), Positives = 142/300 (47%), Gaps = 52/300 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL------------------------------- 47 Y+HEI ++P+L ++EE + K+ ++ +L Sbjct: 30 YLHEIGRVPLLTREEEIIYGKKVQQMMNLLEVRDELTKELDRDPTPEEWSAKAGLSESEM 89 Query: 48 --------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG+ Sbjct: 90 TDIINRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGY 149 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I ++ +++ +K ++R++ L N P + Sbjct: 150 KFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEK--LNKIKRVQRELFQQYGRNATPTE- 206 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK L++ S++ + LA ++ + D ++ QD L + + + ++ Sbjct: 207 --IAKALDLEPSQI--RDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADSYVTQQL 262 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R++ ++M M+ L P++R + R + ++L + + +SRERVRQ+E +A Sbjct: 263 LRQDLKDM----MADLTPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQAL 318 >gi|78777303|ref|YP_393618.1| RNA polymerase sigma factor RpoD [Sulfurimonas denitrificans DSM 1251] gi|78497843|gb|ABB44383.1| sigma 28 (Flagella/Sporulation) [Sulfurimonas denitrificans DSM 1251] Length = 623 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 121/242 (50%), Gaps = 31/242 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WWI+ Sbjct: 387 KMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYQKGYKFSTYATWWIRQ 446 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE-QVVAIAKKLNVSE 170 A+ I ++I + N + ++ HLQ ++ +P+ +V+A+ L+V + Sbjct: 447 AISRAIADQARTIRIPIHMIETINRIN-KIMRKHLQ---EHGKEPDVEVIALEVGLSVEK 502 Query: 171 --------SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 E IS+ + ++ DK S D ++ D Sbjct: 503 VKNVIKITKEPISLEAPIGSEDDGRFGDFIEDKTSLSPSDAILKD--------------- 547 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + R + + LN RE+ + + R E+ TLE + E V+RERVRQIE+ A KK Sbjct: 548 DLRVQIESVLEQLNEREKAVIKLRFGIMDDESDRTLEEIGKELNVTRERVRQIESSAIKK 607 Query: 280 VQ 281 ++ Sbjct: 608 LK 609 >gi|34558185|ref|NP_908000.1| RNA polymerase sigma factor RpoD [Wolinella succinogenes DSM 1740] gi|34483904|emb|CAE10900.1| RNA POLYMERASE SIGMA FACTOR [Wolinella succinogenes] Length = 620 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/256 (27%), Positives = 121/256 (47%), Gaps = 34/256 (13%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR ++ D A ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G Sbjct: 372 KRGKDIAD-KAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKG 430 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + + R+ ++ K Sbjct: 431 YKFSTYATWWIRQAISRAIADQARTIRIPI-----HMIETINRINKIIRKYLQEEGKEPD 485 Query: 159 VVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 V I++++ + +V IS+ + DE DK+S D ++ Sbjct: 486 VETISEEVGLPVDKVKNVIKITKEPISLEAPIGSDEDGKFGDFVEDKSSVGPMDHIL--- 542 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVS 265 +++ + + + LN RE+ + R E+ TLE + E V+ Sbjct: 543 ------------KEDLKTQIDEVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVT 590 Query: 266 RERVRQIEARAFKKVQ 281 RERVRQIE+ A KK++ Sbjct: 591 RERVRQIESSAIKKLK 606 >gi|168704590|ref|ZP_02736867.1| RNA polymerase sigma factor rpoS [Gemmata obscuriglobus UQM 2246] Length = 278 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/278 (28%), Positives = 127/278 (45%), Gaps = 27/278 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + +L +E LA R GD A ++V ++LRLVV IA GY G GL + Sbjct: 16 LETYLREINETALLTADQEKSLA-RAIAQGDTEARDQMVRANLRLVVNIARGYTGKGLAL 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGN+GL++AV+ FDP R +TY+ +WIK +++ ++ + ++I A L Sbjct: 75 QDLIEEGNLGLLRAVEGFDPTMNTRFSTYASYWIKQSIKRALVNTAKTIRI--PAYMVEL 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM----NCRLAGDE-----SL 186 RR L E+V + + + N D+ S+ Sbjct: 133 LAKWRRATNKLSDELGRPPTHEEVGKLLGLPKKKLAIIKKAIRVYNAAPQADQGDQGWSI 192 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 ++ N ++ D + + D +QVLI E+ R + R LN Sbjct: 193 EEMLMD---NRAKTPDTEMVETDDLKQVLILLEKMDQREATVLRMRFGLN---------- 239 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E P TL+ + ++RERVRQIE A K+ E + Sbjct: 240 --DEEPKTLKEIGECLGLTRERVRQIEGEALAKLGEDL 275 >gi|14581457|gb|AAK29754.1| stationary phase sigma factor RpoS [Azotobacter vinelandii] Length = 238 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 45/99 (45%), Positives = 67/99 (67%), Gaps = 1/99 (1%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 ++EI P+L EE A R + GD + R++ S+LRLVVKIA Y GL + +++ Sbjct: 1 LNEIGFSPLLTPAEEVHFA-RLAQRGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLI 59 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 60 EEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 98 >gi|282897491|ref|ZP_06305492.1| sigC (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281197586|gb|EFA72481.1| sigC (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 429 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 127/238 (53%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 188 IQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 247 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I + + +A +L Sbjct: 248 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKIAQEKGRTPTLEDLALEL 302 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ ++V + R+ SL + DK+ ++ + L D E+ L+ + +K+ + Sbjct: 303 DMTPNQVREVLLRVPRSVSLETKVG-KDKD-TELGELLETDTITPEETLMRESLQKDIHH 360 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L S L RER + R + +L + E+SRERVRQIE++A +K+++ Sbjct: 361 LL----SDLTTREREVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQ 414 >gi|237748836|ref|ZP_04579316.1| RNA polymerase primary sigma factor [Oxalobacter formigenes OXCC13] gi|229380198|gb|EEO30289.1| RNA polymerase primary sigma factor [Oxalobacter formigenes OXCC13] Length = 819 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 580 AKKEMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 639 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A K+ + Sbjct: 640 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAVKMEM 694 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + RN++ Sbjct: 695 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDNNTLAPSDAALHASMRNVV 749 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 750 KDVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 804 >gi|242279084|ref|YP_002991213.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio salexigens DSM 2638] gi|242121978|gb|ACS79674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio salexigens DSM 2638] Length = 585 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/256 (29%), Positives = 125/256 (48%), Gaps = 35/256 (13%) Query: 44 HGDLSA---AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 HG+ SA L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ Sbjct: 339 HGNRSAMRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYK 398 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + L R +L + PE++ Sbjct: 399 FSTYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPSPEEIA 456 Query: 161 --------AIAKKLNVSESEVISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDG 210 + K L +++ E IS+ + D SL I DK ++ + +V G Sbjct: 457 ERMDYPLEKVKKVLKIAK-EPISLETPIGDEEDSSLGDFI--EDKKAAAPAEEVVSTKLG 513 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRER 268 ++ + +S L PRE ++ R +++ TLE + F V+RER Sbjct: 514 EQ---------------IATVLSDLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRER 558 Query: 269 VRQIEARAFKKVQESI 284 +RQIEA+A +K++ + Sbjct: 559 IRQIEAKALRKLRHPV 574 >gi|148284623|ref|YP_001248713.1| RNA polymerase sigma factor [Orientia tsutsugamushi str. Boryong] gi|146740062|emb|CAM80186.1| RNA polymerase sigma factor [Orientia tsutsugamushi str. Boryong] Length = 614 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 126/243 (51%), Gaps = 16/243 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+ RLVV +A Y GLP +++ EGNIGLM+AV K++ G++ +T + WW Sbjct: 365 AKKKMVESNTRLVVHVAKPYVNRGLPFLDLIQEGNIGLMKAVDKYNYLLGYKFSTCATWW 424 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLN 167 ++ ++ + ++I + + R+ + N L E + IA+KL+ Sbjct: 425 VRQSISRAVADQARTIRI--PVHMADTISKIVRVSKQMH----NELGYEPTASEIAEKLS 478 Query: 168 VSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + +V + R+A + SL I D S D++ D + IE+ + + R Sbjct: 479 MPIDKVKKV-MRIAKEPVSLENPIGEED--GSCLSDFI---EDKNAVLPIEEAIKFSLRE 532 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TR++S L RE R+ R P TLE + EF+V+RERVRQIEA+A +K++ + Sbjct: 533 TTTRALSTLTAREERVLRLRFGIGLPTDYTLEEVGGEFKVTRERVRQIEAKALRKLKHPV 592 Query: 285 QKQ 287 + + Sbjct: 593 RSK 595 >gi|225874024|ref|YP_002755483.1| RNA polymerase sigma factor rpoD [Acidobacterium capsulatum ATCC 51196] gi|83356350|gb|ABC16653.1| major sigma factor RpoD [Acidobacterium capsulatum] gi|225793569|gb|ACO33659.1| RNA polymerase sigma factor rpoD [Acidobacterium capsulatum ATCC 51196] Length = 597 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 127/247 (51%), Gaps = 23/247 (9%) Query: 44 HGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 GD+ A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ Sbjct: 347 QGDMDAEQAKRELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 406 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKP 156 +TY+ WWI+ A+ I ++I T N +L R+L +Q + Sbjct: 407 FSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQL---VQELGREPTSE 461 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E IA+++++ ++V + ++A E ++ ++ S D++ D Q Sbjct: 462 E----IARRMDIPVAKVRKV-LKIA-QEPISLETPIGEEEDSHLGDFI---EDSQAVSPS 512 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEA 274 E N + ++ + L PRE R+ + R E+ TLE + F+V+RER+RQIEA Sbjct: 513 EAVISVNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHTLEEVGQSFQVTRERIRQIEA 572 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 573 KALRKLR 579 >gi|242078297|ref|XP_002443917.1| hypothetical protein SORBIDRAFT_07g004340 [Sorghum bicolor] gi|241940267|gb|EES13412.1| hypothetical protein SORBIDRAFT_07g004340 [Sorghum bicolor] Length = 500 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 131/247 (53%), Gaps = 28/247 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S++RLV+ IA Y G+ +++++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 261 LTMSNIRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 320 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + ++ T +++ L ++G A+ D + P V IA+ LN+SE + Sbjct: 321 VSRALADNSKAFRLPTYLHER-----LIAIRGAKYALEDQGIAP-TVENIAESLNISEKK 374 Query: 173 VI----SMNCRLAGDE----SLNALINSSDKNSSQWQDWLVYD---HDGQEQVLIEKEER 221 V ++N L+ D+ SLN L D S +D V + H +E+ L KEE Sbjct: 375 VHNATEAVNKVLSLDQQAFPSLNGL--PGDTLHSYIEDQNVANDPWHGFEERYL--KEEV 430 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 N N S LN RER I + + T E++S +F +SRERVRQ+ A +K+ Sbjct: 431 NNLIN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGLVAMEKL 484 Query: 281 QESIQKQ 287 + + +++ Sbjct: 485 KHAARRK 491 >gi|42521867|ref|NP_967247.1| RNA polymerase sigma factor RpoD [Bdellovibrio bacteriovorus HD100] gi|39574397|emb|CAE77901.1| RNA polymerase sigma factor RpoD [Bdellovibrio bacteriovorus HD100] Length = 609 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 125/243 (51%), Gaps = 26/243 (10%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 370 AAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 429 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 WI+ A+ I ++I T N+ L R +L PE+ IA Sbjct: 430 WIRQAITRAIADQARTIRIPVHMIETINK------LVRTSRYLIQELGREPTPEE---IA 480 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 K+++ +V + ++A E ++ ++ S D++ +++ +I E Sbjct: 481 DKMDMPVDKVRKV-LKIA-KEPISLETPVGEEEDSHLGDFI------EDKKVINPAEAIV 532 Query: 224 RRNMLT---RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 N+ R +S L PRE ++ R +E+ TLE + +F V+RER+RQIEA+A + Sbjct: 533 NLNLAEQTRRVLSTLTPREEKVLRMRFGIGEESDHTLEEVGQDFNVTRERIRQIEAKALR 592 Query: 279 KVQ 281 K++ Sbjct: 593 KLR 595 >gi|4587113|dbj|BAA76622.1| RpoT [Mycobacterium leprae] Length = 576 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/319 (24%), Positives = 148/319 (46%), Gaps = 45/319 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE------------------- 43 RK+ + + + + Y+ +I K+ +L +EE LAKR Sbjct: 264 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGTKLP 322 Query: 44 ------------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 GD + H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+ Sbjct: 323 TAQRRDMMWICRDGDRAKNH-LLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 381 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 382 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLG 439 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 440 REPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSE 491 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 V ++ ++ L + L+ RE + R P TL+ + + V+RER+ Sbjct: 492 AVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERI 551 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE++ K++ + QV Sbjct: 552 RQIESKTMSKLRHPSRSQV 570 >gi|307700837|ref|ZP_07637862.1| RNA polymerase sigma factor RpoD [Mobiluncus mulieris FB024-16] gi|307613832|gb|EFN93076.1| RNA polymerase sigma factor RpoD [Mobiluncus mulieris FB024-16] Length = 614 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/309 (25%), Positives = 145/309 (46%), Gaps = 61/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------------------GDLSAAH 51 Y+ +I K+ +L ++E LAKR Y EH ++A + Sbjct: 320 YLKQIGKVALLNAEQEVNLAKRIEAGLYAEHLLKTEQDSMTPKHARELHWVVQDGVNAKN 379 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 380 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIRQ 439 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + +++ Q+++ +L R + + ++ PE+VV + Sbjct: 440 AITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDELARELDMTPEKVVEV 499 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D V+++++ Sbjct: 500 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVSFVMLQEQ- 545 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFK 278 L R + L+ RE + R L + P TL+++ + V+RER+RQIE++ Sbjct: 546 -------LQRVLDTLSEREAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIESKTMS 598 Query: 279 KVQESIQKQ 287 K++ + Q Sbjct: 599 KLRHPARSQ 607 >gi|288957899|ref|YP_003448240.1| RNA polymerase primary sigma factor [Azospirillum sp. B510] gi|288910207|dbj|BAI71696.1| RNA polymerase primary sigma factor [Azospirillum sp. B510] Length = 670 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 114/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 432 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 491 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R + PE++ Sbjct: 492 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMLHEIGREPTPEELAERLMMPLE 549 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E IS+ + +E + DKN+ D + Sbjct: 550 KVRKVLKIAK-EPISLETPIGDEEDSHLGDFIEDKNAVLPLDAAI--------------- 593 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + N R TR ++ L PRE R+ R TLE + +F V+RER+RQIEA+A + Sbjct: 594 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALR 653 Query: 279 KVQ 281 K++ Sbjct: 654 KLK 656 >gi|262199546|ref|YP_003270755.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliangium ochraceum DSM 14365] gi|262082893|gb|ACY18862.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliangium ochraceum DSM 14365] Length = 697 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 82/278 (29%), Positives = 138/278 (49%), Gaps = 40/278 (14%) Query: 24 RKIPMLEKQ-----EEYVLAKRYREHGDLS-----AAHRLVTSHLRLVVKIAMGYRGYGL 73 +KI +LE++ EE L + +RE D A LV ++LRLVV IA Y GL Sbjct: 426 KKIKVLEEECRSSVEE--LRQTFREMSDGERMAERAKSELVEANLRLVVSIAKKYTNRGL 483 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++ EGNIGLM+AV KF+ +RG++ +TY+ WWI+ A+ I ++I + Sbjct: 484 QFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMI 541 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDES 185 L R +L PE++ + K L +++ E IS+ + +E Sbjct: 542 ETINKLVRTSRYLVQELGREPTPEEIAERMELPLDKVRKVLKIAK-EPISLETPIGEEED 600 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + DK+ + D ++ V + ++ RK ++ L PRE ++ Sbjct: 601 SHLGDFIEDKSVTSPSDAVI-------SVNLAEQTRK--------VLATLTPREEKVLRM 645 Query: 246 RR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +++ TLE + +FEV+RER+RQIEA+A +K++ Sbjct: 646 RFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 683 >gi|56752254|ref|YP_172955.1| RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 6301] gi|81300658|ref|YP_400866.1| RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 7942] gi|56687213|dbj|BAD80435.1| group2 RNA polymerase sigma factor RpoD5 [Synechococcus elongatus PCC 6301] gi|81169539|gb|ABB57879.1| group2 RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 7942] Length = 398 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/271 (27%), Positives = 140/271 (51%), Gaps = 24/271 (8%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 ++GL R+ E+ ++ + E ++ +R ++H ++ ++LRLVV +A Y+ G Sbjct: 132 QLGLHRWA-EVCQLDLEELKQVCKEGQRAKDH--------MIKANLRLVVSVAKKYQNRG 182 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L + ++V EG +GL +AV+KFDP +G+R +TY+ WWI+ + I +++ + Sbjct: 183 LELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTE 242 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 K L R+K + I + + IA++L ++ +V + R+ SL + Sbjct: 243 K-----LNRIKKAQRKIAQTKGRTANLEEIAQELEMTPDQVREVLLRVPKSISLETRVGK 297 Query: 193 SDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE 250 + ++ D L D +E++ E + N L R + LN RER + R L++ Sbjct: 298 --EKDTELGDLLETTDFTPEERLTQE-----SLSNDLQRLLLELNHRERDVIRMRFGLRD 350 Query: 251 NPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + +L + ++SRERVRQIEA+A +K+ Sbjct: 351 GQIYSLAEIGQVLDLSRERVRQIEAKALQKL 381 >gi|224823888|ref|ZP_03696997.1| RNA polymerase, sigma 70 subunit, RpoD [Lutiella nitroferrum 2002] gi|224604343|gb|EEG10517.1| RNA polymerase, sigma 70 subunit, RpoD [Lutiella nitroferrum 2002] Length = 640 Score = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 397 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 456 Query: 109 IKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T R+ + + GH + + PE Sbjct: 457 IRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGHEPDPAELAERMEMPED-- 514 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEK 218 I K + +S+ E ISM + D+ + D+N+ D +Y D ++VL Sbjct: 515 KIRKIMKISK-EPISMETPIGDDDDSHLGDFIEDQNNLAPSDAAMYSSLKDATKEVL--- 570 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 571 --------------ETLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 616 Query: 277 FKKVQ 281 +K++ Sbjct: 617 LRKLR 621 >gi|212702263|ref|ZP_03310391.1| hypothetical protein DESPIG_00274 [Desulfovibrio piger ATCC 29098] gi|212674326|gb|EEB34809.1| hypothetical protein DESPIG_00274 [Desulfovibrio piger ATCC 29098] Length = 589 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/252 (29%), Positives = 122/252 (48%), Gaps = 30/252 (11%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 349 MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 408 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV------- 159 WWI+ A+ I ++I + L R +L + PE++ Sbjct: 409 WWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMEYP 466 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V KK+ E IS+ + GDE +D + D ++ + E Sbjct: 467 VEKVKKVLKIAKEPISLETPI-GDE----------------EDSSLGDFIEDKKAVAPAE 509 Query: 220 ERKNRR--NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 E N + L ++ L PRE ++ R +++ TLE + F V+RER+RQIEA+ Sbjct: 510 EVINTKLSEQLAAVLADLTPREEQVLRKRFGIAEKSDHTLEEVGKLFNVTRERIRQIEAK 569 Query: 276 AFKKVQESIQKQ 287 A +K++ ++ Q Sbjct: 570 ALRKLRHPVRSQ 581 >gi|153003633|ref|YP_001377958.1| RNA polymerase sigma-70 subunit RpoD [Anaeromyxobacter sp. Fw109-5] gi|152027206|gb|ABS24974.1| RNA polymerase, sigma 70 subunit, RpoD [Anaeromyxobacter sp. Fw109-5] Length = 819 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/249 (28%), Positives = 118/249 (47%), Gaps = 28/249 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ + Sbjct: 575 EHKAERAKTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFS 634 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-- 160 TY+ WWI+ A+ I ++I + L R +L PE++ Sbjct: 635 TYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGREPTPEEIAEK 692 Query: 161 ------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + K L ++ E IS+ + +E + DK+ D ++ Sbjct: 693 MELPLDKVRKVLKIA-KEPISLETPIGEEEDSHLGDFIEDKSLVSPSDAVIN-------- 743 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 N + ++ L PRE ++ R +++ TLE + +FEV+RER+RQI Sbjct: 744 -------MNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQI 796 Query: 273 EARAFKKVQ 281 EA+A +K++ Sbjct: 797 EAKALRKLR 805 >gi|113953662|ref|YP_731106.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9311] gi|113881013|gb|ABI45971.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9311] Length = 307 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/247 (32%), Positives = 128/247 (51%), Gaps = 22/247 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 65 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 124 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE-QVVAIAKKLN 167 I+ + + ++I N+K LR K L + N L P + +A KL Sbjct: 125 IRQGLNRALSTQSRTIRIPVNVNEK--LTRLRAAKARL--MQSNGLAPSAEQLAECMKLP 180 Query: 168 VSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR- 225 +SE E + + C L + SL ++ S + S+ D L D E +E+ E R Sbjct: 181 ISEVEDL-LGCELRSVTVSLQGVVKSKS-DPSELVDVLPSD----EIPPMERAEIAERTD 234 Query: 226 ---NMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKK 279 N+L S L P+ER I R + TL ++ + SRE RQ+ RA +K Sbjct: 235 SAWNLLDNSN--LTPKERTIVMLRFGLDGSHEWRTLAEVARQMNCSREYCRQVVQRALRK 292 Query: 280 VQE-SIQ 285 +++ SIQ Sbjct: 293 LRKTSIQ 299 >gi|20808499|ref|NP_623670.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] gi|20517120|gb|AAM25274.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 265 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/267 (28%), Positives = 133/267 (49%), Gaps = 35/267 (13%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQ 88 EK +E+ L +R R +GD A +V ++ LVV IA + + YG+ + +++ EG IGL+ Sbjct: 8 EKTDEFELFERLR-NGDKKARDEIVEKNIGLVVSIAANFSKAYGVELDDLIQEGFIGLLA 66 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++ FD +G+R +TY++++IK +Q YI + + QK L Sbjct: 67 AIEGFDHTKGYRFSTYAVFYIKQKIQRYIWGRSRTIHLPVKTYQK------------LNQ 114 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + LK EQV A ++E I +E +N L S KN + + +Y++ Sbjct: 115 VLSAQLKLEQVKGEAFPEEIAEETGIKT------EEVVNLL---SLKNPTVSLNQQLYEN 165 Query: 209 DGQEQV-LIEKEERKNR----------RNMLTRSMSVLNPRERRIFEARR-LQENPVTLE 256 D E + +I E+ +N R +L + VL +ER + E R L P+TL+ Sbjct: 166 DNTELIDVILDEQSENEIDRNYSLEELRKILKECLEVLPEKERSVLEMRYGLNGTPMTLK 225 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQES 283 ++ +S++R QIE RA ++++ S Sbjct: 226 QIAEILNISKQRAGQIEKRALQRLRNS 252 >gi|189183187|ref|YP_001936972.1| RNA polymerase sigma factor RpoD [Orientia tsutsugamushi str. Ikeda] gi|189179958|dbj|BAG39738.1| RNA polymerase sigma factor RpoD [Orientia tsutsugamushi str. Ikeda] Length = 615 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 126/243 (51%), Gaps = 16/243 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+ RLVV +A Y GLP +++ EGNIGLM+AV K++ G++ +T + WW Sbjct: 366 AKKKMVESNTRLVVHVAKPYVNRGLPFLDLIQEGNIGLMKAVDKYNYLLGYKFSTCATWW 425 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLN 167 ++ ++ + ++I + + R+ + N L E + IA+KL+ Sbjct: 426 VRQSISRAVADQARTIRI--PVHMADTISKIVRVSKQMH----NELGYEPTASEIAEKLS 479 Query: 168 VSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + +V + R+A + SL I D S D++ D + IE+ + + R Sbjct: 480 MPIDKVKKV-MRIAKEPVSLENPIGEED--GSCLSDFI---EDKNAILPIEEAIKFSLRE 533 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TR++S L RE R+ R P TLE + EF+V+RERVRQIEA+A +K++ + Sbjct: 534 TTTRALSTLTAREERVLRLRFGIGLPTDYTLEEVGGEFKVTRERVRQIEAKALRKLKHPV 593 Query: 285 QKQ 287 + + Sbjct: 594 RSK 596 >gi|219130701|ref|XP_002185497.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217403028|gb|EEC42984.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 329 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 123/245 (50%), Gaps = 14/245 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L S++RLVV IA Y+ GL ++ EG +GL +A +KFDPERGFR +TY+ Sbjct: 75 LRAKAALTESNIRLVVSIAKRYQHRGLSFQDLAQEGILGLTRACEKFDPERGFRFSTYAS 134 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA----I 162 WWIK ++ I +++ + + LR+++ L+A + + E++ Sbjct: 135 WWIKQSIMRAIADQGRTIRLPVHIHDQ--INALRKVERELKAELGRDARLEEITEKSTLT 192 Query: 163 AKK---LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 A+K LN + +SM L +S + + ++ D + Q E+ Sbjct: 193 AEKIEFLNRVSQQDVSMEQELRTSKSKGSSAGLGGPDGGLTLGDVMGDPEAQP---AEEA 249 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 + ++ ++R + LN RE+ + R L + TLE + F V+RER+RQIE+RA Sbjct: 250 SYQMLKDDISRLICTLNSREQAVIRMRFGLDDGKAKTLEEIGRRFSVTRERIRQIESRAL 309 Query: 278 KKVQE 282 K+++ Sbjct: 310 HKLRQ 314 >gi|220906009|ref|YP_002481320.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 7425] gi|219862620|gb|ACL42959.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 372 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 126/245 (51%), Gaps = 27/245 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P ++V EG +GL +A +KFDPE+GF+ +TY+ WW Sbjct: 134 AKSKMIRSNLRLVVSIAKRYLNRGVPFLDLVQEGALGLNRATEKFDPEKGFKFSTYAYWW 193 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L++L+ HL+ N EQ +A A ++ + Sbjct: 194 IRQGITRAIANDSRTIRLPIHIVEK--LNKLKKLQRHLKKELQRN-PTEQELADALEITL 250 Query: 169 SE--------SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + + +S+N R+ G E L++ + +S+Q E+ + E Sbjct: 251 EQLQMLQRARQQALSLNRRV-GREEDTELLDLLEADSTQ----------SPEKQMGEVMM 299 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 R+ +L VL +ER + R + P TLE +S F +SRERVRQI+ +A Sbjct: 300 RQEISQLLD---LVLTKQERDVIILRYGLVSGEPNTLEEVSGLFNLSRERVRQIQNKAIG 356 Query: 279 KVQES 283 K++ S Sbjct: 357 KLRRS 361 >gi|227875511|ref|ZP_03993651.1| RNA polymerase sigma factor SigA [Mobiluncus mulieris ATCC 35243] gi|269977243|ref|ZP_06184216.1| RNA polymerase principal sigma factor HrdB [Mobiluncus mulieris 28-1] gi|306818820|ref|ZP_07452542.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus mulieris ATCC 35239] gi|227843847|gb|EEJ54016.1| RNA polymerase sigma factor SigA [Mobiluncus mulieris ATCC 35243] gi|269934546|gb|EEZ91107.1| RNA polymerase principal sigma factor HrdB [Mobiluncus mulieris 28-1] gi|304648506|gb|EFM45809.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus mulieris ATCC 35239] Length = 614 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/309 (25%), Positives = 145/309 (46%), Gaps = 61/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------------------GDLSAAH 51 Y+ +I K+ +L ++E LAKR Y EH ++A + Sbjct: 320 YLKQIGKVALLNAEQEVNLAKRIEAGLYAEHLLKTEQDSMTPKHARELHWVVQDGVNAKN 379 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 380 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIRQ 439 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + +++ Q+++ +L R + + ++ PE+VV + Sbjct: 440 AITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDELARELDMTPEKVVEV 499 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D V+++++ Sbjct: 500 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVSFVMLQEQ- 545 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFK 278 L R + L+ RE + R L + P TL+++ + V+RER+RQIE++ Sbjct: 546 -------LQRVLDTLSEREAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIESKTMS 598 Query: 279 KVQESIQKQ 287 K++ + Q Sbjct: 599 KLRHPARSQ 607 >gi|188996275|ref|YP_001930526.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] gi|188931342|gb|ACD65972.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] Length = 590 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/239 (32%), Positives = 124/239 (51%), Gaps = 28/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y GL +++ EGNIGLM+AV K+D ++GF+ +TY+ WWI+ A Sbjct: 355 LVKANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKYDYKKGFKFSTYATWWIRQA 414 Query: 113 MQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + I ++I T N+ L R+ L PE+ IAKK + Sbjct: 415 ITRAIADQARTIRIPVHMIETINK------LLRISRTLVQELGREPTPEE---IAKKAGM 465 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNR 224 +V + R + D SL I S ++ S D++ +++ ++ E+ ++ Sbjct: 466 PADKVRKI-LRTSQDPVSLETPIGSDEE--SHLGDFI------EDKTVLSPEQHMLKQAL 516 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L +S L+ RE ++ R E+ TLE + F V+RER+RQIEA+A +K++ Sbjct: 517 RLQLDEVLSTLSEREEQVLRYRFGLEDDTEHTLEQVGKRFGVTRERIRQIEAKALRKLR 575 >gi|149927883|ref|ZP_01916133.1| RNA polymerase sigma factor RpoD [Limnobacter sp. MED105] gi|149823322|gb|EDM82555.1| RNA polymerase sigma factor RpoD [Limnobacter sp. MED105] Length = 878 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 122/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGN+GLM+AV KF+ RG++ +TY+ WW Sbjct: 639 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWW 698 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + ++P+ +A+++ + Sbjct: 699 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGIEPDPAT-LAERMEM 753 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E E I ++A E ++ D + S D++ +H Q + + + R + Sbjct: 754 PE-EKIRKILKIA-KEPISMETPIGDDDDSHLGDFIEDNHTLAPQ---DAAQYSSLRFVT 808 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 809 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 863 >gi|119512139|ref|ZP_01631231.1| RNA polymerase sigma-like factor [Nodularia spumigena CCY9414] gi|119463229|gb|EAW44174.1| RNA polymerase sigma-like factor [Nodularia spumigena CCY9414] Length = 442 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 130/238 (54%), Gaps = 13/238 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ Sbjct: 201 LQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAY 260 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I S +++ +K L ++K + I + + +A +L Sbjct: 261 WWIRQGITRAIATSSRTIRLPVHITEK-----LNKIKKAQRKIAQEKGRTPTLEDLAIEL 315 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++V + ++ SL + DK+ ++ + L D E++L+ + +K+ + Sbjct: 316 EMTPTQVREVLLKVPRSVSLETKVG-KDKD-TELGELLETDCVTPEEMLMRESLQKDLHS 373 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + L RER + R L + +P +L + ++SRERVRQIE++A +K+++ Sbjct: 374 LL----ADLTSRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 427 >gi|311895920|dbj|BAJ28328.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 389 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/252 (29%), Positives = 122/252 (48%), Gaps = 44/252 (17%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A RL+ ++LRLVV +A Y G GL + +++ EGN+GL++AV+KFD RG++ +TY+ WW Sbjct: 152 AKRRLIEANLRLVVSVAKRYVGRGLTLLDLIQEGNVGLIRAVEKFDYARGYKFSTYATWW 211 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFN--LRRLKGHLQ------------AITDNNL 154 I+ AM + +++ + N LR +G LQ A+ L Sbjct: 212 IRQAMSRALADQARTIRVPVHVVE---LINRVLRVQRGLLQERGVEPTAAEVGAVL--QL 266 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+V + K E +S++ + D +L LI +D S + + E Sbjct: 267 PPERVREVLKLAQ----EPVSLHTPVGEEDDVALGDLIEDADAASPPESAAFLLLREHLE 322 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVR 270 VL + L RER++ + R ++ P TLE + F V+RER+R Sbjct: 323 AVL-----------------ATLGERERQVVQLRYGLDDGRPRTLEEIGHLFGVTRERIR 365 Query: 271 QIEARAFKKVQE 282 QIEA+ K+++ Sbjct: 366 QIEAKTLGKLRD 377 >gi|291301996|ref|YP_003513274.1| RpoD subfamily RNA polymerase sigma-70 subunit [Stackebrandtia nassauensis DSM 44728] gi|290571216|gb|ADD44181.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stackebrandtia nassauensis DSM 44728] Length = 559 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 81/302 (26%), Positives = 144/302 (47%), Gaps = 42/302 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-------------YREHG---------DLS-------- 48 Y+ +I K+P+L +E LAKR +E G DL Sbjct: 262 YLKQIGKVPLLNAAQEVELAKRIEAGLYAVERLRQLKEAGEEIPTQVRRDLEWVTRDGDR 321 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 322 AKNHLLAANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 381 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I + + L R++ L PE+ +AK++++ Sbjct: 382 IRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPAPEE---LAKEMDI 436 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S +V+ + SL+ I D+ SQ D++ D + V ++ + L Sbjct: 437 SPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFSLLQGQL 491 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + + L+ RE + R P TL+ + + V+RER+RQIE++ K++ + Sbjct: 492 QQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 551 Query: 287 QV 288 QV Sbjct: 552 QV 553 >gi|15894582|ref|NP_347931.1| RNA polymerase sigma factor RpoD [Clostridium acetobutylicum ATCC 824] gi|464686|sp|P33656|RPOD_CLOAB RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|15024230|gb|AAK79271.1|AE007642_3 RNA polymerase sigma factor RPOD [Clostridium acetobutylicum ATCC 824] gi|312373|emb|CAA80625.1| major vegetative sigma factor [Clostridium acetobutylicum ATCC 824] gi|325508714|gb|ADZ20350.1| major vegetative sigma factor [Clostridium acetobutylicum EA 2018] Length = 378 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 82/265 (30%), Positives = 144/265 (54%), Gaps = 13/265 (4%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI K+P+L +EE LA+R + +GD SA +L ++LRLVV IA Y G G+ ++ Sbjct: 112 YLKEIGKVPLLSPEEEIDLAQRIK-NGDRSARKKLAEANLRLVVSIAKRYVGRGMLFLDL 170 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I ++I + Sbjct: 171 IQEGNLGLIKAVEKFDFKKGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMVETINK 228 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L R+ L +PE+ IAK +++ +V + ++A E ++ ++ S Sbjct: 229 LIRVSRQLLQELGREPQPEE---IAKIMDMPVDKVREI-MKIA-QEPVSLETPIGEEEDS 283 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 D++ D + + + + L + ++ L PRE ++ R ++ TLE Sbjct: 284 HLGDFIPDD---EAPAPADAAAFRMLKEQLLKILNTLTPREEKVLRLRFGLDDGRARTLE 340 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + EF V+RER+RQIEA+A +K++ Sbjct: 341 EVGKEFNVTRERIRQIEAKALRKLR 365 >gi|94986960|ref|YP_594893.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] gi|94731209|emb|CAJ54571.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] Length = 590 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/250 (29%), Positives = 129/250 (51%), Gaps = 24/250 (9%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 350 MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 409 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 WWI+ A+ I ++I T N+ L R +L + PE+ I Sbjct: 410 WWIRQAITRAIADQARTIRIPVHMIETINK------LIRTSRYLVQEFGRDPTPEE---I 460 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A++++ +V + ++A E ++ D+ S D++ ++ + EE Sbjct: 461 AERMDYPLDKVKKV-LKIAK-EPISLETPIGDEEDSSLGDFI-----EDKKAVAPSEEVV 513 Query: 223 NRR--NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 N + + ++ L PRE ++ R +++ TLE + F V+RER+RQIEA+A + Sbjct: 514 NTKLSEQIASVLADLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALR 573 Query: 279 KVQESIQKQV 288 K++ ++ QV Sbjct: 574 KLRHPVRSQV 583 >gi|126434760|ref|YP_001070451.1| RNA polymerase sigma factor [Mycobacterium sp. JLS] gi|126234560|gb|ABN97960.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. JLS] Length = 480 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/319 (24%), Positives = 148/319 (46%), Gaps = 45/319 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE------------------- 43 RK+ + + + + Y+ +I K+ +L +EE LAKR Sbjct: 168 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATQKLAELAEKGEKLP 226 Query: 44 ------------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 GD + H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+ Sbjct: 227 VQQRRDMQWICRDGDRAKNH-LLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 285 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 286 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLG 343 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 344 REPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSE 395 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 V ++ ++ L + L+ RE + R P TL+ + + V+RER+ Sbjct: 396 AVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERI 455 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE++ K++ + QV Sbjct: 456 RQIESKTMSKLRHPSRSQV 474 >gi|15827492|ref|NP_301755.1| RNA polymerase sigma factor [Mycobacterium leprae TN] gi|221229969|ref|YP_002503385.1| RNA polymerase sigma factor [Mycobacterium leprae Br4923] gi|699190|gb|AAA62955.1| rpoT [Mycobacterium leprae] gi|4587111|dbj|BAA76621.1| RpoT [Mycobacterium leprae] gi|13093042|emb|CAC31403.1| RNA polymerase sigma factor [Mycobacterium leprae] gi|219933076|emb|CAR71117.1| RNA polymerase sigma factor [Mycobacterium leprae Br4923] Length = 574 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 79/319 (24%), Positives = 148/319 (46%), Gaps = 45/319 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE------------------- 43 RK+ + + + + Y+ +I K+ +L +EE LAKR Sbjct: 262 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGTKLP 320 Query: 44 ------------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 GD + H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+ Sbjct: 321 TAQRRDMMWICRDGDRAKNH-LLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 379 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 380 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLG 437 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 438 REPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSE 489 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 V ++ ++ L + L+ RE + R P TL+ + + V+RER+ Sbjct: 490 AVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERI 549 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE++ K++ + QV Sbjct: 550 RQIESKTMSKLRHPSRSQV 568 >gi|227833276|ref|YP_002834983.1| RNA polymerase sigma factor A [Corynebacterium aurimucosum ATCC 700975] gi|262184260|ref|ZP_06043681.1| RNA polymerase sigma factor [Corynebacterium aurimucosum ATCC 700975] gi|227454292|gb|ACP33045.1| RNA polymerase sigma factor A [Corynebacterium aurimucosum ATCC 700975] Length = 485 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRY----------------REHGD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR R GD Sbjct: 167 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAQYRMDEMEKARAEGD 225 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 +A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 226 KAAKLSPMEKRDMRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 285 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 286 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 343 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + D +P + +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 344 --LQDLGREP-TPLELAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 396 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L ++ L+ RE + R L + P TL+ + + V Sbjct: 397 -EDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 455 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 456 TRERIRQIESKTMSKLRHPSRSQV 479 >gi|9837536|gb|AAG00589.1|AF288784_1 SigC [Synechococcus elongatus PCC 7942] Length = 398 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/271 (27%), Positives = 140/271 (51%), Gaps = 24/271 (8%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 ++GL R+ E+ ++ + E ++ +R ++H ++ ++LRLVV +A Y+ G Sbjct: 132 QLGLHRWA-EVCQLDLEELKQVCKEGQRAKDH--------MIKANLRLVVSVAKKYQNRG 182 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L + ++V EG +GL +AV+KFDP +G+R +TY+ WWI+ + I +++ + Sbjct: 183 LELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTE 242 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 K L R+K + I + + IA++L ++ +V + R+ SL + Sbjct: 243 K-----LTRIKKAQRKIAQTKGRTANLEEIAQELEMTPDQVREVLLRVPKSISLETRVGK 297 Query: 193 SDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE 250 + ++ D L D +E++ E + N L R + LN RER + R L++ Sbjct: 298 --EKDTELGDLLETTDFTPEERLTQE-----SLSNDLQRLLLELNHRERDVIRMRFGLRD 350 Query: 251 NPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + +L + ++SRERVRQIEA+A +K+ Sbjct: 351 GQIYSLAEIGQVLDLSRERVRQIEAKALQKL 381 >gi|227549126|ref|ZP_03979175.1| RNA polymerase major sigma subunit [Corynebacterium lipophiloflavum DSM 44291] gi|227078794|gb|EEI16757.1| RNA polymerase major sigma subunit [Corynebacterium lipophiloflavum DSM 44291] Length = 520 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 82/324 (25%), Positives = 154/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREHG------------ 45 RK+ + + + + Y+ +I K+ +L+ + E LAKR Y +H Sbjct: 202 RKDAQLTASAD-SVRAYLKQIGKVALLDAELEVSLAKRIEAGLYAQHRLDEMERAAAEGD 260 Query: 46 -----------DLSAAHR--------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 DL A R L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 261 KEAKLTPAVKRDLRAVARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 320 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 321 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 378 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 379 LQDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 431 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + R L + P TL+ + + V Sbjct: 432 -EDSEAVVAVDAVSFTLLQDQLQDVLHTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 490 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 491 TRERIRQIESKTMSKLRHPSRSQV 514 >gi|254457867|ref|ZP_05071294.1| sigma 28 [Campylobacterales bacterium GD 1] gi|207085260|gb|EDZ62545.1| sigma 28 [Campylobacterales bacterium GD 1] Length = 623 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 122/242 (50%), Gaps = 31/242 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WWI+ Sbjct: 387 KMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYQKGYKFSTYATWWIRQ 446 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE-QVVAIAKKLNVSE 170 A+ I ++I + N + ++ HLQ ++ +P+ +V+A+ L+V + Sbjct: 447 AISRAIADQARTIRIPIHMIETINRIN-KIMRKHLQ---EHGKEPDVEVIALEVGLSVEK 502 Query: 171 --------SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 E IS+ + ++ DK+S D ++ D Sbjct: 503 VKNVIKITKEPISLEAPIGNEDDGRFGDFIEDKSSISPSDAILKD--------------- 547 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + R + + LN RE+ + + R E+ TLE + E V+RERVRQIE+ A KK Sbjct: 548 DLRVQIEGVLEQLNEREKAVIKLRFGIMDDESDRTLEEIGRELNVTRERVRQIESSAIKK 607 Query: 280 VQ 281 ++ Sbjct: 608 LK 609 >gi|76799605|ref|ZP_00781725.1| RNA polymerase major sigma factor RpoD [Streptococcus agalactiae 18RS21] gi|76585040|gb|EAO61678.1| RNA polymerase major sigma factor RpoD [Streptococcus agalactiae 18RS21] Length = 278 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 47/108 (43%), Positives = 67/108 (62%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +P+L +EE LA E GDL A RL ++LRLVV IA Y G G+ ++ Sbjct: 102 YLKEIGVVPLLTNEEEKELAVAVAE-GDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 160 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 161 IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI 208 >gi|301165749|emb|CBW25321.1| RNA polymerase sigma-70 factor [Bacteriovorax marinus SJ] Length = 582 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 78/249 (31%), Positives = 121/249 (48%), Gaps = 40/249 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 343 AKSQLVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 402 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQV----- 159 I+ A+ I ++I T N ++ R+L L PE++ Sbjct: 403 IRQAITRAIADQARTIRIPVHMIETIN--KMVRTSRQLIQELG----REPTPEEIAERME 456 Query: 160 --VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 V KK+ E IS+ + D SL I D ++ D V Sbjct: 457 LPVDKVKKVQKISKEPISLETPIGEEEDSSLGDFIED---------DKIISPADAVMSVT 507 Query: 216 IEKEERKNRRNMLTRS-MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 + ++ TRS +S L PRE ++ R +++ TLE + +F V+RER+RQI Sbjct: 508 LSEQ---------TRSVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFFVTRERIRQI 558 Query: 273 EARAFKKVQ 281 EA+A +K++ Sbjct: 559 EAKALRKLR 567 >gi|251771800|gb|EES52375.1| RNA polymerase, sigma 70 subunit, RpoD [Leptospirillum ferrodiazotrophum] Length = 590 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 123/237 (51%), Gaps = 16/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RGF+ +TY+ WW Sbjct: 352 AKSELIKANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGFKFSTYATWW 411 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R HL PE+ +AK++ + Sbjct: 412 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRHLVQELGREPLPEE---LAKEMQM 466 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ ++ S D++ D + IE R + + Sbjct: 467 PVDKVRRV-LKIAR-EPISLETPIGEEEDSHLGDFI---EDKKTISPIEAAVRYDLVRKI 521 Query: 229 TRSMSVLNPRERRIFEAR----RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S+S L RE ++ R L ++ TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 522 GQSLSTLTDREEKVIRLRFGIGELTDH--TLEEVGQDFDVTRERIRQIEAKALRKLR 576 >gi|171914125|ref|ZP_02929595.1| RNA polymerase sigma factor RpoD [Verrucomicrobium spinosum DSM 4136] Length = 576 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 123/243 (50%), Gaps = 29/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ +RG++ +TY+ WW Sbjct: 336 AKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMRAVEKFEYKRGYKFSTYATWW 395 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N QK+L L R + + +L E+V Sbjct: 396 IRQAITRSIADQARTIRIPVHMIDTINKLLRVQKQLVQELGRDPTPDEIAEEIHLPVERV 455 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 A+ L +S+ V SL + SD + +++ D++ D +E Sbjct: 456 NAV---LRMSQQPV-----------SLQTKVGDSDGD-TEFGDFI---EDNTSVSPMELT 497 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 R+ L + L RER + E R + + TLE + +F V+RER+RQIEA+A Sbjct: 498 AMNLLRDKLKDVLDSLTDRERAVLEQRFGLVDGSGRTLEEVGRQFHVTRERIRQIEAKAL 557 Query: 278 KKV 280 +K+ Sbjct: 558 RKL 560 >gi|114321663|ref|YP_743346.1| RNA polymerase, sigma 70 subunit, RpoD [Alkalilimnicola ehrlichii MLHE-1] gi|114228057|gb|ABI57856.1| RNA polymerase, sigma 70 subunit, RpoD [Alkalilimnicola ehrlichii MLHE-1] Length = 598 Score = 94.0 bits (232), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 360 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 419 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + P++ +A+++ + Sbjct: 420 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPSPDE---LAERMEM 474 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D ++ R+ R + Sbjct: 475 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDINAMSPVDSATREGLRESV 529 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 530 KGVLSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 584 >gi|13195265|gb|AAK15630.1|AF326348_2 RNA polymerase major sigma subunit [Corynebacterium ammoniagenes] Length = 467 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 81/324 (25%), Positives = 157/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LA+R Y +H GD Sbjct: 149 RKDAQLTASAD-SVRAYLKQIGKVALLNAEQEVSLAERIEAGLYAQHRLDEMERLIAEGD 207 Query: 47 ----LSAAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 LS A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 208 AAAKLSPAQKRDLRWIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 267 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 268 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 325 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 326 LQDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 378 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L ++ L+ RE + R L + P TL+ + + V Sbjct: 379 -EDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 437 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 438 TRERIRQIESKTMSKLRHPSRSQV 461 >gi|303327390|ref|ZP_07357831.1| RNA polymerase sigma-70 factor [Desulfovibrio sp. 3_1_syn3] gi|302862330|gb|EFL85263.1| RNA polymerase sigma-70 factor [Desulfovibrio sp. 3_1_syn3] Length = 589 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/252 (29%), Positives = 122/252 (48%), Gaps = 30/252 (11%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 349 MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 408 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV------- 159 WWI+ A+ I ++I + L R +L + PE++ Sbjct: 409 WWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMEYP 466 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V KK+ E IS+ + GDE +D + D ++ + E Sbjct: 467 VEKVKKVLKIAKEPISLETPI-GDE----------------EDSSLGDFIEDKKAVAPAE 509 Query: 220 ERKNRR--NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 E N + L ++ L PRE ++ R +++ TLE + F V+RER+RQIEA+ Sbjct: 510 EVINTKLSEQLAAVLADLTPREEQVLRKRFGIAEKSDHTLEEVGKLFNVTRERIRQIEAK 569 Query: 276 AFKKVQESIQKQ 287 A +K++ ++ Q Sbjct: 570 ALRKLRHPVRSQ 581 >gi|78357095|ref|YP_388544.1| sigma-70 factor [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|78219500|gb|ABB38849.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 589 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 74/254 (29%), Positives = 129/254 (50%), Gaps = 17/254 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR H + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG Sbjct: 342 KRGNSHA-MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRG 400 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + L R +L + PE+ Sbjct: 401 YKFSTYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEE 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA++++ +V + ++A E ++ D+ S D++ ++ + Sbjct: 459 ---IAERMDYPIDKVKKV-LKIAK-EPISLETPIGDEEDSSLGDFI-----EDKKAVAPA 508 Query: 219 EERKNRR--NMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 EE N + + ++ L PRE ++ R +++ TLE + F V+RER+RQIEA Sbjct: 509 EEVVNTKLSEQIAAVLADLTPREEQVLRKRFGINEKSDHTLEEVGKLFNVTRERIRQIEA 568 Query: 275 RAFKKVQESIQKQV 288 +A +K++ ++ Q Sbjct: 569 KALRKLRHPVRSQT 582 >gi|325106737|ref|YP_004267805.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] gi|324967005|gb|ADY57783.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] Length = 575 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L +LRLVV IA YR GL +++ EGN GLM+ V+K++ RG++ +TY+ WW Sbjct: 316 AKQKLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRGVEKYEYRRGYKFSTYATWW 375 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I +F ++ LK + I + + +A +++ Sbjct: 376 IRQAITRAVADHARTIRIPV-----HMFQSISTLKAKAEQIRQETGREPTMEELAAAIDM 430 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S E + SL+ + S+ +S + D+L D E + ++ R+ + Sbjct: 431 SVEETERIMKTWKHPVSLDTPVGESEDSS--FGDFL---QDDSENTPADTAMQQMLRDKI 485 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RER I + R + TLE F+V+RER+RQIE++A +K+Q Sbjct: 486 NHVLKSLTYREREIIKLRYGLGDGYSYTLEETGRIFKVTRERIRQIESKALRKLQ 540 >gi|220904357|ref|YP_002479669.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219868656|gb|ACL48991.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 589 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/252 (29%), Positives = 122/252 (48%), Gaps = 30/252 (11%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 349 MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 408 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV------- 159 WWI+ A+ I ++I + L R +L + PE++ Sbjct: 409 WWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMEYP 466 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V KK+ E IS+ + GDE +D + D ++ + E Sbjct: 467 VEKVKKVLKIAKEPISLETPI-GDE----------------EDSSLGDFIEDKKAVAPAE 509 Query: 220 ERKNRR--NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 E N + L ++ L PRE ++ R +++ TLE + F V+RER+RQIEA+ Sbjct: 510 EVINTKLSEQLAAVLADLTPREEQVLRKRFGIAEKSDHTLEEVGKLFNVTRERIRQIEAK 569 Query: 276 AFKKVQESIQKQ 287 A +K++ ++ Q Sbjct: 570 ALRKLRHPVRSQ 581 >gi|254184931|ref|ZP_04891520.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] gi|184215523|gb|EDU12504.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] Length = 680 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+ +K++ Sbjct: 611 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKTLRKLR 665 >gi|134098380|ref|YP_001104041.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|291006918|ref|ZP_06564891.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133911003|emb|CAM01116.1| RNA polymerase major sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 467 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 82/320 (25%), Positives = 151/320 (47%), Gaps = 47/320 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL--------- 53 RK+ + + + + Y+ +I K+ +L +EE LAKR E G L AA RL Sbjct: 155 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRI-EAG-LYAAERLRQAEEAEER 211 Query: 54 -----------------------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 + ++LRLVV +A Y G G+ +++ EGN+GL++AV Sbjct: 212 LAMQMRRDLRWIVRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAV 271 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 +KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 272 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDL 329 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D Sbjct: 330 GREPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDS 381 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRER 268 + V ++ ++ L ++ L+ RE + R P TL+ + + V+RER Sbjct: 382 EAVVAVDAVSFTLLQDQLQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRER 441 Query: 269 VRQIEARAFKKVQESIQKQV 288 +RQIE++ K++ + QV Sbjct: 442 IRQIESKTMSKLRHPSRSQV 461 >gi|295698766|ref|YP_003603421.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] gi|291157279|gb|ADD79724.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] Length = 629 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 119/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R + + +++ L PE+ Sbjct: 450 IRQAITRSIADQARTIRIPVHMIETINKLNHISRQILQETGREPSPEELSERMLIPEE-- 507 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L ++ E ISM + DE S D++ D ++ +E Sbjct: 508 KIRKVLKIAR-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLESAT 551 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ +S L RE ++ R TLE + +F+V+RER+RQIEA+A + Sbjct: 552 SESLRSATNEVLSGLTTREAKVLRMRFGIDMHTDHTLEEVGKQFDVTRERIRQIEAKALR 611 Query: 279 KVQ 281 K++ Sbjct: 612 KLR 614 >gi|46580198|ref|YP_011006.1| RNA polymerase sigma-70 factor [Desulfovibrio vulgaris str. Hildenborough] gi|120602415|ref|YP_966815.1| RpoD family RNA polymerase sigma factor [Desulfovibrio vulgaris DP4] gi|46449615|gb|AAS96265.1| RNA polymerase sigma-70 factor [Desulfovibrio vulgaris str. Hildenborough] gi|120562644|gb|ABM28388.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfovibrio vulgaris DP4] gi|311233814|gb|ADP86668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio vulgaris RCH1] Length = 590 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/254 (28%), Positives = 123/254 (48%), Gaps = 32/254 (12%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 350 MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 409 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV------ 160 WWI+ A+ I ++I + L R +L + PE++ Sbjct: 410 WWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYP 467 Query: 161 --AIAKKLNVSESEVISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + K L +++ E IS+ + D SL I DK + + +V G++ Sbjct: 468 IDKVKKVLKIAK-EPISLETPIGDEEDSSLGDFIE--DKKAVAPAEEVVNTKLGEQ---- 520 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + ++ L PRE ++ R +++ TLE + F V+RER+RQIEA Sbjct: 521 -----------IASVLADLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEA 569 Query: 275 RAFKKVQESIQKQV 288 +A +K++ ++ Q Sbjct: 570 KALRKLRHPVRSQT 583 >gi|1588486|prf||2208419B RNA polymerase sigma factor Length = 391 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 126/237 (53%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 155 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 214 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A ++ Sbjct: 215 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKILSQELGRKPTEEEIAERMEM 269 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 270 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDQVSKSLLREDLEN 325 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+ RER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 326 VL----DTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 378 >gi|108799152|ref|YP_639349.1| RNA polymerase sigma factor [Mycobacterium sp. MCS] gi|119868267|ref|YP_938219.1| RNA polymerase sigma factor [Mycobacterium sp. KMS] gi|108769571|gb|ABG08293.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119694356|gb|ABL91429.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. KMS] Length = 480 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 79/319 (24%), Positives = 148/319 (46%), Gaps = 45/319 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE------------------- 43 RK+ + + + + Y+ +I K+ +L +EE LAKR Sbjct: 168 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATQKLAELAEKGEKLP 226 Query: 44 ------------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 GD + H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+ Sbjct: 227 VQQRRDMQWICRDGDRAKNH-LLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 285 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 286 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLG 343 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 344 REPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSE 395 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERV 269 V ++ ++ L + L+ RE + R P TL+ + + V+RER+ Sbjct: 396 AVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERI 455 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE++ K++ + QV Sbjct: 456 RQIESKTMSKLRHPSRSQV 474 >gi|317153216|ref|YP_004121264.1| RNA polymerase sigma factor RpoD [Desulfovibrio aespoeensis Aspo-2] gi|316943467|gb|ADU62518.1| RNA polymerase sigma factor RpoD [Desulfovibrio aespoeensis Aspo-2] Length = 581 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/255 (29%), Positives = 129/255 (50%), Gaps = 33/255 (12%) Query: 45 GDLSA---AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 G+LSA L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ Sbjct: 336 GNLSAMRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKF 395 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV- 160 +TY+ WWI+ A+ I ++I + L R +L + PE++ Sbjct: 396 STYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPSPEEIAE 453 Query: 161 -------AIAKKLNVSESEVISMNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQE 212 + K L +++ E IS+ + GDE ++L + DK ++ + +V G++ Sbjct: 454 RMDYPLEKVKKVLKIAK-EPISLETPI-GDEEDSSLGDFIEDKKATAPAEEVVSTKLGEQ 511 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVR 270 + +S L PRE ++ R +++ TLE + F V+RER+R Sbjct: 512 ---------------IASVLSDLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIR 556 Query: 271 QIEARAFKKVQESIQ 285 QIEA+A +K++ ++ Sbjct: 557 QIEAKALRKLRHPVR 571 >gi|218885598|ref|YP_002434919.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218756552|gb|ACL07451.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 590 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 74/254 (29%), Positives = 130/254 (51%), Gaps = 17/254 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR H + A L+ S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG Sbjct: 343 KRGNTHA-MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRG 401 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + L R +L + PE+ Sbjct: 402 YKFSTYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPTPEE 459 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA++++ +V + ++A E ++ D+ S D++ ++ + Sbjct: 460 ---IAERMDYPIDKVKKV-LKIAK-EPISLETPIGDEEDSSLGDFI-----EDKKAVAPA 509 Query: 219 EERKNRR--NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 EE N + + ++ L PRE ++ R +++ TLE + F V+RER+RQIEA Sbjct: 510 EEVVNTKLSEQIASVLADLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEA 569 Query: 275 RAFKKVQESIQKQV 288 +A +K++ ++ Q+ Sbjct: 570 KALRKLRHPVRSQM 583 >gi|256371066|ref|YP_003108890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] gi|256007650|gb|ACU53217.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] Length = 337 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 117/240 (48%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA Y+ GLP+ +++ EGN+GL+ AV+KFD +GF+ +TY+ WWI+ A Sbjct: 103 FIQANLRLVVSIAKRYQASGLPLLDLIQEGNMGLIHAVEKFDWRKGFKFSTYATWWIRQA 162 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + I + +++ A ++R + L+ A T L E + K + Sbjct: 163 ITRGIANTGRTIRLPVHAGDS--LSRVQRAQVQLEVRLGRAPTVRELAAEVDLPYDKLVE 220 Query: 168 V----SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +E +S R GD L ++ S + D + L+ E Sbjct: 221 ALRFRAEPVSLSEPLRDDGDAELGDVVEDSQSATP---------FDVAAEHLLPSE---- 267 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++R ++ L+ RER I R + P TLE + F ++RER+RQIEARA K++ Sbjct: 268 ----VSRLLAPLDGREREILRLRYGLDRGEPRTLEEVGEYFHLTRERIRQIEARAMSKLR 323 >gi|12958492|gb|AAK09321.1|AF320817_2 sigma factor SigA [[Brevibacterium] flavum] Length = 498 Score = 94.0 bits (232), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 83/324 (25%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H GD Sbjct: 180 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHRMEEMEEAFAAGD 238 Query: 47 ----LSAAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 L+ A R L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 239 KDAKLTPAVRRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 298 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 299 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 356 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ ++K++++SE +V+ + SL+ I D+ SQ D++ Sbjct: 357 LQELGREPTPQE---LSKEMDISEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 409 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 410 -EDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 468 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 469 TRERIRQIESKTMSKLRHPSRSQV 492 >gi|119509984|ref|ZP_01629125.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] gi|119512944|ref|ZP_01632006.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] gi|119462397|gb|EAW43372.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] gi|119465308|gb|EAW46204.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] Length = 389 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 120/240 (50%), Gaps = 21/240 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ WW Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 210 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L +LK + + + +A+ L + Sbjct: 211 IRQAITRAIANDARTIRLPIHIVEK-----LNKLKKAQRELKQKLCRNPNEAEMAEALEI 265 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S ++ + SLN + + ++ D L+ D D E K NM+ Sbjct: 266 SVQQLRQLQQLRRQALSLNHRVGKEE--DTELMD-LLEDEDNL------SPEAKMNENMM 316 Query: 229 TRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + VL PRE+ + R P TLE + + F +SRERVRQI+++A +K++ Sbjct: 317 RQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLR 376 >gi|225377779|ref|ZP_03755000.1| hypothetical protein ROSEINA2194_03430 [Roseburia inulinivorans DSM 16841] gi|225210363|gb|EEG92717.1| hypothetical protein ROSEINA2194_03430 [Roseburia inulinivorans DSM 16841] Length = 426 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 88/315 (27%), Positives = 141/315 (44%), Gaps = 77/315 (24%) Query: 19 YIHEIRKIPMLEKQEEYVLAK---------------RYRE------------------HG 45 Y+ EI K+P+L +EE LAK + RE Sbjct: 122 YLKEIGKVPLLSAEEEIELAKNMEAGAVAKEKIAILKSREEKATEEELAEIKEEIKNLQK 181 Query: 46 DLSAAH----RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 DL A RL ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ Sbjct: 182 DLDAGDEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKF 241 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDN 152 +TY+ WWI+ A+ I ++I T N+ ++L L R + + Sbjct: 242 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAAEM 301 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH---- 208 N+ E+V I L +S+ E +S+ + +E S D++ D+ Sbjct: 302 NMPVERVREI---LKISQ-EPVSLETPIGEEE------------DSHLGDFIQDDNVPVP 345 Query: 209 -DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVS 265 D L+ + L + L RE+++ R E+ TLE + EF V+ Sbjct: 346 ADAAAFTLL--------KEQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVT 397 Query: 266 RERVRQIEARAFKKV 280 RER+RQIEA+A +K+ Sbjct: 398 RERIRQIEAKALRKL 412 >gi|296117756|ref|ZP_06836340.1| RNA polymerase sigma factor [Corynebacterium ammoniagenes DSM 20306] gi|295969487|gb|EFG82728.1| RNA polymerase sigma factor [Corynebacterium ammoniagenes DSM 20306] Length = 471 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 81/324 (25%), Positives = 157/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LA+R Y +H GD Sbjct: 153 RKDAQLTASAD-SVRAYLKQIGKVALLNAEQEVSLAERIEAGLYAQHRMDEMERLTAEGD 211 Query: 47 ----LSAAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 LS A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 212 AAAKLSPAQKRDLRWIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 271 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 272 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 329 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 330 LQDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 382 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L ++ L+ RE + R L + P TL+ + + V Sbjct: 383 -EDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGV 441 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 442 TRERIRQIESKTMSKLRHPSRSQV 465 >gi|300310204|ref|YP_003774296.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum seropedicae SmR1] gi|300072989|gb|ADJ62388.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 850 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 611 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 670 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A K+ + Sbjct: 671 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAIKMEM 725 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + RN++ Sbjct: 726 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDNNTLAPADAALHASMRNVV 780 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 781 KDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 835 >gi|126659335|ref|ZP_01730471.1| RNA polymerase sigma factor SigD [Cyanothece sp. CCY0110] gi|126619417|gb|EAZ90150.1| RNA polymerase sigma factor SigD [Cyanothece sp. CCY0110] Length = 318 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 78/306 (25%), Positives = 138/306 (45%), Gaps = 58/306 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL------------------------------- 47 Y+ EI ++P+L +EE + AKR + +L Sbjct: 14 YLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLRDDIIEETGQEPTEIQWAKTAKISRKEL 73 Query: 48 --------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G+ Sbjct: 74 QSIIEIGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGY 133 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R +TY+ WWI+ A+ I +++ +K L ++K + ++ + V Sbjct: 134 RFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRELSQQKGRAATV 188 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V +A++L+++ +V R SL+ + D ++ D L + DGQ E Sbjct: 189 VELAEELDLTPKQVREYLERARQPLSLD--LRVGDNQDTELGDLL--EDDGQ-----SPE 239 Query: 220 ERKNRRNM---LTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 + ++ L R M L +++ + R L P+TL + S +SRERVRQIE Sbjct: 240 DFATHSSLQFDLERLMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIER 299 Query: 275 RAFKKV 280 A K+ Sbjct: 300 EALSKL 305 >gi|170078618|ref|YP_001735256.1| RNA polymerase sigma factor [Synechococcus sp. PCC 7002] gi|558881|gb|AAB41506.1| SigA [Synechococcus sp. PCC 7002] gi|169886287|gb|ACB00001.1| RNA polymerase sigma factor [Synechococcus sp. PCC 7002] Length = 375 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 126/237 (53%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 139 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 198 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A ++ Sbjct: 199 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKTTKILSQELGRKPTEEEIAERMEM 253 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ D + E + + R++ N Sbjct: 254 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDQVSKSLLREDLEN 309 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L L+ RER + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 310 VL----DTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 362 >gi|1938356|gb|AAC45155.1| RpoD [Xanthomonas campestris pv. campestris] Length = 622 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/246 (28%), Positives = 123/246 (50%), Gaps = 12/246 (4%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A Y E A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 372 AMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 431 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G++ +TY+ WWI+ A+ I ++I + L R+ + PE Sbjct: 432 GYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQQFGREPTPE 489 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +AK++++ E ++ + ++A E ++ D S D++ D + I+ Sbjct: 490 E---LAKEMDMPEDKIRKV-MKIA-KEPISMETPIGDDEDSHLGDFI---EDTNVESPID 541 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 N + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 542 NTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 601 Query: 276 AFKKVQ 281 A +K++ Sbjct: 602 ALRKLR 607 >gi|259507416|ref|ZP_05750316.1| RNA polymerase principal sigma factor SigA [Corynebacterium efficiens YS-314] gi|259164981|gb|EEW49535.1| RNA polymerase principal sigma factor SigA [Corynebacterium efficiens YS-314] Length = 381 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 82/324 (25%), Positives = 154/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREHG------------ 45 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H Sbjct: 63 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHKMEEMEAAYAAGD 121 Query: 46 -----------DLSAAHR--------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 DL A R L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 122 KDAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 181 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 182 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 239 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ ++K++++SE +V+ + SL+ I D+ SQ D++ Sbjct: 240 LQELGREPTPQE---LSKEMDISEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 292 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 293 -EDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 351 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 352 TRERIRQIESKTMSKLRHPSRSQV 375 >gi|218438398|ref|YP_002376727.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218171126|gb|ACK69859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 295 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 76/286 (26%), Positives = 140/286 (48%), Gaps = 36/286 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL------------------SAAHRLVTSHLRL 60 Y+ EI + P+L Q+E LA + + L A ++++++LRL Sbjct: 12 YLQEIGRTPLLSSQQEVELATQVQNMMALLDKENLTPEEIKIIQQGKRAKRKMISANLRL 71 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y+ GL +++ EG+IGL++ V+KFDP +G++ +TY+ WWI+ AM I Sbjct: 72 VVSIAKKYQRRGLSFLDLIQEGSIGLIRGVEKFDPSKGYKFSTYAYWWIRQAMTRAIADQ 131 Query: 121 WSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNNLKP-EQVVAIAKKLNVSESEVISMN 177 +++ + T + +L R+L G L +P E+ +A +++++E I Sbjct: 132 SRTIRLPSHLTESLNKLKRITRQLTGEL------GRRPTEEEIATELEISMNELRTIRQA 185 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 SLN + D ++ + L D + + + E +M+ + + L P Sbjct: 186 DHRTRSYSLNMKM---DDEQTELAELLADDSANPNEFVAQIE----LSSMVEQLLETLPP 238 Query: 238 RERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++ I R +N ++LE + +SRERVRQ++ RA + ++ Sbjct: 239 RQQEIIALRYGLKNGKQMSLEEVGHHCNLSRERVRQLQNRAMRTLK 284 >gi|152980761|ref|YP_001352183.1| RNA polymerase primary sigma factor [Janthinobacterium sp. Marseille] gi|151280838|gb|ABR89248.1| RNA polymerase primary sigma factor [Janthinobacterium sp. Marseille] Length = 826 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ +TY+ WW Sbjct: 587 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWW 646 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A K+ + Sbjct: 647 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAIKMEM 701 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R ++ Sbjct: 702 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDNNTLAPADAALHASMRGVV 756 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 757 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 811 >gi|156740279|ref|YP_001430408.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156231607|gb|ABU56390.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 541 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 123/242 (50%), Gaps = 26/242 (10%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L ++LRLVV +A Y G GL + +++ EGN+GL++AV+KFD +GF+ +TY+ W Sbjct: 303 TAREDLTQANLRLVVSVAKKYIGRGLQLLDLIQEGNVGLIRAVEKFDYRKGFKFSTYATW 362 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAI 162 WI+ A+ I ++I T N RL RR+ L + TD L + + Sbjct: 363 WIRQAITRAIADQARTIRIPVHMVETIN--RLMRESRRMLQELGREPTDEELSRALGIPV 420 Query: 163 AKKLNVSES--EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K ++ ++ E +S+ + +E SQ D++ D + + Sbjct: 421 DKVRSIRKTSLEPVSLETPVGQEE------------DSQLGDFI---EDSKVLAPSDAAS 465 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 + R + + ++ L RERR+ + R E+ TLE + EF V+RER+RQIE +A + Sbjct: 466 HQMLREQVEQVLNQLTERERRVLQLRFGLEDGHSRTLEEVGKEFGVTRERIRQIEVKALR 525 Query: 279 KV 280 K+ Sbjct: 526 KL 527 >gi|326801849|ref|YP_004319668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] gi|326552613|gb|ADZ80998.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] Length = 285 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 74/280 (26%), Positives = 132/280 (47%), Gaps = 32/280 (11%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 LS Y++E+ K ++ EE LA++ RE GD A RL ++LR V+ +A Y+ GL Sbjct: 17 SLSLYLNEVSKFELISADEEVSLAEKIRE-GDQLALERLTKANLRFVISVAKQYQHQGLV 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++++EGN GL++A ++FD +GF+ +Y++WWI+ ++ I V++ NQ Sbjct: 76 LEDLINEGNAGLVKAARRFDETKGFKFISYAVWWIRQSIMSAISIQSRAVRL--PGNQIS 133 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVA---------IAKKLNVSESEVISMNCRLAGDES 185 LRR + ++ + E++ IA N I + +E Sbjct: 134 NLIKLRRSQAEMEQRLEREPSVEELAVELGTTTDRIIASFTNAERQLSIDAPSVFSEEER 193 Query: 186 LNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 L + SSD + Q QD L D L+ K+ R +LT + N Sbjct: 194 LLDSLASSDPATDQQLIQDSLFLRID-----LVLKKLSSRERQILTMFYGLSNS------ 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 P TL+ ++ + +++ ER+RQ++ +A ++ S Sbjct: 243 -------EPQTLDEIAYQLKLTPERIRQLKTKALLHIKNS 275 >gi|23308878|ref|NP_601117.2| RNA polymerase sigma factor [Corynebacterium glutamicum ATCC 13032] gi|21324681|dbj|BAB99304.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) (SigA) [Corynebacterium glutamicum ATCC 13032] Length = 498 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 81/324 (25%), Positives = 154/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H GD Sbjct: 180 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHRMEEMEEAFAAGD 238 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 239 KDAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 298 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 299 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 356 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ ++K++++SE +V+ + SL+ I D+ SQ D++ Sbjct: 357 LQELGREPTPQE---LSKEMDISEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 409 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 410 -EDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 468 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 469 TRERIRQIESKTMSKLRHPSRSQV 492 >gi|328954514|ref|YP_004371848.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] gi|328454838|gb|AEB10667.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] Length = 577 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 121/237 (51%), Gaps = 12/237 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV+KF+ ERG++ +TY+ WW Sbjct: 339 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYERGYKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R +L PE+ +A+K+ Sbjct: 399 IRQAITRAIADQARTIRI--PVHMIETINKLLRTSRYLVQEIGREPTPEE---LAEKMEY 453 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ ++ S D++ D + E E N + Sbjct: 454 PLEKVRKV-LKIA-KEPISLETPIGEEEDSYLADFI---EDKKISSPTEAVENLNLAEIT 508 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +S L PRE ++ R ++ TLE + +F V+RER+RQIEA+A +K++ + Sbjct: 509 RKVLSTLTPREEKVIRLRFGIGEKTDHTLEEVGKKFMVTRERIRQIEAKALRKLRHA 565 >gi|300868700|ref|ZP_07113311.1| RNA polymerase, sigma 28 subunit [Oscillatoria sp. PCC 6506] gi|300333261|emb|CBN58503.1| RNA polymerase, sigma 28 subunit [Oscillatoria sp. PCC 6506] Length = 462 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 127/240 (52%), Gaps = 16/240 (6%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP RG+R +TY+ Sbjct: 220 IQAKDHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYAY 279 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + I+ + + IA +L Sbjct: 280 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQEKGRTASIEDIAAEL 334 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD--GQEQVLIEKEERKNR 224 ++ +V + R+ SL + ++ ++ D L+ D D E++L+ + ++ Sbjct: 335 GMTAPQVREVLLRVPRSVSLETKVG--NEKDTELGD-LLDDADSVSPEELLMREALHRDL 391 Query: 225 RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + +L + L RER + R +P +L + ++SRERVRQIEA+A +K+++ Sbjct: 392 QQLL----ADLTSRERDVILMRFGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQ 447 >gi|296139587|ref|YP_003646830.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] gi|296027721|gb|ADG78491.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] Length = 483 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 80/318 (25%), Positives = 152/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-------------YREHG---- 45 RK+ + + + + Y+ +I K+ +L +EE LAKR + E G Sbjct: 171 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLFAEQMINRWVERGEKPA 229 Query: 46 -----DLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 D++ A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 230 IGIRRDMNWIARDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 289 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 290 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 347 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 348 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 399 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 400 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 459 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 460 QIESKTMSKLRHPSRSQV 477 >gi|87302558|ref|ZP_01085375.1| Sigma-70 factor family protein [Synechococcus sp. WH 5701] gi|87282902|gb|EAQ74859.1| Sigma-70 factor family protein [Synechococcus sp. WH 5701] Length = 307 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 123/241 (51%), Gaps = 15/241 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++T++LRLVV +A Y+G GL + +++ EG +GL++AV+K+DP RG R +TY+ WW Sbjct: 66 AKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLVRAVEKYDPTRGHRFSTYAYWW 125 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + + ++I N+K LR K L P+++ A L + Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKARLLQANGLTASPQELAA-TMHLPL 182 Query: 169 SESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +E E + ++C L SL ++ S + ++ D L D E +E+ E R Sbjct: 183 AEVEDL-LSCELRSITVSLQGVVKSKS-DPTELVDVLASD----EMPPMERAELSERSAS 236 Query: 228 LTRSMSV--LNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + R + V L PRER + R + TL ++ + SRE RQ+ RA +K+++ Sbjct: 237 VWRLLDVSNLTPRERTVVMLRFGLDGGHEWRTLAEVARQLGCSREYCRQVVQRALRKLRK 296 Query: 283 S 283 + Sbjct: 297 A 297 >gi|319941926|ref|ZP_08016247.1| hypothetical protein HMPREF9464_01466 [Sutterella wadsworthensis 3_1_45B] gi|319804579|gb|EFW01449.1| hypothetical protein HMPREF9464_01466 [Sutterella wadsworthensis 3_1_45B] Length = 779 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/258 (27%), Positives = 138/258 (53%), Gaps = 18/258 (6%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +Q E A + + + A +++ ++LRLV+ IA GY GL +++++ EGN+GLM+ Sbjct: 521 LSEQRELGRAMKLAQTNLMQAKAKMIEANLRLVISIAKGYVNRGLAMTDLIQEGNLGLMK 580 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV KF+ RG++ +TY+ WW++ ++ + + ++I + + LRR K Sbjct: 581 AVDKFEYRRGYKFSTYATWWVRQSVTRAVADFGNTIRIPVHMTES--YNKLRRQKQKF-- 636 Query: 149 ITDNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + + +P EQ +A L + + +++ R G ES++A I D+ + D++ + Sbjct: 637 LQQHGRQPTEQELAELADLPLQKVNLLTQAMR--GVESIDAPIG--DEEDATKLDFVRGN 692 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR----RLQENPVTLENLSSEFE 263 V + ++ + + +S++ LNPRE ++ R Q++ TLE + Sbjct: 693 ERDDPGVAFQD---RSMIDCIQKSLNELNPREAQVLRLRYGIGTNQDH--TLEEVGRTLG 747 Query: 264 VSRERVRQIEARAFKKVQ 281 ++RERVRQIE+ A +K++ Sbjct: 748 LTRERVRQIESAAIRKLR 765 >gi|269468904|gb|EEZ80491.1| DNA-directed RNA polymerase, sigma subunit [uncultured SUP05 cluster bacterium] Length = 603 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 77/262 (29%), Positives = 126/262 (48%), Gaps = 40/262 (15%) Query: 36 VLAKRYREHGD---LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 L K YR GD A +++ ++LRLV+ IA Y GL +++ EGN+GLM+AV K Sbjct: 351 ALNKLYR-RGDRRAKKAKSQMIEANLRLVISIAKKYANRGLQFLDLIQEGNVGLMKAVDK 409 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQA 148 F+ RG++ +TY+ WWI+ A+ I ++I T N+ L R++ L Sbjct: 410 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK------LNRVRRQLLQ 463 Query: 149 ITDNNLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 PE++ I K L +++ E +SM + DE N D N S Sbjct: 464 KFGREATPEELAVEMELPEYKINKILKIAK-EPLSMETPVGDDEDSNIGDFIEDTNLSSP 522 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENL 258 +E R++ + ++ L+PRE ++ + R + TLE + Sbjct: 523 ---------------VEITTRESLKETTGELLANLSPREAKVLKMRFGIDMNTDHTLEEV 567 Query: 259 SSEFEVSRERVRQIEARAFKKV 280 +F+V+RER+RQIEA+A +K+ Sbjct: 568 GRQFDVTRERIRQIEAKALRKL 589 >gi|148654464|ref|YP_001274669.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148566574|gb|ABQ88719.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 541 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 123/242 (50%), Gaps = 26/242 (10%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L ++LRLVV +A Y G GL + +++ EGN+GL++AV+KFD +GF+ +TY+ W Sbjct: 303 TAREDLTQANLRLVVSVAKKYIGRGLQLLDLIQEGNVGLIRAVEKFDYRKGFKFSTYATW 362 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAI 162 WI+ A+ I ++I T N RL RR+ L + TD L + + Sbjct: 363 WIRQAITRAIADQARTIRIPVHMVETIN--RLMRESRRMLQELGREPTDEELSRALGIPV 420 Query: 163 AKKLNVSES--EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K ++ ++ E +S+ + +E SQ D++ D + + Sbjct: 421 DKVRSIRKTSLEPVSLETPVGQEE------------DSQLGDFI---EDSKVLAPSDAAS 465 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 + R + + ++ L RERR+ + R E+ TLE + EF V+RER+RQIE +A + Sbjct: 466 HQMLREQVEQVLNQLTERERRVLQLRFGLEDGHSRTLEEVGKEFGVTRERIRQIEVKALR 525 Query: 279 KV 280 K+ Sbjct: 526 KL 527 >gi|25028360|ref|NP_738414.1| RNA polymerase sigma factor [Corynebacterium efficiens YS-314] gi|23493645|dbj|BAC18614.1| sigma factor SigA [Corynebacterium efficiens YS-314] Length = 506 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 81/324 (25%), Positives = 154/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H GD Sbjct: 188 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHKMEEMEAAYAAGD 246 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 247 KDAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 306 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 307 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 364 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ ++K++++SE +V+ + SL+ I D+ SQ D++ Sbjct: 365 LQELGREPTPQE---LSKEMDISEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 417 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 418 -EDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 476 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 477 TRERIRQIESKTMSKLRHPSRSQV 500 >gi|145295815|ref|YP_001138636.1| RNA polymerase sigma factor [Corynebacterium glutamicum R] gi|140845735|dbj|BAF54734.1| hypothetical protein [Corynebacterium glutamicum R] Length = 494 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 81/324 (25%), Positives = 154/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H GD Sbjct: 176 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHRMEEMEEAFAAGD 234 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 235 KDAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 294 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 295 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 352 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ ++K++++SE +V+ + SL+ I D+ SQ D++ Sbjct: 353 LQELGREPTPQE---LSKEMDISEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 405 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 406 -EDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 464 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 465 TRERIRQIESKTMSKLRHPSRSQV 488 >gi|86606677|ref|YP_475440.1| RNA polymerase sigma factor SigC [Synechococcus sp. JA-3-3Ab] gi|86555219|gb|ABD00177.1| RNA polymerase sigma-70 factor family [Synechococcus sp. JA-3-3Ab] Length = 364 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 67/248 (27%), Positives = 129/248 (52%), Gaps = 21/248 (8%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 + KR +EH ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP+ Sbjct: 121 IGKRAKEH--------MIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPK 172 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G+R +TY+ WWI+ + I +++ +K L ++K + ++ + Sbjct: 173 KGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKLSQEKGRT 227 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA +L ++ +V + R+ SL + DK+ ++ D L D E+ ++ Sbjct: 228 PTIEDIASELEMTVPQVRELLVRVPRSVSLETKVG-KDKD-TELGDLLETDDISPEETMM 285 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT--LENLSSEFEVSRERVRQIEA 274 + ++ + +L + L RER + R + T L + ++SRERVRQIEA Sbjct: 286 REALHRDLQQLL----ADLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQIEA 341 Query: 275 RAFKKVQE 282 +A +K+++ Sbjct: 342 KALQKLRQ 349 >gi|326518320|dbj|BAJ88189.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326533296|dbj|BAJ93620.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 552 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/255 (29%), Positives = 134/255 (52%), Gaps = 23/255 (9%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E L KR +HG + +R+VTS++RLV+ IA + G GL + +++ EG GL++ +K Sbjct: 297 DENTLRKRL-DHG-IHCKNRMVTSNVRLVISIAREFEGPGLELYDLIQEGMQGLIRGAEK 354 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +GFR +TYS WWIK AM++ + + ++ A+ + ++ L+ Sbjct: 355 FDASKGFRFSTYSHWWIKQAMRKSVSEQTQIFRL--PAHMVEASYRVKECTKRLRRKLKR 412 Query: 153 NLKPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 E++ V I + E+ V + SL++ I S+D + Y Sbjct: 413 RPSNEEIAVDIGMPVKRVEAAVSLPKYSV----SLDSKIGSTD---------MTYQEVTA 459 Query: 212 EQVLIEKEERKNRRNM---LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSR 266 + EE NR +M + +++ L+PRER++ + R + + + TL+ + + VSR Sbjct: 460 DPSAETAEEMLNRMSMKKDVHQALDTLSPRERQVVKLRFGINDGRIRTLQEIGNIMGVSR 519 Query: 267 ERVRQIEARAFKKVQ 281 ER+RQIE+ AF+K++ Sbjct: 520 ERIRQIESGAFRKLR 534 >gi|186680839|ref|YP_001864035.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186463291|gb|ACC79092.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 378 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 121/240 (50%), Gaps = 21/240 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ WW Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 199 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L +LK + + + +A+ L++ Sbjct: 200 IRQAITRAIANDARTIRLPIHIVEK-----LNKLKKAQRELKQKLCRNPTEGEMAEALDI 254 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S ++ + SLN + + ++ D L+ D D E K NM+ Sbjct: 255 SVQQLRQLQQLRRQALSLNHRVGKEE--DTELMD-LLEDEDNL------SPEAKMNENMM 305 Query: 229 TRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + VL PRE+ + R P TLE + + F +SRERVRQI+++A +K++ Sbjct: 306 RQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLR 365 >gi|193222233|emb|CAL60659.2| putative RNA polymerase sigma factor rpoD (Sigma-70) [Herminiimonas arsenicoxydans] Length = 800 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ +TY+ WW Sbjct: 561 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWW 620 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A K+ + Sbjct: 621 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAIKMEM 675 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R ++ Sbjct: 676 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDNNTLAPADAALHASMRGVV 730 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 731 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 785 >gi|218200736|gb|EEC83163.1| hypothetical protein OsI_28384 [Oryza sativa Indica Group] Length = 537 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 63/243 (25%), Positives = 125/243 (51%), Gaps = 23/243 (9%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+ RLV+ +A Y GYGL I ++V +G GLM+ +KF+P +G R TY+ WWI+ Sbjct: 301 KMARSNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQ 360 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++++ I ++ L+++ + ++ LR++ K ++ I + +P +A++ ++ Sbjct: 361 SIKKSIFKNSRLIRLPES-----VYALLRKVGKARMECIMEGE-QPTN-ANVARRAGITI 413 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 ++ + + S+ + W D V + E +E + R M+ + Sbjct: 414 EKLAKLRAKTRKPRSMQDHV---------WSDEGVTFQEITEDPNVEPPDLSVDRMMMRQ 464 Query: 231 S----MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L+PRE+ I E R + P TL + F +S+ER+RQ++ RA +K++ S Sbjct: 465 QVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLKRSA 524 Query: 285 QKQ 287 Q Sbjct: 525 SLQ 527 >gi|196229539|ref|ZP_03128404.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] gi|196226771|gb|EDY21276.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] Length = 671 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 81/264 (30%), Positives = 130/264 (49%), Gaps = 35/264 (13%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E QEEY K + + L A +V ++LRLV+ IA Y GL +++ EGN+GLM+A Sbjct: 412 EFQEEYKELKVWLKKA-LKAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKA 470 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLR 140 V+KF+ RG++ +TY+ WWI+ A+ I ++I T N QK+L + Sbjct: 471 VEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQDYG 530 Query: 141 RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL--AGDESLNALINSSDKNSS 198 R + + L E+V A+ K + IS+ + + D S I DK + Sbjct: 531 REPTPEEVADEIQLPVERVRAVLKMAQ----QPISLQSPVGESDDTSFGDFIE--DKGAE 584 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLE 256 D +++ KE+ K+ + L RER++ E R + TLE Sbjct: 585 NLSDMTA--------IVLLKEKIKD-------VLETLTERERQVLEQRFGLVDGYSRTLE 629 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + +F+V+RER+RQIEA+A +K+ Sbjct: 630 EVGRQFKVTRERIRQIEAKALRKM 653 >gi|115475493|ref|NP_001061343.1| Os08g0242800 [Oryza sativa Japonica Group] gi|30698490|dbj|BAC76602.1| Sig6 [Oryza sativa Japonica Group] gi|40253642|dbj|BAD05586.1| Sig6, plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] gi|40253689|dbj|BAD05631.1| Sig6, plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] gi|113623312|dbj|BAF23257.1| Os08g0242800 [Oryza sativa Japonica Group] gi|215712228|dbj|BAG94355.1| unnamed protein product [Oryza sativa Japonica Group] Length = 572 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 63/243 (25%), Positives = 125/243 (51%), Gaps = 23/243 (9%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+ RLV+ +A Y GYGL I ++V +G GLM+ +KF+P +G R TY+ WWI+ Sbjct: 336 KMARSNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQ 395 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++++ I ++ L+++ + ++ LR++ K ++ I + +P +A++ ++ Sbjct: 396 SIKKSIFKNSRLIRLPES-----VYALLRKVGKARMECIMEGE-QPTN-ANVARRAGITI 448 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 ++ + + S+ + W D V + E +E + R M+ + Sbjct: 449 EKLAKLRAKTRKPRSMQDHV---------WSDEGVTFQEITEDPNVEPPDLSVDRMMMRQ 499 Query: 231 S----MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L+PRE+ I E R + P TL + F +S+ER+RQ++ RA +K++ S Sbjct: 500 QVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLKRSA 559 Query: 285 QKQ 287 Q Sbjct: 560 SLQ 562 >gi|254424042|ref|ZP_05037760.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196191531|gb|EDX86495.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 319 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 65/249 (26%), Positives = 134/249 (53%), Gaps = 37/249 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA YRG L + +++ EG++GL + V+KFDP +G+R +TY+ WW Sbjct: 83 AKDKMMRSNLRLVVSIAKKYRGSKLDMMDLIQEGSLGLCRGVEKFDPLKGYRFSTYAYWW 142 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ N+K L +++ + ++ +P V +A+K+++ Sbjct: 143 IRQAITRAIADTGRTIRLPIHINEK-----LSKIRKAQREVSLELGRPATVSEVAEKVSL 197 Query: 169 SESEV----------ISMNCRLAGDES--LNALINSSDKNSSQW--QDWLVYDHDGQEQV 214 +V +S+N R+ +++ L AL+ S ++ ++ Q+ L D Q+ Sbjct: 198 PAEKVRELQRQSRLPLSLNMRIGSEQNTELGALLESDSQSPEEYATQNLLKRDIG---QL 254 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 L ER+ +++++ + + +++ TL + + ++SRERVRQIE Sbjct: 255 LARLTERQ--KDVISMRFGLDDGKKK-------------TLAQIGHDLDISRERVRQIER 299 Query: 275 RAFKKVQES 283 +A + ++ + Sbjct: 300 KALRTLRHT 308 >gi|62390750|ref|YP_226152.1| RNA polymerase sigma factor [Corynebacterium glutamicum ATCC 13032] gi|41326088|emb|CAF20251.1| RNA POLYMERASE SIGMA 70 FACTOR [Corynebacterium glutamicum ATCC 13032] Length = 494 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 81/324 (25%), Positives = 154/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H GD Sbjct: 176 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHRMEEMEEAFAAGD 234 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 235 KDAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 294 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 295 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 352 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ ++K++++SE +V+ + SL+ I D+ SQ D++ Sbjct: 353 LQELGREPTPQE---LSKEMDISEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 405 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 406 -EDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 464 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 465 TRERIRQIESKTMSKLRHPSRSQV 488 >gi|332704204|ref|ZP_08424292.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio africanus str. Walvis Bay] gi|332554353|gb|EGJ51397.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio africanus str. Walvis Bay] Length = 594 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 128/248 (51%), Gaps = 24/248 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 356 AKRELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 415 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ L R +L + PE+ IA+ Sbjct: 416 IRQAITRAIADQARTIRIPVHMIETINK------LIRTSRYLVQELGRDPTPEE---IAE 466 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +++ E + ++A E ++ D+ S D++ ++ + EE N Sbjct: 467 RMDYP-IEKVKKVLKIAK-EPISLETPIGDEEDSSLGDFI-----EDKKAVAPAEEVVNT 519 Query: 225 R--NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + + + +S L PRE ++ R +++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 520 KLSEQIGKVLSDLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKL 579 Query: 281 QESIQKQV 288 + ++ Q+ Sbjct: 580 RHPVRSQI 587 >gi|298529696|ref|ZP_07017099.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfonatronospira thiodismutans ASO3-1] gi|298511132|gb|EFI35035.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfonatronospira thiodismutans ASO3-1] Length = 588 Score = 93.6 bits (231), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 126/250 (50%), Gaps = 30/250 (12%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 348 LRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 407 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV------ 160 WWI+ A+ I ++I + L R +L + PE++ Sbjct: 408 WWIRQAITRAIADQARTIRI--PVHMIETINKLVRTSRYLVQELGRDPSPEEIAERMDYP 465 Query: 161 --AIAKKLNVSESEVISMNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIE 217 + K L +++ E IS+ + GDE ++L + DK + D +V ++ Sbjct: 466 LEKVKKVLKIAK-EPISLETPI-GDEEDSSLGDFIEDKKAVAPADEVVNSKLSEQ----- 518 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +++ ++ L PRE ++ R +++ TLE + F V+RER+RQIEA+ Sbjct: 519 ----------ISKVLAELTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAK 568 Query: 276 AFKKVQESIQ 285 A +K++ ++ Sbjct: 569 ALRKLRHPVR 578 >gi|299135760|ref|ZP_07028944.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX8] gi|298601884|gb|EFI58038.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX8] Length = 573 Score = 93.6 bits (231), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 125/250 (50%), Gaps = 29/250 (11%) Query: 44 HGDLSA--AHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 GD+ A A R L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ Sbjct: 323 QGDMDAEKAKRELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 382 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL--QAITDNNL 154 +TY+ WWI+ A+ I ++I T N +L R+L L +A ++ Sbjct: 383 FSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQLVQELGREASSEEIA 440 Query: 155 KPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 K + VA +K+ E IS+ + +E + D+ + D ++ Sbjct: 441 KRMDIPVAKVRKVLKIAQEPISLETPIGEEEDSHLGDFIEDRMAVSPSDAVIS------- 493 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQ 271 N + ++ + L PRE R+ + R E+ TLE + F+V+RER+RQ Sbjct: 494 --------VNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHTLEEVGQSFQVTRERIRQ 545 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 546 IEAKALRKLR 555 >gi|237785650|ref|YP_002906355.1| RNA polymerase sigma factor [Corynebacterium kroppenstedtii DSM 44385] gi|237758562|gb|ACR17812.1| RNA polymerase sigma factor A [Corynebacterium kroppenstedtii DSM 44385] Length = 621 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 82/318 (25%), Positives = 153/318 (48%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREHG------------ 45 RK+ + + + + Y+ +I K+ +L ++E LA+R Y H Sbjct: 309 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAQRIEAGLYANHKLEELKASNTKLS 367 Query: 46 -----DL-SAAH-------RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 DL S AH L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 368 PAQSRDLRSIAHDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 427 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 428 FDYTKGYKFSTYATWWIRQAITRSMADQARTIRI--PVHMVEVINKLGRIQRELLQDLSR 485 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +A++++++E +V+ + SL+ I D+ SQ D++ D + Sbjct: 486 EPTPEE---LAREMDITEDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 537 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVR 270 V ++ ++ L + L RE + R L + P TL+ + + V+RER+R Sbjct: 538 VVAVDAVSFTLLQDQLQDVLKTLTEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIR 597 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 598 QIESKTMSKLRHPSRSQV 615 >gi|212212053|ref|YP_002302989.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] gi|212010463|gb|ACJ17844.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] Length = 698 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 118/246 (47%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ + +++++ Sbjct: 518 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGIEATPEE---LGRRMDM 572 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE N D N D+ L+E Sbjct: 573 PEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDF------ATSAGLMEA 626 Query: 219 EERKNRRNMLTRS-MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 TR +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 627 ----------TREILSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 676 Query: 276 AFKKVQ 281 A +K++ Sbjct: 677 ALRKLR 682 >gi|167724581|ref|ZP_02407817.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei DM98] Length = 680 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 441 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 500 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 501 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGLEPDPAT-LAEKMEM 555 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R+++ Sbjct: 556 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDTNTVAPADAALHASMRDVV 610 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L P E ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 611 KDVLDSLTPSEAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 665 >gi|121997892|ref|YP_001002679.1| RpoD family RNA polymerase sigma factor [Halorhodospira halophila SL1] gi|121589297|gb|ABM61877.1| RNA polymerase, sigma 70 subunit, RpoD [Halorhodospira halophila SL1] Length = 602 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 364 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 423 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 424 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREATPEE---LAERMEM 478 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D ++ + R + Sbjct: 479 PEDKVRKV-LKIAK-EPISMETPIGDDEDSHLGDFI---EDTSVTSPVDSATSEGLRESV 533 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 534 REVLSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 588 >gi|302867958|ref|YP_003836595.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC 27029] gi|302570817|gb|ADL47019.1| RNA polymerase sigma factor, sigma-70 family [Micromonospora aurantiaca ATCC 27029] Length = 314 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 143/310 (46%), Gaps = 54/310 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLA----------KRYREHGDLSAA--------------- 50 ++ Y+ I + P+L ++E L +R + GD A Sbjct: 16 VAAYLRTIGRTPLLTAEQETRLGARIEAGALAQRRLDDDGDRVGAAEQDRLRRLVADGRR 75 Query: 51 --HRLVTSHLRLVVKIAMGYRGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 H ++ ++LRLVV +A Y G LP+ +++ EG IGLM+AV+KFD RG + +TY+ W Sbjct: 76 ARHHMIEANLRLVVSVAKRYALAGRLPLLDLIQEGTIGLMRAVEKFDHRRGLKFSTYATW 135 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA----IA 163 WIK A+ + +++ A+ + + R + L D P +V A A Sbjct: 136 WIKQAIGRALTDQSRTIRL--PAHLVEVLNRVNRTRRTLAGELDREPTPAEVAARVEVPA 193 Query: 164 KKLNV---SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 +K+ + + E +S++ +AG +++ D L + G V++ Sbjct: 194 EKVELLLRHDREPVSLHTPVAG-----------AAGTTELGDLLPDEAPGPAGVVVSSW- 241 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 RR L + L+ RE + R ++ P TL+ + + ++RERVRQIE++A + Sbjct: 242 ---RRRYLDEVLGTLSEREAAVICQRYGLDDDRPSTLDEIGTRIGLTRERVRQIESQALR 298 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 299 KLRHPTRARV 308 >gi|298346920|ref|YP_003719607.1| RNA polymerase sigma factor SigA [Mobiluncus curtisii ATCC 43063] gi|298236981|gb|ADI68113.1| RNA polymerase sigma factor SigA [Mobiluncus curtisii ATCC 43063] Length = 563 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 81/310 (26%), Positives = 144/310 (46%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----------------------GDLSAA 50 Y+ +I K+ +L ++E L+KR Y EH G ++ Sbjct: 269 YLKQIGKVALLNAEQEVDLSKRIEAGLYAEHLLKTKQETMTPKQIRELHYVVQDGQMAKN 328 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 329 H-LLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIR 387 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + + PE+VV Sbjct: 388 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTPEKVVE 447 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ V D ++++++ Sbjct: 448 VQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVSFMMLQEQ 494 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 L R + L+ RE + R L++ P TL+ + + V+RER+RQIEA+ Sbjct: 495 --------LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTM 546 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 547 SKLRHPARSQ 556 >gi|319779662|ref|YP_004130575.1| RNA polymerase sigma factor RpoD [Taylorella equigenitalis MCE9] gi|317109686|gb|ADU92432.1| RNA polymerase sigma factor RpoD [Taylorella equigenitalis MCE9] Length = 840 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 127/238 (53%), Gaps = 20/238 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A H ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 601 AKHEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 660 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++I + + R+ Q + + ++P+ + +A+K+++ Sbjct: 661 IRQAITRSIADQARIIRI--PVHMIETINKINRI--TRQILQETGVEPDSAM-LAEKMDM 715 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E I +++ D S+ I D + S D++ ++ + EE +R+M Sbjct: 716 P-IEKIRKILKISKDPISMETPIG--DDDDSHLGDFI------EDTSTLSPEEAALQRSM 766 Query: 228 LTRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 V+N +R + R++ + TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 767 SEVFDEVINSLTQREGKVLRMRFGIGMSSDQTLEEVGKQFDVTRERIRQIEAKALRKL 824 >gi|1237088|emb|CAA92648.1| major sigma factor [Rhodobacter capsulatus] Length = 674 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 119/236 (50%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ +A+KL + Sbjct: 496 IRQAITRSIADQARTIRI--PVHMIETINKLVRTGRQMLHEIGREPTPEE---LAEKLQM 550 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V + ++A + SL I + SQ D++ D + ++ ++N + Sbjct: 551 PLEKVRKV-MKIAKEPISLETPIGHEE--DSQLGDFI---EDKNAILPLDSAIQENLKET 604 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TR + L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 605 TTRVLPSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660 >gi|262275021|ref|ZP_06052832.1| RNA polymerase sigma factor RpoD [Grimontia hollisae CIP 101886] gi|262221584|gb|EEY72898.1| RNA polymerase sigma factor RpoD [Grimontia hollisae CIP 101886] Length = 615 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 121/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPMDSAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 N + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 MNNLKMATSEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 599 KLRHPSRSEV 608 >gi|154705741|ref|YP_001423814.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] gi|154355027|gb|ABS76489.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] Length = 698 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 118/246 (47%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ + +++++ Sbjct: 518 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGIEATPEE---LGRRMDM 572 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE N D N D+ L+E Sbjct: 573 PEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDF------ATSAGLMEA 626 Query: 219 EERKNRRNMLTRS-MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 TR +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 627 ----------TREILSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 676 Query: 276 AFKKVQ 281 A +K++ Sbjct: 677 ALRKLR 682 >gi|319941927|ref|ZP_08016248.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] gi|319804580|gb|EFW01450.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] Length = 917 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 125/237 (52%), Gaps = 16/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGN+GLM+AV KF+ RG++ +TY+ WW Sbjct: 676 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWW 735 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLN 167 I+ A+ I ++I + + R+ + Q + + ++P+ +A+ + Sbjct: 736 IRQAITRSIADQARTIRIPV-----HMIETINRMNRITRQELQETGVEPDS-RRLAELME 789 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E +++ + ++A E ++ D + S D+L D Q E + + + Sbjct: 790 MPEDKILKI-MKIAK-EPISMETPIGDDDDSHLGDFL---EDTQTVAPAEAVQNASLSDT 844 Query: 228 LTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + L+PRE ++ R +Q + TLE + +F+V+RER+RQIE +A +K++ Sbjct: 845 VKQVLDSLSPREAKVLRMRFGIEMQSDH-TLEEVGKQFDVTRERIRQIETKALRKLR 900 >gi|257892237|ref|ZP_05671890.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Enterococcus faecium 1,231,408] gi|257828616|gb|EEV55223.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Enterococcus faecium 1,231,408] Length = 332 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 45/108 (41%), Positives = 68/108 (62%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L +EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 103 YLKEIGRVSLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 161 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 162 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI 209 >gi|125602683|gb|EAZ42008.1| hypothetical protein OsJ_26557 [Oryza sativa Japonica Group] Length = 497 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 63/243 (25%), Positives = 125/243 (51%), Gaps = 23/243 (9%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++ S+ RLV+ +A Y GYGL I ++V +G GLM+ +KF+P +G R TY+ WWI+ Sbjct: 261 KMARSNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQ 320 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++++ I ++ L+++ + ++ LR++ K ++ I + +P +A++ ++ Sbjct: 321 SIKKSIFKNSRLIRLPES-----VYALLRKVGKARMECIMEGE-QPTN-ANVARRAGITI 373 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 ++ + + S+ + W D V + E +E + R M+ + Sbjct: 374 EKLAKLRAKTRKPRSMQDHV---------WSDEGVTFQEITEDPNVEPPDLSVDRMMMRQ 424 Query: 231 S----MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L+PRE+ I E R + P TL + F +S+ER+RQ++ RA +K++ S Sbjct: 425 QVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLKRSA 484 Query: 285 QKQ 287 Q Sbjct: 485 SLQ 487 >gi|29654887|ref|NP_820579.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] gi|161831165|ref|YP_001597431.1| RNA polymerase sigma factor RpoD [Coxiella burnetii RSA 331] gi|81628631|sp|Q83BB6|RPOD_COXBU RecName: Full=RNA polymerase sigma factor rpoD gi|29542156|gb|AAO91093.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] gi|161763032|gb|ABX78674.1| RNA polymerase sigma factor RpoD [Coxiella burnetii RSA 331] Length = 698 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 118/246 (47%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ + +++++ Sbjct: 518 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGIEATPEE---LGRRMDM 572 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE N D N D+ L+E Sbjct: 573 PEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDF------ATSAGLMEA 626 Query: 219 EERKNRRNMLTRS-MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 TR +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 627 ----------TREILSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 676 Query: 276 AFKKVQ 281 A +K++ Sbjct: 677 ALRKLR 682 >gi|312200424|ref|YP_004020485.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311231760|gb|ADP84615.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 403 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 87/292 (29%), Positives = 134/292 (45%), Gaps = 39/292 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------------------------EHGDLSAAH 51 Y+ I K P+L + E LAKR E AA Sbjct: 109 YLASIGKTPLLTAEGEVDLAKRIEAGLFAGHKLETAVEEMSPGQRLDLIAVERDGQVAAR 168 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV ++LRLVV IA Y G G+ +VV EGN+GL++AV+KFD +G++ +TY+ WW++ Sbjct: 169 QLVEANLRLVVSIAKRYAGRGMLFLDVVQEGNLGLIRAVEKFDYTKGYKFSTYATWWVRQ 228 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + V++ + L L RL+ L E+ +A L V+ + Sbjct: 229 AITRALADQSRTVRL--PVHLVELLNQLVRLRRELLMELGREATREE---LATALGVTAN 283 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V + SL++ + D ++ D L+ D E V E R L+ Sbjct: 284 RVDELQRISREPVSLDSPVG--DDADTELGD-LIEDTAAIEPV--EAAMVSVRAAQLSAV 338 Query: 232 MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RERR+ + R L + V TLE + EF ++RER+RQIE R K++ Sbjct: 339 LRALPDRERRVIQLRFGLADGQVHTLEEIGREFGLTRERIRQIEQRTLAKLR 390 >gi|296121158|ref|YP_003628936.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] gi|296013498|gb|ADG66737.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] Length = 577 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 123/235 (52%), Gaps = 16/235 (6%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +L +LRLVV IA YR GL +++ EGN GLM+ V+K++ RG++ +TY+ WWI+ Sbjct: 300 QQLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRGVEKYEFRRGYKFSTYATWWIR 359 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--VAIAKKLNV 168 A+ + ++I +F ++ LK + I + + +A+A ++V Sbjct: 360 QAITRAVADHARTIRIPV-----HMFQSISTLKNKSEQIRQETGREPTIEELALAVDMSV 414 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ++E I + SL+ I S+ +S + D+L H+ +E +++ +++ Sbjct: 415 EDTERIMKTWK--HPMSLDTPIGESEDSS--FGDFLEDSHESTPADNALREMLRDKIDIV 470 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 RS++ RER I R + TLE F+V+RER+RQIE++A KK+Q Sbjct: 471 LRSLTY---REREIIRLRYGLGDGYSYTLEETGRIFKVTRERIRQIESKALKKLQ 522 >gi|134093713|ref|YP_001098788.1| putative sigma 70 factor of RNA polymerase [Herminiimonas arsenicoxydans] Length = 858 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RGF+ +TY+ WW Sbjct: 619 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWW 678 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A K+ + Sbjct: 679 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAIKMEM 733 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D + + R ++ Sbjct: 734 PEDKIRKI-MKIA-KEPISMETPIGDDDDSHLGDFI---EDNNTLAPADAALHASMRGVV 788 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 789 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 843 >gi|313682108|ref|YP_004059846.1| RNA polymerase, sigma 70 subunit, rpod [Sulfuricurvum kujiense DSM 16994] gi|313154968|gb|ADR33646.1| RNA polymerase, sigma 70 subunit, RpoD [Sulfuricurvum kujiense DSM 16994] Length = 620 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 121/243 (49%), Gaps = 33/243 (13%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WWI+ Sbjct: 384 RMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYQKGYKFSTYATWWIRQ 443 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ I ++I + N + ++ HLQ ++ +P+ V IA+++ +S Sbjct: 444 AISRAIADQARTIRIPIHMIETINRIN-KIMRKHLQ---EHGKEPD-VETIAEEVGLSVE 498 Query: 172 EV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +V IS+ + +E DK S D ++ D Sbjct: 499 KVKNVIKITKEPISLEAPIGNEEDGRFGDFIEDKMSLSPSDAILKD-------------- 544 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + + + + LN RE+ + + R E+ TLE + E V+RERVRQIE+ A K Sbjct: 545 -DLKVQIESVLEQLNEREKAVIKMRFGIMDDESDRTLEEIGKELNVTRERVRQIESSAIK 603 Query: 279 KVQ 281 K++ Sbjct: 604 KLK 606 >gi|289207448|ref|YP_003459514.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. K90mix] gi|288943079|gb|ADC70778.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. K90mix] Length = 629 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 450 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREATPEELAERMEMPED 507 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +S+ E ISM + DE S D++ D + + Sbjct: 508 KIRKVLKISK-EPISMETPIGDDE------------DSHLGDFI---EDEKVASPSDSAA 551 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 R++ +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 552 RESLSEATREILSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 611 Query: 279 KVQ 281 K++ Sbjct: 612 KLR 614 >gi|17231741|ref|NP_488289.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120] gi|8489803|gb|AAF75759.1|AF262218_1 group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120] gi|17133384|dbj|BAB75948.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120] Length = 390 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 120/240 (50%), Gaps = 21/240 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ WW Sbjct: 152 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 211 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L +LK + + + +A+ L + Sbjct: 212 IRQAITRAIANDARTIRLPIHIVEK-----LNKLKKAQRELKQKFSRNPSEAEMAEALEI 266 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S ++ + SLN + + ++ D L+ D D E K NM+ Sbjct: 267 SVPQLRQLQQLRRQALSLNHRVGKEE--DTELMD-LLEDEDNL------SPEAKMNENMM 317 Query: 229 TRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + VL PRE+ + R P TLE + + F +SRERVRQI+++A +K++ Sbjct: 318 RQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLR 377 >gi|153208748|ref|ZP_01946986.1| RNA polymerase sigma factor RpoD [Coxiella burnetii 'MSU Goat Q177'] gi|212219307|ref|YP_002306094.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] gi|120575780|gb|EAX32404.1| RNA polymerase sigma factor RpoD [Coxiella burnetii 'MSU Goat Q177'] gi|212013569|gb|ACJ20949.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] Length = 698 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 118/246 (47%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + T PE+ + +++++ Sbjct: 518 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQETGIEATPEE---LGRRIDM 572 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE N D N D+ L+E Sbjct: 573 PEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDF------ATSAGLMEA 626 Query: 219 EERKNRRNMLTRS-MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 TR +S L PRE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 627 ----------TREILSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 676 Query: 276 AFKKVQ 281 A +K++ Sbjct: 677 ALRKLR 682 >gi|86608620|ref|YP_477382.1| RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)] gi|86557162|gb|ABD02119.1| RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)] Length = 319 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 120/228 (52%), Gaps = 13/228 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+V +LRLVV IA YR GLP +++ EG IGL +AV+KFDP RG++ +TY+ W Sbjct: 75 AAKKRMVECNLRLVVSIAKRYRNRGLPFLDLIQEGTIGLTRAVEKFDPTRGYKFSTYATW 134 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ ++ I ++++ +K ++R L A + + E+V L+ Sbjct: 135 WIRQSVNRGIQNKGRMIRLPAHMYEK--VSQVKRRYRELSAERGSRPQAEEVF---DSLD 189 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + ++ + +A SLN + D++ ++ Q ++ + + + L + R+ R + Sbjct: 190 IGDNYRELITRHMAEMRSLN--VGVGDEDGTELQHFIPDEDNDPVEHLTQLARREEVRAL 247 Query: 228 LTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 + + L+ RER++ AR + +TL + +SRERVRQIE Sbjct: 248 VGQ----LSERERQVIVARYGLDGSRGLTLREIGEHIGLSRERVRQIE 291 >gi|302335781|ref|YP_003800988.1| RNA polymerase, sigma 70 subunit, RpoD [Olsenella uli DSM 7084] gi|301319621|gb|ADK68108.1| RNA polymerase, sigma 70 subunit, RpoD [Olsenella uli DSM 7084] Length = 453 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 117/237 (49%), Gaps = 12/237 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A L++++LRL V IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ Sbjct: 213 LEAKQALISANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYAT 272 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++I + L R++ L + PE++ A ++ Sbjct: 273 WWIRQAITRAIADQARTIRI--PVHMVETINKLVRVQRQLLQDLGRDPTPEEIGA---EM 327 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +S V + SL I ++ S D++ D E R Sbjct: 328 GISADRVREIQKISQEPVSLETPIG--EEEDSSLGDFI---EDSSAVAPPEAASDSMLRE 382 Query: 227 MLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + + L RER++ + R E+ P TLE + EF V+RER+RQIE++ K++ Sbjct: 383 QLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLR 439 >gi|255327076|ref|ZP_05368152.1| RNA polymerase sigma factor SigA [Rothia mucilaginosa ATCC 25296] gi|255296293|gb|EET75634.1| RNA polymerase sigma factor SigA [Rothia mucilaginosa ATCC 25296] Length = 457 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 83/309 (26%), Positives = 140/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREHG---------DLSAAHR------------ 52 Y+ +I K+ +L Q+E LA R Y EH DL A R Sbjct: 164 YLKQIGKVSLLNAQQEVDLAMRIEAGLYAEHKLAENPDMDKDLKKALRWVIHDGKRAKNH 223 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 224 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWWIRQA 283 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 284 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMTPEKVIEVQ 343 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 344 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 388 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 389 ------LHSVLDTLSEREAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 442 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 443 LRHPSRSQV 451 >gi|67925817|ref|ZP_00519113.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Crocosphaera watsonii WH 8501] gi|67852341|gb|EAM47804.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Crocosphaera watsonii WH 8501] Length = 386 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 130/245 (53%), Gaps = 28/245 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV ++ Y+G GL ++VSEGN+GL++AV+KF+ ++G++ +TY+ W Sbjct: 23 AKEKMIQANLRLVVAVSKKYQGKGLEFMDLVSEGNLGLIRAVEKFEYDKGYKFSTYAYHW 82 Query: 109 IKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDNN----LKPEQV 159 I+ A+ I +++ N+ K++ +R+ G + + + + PE++ Sbjct: 83 IRQALVRAICDKGRTIRVPVHINEEISKLKKVQLEIRQKYGRSATVRELSERLEISPEKI 142 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + L + ++S++ ++ GDE + L++ + Q +L D+ G ++ Sbjct: 143 ----RVLRSVNNPMLSLDQKVLGDEDNSTLLSFLADPNGDLQKFL--DNLGNKE------ 190 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ + + L P+E+R+ L+ +TL + + +SRERVR I+ A K Sbjct: 191 -------LVEQCLCGLKPQEQRVLREYYLETPSLTLNEIGKKMNLSRERVRHIKNNALDK 243 Query: 280 VQESI 284 +++ I Sbjct: 244 LKQVI 248 >gi|296112900|ref|YP_003626838.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis RH4] gi|295920594|gb|ADG60945.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis RH4] gi|326561129|gb|EGE11494.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 7169] gi|326564438|gb|EGE14665.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 103P14B1] gi|326564864|gb|EGE15069.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 46P47B1] gi|326567590|gb|EGE17705.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC1] gi|326569439|gb|EGE19499.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC8] gi|326571363|gb|EGE21378.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC7] gi|326575352|gb|EGE25280.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis CO72] gi|326576561|gb|EGE26468.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 101P30B1] gi|326577423|gb|EGE27307.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis O35E] Length = 626 Score = 93.2 bits (230), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 116/245 (47%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKDMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ L PE+ + ++L++ Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEE---LGERLDM 501 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E++V ISM + DE S D++ D IE Sbjct: 502 DEAKVRKVLKIAKEPISMETPIGDDE------------DSHLGDFI---EDNTISSPIEN 546 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + R + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A Sbjct: 547 ATAEGLREATREVLDNLTEREAKVLKMRFGIDMPSDHTLEEVGKQFDVTRERIRQIEAKA 606 Query: 277 FKKVQ 281 +K++ Sbjct: 607 LRKLR 611 >gi|222475070|ref|YP_002563485.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Florida] gi|255003048|ref|ZP_05278012.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Puerto Rico] gi|255004170|ref|ZP_05278971.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Virginia] gi|222419206|gb|ACM49229.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Florida] Length = 646 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 122/239 (51%), Gaps = 19/239 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL ++V EGNIGLM+AV KFD +RG++ +TY+ WW Sbjct: 409 AKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWW 468 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I ++I + N R L+ L I + + ++ +L + Sbjct: 469 VRQAITRAIADQARTIRIPVHMIETVNKIN-RTLRQMLHEIG----REPTLEELSTRLGM 523 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRR 225 + ++ + + SL + I D +SS + D + +++ ++ E + R Sbjct: 524 NVEKIRKVMKIVKDPVSLESPIG--DDDSSTFGDCI------EDKRAVKPENAAVLADLR 575 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + T+ +S L P+E RI R TLE + F V+RER+RQIEA+A +K++ Sbjct: 576 EITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLR 634 >gi|87124019|ref|ZP_01079869.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] gi|86168588|gb|EAQ69845.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] Length = 308 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 80/263 (30%), Positives = 135/263 (51%), Gaps = 20/263 (7%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR + G+ A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG Sbjct: 57 KRVIKRGE-KAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRG 115 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 R +TY+ WWI+ + + ++I N+K LR K L PEQ Sbjct: 116 HRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKARLMQQHGQPANPEQ 173 Query: 159 VVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +A A K+ +SE E + + C L + SL ++ S + S+ D L D E +E Sbjct: 174 -LAEAMKIPLSEVEDL-LACELRSVTVSLQGIVKSK-ADPSELVDVLPSD----ELPPME 226 Query: 218 KEERKNRR----NMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVR 270 + E R +L ++ L P+ER + R + TL ++ SRE R Sbjct: 227 RAEIAERTASAWTLLEKAN--LTPKERTVVMLRFGLDGSHEWRTLAEVARHMSCSREYCR 284 Query: 271 QIEARAFKKVQESIQKQVELSSS 293 Q+ RA +K++++ +Q +SS+ Sbjct: 285 QVVQRALRKLRKTGIQQGLVSSA 307 >gi|223936990|ref|ZP_03628898.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] gi|223894271|gb|EEF60724.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] Length = 614 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 118/243 (48%), Gaps = 30/243 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ I Y GL +++ EGN+GLM+ V+KF+ RG++ +TY+ WW Sbjct: 372 AKTEMAEANLRLVISIGKKYTNRGLAFLDIIQEGNMGLMKGVEKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + L R + L PE+ IA ++ + Sbjct: 432 IRQAITRAIADQARTIRI--PVHMIEIIGKLMRAQKQLLQEFGREATPEE---IADEMQI 486 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S V S+ S+ A + SD + + D+ IE + +N +M Sbjct: 487 SVERVKSILKMAQQPISMQASVGDSD--DATFGDF------------IEDKSAENPSDMT 532 Query: 229 TRS---------MSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + S ++ L RERRI E R + TLE + +++V+RER+RQIEA+A Sbjct: 533 SYSLLKDKLNDVLATLTERERRIVELRFGLVDGYARTLEEVGKQYKVTRERIRQIEAKAL 592 Query: 278 KKV 280 +K+ Sbjct: 593 RKL 595 >gi|145594022|ref|YP_001158319.1| RNA polymerase sigma factor [Salinispora tropica CNB-440] gi|145303359|gb|ABP53941.1| RNA polymerase sigma factor RpoD [Salinispora tropica CNB-440] Length = 542 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 78/302 (25%), Positives = 144/302 (47%), Gaps = 42/302 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------EHGDLS------------------ 48 Y+ +I K+P+L ++E LAKR E GD Sbjct: 245 YLKQIGKVPLLNAEQEVELAKRIEAGLYATEQLRAAEEGDEKFNRDMQRDMMWISRDGER 304 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 305 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 364 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I + + L R++ L PE+ +AK++++ Sbjct: 365 IRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAKEMDI 419 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V+ + SL+ I D+ SQ D++ D + V ++ ++ L Sbjct: 420 TPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFSLLQDQL 474 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + + L+ RE + R P TL+ + + V+RER+RQIE++ K++ + Sbjct: 475 QQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 534 Query: 287 QV 288 QV Sbjct: 535 QV 536 >gi|75907421|ref|YP_321717.1| sigma 28 (flagella/sporulation) [Anabaena variabilis ATCC 29413] gi|75701146|gb|ABA20822.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 378 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 120/240 (50%), Gaps = 21/240 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ WW Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 199 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L +LK + + + +A+ L + Sbjct: 200 IRQAITRAIANDARTIRLPIHIVEK-----LNKLKKAQRELKQKFSRNPSEAEMAEALEI 254 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S ++ + SLN + + ++ D L+ D D E K NM+ Sbjct: 255 SVPQLRQLQQLRRQALSLNHRVGKEE--DTELMD-LLEDEDNL------SPEAKMNENMM 305 Query: 229 TRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + VL PRE+ + R P TLE + + F +SRERVRQI+++A +K++ Sbjct: 306 RQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLR 365 >gi|56416704|ref|YP_153778.1| RNA polymerase sigma factor [Anaplasma marginale str. St. Maries] gi|56387936|gb|AAV86523.1| RNA polymerase sigma factor [Anaplasma marginale str. St. Maries] Length = 632 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 122/239 (51%), Gaps = 19/239 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL ++V EGNIGLM+AV KFD +RG++ +TY+ WW Sbjct: 395 AKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWW 454 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I ++I + N R L+ L I + + ++ +L + Sbjct: 455 VRQAITRAIADQARTIRIPVHMIETVNKIN-RTLRQMLHEIG----REPTLEELSTRLGM 509 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRR 225 + ++ + + SL + I D +SS + D + +++ ++ E + R Sbjct: 510 NVEKIRKVMKIVKDPVSLESPI--GDDDSSTFGDCI------EDKRAVKPENAAVLADLR 561 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + T+ +S L P+E RI R TLE + F V+RER+RQIEA+A +K++ Sbjct: 562 EITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLR 620 >gi|16272477|ref|NP_438691.1| RNA polymerase sigma-70 factor [Haemophilus influenzae Rd KW20] gi|260580980|ref|ZP_05848803.1| transcription initiation factor sigma 70 [Haemophilus influenzae RdAW] gi|1173125|sp|P43766|RPOD_HAEIN RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|1573517|gb|AAC22190.1| RNA polymerase sigma-70 factor (rpoD) [Haemophilus influenzae Rd KW20] gi|260092339|gb|EEW76279.1| transcription initiation factor sigma 70 [Haemophilus influenzae RdAW] Length = 629 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|300727091|ref|ZP_07060510.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299775635|gb|EFI72226.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 290 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 82/291 (28%), Positives = 136/291 (46%), Gaps = 50/291 (17%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA++ R+ G A +LV ++LR VV +A Y+ G Sbjct: 17 ALDKYLAEISREPMVSIDEETELAQQIRKGGRAGDRAKEKLVKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V Sbjct: 77 LTLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSIMQAIAEQSRIV-------- 128 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNAL- 189 RL N QV A++K V+ V N R + DE +L + Sbjct: 129 -RLPLN-------------------QVGAVSKINQVTAKFVQEHNRRPSADELATLTGID 168 Query: 190 -------INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM---------S 233 +N+ S + D + +L ++ + R + SM S Sbjct: 169 ADKIQKSLNADSHQMSIDAPFSDDDDNSMSDMLSSGDDSRTDRQVDYESMQNDMEGVLKS 228 Query: 234 VLNPRERRIFEARRLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 VL RE +I + P LE + E ++RERVRQI ++ K+++S Sbjct: 229 VLKDRELKIVKDCFGIGGPEKGLEEIGEEMGLTRERVRQIREKSIMKIRQS 279 >gi|227495998|ref|ZP_03926309.1| RNA polymerase sigma factor [Actinomyces urogenitalis DSM 15434] gi|226834486|gb|EEH66869.1| RNA polymerase sigma factor [Actinomyces urogenitalis DSM 15434] Length = 541 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 82/310 (26%), Positives = 141/310 (45%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH------GDLSAAHR--------------- 52 Y+ +I K+ +L EE LAKR Y E+ +L A +R Sbjct: 247 YLKQIGKVALLNAAEEVELAKRIEAGMYAEYLLGTEGNELDAKYRRELHWISNDGQRAKN 306 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 307 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQ 366 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 367 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKVIEV 426 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 427 QKY----GREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 472 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 473 -------LHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 525 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 526 KLRHPSRSQV 535 >gi|309702135|emb|CBJ01450.1| putative RNA polymerase sigma factor [Escherichia coli ETEC H10407] Length = 697 Score = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 70/238 (29%), Positives = 126/238 (52%), Gaps = 26/238 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + ++LRLVV IA + G GL I +++ EGN+GL++AV+KFD RGF+ +TY+ WWI+ Sbjct: 448 FIHANLRLVVAIAKKHCGRGLDIEDLIQEGNLGLIKAVEKFDFRRGFKFSTYASWWIRQK 507 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKG------HLQAITDNNLKPEQVVAIAKK- 165 + I L+++ + + RR + H Q IT + +++ + ++ Sbjct: 508 ISRAIADQAQLIRLPV-----HFYEHFRRWRSSRDQLLHRQGITPTLRRLQEMTDLPERQ 562 Query: 166 -LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L +++ E ++ L GD +A D+ ++ D L+ D + E R++ Sbjct: 563 LLQMAKYEEQTV---LIGDFHEDA----QDREAALSGDALLTRRDFTSAPVQSLELREH- 614 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ ++ L PRE +I + R TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 615 ---ISSVLNTLLPRETQIIKMRFGIGMTQDFTLEEVGKQFDVTRERIRQIEAKALRKL 669 >gi|291287657|ref|YP_003504473.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] gi|290884817|gb|ADD68517.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] Length = 626 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 121/246 (49%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ ++LRLVV IA Y GL +++ EGNIGLM+AV+KF+ +RG++ +TY+ WW Sbjct: 389 AKSKLIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYKRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-------VA 161 I+ A+ I ++I + + ++ LQ PE++ V Sbjct: 449 IRQAITRAIADQARTIRI--PVHMIETINKMMKITRQLQQDMGREPTPEEISSKMDIPVE 506 Query: 162 IAKKLNVSESEVISMNCRLAGDE--SLNALI-NSSDKNSSQWQDWL-VYDHDGQEQVLIE 217 KK+ E +S+ + DE SL I + S KN S+ +L + +H Q Sbjct: 507 KIKKVMKIAKEPVSLETPIGEDEDSSLGDFIEDKSAKNPSEEVTYLKLKEHTKQ------ 560 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEAR 275 + L+ RE + + R E + TLE + +F V+RER+RQIEA+ Sbjct: 561 -------------ILETLSHREASVLKLRFGIECDSDHTLEEVGKQFNVTRERIRQIEAK 607 Query: 276 AFKKVQ 281 A +K++ Sbjct: 608 ALRKLR 613 >gi|119493081|ref|ZP_01624006.1| Sigma 28 (Flagella/Sporulation) [Lyngbya sp. PCC 8106] gi|119452826|gb|EAW34001.1| Sigma 28 (Flagella/Sporulation) [Lyngbya sp. PCC 8106] Length = 331 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 126/238 (52%), Gaps = 19/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ WW Sbjct: 93 AKQKMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPDKGYKFSTYAYWW 152 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I V++ ++ L +L+G Q + + + +A+ L++ Sbjct: 153 IRQGITRTIANQGRTVRLPVHVVEQ-----LNKLQGIHQDLRRSLRRKPTEDELAEALSI 207 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN----R 224 S ++ + SLN + S + +S+ D L+ D++ + E + N R Sbjct: 208 SPQQLRLLEQVRRKSLSLNHRVGSEE--NSELMD-LLEDYES-----LSPESQINELMMR 259 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + +L SVLN RE+ I R P TL+ +S +SRERVRQI+A+A +K+ Sbjct: 260 QELLEVLRSVLNEREQDILSLRYGLTTGVPYTLDEVSGMCSLSRERVRQIQAKAMRKL 317 >gi|145637426|ref|ZP_01793085.1| aspartate ammonia-lyase [Haemophilus influenzae PittHH] gi|145269372|gb|EDK09316.1| aspartate ammonia-lyase [Haemophilus influenzae PittHH] Length = 629 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|325295045|ref|YP_004281559.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065493|gb|ADY73500.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] Length = 563 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 132/265 (49%), Gaps = 42/265 (15%) Query: 35 YVLAKR--YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 Y LA+R + + A LV S+LRLVV IA Y GL +++ EGNIGLM+AV K Sbjct: 309 YKLAERIYFYKKDSQEAKQILVRSNLRLVVSIAKKYINRGLHFLDLIQEGNIGLMKAVDK 368 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQA 148 F+ RG++ +TY+ WWI+ A+ I ++I T N + +K Q Sbjct: 369 FEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--------KVIKASRQM 420 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA----------GDESLNALINSSDKNSS 198 + +P + IA++L + S+V S+ +LA GD+ + L N + + S Sbjct: 421 FLEKGREP-RPEEIAERLRMPASKVRSI-IQLAQEPVSLETPIGDDEDSTLGNFIEDSKS 478 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLE 256 + V D QE+V ++ +S L+ RE + + R L P TLE Sbjct: 479 PIPEHEVIKKDLQEKV--------------SQLLSTLSEREALVLKLRFGLDGYPEHTLE 524 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + E +V+RER+RQIE++A +K++ Sbjct: 525 QVGRELKVTRERIRQIESKALRKLK 549 >gi|269958878|ref|YP_003328667.1| RNA polymerase sigma factor [Anaplasma centrale str. Israel] gi|269848709|gb|ACZ49353.1| RNA polymerase sigma factor [Anaplasma centrale str. Israel] Length = 649 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 122/239 (51%), Gaps = 19/239 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL ++V EGNIGLM+AV KFD +RG++ +TY+ WW Sbjct: 412 AKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWW 471 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I ++I + N R L+ L I + + ++ +L + Sbjct: 472 VRQAITRAIADQARTIRIPVHMIETVNKIN-RTLRQMLHEIG----REPTLEELSARLGM 526 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRR 225 + ++ + + SL + I D +SS + D + +++ ++ E + R Sbjct: 527 NVEKIRKVMKIVKDPVSLESPIG--DDDSSTFGDCI------EDKRAVKPENAAVLADLR 578 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + T+ +S L P+E RI R TLE + F V+RER+RQIEA+A +K++ Sbjct: 579 EITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLR 637 >gi|315656627|ref|ZP_07909514.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. holmesii ATCC 35242] gi|315492582|gb|EFU82186.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. holmesii ATCC 35242] Length = 564 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 81/310 (26%), Positives = 144/310 (46%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----------------------GDLSAA 50 Y+ +I K+ +L ++E L+KR Y EH G ++ Sbjct: 270 YLKQIGKVALLNAEQEVDLSKRIEAGLYAEHLLKTKQETMTPKQIRELHYVVQDGQMAKN 329 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 330 H-LLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIR 388 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + + PE+VV Sbjct: 389 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTPEKVVE 448 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ V D ++++++ Sbjct: 449 VQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVSFMMLQEQ 495 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 L R + L+ RE + R L++ P TL+ + + V+RER+RQIEA+ Sbjct: 496 --------LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTM 547 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 548 SKLRHPARSQ 557 >gi|315655467|ref|ZP_07908366.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii ATCC 51333] gi|315490122|gb|EFU79748.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii ATCC 51333] Length = 553 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 81/310 (26%), Positives = 144/310 (46%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----------------------GDLSAA 50 Y+ +I K+ +L ++E L+KR Y EH G ++ Sbjct: 259 YLKQIGKVALLNAEQEVDLSKRIEAGLYAEHLLKTKQETMTPKQIRELHYVVQDGQMAKN 318 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 319 H-LLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIR 377 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + + PE+VV Sbjct: 378 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTPEKVVE 437 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ V D ++++++ Sbjct: 438 VQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVSFMMLQEQ 484 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 L R + L+ RE + R L++ P TL+ + + V+RER+RQIEA+ Sbjct: 485 --------LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTM 536 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 537 SKLRHPARSQ 546 >gi|148825193|ref|YP_001289946.1| aspartate ammonia-lyase [Haemophilus influenzae PittEE] gi|148715353|gb|ABQ97563.1| aspartate ammonia-lyase [Haemophilus influenzae PittEE] Length = 645 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 407 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 466 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 467 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 521 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 522 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 576 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 577 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 630 >gi|74318406|ref|YP_316146.1| carbamoyl-phosphate synthase L chain, ATP-binding [Thiobacillus denitrificans ATCC 25259] gi|74057901|gb|AAZ98341.1| Carbamoyl-phosphate synthase L chain, ATP-binding [Thiobacillus denitrificans ATCC 25259] Length = 656 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 116/245 (47%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 415 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 474 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + ++P+ +A K+ + Sbjct: 475 IRQAITRSIADQARTIRI--PVHMIETINKMNRIS--RQILQETGIEPDPAT-LAIKMEM 529 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE + D ++ D +Y Sbjct: 530 PEDKIRKIMKIAKEPISMETPIGDDEDSHLGDFIEDASTLSPDDSAIY------------ 577 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 N R+ + L RE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 578 ---ANLRDATREVLDSLTSREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 634 Query: 277 FKKVQ 281 +K++ Sbjct: 635 LRKLR 639 >gi|148827724|ref|YP_001292477.1| DNA primase [Haemophilus influenzae PittGG] gi|148718966|gb|ABR00094.1| DNA primase [Haemophilus influenzae PittGG] Length = 629 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|189219555|ref|YP_001940196.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] gi|189186413|gb|ACD83598.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] Length = 623 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 118/240 (49%), Gaps = 20/240 (8%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A +V ++LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ Sbjct: 379 IKAKSEMVEANLRLVISIAKKYSNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYAT 438 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 WWI+ A+ I ++I T N+ L R++ L PE+ I Sbjct: 439 WWIRQAITRSIADQARTIRIPVHMIETINK------LMRVQKQLIQELGREPTPEE---I 489 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A + +S + ++ SL A + S+ + + D++ D + E Sbjct: 490 ADETQMSVDRIRTIIKMAQHPISLQAQVGESEDTT--FGDFI---EDKAAENPSEMTGYS 544 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R + + L RER + E R L P TLE + +F V+RER+RQIEA+A +K+ Sbjct: 545 LLREKIKDVLGTLTERERTVIEQRFGLLDGYPRTLEEVGKQFRVTRERIRQIEAKALRKM 604 >gi|89901840|ref|YP_524311.1| sigma 28 [Rhodoferax ferrireducens T118] gi|89346577|gb|ABD70780.1| sigma 28 [Rhodoferax ferrireducens T118] Length = 726 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 77/297 (25%), Positives = 147/297 (49%), Gaps = 37/297 (12%) Query: 14 IGLSR-YIHEIRKIPMLEKQEEYV----LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +GLSR ++ E+ LE QE + + YR+ D ++V ++L+LV+ IA Y Sbjct: 336 LGLSRGFLLELADFEQLEVQESAIEFSQAMQAYRQARD-----QMVIANLKLVLFIAKKY 390 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 G P+ +++ EGNIGL++AV ++D RGF+L+TY+ WWI+ + Y+ +++ Sbjct: 391 LYSGQPLDDLLQEGNIGLIKAVDRYDWRRGFKLSTYATWWIRQQVGRYVADKSKTIRLPV 450 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-----GD 183 ++ +++ AI + + IAKK+ + S+V + + D Sbjct: 451 -----HVYVKTQQIAHAAHAIELATGRMPTIEEIAKKMEMPASKVAPLALAIPEPLPIHD 505 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +++LI +++ +D + D Q LI + R ++ L P++ ++ Sbjct: 506 VDVDSLIAIDAQDNYVARDPMDIVSDSQ---LI---------GSIDRFLATLKPKDEQVL 553 Query: 244 EARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ---VELSSSPP 295 R +TLE + + EV+RER+RQIEA+A ++ + + +L+ +PP Sbjct: 554 RLRFGIGAHEAMTLEEIGTRLEVTRERIRQIEAKAICHLKHPARLERLLRDLNGTPP 610 >gi|320105405|ref|YP_004180995.1| RpoD subfamily RNA polymerase sigma-70 factor [Terriglobus saanensis SP1PR4] gi|319923926|gb|ADV81001.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Terriglobus saanensis SP1PR4] Length = 567 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 125/250 (50%), Gaps = 29/250 (11%) Query: 44 HGDLSA--AHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 GD+ A A R L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ Sbjct: 317 QGDMDAEKAKRELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 376 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL--QAITDNNL 154 +TY+ WWI+ A+ I ++I T N +L R+L L +A ++ Sbjct: 377 FSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQLVQELGREASSEEIA 434 Query: 155 KPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + + VA +K+ E IS+ + +E + D+ + D ++ Sbjct: 435 RRMDIPVAKVRKVLKIAQEPISLETPIGEEEDSHLGDFIEDRMAVSPSDAVIS------- 487 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQ 271 N + ++ + L PRE R+ + R E+ TLE + F+V+RER+RQ Sbjct: 488 --------VNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHTLEEVGQSFQVTRERIRQ 539 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 540 IEAKALRKLR 549 >gi|322433717|ref|YP_004215929.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX9] gi|321161444|gb|ADW67149.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX9] Length = 566 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 125/250 (50%), Gaps = 29/250 (11%) Query: 44 HGDLSA--AHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 GD+ A A R L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ Sbjct: 316 QGDMDAEKAKRELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 375 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL--QAITDNNL 154 +TY+ WWI+ A+ I ++I T N +L R+L L +A ++ Sbjct: 376 FSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQLVQELGREASSEEIA 433 Query: 155 KPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + + VA +K+ E IS+ + +E + D+ + D ++ Sbjct: 434 RRMDIPVAKVRKVLKIAQEPISLETPIGEEEDSHLGDFIEDRMAVSPADAVIS------- 486 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQ 271 N + ++ + L PRE R+ + R E+ TLE + F+V+RER+RQ Sbjct: 487 --------VNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHTLEEVGQSFQVTRERIRQ 538 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 539 IEAKALRKLR 548 >gi|168009782|ref|XP_001757584.1| predicted protein [Physcomitrella patens subsp. patens] gi|162691278|gb|EDQ77641.1| predicted protein [Physcomitrella patens subsp. patens] Length = 583 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 86/300 (28%), Positives = 145/300 (48%), Gaps = 52/300 (17%) Query: 13 EIGLSRYIHEIRKI--------------PMLEKQEEYV------LAKRYREHGDLSAAHR 52 E+ LSR I +I K+ P L + + V L R +E SA + Sbjct: 289 EVALSRKIQDILKLEKIRAELQRDIGREPTLSEWSQAVSLDQTSLELRVKEG--RSAKDK 346 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV S+LRLVV I Y+G G+ + +++ EG++GL++ +KFDPE G++ +TY+ WWI+ A Sbjct: 347 LVNSNLRLVVSIVKNYQGRGMTLPDLIQEGSLGLIRGAEKFDPEMGYKFSTYATWWIRQA 406 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-----IAKKLN 167 + I ++++ + + + + K + + E+V A + K L Sbjct: 407 VTRAIADQSRIIRLPVHIYE--VISRINKAKMTISQELGRQPRDEEVAAMVGMSVEKLLF 464 Query: 168 VSES--EVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + +S SM+ + G++SL ++ +DK +D D QVL + E Sbjct: 465 IVKSARPPTSMDRPIGKDGEQSLGEMV--ADKGVGSPED------DIMTQVLKQDIEDVL 516 Query: 224 RRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R LNP ER + R +TL++L F+V+RER+RQIEA+A +K++ Sbjct: 517 RS---------LNPMEREVLRLRFGLSGAQSMTLKDLGIIFKVTRERIRQIEAKALRKLR 567 >gi|145638551|ref|ZP_01794160.1| aspartate ammonia-lyase [Haemophilus influenzae PittII] gi|229844308|ref|ZP_04464448.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 6P18H1] gi|229846616|ref|ZP_04466724.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 7P49H1] gi|145272146|gb|EDK12054.1| aspartate ammonia-lyase [Haemophilus influenzae PittII] gi|229810709|gb|EEP46427.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 7P49H1] gi|229812557|gb|EEP48246.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 6P18H1] gi|309750056|gb|ADO80040.1| RNA polymerase sigma-70 factor [Haemophilus influenzae R2866] gi|309972316|gb|ADO95517.1| RNA polymerase sigma-70 factor [Haemophilus influenzae R2846] Length = 629 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|319775546|ref|YP_004138034.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae F3047] gi|317450137|emb|CBY86351.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae F3047] Length = 629 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|319897950|ref|YP_004136147.1| RNA polymerase, sigma 70 (sigma d) factor [Haemophilus influenzae F3031] gi|329122411|ref|ZP_08250998.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus aegyptius ATCC 11116] gi|317433456|emb|CBY81839.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae F3031] gi|327473693|gb|EGF19112.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus aegyptius ATCC 11116] Length = 629 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|149178485|ref|ZP_01857074.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] gi|148842698|gb|EDL57072.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] Length = 588 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 118/237 (49%), Gaps = 16/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L +LRLVV IA YR GL +++ EGN GLM+ V+K++ RG++ +TY+ WW Sbjct: 320 AKQQLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRGVEKYEYRRGYKFSTYATWW 379 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK--L 166 I+ A+ + ++I +F ++ LK + I + + +A L Sbjct: 380 IRQAITRAVADHARTIRIPV-----HMFQSISTLKARSEQIRQETGREPTMEELADSVGL 434 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 V E+E I + SL+ + S+ +S + D+L DG E + R+ ++ Sbjct: 435 GVEETERIMKTWKHPI--SLDTPVGESEDSS--FGDFL---EDGHESSPADAAMREMLKD 487 Query: 227 MLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L RER I R + TLE F+V+RER+RQIE++A +K+Q Sbjct: 488 KIEHVLKSLTYREREIIRLRYGLGDGYSYTLEETGRIFKVTRERIRQIESKALRKLQ 544 >gi|301169248|emb|CBW28845.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae 10810] Length = 629 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|68249130|ref|YP_248242.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae 86-028NP] gi|68057329|gb|AAX87582.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae 86-028NP] Length = 623 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 500 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 554 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 555 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608 >gi|197121174|ref|YP_002133125.1| RNA polymerase, sigma 70 subunit, RpoD family [Anaeromyxobacter sp. K] gi|196171023|gb|ACG71996.1| RNA polymerase, sigma 70 subunit, RpoD family [Anaeromyxobacter sp. K] Length = 805 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 75/260 (28%), Positives = 122/260 (46%), Gaps = 33/260 (12%) Query: 37 LAKRYREHGDLS-----AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 L + YR GD A LV ++LRLVV IA Y GL +++ EGNIGLM+AV Sbjct: 550 LRRTYRMIGDGERKAERAKTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVD 609 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KF+ +RG++ +TY+ WWI+ A+ I ++I + L R +L Sbjct: 610 KFEYKRGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELG 667 Query: 152 NNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 PE++ + K L ++ E IS+ + +E + DK+ D Sbjct: 668 REPTPEEIAEKMELPLDKVRKVLKIA-KEPISLETPIGEEEDSHLGDFIEDKSLVSPSDA 726 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSE 261 ++ N + ++ L PRE ++ R +++ TLE + + Sbjct: 727 VIN---------------MNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQD 771 Query: 262 FEVSRERVRQIEARAFKKVQ 281 FEV+RER+RQIEA+A +K++ Sbjct: 772 FEVTRERIRQIEAKALRKLR 791 >gi|125602291|gb|EAZ41616.1| hypothetical protein OsJ_26150 [Oryza sativa Japonica Group] Length = 420 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 132/263 (50%), Gaps = 34/263 (12%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R H A L S+LRLV+ IA Y G+ +++++ G IGL++ ++KFD RGF Sbjct: 168 RSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGF 227 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R++TY WWI+ + + + ++ T +++ L ++G + D + P + Sbjct: 228 RISTYVYWWIRQGVSRALAENSKTFRLPTYLHER-----LIAIRGAKYELEDQGIAP-TI 281 Query: 160 VAIAKKLNVSESEVI----SMNCRLAGDE----SLNALINSS------DKNSSQWQDWLV 205 IA LN+SE +V+ ++N L+ D+ SLN L + D+N + W Sbjct: 282 ENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLHSYIEDQNVAN-DPW-- 338 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEV 264 H +E L KEE N S LN RER I + + T E++S +F + Sbjct: 339 --HGFEEWYL--KEEVNKLLN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGL 388 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 SRERVRQ+ A +K++ + +++ Sbjct: 389 SRERVRQVGLIAMEKLKHAARRK 411 >gi|32491217|ref|NP_871471.1| hypothetical protein WGLp468 [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] gi|25166424|dbj|BAC24614.1| rpoD [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] Length = 601 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 122/249 (48%), Gaps = 40/249 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 363 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 422 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL----------QAITDNNL 154 I+ A+ I ++I T N+ L R+ + + +++ L Sbjct: 423 IRQAITRSIADQARTIRIPVHMIETINK------LNRISRQMLQEIGREPTPEELSEKML 476 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 PE I K L +++ E ISM + DE S D+L D + Sbjct: 477 IPED--KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFL---EDTSLDL 518 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQI 272 ++ ++ R+ +S L RE ++ + R + TLE + +F+V+RER+RQI Sbjct: 519 PLDSATSESLRSATHDVLSGLTAREAKVLKMRFGIDMSTDHTLEEVGKQFDVTRERIRQI 578 Query: 273 EARAFKKVQ 281 EA+A +K++ Sbjct: 579 EAKALRKLR 587 >gi|300858628|ref|YP_003783611.1| RNA polymerase sigma factor A [Corynebacterium pseudotuberculosis FRC41] gi|300686082|gb|ADK29004.1| RNA polymerase sigma factor A [Corynebacterium pseudotuberculosis FRC41] gi|302206337|gb|ADL10679.1| RNA polymerase sigma factor rpoD (Sigma-A) [Corynebacterium pseudotuberculosis C231] gi|302330894|gb|ADL21088.1| RNA polymerase sigma factor rpoD (Sigma-A) [Corynebacterium pseudotuberculosis 1002] gi|308276579|gb|ADO26478.1| RNA polymerase sigma factor rpoD (Sigma-A) [Corynebacterium pseudotuberculosis I19] Length = 517 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 155/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR--------YR--------EHGD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR YR +GD Sbjct: 199 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATYRMEQMEEAFNNGD 257 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 258 KEAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 317 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 318 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 375 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 376 LQDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 428 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 429 -EDSEAVIAVDAVSFTLLQDQLQDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 487 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 488 TRERIRQIESKTMSKLRHPSRSQV 511 >gi|145640511|ref|ZP_01796095.1| DNA primase [Haemophilus influenzae R3021] gi|145275097|gb|EDK14959.1| DNA primase [Haemophilus influenzae 22.4-21] Length = 629 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|145633515|ref|ZP_01789244.1| aspartate ammonia-lyase [Haemophilus influenzae 3655] gi|144985884|gb|EDJ92492.1| aspartate ammonia-lyase [Haemophilus influenzae 3655] Length = 628 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 450 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 504 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 505 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 559 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 560 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 613 >gi|2624403|emb|CAA74653.1| plastid RNA polymerase sigma factor [Sorghum bicolor] Length = 500 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 131/247 (53%), Gaps = 28/247 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S++RLV+ IA Y G+ +++++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 261 LTMSNIRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 320 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + ++ T +++ L ++G A+ D + P V IA+ LN+SE + Sbjct: 321 VSRALADNSKAFRLPTYLHER-----LIAIRGAKYALEDQGIAP-TVENIAESLNISEKK 374 Query: 173 VI----SMNCRLAGDE----SLNALINSSDKNSSQWQDWLVYD---HDGQEQVLIEKEER 221 V ++N L+ D+ SLN L D S +D V + H +E+ L KEE Sbjct: 375 VHNATEAVNKVLSLDQQAFPSLNGL--PGDTLHSYIEDQNVANDPWHGFEERYL--KEEV 430 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 N N S LN RER I + + T E++S +F +SRERVRQ+ A +K+ Sbjct: 431 NNLIN------SNLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGLVAMEKL 484 Query: 281 QESIQKQ 287 + + +++ Sbjct: 485 KHAARRK 491 >gi|34499217|ref|NP_903432.1| RNA polymerase sigma factor RpoD [Chromobacterium violaceum ATCC 12472] gi|34105068|gb|AAQ61424.1| RNA polymerase sigma factor RpoD [Chromobacterium violaceum ATCC 12472] Length = 643 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 67/246 (27%), Positives = 117/246 (47%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 400 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 459 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + ++ + I + + +A+K+ + Sbjct: 460 IRQAITRSIADQARTIRIPV-----HMIETINKMNRISRQILQESGREPDPAELAEKMEM 514 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLI 216 E ++ ISM + D+ + D+N+ D +Y D ++VL Sbjct: 515 PEEKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDQNNLAPSDAAMYSSLKDATKEVL- 573 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEA 274 L PRE ++ R + N TLE + +F+V+RER+RQIEA Sbjct: 574 ----------------DTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 617 Query: 275 RAFKKV 280 +A +K+ Sbjct: 618 KALRKL 623 >gi|125560253|gb|EAZ05701.1| hypothetical protein OsI_27933 [Oryza sativa Indica Group] Length = 372 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 132/263 (50%), Gaps = 34/263 (12%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R H A L S+LRLV+ IA Y G+ +++++ G IGL++ ++KFD RGF Sbjct: 120 RSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGF 179 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R++TY WWI+ + + + ++ T +++ L ++G + D + P + Sbjct: 180 RISTYVYWWIRQGVSRALAENSKTFRLPTYLHER-----LIAIRGAKYELEDQGIAP-TI 233 Query: 160 VAIAKKLNVSESEVI----SMNCRLAGDE----SLNALINSS------DKNSSQWQDWLV 205 IA LN+SE +V+ ++N L+ D+ SLN L + D+N + W Sbjct: 234 ENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLHSYIEDQNVAN-DPW-- 290 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEV 264 H +E L KEE N S LN RER I + + T E++S +F + Sbjct: 291 --HGFEEWYL--KEEVNKLLN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGL 340 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 SRERVRQ+ A +K++ + +++ Sbjct: 341 SRERVRQVGLIAMEKLKHAARRK 363 >gi|37806470|dbj|BAC99905.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 388 Score = 92.8 bits (229), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 132/263 (50%), Gaps = 34/263 (12%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R H A L S+LRLV+ IA Y G+ +++++ G IGL++ ++KFD RGF Sbjct: 136 RSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGF 195 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R++TY WWI+ + + + ++ T +++ L ++G + D + P + Sbjct: 196 RISTYVYWWIRQGVSRALAENSKTFRLPTYLHER-----LIAIRGAKYELEDQGIAP-TI 249 Query: 160 VAIAKKLNVSESEVI----SMNCRLAGDE----SLNALINSS------DKNSSQWQDWLV 205 IA LN+SE +V+ ++N L+ D+ SLN L + D+N + W Sbjct: 250 ENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLHSYIEDQNVAN-DPW-- 306 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEV 264 H +E L KEE N S LN RER I + + T E++S +F + Sbjct: 307 --HGFEEWYL--KEEVNKLLN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGL 356 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 SRERVRQ+ A +K++ + +++ Sbjct: 357 SRERVRQVGLIAMEKLKHAARRK 379 >gi|145628917|ref|ZP_01784717.1| DNA primase [Haemophilus influenzae 22.1-21] gi|145635386|ref|ZP_01791088.1| aspartate ammonia-lyase [Haemophilus influenzae PittAA] gi|144979387|gb|EDJ89073.1| DNA primase [Haemophilus influenzae 22.1-21] gi|145267392|gb|EDK07394.1| aspartate ammonia-lyase [Haemophilus influenzae PittAA] Length = 623 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 500 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 554 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 555 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608 >gi|85057387|ref|YP_456303.1| RNA polymerase sigma factor RpoD [Aster yellows witches'-broom phytoplasma AYWB] gi|84789492|gb|ABC65224.1| RNA polymerase sigma factor RpoD [Aster yellows witches'-broom phytoplasma AYWB] Length = 465 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 80/273 (29%), Positives = 138/273 (50%), Gaps = 34/273 (12%) Query: 21 HEIRKIPMLEKQ--EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 H+ ++I + E Q E + K+ R D+ LV S+ RLVV IA Y G G+ ++ Sbjct: 197 HKTKEIELSEDQLQEAHDQIKQARRAKDI-----LVESNYRLVVSIAKRYIGRGILFLDL 251 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKR 134 + EGN+GLM+AV KFD ++GF+ +TY+ WWI+ A+ I ++I T N + Sbjct: 252 IQEGNMGLMRAVDKFDYQKGFKFSTYATWWIRQAITRAIADQARTIRIPVHIVETIN--K 309 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + R+L L+ KP V +A K+N+S ++ S+ SL A ++ Sbjct: 310 MALCTRKLTQKLKK------KP-TVEELADKMNISAEKIRSIQYIEKKPISLEAPARENE 362 Query: 195 KNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-- 247 ++ + D+ ++ H+ + + +K + N LT RE ++ + R Sbjct: 363 EDETSLGDFISDPNILSPHEYMMKEVTQKLLDEVLENTLTE-------REEKVLKMRYGL 415 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L TLE + + F V+RER+RQIE++A +++ Sbjct: 416 LDGKTHTLEEVGTLFGVTRERIRQIESKALRRL 448 >gi|148271746|ref|YP_001221307.1| putative RNA polymerase sigma 70 factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147829676|emb|CAN00592.1| putative RNA polymerase sigma 70 factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 347 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 79/303 (26%), Positives = 138/303 (45%), Gaps = 59/303 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLSAAHR---------------- 52 Y+ +I ++P+L ++E +A+R DL+ A R Sbjct: 54 YLRQIGRVPLLTAEQEVTVARRIEVGVLSQEVLDTRTDLTPAERREYQTLAQDGMRAKQH 113 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y G GLP +++ EGN+GL++AV+KFD + GF+ +TY+ WWIK + Sbjct: 114 LVNANLRLVVSIAKRYTGRGLPFLDLIQEGNMGLVRAVEKFDYQAGFKFSTYASWWIKQS 173 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + + ++I A Q+ L L R D +++ IA Sbjct: 174 ITRGMADTSRTIRIPVHTVEHINRINAVQRELAVELGR---------DPSME-----EIA 219 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++ + ++V + R SL L+ S + L+ D D + + + ++ Sbjct: 220 RESDTPVTKVRYLLDRAQEPMSLQVLVGGSGGDGDTEMADLIEDADVTQPIDVVTQQL-- 277 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN-----PVTLENLSSEFEVSRERVRQIEARAFK 278 M M +++ R E R++ P +L +S + V+RERVRQIE + Sbjct: 278 ---MAAHVMRLIDGLAERDAEVVRMRFGLAGLEPRSLAFVSQQLGVTRERVRQIEKKVLA 334 Query: 279 KVQ 281 K++ Sbjct: 335 KLR 337 >gi|159896899|ref|YP_001543146.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159889938|gb|ABX03018.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 391 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 84/292 (28%), Positives = 138/292 (47%), Gaps = 38/292 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAK-----RYREH----------GDLSAAHR----------- 52 Y+ EI ++ +L +EE LAK R EH + +A R Sbjct: 98 YLREIGEVELLTAEEEITLAKQIETGRKAEHQLQTEQYATWDERTALERRVDFGNEGRRK 157 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV +A Y G + +++ EGNIGLM+AV+KFD +G R +TY+ WWI+ A Sbjct: 158 LTQANLRLVVSVAKKYIGNHMSFMDLIQEGNIGLMRAVEKFDYRKGNRFSTYATWWIRQA 217 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR+ L+ P++ +A L VS + Sbjct: 218 VTRAIAEQSRTIRLPVHLSES--IAQMRRVAYQLEQALQREATPDE---LADALGVSLRK 272 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 V M SL I + + ++L D D + +E+ R ++ L ++ Sbjct: 273 VKRMLNASVQPVSLEQPIGK--EGQGRVGEFLADDTD---EAPLEQATRMMLQDELADAL 327 Query: 233 SVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQE 282 S L RER+I R + TLE + +EF ++RER RQIEA A + +++ Sbjct: 328 SQLPDRERQILLLRYGLADGKRRTLEEVGAEFGITRERTRQIEAEAMRHLRQ 379 >gi|1519638|gb|AAB07552.1| SigB [Chloroflexus aurantiacus J-10-fl] Length = 346 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 84/292 (28%), Positives = 140/292 (47%), Gaps = 41/292 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY----------REHGDLSAAHRL--------------- 53 Y+ EI ++P+L +EE LA++Y R + A+ Sbjct: 54 YLQEIGQVPLLTAEEEVELARQYSRGKEARQRLRNEDSPTTANGCGWRWKWLAVKRRGGR 113 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + ++LRLVV +A Y G + ++V EGNIGLM+AV+KFD +G R +TY+ WWI+ A+ Sbjct: 114 IQANLRLVVSVAKKYIGSPMAFMDLVQEGNIGLMRAVEKFDYTKGNRFSTYATWWIRQAV 173 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I L+++ ++ +LRR L+ + E+ +A LN+S +V Sbjct: 174 TRAIAEQSRLIRLPVHLSES--IVHLRRAIYRLEQELEREPTAEE---LAHALNMSVRKV 228 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNRRNMLTRS 231 + SL +N+ Q+ V + E V +E E+K LT + Sbjct: 229 KRLIRASTQPISLEQPLNNE-------QEGRVSETLADETVASPMEIAEQKMLHAELTAA 281 Query: 232 MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RER+I + R + TLE + + F ++RER RQIEA A ++++ Sbjct: 282 LNELPERERKILQLRYGLIDGQRRTLEEVGATFGITRERTRQIEAEALRRLR 333 >gi|304389369|ref|ZP_07371334.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. curtisii ATCC 35241] gi|304327487|gb|EFL94720.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. curtisii ATCC 35241] Length = 564 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 81/310 (26%), Positives = 144/310 (46%), Gaps = 63/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----------------------GDLSAA 50 Y+ +I K+ +L ++E L+KR Y EH G ++ Sbjct: 270 YLKQIGKVALLNAEQEVDLSKRIEAGLYAEHLLKTKQETMTPKQIRELHYVVQDGQMAKN 329 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 330 H-LLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIR 388 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + + PE+VV Sbjct: 389 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTPEKVVE 448 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ V D ++++++ Sbjct: 449 VQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVSFMMLQEQ 495 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 L R + L+ RE + R L++ P TL+ + + V+RER+RQIEA+ Sbjct: 496 --------LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTM 547 Query: 278 KKVQESIQKQ 287 K++ + Q Sbjct: 548 SKLRHPARSQ 557 >gi|300725901|ref|ZP_07059364.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299776838|gb|EFI73385.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 290 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/281 (25%), Positives = 138/281 (49%), Gaps = 30/281 (10%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI PM+ +E LA+ R+ G A +LV ++LR VV +A Y+ G Sbjct: 17 ALDKYLAEISHEPMINIDQEIELAQAIRKGGRAGERAKDKLVKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L ++ + +N + + I++ + E ++ ++S+ A N Sbjct: 135 ---VGALSKINATISKFEQDNQRRPSIQEISRLTGIEEEKI---------EQSIKA-DNH 181 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS---------VLNPRERRIF 243 + +QD + + ++ E+ + R + SM+ VL RE +I Sbjct: 182 HTSIDAPFQDG---EENSMVDIMASGEDTRTDRQVDHDSMAQELHSVLKNVLKDREIKIL 238 Query: 244 -EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E + + LE + ++RERVRQI ++ K++E+ Sbjct: 239 CECYGIGCHEKGLEEIGDRMGLTRERVRQIREKSILKLREA 279 >gi|295394756|ref|ZP_06804971.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium mcbrellneri ATCC 49030] gi|294972352|gb|EFG48212.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium mcbrellneri ATCC 49030] Length = 473 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 84/309 (27%), Positives = 143/309 (46%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----GDLS-----------------AAHR 52 Y+ +I K+ +L EE LAKR Y EH G ++ A + Sbjct: 180 YLKQIGKVALLNAAEEVDLAKRIEAGMYAEHLVDEGKVTDARDLRDYKWIIHDGRIAKNH 239 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 240 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQA 299 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 300 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPERVVEVQ 359 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 360 KYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADSVSFTLLQEQ-- 404 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R L + P TL+ + + V+RER+RQIE++ K Sbjct: 405 ------LHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAK 458 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 459 LRHPSRSQV 467 >gi|116619924|ref|YP_822080.1| RpoD family RNA polymerase sigma factor [Candidatus Solibacter usitatus Ellin6076] gi|116223086|gb|ABJ81795.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Solibacter usitatus Ellin6076] Length = 518 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 123/250 (49%), Gaps = 29/250 (11%) Query: 44 HGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 HG+ A LV ++LRLVV +A Y GL + +++ EGNIGLM+A KF+ RG++ Sbjct: 271 HGEAEAERAKKDLVEANLRLVVSVAKKYVNRGLHLLDLIQEGNIGLMRAADKFEYRRGYK 330 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPE 157 +TY+ WWI+ A+ I ++I N+ + R L+ L + T++ + Sbjct: 331 FSTYATWWIRQAITRAIADQSRTIRIPVHMNESMNKFLRATRELEKELGRTPTNDEIGRR 390 Query: 158 QVVAIAK--KLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + + K KL + +S+ + G+ +L LI W+ D Sbjct: 391 MDIPVEKVQKLKTISRDPVSLETPVGRDGESALGDLIEDR---------WVGSPVDA--- 438 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 +IE N R+ + L+P+E ++ R E TLE + EF+V+RER+RQ Sbjct: 439 -VIE----SNVRDETAGILKTLSPKEEKVIRMRFGIGCEREHTLEEIGQEFDVTRERIRQ 493 Query: 272 IEARAFKKVQ 281 IEA+A ++++ Sbjct: 494 IEAKALRQLR 503 >gi|303257749|ref|ZP_07343761.1| RNA polymerase sigma factor RpoD [Burkholderiales bacterium 1_1_47] gi|302859719|gb|EFL82798.1| RNA polymerase sigma factor RpoD [Burkholderiales bacterium 1_1_47] Length = 814 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 118/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGN+GLM+AV KF+ RG++ +TY+ WW Sbjct: 572 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWW 631 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + ++P+ +A+K+++ Sbjct: 632 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGVEPDP-AELAEKMDM 686 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE S D+L D E Sbjct: 687 PEDKIRKILKIAKEPISMETPIGDDE------------DSHLGDFL---EDFGTVAPAEA 731 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 ++ + + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 732 AQQSSLTEITKEVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGRQFDVTRERIRQIEAKA 791 Query: 277 FKKVQ 281 +K++ Sbjct: 792 LRKLR 796 >gi|239917829|ref|YP_002957387.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Micrococcus luteus NCTC 2665] gi|281413678|ref|ZP_06245420.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family protein [Micrococcus luteus NCTC 2665] gi|239839036|gb|ACS30833.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Micrococcus luteus NCTC 2665] Length = 497 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 83/322 (25%), Positives = 145/322 (45%), Gaps = 62/322 (19%) Query: 8 IIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKR------------------YREHGDL 47 ++V G + Y+ +I K+ +L ++E LA R YRE D+ Sbjct: 191 VVVAGATADPVKDYLKQIGKVALLNAEQEVDLAMRIEAGLYAEHVVQHEASDDYRERRDI 250 Query: 48 S--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF Sbjct: 251 QLIIADGRKAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGF 310 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAIT 150 + +TY+ WWI+ A+ + ++I Q+++ +L R + Sbjct: 311 KFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAK 370 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDH 208 + ++ PE+VV + K E IS++ L GD LI S+ V Sbjct: 371 ELDMTPEKVVEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPA 417 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSR 266 D L++++ L + L+ RE + R P TL+ + + V+R Sbjct: 418 DAVSFTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTR 469 Query: 267 ERVRQIEARAFKKVQESIQKQV 288 ER+RQIE++ K++ + QV Sbjct: 470 ERIRQIESKTMSKLRHPSRSQV 491 >gi|256390959|ref|YP_003112523.1| RNA polymerase sigma factor [Catenulispora acidiphila DSM 44928] gi|256357185|gb|ACU70682.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora acidiphila DSM 44928] Length = 559 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 80/309 (25%), Positives = 141/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------------------YREHGDL------SAAHR 52 Y+ +I K+P+L ++E LAKR +R D+ A + Sbjct: 266 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEEKLNDGEPLTPEFRRELDIIAEDGRRAKNH 325 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 326 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 385 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 386 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEVQ 445 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 446 KYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 490 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 491 ------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 544 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 545 LRHPSRSQV 553 >gi|37806471|dbj|BAC99906.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 342 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 132/263 (50%), Gaps = 34/263 (12%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R H A L S+LRLV+ IA Y G+ +++++ G IGL++ ++KFD RGF Sbjct: 90 RSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGF 149 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R++TY WWI+ + + + ++ T +++ L ++G + D + P + Sbjct: 150 RISTYVYWWIRQGVSRALAENSKTFRLPTYLHER-----LIAIRGAKYELEDQGIAP-TI 203 Query: 160 VAIAKKLNVSESEVI----SMNCRLAGDE----SLNALINSS------DKNSSQWQDWLV 205 IA LN+SE +V+ ++N L+ D+ SLN L + D+N + W Sbjct: 204 ENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLHSYIEDQNVAN-DPW-- 260 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEV 264 H +E L KEE N S LN RER I + + T E++S +F + Sbjct: 261 --HGFEEWYL--KEEVNKLLN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGL 310 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 SRERVRQ+ A +K++ + +++ Sbjct: 311 SRERVRQVGLIAMEKLKHAARRK 333 >gi|331001176|ref|ZP_08324803.1| RNA polymerase sigma factor RpoD [Parasutterella excrementihominis YIT 11859] gi|329569108|gb|EGG50900.1| RNA polymerase sigma factor RpoD [Parasutterella excrementihominis YIT 11859] Length = 814 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 118/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGN+GLM+AV KF+ RG++ +TY+ WW Sbjct: 572 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWW 631 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + ++P+ +A+K+++ Sbjct: 632 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGVEPDP-AELAEKMDM 686 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE S D+L D E Sbjct: 687 PEDKIRKILKIAKEPISMETPIGDDE------------DSHLGDFL---EDFGTVAPAEA 731 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 ++ + + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 732 AQQSSLTEITKEVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGRQFDVTRERIRQIEAKA 791 Query: 277 FKKVQ 281 +K++ Sbjct: 792 LRKLR 796 >gi|325673633|ref|ZP_08153324.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] gi|325555654|gb|EGD25325.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] Length = 448 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 116/240 (48%), Gaps = 20/240 (8%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA R++ ++LRLVV A Y G GL + ++V EGN GL++AV+KFD G + +TY+ W Sbjct: 212 SARTRMIEANLRLVVSTAQNYEGRGLDMLDLVQEGNTGLIRAVEKFDYRLGNKFSTYATW 271 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ---AITDNNLKPEQVVAIAK 164 WI+ A+ I +++ + R++G ++ A+TD + + + K Sbjct: 272 WIRQAITRGIADKSRTIRLPVHVVEDLSRMTTVRVEGEIELGRALTDAEVAQRADLTLEK 331 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + + + + S+ AL +S D +D +D E R + Sbjct: 332 VRELDDCDRTVL--------SIEALTDSDDGAGLDIEDDCAHDP-------YEALHRADV 376 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R + + L RE + + R + P TLE + ++V+RER+RQIEA+ + ++E Sbjct: 377 RERIDIVLETLTEREAGVMKLRHGLVDGVPRTLEEIGKVYKVTRERIRQIEAKTLQLLRE 436 >gi|283781338|ref|YP_003372093.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283439791|gb|ADB18233.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 524 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 83/282 (29%), Positives = 136/282 (48%), Gaps = 27/282 (9%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRY----REHGDLSAAHR-LVTSHLRLVVKIAMGYRGYG 72 +++ E+R I + ++ + KR R + D A R L +LRLVV IA YR G Sbjct: 251 QWLSELRSILVATQETPASMQKRVDMLKRVYTDYQQAKRELSEGNLRLVVSIAKKYRNRG 310 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG----- 127 L +++ EGN GLM+AV KF+ RGF+ TY+ WWI+ A+ + ++I Sbjct: 311 LSFLDLIQEGNAGLMRAVDKFEYRRGFKFCTYATWWIRQAITRAVADQSRTIRIPVHMVE 370 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 T + + + L + G + + K + V A+++ IS++ R G Sbjct: 371 TMSRVRNVSRQLLQELGREPTLEETARKAKTTVDEARRVLAMSRYPISLD-RPVG----- 424 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 NS D S + D L DG + ++ R + + + L+ RER I + R Sbjct: 425 ---NSED---SHFGDLL---PDGTAESPATGASQEMLRTRINKVLKTLSYREREIIKLRY 475 Query: 248 LQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + TLE + F+V+RER+RQIEA+A +K+Q+ + Q Sbjct: 476 GLGDGYSYTLEEVGHIFKVTRERIRQIEAKAVRKLQQPSRSQ 517 >gi|145630289|ref|ZP_01786070.1| aspartate ammonia-lyase [Haemophilus influenzae R3021] gi|260582763|ref|ZP_05850550.1| aspartate ammonia-lyase [Haemophilus influenzae NT127] gi|144984024|gb|EDJ91461.1| aspartate ammonia-lyase [Haemophilus influenzae R3021] gi|260094213|gb|EEW78114.1| aspartate ammonia-lyase [Haemophilus influenzae NT127] Length = 629 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQLLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|196234461|ref|ZP_03133287.1| RNA polymerase, sigma 32 subunit, RpoH [Chthoniobacter flavus Ellin428] gi|196221517|gb|EDY16061.1| RNA polymerase, sigma 32 subunit, RpoH [Chthoniobacter flavus Ellin428] Length = 479 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 126/241 (52%), Gaps = 20/241 (8%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A +V +LRLVV IA Y+ G P +++ EGNIGLM+AV++F+ RG++ AT + Sbjct: 240 LEARTEMVECNLRLVVSIAREYQNRGQPFLDLIQEGNIGLMRAVERFEYRRGYKFATCAT 299 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++I T + L L R++ + +T + + +A +L Sbjct: 300 WWIRQAISRSIANQARTIRIPT--HMIDLLAKLIRVQ---RQMTQESGRDPTAEDLAGEL 354 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL----VYDHDGQEQVLIEKEERK 222 ++ V ++ ++A +E ++ ++ S+ D++ V D Q V + +E+ Sbjct: 355 HLPLRRVRAL-LKMA-EEPISIHTPVGEEGGSRLGDFIEDHSVEDPSKQAAVAMLREK-- 410 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + + L RER I E R + TLE + F+V+RERVRQIEA+A +K+ Sbjct: 411 -----INAVLHTLTEREREILEQRFGLIDGRERTLEEIGRHFKVTRERVRQIEAKALRKM 465 Query: 281 Q 281 + Sbjct: 466 R 466 >gi|38233991|ref|NP_939758.1| RNA polymerase sigma factor [Corynebacterium diphtheriae NCTC 13129] gi|38200253|emb|CAE49937.1| RNA polymerase sigma factor [Corynebacterium diphtheriae] Length = 502 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 65/242 (26%), Positives = 128/242 (52%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 265 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 324 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I + + L R++ L P++ +AK++++ Sbjct: 325 IRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPQE---LAKEMDI 379 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +E +V+ + SL+ I D+ SQ D++ D + + ++ ++ L Sbjct: 380 TEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVIAVDAVSFTLLQDQL 434 Query: 229 TRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L+ RE + + R L + P TL+ + + V+RER+RQIE++ K++ + Sbjct: 435 QDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 494 Query: 287 QV 288 QV Sbjct: 495 QV 496 >gi|302670285|ref|YP_003830245.1| RNA polymerase sigma factor RpoD [Butyrivibrio proteoclasticus B316] gi|302394758|gb|ADL33663.1| RNA polymerase sigma factor RpoD [Butyrivibrio proteoclasticus B316] Length = 521 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 83/308 (26%), Positives = 137/308 (44%), Gaps = 69/308 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS-----------------------------A 49 Y+ EI K+P+L +E LA+ D A Sbjct: 225 YLKEIGKVPLLTADQEIDLAQAMEAGADAEKELADDKDVNKLSDARKKELNAIIYEGEEA 284 Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 RL ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI Sbjct: 285 KKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDFRKGFKFSTYATWWI 344 Query: 110 KAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQVV 160 + A+ I ++I T N+ ++L L R + + N+ E+V Sbjct: 345 RQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEVAKEMNMPVERVR 404 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVL 215 I L +S+ E +S+ + +E S D++ D+ D L Sbjct: 405 EI---LKISQ-EPVSLETPIGEEE------------DSHLGDFIQDDNVPVPADAAAFTL 448 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 + + L + L RE+++ R ++ TLE + EF V+RER+RQIE Sbjct: 449 L--------KEQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIE 500 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 501 AKALRKLR 508 >gi|289706929|ref|ZP_06503266.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58] gi|289556364|gb|EFD49718.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58] Length = 509 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 83/322 (25%), Positives = 145/322 (45%), Gaps = 62/322 (19%) Query: 8 IIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKR------------------YREHGDL 47 ++V G + Y+ +I K+ +L ++E LA R YRE D+ Sbjct: 203 VVVAGATADPVKDYLKQIGKVALLNAEQEVDLAMRIEAGLYAEHVVQHEASDDYRERRDI 262 Query: 48 S--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF Sbjct: 263 QLIIADGRKAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGF 322 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAIT 150 + +TY+ WWI+ A+ + ++I Q+++ +L R + Sbjct: 323 KFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAK 382 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDH 208 + ++ PE+VV + K E IS++ L GD LI S+ V Sbjct: 383 ELDMTPEKVVEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPA 429 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSR 266 D L++++ L + L+ RE + R P TL+ + + V+R Sbjct: 430 DAVSFTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTR 481 Query: 267 ERVRQIEARAFKKVQESIQKQV 288 ER+RQIE++ K++ + QV Sbjct: 482 ERIRQIESKTMSKLRHPSRSQV 503 >gi|115375627|ref|ZP_01462884.1| sigma factor [Stigmatella aurantiaca DW4/3-1] gi|310823184|ref|YP_003955542.1| RNA polymerase sigma factor rpod [Stigmatella aurantiaca DW4/3-1] gi|115367403|gb|EAU66381.1| sigma factor [Stigmatella aurantiaca DW4/3-1] gi|309396256|gb|ADO73715.1| RNA polymerase sigma factor RpoD [Stigmatella aurantiaca DW4/3-1] Length = 706 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 75/247 (30%), Positives = 123/247 (49%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 468 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 527 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVV---- 160 I+ A+ I ++I T N+ L R +L PE++ Sbjct: 528 IRQAITRAIADQARTIRIPVHMIETINK------LIRTSRYLVQEIGREPTPEEIAEKME 581 Query: 161 ----AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + K L +++ E IS+ + +E + DK+ LV D + + Sbjct: 582 LPLDKVRKVLKIAK-EPISLETPIGEEEDSHLGDFIEDKS-------LVSPADAVINMNL 633 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 ++ RK ++ L PRE ++ R +++ TLE + +FEV+RER+RQIEA Sbjct: 634 AEQTRK--------VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEA 685 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 686 KALRKLR 692 >gi|220915874|ref|YP_002491178.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaeromyxobacter dehalogenans 2CP-1] gi|219953728|gb|ACL64112.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaeromyxobacter dehalogenans 2CP-1] Length = 802 Score = 92.8 bits (229), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 75/260 (28%), Positives = 122/260 (46%), Gaps = 33/260 (12%) Query: 37 LAKRYREHGDLS-----AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 L + YR GD A LV ++LRLVV IA Y GL +++ EGNIGLM+AV Sbjct: 547 LRRTYRMIGDGERKAERAKTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVD 606 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KF+ +RG++ +TY+ WWI+ A+ I ++I + L R +L Sbjct: 607 KFEYKRGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELG 664 Query: 152 NNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 PE++ + K L ++ E IS+ + +E + DK+ D Sbjct: 665 REPTPEEIAEKMELPLDKVRKVLKIA-KEPISLETPIGEEEDSHLGDFIEDKSLVSPSDA 723 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSE 261 ++ N + ++ L PRE ++ R +++ TLE + + Sbjct: 724 VIN---------------MNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQD 768 Query: 262 FEVSRERVRQIEARAFKKVQ 281 FEV+RER+RQIEA+A +K++ Sbjct: 769 FEVTRERIRQIEAKALRKLR 788 >gi|260773557|ref|ZP_05882473.1| RNA polymerase sigma factor RpoD [Vibrio metschnikovii CIP 69.14] gi|260612696|gb|EEX37899.1| RNA polymerase sigma factor RpoD [Vibrio metschnikovii CIP 69.14] Length = 623 Score = 92.4 bits (228), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 70/242 (28%), Positives = 117/242 (48%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 502 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 503 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 546 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R +++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 547 ATSLRAATRDALAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 606 Query: 279 KV 280 K+ Sbjct: 607 KL 608 >gi|86148095|ref|ZP_01066395.1| RNA polymerase sigma factor [Vibrio sp. MED222] gi|218708434|ref|YP_002416055.1| RNA polymerase sigma factor RpoD [Vibrio splendidus LGP32] gi|85834082|gb|EAQ52240.1| RNA polymerase sigma factor [Vibrio sp. MED222] gi|218321453|emb|CAV17405.1| RNA polymerase sigma factor rpoD (Sigma-70) [Vibrio splendidus LGP32] Length = 614 Score = 92.4 bits (228), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 538 ATSLRGATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KVQ 281 K++ Sbjct: 598 KLR 600 >gi|83859451|ref|ZP_00952972.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] gi|83852898|gb|EAP90751.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] Length = 678 Score = 92.4 bits (228), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 440 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 499 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R + PE+ +A+KL++ Sbjct: 500 IRQAITRSIADQARTIRI--PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLSM 554 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ D+ S D++ D + I+ N R Sbjct: 555 PLEKVRKV-MKIA-KEPISLETPIGDEEDSHLGDFI---EDKNAVLPIDAAIHSNLRETT 609 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 T ++ L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 610 TLVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 664 >gi|86607034|ref|YP_475797.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-3-3Ab] gi|86555576|gb|ABD00534.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-3-3Ab] Length = 404 Score = 92.4 bits (228), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 68/237 (28%), Positives = 125/237 (52%), Gaps = 17/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 168 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 227 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ +P E+ +A ++ Sbjct: 228 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKVTKQLSQELGRRPTEEEIATRMEI 282 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + + I+ + +L SL I + S+ D++ + + E E+ + R Sbjct: 283 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESEGETPE----ERVAKVLLRE 334 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + L PRER + + R ++ TLE + F V+RER+RQIEA+A +K++ Sbjct: 335 DLESVLETLTPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 391 >gi|2780746|dbj|BAA24364.1| plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 519 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 132/263 (50%), Gaps = 34/263 (12%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R H A L S+LRLV+ IA Y G+ +++++ G IGL++ ++KFD RGF Sbjct: 267 RSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGF 326 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R++TY WWI+ + + + ++ T +++ L ++G + D + P + Sbjct: 327 RISTYVYWWIRQGVSRALAENSKTFRLPTYLHER-----LIAIRGAKYELEDQGIAP-TI 380 Query: 160 VAIAKKLNVSESEVI----SMNCRLAGDE----SLNALINSS------DKNSSQWQDWLV 205 IA LN+SE +V+ ++N L+ D+ SLN L + D+N + W Sbjct: 381 ENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLHSYIEDQNVAN-DPW-- 437 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEV 264 H +E L KEE N S LN RER I + + T E++S +F + Sbjct: 438 --HGFEEWYL--KEEVNKLLN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGL 487 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 SRERVRQ+ A +K++ + +++ Sbjct: 488 SRERVRQVGLIAMEKLKHAARRK 510 >gi|320103352|ref|YP_004178943.1| RNA polymerase sigma-38 subunit RpoS [Isosphaera pallida ATCC 43644] gi|319750634|gb|ADV62394.1| RNA polymerase, sigma 38 subunit, RpoS [Isosphaera pallida ATCC 43644] Length = 287 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 80/276 (28%), Positives = 132/276 (47%), Gaps = 28/276 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ +I + P+L EE L +R E GD A LV ++LRLVV IA GY G GL + Sbjct: 16 LEVYLKQINETPLLSAAEERELGRRVSE-GDYFARDHLVKANLRLVVSIARGYNGKGLGL 74 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ E N+GL++AV+ FD + R +TY+ +WIK +++ ++ + +++ A L Sbjct: 75 DDLIEERNLGLIRAVETFDYSQNIRFSTYASYWIKQSIRRAVMNNGKPIRL--PAYMVTL 132 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES---------EVISMNCRLAGDESL 186 R+ L A PE+V K+L +S EV + GDE Sbjct: 133 LAKWRQATTKLTARLGRPPTPEEV---GKELRLSPRKIPIVSKAMEVSKLQPYSEGDEDT 189 Query: 187 NALINSS--DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 ++ D N+ + + +D D Q ++ I +E R + + R L+ + E Sbjct: 190 GVPLDDVLIDGNNRSPDELMAHDDD-QARMKILLDELDERESAVIRLRFGLD---ESVPE 245 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 A +TL + ++RERVRQ+E A K+ Sbjct: 246 A-------MTLRQIGERLGLTRERVRQLEQAALTKL 274 >gi|257056437|ref|YP_003134269.1| RNA polymerase sigma factor SigB [Saccharomonospora viridis DSM 43017] gi|256586309|gb|ACU97442.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 342 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 81/300 (27%), Positives = 135/300 (45%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDLS----------------AAHR 52 Y++ I K +L +EE LAKR + +H DLS A + Sbjct: 49 YLNGIGKTALLTAEEEVDLAKRIEAGVFAQHVLDTSDDLSEERKAELSEVVRDGEEAKNH 108 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 109 LLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQA 168 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + +++ ++ L R+K L E+ +A + ++E + Sbjct: 169 ITRGMADQGRTIRLPVHLVEQ--VNKLARIKRDLHQRLGREATHEE---LAAESGIAEKK 223 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM----- 227 V + SL+ + + D D IE E N N Sbjct: 224 VADLLDHARDPVSLDMPVGA--------------DEDAPLGDFIEDSEAANAENSVISTL 269 Query: 228 ----LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R ++ L+ RE + R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 270 LQDDLRRVLATLDDREEHVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMAKLR 329 >gi|148979373|ref|ZP_01815479.1| RNA polymerase sigma factor RpoD [Vibrionales bacterium SWAT-3] gi|145961809|gb|EDK27102.1| RNA polymerase sigma factor RpoD [Vibrionales bacterium SWAT-3] Length = 614 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 538 ATSLRGATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KVQ 281 K++ Sbjct: 598 KLR 600 >gi|108763751|ref|YP_633357.1| RNA polymerase sigma factor RpoD [Myxococcus xanthus DK 1622] gi|133312|sp|P17531|RPOD_MYXXA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-80 gi|150118|gb|AAA25404.1| sigma factor (rpoD) [Myxococcus xanthus] gi|710343|gb|AAB60208.1| major sigma factor [Myxococcus xanthus] gi|108467631|gb|ABF92816.1| RNA polymerase sigma factor RpoD [Myxococcus xanthus DK 1622] gi|1586812|prf||2204381D sigma factor Length = 708 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 70/238 (29%), Positives = 125/238 (52%), Gaps = 18/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R +L PE+ IA+K+ + Sbjct: 530 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQEIGREPTPEE---IAEKMEL 584 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ ++ S D++ +++ L+ + N+ Sbjct: 585 PLDKVRKV-LKIAK-EPISLETPIGEEEDSHLGDFI------EDKSLVSPADAVINMNLA 636 Query: 229 TRS---MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ ++ L PRE ++ R +++ TLE + +FEV+RER+RQIEA+A +K++ Sbjct: 637 EQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 694 >gi|218439766|ref|YP_002378095.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218172494|gb|ACK71227.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 418 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 129/242 (53%), Gaps = 13/242 (5%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + + A + ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R + Sbjct: 173 QKAGIEAKNHMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFS 232 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ + I ++++ +K L ++K + + + + + Sbjct: 233 TYAYWWIRQGITRAIATQSRIIRLPVHITEK-----LNKIKKAQRKMAQIKGRTPTMEEL 287 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A +++++ ++ + R+ SL I + ++ D L E+ L+ + R+ Sbjct: 288 AVEVDMTAPQIREVLMRVPRSVSLE--IKVGKEKDTELVDLLETTEASPEESLVNETLRQ 345 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + +N+L + L RER + + R ++ +L ++ ++SRERVRQIEA+A +K+ Sbjct: 346 DLQNLL----ADLTTREREVIQMRYGFKDGKCYSLADIGRALQLSRERVRQIEAKAIQKL 401 Query: 281 QE 282 ++ Sbjct: 402 RQ 403 >gi|260912696|ref|ZP_05919182.1| DNA-directed RNA polymerase sigma subunit RpoD [Pasteurella dagmatis ATCC 43325] gi|260633074|gb|EEX51239.1| DNA-directed RNA polymerase sigma subunit RpoD [Pasteurella dagmatis ATCC 43325] Length = 623 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREASPEE---LAERMGM 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 500 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKAAT 554 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 555 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608 >gi|297608012|ref|NP_001061065.2| Os08g0163400 [Oryza sativa Japonica Group] gi|255678168|dbj|BAF22979.2| Os08g0163400 [Oryza sativa Japonica Group] Length = 520 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 132/263 (50%), Gaps = 34/263 (12%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R H A L S+LRLV+ IA Y G+ +++++ G IGL++ ++KFD RGF Sbjct: 268 RSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGF 327 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R++TY WWI+ + + + ++ T +++ L ++G + D + P + Sbjct: 328 RISTYVYWWIRQGVSRALAENSKTFRLPTYLHER-----LIAIRGAKYELEDQGIAP-TI 381 Query: 160 VAIAKKLNVSESEVI----SMNCRLAGDE----SLNALINSS------DKNSSQWQDWLV 205 IA LN+SE +V+ ++N L+ D+ SLN L + D+N + W Sbjct: 382 ENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLHSYIEDQNVAN-DPW-- 438 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEV 264 H +E L KEE N S LN RER I + + T E++S +F + Sbjct: 439 --HGFEEWYL--KEEVNKLLN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGL 488 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 SRERVRQ+ A +K++ + +++ Sbjct: 489 SRERVRQVGLIAMEKLKHAARRK 511 >gi|170076898|ref|YP_001733536.1| group 2 sigma factor [Synechococcus sp. PCC 7002] gi|169884567|gb|ACA98280.1| Group 2 sigma factor [Synechococcus sp. PCC 7002] Length = 398 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 68/247 (27%), Positives = 123/247 (49%), Gaps = 35/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV KFDP +G+R +TY+ WW Sbjct: 159 AKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWW 218 Query: 109 IKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDN----NLKPEQV 159 I+ + I +++ + K+ + + +G ++ D + PEQV Sbjct: 219 IRQGITRAIATQSRTIRLPVHVTEKLNKIKKAQRQISQTQGCTPSLDDVAQALEMTPEQV 278 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +K+ S +S+ R+ D L L+ + D + E+ L+ Sbjct: 279 REVLQKVPRS----VSLEIRVGKDRDTELGDLLETQDASP--------------EENLVR 320 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT--LENLSSEFEVSRERVRQIEAR 275 + +++ N+LT L RER + + R + T L + E+SRERVRQIEA+ Sbjct: 321 ESLQRDLHNLLTE----LTDREREVIQLRYGLGDGKTYSLAEIGRMLELSRERVRQIEAK 376 Query: 276 AFKKVQE 282 A +K+++ Sbjct: 377 ALQKLRQ 383 >gi|315634867|ref|ZP_07890149.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter segnis ATCC 33393] gi|315476419|gb|EFU67169.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter segnis ATCC 33393] Length = 621 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 383 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 442 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 443 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEE---LAERMGM 497 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 498 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKAAT 552 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 553 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 606 >gi|325983602|ref|YP_004296004.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosomonas sp. AL212] gi|325533121|gb|ADZ27842.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosomonas sp. AL212] Length = 740 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 116/245 (47%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 499 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 558 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +PE V +A+K+ + Sbjct: 559 IRQAITRSIADQARTIRI--PVHMIETINKMNRIS--RQILQETGQEPEPAV-LAQKMEM 613 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + DE + D + D VY Sbjct: 614 PEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDAATMAPADAAVY------------ 661 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + R + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 662 ---ASLRGVTKDILDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 718 Query: 277 FKKVQ 281 +K++ Sbjct: 719 LRKLR 723 >gi|320181954|gb|EFW56860.1| RNA polymerase sigma factor RpoH [Shigella boydii ATCC 9905] Length = 186 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 67/202 (33%), Positives = 106/202 (52%), Gaps = 32/202 (15%) Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 RL ++++ WIKA + EY+LR+W +VK+ TT Q++LFFNLR+ K L ++ Sbjct: 1 MRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRL-----GWFNQDE 55 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDE--------------SLNALINSSDKNSSQWQDWL 204 V +A++L V+ +V M R+A + + ++ DK SS + D Sbjct: 56 VEMVARELGVTSKDVREMESRMAAQDMTFDLSSDDDSDSQPMAPVLYLQDK-SSNFAD-G 113 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFE 263 + D + +EQ N LT +M L+ R + I AR L E N TL+ L+ + Sbjct: 114 IEDDNWEEQAA----------NRLTDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYG 163 Query: 264 VSRERVRQIEARAFKKVQESIQ 285 VS ERVRQ+E A KK++ +I+ Sbjct: 164 VSAERVRQLEKNAMKKLRAAIE 185 >gi|227488750|ref|ZP_03919066.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51867] gi|227091172|gb|EEI26484.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51867] Length = 599 Score = 92.4 bits (228), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 81/323 (25%), Positives = 154/323 (47%), Gaps = 48/323 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH------------- 44 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H Sbjct: 282 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHLLNQFKDPEWLES 340 Query: 45 ---------GDL--------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 DL A + L+ ++LRLVV +A Y G G+ +++ EGN+GL+ Sbjct: 341 HEKPANSQKKDLRTVARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 400 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 401 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELL 458 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 459 QDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI--- 510 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVS 265 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V+ Sbjct: 511 EDSEAVVAVDAVSFTLLQDQLQDVLKTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGVT 570 Query: 266 RERVRQIEARAFKKVQESIQKQV 288 RER+RQIE++ K++ + QV Sbjct: 571 RERIRQIESKTMSKLRHPSRSQV 593 >gi|319789700|ref|YP_004151333.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] gi|317114202|gb|ADU96692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] Length = 563 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 82/256 (32%), Positives = 128/256 (50%), Gaps = 50/256 (19%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV S+LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 325 AKQILVRSNLRLVVSIAKKYINRGLHFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 384 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++F + R KPE+ Sbjct: 385 IRQAITRAIADQARTIRIPVHMIETINKVIKISRQMFQEMGR-----------EPKPEE- 432 Query: 160 VAIAKKLNVSESEVISMNCRLA----------GDESLNALINSSDKNSSQWQDWLVYDHD 209 IA++L + S+V S+ +LA GD+ + L N + S + V D Sbjct: 433 --IAERLKMPASKVRSI-LQLAQEPVSLETPIGDDEDSTLGNFIEDTKSPIPEQEVIKKD 489 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRE 267 QE+V ++ +S L+ RE + + R L P TLE + E +V+RE Sbjct: 490 LQEKV--------------SQLLSQLSEREALVLKLRFGLDGYPEHTLEQVGKELKVTRE 535 Query: 268 RVRQIEARAFKKVQES 283 R+RQIE++A +K++ S Sbjct: 536 RIRQIESKALRKLRNS 551 >gi|172038507|ref|YP_001805008.1| RNA polymerase sigma factor SigD [Cyanothece sp. ATCC 51142] gi|171699961|gb|ACB52942.1| group 2 sigma-70 RNA polymerase sigma factor D [Cyanothece sp. ATCC 51142] Length = 318 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 78/307 (25%), Positives = 138/307 (44%), Gaps = 60/307 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+ EI ++P+L +EE + AKR + Sbjct: 14 YLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLREEIIEETGQEPTESQWAKAAKLSKREF 73 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ +A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G Sbjct: 74 RSIVESGE-AAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKG 132 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 +R +TY+ WWI+ A+ I +++ +K L ++K + ++ + Sbjct: 133 YRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRELSQQKGRAAT 187 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V +A++L+++ +V R SL+ + D ++ D L + DGQ Sbjct: 188 VTELAEELDLTPKQVREYLERARQPLSLD--LRVGDNQDTELGDLL--EDDGQ-----SP 238 Query: 219 EERKNRRNM---LTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 E+ ++ L R M L +++ + R L P+TL + S +SRERVRQIE Sbjct: 239 EDFATHSSLQFDLERLMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIE 298 Query: 274 ARAFKKV 280 A K+ Sbjct: 299 REALSKL 305 >gi|254362696|ref|ZP_04978782.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica PHL213] gi|153094317|gb|EDN75178.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica PHL213] Length = 623 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 500 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRMAT 554 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 555 NEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608 >gi|39939114|ref|NP_950880.1| DNA-directed RNA polymerase sigma subunit [Onion yellows phytoplasma OY-M] gi|39722223|dbj|BAD04713.1| DNA-directed RNA polymerase sigma subunit [Onion yellows phytoplasma OY-M] Length = 460 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 84/303 (27%), Positives = 142/303 (46%), Gaps = 57/303 (18%) Query: 19 YIHEIRKIPMLEKQEE------YVLAKRYRE--------------------HGDLSAAHR 52 Y+ EI +IP+L EE L K+ ++ H + A R Sbjct: 157 YLKEIGQIPLLSLAEEQKKSILVFLGKQAKQKLAKHKTKEIELSEEQLQEAHDQIEQARR 216 Query: 53 ----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 LV S+ RLVV IA Y G G+ +++ EGN+GLM+AV KFD ++GF+ +TY+ WW Sbjct: 217 AKDILVESNYRLVVSIAKRYIGRGILFLDLIQEGNMGLMRAVDKFDYQKGFKFSTYATWW 276 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N ++ R+L L+ K V +A Sbjct: 277 IRQAITRAIADQARTIRIPVHIVETIN--KMALCTRKLTQKLK-------KKPTVEELAD 327 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW-----LVYDHDGQEQVLIEKE 219 K+N+S ++ S+ SL A ++++ + D+ ++ H+ + + +K Sbjct: 328 KMNISAEKIRSIQYIEKKPISLEAPARENEEDETSLGDFISDPNILSPHEYMMKEVTQKL 387 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAF 277 + N LT RE ++ + R L TLE + + F V+RER+RQIE++A Sbjct: 388 LDEVLENTLT-------DREEKVLKMRYGLLDGKTHTLEEVGTLFGVTRERIRQIESKAL 440 Query: 278 KKV 280 +++ Sbjct: 441 RRL 443 >gi|84394590|ref|ZP_00993293.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] gi|84374781|gb|EAP91725.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] Length = 573 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 335 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 394 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 395 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 452 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 453 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 496 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 497 ATSLRGATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 556 Query: 279 KVQ 281 K++ Sbjct: 557 KLR 559 >gi|227542254|ref|ZP_03972303.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51866] gi|227182083|gb|EEI63055.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51866] Length = 603 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 81/323 (25%), Positives = 154/323 (47%), Gaps = 48/323 (14%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH------------- 44 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H Sbjct: 286 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHLLNQFKDPEWLES 344 Query: 45 ---------GDL--------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 DL A + L+ ++LRLVV +A Y G G+ +++ EGN+GL+ Sbjct: 345 HEKPANSQKKDLRTVARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 404 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 405 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELL 462 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 P++ +AK+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 463 QDLGREPTPQE---LAKEMDITEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI--- 514 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVS 265 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V+ Sbjct: 515 EDSEAVVAVDAVSFTLLQDQLQDVLKTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGVT 574 Query: 266 RERVRQIEARAFKKVQESIQKQV 288 RER+RQIE++ K++ + QV Sbjct: 575 RERIRQIESKTMSKLRHPSRSQV 597 >gi|296393381|ref|YP_003658265.1| RpoD subfamily RNA polymerase sigma-70 factor [Segniliparus rotundus DSM 44985] gi|296180528|gb|ADG97434.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Segniliparus rotundus DSM 44985] Length = 441 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 78/318 (24%), Positives = 147/318 (46%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGDL-- 47 RKN + + + + Y+ +I K+ +L ++E LAKR E GD Sbjct: 129 RKNAELTASAD-SVRAYLKQIGKVALLNAEQEVELAKRIEAGLYAQERLRIAAEEGDRLP 187 Query: 48 ---------------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 188 TTSRRDLNWVVRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 247 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 248 FDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 305 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ + +++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 306 EPTPEE---LGREMDIPPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 357 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 358 VVAVDAVSFTLLQDQLQAVLETLSEREAGVVRMRFGLTDGQPRTLDEIGQVYGVTRERIR 417 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 418 QIESKTMSKLRHPSRSQV 435 >gi|320159820|ref|YP_004173044.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] gi|319993673|dbj|BAJ62444.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] Length = 396 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 82/297 (27%), Positives = 134/297 (45%), Gaps = 44/297 (14%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRY-------------------REHGDL- 47 I + +GL Y+ E+ ++P+L +EE LAKR + G+L Sbjct: 93 ISSDDTVGL--YLKEMSRVPLLSSEEEVELAKRIERGRAAKKELTRNSARLSPQRRGELE 150 Query: 48 -------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 SA L+ ++ RLVV IA Y G G+P +++ EGN+GLM+AV+K++ +RGFR Sbjct: 151 AQIQDGESAREHLIKANTRLVVSIAKRYIGRGVPFLDLIQEGNLGLMKAVEKYEYQRGFR 210 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 +TY+ WWI+ + I +++ +RL+ ++ L N Sbjct: 211 FSTYATWWIRQTITRSIADQGRTIRVPVHMVDRIRRLYRTTHEMEQKLGRTPTNE----- 265 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 +A + + S+V M SL + IN +++S Q + D ++ Sbjct: 266 --ELADAIGIKASKVDWMMRVSWLPLSLESPINEDEEDSELGQ----FIEDQVTPSPMQT 319 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 R + + L RE RI R EN TLE + +F ++RER+RQIE Sbjct: 320 TYSNLLREKIQEVLDTLPAREARILRLRFGLENGRTYTLEEVGQKFGLTRERIRQIE 376 >gi|295701329|ref|YP_003610330.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] gi|295441652|gb|ADG20819.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] Length = 663 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 64/236 (27%), Positives = 117/236 (49%), Gaps = 12/236 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ Sbjct: 423 LQAKREMIEANLRLVISIAKKYVNRGMHFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYAT 482 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WW++ A+ + ++I + L R+ + T P +A+++ Sbjct: 483 WWVRQAVTRSLADQARTIRI--PVHMMESINKLNRISREILQQTGREAHP---AVLAQRM 537 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 V E +V +M G + L+ D+ + D + D + + N R Sbjct: 538 EVPEEKVRAM--LKIGRQPLSLETPVGDEADTTLSDVI---EDPMATSPADAAVQANLRA 592 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ L+PRE ++ R + TLE L +F+++RER+RQIE++A +K+ Sbjct: 593 AINTALDALSPREAKVLRMRFGIDTASDCTLEELGKQFDLTRERIRQIESKAMRKL 648 >gi|162420372|ref|YP_001604920.1| RNA polymerase sigma factor RpoD [Yersinia pestis Angola] gi|162353187|gb|ABX87135.1| RNA polymerase sigma factor RpoD [Yersinia pestis Angola] Length = 612 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 73/251 (29%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 +N R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSENLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|86157148|ref|YP_463933.1| sigma 70 (RpoD) [Anaeromyxobacter dehalogenans 2CP-C] gi|85773659|gb|ABC80496.1| RNA polymerase, sigma 70 subunit, RpoD [Anaeromyxobacter dehalogenans 2CP-C] Length = 805 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 75/260 (28%), Positives = 122/260 (46%), Gaps = 33/260 (12%) Query: 37 LAKRYREHGDLS-----AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 L + YR GD A LV ++LRLVV IA Y GL +++ EGNIGLM+AV Sbjct: 550 LRRTYRMIGDGERKAERAKTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVD 609 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KF+ +RG++ +TY+ WWI+ A+ I ++I + L R +L Sbjct: 610 KFEYKRGYKFSTYATWWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELG 667 Query: 152 NNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 PE++ + K L ++ E IS+ + +E + DK+ D Sbjct: 668 REPTPEEIAEKMELPLDKVRKVLKIA-KEPISLETPIGEEEDSHLGDFIEDKSLVSPSDA 726 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSE 261 ++ N + ++ L PRE ++ R +++ TLE + + Sbjct: 727 VIN---------------MNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQD 771 Query: 262 FEVSRERVRQIEARAFKKVQ 281 FEV+RER+RQIEA+A +K++ Sbjct: 772 FEVTRERIRQIEAKALRKLR 791 >gi|58584650|ref|YP_198223.1| DNA-directed RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont strain TRS of Brugia malayi] gi|58418966|gb|AAW70981.1| DNA-directed RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont strain TRS of Brugia malayi] Length = 649 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 78/262 (29%), Positives = 137/262 (52%), Gaps = 29/262 (11%) Query: 32 QEEYVLAKRYREHG-DLSAAHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A + ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 393 QEFKELIKRTQKHEREVSEAKQGMIKANLRLVVSIAKKYSNRGLALLDLIQEGNIGLMKA 452 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 V KFD +RG++ +TY WW++ ++ I +V+I + + ++ L+ + Sbjct: 453 VDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPV-----HMVEIISKINRALRKL 507 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDH 208 T + + ++ +L + E I ++A D SL+A D SS + D + Sbjct: 508 THEMGREPTLEELSMELGMP-LERIRKVMKIARDPVSLDAPTGKDD--SSTFGDCI---- 560 Query: 209 DGQEQVLIEKEER----KNRRNMLTRSMSVLNPRERRIFEAR-----RLQENPVTLENLS 259 E + K E + R + T ++ L P+E RI R +E+ TLE + Sbjct: 561 ---EDKRVSKPEDAAILTDLRCITTNLLATLTPKEERIIRMRFGLGKDCKEH--TLEEIG 615 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 F+V+RER+RQ+E++A +K++ Sbjct: 616 CIFKVTRERIRQVESKALRKLK 637 >gi|261492895|ref|ZP_05989441.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261496755|ref|ZP_05993130.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. OVINE] gi|261307594|gb|EEY08922.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. OVINE] gi|261311436|gb|EEY12593.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 623 Score = 92.4 bits (228), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 500 PEDKIRKV-LKIA-KEPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRMAT 554 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 555 NEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608 >gi|88810991|ref|ZP_01126247.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] gi|88791530|gb|EAR22641.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] Length = 609 Score = 92.0 bits (227), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 370 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 429 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + +P++ +A+++ + Sbjct: 430 IRQAITRSIADQARTIRI--PVHMIETINKLNRTSRQMLQEMGREPQPDE---LAERMEM 484 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D ++ R+ + + Sbjct: 485 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDAAVMSPVDSATREGLKESV 539 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 540 REVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 594 >gi|58698250|ref|ZP_00373169.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] gi|58535222|gb|EAL59302.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] Length = 270 Score = 92.0 bits (227), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 75/260 (28%), Positives = 128/260 (49%), Gaps = 25/260 (9%) Query: 32 QEEYVLAKRYREHG-DLS-AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 14 QEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKA 73 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHL- 146 V KFD +RG++ +TY WW++ ++ I +V+I + ++ LR++ + Sbjct: 74 VDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMG 133 Query: 147 QAITDNNLKPEQVVAIAK--KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + T L E + + + K+ + +S+ D+S DK S+ +D Sbjct: 134 REPTLEELSVELTMPLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSRPEDAA 193 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSE 261 + + R + T ++ L P+E RI R TLE + Sbjct: 194 IL---------------ADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKI 238 Query: 262 FEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 239 FNVTRERIRQIEAKALRKLK 258 >gi|254232809|ref|ZP_04926136.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis C] gi|124601868|gb|EAY60878.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis C] Length = 528 Score = 92.0 bits (227), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 81/318 (25%), Positives = 150/318 (47%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 216 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 274 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+ L++AV+K Sbjct: 275 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLRLIRAVEK 334 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 335 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 392 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 393 EPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 444 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 445 VVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIR 504 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 505 QIESKTMSKLRHPSRSQV 522 >gi|116075407|ref|ZP_01472667.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] gi|116067604|gb|EAU73358.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] Length = 310 Score = 92.0 bits (227), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 127/251 (50%), Gaps = 16/251 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR + G+ A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG Sbjct: 57 KRTIKKGE-KAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRG 115 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 R +TY+ WWI+ + + ++I N+K LR K L P Q Sbjct: 116 HRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKARLMQRNGQAATPAQ 173 Query: 159 VVAIAKKLNVSESEVIS-MNCRL-AGDESLNALINSSDKNSSQWQDWLVYDH-DGQEQVL 215 +A+ + +S +EV + C L + SL ++ S + S+ D L + EQ Sbjct: 174 ---LAEAMQISRAEVDDLLGCELRSVTVSLQGIVKSKS-DPSELVDVLPSEELPPMEQAE 229 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQI 272 I+ E + +L RS L P+ER + R + TL ++ SRE RQ+ Sbjct: 230 ID-ERTASAWTLLDRSN--LTPKERTVVMLRFGLDGSNEWRTLAEVARHMGCSREYCRQV 286 Query: 273 EARAFKKVQES 283 RA +K+++S Sbjct: 287 VQRALRKLRKS 297 >gi|15240693|ref|NP_196877.1| SIG4 (SIGMA FACTOR 4); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|3983260|gb|AAC97954.1| sigma-like factor [Arabidopsis thaliana] gi|4972296|dbj|BAA78110.1| RNA polymerase sigma subunit SigD [Arabidopsis thaliana] gi|9758039|dbj|BAB08700.1| sigma-like factor [Arabidopsis thaliana] gi|332004550|gb|AED91933.1| sigma factor 4 [Arabidopsis thaliana] Length = 419 Score = 92.0 bits (227), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 128/249 (51%), Gaps = 40/249 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ + RLVV IA GY+G GL + +++ EG+IGL++ ++FDP+RG++L+TY WW Sbjct: 179 AREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWW 238 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 IK A ILR+ A++ RL +L G + +T + V+ Sbjct: 239 IKQA----ILRA--------IAHKSRLV----KLPGSMWELTAKVAEASNVLTRKLRRQP 282 Query: 162 ----IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ-----WQDWLVYDHDGQE 212 IA+ LN++ S V RLA + S + + S D+ +SQ Q+ + + + Sbjct: 283 SCEEIAEHLNLNVSAV-----RLAVERSRSPV--SLDRVASQNGRMTLQEIVRGPDETRP 335 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 + ++++E K+ L S++ R ++ E P++ E + ++SRERVRQI Sbjct: 336 EEMVKREHMKHEIEQLLGSLTARESRVLGLYFGLN-GETPMSFEEIGKSLKLSRERVRQI 394 Query: 273 EARAFKKVQ 281 A KK++ Sbjct: 395 NGIALKKLR 403 >gi|95928999|ref|ZP_01311744.1| RNA polymerase, sigma 38 subunit, RpoS [Desulfuromonas acetoxidans DSM 684] gi|95134900|gb|EAT16554.1| RNA polymerase, sigma 38 subunit, RpoS [Desulfuromonas acetoxidans DSM 684] Length = 583 Score = 92.0 bits (227), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 122/251 (48%), Gaps = 44/251 (17%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ W Sbjct: 343 AAKTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATW 402 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL------QAITDNNLKP- 156 WI+ A+ I ++I T N +L R+L L + I + P Sbjct: 403 WIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQLVQELGREPIPEEIAERMDLPL 460 Query: 157 ---EQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQ 211 +V+ IAK E IS+ + +E SL I DK + + ++ Sbjct: 461 EKVRRVLKIAK-------EPISLETPIGEEEDSSLGDFIE--DKGAVSPLEAVI------ 505 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERV 269 + N + +S L+PRE ++ R + + TLE + +F V+RER+ Sbjct: 506 ---------KGNLSDQTAEVLSTLSPREEKVLRMRFGIGERSDHTLEEVGQDFNVTRERI 556 Query: 270 RQIEARAFKKV 280 RQIEA+A +K+ Sbjct: 557 RQIEAKALRKL 567 >gi|260762514|ref|ZP_05874851.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260672940|gb|EEX59761.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] Length = 131 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 36/82 (43%), Positives = 59/82 (71%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 50 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 109 Query: 87 MQAVKKFDPERGFRLATYSMWW 108 ++A +FDP+R R +TY+ WW Sbjct: 110 LEAAARFDPDRDVRFSTYASWW 131 >gi|262376664|ref|ZP_06069892.1| RNA polymerase sigma factor rpoD [Acinetobacter lwoffii SH145] gi|262308374|gb|EEY89509.1| RNA polymerase sigma factor rpoD [Acinetobacter lwoffii SH145] Length = 628 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K L +++ E ISM + DE L I S+ S I+ Sbjct: 507 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSNITSP-----------------IDA 548 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A Sbjct: 549 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 608 Query: 277 FKKVQ 281 +K++ Sbjct: 609 LRKLR 613 >gi|86742187|ref|YP_482587.1| sigma 38 [Frankia sp. CcI3] gi|86569049|gb|ABD12858.1| sigma 38 [Frankia sp. CcI3] Length = 422 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 86/302 (28%), Positives = 140/302 (46%), Gaps = 60/302 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY---------------------REHGDL-----SAAHR 52 Y+ EI K+P+L +E L+KR R+ G L +A + Sbjct: 129 YLREIGKVPLLNAAQEVELSKRVEAGLFAEYKLESVPDLPADLRRDLGLLVKDGHAAKQQ 188 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 189 LVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWWIRQA 248 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I T Q++L L R + + ++ EQVV Sbjct: 249 IGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQVV--- 305 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + +S+ + GD L I SD S D Y G Q IE Sbjct: 306 -ELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSP--ADAASY---GAMQDEIE---- 355 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKK 279 N+L L+PRER + R L + TL + + ++RER+RQIE ++ Sbjct: 356 ----NVL----GGLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRE 407 Query: 280 VQ 281 ++ Sbjct: 408 LR 409 >gi|326794299|ref|YP_004312119.1| RNA polymerase, sigma 70 subunit, RpoD [Marinomonas mediterranea MMB-1] gi|326545063|gb|ADZ90283.1| RNA polymerase, sigma 70 subunit, RpoD [Marinomonas mediterranea MMB-1] Length = 610 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R+ + PE++ Sbjct: 432 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEELAVRMDMPED 489 Query: 162 -IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ + DG E ++ Sbjct: 490 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI--EDDGAESP-VDTAT 533 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + T ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 534 IEGLKESTTTVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 593 Query: 279 KVQ 281 K++ Sbjct: 594 KLR 596 >gi|317506483|ref|ZP_07964284.1| RNA polymerase sigma factor RpoD [Segniliparus rugosus ATCC BAA-974] gi|316255244|gb|EFV14513.1| RNA polymerase sigma factor RpoD [Segniliparus rugosus ATCC BAA-974] Length = 452 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 78/318 (24%), Positives = 147/318 (46%), Gaps = 43/318 (13%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGDL-- 47 RKN + + + + Y+ +I K+ +L ++E LAKR E GD Sbjct: 140 RKNAELTASAD-SVRAYLKQIGKVALLNAEQEVELAKRIEAGLYAQERLRIATEEGDRLP 198 Query: 48 ---------------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 199 TTSRRDMNWVVRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 258 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 259 FDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGR 316 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+ + +++++ +V+ + SL+ I D+ SQ D++ D + Sbjct: 317 EPTPEE---LGREMDIPPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEA 368 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 V ++ ++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 369 VVAVDAVSFTLLQDQLQAVLETLSEREAGVVRMRFGLTDGQPRTLDEIGQVYGVTRERIR 428 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 429 QIESKTMSKLRHPSRSQV 446 >gi|254698074|ref|ZP_05159902.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] Length = 118 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 36/82 (43%), Positives = 59/82 (71%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE++EE LA R++E D A HR+ ++H+RLV+ +A +R + LP+S+++ EG +GL Sbjct: 37 PYLEREEERALAIRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGL 96 Query: 87 MQAVKKFDPERGFRLATYSMWW 108 ++A +FDP+R R +TY+ WW Sbjct: 97 LEAAARFDPDRDVRFSTYASWW 118 >gi|149923522|ref|ZP_01911923.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149815591|gb|EDM75122.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 589 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 75/256 (29%), Positives = 123/256 (48%), Gaps = 37/256 (14%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 + R D + A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG+ Sbjct: 342 KARRQADRAKAE-LVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGY 400 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLK 155 + +TY+ WWI+ A+ I ++I T N +L R L L Sbjct: 401 KFSTYATWWIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRSLVQEL----GREPT 454 Query: 156 PEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 PE++ + K L +++ E IS+ + +E + DKN+ + ++ Sbjct: 455 PEEIAEKMELPLDKVRKVLKIAK-EPISLETPIGEEEDSHLGDFIEDKNAVSPAEVVI-- 511 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVS 265 N + R ++ L PRE ++ R + + TLE + +F V+ Sbjct: 512 -------------NINLADQTRRVLATLTPREEKVLRMRFGIGETSDHTLEEVGQDFSVT 558 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIEA+A +K++ Sbjct: 559 RERIRQIEAKALRKLR 574 >gi|148243538|ref|YP_001228695.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851848|emb|CAK29342.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 370 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 118/238 (49%), Gaps = 19/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+ G+ + ++V EG +GL + V+K+DP RGFR +TY+ WW Sbjct: 131 AKERMIQANLRLVVAVAKKYQHRGMELLDLVQEGTLGLERGVEKYDPTRGFRFSTYAYWW 190 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K + I + + ++++L + Sbjct: 191 IRQGITRAIATQSRTIRLPVHITEK-----LNRIKKAQRDIASRLGRTATLKDLSQELQL 245 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE V R+ SL+ + ++ D L DG + E+R R + Sbjct: 246 SEEVVRQTLMRVPRSVSLDTRVGRD--MDTELGDLL---EDG----MPTPEQRLTREKLH 296 Query: 229 TRSMSVLNP---RERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +LN RE R+ R + P TL + ++SRERVRQIE+RA K++ Sbjct: 297 DDLLVLLNELSGREARVIRLRFGLDDDTPQTLAEIGKTLDLSRERVRQIESRALHKLR 354 >gi|303235620|ref|ZP_07322227.1| RNA polymerase sigma factor RpoD family protein [Prevotella disiens FB035-09AN] gi|302484067|gb|EFL47055.1| RNA polymerase sigma factor RpoD family protein [Prevotella disiens FB035-09AN] Length = 290 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 76/272 (27%), Positives = 136/272 (50%), Gaps = 12/272 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA+ + G A +L+ ++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 + ++ I +N +P + +A + E+ + S++A + Sbjct: 135 VGAISKINQVSNEF--IQKHNRRP-SIHELADLTGIDEARIRQSQSADNHHMSIDAPFSD 191 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI-FEARRLQEN 251 D NS L D + ++ E + N + + + L RERRI E + Sbjct: 192 DDDNSMSDM--LASGDDSRTDKAVDFESMSDDLNAVLQ--NTLKDRERRIVIECFGIGCP 247 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 LE + +E ++RERVRQI +A +K++ S Sbjct: 248 EKGLEEIGTEMALTRERVRQIREKAIEKIRLS 279 >gi|169632612|ref|YP_001706348.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter baumannii SDF] gi|169151404|emb|CAP00133.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter baumannii] Length = 630 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 508 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 509 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 552 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 K + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 553 SKGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 612 Query: 279 KVQ 281 K++ Sbjct: 613 KLR 615 >gi|307151291|ref|YP_003886675.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306981519|gb|ADN13400.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 318 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 77/314 (24%), Positives = 138/314 (43%), Gaps = 72/314 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------------------EH------------- 44 Y+ EI ++P+L +EE VLAKR + EH Sbjct: 14 YLREIGRVPLLTHEEEIVLAKRVQRSMALQEIKDTLTKNLSREPLEHEWAEAAKISEEEL 73 Query: 45 -----GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G+ Sbjct: 74 RRTMAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGY 133 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R +TY+ WWI+ A+ I +++ +K L ++K + + + + Sbjct: 134 RFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQLAQKQGRAATI 188 Query: 160 VAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 +A++L ++ +V +S++ R+ GD L + + +D+ + Sbjct: 189 SELAQELELTPRQVREYLERARQPLSLDLRV-GDNQDTELGELLEDTGTSPEDYATH--- 244 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRE 267 Q+ +EK MS L P++R + R + P+TL + +SRE Sbjct: 245 SSLQLDLEK------------LMSDLTPQQREVLALRFGLVDGQPLTLAKIGVRLNISRE 292 Query: 268 RVRQIEARAFKKVQ 281 RVRQIE A K++ Sbjct: 293 RVRQIEREALSKLR 306 >gi|212633971|ref|YP_002310496.1| RNA polymerase sigma factor [Shewanella piezotolerans WP3] gi|212555455|gb|ACJ27909.1| RNA polymerase sigma factor [Shewanella piezotolerans WP3] Length = 612 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 124/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ RN ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TGESLRNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQ 281 +K++ Sbjct: 595 RKLR 598 >gi|307718699|ref|YP_003874231.1| RNA polymerase sigma factor RpoD [Spirochaeta thermophila DSM 6192] gi|306532424|gb|ADN01958.1| RNA polymerase sigma factor RpoD [Spirochaeta thermophila DSM 6192] Length = 338 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 76/262 (29%), Positives = 129/262 (49%), Gaps = 35/262 (13%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 +EE L +R RE +R++T++LRLVV IA Y+ GL + +++ EGNIGL++AV+ Sbjct: 90 EEERRLDQRLRE-----LKNRMITANLRLVVSIAKKYQHRGLSLLDLIDEGNIGLIEAVE 144 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 +FD +G R +TY WWI+ A+ + + A++ R+ R+ H+ Sbjct: 145 RFDYTKGCRFSTYGTWWIRQAI------------VKSLADKSRVI----RIPIHMLNTIK 188 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNC----RLA-----GDESLNALINSSDKNSSQWQD 202 N + +A + +E E+ R+A E+ + I ++N + D Sbjct: 189 NVFMLSKELAQELGRDPTEEELSRYTGLPDRRVAEIMQVSQETASLDITVDEENMTTLGD 248 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSS 260 + D D Q EK + ++L ++ L+ RER + R E P+TLE Sbjct: 249 LVSDDED---QGPFEKVFHRYLHDVLLEALGDLSERERNVISLRFGLNGEGPLTLEETGK 305 Query: 261 EFEVSRERVRQIEARAFKKVQE 282 ++RERVRQI+ +A K++E Sbjct: 306 LLGITRERVRQIQEKALAKLRE 327 >gi|293376344|ref|ZP_06622581.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325843397|ref|ZP_08167955.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] gi|292645033|gb|EFF63106.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325489319|gb|EGC91693.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] Length = 456 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 82/257 (31%), Positives = 126/257 (49%), Gaps = 35/257 (13%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A+R + G+ A RLV ++LRLVV IA + G G+ +++ EGN+GL++AV+KFD + Sbjct: 208 ARRVIQEGEY-AKKRLVEANLRLVVSIAKRHVGRGMLFLDLIQEGNMGLIKAVEKFDYRK 266 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQA 148 GF+ +TY+ WWI+ A+ I ++I T N Q++L L R + Sbjct: 267 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQELGREPLPEEI 326 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + PE+V I L +S+ V SL + + D S D+ + D Sbjct: 327 SEKMGIAPEKVREI---LKISQEPV-----------SLESPVGEED--DSHLGDF-IPDA 369 Query: 209 DGQEQVLIEKEERKNR--RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEV 264 D L E N + L + L RE R+ R E+ TLE + EF V Sbjct: 370 DA----LSPSEFASNEMLKKELDDVLETLTDREERVLRLRFGLEDGRTRTLEEVGKEFGV 425 Query: 265 SRERVRQIEARAFKKVQ 281 +RER+RQIEA+A +K++ Sbjct: 426 TRERIRQIEAKALRKLR 442 >gi|293391709|ref|ZP_06636043.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter actinomycetemcomitans D7S-1] gi|290952243|gb|EFE02362.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter actinomycetemcomitans D7S-1] Length = 616 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREASPEE---LAERMGM 492 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 493 PEDKIRKV-LKIA-KEPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATVQSLKAAT 547 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 548 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 601 >gi|126660028|ref|ZP_01731150.1| RNA polymerase sigma-C factor [Cyanothece sp. CCY0110] gi|126618706|gb|EAZ89453.1| RNA polymerase sigma-C factor [Cyanothece sp. CCY0110] Length = 418 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 127/243 (52%), Gaps = 23/243 (9%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ Sbjct: 177 IRAKDEMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPIKGYRFSTYAY 236 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I ++++ +K L ++K + I+ + + I K+L Sbjct: 237 WWIRQGITRAIATQSRIIRLPVHITEK-----LNKIKQVQRKISQAKGRSATLEEIGKEL 291 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRR 225 N+S ++V + ++ SL I + ++ D L D +E + IE Sbjct: 292 NMSSTQVRDVLMKIPRSVSLE--IKVGKEKDTELVDLLESEDISPEENLAIES------- 342 Query: 226 NMLTRSMSV----LNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKK 279 L R + + L RE+ + + R E+ V +L ++ ++SRERVRQIEA+A +K Sbjct: 343 --LRRDIGILLEDLTEREQEVIKLRYGFEDGVSYSLADIGRTLDLSRERVRQIEAKALQK 400 Query: 280 VQE 282 +++ Sbjct: 401 LRQ 403 >gi|294139649|ref|YP_003555627.1| RNA polymerase sigma-70 factor [Shewanella violacea DSS12] gi|7388082|sp|O24744|RPOD_SHEVD RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|1912047|dbj|BAA19475.1| RNA polymerase sigma factor [Shewanella violacea] gi|293326118|dbj|BAJ00849.1| RNA polymerase sigma-70 factor [Shewanella violacea DSS12] Length = 614 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 123/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 ++ RN ++ L RE ++ R + TLE + +F+V+RER+RQIEA+A Sbjct: 537 TGESLRNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQ 281 +K++ Sbjct: 597 RKLR 600 >gi|329906288|ref|ZP_08274384.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] gi|327547308|gb|EGF32147.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] Length = 827 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 588 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 647 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A K+ + Sbjct: 648 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAIKMEM 702 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E E I ++A E ++ D + S D++ D + + R ++ Sbjct: 703 PE-EKIRKIMKIA-KEPISMETPIGDDDDSHLGDFI---EDNNTLAPADAALHASMRGVV 757 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 758 KDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 812 >gi|261868195|ref|YP_003256117.1| RNA polymerase sigma factor RpoD [Aggregatibacter actinomycetemcomitans D11S-1] gi|261413527|gb|ACX82898.1| RNA polymerase sigma factor RpoD (Sigma-70) [Aggregatibacter actinomycetemcomitans D11S-1] Length = 616 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREASPEE---LAERMGM 492 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 493 PEDKIRKV-LKIA-KEPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATVQSLKAAT 547 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 548 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 601 >gi|220936192|ref|YP_002515091.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. HL-EbGR7] gi|219997502|gb|ACL74104.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. HL-EbGR7] Length = 619 Score = 92.0 bits (227), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 116/245 (47%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +++++ + Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEE---LSERMEM 494 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE S D++ D IE Sbjct: 495 PEDKVRKVLKIAKEPISMETPIGDDE------------DSHLGDFI---EDVNVMSPIEA 539 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 R+ ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 540 ATREGLSEATRDVLASLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 599 Query: 277 FKKVQ 281 +K++ Sbjct: 600 LRKLR 604 >gi|237751866|ref|ZP_04582346.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Helicobacter winghamensis ATCC BAA-430] gi|229376742|gb|EEO26833.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Helicobacter winghamensis ATCC BAA-430] Length = 615 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/249 (28%), Positives = 126/249 (50%), Gaps = 20/249 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR ++ D A ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G Sbjct: 370 KRGKDIAD-KAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKG 428 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 +R +TY+ WWI+ A+ I ++I + + R+ ++ K Sbjct: 429 YRFSTYATWWIRQAISRAIADQARTIRIPI-----HMIETINRINKIMRKCLQEEGKEPD 483 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVL 215 + IA+++ + +V ++ SL A I + + ++ D+ V D + +L Sbjct: 484 LEKIAEEVGLPLDKVKNVIKITKEPISLEAPIGNGE--DGKFGDF-VEDKSAVGPMDHIL 540 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQI 272 +++ ++ + + LN RE+ + R E+ TLE + E V+RERVRQI Sbjct: 541 -----KEDLKSQIDDVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQI 595 Query: 273 EARAFKKVQ 281 E+ A KK++ Sbjct: 596 ESSAIKKLK 604 >gi|238063497|ref|ZP_04608206.1| rpoD family RNA polymerase, sigma-70 subunit [Micromonospora sp. ATCC 39149] gi|237885308|gb|EEP74136.1| rpoD family RNA polymerase, sigma-70 subunit [Micromonospora sp. ATCC 39149] Length = 534 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/302 (26%), Positives = 145/302 (48%), Gaps = 42/302 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------EHG----------DLS-------- 48 Y+ +I K+P+L ++E LAKR E G DL Sbjct: 237 YLKQIGKVPLLNAEQEVELAKRIEAGLYAAERLRAAEEGEEKLVREMVRDLGWISRDGER 296 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 297 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 356 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I + + L R++ L PE+ +AK++++ Sbjct: 357 IRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAKEMDI 411 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V+ + SL+ I D+ SQ D++ D + V ++ ++ L Sbjct: 412 TPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFSLLQDQL 466 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + + L+ RE + R P TL+ + + V+RER+RQIE++ K++ + Sbjct: 467 QQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 526 Query: 287 QV 288 QV Sbjct: 527 QV 528 >gi|190150752|ref|YP_001969277.1| RNA polymerase sigma factor 70 [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|189915883|gb|ACE62135.1| RNA polymerase sigma factor 70 [Actinobacillus pleuropneumoniae serovar 7 str. AP76] Length = 619 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 495 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 496 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRLAT 550 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 551 NEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 604 >gi|301155442|emb|CBW14908.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus parainfluenzae T3T1] Length = 629 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|303250977|ref|ZP_07337166.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307253124|ref|ZP_07535005.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|302650194|gb|EFL80361.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306859418|gb|EFM91450.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 619 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 78/279 (27%), Positives = 140/279 (50%), Gaps = 24/279 (8%) Query: 16 LSRYIHEIR-KIPMLEKQEEY--VLAKRYRE------HGDLSA---AHRLVTSHLRLVVK 63 L+ YI +IR I L++ E+ + + RE +G+L A +V ++LRLV+ Sbjct: 336 LTNYIDQIRVNIDNLQRMEQTTGLTIAQIREIGGRIANGELKARRAKKEMVEANLRLVIS 395 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 396 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 455 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + L R+ PE+ +A+++ + E ++ + ++A Sbjct: 456 IRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGMPEDKIRKV-LKIA-K 508 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D ++ ++ ++ R + L PRE ++ Sbjct: 509 EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRLATNEVLEGLTPREAKVL 565 Query: 244 EAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 566 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 604 >gi|302342714|ref|YP_003807243.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfarculus baarsii DSM 2075] gi|301639327|gb|ADK84649.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfarculus baarsii DSM 2075] Length = 590 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 125/239 (52%), Gaps = 18/239 (7%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ W Sbjct: 351 DAKQELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATW 410 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R +L PE+ IA+K++ Sbjct: 411 WIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQEFGREPTPEE---IAEKMD 465 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V + ++A E ++ ++ S D++ +++ +I + N+ Sbjct: 466 FPLEKVRKV-LKIAK-EPISLETPIGEEEDSHLGDFI------EDKKVINPADAVISLNL 517 Query: 228 LTRS---MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ ++ L PRE ++ R Q++ TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 518 CEQTRKVLATLTPREEKVLRMRFGIGQKSDHTLEEVGRDFDVTRERIRQIEAKALRKLR 576 >gi|312195044|ref|YP_004015105.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311226380|gb|ADP79235.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 424 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 83/294 (28%), Positives = 135/294 (45%), Gaps = 60/294 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREHGDLSAA------HR--------------- 52 Y+ EI ++P+L +E L+KR + EH +AA HR Sbjct: 131 YLREIGRVPLLNAAQEVELSKRVEAGLFAEHKLATAADLEPELHRDLKLLVRDGEAAKQQ 190 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 191 LVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWWIRQA 250 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I T Q++L L R + + ++ EQVV Sbjct: 251 IGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPLEQVV--- 307 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + +S+ + GD L I SD S D Y G Q Sbjct: 308 -ELRRYAQDTVSLETTVGDDGDSVLGDFIEDSDATSP--ADAASY---GAMQ-------- 353 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 + + + L+PRER + R L + TL + + ++RER+RQIE Sbjct: 354 ----DEIDHVLGNLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIE 403 >gi|32034495|ref|ZP_00134667.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126208939|ref|YP_001054164.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae L20] gi|307257544|ref|ZP_07539308.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|126097731|gb|ABN74559.1| RNA polymerase sigma factor 70 [Actinobacillus pleuropneumoniae serovar 5b str. L20] gi|306863980|gb|EFM95899.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 10 str. D13039] Length = 619 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 495 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 496 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRLAT 550 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 551 NEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 604 >gi|52425815|ref|YP_088952.1| RNA polymerase sigma factor RpoD [Mannheimia succiniciproducens MBEL55E] gi|52307867|gb|AAU38367.1| RpoD protein [Mannheimia succiniciproducens MBEL55E] Length = 628 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 450 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREASPEE---LAERMGM 504 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 505 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 559 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 560 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 613 >gi|28572422|ref|NP_789202.1| RNA polymerase sigma factor [Tropheryma whipplei TW08/27] gi|28410553|emb|CAD66939.1| RNA polymerase principal sigma factor hrdb [Tropheryma whipplei TW08/27] Length = 387 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 83/307 (27%), Positives = 140/307 (45%), Gaps = 56/307 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLS----------------AAHR 52 Y+ +I K+ +L EE LAKR E GDL+ A Sbjct: 94 YLKQIGKVSLLTADEEVSLAKRIEAGLFAEEKLSESGDLAPKLKRELRWVVRDGQRAKDH 153 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 154 LLAANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYVKGFKFSTYATWWIRQA 213 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I + Q++L +L R + + ++ PE+VV + Sbjct: 214 ITRAMADQARTIRIPVHMVEVINKLSRVQRQLLQDLGREPTPDELGRELDMPPERVVEVQ 273 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI D V D +++++ R Sbjct: 274 KYGR----EPISLHTPLGDEGDSEFGDLIEDVDA---------VAPDDAVGFSMLQQQLR 320 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ R V+ R ++ P TL+ + F+V+RER+RQIEA+ K++ Sbjct: 321 LLLDSLSEREAGVIRMRFGLDYDM------PKTLDYVGEYFDVTRERIRQIEAKTMAKLR 374 Query: 282 ESIQKQV 288 + Q Sbjct: 375 HPSRSQC 381 >gi|307264154|ref|ZP_07545748.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|306870528|gb|EFN02278.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 619 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 495 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 496 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRLAT 550 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 551 NEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 604 >gi|299783172|gb|ADJ41170.1| RNA polymerase sigma factor [Lactobacillus fermentum CECT 5716] Length = 287 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 48/120 (40%), Positives = 73/120 (60%), Gaps = 3/120 (2%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 SI +N + + Y+ EI ++ +L EE LA R E GD +A L ++LRLVV IA Sbjct: 104 SIKINDPVRM--YLKEIGRVNLLTADEEVALALRI-EKGDETAKQELAEANLRLVVSIAK 160 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y G G+ +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 161 RYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI 220 >gi|165976903|ref|YP_001652496.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|303252483|ref|ZP_07338647.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307248518|ref|ZP_07530536.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307250749|ref|ZP_07532682.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|307261955|ref|ZP_07543613.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|165877004|gb|ABY70052.1| RNA polymerase sigma factor [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|302648684|gb|EFL78876.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|306854994|gb|EFM87179.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306857217|gb|EFM89340.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306868366|gb|EFN00185.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 12 str. 1096] Length = 619 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 495 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 496 PEDKIRKV-LKIA-KEPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRLAT 550 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 551 NEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 604 >gi|163751572|ref|ZP_02158794.1| RNA polymerase sigma-70 factor [Shewanella benthica KT99] gi|161328580|gb|EDP99733.1| RNA polymerase sigma-70 factor [Shewanella benthica KT99] Length = 609 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 371 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 430 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 431 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMMMPED 488 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 489 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 532 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ RN ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 533 GESLRNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 592 Query: 279 KVQ 281 K++ Sbjct: 593 KLR 595 >gi|325576583|ref|ZP_08147301.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus parainfluenzae ATCC 33392] gi|325161146|gb|EGC73261.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus parainfluenzae ATCC 33392] Length = 629 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 451 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEE---LAERMGM 505 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 506 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 560 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 614 >gi|256372040|ref|YP_003109864.1| RNA polymerase, sigma 32 subunit, RpoH [Acidimicrobium ferrooxidans DSM 10331] gi|256008624|gb|ACU54191.1| RNA polymerase, sigma 32 subunit, RpoH [Acidimicrobium ferrooxidans DSM 10331] Length = 294 Score = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/241 (29%), Positives = 123/241 (51%), Gaps = 22/241 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R V ++ LVV IA Y G+ + ++V EG IGL++A+ +D RGFR +TY+ W Sbjct: 55 AARERFVEGNMGLVVSIARRYVQPGISLDDLVQEGTIGLLRAIDLYDGRRGFRFSTYATW 114 Query: 108 WIKAAMQEYILRSWSLVKI--GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA-K 164 WI+ A+ + + R+ V + G A R+ R L+ QA+ E A Sbjct: 115 WIRQAIAQALTRTRRDVVLPRGIAAELARVEVQRRELE---QALGRQPSMAELAAASGID 171 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERK 222 +L V E + + + + S D+ + +D + D D + + E E Sbjct: 172 ELRVRELQGYARS------------VLSLDQAVGEERDVTLADIVPDRDAEPIEETIEHA 219 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R ++ +++ L PRER + R L+ N P +LE+ ++ F ++RER+RQIEARA ++ Sbjct: 220 DLRTVIAGALAHLEPREREVLAFRFGLEGNEPHSLEDAAAYFGIARERIRQIEARAIARL 279 Query: 281 Q 281 + Sbjct: 280 R 280 >gi|255322395|ref|ZP_05363541.1| RNA polymerase sigma factor RpoD [Campylobacter showae RM3277] gi|255300768|gb|EET80039.1| RNA polymerase sigma factor RpoD [Campylobacter showae RM3277] Length = 627 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 117/239 (48%), Gaps = 19/239 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WW Sbjct: 388 AKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 447 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + K + IA ++ + Sbjct: 448 IRQAISRAIADQARTIRIPI-----HMIETINRINKINRKYLQEEGKEPDINVIAAEVGL 502 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNRR 225 S ++ + SL A I + D ++ D+ V D + +L + + + Sbjct: 503 SADKIKQVIKITKEPISLEAPIGNED--DGKFGDF-VEDRSSLSPMDHIL-----KNDLK 554 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 555 EQIDEVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 613 >gi|332288976|ref|YP_004419828.1| RNA polymerase sigma factor RpoD [Gallibacterium anatis UMN179] gi|330431872|gb|AEC16931.1| RNA polymerase sigma factor RpoD [Gallibacterium anatis UMN179] Length = 624 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 386 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 445 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 446 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREASPEE---LAERMGM 500 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 501 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDNTLELPLDSATAQSLKVAT 555 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 556 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 609 >gi|322513554|ref|ZP_08066654.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinobacillus ureae ATCC 25976] gi|322120625|gb|EFX92519.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinobacillus ureae ATCC 25976] Length = 618 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 494 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 495 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRIAT 549 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 550 NEVLEGLTPREEKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 603 >gi|295836123|ref|ZP_06823056.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] gi|295825874|gb|EDY42152.2| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] Length = 493 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 139/310 (44%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------------------------EHGDLSAAH 51 Y+ +I K+P+L ++E LAKR E G + H Sbjct: 200 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEDKLANSDKLAPKLQRELEIIAEDGGRAKNH 259 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 260 -LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 318 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 319 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 378 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 379 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 424 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 425 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 477 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 478 KLRHPSRSQV 487 >gi|37523331|ref|NP_926708.1| RNA polymerase sigma factor SigC [Gloeobacter violaceus PCC 7421] gi|35214335|dbj|BAC91703.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 362 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/236 (27%), Positives = 123/236 (52%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV +A Y+ GL + ++V EG +GL +AV+KFDP +G+R +TY+ WW Sbjct: 123 AKKKMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWW 182 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ +K L R+K + ++ N + + IA++L + Sbjct: 183 IRQGITRAIATQSRTIRLPVHITEK-----LNRIKKTQRKLSQNLGRTPTISEIAEELEM 237 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + V + R+ SL + DK++ + + +E +++ R++ + +L Sbjct: 238 EPAHVRELMSRVPRSVSLETRVG-KDKDTELGELLEAEEVSPEESA-VQESLRRDVKELL 295 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L RER + R L +L + ++SRERVRQIE++A +K+++ Sbjct: 296 ----DDLTLRERDVITMRYGLLDGRTYSLSEIGRALDLSRERVRQIESKALQKLRQ 347 >gi|15603106|ref|NP_246178.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp. multocida str. Pm70] gi|12721597|gb|AAK03325.1| RpoD [Pasteurella multocida subsp. multocida str. Pm70] Length = 622 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 384 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 443 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 444 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREASPEE---LAERMGM 498 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 499 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVAT 553 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 554 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 607 >gi|91202979|emb|CAJ72618.1| similar to DNA-directed RNA polymerase sigma subunit [Candidatus Kuenenia stuttgartiensis] Length = 256 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/265 (27%), Positives = 132/265 (49%), Gaps = 17/265 (6%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 ML +EE +A++ + GD A +L+ ++LRLVV IA + G +++ EGN+GL+ Sbjct: 1 MLTFEEELEIARKVAK-GDAEAREKLIKANLRLVVSIAKEFVNRGFSFLDLIEEGNLGLI 59 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +AV+ FD G R +TY+ WWIK A++ I +++I + Q+ + ++K Sbjct: 60 RAVEDFDITTGNRFSTYATWWIKQAIRRAIANKARIIRIPSYMLQR-----ISQMKHASS 114 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA-LINSSDKNSSQWQDWLVY 206 + + + IA +++++ V ++ L SL+A L++ +D W + Sbjct: 115 GLLKKHERSPSEQEIAAEIDITAQNVKNIELSLQSMTSLDAPLVSGADII------WALS 168 Query: 207 DHDGQEQVLIEKE--ERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 D + L +E E + L + + L+ R + R + TLE++S Sbjct: 169 DITPNGKTLPPEEGLEETYEKETLKKLLDTLDKRAATVITMRYGLVDGESRTLEDISKIL 228 Query: 263 EVSRERVRQIEARAFKKVQESIQKQ 287 ++SRERVRQIE +K+ I K+ Sbjct: 229 KISRERVRQIEKETIQKLHYLITKE 253 >gi|172040581|ref|YP_001800295.1| RNA polymerase sigma factor [Corynebacterium urealyticum DSM 7109] gi|171851885|emb|CAQ04861.1| RNA polymerase sigma factor A [Corynebacterium urealyticum DSM 7109] Length = 545 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/302 (26%), Positives = 148/302 (49%), Gaps = 42/302 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------YR-----EHG---------DL--------S 48 Y+ +I K+ +L ++E LAKR YR E G DL Sbjct: 248 YLKQIGKVALLNAEQEVSLAKRIEAGLYANYRLKQIKESGERLSPMNRRDLREIDRDGRK 307 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 308 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 367 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + ++I + + L R++ L PE+ +A+++++ Sbjct: 368 IRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAREMDI 422 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V+ + SL+ I D+ SQ D++ D + + ++ ++ L Sbjct: 423 TVDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVIAVDAVSFTLLQDQL 477 Query: 229 TRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L+ RE + + R L + P TL+ + + V+RER+RQIE++ K++ + Sbjct: 478 QDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 537 Query: 287 QV 288 QV Sbjct: 538 QV 539 >gi|227495524|ref|ZP_03925840.1| sigma factor [Actinomyces coleocanis DSM 15436] gi|226831071|gb|EEH63454.1| sigma factor [Actinomyces coleocanis DSM 15436] Length = 505 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 82/311 (26%), Positives = 143/311 (45%), Gaps = 63/311 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----------------------GDLSAA 50 Y+ +I K+ +L +E LA+R Y EH G LS Sbjct: 211 YLKQIGKVSLLTAADEVDLARRIEAGLYAEHKIKTEGDELPSKLRRELQILVHDGQLSKN 270 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 271 H-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 329 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + ++ PE+VV Sbjct: 330 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVE 389 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ + D L++++ Sbjct: 390 VQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------IVPTDAVSFTLLQEQ 436 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 L + + L+ RE + R L + P TL+ + + V+RER+RQIE++ Sbjct: 437 --------LHKVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTM 488 Query: 278 KKVQESIQKQV 288 K++ + QV Sbjct: 489 SKLRHPSRSQV 499 >gi|119899516|ref|YP_934729.1| RNA polymerase sigma factor RpoD [Azoarcus sp. BH72] gi|119671929|emb|CAL95843.1| RNA polymerase sigma factor [Azoarcus sp. BH72] Length = 662 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 113/235 (48%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +A+K+ + Sbjct: 482 IRQAITRSIADQARTIRI--PVHMIETINKMNRIS--RQILQETGAEPDPAT-LAEKMEM 536 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ E ++ D + S D++ D E R+ Sbjct: 537 PEEKI--RKIMKISKEPISMETPIGDDDDSHLGDFI---EDTATLAPAEAAMYSGLRDAT 591 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 592 AEVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 646 >gi|149191850|ref|ZP_01870086.1| RNA polymerase sigma factor RpoD [Vibrio shilonii AK1] gi|148834326|gb|EDL51327.1| RNA polymerase sigma factor RpoD [Vibrio shilonii AK1] Length = 616 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/242 (28%), Positives = 116/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPVDSAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 MTSLRVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KV 280 K+ Sbjct: 600 KL 601 >gi|86609652|ref|YP_478414.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-2-3B'a(2-13)] gi|86558194|gb|ABD03151.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-2-3B'a(2-13)] Length = 403 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 125/241 (51%), Gaps = 25/241 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WW Sbjct: 167 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 226 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKL 166 I+ A+ I +++ L+ + R+K + ++ KP E+ +A ++ Sbjct: 227 IRQAITRAIADQSRTIRLPV-----HLYETISRIKKVTKLLSQELGRKPTEEEIATRMEI 281 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE----QVLIEKEERK 222 + + I+ + +L SL I + S+ D++ D + E +VL+ Sbjct: 282 TIEKLRFIAKSAQLPI--SLETPIGKEE--DSRLGDFIESDGETPEDRVAKVLL------ 331 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 R L + L RER + + R ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 332 --REDLESVLETLTARERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKL 389 Query: 281 Q 281 + Sbjct: 390 R 390 >gi|225436223|ref|XP_002273602.1| PREDICTED: similar to SIGB (SIGMA FACTOR B); DNA binding / DNA-directed RNA polymerase/ transcription factor [Vitis vinifera] Length = 578 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 129/250 (51%), Gaps = 24/250 (9%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R + + +++ S++RLV+ IA Y+G G+ I ++V EG GL++ +KFD +GF Sbjct: 331 RRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKGF 390 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL-----RRLKGHLQAITDNNL 154 + +TY+ WWIK A+++ + + RL F++ R + Q ++N Sbjct: 391 KFSTYAHWWIKQAVRK---------SLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGR 441 Query: 155 KP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 P + VA A L++ + + + IN + K S D D + E+ Sbjct: 442 HPNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEVIAD---PDAETAEE 498 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQ 271 +LI++ R++ L + ++ LNPRE+++ R E+ TL+ + VSRER+RQ Sbjct: 499 LLIKQFMRED----LEKVLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQ 554 Query: 272 IEARAFKKVQ 281 IE+ AF+K++ Sbjct: 555 IESCAFRKLK 564 >gi|311111671|ref|YP_003982893.1| DNA-directed RNA polymerase sigma subunit RpoD [Rothia dentocariosa ATCC 17931] gi|310943165|gb|ADP39459.1| DNA-directed RNA polymerase sigma subunit RpoD [Rothia dentocariosa ATCC 17931] Length = 468 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 81/309 (26%), Positives = 140/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDLS----------------AAHR 52 Y+ +I K+ +L Q+E LA R Y EH D+ A + Sbjct: 175 YLKQIGKVSLLNAQQEVDLAMRIEAGLYAEHKLADNPDMDPKLKKELRWVIHDGKRAKNH 234 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 235 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWWIRQA 294 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 295 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMAPEKVIEVQ 354 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 355 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 399 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 400 ------LHSVLDTLSEREAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 453 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 454 LRHPSRSQV 462 >gi|300741779|ref|ZP_07071800.1| RNA polymerase sigma (70) factor RpoD [Rothia dentocariosa M567] gi|300380964|gb|EFJ77526.1| RNA polymerase sigma (70) factor RpoD [Rothia dentocariosa M567] Length = 468 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 81/309 (26%), Positives = 140/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDLS----------------AAHR 52 Y+ +I K+ +L Q+E LA R Y EH D+ A + Sbjct: 175 YLKQIGKVSLLNAQQEVDLAMRIEAGLYAEHKLADNPDMDPKLKKELRWVIHDGKRAKNH 234 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 235 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWWIRQA 294 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 295 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMAPEKVIEVQ 354 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 355 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 399 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 400 ------LHSVLDTLSEREAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 453 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 454 LRHPSRSQV 462 >gi|1149588|emb|CAA89984.1| SigA sigma factor [Corynebacterium glutamicum] Length = 497 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 81/324 (25%), Positives = 153/324 (47%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR Y H GD Sbjct: 179 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYATHRMEEMEEAFAAGD 237 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 238 KDAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 297 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 298 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 355 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 P++ ++K++++SE +V+ + SL+ I D+ SQ D++ Sbjct: 356 LQELGREPTPQE---LSKEMDISEEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 408 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + V ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 409 -EDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 467 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K + + QV Sbjct: 468 TRERIRQIESKTMSKRRHPSRSQV 491 >gi|296270363|ref|YP_003652995.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296093150|gb|ADG89102.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 555 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGD-----------------LSAAH 51 Y+ +I K+P+L ++E LAKR + GD A + Sbjct: 261 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEEQLAKEGDKLPPDVKAELEWIAEDGKRAKN 320 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 321 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 380 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 381 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELARELDMTPEKVIEV 440 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 441 QKYGR----EPISLHTPLGEEGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 486 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 487 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 539 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 540 KLRHPSRSQV 549 >gi|319957164|ref|YP_004168427.1| RNA polymerase, sigma 70 subunit, rpod [Nitratifractor salsuginis DSM 16511] gi|319419568|gb|ADV46678.1| RNA polymerase, sigma 70 subunit, RpoD [Nitratifractor salsuginis DSM 16511] Length = 618 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 78/243 (32%), Positives = 122/243 (50%), Gaps = 27/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G++ +TY+ WW Sbjct: 379 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYQKGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI---TDNNLKPEQV-VAIAK 164 I+ A+ I ++I + N + ++ HLQ D E+V +++ K Sbjct: 439 IRQAISRAIADQARTIRIPIHMIETINRIN-KIIRKHLQETGKEPDLETIAEEVGLSVDK 497 Query: 165 KLNVSE--SEVISMNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 NV + E +S+ + GDE + DKNS + ++ D Q+ Sbjct: 498 VKNVIKITKEPVSLETPV-GDEDDGRFGDFIEDKNSISPTEAVLNDDLNQQ--------- 547 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 + + LN RE+ + R L E+ TLE + E V+RERVRQIE+ A K Sbjct: 548 ------IDEVLGQLNEREQAVIRMRFGLLEDMSDRTLEEIGKELNVTRERVRQIESSAIK 601 Query: 279 KVQ 281 K++ Sbjct: 602 KLK 604 >gi|237751154|ref|ZP_04581634.1| RNA polymerase sigma factor RpoD [Helicobacter bilis ATCC 43879] gi|229373599|gb|EEO23990.1| RNA polymerase sigma factor RpoD [Helicobacter bilis ATCC 43879] Length = 632 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 120/237 (50%), Gaps = 13/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ + ++ +TY+ W Sbjct: 392 TAKTKMSRSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYRKQYKFSTYATW 451 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WIK A+ I ++I + + ++K ++ + V +IA ++ Sbjct: 452 WIKQAISRAIADQARTIRIPI-----HMIDTINKIKNLMRKHAQEKGEELDVESIANQVG 506 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +S +V ++ SL A I + D ++ D+ V D + I +E + R Sbjct: 507 LSVDKVKNVIKITKEPISLEAPIGNDD--DGKFGDF-VEDKSTMSSMDIMLKE--DLREQ 561 Query: 228 LTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + LN RE+ + + R E+ TLE + V+RERVRQIE+ A KK++ Sbjct: 562 IDNVLDQLNEREKAVIKMRFGLLEDESDRTLEEIGKALNVTRERVRQIESSAIKKLK 618 >gi|258653916|ref|YP_003203072.1| RNA polymerase sigma factor SigB [Nakamurella multipartita DSM 44233] gi|258557141|gb|ACV80083.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nakamurella multipartita DSM 44233] Length = 334 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/254 (27%), Positives = 123/254 (48%), Gaps = 36/254 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 97 ARNHLLVANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG--HLQAITDNNLK--------PEQ 158 I+ A+ + +++ ++ L RLK H Q D L PE+ Sbjct: 157 IRQAISRGMADQGRTIRLPVHLVEQ--VNKLSRLKRELHQQLGRDATLAELAHESGIPEE 214 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +A L + +S++ + DE L I S+ S++ + HD Sbjct: 215 KIA---DLLDHARDPVSLDMPVGSDEEAPLGDFIEDSESTSAEAAVVAGFMHDD------ 265 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEA 274 + R + L+ RE+ + R ++ P TL+ + F +SRERVRQIE Sbjct: 266 -----------INRVLRTLDDREQTVVRLRYGLDDGRPRTLDEIGRHFGISRERVRQIER 314 Query: 275 RAFKKVQESIQKQV 288 + K++ + +V Sbjct: 315 DSMAKLRVGDRSEV 328 >gi|28493466|ref|NP_787627.1| RNA polymerase sigma factor [Tropheryma whipplei str. Twist] gi|28476507|gb|AAO44596.1| RNA polymerase sigma factor [Tropheryma whipplei str. Twist] Length = 387 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 84/307 (27%), Positives = 141/307 (45%), Gaps = 56/307 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLS----------------AAHR 52 Y+ +I K+ +L EE LAKR E GDL+ A Sbjct: 94 YLKQIGKVSLLTADEEVSLAKRIEAGLFAEEKLSESGDLAPKLKRELRWVVRDGQRAKDH 153 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 154 LLAANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYVKGFKFSTYATWWIRQA 213 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I + Q++L +L R + + ++ PE+VV + Sbjct: 214 ITRAMADQARTIRIPVHMVEVINKLSRVQRQLLQDLGREPTPDELGRELDMPPERVVEVQ 273 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI D V D +++++ R Sbjct: 274 KYGR----EPISLHTPLGDEGDSEFGDLIEDVDA---------VAPDDAVGFSMLQQQLR 320 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ R V+ R R + + P TL+ + F+V+RER+RQIEA+ K++ Sbjct: 321 LLLDSLSEREAGVI--RMRFGLD----DDMPKTLDYVGEYFDVTRERIRQIEAKTMAKLR 374 Query: 282 ESIQKQV 288 + Q Sbjct: 375 HPSRSQC 381 >gi|328480117|gb|EGF49090.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus MTCC 5462] Length = 206 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 45/108 (41%), Positives = 67/108 (62%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA + E GD A RL ++LRLVV IA Y G G+ ++ Sbjct: 19 YLKEIGRVSLLTADEEVALALKI-EQGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDL 77 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 78 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI 125 >gi|149916650|ref|ZP_01905152.1| RNA polymerase sigma factor rpoD [Plesiocystis pacifica SIR-1] gi|149822367|gb|EDM81756.1| RNA polymerase sigma factor rpoD [Plesiocystis pacifica SIR-1] Length = 398 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/246 (28%), Positives = 124/246 (50%), Gaps = 17/246 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + V ++LRLVV IA Y +P+S+++ EGNIGLM+AV +FD +RG+R +TY+ WW Sbjct: 160 AKNEFVQANLRLVVTIARRYDQRLMPLSDLIQEGNIGLMKAVDRFDGKRGYRFSTYATWW 219 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ + V++ + +++R++ + + + V +AK+ + Sbjct: 220 IRHSINRALANKGRTVRLPAHVSA-----DIQRIQRATRELETRTGESPSVDELAKETGL 274 Query: 169 SESEVISMN-CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 S++ V ++ L SL+A SSD +S D L D L + E ++ Sbjct: 275 SKTRVRKLSKLSLHNPVSLDA--PSSDDDSRGLLDRL---EDSSAPRLADMVELEDMSEH 329 Query: 228 LTRSMSVLNPRERRIFEARRL------QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +MS L P E I R + +TL L ++SRER+RQ++ RA K++ Sbjct: 330 LREAMSALEPIEADILRRRYGLGVAGEEFEAMTLRELGEMHQLSRERIRQLQQRALNKLR 389 Query: 282 ESIQKQ 287 ++ Sbjct: 390 REFARR 395 >gi|196047982|ref|ZP_03115160.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Bacillus cereus 03BB108] gi|196021238|gb|EDX59967.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Bacillus cereus 03BB108] Length = 289 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/279 (26%), Positives = 139/279 (49%), Gaps = 10/279 (3%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 N + + Y++EI + +L ++EE + ++Y+E+GD+ A L+ +LRLVV + Y Sbjct: 5 NDSVEYNLYLNEIGQHSLLTEEEEKMYLRKYKENGDMEARRILIECNLRLVVSVVNSYPR 64 Query: 71 YG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G +++ GN+GL++ ++ F+ + +LATY WWI+ + +I + + ++ T Sbjct: 65 VGNCEKMDMIQVGNVGLIRGIEAFEISKNCKLATYVTWWIRHEISRFITFNKNDIRCSVT 124 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 K + +LK + + + IA++L S V+ + L ES++ Sbjct: 125 IQNK-----MDKLKKYFSNENGKAKRKLNIEQIAEELGYSVETVLQIMDTLMLKESVSLD 179 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--R 247 SSD++S + + LI EE+ + L +VLN +E + R Sbjct: 180 APSSDEDSRPVMNSVKNAKAPNPVELITSEEQLYQIEELL--FTVLNEKEESVIRYRFGF 237 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E +TLE ++ F ++RER++QIE +A K++ + K Sbjct: 238 DTEKDLTLEEVARIFGITRERIQQIEKKAIGKLKNRMDK 276 >gi|162452723|ref|YP_001615090.1| RNA polymerase sigma factor RpoD [Sorangium cellulosum 'So ce 56'] gi|161163305|emb|CAN94610.1| RNA polymerase sigma factor RpoD [Sorangium cellulosum 'So ce 56'] Length = 639 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 124/238 (52%), Gaps = 18/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 401 AKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 460 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R +L PE+ IA+K+ + Sbjct: 461 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQEYGREPTPEE---IAEKMEL 515 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ ++ S D++ +++ +I E N+ Sbjct: 516 PLDKVRKV-LKIA-KEPISLETPIGEEEDSHLGDFI------EDKSVISPAEAVINMNLA 567 Query: 229 TRS---MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ + L PRE ++ R +++ TLE + +FEV+RER+RQIEA+A +K++ Sbjct: 568 EQTRKVLKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLR 625 >gi|323342093|ref|ZP_08082326.1| DNA-directed RNA polymerase sigma subunit RpoD [Erysipelothrix rhusiopathiae ATCC 19414] gi|322464518|gb|EFY09711.1| DNA-directed RNA polymerase sigma subunit RpoD [Erysipelothrix rhusiopathiae ATCC 19414] Length = 459 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/252 (31%), Positives = 120/252 (47%), Gaps = 35/252 (13%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 + L A L++++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +T Sbjct: 214 YDGLEARRILISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFST 273 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNL-RRLKGHLQAITDNN 153 Y+ WWI+ A+ I ++I T Q+ L L R A N Sbjct: 274 YATWWIRQAITRAIADQARTIRIPVHMVETINKLTRIQRSLVQTLGREPTAEEIAAEMEN 333 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + PE+V I K + +S+ + D L I +D L D Sbjct: 334 ITPEKVREIQK----IALDPVSLETPIGEEDDSHLGDFIED--------KDALSPDEYAN 381 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERV 269 Q+L KEE K + L RE ++ R E+ TLE + EF V+RER+ Sbjct: 382 NQLL--KEEIK-------MVLEGLTEREEKVLRLRFGLEDGRTRTLEEVGKEFNVTRERI 432 Query: 270 RQIEARAFKKVQ 281 RQIEA+A +K++ Sbjct: 433 RQIEAKALRKLK 444 >gi|170782897|ref|YP_001711231.1| RNA polymerase principal sigma factor HrdD [Clavibacter michiganensis subsp. sepedonicus] gi|169157467|emb|CAQ02657.1| RNA polymerase principal sigma factor HrdD [Clavibacter michiganensis subsp. sepedonicus] Length = 347 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/291 (25%), Positives = 136/291 (46%), Gaps = 35/291 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLSAAHR---------------- 52 Y+ +I ++P+L + E +A+R DL+ A R Sbjct: 54 YLRQIGRVPLLTAELEVSVARRIEVGVLSQEVLDTRTDLTPAERREYQTLAQDGMRAKQH 113 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y G GLP +++ EGN+GL++AV+KFD + GF+ +TY+ WWIK + Sbjct: 114 LVNANLRLVVSIAKRYTGRGLPFLDLIQEGNMGLVRAVEKFDYQAGFKFSTYASWWIKQS 173 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + ++I + ++ R+ + + D + + IA++ + ++ Sbjct: 174 ITRGMADTSRTIRIPVHTVE-----HINRINAVQRELGDELGRDPSMEEIARESDTPVTK 228 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 V + R SL L+ S + L+ D D + + + ++ +TR + Sbjct: 229 VRYLLDRAQEPMSLQVLVGGSGGDGDTEMADLIEDADVTQPIDVVTQQLMAAH--VTRLI 286 Query: 233 SVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R+ + R P +L +S + V+RERVRQIE + K++ Sbjct: 287 DGLAERDAEVVRMRFGLAGLEPRSLAFVSQQLGVTRERVRQIEKKVLAKLR 337 >gi|59712861|ref|YP_205637.1| RNA polymerase sigma factor RpoD [Vibrio fischeri ES114] gi|59480962|gb|AAW86749.1| RNA polymerase, sigma-70 (sigma-D) factor [Vibrio fischeri ES114] Length = 613 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 435 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLELPVDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 STSLKFATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 597 KLRHPSRSEV 606 >gi|296090195|emb|CBI40014.3| unnamed protein product [Vitis vinifera] Length = 575 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 129/250 (51%), Gaps = 24/250 (9%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R + + +++ S++RLV+ IA Y+G G+ I ++V EG GL++ +KFD +GF Sbjct: 328 RRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKGF 387 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL-----RRLKGHLQAITDNNL 154 + +TY+ WWIK A+++ + + RL F++ R + Q ++N Sbjct: 388 KFSTYAHWWIKQAVRK---------SLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGR 438 Query: 155 KP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 P + VA A L++ + + + IN + K S D D + E+ Sbjct: 439 HPNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEVIAD---PDAETAEE 495 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQ 271 +LI++ R++ L + ++ LNPRE+++ R E+ TL+ + VSRER+RQ Sbjct: 496 LLIKQFMRED----LEKVLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQ 551 Query: 272 IEARAFKKVQ 281 IE+ AF+K++ Sbjct: 552 IESCAFRKLK 561 >gi|323697926|ref|ZP_08109838.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio sp. ND132] gi|323457858|gb|EGB13723.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio desulfuricans ND132] Length = 583 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/240 (28%), Positives = 120/240 (50%), Gaps = 12/240 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ Sbjct: 343 MQAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 402 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++I + L R +L + PE+ IA+++ Sbjct: 403 WWIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGRDPSPEE---IAERM 457 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E + ++A E ++ D+ S D++ D + E+ Sbjct: 458 DYP-LEKVKKVLKIAK-EPISLETPIGDEEDSSLGDFI---EDKKATAPAEEVVSTKLSE 512 Query: 227 MLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +S L PRE ++ R +++ TLE + F V+RER+RQIEA+A +K++ + Sbjct: 513 QIASVLSDLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPV 572 >gi|282862331|ref|ZP_06271393.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] gi|282562670|gb|EFB68210.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] Length = 515 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 222 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 280 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 281 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 340 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 341 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 400 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 401 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 446 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 447 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 499 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 500 KLRHPSRSQV 509 >gi|290956933|ref|YP_003488115.1| major vegetative sigma factor HrdB [Streptomyces scabiei 87.22] gi|260646459|emb|CBG69556.1| major vegetative sigma factor HrdB [Streptomyces scabiei 87.22] Length = 516 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 223 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 281 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 282 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 341 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 342 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 401 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 402 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 447 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 448 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 500 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 501 KLRHPSRSQV 510 >gi|56461300|ref|YP_156581.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina loihiensis L2TR] gi|56180310|gb|AAV83032.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina loihiensis L2TR] Length = 609 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 122/243 (50%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 371 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 430 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + + PE Sbjct: 431 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMMMPED-- 488 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + I+ Sbjct: 489 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLDLPIDSAT 532 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ RN + + L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 533 SESLRNSVRDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 592 Query: 279 KVQ 281 K++ Sbjct: 593 KLR 595 >gi|152978401|ref|YP_001344030.1| RNA polymerase sigma factor RpoD [Actinobacillus succinogenes 130Z] gi|150840124|gb|ABR74095.1| RNA polymerase, sigma 70 subunit, RpoD [Actinobacillus succinogenes 130Z] Length = 623 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/279 (27%), Positives = 138/279 (49%), Gaps = 24/279 (8%) Query: 16 LSRYIHEIR-KIPMLE--KQEEYVLAKRYREHGDL---------SAAHRLVTSHLRLVVK 63 L++Y IR I L+ +QE ++ ++ R GD A +V ++LRLV+ Sbjct: 340 LAKYADNIRASIARLQNLEQEAHLTIEQIRNIGDRISQGELKARRAKKEMVEANLRLVIS 399 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 400 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 459 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + L R+ PE+ +A+++ + E ++ + ++A Sbjct: 460 IRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGMPEDKIRKV-LKIAK- 512 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E ++ D + S D++ D ++ ++ ++ + + L PRE ++ Sbjct: 513 EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKVATHEVLEGLTPREAKVL 569 Query: 244 EAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 570 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608 >gi|239991260|ref|ZP_04711924.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] Length = 515 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 222 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 280 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 281 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 340 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 341 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 400 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 401 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 446 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 447 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 499 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 500 KLRHPSRSQV 509 >gi|158341157|ref|YP_001522480.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] gi|158311398|gb|ABW33009.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 274 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/277 (27%), Positives = 137/277 (49%), Gaps = 29/277 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI + P+L +EE +LA++ G+L A RL+ +LRLVV IA ++ GLP+ Sbjct: 8 LHFYLKEIARYPILSHEEEILLARQVNA-GNLRAKQRLIECNLRLVVSIAKKHQNRGLPL 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EG+IGL AV KFD +G R +TY+ WWI+ V A + + Sbjct: 67 QDLIQEGSIGLSNAVDKFDLAQGCRFSTYAYWWIRQG-----------VTAALRAKSRPI 115 Query: 136 FFN------LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + + ++K H + + + + +AK N+ + + IS L Sbjct: 116 YLPQYQWEMISKIKKHFRELNQQLGREPSLSELAKATNL-KPKTISRTLHLFQK------ 168 Query: 190 INSSDKN-SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 ++S D+ Q +D L+ G++Q + E + L++ M+ L+ RE+ + R Sbjct: 169 VSSLDQPVGHQQKDTLLDLMAGEDQPTLYLESLQ-LDEQLSQVMAHLDKREQFVLSQRFG 227 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E+ P ++ + + +SRE +R I + KK+Q++ Sbjct: 228 LEDDQPKSMREIGEQIGLSREGIRLILNKIMKKLQKN 264 >gi|297202863|ref|ZP_06920260.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] gi|297148238|gb|EDY59236.2| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] Length = 512 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 219 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 277 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 278 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 337 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 338 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 397 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 398 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 443 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 444 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 496 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 497 KLRHPSRSQV 506 >gi|320008126|gb|ADW02976.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces flavogriseus ATCC 33331] Length = 515 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 222 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 280 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 281 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 340 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 341 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 400 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 401 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 446 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 447 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 499 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 500 KLRHPSRSQV 509 >gi|311086952|gb|ADP67032.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] Length = 612 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 124/242 (51%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +++K+ + Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEIGREPTPEE---LSEKMLI 488 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R+ Sbjct: 489 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDTTLELPLDSATSESLRSAT 543 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +S L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ + Sbjct: 544 HDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 603 Query: 287 QV 288 +V Sbjct: 604 EV 605 >gi|302537370|ref|ZP_07289712.1| RNA polymerase, subunit sigma [Streptomyces sp. C] gi|302446265|gb|EFL18081.1| RNA polymerase, subunit sigma [Streptomyces sp. C] Length = 526 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 81/323 (25%), Positives = 145/323 (44%), Gaps = 64/323 (19%) Query: 8 IIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS----------------- 48 ++V G + Y+ +I K+P+L ++E LAKR E G + Sbjct: 220 VVVAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRE 278 Query: 49 ----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G Sbjct: 279 LEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKG 338 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAI 149 ++ +TY+ WWI+ A+ + ++I Q+++ +L R + Sbjct: 339 YKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELA 398 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYD 207 + ++ PE+V+ + K E IS++ L GD LI S+ V Sbjct: 399 KELDMTPEKVIEVQK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVP 445 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVS 265 D L++++ L + L+ RE + R P TL+ + + V+ Sbjct: 446 ADAVSFTLLQEQ--------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVT 497 Query: 266 RERVRQIEARAFKKVQESIQKQV 288 RER+RQIE++ K++ + QV Sbjct: 498 RERIRQIESKTMSKLRHPSRSQV 520 >gi|15616680|ref|NP_239892.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219681437|ref|YP_002467822.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|257471112|ref|ZP_05635111.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] gi|11134512|sp|P57163|RPOD_BUCAI RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|25288437|pir||B84936 RNA polymerase sigma factor rpoD [imported] - Buchnera sp. (strain APS) gi|10038743|dbj|BAB12778.1| RNA polymerase sigma factor rpoD [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219624280|gb|ACL30435.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] Length = 612 Score = 91.7 bits (226), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 124/242 (51%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +++K+ + Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEIGREPTPEE---LSEKMLI 488 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R+ Sbjct: 489 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDTTLELPLDSATSESLRSAT 543 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +S L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ + Sbjct: 544 HDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 603 Query: 287 QV 288 +V Sbjct: 604 EV 605 >gi|328885546|emb|CCA58785.1| RNA polymerase sigma factor RpoD [Streptomyces venezuelae ATCC 10712] Length = 567 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 274 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 332 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 333 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 392 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 393 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 452 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 453 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 498 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 499 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 551 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 552 KLRHPSRSQV 561 >gi|224418172|ref|ZP_03656178.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|253827499|ref|ZP_04870384.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|313141707|ref|ZP_07803900.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|253510905|gb|EES89564.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|313130738|gb|EFR48355.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] Length = 616 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/246 (28%), Positives = 124/246 (50%), Gaps = 14/246 (5%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR ++ D A ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G Sbjct: 368 KRGKDIAD-RAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKG 426 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + + R+ ++ K Sbjct: 427 YKFSTYATWWIRQAISRAIADQARTIRIPI-----HMIETINRINKIMRKYLQEEGKEPD 481 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + IA+++ + +V ++ SL A I + + ++ D++ D +E Sbjct: 482 IDKIAEEVGLPVDKVKNVIKITKEPISLEAPIGNGE--DGKFGDFV---EDKGSVGPMES 536 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 +++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 537 ILKEDLKEQIDDVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESS 596 Query: 276 AFKKVQ 281 A KK++ Sbjct: 597 AIKKLK 602 >gi|302522320|ref|ZP_07274662.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] gi|302431215|gb|EFL03031.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] Length = 514 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 221 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLQRELEIIAEDGRRAKN 279 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 280 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 339 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 340 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 399 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 400 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 445 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 446 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 498 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 499 KLRHPSRSQV 508 >gi|298500963|ref|ZP_07010764.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MAK 757] gi|297540211|gb|EFH76271.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MAK 757] Length = 233 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 122/238 (51%), Gaps = 30/238 (12%) Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 +VKI+ Y L + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ Sbjct: 1 MVKISRRYSNRRLTLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQ 60 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESE 172 +++ K L LR + L D+ PE++ + K L ++E Sbjct: 61 TRTIRLPIHV-VKELNIYLRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNER- 117 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + S++ + GD AL++ + + ++ D D +E +L +E Sbjct: 118 ISSVDTPIGGDGD-KALLDILPDSHNADPEFSTQDDDIRESLLNWLDE------------ 164 Query: 233 SVLNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LNP+++ + ARR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 165 --LNPKQKEVL-ARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 219 >gi|297156708|gb|ADI06420.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1] Length = 515 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 222 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 280 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 281 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 340 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 341 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 400 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 401 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 446 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 447 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 499 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 500 KLRHPSRSQV 509 >gi|323154963|gb|EFZ41155.1| RNA polymerase sigma factor rpoS domain protein [Escherichia coli EPECa14] Length = 148 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 43/89 (48%), Positives = 63/89 (70%), Gaps = 1/89 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMW 107 + EGN+GL++AV+KFDPERGFR +TY+ W Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYATW 148 >gi|90407543|ref|ZP_01215725.1| RNA polymerase sigma factor RpoD [Psychromonas sp. CNPT3] gi|90311353|gb|EAS39456.1| RNA polymerase sigma factor RpoD [Psychromonas sp. CNPT3] Length = 610 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 121/243 (49%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKG---HLQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G H + + + PE Sbjct: 432 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRDPHPDELAERMMMPED-- 489 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + ++ Sbjct: 490 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTIALPVDCAT 533 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ +N + L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 534 SESLKNATNEVLEGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 593 Query: 279 KVQ 281 K++ Sbjct: 594 KLR 596 >gi|262369385|ref|ZP_06062713.1| DNA-directed RNA polymerase [Acinetobacter johnsonii SH046] gi|262315453|gb|EEY96492.1| DNA-directed RNA polymerase [Acinetobacter johnsonii SH046] Length = 628 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K L +++ E ISM + DE L I S+ S ++ Sbjct: 507 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSNITSP-----------------VDA 548 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A Sbjct: 549 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 608 Query: 277 FKKVQ 281 +K++ Sbjct: 609 LRKLR 613 >gi|206603677|gb|EDZ40157.1| RNA polymerase, sigma 38 subunit, RpoS [Leptospirillum sp. Group II '5-way CG'] Length = 598 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RGF+ +TY+ WW Sbjct: 360 AKAELIKANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGFKFSTYATWW 419 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R HL PE+ +AK++ + Sbjct: 420 IRQAITRAIADQARTIRI--PVHMIETINKLIRTTRHLVQELGREPLPEE---LAKEMQM 474 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E + ++A E ++ ++ S D++ D + I+ R + + Sbjct: 475 P-VEKVRRVLKIA-REPISLETPIGEEEDSHLGDFI---EDKKSISPIDSAVRYDLVRKI 529 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +++S L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 530 GKALSSLTEREEKVIRLRFGVGESTDHTLEEVGQDFDVTRERIRQIEAKALRKLR 584 >gi|332974186|gb|EGK11120.1| DNA-directed RNA polymerase sigma subunit RpoD [Psychrobacter sp. 1501(2011)] Length = 624 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 114/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 502 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D +E Sbjct: 503 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQTISSPVEDAT 546 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + +S L RE ++ R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 547 SAGLQEATRDVLSNLTEREAKVLRMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 606 Query: 279 KVQ 281 K++ Sbjct: 607 KLR 609 >gi|238924709|ref|YP_002938225.1| RNA polymerase sigma factor RpoD [Eubacterium rectale ATCC 33656] gi|238876384|gb|ACR76091.1| RNA polymerase sigma factor RpoD [Eubacterium rectale ATCC 33656] Length = 434 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 122/244 (50%), Gaps = 30/244 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A RL ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD ++G++ +TY+ W Sbjct: 196 DAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATW 255 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ A+ I ++I T N+ ++L L R + + N+ E+ Sbjct: 256 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAKEMNMPVER 315 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V I L +S+ E +S+ + +E + D N D + L+++ Sbjct: 316 VREI---LKISQ-EPVSLETPIGEEEDSHLGDFIKDDNVPVPADAAAF-------TLLKE 364 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 + L + L RE+++ R E+ TLE + EF V+RER+RQIEA+A Sbjct: 365 Q--------LEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKA 416 Query: 277 FKKV 280 +K+ Sbjct: 417 LRKL 420 >gi|219681993|ref|YP_002468377.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|219621726|gb|ACL29882.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] Length = 612 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 124/242 (51%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +++K+ + Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEIGREPTPEE---LSEKMLI 488 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R+ Sbjct: 489 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDTTLELPLDSATSESLRSAT 543 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +S L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ + Sbjct: 544 HDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 603 Query: 287 QV 288 +V Sbjct: 604 EV 605 >gi|153306|gb|AAA26763.1| principal sigma-like factor [Streptomyces aureofaciens] gi|450078|prf||1920369B RNA polymerase:SUBUNIT=sigma Length = 525 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 81/323 (25%), Positives = 145/323 (44%), Gaps = 64/323 (19%) Query: 8 IIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS----------------- 48 ++V G + Y+ +I K+P+L ++E LAKR E G + Sbjct: 219 VVVAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRE 277 Query: 49 ----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G Sbjct: 278 LEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKG 337 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAI 149 ++ +TY+ WWI+ A+ + ++I Q+++ +L R + Sbjct: 338 YKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELA 397 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYD 207 + ++ PE+V+ + K E IS++ L GD LI S+ V Sbjct: 398 KELDMTPEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVP 444 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVS 265 D L++++ L + L+ RE + R P TL+ + + V+ Sbjct: 445 ADAVSFTLLQEQ--------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVT 496 Query: 266 RERVRQIEARAFKKVQESIQKQV 288 RER+RQIE++ K++ + QV Sbjct: 497 RERIRQIESKTMSKLRHPSRSQV 519 >gi|311085799|gb|ADP65881.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] gi|311086374|gb|ADP66455.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. TLW03 (Acyrthosiphon pisum)] Length = 612 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 124/242 (51%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +++K+ + Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEIGREPTPEE---LSEKMLI 488 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R+ Sbjct: 489 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDTTLELPLDSATSESLRSAT 543 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +S L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ + Sbjct: 544 HDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 603 Query: 287 QV 288 +V Sbjct: 604 EV 605 >gi|297562250|ref|YP_003681224.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296846698|gb|ADH68718.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 571 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 80/311 (25%), Positives = 141/311 (45%), Gaps = 63/311 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------------------------EHGDLSAA 50 Y+ +I K+P+L ++E LAKR E G + Sbjct: 277 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEEKLAEEAELLTVELRDELEWIAEDGGRAKK 336 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 337 H-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIR 395 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + ++ PE+VV Sbjct: 396 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELARELDMTPEKVVE 455 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI D + Q + + + L++++ Sbjct: 456 VQKYGR----EPISLHTPLGEDGDSEFGDLIE--DSEAIQPGEAVSF-------TLLQEQ 502 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 503 --------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTM 554 Query: 278 KKVQESIQKQV 288 K++ + QV Sbjct: 555 SKLRHPSRSQV 565 >gi|315502644|ref|YP_004081531.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Micromonospora sp. L5] gi|315409263|gb|ADU07380.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Micromonospora sp. L5] Length = 551 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 80/304 (26%), Positives = 145/304 (47%), Gaps = 46/304 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL------------------------- 53 Y+ +I K+P+L ++E LAKR E G L AA RL Sbjct: 254 YLKQIGKVPLLNAEQEVELAKRI-EAG-LYAAERLRAADEGEEKLVRDLQRDLMWISRDG 311 Query: 54 -------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ Sbjct: 312 ERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYAT 371 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ + ++I + + L R++ L PE+ +AK++ Sbjct: 372 WWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAKEM 426 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ +V+ + SL+ I D+ SQ D++ D + V ++ ++ Sbjct: 427 DITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFSLLQD 481 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + + L+ RE + R P TL+ + + V+RER+RQIE++ K++ Sbjct: 482 QLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPS 541 Query: 285 QKQV 288 + QV Sbjct: 542 RSQV 545 >gi|209527735|ref|ZP_03276230.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209491813|gb|EDZ92173.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 332 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/300 (23%), Positives = 141/300 (47%), Gaps = 52/300 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL------------------------------- 47 Y+HEI ++P+L ++EE + K+ ++ L Sbjct: 28 YLHEIGRVPLLTREEEIIYGKKVQQMMSLLEMRDELTKELDHDPTAAEWSAKAGLSESEM 87 Query: 48 --------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG+ Sbjct: 88 TEIMNRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGY 147 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I ++ +++ +K ++R++ L N P + Sbjct: 148 KFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEK--LNKIKRVQRELFQQYGRNATPTE- 204 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK L++ S++ + LA ++ + D ++ QD L + + + ++ Sbjct: 205 --IAKALDLEPSQI--RDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADNYVTQQL 260 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR-LQENP-VTLENLSSEFEVSRERVRQIEARAF 277 R++ +++ M+ L P++R + R L + ++L + +SRERVRQ+E +A Sbjct: 261 LRQDLKDL----MADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQAL 316 >gi|254447663|ref|ZP_05061129.1| RNA polymerase, sigma 70 subunit, RpoD [gamma proteobacterium HTCC5015] gi|198263006|gb|EDY87285.1| RNA polymerase, sigma 70 subunit, RpoD [gamma proteobacterium HTCC5015] Length = 602 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 117/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 364 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 423 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 424 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEE---LAERMEM 478 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D+L D + IE + Sbjct: 479 PEDKVRKV-LKIAK-EPISMETPVGDDEDSSLGDFL---QDVNAESPIEAAVGEGLSEST 533 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 534 RDILAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 587 >gi|197335189|ref|YP_002157048.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio fischeri MJ11] gi|197316679|gb|ACH66126.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio fischeri MJ11] Length = 613 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 435 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLELPVDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 STSLKFATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 597 KLRHPSRSEV 606 >gi|148653373|ref|YP_001280466.1| RNA polymerase, sigma 70 subunit, RpoD [Psychrobacter sp. PRwf-1] gi|148572457|gb|ABQ94516.1| RNA polymerase, sigma 70 subunit, RpoD [Psychrobacter sp. PRwf-1] Length = 623 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 114/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 384 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 443 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 444 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 501 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D +E Sbjct: 502 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQTISSPVEDAT 545 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + +S L RE ++ R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 546 SAGLQEATRDVLSNLTEREAKVLRMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 605 Query: 279 KVQ 281 K++ Sbjct: 606 KLR 608 >gi|291279867|ref|YP_003496702.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] gi|290754569|dbj|BAI80946.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] Length = 598 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 122/249 (48%), Gaps = 40/249 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV+KF+ RG++ +TY+ WW Sbjct: 361 AKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYRRGYKFSTYATWW 420 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQV----- 159 I+ ++ I ++I T N ++ +R+L+ L PE++ Sbjct: 421 IRQSITRAIADQARTIRIPVHMIETIN--KMIRTIRQLQIELG----KEPTPEEIAERMD 474 Query: 160 --VAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 V KK+ E +S+ + DE SL I D+++ D +VY+ + Sbjct: 475 IPVEKVKKVLKIAKEPVSLETPIGEDEDSSLGDFI--EDQSAKNPLDEVVYEKLKEH--- 529 Query: 216 IEKEERKNRRNMLTRS-MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 TR+ + L PRE + R ++ TLE + F V+RER+RQI Sbjct: 530 -------------TRAILDTLTPREASVLRLRFGIDCDSDHTLEEVGRRFNVTRERIRQI 576 Query: 273 EARAFKKVQ 281 EA+A +K++ Sbjct: 577 EAKALRKLR 585 >gi|302866088|ref|YP_003834725.1| RNA polymerase sigma factor RpoD [Micromonospora aurantiaca ATCC 27029] gi|302568947|gb|ADL45149.1| RNA polymerase sigma factor RpoD [Micromonospora aurantiaca ATCC 27029] Length = 551 Score = 91.3 bits (225), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 80/304 (26%), Positives = 145/304 (47%), Gaps = 46/304 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL------------------------- 53 Y+ +I K+P+L ++E LAKR E G L AA RL Sbjct: 254 YLKQIGKVPLLNAEQEVELAKRI-EAG-LYAAERLRAADEGEEKLVRDLQRDLMWISRDG 311 Query: 54 -------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ Sbjct: 312 ERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYAT 371 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ + ++I + + L R++ L PE+ +AK++ Sbjct: 372 WWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAKEM 426 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ +V+ + SL+ I D+ SQ D++ D + V ++ ++ Sbjct: 427 DITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFSLLQD 481 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + + L+ RE + R P TL+ + + V+RER+RQIE++ K++ Sbjct: 482 QLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPS 541 Query: 285 QKQV 288 + QV Sbjct: 542 RSQV 545 >gi|281423630|ref|ZP_06254543.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] gi|299141293|ref|ZP_07034430.1| RNA polymerase sigma-70 factor [Prevotella oris C735] gi|281402182|gb|EFB33013.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] gi|298577253|gb|EFI49122.1| RNA polymerase sigma-70 factor [Prevotella oris C735] Length = 290 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/275 (26%), Positives = 136/275 (49%), Gaps = 18/275 (6%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + P++ EE LA++ ++ G A +LVT++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGRAPLISIDEEIELAQKIKKGGRDGERAKEKLVTANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE---SLNAL 189 +L ++ + + + ++ + E ++ + L D S++A Sbjct: 135 ---VGSLNKINREINKFEQEFQRKPSLAELSSATKIEEEKI---DQSLMADSHHVSIDAP 188 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRL 248 + NS D + D + ++ E + R VL RE I E + Sbjct: 189 FQEGEDNS--MVDVMAGGEDSRTDKQVDHESMALELESVLR--KVLKDREITIIRECFGI 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + LE + + ++RERVRQI ++ K+++S Sbjct: 245 GCHEKGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|294651232|ref|ZP_06728560.1| RNA polymerase sigma factor RpoD [Acinetobacter haemolyticus ATCC 19194] gi|292822885|gb|EFF81760.1| RNA polymerase sigma factor RpoD [Acinetobacter haemolyticus ATCC 19194] Length = 626 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 504 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K L +++ E ISM + DE L I S+ S ++ Sbjct: 505 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSNITSP-----------------VDA 546 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A Sbjct: 547 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 606 Query: 277 FKKVQ 281 +K++ Sbjct: 607 LRKLR 611 >gi|254391058|ref|ZP_05006266.1| RNA polymerase principal sigma factor hrdB [Streptomyces clavuligerus ATCC 27064] gi|197704753|gb|EDY50565.1| RNA polymerase principal sigma factor hrdB [Streptomyces clavuligerus ATCC 27064] Length = 514 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 221 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 279 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 280 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 339 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 340 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 399 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 400 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 445 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 446 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 498 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 499 KLRHPSRSQV 508 >gi|116670178|ref|YP_831111.1| RNA polymerase, sigma 28 subunit [Arthrobacter sp. FB24] gi|116610287|gb|ABK03011.1| RNA polymerase, sigma 70 subunit, RpoD [Arthrobacter sp. FB24] Length = 441 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/275 (26%), Positives = 131/275 (47%), Gaps = 40/275 (14%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L+++ E+V+ H A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 188 PKLKRELEFVI------HDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGL 241 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFF 137 ++AV+KFD +GF+ +TY+ WWI+ A+ + ++I Q+++ Sbjct: 242 IRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQ 301 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDK 195 +L R + + ++ PE+VV + K E IS++ L GD LI S+ Sbjct: 302 DLGREPTPEELALELDMTPEKVVEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA 357 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPV 253 V D L++++ L + L+ RE + R P Sbjct: 358 ---------VVPADAVSFTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPK 400 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 401 TLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 435 >gi|119717187|ref|YP_924152.1| RNA polymerase sigma factor [Nocardioides sp. JS614] gi|119537848|gb|ABL82465.1| RNA polymerase, sigma 70 subunit, RpoD [Nocardioides sp. JS614] Length = 495 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/309 (25%), Positives = 140/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLSAA----------------HR 52 Y+ +I K+P+L + E LAKR + G LSA + Sbjct: 202 YLKQIGKVPLLNAEMEVELAKRIEAGLFSEEKLGKGGKLSAKVSEELEWIAEDGRRAKNH 261 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 262 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 321 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 322 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQ 381 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ + D L++++ Sbjct: 382 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------IVPADAVSFTLLQEQ-- 426 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 427 ------LHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 480 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 481 LRHPSRSQV 489 >gi|330466485|ref|YP_004404228.1| RNA polymerase sigma factor [Verrucosispora maris AB-18-032] gi|328809456|gb|AEB43628.1| RNA polymerase sigma factor [Verrucosispora maris AB-18-032] Length = 535 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 80/304 (26%), Positives = 145/304 (47%), Gaps = 46/304 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL------------------------- 53 Y+ +I K+P+L ++E LAKR E G L AA RL Sbjct: 238 YLKQIGKVPLLNAEQEVELAKRI-EAG-LYAAERLRAAEEGEEKLARDMQRDLLWISRDG 295 Query: 54 -------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ Sbjct: 296 ERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYAT 355 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ + ++I + + L R++ L PE+ +AK++ Sbjct: 356 WWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAKEM 410 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ +V+ + SL+ I D+ SQ D++ D + V ++ ++ Sbjct: 411 DITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFSLLQD 465 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + + L+ RE + R P TL+ + + V+RER+RQIE++ K++ Sbjct: 466 QLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPS 525 Query: 285 QKQV 288 + QV Sbjct: 526 RSQV 529 >gi|257092101|ref|YP_003165742.1| RNA polymerase sigma factor RpoD [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257044625|gb|ACV33813.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 648 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 114/235 (48%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 407 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 466 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T P +AKK+ + Sbjct: 467 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGLEADP---ATLAKKMEM 521 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E E I +++ E ++ D + S D++ D E + R + Sbjct: 522 PE-EKIRKILKISK-EPISMETPIGDDDDSHLGDFI---EDHATLAPTEAALYSSLRFIT 576 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 577 KDVLDTLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 631 >gi|329940007|ref|ZP_08289289.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329300833|gb|EGG44729.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 512 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 219 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLASADKLAPKLKRELEIIAEDGRRAKN 277 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 278 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 337 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 338 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 397 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 398 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 443 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 444 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 496 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 497 KLRHPSRSQV 506 >gi|302542036|ref|ZP_07294378.1| RNA polymerase sigma (70) factor RpoD [Streptomyces hygroscopicus ATCC 53653] gi|302459654|gb|EFL22747.1| RNA polymerase sigma (70) factor RpoD [Streptomyces himastatinicus ATCC 53653] Length = 502 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 209 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 267 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 268 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 327 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 328 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 387 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 388 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 433 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 434 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 486 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 487 KLRHPSRSQV 496 >gi|226357433|ref|YP_002787172.1| RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] gi|226319423|gb|ACO47418.1| putative RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] Length = 363 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 81/303 (26%), Positives = 136/303 (44%), Gaps = 58/303 (19%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYR---------------------------EHGDLSAA 50 +Y+HEI ++P+L EE LA+R E G+ A Sbjct: 65 QYLHEIGRVPLLTVTEEIDLARRMEAGQEARTQLETEHELGERERRRLQRTVEDGE-HAK 123 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +L+ ++LRLVV IA Y G+ + +++ EGN GL++ +KF+ RGF+ +TY+ WWI+ Sbjct: 124 QQLIEANLRLVVSIAKKYANRGMGLLDLIQEGNQGLIRGAEKFEYRRGFKFSTYATWWIR 183 Query: 111 AAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ I ++I T N+ ++L L R H + Sbjct: 184 QAVNRAIADQARNIRIPVHMVETINKLNRTTRQLQMELSREPSHAET------------- 230 Query: 162 IAKKLNVSESEV-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 A+ + EV + RL D +++ D+ S D+L D + + + + Sbjct: 231 -AEAMGPGWDEVKVEETLRLTRD-TISLATPVGDEGDSSIADFLP---DDRRESPLSRVS 285 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 L R+++ L PRE + R E+ TLE + F V+RER+RQIE +A + Sbjct: 286 SVLMSEALDRTLATLEPREALVIRLRNGLEDGREHTLEEVGKHFGVTRERIRQIENKALR 345 Query: 279 KVQ 281 K++ Sbjct: 346 KIK 348 >gi|209696105|ref|YP_002264035.1| RNA polymerase sigma factor RpoD [Aliivibrio salmonicida LFI1238] gi|208010058|emb|CAQ80381.1| RNA polymerase sigma factor RpoD (sigma-70) [Aliivibrio salmonicida LFI1238] Length = 610 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 432 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 489 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 490 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLELPVDSAT 533 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 534 STSLKFATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 593 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 594 KLRHPSRSEV 603 >gi|226951573|ref|ZP_03822037.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter sp. ATCC 27244] gi|226837676|gb|EEH70059.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter sp. ATCC 27244] Length = 626 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 504 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K L +++ E ISM + DE L I S+ S ++ Sbjct: 505 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSNITSP-----------------VDA 546 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A Sbjct: 547 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 606 Query: 277 FKKVQ 281 +K++ Sbjct: 607 LRKLR 611 >gi|77920269|ref|YP_358084.1| RNA polymerase, sigma(70) factor [Pelobacter carbinolicus DSM 2380] gi|77546352|gb|ABA89914.1| RNA polymerase, sigma 70 subunit, RpoD [Pelobacter carbinolicus DSM 2380] Length = 588 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 123/251 (49%), Gaps = 44/251 (17%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ W Sbjct: 348 AAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATW 407 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL------QAITDNNLKP- 156 WI+ A+ I ++I T N +L R+L + + I + P Sbjct: 408 WIRQAITRAIADQARTIRIPVHMIETIN--KLIRTSRQLVQEMGREPVPEEIAERMELPL 465 Query: 157 ---EQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQ 211 +V+ IAK E IS+ + +E SL I DK + ++ Sbjct: 466 EKVRRVLKIAK-------EPISLETPIGEEEDSSLGDFIE--DKGVVSPLEAVI------ 510 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERV 269 + N + +R ++ L PRE ++ R +++ TLE + +F V+RER+ Sbjct: 511 ---------KGNLSDQTSRVLASLTPREEKVLRMRFGIGEKSDHTLEEVGQDFAVTRERI 561 Query: 270 RQIEARAFKKV 280 RQIEA+A +K+ Sbjct: 562 RQIEAKALRKL 572 >gi|32476381|ref|NP_869375.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH 1] gi|32446926|emb|CAD78832.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH 1] gi|327539012|gb|EGF25646.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica WH47] Length = 519 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 83/280 (29%), Positives = 134/280 (47%), Gaps = 27/280 (9%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDL-----SAAHRLVTSHLRLVVKIAMGYRGYGLP 74 +HE R+I ++ L R + G + A L +LRLVV IA YR GL Sbjct: 248 LHERRQILTACQETPTSLRNRVKMLGSVYSDYQQAKRELSEGNLRLVVSIAKKYRNRGLS 307 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG-----TT 129 +++ EGN GLM+AV KF+ RGF+ TY+ WWI+ A+ + ++I T Sbjct: 308 FLDLIQEGNAGLMRAVDKFEYRRGFKFCTYATWWIRQAITRAVADQSRTIRIPVHMVETM 367 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + + + L + G +I + + + + A+++ IS++ R G Sbjct: 368 SRVRNVARQLLQELGREPSIEETARRADVTIEEARRVLTMSRFPISLD-RPVG------- 419 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 NS D SQ+ D L Q+ +E + R +T + L+ RER I + R Sbjct: 420 -NSED---SQFGDLLPDGTAESPQIGATQEMLRQR---ITGVLKSLSYREREIIKLRYGL 472 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + TLE + F+V+RER+RQIEA+A +K+Q+ + Q Sbjct: 473 GDGYSYTLEEVGHIFKVTRERIRQIEAKAVRKLQQPSRSQ 512 >gi|302554625|ref|ZP_07306967.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302472243|gb|EFL35336.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 513 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 220 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 278 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 279 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 338 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 339 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 398 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 399 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 444 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 445 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 497 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 498 KLRHPSRSQV 507 >gi|159037077|ref|YP_001536330.1| RNA polymerase sigma factor [Salinispora arenicola CNS-205] gi|157915912|gb|ABV97339.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora arenicola CNS-205] Length = 532 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 80/304 (26%), Positives = 145/304 (47%), Gaps = 46/304 (15%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRL------------------------- 53 Y+ +I K+P+L ++E LAKR E G L AA RL Sbjct: 235 YLKQIGKVPLLNAEQEVELAKRI-EAG-LYAAERLRATEEGEEKLNRDMQRDLMWISRDG 292 Query: 54 -------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ Sbjct: 293 ERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYAT 352 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ + ++I + + L R++ L PE+ +AK++ Sbjct: 353 WWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQDLGREPTPEE---LAKEM 407 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +++ +V+ + SL+ I D+ SQ D++ D + V ++ ++ Sbjct: 408 DITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSFSLLQD 462 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + + L+ RE + R P TL+ + + V+RER+RQIE++ K++ Sbjct: 463 QLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPS 522 Query: 285 QKQV 288 + QV Sbjct: 523 RSQV 526 >gi|238786819|ref|ZP_04630620.1| RNA polymerase sigma factor rpoS [Yersinia frederiksenii ATCC 33641] gi|238725187|gb|EEQ16826.1| RNA polymerase sigma factor rpoS [Yersinia frederiksenii ATCC 33641] Length = 306 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 75/277 (27%), Positives = 123/277 (44%), Gaps = 51/277 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+RY GL + ++ Sbjct: 63 YLGEIGYSPLLTAEEEVYFARRYSNR---------------------------GLALLDL 95 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 + EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 96 IEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 155 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 156 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 212 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+N + +D D Q V E +R +L R +L +EA Sbjct: 213 ILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 261 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 262 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQ 296 >gi|318059566|ref|ZP_07978289.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actG] gi|318075441|ref|ZP_07982773.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] Length = 446 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 153 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLQRELEIIAEDGRRAKN 211 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 212 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 271 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 272 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 331 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 332 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 377 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 378 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 430 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 431 KLRHPSRSQV 440 >gi|261377614|ref|ZP_05982187.1| RNA polymerase sigma factor RpoD [Neisseria cinerea ATCC 14685] gi|269146367|gb|EEZ72785.1| RNA polymerase sigma factor RpoD [Neisseria cinerea ATCC 14685] Length = 642 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDSNNIAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|114564160|ref|YP_751674.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella frigidimarina NCIMB 400] gi|114335453|gb|ABI72835.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella frigidimarina NCIMB 400] Length = 614 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 538 SESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KVQ 281 K++ Sbjct: 598 KLR 600 >gi|159897807|ref|YP_001544054.1| RNA polymerase, sigma 32 subunit, RpoH [Herpetosiphon aurantiacus ATCC 23779] gi|159890846|gb|ABX03926.1| RNA polymerase, sigma 32 subunit, RpoH [Herpetosiphon aurantiacus ATCC 23779] Length = 303 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 81/301 (26%), Positives = 142/301 (47%), Gaps = 56/301 (18%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVL--------------AKRYREHGDLS------------ 48 GL RY++EI + P+L +EE L A R + Sbjct: 14 GLQRYLNEIAETPLLAAEEEQKLTQIVHVARQAQPTPACRIERCPSCALFEQCVTKLKEP 73 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA YRG+GLP +++ EGNIGLM A+++FD +G R +TY+ WW Sbjct: 74 AHEQLVRANLRLVVSIAKRYRGFGLPFQDLIQEGNIGLMNAIERFDATKGVRFSTYATWW 133 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAITDNNLKPEQVVAIAKKLN 167 I+ A+ + L+++ ++ L +RR++ LQA+ E I+ L Sbjct: 134 IRQAITRSLANQGRLIRL--PVHRWELLIKVRRIETKLLQALGREPSANE----ISTALG 187 Query: 168 VSESEV--------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V E ++ + ++ +E + L+ S + W+D L + L+ Sbjct: 188 VPEEKICDLLSIAQVPISLATPKNEETDMLLGDSLPDED-WEDEL--------ECLLTSI 238 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARAF 277 + + R ML + L+ +E+ + R L++ +L + + +R+R++QIEA A Sbjct: 239 DAQYTRAMLNQ----LSEQEQEVLTLRYGLKDGKSRSLSEVGAVVGRTRQRIQQIEAGAL 294 Query: 278 K 278 + Sbjct: 295 Q 295 >gi|294631847|ref|ZP_06710407.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] gi|292835180|gb|EFF93529.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] Length = 515 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 222 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 280 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 281 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 340 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 341 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 400 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 401 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 446 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 447 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 499 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 500 KLRHPSRSQV 509 >gi|291526136|emb|CBK91723.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium rectale DSM 17629] gi|291527130|emb|CBK92716.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium rectale M104/1] Length = 418 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 122/244 (50%), Gaps = 30/244 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A RL ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD ++G++ +TY+ W Sbjct: 180 DAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATW 239 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ A+ I ++I T N+ ++L L R + + N+ E+ Sbjct: 240 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAKEMNMPVER 299 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V I L +S+ E +S+ + +E + D N D + L+++ Sbjct: 300 VREI---LKISQ-EPVSLETPIGEEEDSHLGDFIKDDNVPVPADAAAF-------TLLKE 348 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 + L + L RE+++ R E+ TLE + EF V+RER+RQIEA+A Sbjct: 349 Q--------LEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKA 400 Query: 277 FKKV 280 +K+ Sbjct: 401 LRKL 404 >gi|239928504|ref|ZP_04685457.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 490 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 197 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 255 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 256 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 315 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 316 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 375 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 376 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 421 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 422 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 474 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 475 KLRHPSRSQV 484 >gi|29828986|ref|NP_823620.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29606091|dbj|BAC70155.1| RNA polymerase major sigma factor, sigma-70 family [Streptomyces avermitilis MA-4680] Length = 512 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 219 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 277 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 278 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 337 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 338 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 397 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 398 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 443 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 444 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 496 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 497 KLRHPSRSQV 506 >gi|294815528|ref|ZP_06774171.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294328127|gb|EFG09770.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 529 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 236 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 294 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 295 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 354 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 355 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 414 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 415 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 460 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 461 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 513 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 514 KLRHPSRSQV 523 >gi|124515193|gb|EAY56704.1| RNA polymerase, sigma 70 subunit, RpoD [Leptospirillum rubarum] Length = 598 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RGF+ +TY+ WW Sbjct: 360 AKAELIKANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGFKFSTYATWW 419 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R HL PE+ +AK++ + Sbjct: 420 IRQAITRAIADQARTIRI--PVHMIETINKLIRTTRHLVQELGREPLPEE---LAKEMQM 474 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E + ++A E ++ ++ S D++ D + I+ R + + Sbjct: 475 P-VEKVRRVLKIA-REPISLETPIGEEEDSHLGDFI---EDKKSISPIDSAVRYDLVRKI 529 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +++S L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 530 GKALSSLTEREEKVIRLRFGVGESTDHTLEEVGQDFDVTRERIRQIEAKALRKLR 584 >gi|116514979|ref|YP_802608.1| RNA polymerase major s factor [Buchnera aphidicola str. Cc (Cinara cedri)] gi|116256833|gb|ABJ90515.1| RNA polymerase major s factor [Buchnera aphidicola str. Cc (Cinara cedri)] Length = 613 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 122/236 (51%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +++K+ + Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEIGREPTPEE---LSEKMLI 488 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 SE E I ++A + S+ I D + D++ D ++ +E ++ + + Sbjct: 489 SE-EKIRKVLKIAKEPISMETPIGEDD--DTHLGDFI---EDTNLELPLESATSESLKTI 542 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 543 TNDVLSGLTDREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLR 598 >gi|50085952|ref|YP_047462.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter sp. ADP1] gi|49531928|emb|CAG69640.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter sp. ADP1] Length = 629 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 450 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 507 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K L +++ E ISM + DE L I S+ S ++ Sbjct: 508 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSNITSP-----------------VDA 549 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A Sbjct: 550 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 609 Query: 277 FKKVQ 281 +K++ Sbjct: 610 LRKLR 614 >gi|182435494|ref|YP_001823213.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326776131|ref|ZP_08235396.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] gi|11132962|sp|P77951|HRDB_STRGR RecName: Full=RNA polymerase principal sigma factor hrdB gi|1617256|gb|AAB16905.1| principal sigma factor [Streptomyces griseus] gi|178464010|dbj|BAG18530.1| RNA polymerase principal sigma factor hrdB [Streptomyces griseus subsp. griseus NBRC 13350] gi|326656464|gb|EGE41310.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] Length = 514 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 221 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 279 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 280 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 339 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 340 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 399 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 400 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 445 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 446 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 498 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 499 KLRHPSRSQV 508 >gi|291436829|ref|ZP_06576219.1| RNA polymerase sigma factor RpoD [Streptomyces ghanaensis ATCC 14672] gi|291339724|gb|EFE66680.1| RNA polymerase sigma factor RpoD [Streptomyces ghanaensis ATCC 14672] Length = 509 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 216 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 274 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 275 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 334 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 335 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 394 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 395 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 440 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 441 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 493 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 494 KLRHPSRSQV 503 >gi|269219424|ref|ZP_06163278.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces sp. oral taxon 848 str. F0332] gi|269211120|gb|EEZ77460.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces sp. oral taxon 848 str. F0332] Length = 592 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 84/313 (26%), Positives = 147/313 (46%), Gaps = 65/313 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----GDLSAA------------------- 50 Y+ +I K+P+L +EE LA+R Y +H G L A Sbjct: 296 YLKQIGKVPLLNAEEEVELARRIEAGLYAQHILESGSLDKAKDRMYMRELKLISRDGQQA 355 Query: 51 -HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI Sbjct: 356 KNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLVRAVEKFDFTKGFKFSTYATWWI 415 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + A+ + ++I + + L R+ Q + D +P + +AK+L+++ Sbjct: 416 RQAITRAMADQARTIRI--PVHMVEVINKLARV--QRQMLQDLGREP-TTIELAKELDMT 470 Query: 170 ESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 E +V IS++ L GD LI S+ V D L++ Sbjct: 471 EEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVGFTLLQ 521 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 ++ L + + L+ RE + R L + TL+ + + V+RER+RQIE++ Sbjct: 522 EQ--------LRQVLDTLSEREAGVVAMRFGLTDGQTKTLDEIGKVYGVTRERIRQIESK 573 Query: 276 AFKKVQESIQKQV 288 K++ + QV Sbjct: 574 TMSKLRHPSRSQV 586 >gi|262371919|ref|ZP_06065198.1| RNA polymerase sigma factor sigma-70 [Acinetobacter junii SH205] gi|262311944|gb|EEY93029.1| RNA polymerase sigma factor sigma-70 [Acinetobacter junii SH205] Length = 627 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 388 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 448 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 505 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K L +++ E ISM + DE L I S+ S ++ Sbjct: 506 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSNITSP-----------------VDA 547 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A Sbjct: 548 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 607 Query: 277 FKKVQ 281 +K++ Sbjct: 608 LRKLR 612 >gi|254672481|emb|CBA05947.1| RNA polymerase sigma factor 70 [Neisseria meningitidis alpha275] Length = 642 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|221633686|ref|YP_002522912.1| RNA polymerase sigma 70 subunit, RpoD [Thermomicrobium roseum DSM 5159] gi|221156620|gb|ACM05747.1| RNA polymerase sigma 70 subunit, RpoD [Thermomicrobium roseum DSM 5159] Length = 509 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/245 (28%), Positives = 120/245 (48%), Gaps = 13/245 (5%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +R R G+ +A +L ++LRLVV IA Y G GL + +++ EGN+GLM+AV KF +G Sbjct: 263 QRLRRDGE-AARRKLTEANLRLVVSIAKRYTGRGLTLLDLIQEGNLGLMRAVDKFQTHKG 321 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 F+ +TY+ WWI+ A+ + +++ L L R+ + +T + Sbjct: 322 FKFSTYATWWIRQAITRALADHARTIRLPV-----HLVETLNRVSRVARQLTQELGREPT 376 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 +A +N+ + + SL A + ++ S D+L D + ++ Sbjct: 377 TSELAAAVNMPLDRLRELLQAAQDPVSLEAPVGQEEE--STLGDFL---EDERAVAPLDA 431 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 R + ++ L RERR+ R E+ TLE + F V+RERVRQIEA+A Sbjct: 432 AALSLLREQVQSLLATLTERERRVLAMRFGLEDGQTYTLEEVGRAFGVTRERVRQIEAKA 491 Query: 277 FKKVQ 281 +K++ Sbjct: 492 LRKLR 496 >gi|326443878|ref|ZP_08218612.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 537 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 244 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 302 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 303 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 362 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 363 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 422 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 423 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 468 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 469 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 521 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 522 KLRHPSRSQV 531 >gi|91794185|ref|YP_563836.1| RNA polymerase sigma factor RpoD-like protein [Shewanella denitrificans OS217] gi|91716187|gb|ABE56113.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella denitrificans OS217] Length = 617 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 497 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 SESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 279 KVQ 281 K++ Sbjct: 601 KLR 603 >gi|21224164|ref|NP_629943.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289768642|ref|ZP_06528020.1| transcription initiation factor sigma [Streptomyces lividans TK24] gi|12644145|sp|P18183|HRDB_STRCO RecName: Full=RNA polymerase principal sigma factor hrdB gi|3036885|emb|CAA18518.1| major vegetative sigma factor [Streptomyces coelicolor A3(2)] gi|289698841|gb|EFD66270.1| transcription initiation factor sigma [Streptomyces lividans TK24] Length = 511 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 218 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 276 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 277 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 336 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 337 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 396 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 397 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 442 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 443 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 495 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 496 KLRHPSRSQV 505 >gi|333024008|ref|ZP_08452072.1| putative RNA polymerase sigma factor RpoS [Streptomyces sp. Tu6071] gi|332743860|gb|EGJ74301.1| putative RNA polymerase sigma factor RpoS [Streptomyces sp. Tu6071] Length = 493 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 200 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLQRELEIIAEDGRRAKN 258 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 259 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 318 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 319 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 378 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 379 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 424 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 425 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 477 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 478 KLRHPSRSQV 487 >gi|225848841|ref|YP_002729005.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Sulfurihydrogenibium azorense Az-Fu1] gi|225644391|gb|ACN99441.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Sulfurihydrogenibium azorense Az-Fu1] Length = 586 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 34/242 (14%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y GL +++ EGNIGLM+AV K+D +RGF+ +TY+ WWI+ A Sbjct: 351 LVKANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKYDYKRGFKFSTYATWWIRQA 410 Query: 113 MQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 + I ++I T N+ L R+ + PE++ Sbjct: 411 ITRAIADQARTIRIPVHMIETINK------LIRVARSMVQELGREPTPEEIAKKVGMPAE 464 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 KK+ + E IS+ + DE + DK+ + ++ + Sbjct: 465 KVKKILRTSQEPISLETPIGTDEETHLGDFIEDKSVLSPEAHML---------------K 509 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKK 279 R L +S L+ RE ++ R E+ TLE + F V+RER+RQIEA+A +K Sbjct: 510 NALRMQLDEVLSTLSEREEQVLRYRFGLEDDTEHTLEQVGKRFGVTRERIRQIEAKALRK 569 Query: 280 VQ 281 ++ Sbjct: 570 LR 571 >gi|121635207|ref|YP_975452.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis FAM18] gi|120866913|emb|CAM10672.1| RNA polymerase sigma factor [Neisseria meningitidis FAM18] Length = 658 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 414 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 473 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 474 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 532 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 533 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 588 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 589 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 635 Query: 278 KKVQ 281 +K++ Sbjct: 636 RKLR 639 >gi|15677390|ref|NP_274545.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis MC58] gi|7226783|gb|AAF41893.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis MC58] gi|261392218|emb|CAX49733.1| RNA polymerase sigma factor RpoD (Sigma-70) [Neisseria meningitidis 8013] gi|316985995|gb|EFV64932.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis H44/76] gi|325140674|gb|EGC63190.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis CU385] gi|325144806|gb|EGC67096.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M01-240013] gi|325199861|gb|ADY95316.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis H44/76] gi|325205715|gb|ADZ01168.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M04-240196] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|187250727|ref|YP_001875209.1| RNA polymerase, sigma 70 subunit, RpoD family [Elusimicrobium minutum Pei191] gi|186970887|gb|ACC97872.1| RNA polymerase, sigma 70 subunit, RpoD family [Elusimicrobium minutum Pei191] Length = 571 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 140/279 (50%), Gaps = 27/279 (9%) Query: 14 IGLSRYIHE--IRKIPMLEKQEEYVLAKR--YREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 I + R HE I +PM EK E R + E L +L+ ++LRLVV IA + Sbjct: 295 IDMIRSRHEKLINTLPMSEK-EFLAFNDRIVFFEDMILQDKLKLIKANLRLVVSIAKKHV 353 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 L +S+++ EG +GLM+AV+KF+ +RGF+ +TY+ WWI+ ++ I Sbjct: 354 NSNLELSDLIQEGGLGLMKAVEKFEYKRGFKFSTYATWWIRQSINRA---------IADQ 404 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQ-----VVAIAKKLNVSESEVISMNCRLAGDE 184 AN R+ +++ L L +T N + E + +K L +S +V + + Sbjct: 405 ANTIRIPVHMKELVSKLTKVT-NKFRQEHGREPSLEDYSKSLRLSMEKVKGVLKIMQDPI 463 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL+ + + S +D+ + D G + + R+ ++ ++ L+ RE +I Sbjct: 464 SLSTPVGEDE--DSNLEDF-IEDKAGANPTVTASDFL--RKQEVSEVLNTLSEREAKIIR 518 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R ++ P TLE + F V+RERVRQIEA+A +K++ Sbjct: 519 LRFGIDSGYPRTLEEVGKMFNVTRERVRQIEAKAIRKLR 557 >gi|91200070|emb|CAJ73113.1| similar to transcription initiation factor sigma 70 [Candidatus Kuenenia stuttgartiensis] Length = 491 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/271 (27%), Positives = 126/271 (46%), Gaps = 57/271 (21%) Query: 34 EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 EYV+A++ R +LRLVV IA YR G+ +++ EGN GLM+AV K+ Sbjct: 246 EYVMARK-----------RFSEGNLRLVVSIAKKYRKRGMAFHDLIQEGNTGLMRAVDKY 294 Query: 94 DPERGFRLATYSMWWIKAA-----------------MQEYILRSWSLVKIGTTANQKRLF 136 D GF+ +TY+ WWIK A M + I +S + K G ++ +++ Sbjct: 295 DYRMGFKFSTYATWWIKQAIIRATEEKVRTIRIPVHMMDVINKSTYVAKAGQGSSAEKI- 353 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 L+AI + P + I + L ++ S+ IS+ + D Sbjct: 354 --------QLEAIARDTNTP--LPEIYRLLQIT-SQPISLETPIGSD------------G 390 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT-- 254 + ++D++ D + I +R + + + + L+ RER I + R + T Sbjct: 391 ETMFEDFI---QDKKIDAPIFLAQRSLLKEQIQKVLDTLSYREREIIKLRFGISDGYTHS 447 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 LE + F ++RER+RQIEA A +K+Q ++ Sbjct: 448 LEEIGKRFNITRERIRQIEAIALRKLQHPVR 478 >gi|317493716|ref|ZP_07952133.1| RNA polymerase sigma factor RpoD [Enterobacteriaceae bacterium 9_2_54FAA] gi|316918043|gb|EFV39385.1| RNA polymerase sigma factor RpoD [Enterobacteriaceae bacterium 9_2_54FAA] Length = 610 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 121/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 432 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMMMPED 489 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 490 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 533 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 534 SESLRSATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 593 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 594 KLRHPSRSEV 603 >gi|311898773|dbj|BAJ31181.1| putative RNA polymerase major sigma factor [Kitasatospora setae KM-6054] Length = 541 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 81/310 (26%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-----DLSAAHRLVT------------------ 55 Y+ +I K+P+L ++E LAKR E G LS A +L Sbjct: 248 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLSQADKLAPKLKRELEIIAEDGRRAKN 306 Query: 56 ----SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 307 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 366 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 367 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 426 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 427 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 472 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 473 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 525 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 526 KLRHPSRSQV 535 >gi|297191610|ref|ZP_06909008.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|297151002|gb|EFH30922.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 516 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 139/310 (44%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------------------------EHGDLSAAH 51 Y+ +I K+P+L ++E LAKR E G + H Sbjct: 223 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKNH 282 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 283 -LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 341 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 342 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 401 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 402 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 447 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 448 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 500 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 501 KLRHPSRSQV 510 >gi|254386999|ref|ZP_05002279.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] gi|194345824|gb|EDX26790.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] Length = 520 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 227 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 285 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 286 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 345 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 346 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 405 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 406 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 451 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 452 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 504 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 505 KLRHPSRSQV 514 >gi|291454591|ref|ZP_06593981.1| RNA polymerase sigma factor RpoD [Streptomyces albus J1074] gi|581664|emb|CAA53564.1| sigma factor (RNA polymerase subunit) [Streptomyces griseus] gi|291357540|gb|EFE84442.1| RNA polymerase sigma factor RpoD [Streptomyces albus J1074] Length = 510 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 217 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKIAPKLKRELEIIAEDGRRAKN 275 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 276 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 335 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 336 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 395 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 396 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 441 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 442 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 494 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 495 KLRHPSRSQV 504 >gi|161870399|ref|YP_001599571.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis 053442] gi|218768518|ref|YP_002343030.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis Z2491] gi|254805303|ref|YP_003083524.1| RNA polymerase sigma factor [Neisseria meningitidis alpha14] gi|304387052|ref|ZP_07369304.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria meningitidis ATCC 13091] gi|121052526|emb|CAM08865.1| RNA polymerase sigma factor [Neisseria meningitidis Z2491] gi|161595952|gb|ABX73612.1| RNA polymerase primary sigma factor [Neisseria meningitidis 053442] gi|254668845|emb|CBA06900.1| RNA polymerase sigma factor [Neisseria meningitidis alpha14] gi|254669783|emb|CBA04064.1| RNA polymerase sigma factor 70 [Neisseria meningitidis alpha153] gi|304338851|gb|EFM04953.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria meningitidis ATCC 13091] gi|308389681|gb|ADO32001.1| RNA polymerase sigma factor [Neisseria meningitidis alpha710] gi|319410767|emb|CBY91151.1| RNA polymerase sigma factor RpoD (Sigma-70) [Neisseria meningitidis WUE 2594] gi|325128589|gb|EGC51459.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis N1568] gi|325132679|gb|EGC55363.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M6190] gi|325134647|gb|EGC57287.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M13399] gi|325136570|gb|EGC59171.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M0579] gi|325138535|gb|EGC61098.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis ES14902] gi|325204514|gb|ADY99967.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M01-240355] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|308233952|ref|ZP_07664689.1| RNA polymerase, sigma 70 subunit, RpoD [Atopobium vaginae DSM 15829] gi|328943964|ref|ZP_08241429.1| putative DNA-directed RNA polymerase sigma subunit RpoD [Atopobium vaginae DSM 15829] gi|327491933|gb|EGF23707.1| putative DNA-directed RNA polymerase sigma subunit RpoD [Atopobium vaginae DSM 15829] Length = 441 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 85/305 (27%), Positives = 133/305 (43%), Gaps = 64/305 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGD------------------------------LS 48 Y+ EI K+ +L EE LA + + D L Sbjct: 143 YLKEIGKVDLLNASEEVHLAMKIQAGTDASKKLEAAENGEIELTRAEQRRLMRIEQVGLD 202 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L +++LRL V IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 203 AKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 262 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N QK L +L R + + ++V Sbjct: 263 IRQAITRAIADQARTIRIPVHMVETINKLVRVQKELLQDLGREPTPEEIGEQMKMSADRV 322 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I K +S+ E +S+ + D SL I S V D ++ Sbjct: 323 REIQK---ISQ-EPVSLETPIGEEEDSSLGDFIEDS---------TAVAPPDAASDSML- 368 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 R L + + L RER++ + R E+ P TLE + EF V+RER+RQIE++ Sbjct: 369 -------REQLNQVLDGLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESK 421 Query: 276 AFKKV 280 K+ Sbjct: 422 TLAKL 426 >gi|307325028|ref|ZP_07604232.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] gi|306889174|gb|EFN20156.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] Length = 502 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 209 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 267 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 268 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 327 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 328 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 387 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 388 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 433 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 434 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 486 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 487 KLRHPSRSQV 496 >gi|240115443|ref|ZP_04729505.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID18] gi|260440745|ref|ZP_05794561.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI2] gi|268601118|ref|ZP_06135285.1| RNA polymerase, sigma 70 subunit [Neisseria gonorrhoeae PID18] gi|291044060|ref|ZP_06569776.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI2] gi|268585249|gb|EEZ49925.1| RNA polymerase, sigma 70 subunit [Neisseria gonorrhoeae PID18] gi|291012523|gb|EFE04512.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI2] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|213018850|ref|ZP_03334658.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus JHB] gi|212995801|gb|EEB56441.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus JHB] Length = 632 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 120/241 (49%), Gaps = 23/241 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL + +++ EGNIGLM+AV KFD +RG++ +TY WW Sbjct: 395 AKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWW 454 Query: 109 IKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLK---GHLQAITDNNLKPEQVVAIA 163 +K ++ I +V+I + ++ LR++ G + + +++ + Sbjct: 455 VKQSITRAIPEQSKVVRIPVHMVEIISKINKALRKMTHEMGREPTLEELSIELAMPLERI 514 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +K+ + +S+ D+S DK S+ +D + + Sbjct: 515 RKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSKPEDAAIL---------------AD 559 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 R + T ++ L P+E RI R L ++ TLE + F V+RER+RQIEA+A +K+ Sbjct: 560 LRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKL 619 Query: 281 Q 281 + Sbjct: 620 K 620 >gi|119961685|ref|YP_947521.1| RNA polymerase sigma (70) factor RpoD [Arthrobacter aurescens TC1] gi|119948544|gb|ABM07455.1| RNA polymerase sigma (70) factor RpoD [Arthrobacter aurescens TC1] Length = 437 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 75/277 (27%), Positives = 132/277 (47%), Gaps = 44/277 (15%) Query: 27 PMLEKQEEYVL--AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 P L+++ E+V+ KR + H L+ ++LRLVV +A Y G G+ +++ EGN+ Sbjct: 184 PKLKRELEFVIHDGKRAKNH--------LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNL 235 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRL 135 GL++AV+KFD +GF+ +TY+ WWI+ A+ + ++I Q+++ Sbjct: 236 GLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQM 295 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSS 193 +L R + + ++ PE+VV + K E IS++ L GD LI S Sbjct: 296 LQDLGREPTPEELALELDMTPEKVVEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDS 351 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQEN 251 + V D L++++ L + L+ RE + R Sbjct: 352 EA---------VVPADAVSFTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQ 394 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 395 PKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 431 >gi|261400701|ref|ZP_05986826.1| RNA polymerase sigma factor RpoD [Neisseria lactamica ATCC 23970] gi|269209456|gb|EEZ75911.1| RNA polymerase sigma factor RpoD [Neisseria lactamica ATCC 23970] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|220907004|ref|YP_002482315.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7425] gi|219863615|gb|ACL43954.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 327 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/300 (24%), Positives = 137/300 (45%), Gaps = 52/300 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------------------------YREHGDLSAA-- 50 Y+HEI ++P+L ++E VL K+ + E +LS A Sbjct: 23 YLHEIGRVPLLTHEQEIVLGKQVQQLMELLEAREKLTTSLDRSPTAEEWAEQANLSVADL 82 Query: 51 -----------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +++ ++LRLVV +A Y+ L + +++ EG +GL + V+KFDP RG+ Sbjct: 83 NTAVRRGQRAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKFDPTRGY 142 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I + V++ +K L ++K + ++ + Sbjct: 143 KFSTYAYWWIRQAITRAIAQQARTVRLPIHITEK-----LNKIKKAQRVLSQRLGRSATP 197 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IA++L + S++ SL+ + D ++ +D L D EQ + Sbjct: 198 AEIAQELELEPSQIREYLTLARQPVSLD--LRVGDNQDTELRDLLEDDSPSPEQYTTGEA 255 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R + ++L L P++R + R E+ ++L + + +SRERVRQ+E +A Sbjct: 256 LRDDVNHLLAE----LTPQQREVLTLRFGLEDGKELSLAKVGEQLSLSRERVRQLERQAL 311 >gi|325130608|gb|EGC53353.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis OX99.30304] gi|325142722|gb|EGC65100.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis 961-5945] gi|325198658|gb|ADY94114.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis G2136] gi|325201773|gb|ADY97227.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M01-240149] gi|325208475|gb|ADZ03927.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis NZ-05/33] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|62734062|gb|AAX96171.1| Sigma-70 region 3, putative [Oryza sativa Japonica Group] gi|125589330|gb|EAZ29680.1| hypothetical protein OsJ_13741 [Oryza sativa Japonica Group] Length = 563 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/262 (27%), Positives = 132/262 (50%), Gaps = 37/262 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E L KR +HG + +R+VTS++RLV+ IA + G G+ + +++ EG GL++ +K Sbjct: 309 DERTLRKRL-DHG-IYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEK 366 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +GFR +TYS WWIK AM++ + + ++ A+ + ++ L+ Sbjct: 367 FDASKGFRFSTYSHWWIKQAMRKSVSEQSQIFRL--PAHMVEASYRVKECIKRLRRKLKR 424 Query: 153 NLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 E++ A + +N+ + V SL++ I S+D + Sbjct: 425 RPTNEEIAADTGMPIKRVEAAVNLPKYSV-----------SLDSKIGSTD---------M 464 Query: 205 VYDHDGQEQVLIEKEERKNRRNM---LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLS 259 Y + EE NR +M + +++ L RER++ R L++ + TL+ + Sbjct: 465 TYQEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIG 524 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 + VSRER+RQIE+ AF+K++ Sbjct: 525 NTMGVSRERIRQIESAAFRKLR 546 >gi|85711761|ref|ZP_01042817.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina baltica OS145] gi|85694376|gb|EAQ32318.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina baltica OS145] Length = 611 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 116/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 433 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMAMPED 490 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + I+ Sbjct: 491 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLDLPIDSAT 534 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ RN + + L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 535 SESLRNSVRDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 594 Query: 279 KV 280 K+ Sbjct: 595 KL 596 >gi|127511929|ref|YP_001093126.1| RpoD family RNA polymerase sigma factor [Shewanella loihica PV-4] gi|126637224|gb|ABO22867.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella loihica PV-4] Length = 616 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 124/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 438 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 495 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 496 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 538 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 539 TGESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598 Query: 278 KKVQ 281 +K++ Sbjct: 599 RKLR 602 >gi|313668077|ref|YP_004048361.1| RNA polymerase sigma factor [Neisseria lactamica ST-640] gi|313005539|emb|CBN86975.1| RNA polymerase sigma factor [Neisseria lactamica 020-06] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|256784755|ref|ZP_05523186.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 492 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 199 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 257 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 258 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 317 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 318 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 377 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 378 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 423 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 424 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 476 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 477 KLRHPSRSQV 486 >gi|225677095|ref|ZP_03788097.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont of Muscidifurax uniraptor] gi|225590854|gb|EEH12079.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont of Muscidifurax uniraptor] Length = 669 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 128/261 (49%), Gaps = 27/261 (10%) Query: 32 QEEYVLAKRYREHG-DLS-AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 413 QEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKA 472 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHL- 146 V KFD +RG++ +TY WW++ ++ I +V+I + ++ LR++ + Sbjct: 473 VDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMG 532 Query: 147 QAITDNNLKPEQVVA---IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 + T L E + I K + ++ V S+ D+S DK S+ +D Sbjct: 533 REPTLEELSVELTMPLERIRKVMKIARDPV-SLEAPTGKDDSSTFGDCIEDKRVSRPEDA 591 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSS 260 + + R + T ++ L P+E RI R TLE + Sbjct: 592 AIL---------------ADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGK 636 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 637 IFNVTRERIRQIEAKALRKLK 657 >gi|190571452|ref|YP_001975810.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|190357724|emb|CAQ55173.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus Pel] Length = 633 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 117/241 (48%), Gaps = 23/241 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL + +++ EGNIGLM+AV KFD +RG++ +TY WW Sbjct: 396 AKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWW 455 Query: 109 IKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLK---GHLQAITDNNLKPEQVVAIA 163 +K ++ I +V+I + ++ LR++ G + + +++ + Sbjct: 456 VKQSITRAIPEQSKVVRIPVHMVEIISKINKALRKMTHEMGREPTLEELSIELAMPLERI 515 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +K+ + +S+ D+S DK S+ +D + + Sbjct: 516 RKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSKPEDAAIL---------------AD 560 Query: 224 RRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R + T ++ L P+E RI R TLE + F V+RER+RQIEA+A +K+ Sbjct: 561 LRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKL 620 Query: 281 Q 281 + Sbjct: 621 K 621 >gi|271968332|ref|YP_003342528.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] gi|270511507|gb|ACZ89785.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] Length = 561 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 139/310 (44%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDL-----------------SAAH 51 Y+ +I K+P+L ++E LAKR GD A + Sbjct: 267 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEEQLGTDGDKLPVDVRAELEWIAEDGRRAKN 326 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 327 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 386 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 387 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELARELDMTPEKVVEV 446 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ + D L++++ Sbjct: 447 QKYGR----EPISLHTPLGEEGDSEFGDLIEDSEA---------IVPADAVSFTLLQEQ- 492 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 493 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 545 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 546 KLRHPSRSQV 555 >gi|170725515|ref|YP_001759541.1| RNA polymerase sigma 70 subunit RpoD [Shewanella woodyi ATCC 51908] gi|169810862|gb|ACA85446.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella woodyi ATCC 51908] Length = 611 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 124/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TGESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQ 281 +K++ Sbjct: 594 RKLR 597 >gi|1582791|prf||2119302A sigma factor Length = 445 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 152 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 210 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 211 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 270 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 271 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 330 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 331 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 376 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 377 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 429 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 430 KLRHPSRSQV 439 >gi|240127996|ref|ZP_04740657.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae SK-93-1035] gi|268686384|ref|ZP_06153246.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-93-1035] gi|268626668|gb|EEZ59068.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-93-1035] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|33862729|ref|NP_894289.1| RNA polymerase sigma-70 factor family protein [Prochlorococcus marinus str. MIT 9313] gi|33634645|emb|CAE20631.1| Sigma-70 factor family [Prochlorococcus marinus str. MIT 9313] Length = 308 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 123/244 (50%), Gaps = 21/244 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 66 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 125 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + + ++I N+K L +L+ + NN P +AK + + Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEK-----LTKLRAAKSRLMQNNGLPPTAEQLAKTMRL 180 Query: 169 SESEVIS-MNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR- 225 +EV + C L + SL ++ S + S+ D L +E +E+ E R Sbjct: 181 PMAEVEDLLACELRSVTVSLQGVVKSKS-DPSELADVL----PSEEIPPMERAEMSERTA 235 Query: 226 ---NMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKK 279 +L R+ L P+ER + R + TL ++ SRE RQ+ RA +K Sbjct: 236 SVWTLLNRAN--LTPKERMVVTLRFGLDGSHEWRTLAEVARHMSCSREYCRQVLQRALRK 293 Query: 280 VQES 283 ++++ Sbjct: 294 LRKA 297 >gi|255019635|ref|ZP_05291715.1| RNA polymerase sigma factor RpoD [Acidithiobacillus caldus ATCC 51756] gi|254970938|gb|EET28420.1| RNA polymerase sigma factor RpoD [Acidithiobacillus caldus ATCC 51756] Length = 625 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 119/243 (48%), Gaps = 27/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R+ + PE++ A Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAARMEMPED 497 Query: 162 -IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE + D+N + D V + + ++E+ Sbjct: 498 KIRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDRNVAAPTDAAV---NAAIREVVEE-- 551 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +L + L PRE ++ R TLE + +F+V+RER+RQIEA+A + Sbjct: 552 ------LLD---TGLTPREAKVLRMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKALR 602 Query: 279 KVQ 281 K++ Sbjct: 603 KLR 605 >gi|297580668|ref|ZP_06942594.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoS [Vibrio cholerae RC385] gi|297535084|gb|EFH73919.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoS [Vibrio cholerae RC385] Length = 236 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 118/231 (51%), Gaps = 30/231 (12%) Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ ++ +++ Sbjct: 11 YSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTIRLP 70 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCR 179 K L LR + L D+ PE++ + K L ++E + S++ Sbjct: 71 IHV-VKELNIYLRTAR-ELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNE-RISSVDTP 127 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 + GD AL++ + + ++ D D +E +L +E LNP++ Sbjct: 128 IGGDGD-KALLDILPDSHNADPEFSTQDDDIRESLLNWLDE--------------LNPKQ 172 Query: 240 RRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + + ARR L P TLE + E ++RERVRQI+ ++++E + KQ Sbjct: 173 KEVL-ARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLREILVKQ 222 >gi|239982743|ref|ZP_04705267.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 491 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 198 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKIAPKLKRELEIIAEDGRRAKN 256 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 257 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 316 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 317 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 376 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 377 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 422 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 423 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 475 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 476 KLRHPSRSQV 485 >gi|218194307|gb|EEC76734.1| hypothetical protein OsI_14770 [Oryza sativa Indica Group] Length = 563 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/262 (27%), Positives = 132/262 (50%), Gaps = 37/262 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E L KR +HG + +R+VTS++RLV+ IA + G G+ + +++ EG GL++ +K Sbjct: 308 DERTLRKRL-DHG-IYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEK 365 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +GFR +TYS WWIK AM++ + + ++ A+ + ++ L+ Sbjct: 366 FDASKGFRFSTYSHWWIKQAMRKSVSEQSQIFRL--PAHMVEASYRVKECIKRLRRKLKR 423 Query: 153 NLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 E++ A + +N+ + V SL++ I S+D + Sbjct: 424 RPTNEEIAADTGMPIKRVEAAVNLPKYSV-----------SLDSKIGSTD---------M 463 Query: 205 VYDHDGQEQVLIEKEERKNRRNM---LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLS 259 Y + EE NR +M + +++ L RER++ R L++ + TL+ + Sbjct: 464 TYQEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIG 523 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 + VSRER+RQIE+ AF+K++ Sbjct: 524 NTMGVSRERIRQIESAAFRKLR 545 >gi|59801382|ref|YP_208094.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA 1090] gi|240014315|ref|ZP_04721228.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI18] gi|240016750|ref|ZP_04723290.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA6140] gi|240121878|ref|ZP_04734840.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID24-1] gi|240123293|ref|ZP_04736249.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID332] gi|240125543|ref|ZP_04738429.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae SK-92-679] gi|268681916|ref|ZP_06148778.1| RNA polymerase sigma factor [Neisseria gonorrhoeae PID332] gi|268684130|ref|ZP_06150992.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-92-679] gi|293399243|ref|ZP_06643408.1| RNA polymerase primary sigma factor [Neisseria gonorrhoeae F62] gi|59718277|gb|AAW89682.1| putative RNA polymerase sigma factor [Neisseria gonorrhoeae FA 1090] gi|268622200|gb|EEZ54600.1| RNA polymerase sigma factor [Neisseria gonorrhoeae PID332] gi|268624414|gb|EEZ56814.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-92-679] gi|291610657|gb|EFF39767.1| RNA polymerase primary sigma factor [Neisseria gonorrhoeae F62] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|48745|emb|CAA37175.1| unnamed protein product [Streptomyces coelicolor A3(2)] Length = 442 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 140/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 149 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 207 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 208 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 267 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 268 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 327 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 328 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 373 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 374 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 426 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 427 KLRHPSRSQV 436 >gi|194098357|ref|YP_002001415.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae NCCP11945] gi|239998768|ref|ZP_04718692.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae 35/02] gi|240112698|ref|ZP_04727188.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae MS11] gi|240117739|ref|ZP_04731801.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID1] gi|254493553|ref|ZP_05106724.1| RNA polymerase sigma factor rpoD [Neisseria gonorrhoeae 1291] gi|268594613|ref|ZP_06128780.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae 35/02] gi|268598759|ref|ZP_06132926.1| RNA polymerase sigma factor [Neisseria gonorrhoeae MS11] gi|268603436|ref|ZP_06137603.1| sigma 70 domain-containing protein [Neisseria gonorrhoeae PID1] gi|193933647|gb|ACF29471.1| RNA polymerase sigma factor [Neisseria gonorrhoeae NCCP11945] gi|226512593|gb|EEH61938.1| RNA polymerase sigma factor rpoD [Neisseria gonorrhoeae 1291] gi|268548002|gb|EEZ43420.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae 35/02] gi|268582890|gb|EEZ47566.1| RNA polymerase sigma factor [Neisseria gonorrhoeae MS11] gi|268587567|gb|EEZ52243.1| sigma 70 domain-containing protein [Neisseria gonorrhoeae PID1] gi|317164060|gb|ADV07601.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae TCDC-NG08107] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|271962349|ref|YP_003336545.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270505524|gb|ACZ83802.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 324 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 82/308 (26%), Positives = 137/308 (44%), Gaps = 61/308 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--------------------------AAHR 52 Y+ +I +IP+L +E LA+R E G + A R Sbjct: 32 YLRQIARIPLLTAGQEVELARRV-EAGLFARERLGAEGLPAALRAELECVADDGRRAKDR 90 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 V ++LRLVV IA + G G+P+ +++ EGN+GL++AV+KFD GF+ +TY+ WWIK A Sbjct: 91 FVEANLRLVVSIAKRHAGRGVPLLDLIQEGNLGLIRAVEKFDHRLGFKFSTYATWWIKQA 150 Query: 113 MQEYILRSWSLVKIG---------TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + V++ +++L +L R + + +L PE+V I Sbjct: 151 ITRAMADQARTVRVPVHMVEMINKVARVERQLLCDLGREPTPEEIAAELDLTPEKVTEIK 210 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 E IS++ L GD L LI ++ + + QEQV Sbjct: 211 GH----GREPISLHTPLGDEGDSELGDLIEDAEAVTPEAAVAFTLL---QEQV------- 256 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R +L + L RE + R P TL+ + + ++RER+RQIE++ + Sbjct: 257 ---RALL----ATLTGREAGVISMRFGFADGRPWTLDEIGRVYGLTRERIRQIESKTMSR 309 Query: 280 VQESIQKQ 287 ++ + Q Sbjct: 310 LRHPSRSQ 317 >gi|167622943|ref|YP_001673237.1| RNA polymerase sigma 70 subunit RpoD [Shewanella halifaxensis HAW-EB4] gi|167352965|gb|ABZ75578.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella halifaxensis HAW-EB4] Length = 615 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 124/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TGESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQ 281 +K++ Sbjct: 598 RKLR 601 >gi|152999721|ref|YP_001365402.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS185] gi|160874340|ref|YP_001553656.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS195] gi|151364339|gb|ABS07339.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS185] gi|160859862|gb|ABX48396.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS195] Length = 627 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 507 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 550 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 551 SESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 610 Query: 279 KVQ 281 K++ Sbjct: 611 KLR 613 >gi|32351878|dbj|BAC78528.1| plastid sigma factor 2A [Oryza sativa Japonica Group] Length = 564 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/262 (27%), Positives = 132/262 (50%), Gaps = 37/262 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E L KR +HG + +R+VTS++RLV+ IA + G G+ + +++ EG GL++ +K Sbjct: 309 DERTLRKRL-DHG-IYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEK 366 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +GFR +TYS WWIK AM++ + + ++ A+ + ++ L+ Sbjct: 367 FDASKGFRFSTYSHWWIKQAMRKSVSEQSQIFRL--PAHMVEASYRVKECIKRLRRKLKR 424 Query: 153 NLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 E++ A + +N+ + V SL++ I S+D + Sbjct: 425 RPTNEEIAADTGMPIKRVEAAVNLPKYSV-----------SLDSKIGSTD---------M 464 Query: 205 VYDHDGQEQVLIEKEERKNRRNM---LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLS 259 Y + EE NR +M + +++ L RER++ R L++ + TL+ + Sbjct: 465 TYQEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIG 524 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 + VSRER+RQIE+ AF+K++ Sbjct: 525 NTMGVSRERIRQIESAAFRKLR 546 >gi|297611772|ref|NP_001067832.2| Os11g0448400 [Oryza sativa Japonica Group] gi|62701714|gb|AAX92787.1| Sigma-70 region 3, putative [Oryza sativa Japonica Group] gi|108864350|gb|ABA93405.2| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica Group] gi|255680064|dbj|BAF28195.2| Os11g0448400 [Oryza sativa Japonica Group] Length = 564 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/262 (27%), Positives = 132/262 (50%), Gaps = 37/262 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E L KR +HG + +R+VTS++RLV+ IA + G G+ + +++ EG GL++ +K Sbjct: 309 DERTLRKRL-DHG-IYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEK 366 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD +GFR +TYS WWIK AM++ + + ++ A+ + ++ L+ Sbjct: 367 FDASKGFRFSTYSHWWIKQAMRKSVSEQSQIFRL--PAHMVEASYRVKECIKRLRRKLKR 424 Query: 153 NLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 E++ A + +N+ + V SL++ I S+D + Sbjct: 425 RPTNEEIAADTGMPIKRVEAAVNLPKYSV-----------SLDSKIGSTD---------M 464 Query: 205 VYDHDGQEQVLIEKEERKNRRNM---LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLS 259 Y + EE NR +M + +++ L RER++ R L++ + TL+ + Sbjct: 465 TYQEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIG 524 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 + VSRER+RQIE+ AF+K++ Sbjct: 525 NTMGVSRERIRQIESAAFRKLR 546 >gi|309378741|emb|CBX22691.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|157960786|ref|YP_001500820.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella pealeana ATCC 700345] gi|157845786|gb|ABV86285.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella pealeana ATCC 700345] Length = 616 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 124/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 438 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 495 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 496 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 538 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 539 TGESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598 Query: 278 KKVQ 281 +K++ Sbjct: 599 RKLR 602 >gi|21672345|ref|NP_660412.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|401010|sp|P32001|RPOD_BUCAP RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|144139|gb|AAA73234.1| sigma factor [Buchnera aphidicola] gi|21622948|gb|AAM67623.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 617 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/242 (27%), Positives = 125/242 (51%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +++K+ + Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEIGREPTPEE---LSEKMLI 493 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R+ Sbjct: 494 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDTTLELPLDSATSESLRSAT 548 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ + Sbjct: 549 HDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 608 Query: 287 QV 288 +V Sbjct: 609 EV 610 >gi|157374211|ref|YP_001472811.1| RpoD family RNA polymerase sigma factor [Shewanella sediminis HAW-EB3] gi|157316585|gb|ABV35683.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella sediminis HAW-EB3] Length = 612 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 124/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TGESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQ 281 +K++ Sbjct: 595 RKLR 598 >gi|42521092|ref|NP_967007.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila melanogaster] gi|42410833|gb|AAS14941.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila melanogaster] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 128/261 (49%), Gaps = 27/261 (10%) Query: 32 QEEYVLAKRYREHG-DLS-AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 386 QEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKA 445 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHL- 146 V KFD +RG++ +TY WW++ ++ I +V+I + ++ LR++ + Sbjct: 446 VDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMG 505 Query: 147 QAITDNNLKPEQVVA---IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 + T L E + I K + ++ V S+ D+S DK S+ +D Sbjct: 506 REPTLEELSVELTMPLERIRKVMKIARDPV-SLEAPTGKDDSSTFGDCIEDKRVSRPEDA 564 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSS 260 + + R + T ++ L P+E RI R TLE + Sbjct: 565 AIL---------------ADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGK 609 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 610 IFNVTRERIRQIEAKALRKLK 630 >gi|325123225|gb|ADY82748.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter calcoaceticus PHEA-2] Length = 636 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 397 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 456 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 457 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 514 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 515 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 558 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 559 SEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 618 Query: 279 KVQ 281 K++ Sbjct: 619 KLR 621 >gi|304409306|ref|ZP_07390926.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS183] gi|307303664|ref|ZP_07583417.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica BA175] gi|304351824|gb|EFM16222.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS183] gi|306912562|gb|EFN42985.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica BA175] gi|315266575|gb|ADT93428.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS678] Length = 611 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 433 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 490 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 534 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 535 SESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 594 Query: 279 KVQ 281 K++ Sbjct: 595 KLR 597 >gi|225630998|ref|YP_002727789.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia sp. wRi] gi|225592979|gb|ACN95998.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia sp. wRi] Length = 650 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 128/261 (49%), Gaps = 27/261 (10%) Query: 32 QEEYVLAKRYREHG-DLS-AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 394 QEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKA 453 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHL- 146 V KFD +RG++ +TY WW++ ++ I +V+I + ++ LR++ + Sbjct: 454 VDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMG 513 Query: 147 QAITDNNLKPEQVVA---IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 + T L E + I K + ++ V S+ D+S DK S+ +D Sbjct: 514 REPTLEELSVELTMPLERIRKVMKIARDPV-SLEAPTGKDDSSTFGDCIEDKRVSRPEDA 572 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSS 260 + + R + T ++ L P+E RI R TLE + Sbjct: 573 AIL---------------ADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGK 617 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 618 IFNVTRERIRQIEAKALRKLK 638 >gi|126173383|ref|YP_001049532.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS155] gi|125996588|gb|ABN60663.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS155] Length = 627 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 507 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 550 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 551 SESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 610 Query: 279 KVQ 281 K++ Sbjct: 611 KLR 613 >gi|117928637|ref|YP_873188.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] gi|117649100|gb|ABK53202.1| RNA polymerase, sigma 70 subunit, RpoD [Acidothermus cellulolyticus 11B] Length = 495 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 80/310 (25%), Positives = 141/310 (45%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-------------------DLS--------AAH 51 Y+ +I K+P+L ++E LAKR E G DL A + Sbjct: 202 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEEKLNSGEELSPELRKDLEWIAEDGRRAKN 260 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 261 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 320 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 321 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRDPTPEELAVELDMTPEKVMEV 380 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ + D L++++ Sbjct: 381 QKY----GREPISLHTPLGEDGDSEFGDLIEDSEA---------IVPSDAVSFTLLQEQ- 426 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 427 -------LHSVLETLSEREAGVVSMRFGLTDGQPKTLDEIGRVYGVTRERIRQIESKTMS 479 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 480 KLRHPSRSQV 489 >gi|294787697|ref|ZP_06752941.1| RNA polymerase sigma factor RpoD [Simonsiella muelleri ATCC 29453] gi|294483990|gb|EFG31673.1| RNA polymerase sigma factor RpoD [Simonsiella muelleri ATCC 29453] Length = 652 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 118/250 (47%), Gaps = 40/250 (16%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 409 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 468 Query: 108 WIKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKG---------HLQAITDNN 153 WI+ A+ I ++I T R+ + G L + ++ Sbjct: 469 WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQYLQETGEEPDSAKLAELMEMPEDK 528 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 ++ +++ IAK E ISM + DE + D N+ D +Y Sbjct: 529 IR--KIMKIAK-------EPISMETPIGDDEDSHLGDFIEDANNVAPSDAAMY------- 572 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQ 271 + R + + L PRE ++ R + N TLE + +F+V+RER+RQ Sbjct: 573 --------SSLREVTKDVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQ 624 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 625 IEAKALRKLR 634 >gi|240080942|ref|ZP_04725485.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA19] gi|268597061|ref|ZP_06131228.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA19] gi|268550849|gb|EEZ45868.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA19] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADVAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|86605925|ref|YP_474688.1| RNA polymerase sigma factor [Synechococcus sp. JA-3-3Ab] gi|86554467|gb|ABC99425.1| RNA polymerase sigma factor [Synechococcus sp. JA-3-3Ab] Length = 318 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/228 (30%), Positives = 116/228 (50%), Gaps = 13/228 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+V +LRLVV IA YR GLP +++ EG IGL +AV+KFDP RG++ +TY+ W Sbjct: 75 AAKKRMVECNLRLVVSIAKRYRNRGLPFLDLIQEGTIGLTRAVEKFDPTRGYKFSTYATW 134 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ ++ I L+++ +K ++R L A + E+V L+ Sbjct: 135 WIRQSVNRGIQNKGRLIRLPAHMYEK--VSQVKRRYRELSAEKGSRPAAEEVF---DSLD 189 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + ++ + +A SLN + D++ ++ Q + + D D IE R Sbjct: 190 IGDNYRELITRHMAEIRSLN--VGVGDEDGTELQHF-IPDEDNDP---IEHLNRVAHCEE 243 Query: 228 LTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 + +S L+ RE+++ AR + +TL + +SRERVRQIE Sbjct: 244 VRALVSQLSEREQQVIVARYGLDGSKGLTLREIGEHIGLSRERVRQIE 291 >gi|1710686|sp|P52325|RPOD_NEIGO RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|808742|gb|AAA67115.1| sigma 70 [Neisseria gonorrhoeae] Length = 642 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 121/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 516 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 517 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEIL---- 572 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 573 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 619 Query: 278 KKVQ 281 +K++ Sbjct: 620 RKLR 623 >gi|225021265|ref|ZP_03710457.1| hypothetical protein CORMATOL_01277 [Corynebacterium matruchotii ATCC 33806] gi|224945998|gb|EEG27207.1| hypothetical protein CORMATOL_01277 [Corynebacterium matruchotii ATCC 33806] Length = 617 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR--------YR--------EHGD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR YR +GD Sbjct: 299 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYADYRMKQMEKAYSNGD 357 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 358 KEAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 417 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 418 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 475 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + D +P ++K+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 476 --LQDLGREPTP-YELSKEMDITEDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 528 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 529 -EDSEAVIAVDAVSFTLLQDQLQDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 587 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 588 TRERIRQIESKTMSKLRHPSRSQV 611 >gi|212711167|ref|ZP_03319295.1| hypothetical protein PROVALCAL_02239 [Providencia alcalifaciens DSM 30120] gi|212686335|gb|EEB45863.1| hypothetical protein PROVALCAL_02239 [Providencia alcalifaciens DSM 30120] Length = 615 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TSESLRSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|254421657|ref|ZP_05035375.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family, putative [Synechococcus sp. PCC 7335] gi|196189146|gb|EDX84110.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family, putative [Synechococcus sp. PCC 7335] Length = 467 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 116/244 (47%), Gaps = 29/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ W Sbjct: 228 AAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYW 287 Query: 108 WIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ + I +++ Q+ L L+R ++ + PEQ Sbjct: 288 WIRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRKELQRTPTEVEVAAALEMTPEQ 347 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + + L + + +S+N R+ E + D NS E + E Sbjct: 348 L----RTLQQVQRKSLSLNHRVGKGEDTELMELLEDGNSL-----------SPESQISES 392 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 R+ ++LT VL RE+ I R TLE + F++SRERVRQI+ +A Sbjct: 393 MMRQEISDVLT---EVLTEREKEIIALRYGLTTGETHTLEEVGGIFQLSRERVRQIQTKA 449 Query: 277 FKKV 280 +K+ Sbjct: 450 MRKL 453 >gi|71906166|ref|YP_283753.1| RNA polymerase sigma factor RpoD [Dechloromonas aromatica RCB] gi|71845787|gb|AAZ45283.1| RNA polymerase, sigma 70 subunit, RpoD [Dechloromonas aromatica RCB] Length = 657 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 416 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 475 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + +P+ +AKK+++ Sbjct: 476 IRQAITRSIADQARTIRI--PVHMIETINKMNRI--SRQILQETGAEPDPAT-LAKKMDM 530 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D + D +Y Sbjct: 531 PEDKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDSGTLAPADAAMY------------ 578 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + R + + L RE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 579 ---SSLRGVTKEILDTLTTREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 635 Query: 277 FKKVQ 281 +K++ Sbjct: 636 LRKLR 640 >gi|303279757|ref|XP_003059171.1| predicted protein [Micromonas pusilla CCMP1545] gi|226459007|gb|EEH56303.1| predicted protein [Micromonas pusilla CCMP1545] Length = 587 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 127/255 (49%), Gaps = 50/255 (19%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++ ++LRLVV IA Y + +++ EG +GL++ +KFD +RG++ +TY+ WW Sbjct: 333 AKNQMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAEKFDFKRGYKFSTYAHWW 392 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ--VVAIAKKL 166 I+ A+ I ++Q R RL HL I K E+ V+ + Sbjct: 393 IRQAVTRSI------------SDQSRTI----RLPVHLFEIISRMSKVERQLVMKYGRDP 436 Query: 167 NVSE-SEVISMNCRLAGDESLNALINSS-----------DKNSSQWQDWLVYDH-----D 209 E +EV+ M E +N + +S D +S ++ LV DH D Sbjct: 437 TTEEIAEVMDMTV-----EKINQIQKASLVPISLSQSVNDDDSRTVEETLVDDHAEHPDD 491 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRE 267 +VL++++ L ++ L+PRER + R ++ TLE + + F V+RE Sbjct: 492 ATGKVLLKED--------LENVLNTLSPRERDVLRLRYGMDDGRVKTLEEIGNVFSVTRE 543 Query: 268 RVRQIEARAFKKVQE 282 R+RQIEA+A +K+++ Sbjct: 544 RIRQIEAKALRKLRQ 558 >gi|217974326|ref|YP_002359077.1| RNA polymerase sigma 70 subunit RpoD [Shewanella baltica OS223] gi|217499461|gb|ACK47654.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS223] Length = 611 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 433 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 490 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 534 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 535 SESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 594 Query: 279 KVQ 281 K++ Sbjct: 595 KLR 597 >gi|99035119|ref|ZP_01314904.1| hypothetical protein Wendoof_01000264 [Wolbachia endosymbiont of Drosophila willistoni TSC#14030-0811.24] Length = 502 Score = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 128/261 (49%), Gaps = 27/261 (10%) Query: 32 QEEYVLAKRYREHG-DLS-AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 246 QEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKA 305 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHL- 146 V KFD +RG++ +TY WW++ ++ I +V+I + ++ LR++ + Sbjct: 306 VDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMG 365 Query: 147 QAITDNNLKPEQVVA---IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 + T L E + I K + ++ V S+ D+S DK S+ +D Sbjct: 366 REPTLEELSVELTMPLERIRKVMKIARDPV-SLEAPTGKDDSSTFGDCIEDKRVSRPEDA 424 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSS 260 + + R + T ++ L P+E RI R TLE + Sbjct: 425 AIL---------------ADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGK 469 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIEA+A +K++ Sbjct: 470 IFNVTRERIRQIEAKALRKLK 490 >gi|299768976|ref|YP_003731002.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter sp. DR1] gi|298699064|gb|ADI89629.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter sp. DR1] Length = 627 Score = 90.5 bits (223), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 388 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 448 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 505 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 506 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 549 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 550 SEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 609 Query: 279 KVQ 281 K++ Sbjct: 610 KLR 612 >gi|320104559|ref|YP_004180150.1| RNA polymerase sigma-70 subunit RpoD [Isosphaera pallida ATCC 43644] gi|319751841|gb|ADV63601.1| RNA polymerase, sigma 70 subunit, RpoD [Isosphaera pallida ATCC 43644] Length = 592 Score = 90.5 bits (223), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 82/290 (28%), Positives = 140/290 (48%), Gaps = 29/290 (10%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 R M + + GL+R + E M E+ +EY AKR +L +LRLVV Sbjct: 321 RDLMLMTLETPAGLARRVRE-----MNERFKEYEKAKR-----------KLSGGNLRLVV 364 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 IA YR GL +++ EGN GLM+AV K++ RGF+ +TY+ WWI+ A+ I Sbjct: 365 SIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEWRRGFKFSTYATWWIRQAITRAIADQAR 424 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 ++I + + +L+ + + + + A+ N+S E + Sbjct: 425 TIRIPV-----HMIETMSKLRNVNKKLLQEKGREPTIEETARAANISIEETRRVMKISRH 479 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SL+ + S+ S + D++ D + I ++ ++ + + + L RER I Sbjct: 480 PISLDRPVGESE--DSYFGDFI---EDTTAENPINSATQEMLKDKIDQVLKTLTYREREI 534 Query: 243 FEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ-KQVE 289 + R + TLE + F+V+RERVRQIEA+A +K+Q ++ +Q+E Sbjct: 535 IKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRSRQLE 584 >gi|134098366|ref|YP_001104027.1| RNA polymerase sigma factor SigB [Saccharopolyspora erythraea NRRL 2338] gi|291006932|ref|ZP_06564905.1| RNA polymerase sigma factor SigB [Saccharopolyspora erythraea NRRL 2338] gi|133910989|emb|CAM01102.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 324 Score = 90.5 bits (223), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 89/315 (28%), Positives = 138/315 (43%), Gaps = 82/315 (26%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDLS----------------AAHR 52 Y++ I + +L QEE LAKR + H G LS A + Sbjct: 31 YLNGIGRTALLTAQEEVDLAKRIEAGVFANHVLETSGKLSPERRSDLKAVVRDGVLAKNH 90 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 91 LMEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQA 150 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + A+Q R RL HL EQV IA+ Sbjct: 151 ITRGM------------ADQSRTI----RLPVHL---------VEQVNKIARIKR----- 180 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD--------GQEQ-----VLIEKE 219 ++ +L + + L N + + D L + D G E+ IE Sbjct: 181 --DLHQKLGREATDEELANEAGLTVEKVADLLDHSRDPVSLDMPVGAEEDAPLGDFIEDA 238 Query: 220 ERKNRRNM---------LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRER 268 E + N L R +S L RE+ + R ++ P TL+ + F +SRER Sbjct: 239 ESADAENAVISGFLQDDLRRVLSTLEEREQAVIRMRYGLDDGQPRTLDQIGKAFGLSRER 298 Query: 269 VRQIEARAFKKVQES 283 VRQIE K+++ Sbjct: 299 VRQIEREVMSKLRQG 313 >gi|293610908|ref|ZP_06693207.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292826560|gb|EFF84926.1| conserved hypothetical protein [Acinetobacter sp. SH024] Length = 628 Score = 90.5 bits (223), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 507 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 550 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 551 SEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 610 Query: 279 KVQ 281 K++ Sbjct: 611 KLR 613 >gi|254409611|ref|ZP_05023392.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196183608|gb|EDX78591.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 374 Score = 90.5 bits (223), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 122/235 (51%), Gaps = 19/235 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP +G++ +TY+ WWI+ Sbjct: 139 KMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPAKGYKFSTYAYWWIRQ 198 Query: 112 AMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 A+ I +++ +K +L R LK LQ D +A+ L++S Sbjct: 199 AITRTIANDARTIRLPIHIVEKLNKLKKVQRELKQKLQRTPDE-------TELAEALDIS 251 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRRNM 227 + + + SLN + + ++ D L+ D+D EQ + E R+ ++ Sbjct: 252 RTNLRQLLQLRRRSLSLNHRVGKGE--DTELVD-LLEDNDLHLPEQQMSESMMRQEISDV 308 Query: 228 LTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 L+ VL RE+ + R P TLE + S F +SRERVRQI+++A +K+ Sbjct: 309 LS---DVLTEREKDVISLRYGLATPESYTLEEVGSMFNLSRERVRQIQSKAMRKL 360 >gi|262281266|ref|ZP_06059048.1| RNA polymerase sigma factor rpoD [Acinetobacter calcoaceticus RUH2202] gi|262257497|gb|EEY76233.1| RNA polymerase sigma factor rpoD [Acinetobacter calcoaceticus RUH2202] Length = 627 Score = 90.5 bits (223), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 388 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 448 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 505 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 506 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 549 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 550 SEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 609 Query: 279 KVQ 281 K++ Sbjct: 610 KLR 612 >gi|254000081|ref|YP_003052144.1| RNA polymerase sigma-70 subunit RpoD [Methylovorus sp. SIP3-4] gi|313202040|ref|YP_004040698.1| RNA polymerase sigma-70 subunit RpoD [Methylovorus sp. MP688] gi|253986760|gb|ACT51617.1| RNA polymerase, sigma 70 subunit, RpoD [Methylovorus sp. SIP3-4] gi|312441356|gb|ADQ85462.1| RNA polymerase, sigma 70 subunit, RpoD [Methylovorus sp. MP688] Length = 638 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 114/244 (46%), Gaps = 32/244 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 397 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 456 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 457 IRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QILQETGLEPDP-ATLAEKMEM 511 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D + D VY Sbjct: 512 PEDKIRKILKISKEPISMETPIGDDDDSHLGDFIEDMTTLAPVDAAVY------------ 559 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + R + L RE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 560 ---ASLREATKEVLESLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 616 Query: 277 FKKV 280 +K+ Sbjct: 617 LRKL 620 >gi|305681425|ref|ZP_07404232.1| RNA polymerase sigma factor RpoD [Corynebacterium matruchotii ATCC 14266] gi|305659630|gb|EFM49130.1| RNA polymerase sigma factor RpoD [Corynebacterium matruchotii ATCC 14266] Length = 608 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 80/324 (24%), Positives = 156/324 (48%), Gaps = 49/324 (15%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKR--------YR--------EHGD 46 RK+ + + + + Y+ +I K+ +L ++E LAKR YR +GD Sbjct: 290 RKDAELTASAD-SVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYADYRMKQMEKAYSNGD 348 Query: 47 LSAA--------------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 349 KEAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 408 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 409 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQREL 466 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + D +P ++K+++++E +V+ + SL+ I D+ SQ D++ Sbjct: 467 --LQDLGREPTP-YELSKEMDITEDKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI-- 519 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEV 264 D + + ++ ++ L + L+ RE + + R L + P TL+ + + V Sbjct: 520 -EDSEAVIAVDAVSFTLLQDQLQDVLHTLSEREAGVVKLRFGLTDGMPRTLDEIGQVYGV 578 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 +RER+RQIE++ K++ + QV Sbjct: 579 TRERIRQIESKTMSKLRHPSRSQV 602 >gi|325266676|ref|ZP_08133353.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella denitrificans ATCC 33394] gi|324982119|gb|EGC17754.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella denitrificans ATCC 33394] Length = 671 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 122/236 (51%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 428 AAKQKMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 487 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ Q + + +P+ +A+ ++ Sbjct: 488 WIRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QYLQETGEEPDS-AKLAELMD 542 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D E + R + Sbjct: 543 MPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDVNNVAPAEAAMYSSLREV 597 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 598 TADVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 653 >gi|289548873|ref|YP_003473861.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermocrinis albus DSM 14484] gi|289182490|gb|ADC89734.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermocrinis albus DSM 14484] Length = 568 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 113/244 (46%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V +LRLVV IA Y GL +++ EGNIGLM+AV K+D +G++ +TY+ WW Sbjct: 331 AKQVMVKCNLRLVVSIAKKYVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWW 390 Query: 109 IKAAMQEYILRSWSLVKI---------GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T K+L L R + + I P Sbjct: 391 IRQAITRAIADQARTIRIPVHMIETINDITKAHKKLTQELGR-EPTAEEIAKYLGIP--- 446 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V A+K+ E IS+ + DE + DK+ +EQV Sbjct: 447 VDKARKVMRMAQEPISLETPIGDDEDAHLKDFIEDKSVPS----------PEEQVT---- 492 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAF 277 RK R L + +S L +ER I R + TLE + F V+RER+RQIE +A Sbjct: 493 -RKLLREQLIKVLSTLGEKEREILMYRYGLVDGTEYTLEQIGRMFNVTRERIRQIETKAI 551 Query: 278 KKVQ 281 +K++ Sbjct: 552 RKLR 555 >gi|225440035|ref|XP_002276710.1| PREDICTED: hypothetical protein [Vitis vinifera] gi|297741628|emb|CBI32760.3| unnamed protein product [Vitis vinifera] Length = 561 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 73/253 (28%), Positives = 124/253 (49%), Gaps = 32/253 (12%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H + +L+ ++LR+VV IA Y+G GL + +++ EG++GLM +V+KF P G R A+ Sbjct: 316 HSGNRSRQKLIYANLRMVVHIAKQYQGRGLNLQDLLQEGSMGLMNSVEKFKPNAGCRFAS 375 Query: 104 YSMWWIKAAMQEYILRSWSLVKI--------GTTANQKRLFFNLRRLKGHLQAITDNNLK 155 Y+ WWI+ A+++ I + +++ G KRLF +GH T + Sbjct: 376 YAYWWIRQAVRKAIFQHSRTIRLPENMYSLLGKVKEAKRLFIQ----EGH-HDPTKEEIA 430 Query: 156 PEQVVAIAK--KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + I K +L + +SM + D+ ++D + D +Q Sbjct: 431 ERVGITIEKLQRLLLHTRMPLSMQQPVWADQDTTFQEVTADTGIE------IPDVSVAKQ 484 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQ 271 ++ R++ RN+L VL P+ERRI R + P TL + F S+ERVRQ Sbjct: 485 LM-----RQHVRNLL----HVLTPKERRIIRLRFGIGDGIPRTLSEIGLVFGFSKERVRQ 535 Query: 272 IEARAFKKVQESI 284 +E RA K+++ + Sbjct: 536 LEQRALHKLKQCL 548 >gi|67920853|ref|ZP_00514372.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67856970|gb|EAM52210.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 297 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 77/275 (28%), Positives = 141/275 (51%), Gaps = 28/275 (10%) Query: 13 EIGLSRYIHEIRKIPMLEKQ-----EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 EI L+ I + +P+LEK+ EE ++AK + A R++ ++LRLVV IA Sbjct: 28 EIKLAEEIQAM--LPLLEKEQLSREEEKIVAKGQK------ARERMIEANLRLVVSIAKK 79 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL + +++ EG++GL++ V+KFDP RG++ +TY+ WWI+ + I +++ Sbjct: 80 YLNSGLSLLDLIQEGSLGLIRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEQSRTIRLP 139 Query: 128 TTANQKRLFFNLRRLKGHLQAITDN-NLKPEQ-VVAIAKKLNVSESEVISMNCRLAGDES 185 N+ NL + + ++ +T KP Q +A +++V + + S Sbjct: 140 IHINE-----NLNKYRKSIRELTLKLGRKPTQREIAENMEISVDRLQFLQQAAFKTKSRS 194 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN +I D+N ++ L + +++EE+ ++ N L S L PR++ + Sbjct: 195 LNVVI---DENQTELGQLLPDEESISPSDFVKQEEKISQINNLLES---LTPRQKEVIIL 248 Query: 246 R-RLQENP-VTLENLSSEFEVSRERVRQIEARAFK 278 R L++ ++ + + + VS ER RQI +RA K Sbjct: 249 RFGLRDGKQMSYKAIGEKCGVSHERARQIYSRALK 283 >gi|237755496|ref|ZP_04584118.1| RNA polymerase sigma factor RpoD [Sulfurihydrogenibium yellowstonense SS-5] gi|237692360|gb|EEP61346.1| RNA polymerase sigma factor RpoD [Sulfurihydrogenibium yellowstonense SS-5] Length = 570 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 76/234 (32%), Positives = 120/234 (51%), Gaps = 28/234 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y GL +++ EGNIGLM+AV K+D ++GF+ +TY+ WWI+ A Sbjct: 355 LVKANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKYDYKKGFKFSTYATWWIRQA 414 Query: 113 MQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + I ++I T N+ L R+ L PE+ IAKK + Sbjct: 415 ITRAIADQARTIRIPVHMIETINK------LLRISRTLVQELGREPTPEE---IAKKAGM 465 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---RKNR 224 +V + R + D SL I S ++ S D++ +++ ++ E+ ++ Sbjct: 466 PADKVRKI-LRTSQDPVSLETPIGSDEE--SHLGDFI------EDKSVLSPEQHMLKQAL 516 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 R L +S L+ RE ++ R E+ TLE + F V+RER+RQIEA+A Sbjct: 517 RLQLDEVLSTLSEREEQVLRYRFGLEDDTEHTLEQVGKRFGVTRERIRQIEAKA 570 >gi|260548994|ref|ZP_05823216.1| RNA polymerase sigma factor sigma-70 [Acinetobacter sp. RUH2624] gi|260408162|gb|EEX01633.1| RNA polymerase sigma factor sigma-70 [Acinetobacter sp. RUH2624] Length = 628 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 507 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 550 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 551 SEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 610 Query: 279 KVQ 281 K++ Sbjct: 611 KLR 613 >gi|91776674|ref|YP_546430.1| sigma 70 (RpoD) [Methylobacillus flagellatus KT] gi|91710661|gb|ABE50589.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacillus flagellatus KT] Length = 644 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 403 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 462 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + + L+P+ +A+K+ + Sbjct: 463 IRQAITRSIADQARTIRI--PVHMIETINKMNRIS--RQILQETGLEPDPAT-LAEKMEM 517 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + +++ E ++ D + S D++ D ++ + R+ Sbjct: 518 PEDKIRKI-LKISK-EPISMETPIGDDDDSHLGDFI---EDVATLAPVDAAVYASLRDAT 572 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 573 KEVLESLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 627 >gi|284008589|emb|CBA75169.1| RNA polymerase sigma-70 factor [Arsenophonus nasoniae] Length = 622 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 384 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 443 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 444 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 501 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 502 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 544 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 545 TSESLRSATHEVLAGLTTREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 604 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 605 RKLRHPSRSEV 615 >gi|332975259|gb|EGK12159.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella kingae ATCC 23330] Length = 654 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 119/249 (47%), Gaps = 40/249 (16%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 411 AAKQKMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 470 Query: 108 WIKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKG---------HLQAITDNN 153 WI+ A+ I ++I T R+ + G L + ++ Sbjct: 471 WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQYLQETGEEPDSAKLAELMEMPEDK 530 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 ++ +++ IAK E ISM + D+ + D N+ D +Y Sbjct: 531 IR--KIMKIAK-------EPISMETPIGDDDDSHLGDFIEDVNNVAPADAAMY------- 574 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQ 271 + R + + + L PRE ++ R + N TLE + +F+V+RER+RQ Sbjct: 575 --------SSLREVTSDILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQ 626 Query: 272 IEARAFKKV 280 IEA+A +K+ Sbjct: 627 IEAKALRKL 635 >gi|116749951|ref|YP_846638.1| RpoD family RNA polymerase sigma factor [Syntrophobacter fumaroxidans MPOB] gi|116699015|gb|ABK18203.1| RNA polymerase, sigma 70 subunit, RpoD family [Syntrophobacter fumaroxidans MPOB] Length = 433 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 75/241 (31%), Positives = 123/241 (51%), Gaps = 23/241 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA +V ++LRLV+ IA YRG G+ +++ EGN+GL++AV +FD +G R +TY+ W Sbjct: 196 SAKQEMVKANLRLVLSIAKRYRGRGMSFDDLIQEGNLGLLKAVGRFDHTKGNRFSTYATW 255 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQ-KRLFFNLRRLKGHLQAITDNNLKPE-QVVAIAKK 165 W++ ++ I +++ + K LFF K + + + +P Q +A K Sbjct: 256 WVRQSIIRGIYDKTRTIRLPVHFIELKNLFF-----KVFYELLKELGREPSPQEIAERAK 310 Query: 166 LNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L + + + M LA SL I ++ + D E+ EE +R Sbjct: 311 LPLDK---VQMVLTLAAQPISLETPIGEDEQR--------LGDFIEDERAASPMEECSDR 359 Query: 225 R-NMLTRS-MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 +TRS +S L PRE +I R + P TLE + F+VS+ER+RQIE +A +K+ Sbjct: 360 ELAEITRSLLSSLQPREEKILRLRFGIDGQPAETLEKIGKTFKVSKERIRQIEKKALRKL 419 Query: 281 Q 281 + Sbjct: 420 R 420 >gi|27364091|ref|NP_759619.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus CMCP6] gi|320157475|ref|YP_004189854.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus MO6-24/O] gi|27360209|gb|AAO09146.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus CMCP6] gi|319932787|gb|ADV87651.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus MO6-24/O] Length = 624 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 116/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 386 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 445 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 446 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 503 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 504 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 547 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 548 ATSLKAATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 607 Query: 279 KV 280 K+ Sbjct: 608 KL 609 >gi|78778962|ref|YP_397074.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|78712461|gb|ABB49638.1| putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9312] Length = 307 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 144/299 (48%), Gaps = 38/299 (12%) Query: 12 GEIGLSRYIHEIRKIPMLEK-QEEYVLAKRYREHG------DLSAAHR------------ 52 GEIG + + R++ M K QE VL R +E G + S A R Sbjct: 9 GEIGRHQLLTPERELTMGRKVQEMVVLVNRCQEAGGKGPACEYSEAERKKIKIGEKAKNE 68 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 69 MITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKG---HLQAITDNNLKPEQVVAIAKKLNVS 169 + + ++I N+K LR K L+ IT N+ + +A++L ++ Sbjct: 129 LNRALSTQSRTIRIPVNINEK--LTKLRSAKSKLMQLKGITPNSDE------LAEELKIT 180 Query: 170 ESEVIS-MNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E+ ++C L SL + S + S+ D L D ++ E + + Sbjct: 181 KEEIDELLSCELRSITVSLQGTVKSKS-DPSELVDILPSDQTPPMELAELAERTASAWKL 239 Query: 228 LTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 L ++ L +ER+I R + TL ++ SRE RQ+ RA +K++++ Sbjct: 240 LDKAN--LTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLRKA 296 >gi|37678745|ref|NP_933354.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus YJ016] gi|37197486|dbj|BAC93325.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus YJ016] Length = 643 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 405 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 464 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 465 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 522 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 523 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 566 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 567 ATSLKAATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 626 Query: 279 KVQ 281 K++ Sbjct: 627 KLR 629 >gi|261344812|ref|ZP_05972456.1| RNA polymerase sigma factor RpoD [Providencia rustigianii DSM 4541] gi|282567259|gb|EFB72794.1| RNA polymerase sigma factor RpoD [Providencia rustigianii DSM 4541] Length = 616 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 438 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 495 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 496 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 538 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 539 TSESLRSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 599 RKLRHPSRSEV 609 >gi|297561520|ref|YP_003680494.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296845968|gb|ADH67988.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 468 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 126/247 (51%), Gaps = 13/247 (5%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E G + +H ++ ++LRLVV +A Y G+ + +VV EGN+GL++AV+KFD +GF+ + Sbjct: 226 EDGRKAKSH-MLEANLRLVVSVAKKYSDRGMSLLDVVQEGNLGLIRAVEKFDYTKGFKFS 284 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+MWWI+ A+Q S +++ + L + RL+ + PE++ Sbjct: 285 TYAMWWIRQAIQRGFADSARTIRL--PVHVLELLSKVSRLERDMHQALGREPTPEELGLE 342 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 K E++ + + SL++ I + ++ D L+ D D E E +R+ Sbjct: 343 LDKTPAQIEELLRVTRQPI---SLDSTIG--EDGETRIGD-LIEDVDASEAS--EVVDRQ 394 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L ++S L PRE I R + P TL+ + ++RER+RQ+E ++ K+ Sbjct: 395 LMADQLRNALSDLEPREATIMSLRFGLMDGRPRTLDEIGKHLGLTRERIRQLEKQSLSKL 454 Query: 281 QESIQKQ 287 + + Q Sbjct: 455 RHPSRAQ 461 >gi|169794936|ref|YP_001712729.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter baumannii AYE] gi|184159289|ref|YP_001847628.1| DNA-directed RNA polymerase, sigma subunit [Acinetobacter baumannii ACICU] gi|213157659|ref|YP_002320457.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii AB0057] gi|215482482|ref|YP_002324668.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB307-0294] gi|239502295|ref|ZP_04661605.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB900] gi|260557301|ref|ZP_05829517.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii ATCC 19606] gi|301346958|ref|ZP_07227699.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB056] gi|301513036|ref|ZP_07238273.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB058] gi|301596278|ref|ZP_07241286.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB059] gi|332854224|ref|ZP_08435244.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013150] gi|332866334|ref|ZP_08436939.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013113] gi|332872549|ref|ZP_08440518.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6014059] gi|169147863|emb|CAM85726.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter baumannii AYE] gi|183210883|gb|ACC58281.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Acinetobacter baumannii ACICU] gi|193078173|gb|ABO13119.2| sigma D (sigma 70) factor of RNA polymerase major sigma factor during exponential growth [Acinetobacter baumannii ATCC 17978] gi|213056819|gb|ACJ41721.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii AB0057] gi|213988184|gb|ACJ58483.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB307-0294] gi|260409407|gb|EEX02709.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii ATCC 19606] gi|322509200|gb|ADX04654.1| rpoD [Acinetobacter baumannii 1656-2] gi|323519229|gb|ADX93610.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Acinetobacter baumannii TCDC-AB0715] gi|332728149|gb|EGJ59537.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013150] gi|332734682|gb|EGJ65786.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013113] gi|332739235|gb|EGJ70093.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6014059] Length = 628 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 507 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 550 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 551 SEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 610 Query: 279 KVQ 281 K++ Sbjct: 611 KLR 613 >gi|84502385|ref|ZP_01000521.1| RNA polymerase sigma-70 factor family protein [Oceanicola batsensis HTCC2597] gi|84389197|gb|EAQ01994.1| RNA polymerase sigma-70 factor family protein [Oceanicola batsensis HTCC2597] Length = 249 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/265 (27%), Positives = 127/265 (47%), Gaps = 38/265 (14%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 I KIP+L+ EE +R+++HGD A L+ SH R +A + + + ++ Sbjct: 6 IQAAAKIPLLDIDEERNAIRRWQDHGDREALTLLLRSHARQAWSMAARWTDNPVHLEDLA 65 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 +EG IGL++A FD + R +TY+ WW+ + R S++ + R + Sbjct: 66 AEGVIGLIRAADNFDLGQDVRFSTYAAWWVMNGVSAAAARIRSVIDV-----PPRAVTEM 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES---LNALINSSDKN 196 R G L A DN + + ++ +++++ + GD + L+AL++S Sbjct: 121 R--SGRL-ADEDNTV-----------ITMAMQGIVALDAPV-GDGTHSLLDALVSS---- 161 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 D +E E RR ++ ++MS LN +E I RRLQ P TLE Sbjct: 162 ----------DLTPEETAAAESLHDVQRR-LIAKAMSGLNAQEAEIIRRRRLQAVPETLE 210 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 +L+ ++R+R+RQ+E RA +++ Sbjct: 211 DLADAMNMTRDRLRQVERRAMTRLR 235 >gi|268590608|ref|ZP_06124829.1| RNA polymerase sigma factor RpoD [Providencia rettgeri DSM 1131] gi|291314000|gb|EFE54453.1| RNA polymerase sigma factor RpoD [Providencia rettgeri DSM 1131] Length = 617 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 439 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 496 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 497 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 539 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 540 TSESLRSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 599 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 600 RKLRHPSRSEV 610 >gi|28897178|ref|NP_796783.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus RIMD 2210633] gi|153839257|ref|ZP_01991924.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ3810] gi|260361470|ref|ZP_05774529.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus K5030] gi|260878083|ref|ZP_05890438.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AN-5034] gi|260896978|ref|ZP_05905474.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio parahaemolyticus Peru-466] gi|260902497|ref|ZP_05910892.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ4037] gi|28805387|dbj|BAC58667.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus RIMD 2210633] gi|149747222|gb|EDM58210.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ3810] gi|308088714|gb|EFO38409.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio parahaemolyticus Peru-466] gi|308089726|gb|EFO39421.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AN-5034] gi|308109810|gb|EFO47350.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ4037] gi|308110993|gb|EFO48533.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus K5030] gi|328471947|gb|EGF42824.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus 10329] Length = 620 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 116/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 499 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 500 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 543 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 544 ATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 603 Query: 279 KV 280 K+ Sbjct: 604 KL 605 >gi|163802687|ref|ZP_02196578.1| RNA polymerase sigma factor RpoD [Vibrio sp. AND4] gi|159173575|gb|EDP58395.1| RNA polymerase sigma factor RpoD [Vibrio sp. AND4] Length = 620 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 116/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 499 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 500 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 543 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 544 ATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 603 Query: 279 KV 280 K+ Sbjct: 604 KL 605 >gi|94499953|ref|ZP_01306488.1| RNA polymerase sigma factor [Oceanobacter sp. RED65] gi|94427811|gb|EAT12786.1| RNA polymerase sigma factor [Oceanobacter sp. RED65] Length = 606 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 368 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 427 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++++ Sbjct: 428 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREATPEE---LAERMDM 482 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D S D+ + D +G + E Sbjct: 483 PEDKIRKV-LKIAK-EPISMETPIGDDEDSHLGDF-IEDVNGHSPIDTATE---TGLTDA 536 Query: 229 TRS-MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TRS +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 537 TRSVLSGLTARESKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 592 >gi|94984583|ref|YP_603947.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] gi|94554864|gb|ABF44778.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] Length = 532 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 79/299 (26%), Positives = 139/299 (46%), Gaps = 49/299 (16%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKR----------YREHGD-----------------LSAA 50 +Y+HEI ++P+L +EE LA+R E GD +A Sbjct: 234 QYLHEIGRVPLLTLEEEIALARRIEEGEEARKMLEEAGDELDDRARRRLMRQMEDGAAAR 293 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ R ++ +TY+ WWI+ Sbjct: 294 QGLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYATWWIR 353 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVS 169 A+ I ++I + L R LQ E++ A+ + + Sbjct: 354 QAINRAIADQARTIRI--PVHMVETINKLTRTARQLQQELSREPTYEEIAEAMGPGWDAA 411 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEERKNR 224 + E + + E ++ D+ S + D++ ++ D + L+ +E Sbjct: 412 KVEEVQKVSQ----EPVSLETPIGDEKDSFYGDFIPDENLDSPVDNAAKTLLSEE----- 462 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +++S L RE + + R+ + TLE + F V+RER+RQIE +A +K++ Sbjct: 463 ---LEKALSKLTEREALVLKFRKGLVDGREHTLEEVGQRFNVTRERIRQIENKALRKLK 518 >gi|218441429|ref|YP_002379758.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 7424] gi|218174157|gb|ACK72890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 318 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 81/315 (25%), Positives = 142/315 (45%), Gaps = 72/315 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGD---LSAA------- 50 Y+ EI ++P+L +EE VLAKR RE D SAA Sbjct: 14 YLREIGRVPLLTHEEEIVLAKRVQRFMALQDIKDALTQTLKREPQDSEWASAAKITEEEL 73 Query: 51 HR-----------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 HR +V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G+ Sbjct: 74 HRAIAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGY 133 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R +TY+ WWI+ A+ I +++ +K L ++K + ++ + + Sbjct: 134 RFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQLSQAKGRAATI 188 Query: 160 VAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 +A++L ++ +V +S++ ++ GD L + + +D+ + Sbjct: 189 SELAEELELTPRQVRDYLERARQPLSLDLKV-GDNQDTELGELLEDTGTSPEDYATH--- 244 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRE 267 QV +EK MS L P+++ + R + P+TL + +SRE Sbjct: 245 SSLQVDLEK------------LMSDLTPQQKEVLALRFGLVDGQPLTLAKIGVRLNISRE 292 Query: 268 RVRQIEARAFKKVQE 282 RVRQIE A K+++ Sbjct: 293 RVRQIEREALSKLRK 307 >gi|291618943|ref|YP_003521685.1| RpoD [Pantoea ananatis LMG 20103] gi|291153973|gb|ADD78557.1| RpoD [Pantoea ananatis LMG 20103] gi|327395293|dbj|BAK12715.1| RNA polymerase sigma factor RpoD [Pantoea ananatis AJ13355] Length = 614 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 538 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 598 KLRHPSRSEV 607 >gi|158337702|ref|YP_001518878.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158307943|gb|ABW29560.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 81/316 (25%), Positives = 142/316 (44%), Gaps = 74/316 (23%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKR-------------YREHGD--------------- 46 ++ Y+ EI + P+L +EE + K+ +EH D Sbjct: 10 SITTYLREIGRFPLLNHEEEIIFGKQVQRFVALQDLKQDLQEHLDREPTQAEWADKAEIS 69 Query: 47 -------LSAAHR----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 L H+ +V S+LRLVV IA Y + +++ EG IGL + V+KFDP Sbjct: 70 VSQLQKELKLGHKANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDP 129 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL--------- 146 +G+R +TY+ WWI+ AM I +++ N+K LR+++ L Sbjct: 130 MKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEK--LSKLRKVRRQLSQKLHRDPT 187 Query: 147 --QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + + +L P++ I LN + IS++ ++ GD+ +N+ W+ L Sbjct: 188 VQELAVEMDLAPKK---IEDYLNYARRS-ISLDIQI-GDQ----------QNTELWE--L 230 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 + D + + + R+ L + + L+P++R + R + +NP+TL + Sbjct: 231 LEDPNESPDTYVTA---SSLRSDLAKLLQDLSPQQREVITLRYGLIDQNPLTLAKVGERL 287 Query: 263 EVSRERVRQIEARAFK 278 VSRE VR++E AFK Sbjct: 288 NVSREWVRRVEREAFK 303 >gi|289642419|ref|ZP_06474565.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] gi|289507764|gb|EFD28717.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] Length = 425 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 82/302 (27%), Positives = 137/302 (45%), Gaps = 60/302 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------YREHGDL------------------SAAHR 52 Y+ EI K+P+L +E L+KR Y+ D +A + Sbjct: 132 YLREIGKVPLLNAAQEVELSKRVEAGLFAEYKLDTDTDLAPELRRDLQTLVRDGHAAKQQ 191 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 192 LVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWWIRQA 251 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I T Q++L L R + + ++ EQVV Sbjct: 252 IGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQVV--- 308 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + +S+ + GD L I +D S D Y G Q IE Sbjct: 309 -ELRRYAQDTVSLETAVGDDGDSVLGDFIEDADATSP--ADAASY---GAMQDEIEG--- 359 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKK 279 ++ L PRER + R L + TL + + ++RER+RQIE ++ Sbjct: 360 ---------VLNSLTPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRE 410 Query: 280 VQ 281 ++ Sbjct: 411 LR 412 >gi|22127411|ref|NP_670834.1| RNA polymerase sigma factor RpoD [Yersinia pestis KIM 10] gi|21960500|gb|AAM87085.1|AE013956_10 RNA polymerase, sigma(70) factor [Yersinia pestis KIM 10] Length = 632 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 394 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 453 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 454 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 511 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 512 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 554 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 555 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 614 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 615 RKLRHPSRSEV 625 >gi|262378901|ref|ZP_06072058.1| RNA polymerase sigma factor sigma-70 [Acinetobacter radioresistens SH164] gi|262300186|gb|EEY88098.1| RNA polymerase sigma factor sigma-70 [Acinetobacter radioresistens SH164] Length = 629 Score = 90.5 bits (223), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 450 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 507 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE + D+N + D +G ++ E Sbjct: 508 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDQNITSPVDAAT--SEGLKEATRE--- 561 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 562 ----------VLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 611 Query: 279 KVQ 281 K++ Sbjct: 612 KLR 614 >gi|317503800|ref|ZP_07961812.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] gi|315665097|gb|EFV04752.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] Length = 290 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/275 (26%), Positives = 136/275 (49%), Gaps = 18/275 (6%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + P++ EE LA++ ++ G A +LVT++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGRAPLISIDEEIELAQKIKKGGRDGERAKEKLVTANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ NQ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL--PLNQ 134 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE---SLNAL 189 +L ++ + + + ++ + E ++ + L D S++A Sbjct: 135 ---VGSLNKINREINKFEQEYQRKPSLSELSHATKIEEEKI---DQSLMADSHHVSIDAP 188 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRL 248 + NS D + D + ++ E + R VL RE I E + Sbjct: 189 FQEGEDNS--MVDVMAGGDDSRTDKQVDHESMALELESVLR--KVLKEREITIIRECFGI 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + LE + + ++RERVRQI ++ K+++S Sbjct: 245 GCHEKGLEEIGDQLGLTRERVRQIREKSIAKLRDS 279 >gi|15606649|ref|NP_214029.1| RNA polymerase sigma factor RpoD [Aquifex aeolicus VF5] gi|2983864|gb|AAC07417.1| RNA polymerase sigma factor RpoD [Aquifex aeolicus VF5] Length = 575 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 74/250 (29%), Positives = 118/250 (47%), Gaps = 38/250 (15%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ S+LRLVV IA Y GL +++ EGNIGLM+AV K+D +G++ +TY+ Sbjct: 336 VQAKQVMIQSNLRLVVSIAKKYVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYAT 395 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLK--PEQV- 159 WWI+ A+ I ++I T N + +K + +N + PE++ Sbjct: 396 WWIRQAITRAIADQARTIRIPVHMIETIN--------KIIKASKKLFQENGREPTPEEIA 447 Query: 160 ------VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 V KK+ E IS+ + D+ DK+ + +EQ Sbjct: 448 EYLDIPVEKVKKVMKFSQEPISLETPIGDDDDTFLKDFIEDKSIP----------NPEEQ 497 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQ 271 V RK R L + +S L+ +ER I R + TLE + F V+RER+RQ Sbjct: 498 VT-----RKLLREQLQKVLSTLSEKEREILMYRYGLVDGTEYTLEQVGKMFNVTRERIRQ 552 Query: 272 IEARAFKKVQ 281 IE +A +K++ Sbjct: 553 IENKALRKLR 562 >gi|297250830|ref|ZP_06934304.1| RNA polymerase sigma factor RpoD [Neisseria polysaccharea ATCC 43768] gi|296837936|gb|EFH21874.1| RNA polymerase sigma factor RpoD [Neisseria polysaccharea ATCC 43768] Length = 322 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 120/244 (49%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 78 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 137 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD--NNLKPEQVVAIA-- 163 WI+ A+ I ++I + N R + HLQ + ++ K +++ + Sbjct: 138 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQHLQETGEEPDSAKLAELMQMPED 196 Query: 164 --KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKE 219 +K+ E ISM + D+ + D N+ D +Y H+ +++L Sbjct: 197 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNIAPADAAMYTSLHEVTKEIL---- 252 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 L PRE ++ R + TLE + +F+V+RER+RQIEA+A Sbjct: 253 -------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKAL 299 Query: 278 KKVQ 281 +K++ Sbjct: 300 RKLR 303 >gi|183597880|ref|ZP_02959373.1| hypothetical protein PROSTU_01215 [Providencia stuartii ATCC 25827] gi|188022641|gb|EDU60681.1| hypothetical protein PROSTU_01215 [Providencia stuartii ATCC 25827] Length = 617 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 121/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 497 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDNTLELPLDSAT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 SESLRSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 601 KLRHPSRSEV 610 >gi|149376143|ref|ZP_01893908.1| sigma factor RpoD [Marinobacter algicola DG893] gi|149359548|gb|EDM48007.1| sigma factor RpoD [Marinobacter algicola DG893] Length = 616 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 114/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 491 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q ++ Sbjct: 492 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDIQALSPVDSAT 535 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 + R +S L RE ++ R E TLE + +F+V+RER+RQIEA+A + Sbjct: 536 AEGLREATRSVLSGLTARESKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALR 595 Query: 279 KVQ 281 K++ Sbjct: 596 KLR 598 >gi|45442721|ref|NP_994260.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Microtus str. 91001] gi|45437587|gb|AAS63137.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Microtus str. 91001] Length = 631 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 71/255 (27%), Positives = 123/255 (48%), Gaps = 38/255 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 393 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 452 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG-------------HLQAITDNNLK 155 I+ A+ I ++I + + +L G + + + L Sbjct: 453 IRQAITRSIADQARTIRIPV-----HMIETINKLNGISRQMLQEMGREPTPEELAERMLM 507 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 PE I K L +++ E ISM + DE S D++ D ++ Sbjct: 508 PED--KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELP 549 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 ++ ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIE Sbjct: 550 LDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 609 Query: 274 ARAFKKVQESIQKQV 288 A+A +K++ + +V Sbjct: 610 AKALRKLRHPSRSEV 624 >gi|311742667|ref|ZP_07716476.1| DNA-directed RNA polymerase sigma subunit RpoD [Aeromicrobium marinum DSM 15272] gi|311314295|gb|EFQ84203.1| DNA-directed RNA polymerase sigma subunit RpoD [Aeromicrobium marinum DSM 15272] Length = 464 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 80/309 (25%), Positives = 139/309 (44%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLS----------------AAHR 52 Y+ +I K+ +L EE LAKR + G +S A + Sbjct: 171 YLKQIGKVSLLTAGEEVELAKRIEAGLFAEEKLAKGGRISPKMREELDWIVVDGRRAKNH 230 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 231 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQA 290 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 291 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAKELDMTPEKVVEVQ 350 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ + D L++++ Sbjct: 351 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------IVPADAVSFTLLQEQ-- 395 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 396 ------LHAVLDTLSERESGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 449 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 450 LRHPSRSQV 458 >gi|258623542|ref|ZP_05718543.1| RNA polymerase sigma factor [Vibrio mimicus VM573] gi|258623776|ref|ZP_05718733.1| RNA polymerase sigma factor [Vibrio mimicus VM603] gi|262172395|ref|ZP_06040073.1| RNA polymerase sigma factor RpoD [Vibrio mimicus MB-451] gi|258583899|gb|EEW08691.1| RNA polymerase sigma factor [Vibrio mimicus VM603] gi|258584204|gb|EEW08952.1| RNA polymerase sigma factor [Vibrio mimicus VM573] gi|261893471|gb|EEY39457.1| RNA polymerase sigma factor RpoD [Vibrio mimicus MB-451] Length = 625 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 504 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 505 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 548 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 549 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 608 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 609 KLRHPSRSEV 618 >gi|262164053|ref|ZP_06031792.1| RNA polymerase sigma factor RpoD [Vibrio mimicus VM223] gi|262027581|gb|EEY46247.1| RNA polymerase sigma factor RpoD [Vibrio mimicus VM223] Length = 595 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 357 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 416 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 417 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 474 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 475 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 518 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 519 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 578 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 579 KLRHPSRSEV 588 >gi|156973168|ref|YP_001444075.1| RNA polymerase sigma factor RpoD [Vibrio harveyi ATCC BAA-1116] gi|156524762|gb|ABU69848.1| hypothetical protein VIBHAR_00848 [Vibrio harveyi ATCC BAA-1116] Length = 620 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 116/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 499 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 500 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 543 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 544 ATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 603 Query: 279 KV 280 K+ Sbjct: 604 KL 605 >gi|254422659|ref|ZP_05036377.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196190148|gb|EDX85112.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 298 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 119/236 (50%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A HR+V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ WW Sbjct: 63 AKHRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPSKGYRFSTYAYWW 122 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L ++K + T + + IA+ Sbjct: 123 IRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQFTQQHGRTPTASEIAQATGF 177 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V R SL+ + D +Q D L + DG Q + + ++ L Sbjct: 178 TIKQVREYLDRSRQPLSLD--LKVGDNQDTQLGDLL--EDDG--QTPDDYATASSLKSDL 231 Query: 229 TRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R M+ L P+++++ R E+ +TL + + ++SRERVRQIE A K+++ Sbjct: 232 KRIMADLTPQQQQVIALRFGLEDGKNMTLAKIGAMLDISRERVRQIEREALTKLRK 287 >gi|238796946|ref|ZP_04640450.1| RNA polymerase sigma factor rpoD [Yersinia mollaretii ATCC 43969] gi|238719206|gb|EEQ11018.1| RNA polymerase sigma factor rpoD [Yersinia mollaretii ATCC 43969] Length = 634 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 396 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 455 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 456 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 513 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 514 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 556 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 557 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 616 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 617 RKLRHPSRSEV 627 >gi|116748652|ref|YP_845339.1| RpoD family RNA polymerase sigma factor [Syntrophobacter fumaroxidans MPOB] gi|116697716|gb|ABK16904.1| RNA polymerase, sigma 70 subunit, RpoD family [Syntrophobacter fumaroxidans MPOB] Length = 599 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 114/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 361 AKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 420 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R +L PE++ Sbjct: 421 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGREPTPEEIAEKMEFPVE 478 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L ++ E IS+ + +E + DK + D ++ Sbjct: 479 KVRKVLKIA-KEPISLETPIGEEEDSHLGDFIEDKRVASPVDAVI--------------- 522 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 N ++++ L PRE ++ R ++ TLE + +F V+RER+RQIEA+A + Sbjct: 523 NLNLSEQTRKALATLTPREEKVLRMRFGIGEKADHTLEEVGQDFAVTRERIRQIEAKALR 582 Query: 279 KV 280 K+ Sbjct: 583 KL 584 >gi|126642737|ref|YP_001085721.1| sigma D (sigma 70) factor of RNA polymerase major sigma factor during exponential growth [Acinetobacter baumannii ATCC 17978] Length = 580 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 341 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 400 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 401 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 458 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D I+ Sbjct: 459 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDQNITSPIDAAT 502 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 503 SEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 562 Query: 279 KVQ 281 K++ Sbjct: 563 KLR 565 >gi|308188146|ref|YP_003932277.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pantoea vagans C9-1] gi|308058656|gb|ADO10828.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pantoea vagans C9-1] Length = 613 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|157372533|ref|YP_001480522.1| RNA polymerase sigma factor RpoD [Serratia proteamaculans 568] gi|157324297|gb|ABV43394.1| RNA polymerase, sigma 70 subunit, RpoD [Serratia proteamaculans 568] Length = 647 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 409 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 468 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 469 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 526 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 527 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 569 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 570 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 629 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 630 RKLRHPSRSEV 640 >gi|304396867|ref|ZP_07378747.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. aB] gi|304355663|gb|EFM20030.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. aB] Length = 613 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|238789198|ref|ZP_04632986.1| RNA polymerase sigma factor rpoD [Yersinia frederiksenii ATCC 33641] gi|238722730|gb|EEQ14382.1| RNA polymerase sigma factor rpoD [Yersinia frederiksenii ATCC 33641] Length = 612 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 491 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 535 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 536 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 595 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 596 KLRHPSRSEV 605 >gi|188532569|ref|YP_001906366.1| RNA polymerase sigma factor RpoD [Erwinia tasmaniensis Et1/99] gi|188027611|emb|CAO95461.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia tasmaniensis Et1/99] Length = 613 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|270263179|ref|ZP_06191449.1| RNA polymerase sigma factor RpoD [Serratia odorifera 4Rx13] gi|270042867|gb|EFA15961.1| RNA polymerase sigma factor RpoD [Serratia odorifera 4Rx13] Length = 648 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 410 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 469 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 470 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 527 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 528 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 570 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 571 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 630 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 631 RKLRHPSRSEV 641 >gi|85058229|ref|YP_453931.1| RNA polymerase sigma factor RpoD [Sodalis glossinidius str. 'morsitans'] gi|84778749|dbj|BAE73526.1| RNA polymerase sigma-70 factor RpoD [Sodalis glossinidius str. 'morsitans'] Length = 615 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|186683480|ref|YP_001866676.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186465932|gb|ACC81733.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 332 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 65/246 (26%), Positives = 121/246 (49%), Gaps = 33/246 (13%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H A +++ ++LRLVV IA Y+ + L +++ EG++GL + V+KFDP +G++ +T Sbjct: 92 HQGQKAKQKMIQANLRLVVSIAKKYQRHNLDFLDLIQEGSLGLERGVEKFDPTKGYKFST 151 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y WWI+ A+ I +++ +K L ++K + +T + V IA Sbjct: 152 YGYWWIRQAITRAIAEQGRTIRLPIHITEK-----LNKIKRIQRELTQKLGRTPTAVDIA 206 Query: 164 KKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 ++L++ ++ +S+ R+ D+ + + QD L + E Sbjct: 207 EELSLDPKQIRDYLLLARQPVSLELRVGSDKDI------------ELQDMLEDNGLSPEL 254 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQ 271 K ++N +N+L++ LNP++R+I R N ++L + +SRERVRQ Sbjct: 255 YADHKFLQQNIQNLLSK----LNPQQRQILTFRFGLTDGNELSLAEIGQRMGISRERVRQ 310 Query: 272 IEARAF 277 IE +A Sbjct: 311 IEQQAL 316 >gi|332163001|ref|YP_004299578.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|318604173|emb|CBY25671.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. palearctica Y11] gi|325667231|gb|ADZ43875.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. palearctica 105.5R(r)] Length = 612 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|123443868|ref|YP_001007839.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122090829|emb|CAL13711.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 612 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|56750962|ref|YP_171663.1| group2 RNA polymerase sigma factor RpoD4 [Synechococcus elongatus PCC 6301] gi|81299380|ref|YP_399588.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like [Synechococcus elongatus PCC 7942] gi|123769297|sp|Q31QR8|RPOD4_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD4 gi|56685921|dbj|BAD79143.1| group2 RNA polymerase sigma factor RpoD4 [Synechococcus elongatus PCC 6301] gi|81168261|gb|ABB56601.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like [Synechococcus elongatus PCC 7942] Length = 311 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 84/307 (27%), Positives = 152/307 (49%), Gaps = 43/307 (14%) Query: 3 RKNMSIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGD-------- 46 R+N++ V +S Y+ I +IP+L +EE L+++ + E+ D Sbjct: 6 RRNLNAAVERHTSDHVSWYLSSIGRIPLLTAEEEVELSRKVQLMMALLENPDAESNSENQ 65 Query: 47 --LSAAHR----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 L A R ++ ++LRLVV +A Y+ GL + +++ EG++GL +AV+KFDP G++ Sbjct: 66 AVLQAGQRAKTKMLKANLRLVVSVAKKYQNQGLELLDLIQEGSLGLERAVEKFDPALGYK 125 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN--NLKPEQ 158 +TY+ WWI+ +M I +++ ++K + R+K + +T L Sbjct: 126 FSTYAYWWIRQSMTRAIDNHARTIRLPIHVSEK-----ISRIKKMTRELTHQLKRLPSRA 180 Query: 159 VVAIAKKLNVSESEVI---SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +A A KL + + E++ S C SL+A D S + L+ D E Sbjct: 181 EIAEALKLPLQDVEMLLSQSTPC-----TSLDAQARGDDGRS--FLGDLIPDPKSLEP-- 231 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 ++ +R + ++ ++ L RE+++ + R L + TL + VSRER+RQ+E Sbjct: 232 MDAMDRHIQHEQISTWLAHLTEREQQVLQLRFGLHDGEQHTLAEIGRRLNVSRERIRQVE 291 Query: 274 ARAFKKV 280 ARA +K+ Sbjct: 292 ARALQKL 298 >gi|255318840|ref|ZP_05360066.1| RNA polymerase sigma factor RpoD [Acinetobacter radioresistens SK82] gi|255304096|gb|EET83287.1| RNA polymerase sigma factor RpoD [Acinetobacter radioresistens SK82] Length = 626 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 504 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE + D+N + D +G ++ E Sbjct: 505 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDQNITSPVDAAT--SEGLKEATRE--- 558 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + L RE ++ + R + P TLE + +F+V+RER+RQIEA+A + Sbjct: 559 ----------VLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALR 608 Query: 279 KVQ 281 K++ Sbjct: 609 KLR 611 >gi|251791058|ref|YP_003005779.1| RNA polymerase sigma factor RpoD [Dickeya zeae Ech1591] gi|247539679|gb|ACT08300.1| RNA polymerase, sigma 70 subunit, RpoD [Dickeya zeae Ech1591] Length = 611 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|238756616|ref|ZP_04617911.1| RNA polymerase sigma factor rpoD [Yersinia ruckeri ATCC 29473] gi|238705164|gb|EEP97586.1| RNA polymerase sigma factor rpoD [Yersinia ruckeri ATCC 29473] Length = 613 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|153214921|ref|ZP_01949704.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 1587] gi|262151177|ref|ZP_06028315.1| RNA polymerase sigma factor RpoD [Vibrio cholerae INDRE 91/1] gi|124114994|gb|EAY33814.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 1587] gi|262031008|gb|EEY49634.1| RNA polymerase sigma factor RpoD [Vibrio cholerae INDRE 91/1] Length = 595 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 357 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 416 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 417 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 474 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 475 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 518 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 519 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 578 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 579 KLRHPSRSEV 588 >gi|51597716|ref|YP_071907.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 32953] gi|108809138|ref|YP_653054.1| RNA polymerase sigma factor RpoD [Yersinia pestis Antiqua] gi|108810668|ref|YP_646435.1| RNA polymerase sigma factor RpoD [Yersinia pestis Nepal516] gi|150260325|ref|ZP_01917053.1| RNA polymerase sigma factor RpoD [Yersinia pestis CA88-4125] gi|153950753|ref|YP_001399546.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 31758] gi|165924959|ref|ZP_02220791.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. F1991016] gi|165937882|ref|ZP_02226443.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. IP275] gi|166008817|ref|ZP_02229715.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. E1979001] gi|166212040|ref|ZP_02238075.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. B42003004] gi|167399605|ref|ZP_02305129.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167419320|ref|ZP_02311073.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167425120|ref|ZP_02316873.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Mediaevalis str. K1973002] gi|170022885|ref|YP_001719390.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis YPIII] gi|186896860|ref|YP_001873972.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis PB1/+] gi|218927836|ref|YP_002345711.1| RNA polymerase sigma factor RpoD [Yersinia pestis CO92] gi|229837321|ref|ZP_04457484.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Pestoides A] gi|229840533|ref|ZP_04460692.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229842919|ref|ZP_04463070.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229900861|ref|ZP_04515985.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Nepal516] gi|294502714|ref|YP_003566776.1| RNA polymerase sigma factor RpoD [Yersinia pestis Z176003] gi|51590998|emb|CAH22656.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 32953] gi|108774316|gb|ABG16835.1| RNA polymerase sigma factor RpoD [Yersinia pestis Nepal516] gi|108781051|gb|ABG15109.1| RNA polymerase sigma factor RpoD [Yersinia pestis Antiqua] gi|115346447|emb|CAL19320.1| RNA polymerase sigma factor RpoD [Yersinia pestis CO92] gi|149289733|gb|EDM39810.1| RNA polymerase sigma factor RpoD [Yersinia pestis CA88-4125] gi|152962248|gb|ABS49709.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 31758] gi|165914294|gb|EDR32910.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. IP275] gi|165923159|gb|EDR40310.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. F1991016] gi|165992156|gb|EDR44457.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. E1979001] gi|166206786|gb|EDR51266.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. B42003004] gi|166963314|gb|EDR59335.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167052109|gb|EDR63517.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167055883|gb|EDR65664.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Mediaevalis str. K1973002] gi|169749419|gb|ACA66937.1| RNA polymerase, sigma 70 subunit, RpoD [Yersinia pseudotuberculosis YPIII] gi|186699886|gb|ACC90515.1| RNA polymerase, sigma 70 subunit, RpoD [Yersinia pseudotuberculosis PB1/+] gi|229682200|gb|EEO78292.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Nepal516] gi|229689985|gb|EEO82043.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229696899|gb|EEO86946.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229705444|gb|EEO91454.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Pestoides A] gi|262360743|gb|ACY57464.1| RNA polymerase sigma factor RpoD [Yersinia pestis D106004] gi|294353173|gb|ADE63514.1| RNA polymerase sigma factor RpoD [Yersinia pestis Z176003] gi|320016798|gb|ADW00370.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 612 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|329298675|ref|ZP_08256011.1| RNA polymerase sigma factor RpoD [Plautia stali symbiont] Length = 610 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 432 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 489 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 490 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 532 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 533 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 592 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 593 RKLRHPSRSEV 603 >gi|307129360|ref|YP_003881376.1| RNA polymerase sigma-70 (sigma D) factor [Dickeya dadantii 3937] gi|306526889|gb|ADM96819.1| RNA polymerase, sigma 70 (sigma D) factor [Dickeya dadantii 3937] Length = 611 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|293394293|ref|ZP_06638593.1| DNA-directed RNA polymerase sigma subunit RpoD [Serratia odorifera DSM 4582] gi|291423271|gb|EFE96500.1| DNA-directed RNA polymerase sigma subunit RpoD [Serratia odorifera DSM 4582] Length = 647 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 409 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 468 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 469 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 526 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 527 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 569 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 570 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 629 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 630 RKLRHPSRSEV 640 >gi|261210089|ref|ZP_05924387.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC341] gi|260840854|gb|EEX67396.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC341] Length = 628 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 450 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 507 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 508 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 551 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 552 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 611 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 612 KLRHPSRSEV 621 >gi|260767412|ref|ZP_05876349.1| RNA polymerase sigma factor RpoD [Vibrio furnissii CIP 102972] gi|260617524|gb|EEX42706.1| RNA polymerase sigma factor RpoD [Vibrio furnissii CIP 102972] gi|315181195|gb|ADT88109.1| RNA polymerase sigma factor RpoD [Vibrio furnissii NCTC 11218] Length = 628 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 116/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 450 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 507 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 508 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 551 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 552 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 611 Query: 279 KV 280 K+ Sbjct: 612 KL 613 >gi|147674012|ref|YP_001216017.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395] gi|146315895|gb|ABQ20434.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395] gi|227012343|gb|ACP08553.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395] Length = 621 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 383 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 442 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 443 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 500 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 501 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 544 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 545 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 604 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 605 KLRHPSRSEV 614 >gi|242240773|ref|YP_002988954.1| RNA polymerase sigma factor RpoD [Dickeya dadantii Ech703] gi|242132830|gb|ACS87132.1| RNA polymerase, sigma 70 subunit, RpoD [Dickeya dadantii Ech703] Length = 612 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|153309|gb|AAA26764.1| principal sigma-like factor [Streptomyces aureofaciens] Length = 528 Score = 90.1 bits (222), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 77/299 (25%), Positives = 141/299 (47%), Gaps = 40/299 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ I K+P+L ++E LAKR E G S A + Sbjct: 235 YLKLIGKVPLLNAEQEVELAKRI-EAGLFSEYKLEEEEDHKPAFKRELEILVEDGRRAKN 293 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 294 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNVGLIRAVEKFDYTKGFKFSTYATWWIRQ 353 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + ++I + + L R++ + PE+ + K+L+++ Sbjct: 354 AITRAMADQSRTIRI--PVHMVEIINKLARVQRQMLQDLGREPTPEE---LGKELDMTPE 408 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +VI + G E ++ ++ S++ D + D + V + + L Sbjct: 409 KVIEVQKY--GREPISLHTPLGEEGDSEFGDLI---EDSEAVVPADAVSFTFLQEQLQSI 463 Query: 232 MSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + L+ RE + R L + P TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 464 LGTLSEREAGVVSMRYGLNDGQPKTLDEIGRVYGVTRERIRQIESKTMSKLRHPSRSQV 522 >gi|238794325|ref|ZP_04637937.1| RNA polymerase sigma factor rpoD [Yersinia intermedia ATCC 29909] gi|238726319|gb|EEQ17861.1| RNA polymerase sigma factor rpoD [Yersinia intermedia ATCC 29909] Length = 612 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|145300336|ref|YP_001143177.1| RNA polymerase sigma factor RpoD [Aeromonas salmonicida subsp. salmonicida A449] gi|142853108|gb|ABO91429.1| RNA polymerase sigma factor RpoD [Aeromonas salmonicida subsp. salmonicida A449] Length = 616 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 119/250 (47%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPNPEELAMRMGMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + + Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLALPADAAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ RN ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 SESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 600 KLRHPSRSEV 609 >gi|269960187|ref|ZP_06174562.1| RNA polymerase sigma factor [Vibrio harveyi 1DA3] gi|269834994|gb|EEZ89078.1| RNA polymerase sigma factor [Vibrio harveyi 1DA3] Length = 639 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 401 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 461 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 518 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 519 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 562 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 563 ATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 622 Query: 279 KVQ 281 K++ Sbjct: 623 KLR 625 >gi|271499150|ref|YP_003332175.1| RNA polymerase sigma-70 subunit RpoD [Dickeya dadantii Ech586] gi|270342705|gb|ACZ75470.1| RNA polymerase, sigma 70 subunit, RpoD [Dickeya dadantii Ech586] Length = 611 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|253991033|ref|YP_003042389.1| RNA polymerase sigma factor RpoD [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253782483|emb|CAQ85647.1| rna polymerase, sigma(70) factor; regulation of proteins induced a high temperatures (rna polymerase sigma 70 factor rpod) [Photorhabdus asymbiotica] Length = 651 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 413 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 472 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 473 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 530 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 531 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 573 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 574 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 633 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 634 RKLRHPSRSEV 644 >gi|238762467|ref|ZP_04623438.1| RNA polymerase sigma factor rpoD [Yersinia kristensenii ATCC 33638] gi|238699452|gb|EEP92198.1| RNA polymerase sigma factor rpoD [Yersinia kristensenii ATCC 33638] Length = 613 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 597 KLRHPSRSEV 606 >gi|320539899|ref|ZP_08039558.1| putative RNA polymerase, sigma 70 (sigma D) factor [Serratia symbiotica str. Tucson] gi|320030085|gb|EFW12105.1| putative RNA polymerase, sigma 70 (sigma D) factor [Serratia symbiotica str. Tucson] Length = 607 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 369 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 428 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 429 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPMPEELAERMLMPED-- 486 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 487 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTFELPLDSAT 530 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 531 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 590 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 591 KLRHPSRSEV 600 >gi|253686949|ref|YP_003016139.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251753527|gb|ACT11603.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 612 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|288941560|ref|YP_003443800.1| RNA polymerase sigma-70 subunit RpoD [Allochromatium vinosum DSM 180] gi|288896932|gb|ADC62768.1| RNA polymerase, sigma 70 subunit, RpoD [Allochromatium vinosum DSM 180] Length = 623 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 118/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 384 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 443 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R+ + PE++ A Sbjct: 444 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMIQEMGREATPEELAARMDMPED 501 Query: 162 -IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K L +++ E ISM + DE L I S S D E + Sbjct: 502 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSGVISP-------LDSATAEGL---- 549 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 R+ +NML + L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 550 --REATQNML----ASLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 603 Query: 277 FKKVQ 281 +K++ Sbjct: 604 LRKLR 608 >gi|284031355|ref|YP_003381286.1| RpoD subfamily RNA polymerase sigma-70 subunit [Kribbella flavida DSM 17836] gi|283810648|gb|ADB32487.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kribbella flavida DSM 17836] Length = 442 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 76/300 (25%), Positives = 140/300 (46%), Gaps = 41/300 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS----------------------------AA 50 Y+ +I K+P+L ++E LAKR E G + A Sbjct: 148 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEEQLSDESAKLKDKVRDEYDWISEDGRRAK 206 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 207 NHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 266 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 A+ + ++I + + L R++ + PE+ +AK+L+++ Sbjct: 267 QAITRAMADQARTIRI--PVHMVEVINKLARVQRQMLQDLGREPTPEE---LAKELDMTP 321 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 +VI + G E ++ + S++ D + D + V E + L Sbjct: 322 EKVIEVQKY--GREPISLHTPLGEDGDSEFGDLI---EDSEAIVPAEAVSFTLLQEQLHA 376 Query: 231 SMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + L+ RE + R P TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 377 VLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 436 >gi|238750950|ref|ZP_04612447.1| RNA polymerase sigma factor rpoD [Yersinia rohdei ATCC 43380] gi|238710864|gb|EEQ03085.1| RNA polymerase sigma factor rpoD [Yersinia rohdei ATCC 43380] Length = 612 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 491 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 535 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 536 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 595 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 596 KLRHPSRSEV 605 >gi|50119628|ref|YP_048795.1| RNA polymerase sigma factor RpoD [Pectobacterium atrosepticum SCRI1043] gi|49610154|emb|CAG73594.1| RNA polymerase sigma-70 factor [Pectobacterium atrosepticum SCRI1043] Length = 611 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|254226294|ref|ZP_04919885.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V51] gi|125621156|gb|EAZ49499.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V51] Length = 625 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 504 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 505 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 548 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 549 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 608 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 609 KLRHPSRSEV 618 >gi|262167116|ref|ZP_06034830.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC27] gi|262024416|gb|EEY43103.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC27] Length = 621 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 383 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 442 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 443 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 500 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 501 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 544 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 545 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 604 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 605 KLRHPSRSEV 614 >gi|229525180|ref|ZP_04414585.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] gi|229338761|gb|EEO03778.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] Length = 642 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 404 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 463 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 464 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 521 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 522 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 565 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 566 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 625 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 626 KLRHPSRSEV 635 >gi|15595773|ref|NP_249267.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAO1] gi|116054304|ref|YP_788749.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa UCBPP-PA14] gi|218889317|ref|YP_002438181.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa LESB58] gi|254243670|ref|ZP_04936992.1| sigma factor RpoD [Pseudomonas aeruginosa 2192] gi|296387081|ref|ZP_06876580.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAb1] gi|313111780|ref|ZP_07797573.1| sigma factor RpoD [Pseudomonas aeruginosa 39016] gi|133310|sp|P26480|RPOD_PSEAE RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|9946447|gb|AAG03965.1|AE004494_1 sigma factor RpoD [Pseudomonas aeruginosa PAO1] gi|216913|dbj|BAA14146.1| principal sigma factor [Pseudomonas aeruginosa] gi|30060254|gb|AAP13091.1| RpoD [Pseudomonas sp. M18] gi|115589525|gb|ABJ15540.1| sigma factor RpoD [Pseudomonas aeruginosa UCBPP-PA14] gi|126197048|gb|EAZ61111.1| sigma factor RpoD [Pseudomonas aeruginosa 2192] gi|218769540|emb|CAW25300.1| sigma factor RpoD [Pseudomonas aeruginosa LESB58] gi|310884075|gb|EFQ42669.1| sigma factor RpoD [Pseudomonas aeruginosa 39016] Length = 617 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 493 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D S D++ D Q IE ++ + Sbjct: 494 PEDKIRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDSTMQSPIEMATSESLKEST 548 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 549 REVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 603 >gi|15640541|ref|NP_230168.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121728933|ref|ZP_01681939.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V52] gi|153819447|ref|ZP_01972114.1| RNA polymerase sigma factor RpoD [Vibrio cholerae NCTC 8457] gi|153822185|ref|ZP_01974852.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|227080700|ref|YP_002809251.1| RNA polymerase sigma factor RpoD [Vibrio cholerae M66-2] gi|254291201|ref|ZP_04961997.1| RNA polymerase sigma factor RpoD [Vibrio cholerae AM-19226] gi|254850756|ref|ZP_05240106.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MO10] gi|255744255|ref|ZP_05418208.1| RNA polymerase sigma factor RpoD [Vibrio cholera CIRS 101] gi|9654945|gb|AAF93687.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121628781|gb|EAX61245.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V52] gi|126510018|gb|EAZ72612.1| RNA polymerase sigma factor RpoD [Vibrio cholerae NCTC 8457] gi|126520320|gb|EAZ77543.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|150422895|gb|EDN14846.1| RNA polymerase sigma factor RpoD [Vibrio cholerae AM-19226] gi|220897845|dbj|BAH11107.1| RNA polymerase sigma factor [Vibrio cholerae O1 biovar El tor] gi|227008588|gb|ACP04800.1| RNA polymerase sigma factor RpoD [Vibrio cholerae M66-2] gi|254846461|gb|EET24875.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MO10] gi|255738195|gb|EET93587.1| RNA polymerase sigma factor RpoD [Vibrio cholera CIRS 101] Length = 625 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 504 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 505 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 548 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 549 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 608 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 609 KLRHPSRSEV 618 >gi|262401783|ref|ZP_06078349.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC586] gi|262352200|gb|EEZ01330.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC586] Length = 627 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 389 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 448 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 449 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 506 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 507 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 550 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 551 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 610 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 611 KLRHPSRSEV 620 >gi|260775520|ref|ZP_05884417.1| RNA polymerase sigma factor RpoD [Vibrio coralliilyticus ATCC BAA-450] gi|260608701|gb|EEX34866.1| RNA polymerase sigma factor RpoD [Vibrio coralliilyticus ATCC BAA-450] Length = 617 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 497 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 STSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 279 KVQ 281 K++ Sbjct: 601 KLR 603 >gi|317049603|ref|YP_004117251.1| RNA polymerase,sigma 70 subunit,RpoD [Pantoea sp. At-9b] gi|316951220|gb|ADU70695.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. At-9b] Length = 614 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|254445278|ref|ZP_05058754.1| Sigma-70 region 3 family [Verrucomicrobiae bacterium DG1235] gi|198259586|gb|EDY83894.1| Sigma-70 region 3 family [Verrucomicrobiae bacterium DG1235] Length = 576 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 79/267 (29%), Positives = 125/267 (46%), Gaps = 36/267 (13%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHR----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 LE ++ L R H L AAH+ +V ++LRLV+ IA Y GL +++ EGN+ Sbjct: 294 LEPEKLLSLIAEVRRH--LKAAHKAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNM 351 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN-----QKRL 135 GLM+AV+KF+ RG++ +TY+ WWI+ A+ I ++I T N QK+L Sbjct: 352 GLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQL 411 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + + L E+V I K + IS+ + + N DK Sbjct: 412 LQEYGHEPTPEEVAEEMALPVERVQTIMK----MAQQPISLQSPVGDGDDTNFGDFIEDK 467 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPV 253 ++ D + +L EK + + L RERR+ R + Sbjct: 468 SAENPYDQTAF------SLLREK---------IIDVLDSLTERERRVLSLRFGLVDGYSR 512 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKV 280 TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 513 TLEEVGKQFKVTRERIRQIEAKALRKM 539 >gi|153801472|ref|ZP_01956058.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-3] gi|124122963|gb|EAY41706.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-3] Length = 625 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 447 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 504 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 505 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 548 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 549 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 608 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 609 KLRHPSRSEV 618 >gi|88798840|ref|ZP_01114422.1| RNA polymerase sigma factor [Reinekea sp. MED297] gi|88778320|gb|EAR09513.1| RNA polymerase sigma factor [Reinekea sp. MED297] Length = 614 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 113/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMDMPED 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +S+ E IS+ + DE S D++ D + + Sbjct: 494 KIRKVLKISK-EPISLETPIGDDE------------DSSLGDFI---EDNTMILPVNSAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFK 278 R+ T ++ L RE ++ R TLE + +F+V+RER+RQIEA+A + Sbjct: 538 STGLRDATTEVLAGLTAREAKVLRMRFGINMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KVQ 281 K++ Sbjct: 598 KLR 600 >gi|298250072|ref|ZP_06973876.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297548076|gb|EFH81943.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 319 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 148/293 (50%), Gaps = 50/293 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-------REHGDLS------------AAHRLVTSHLR 59 Y +EI ++ +L K E LA+R R+ LS A +L+ ++LR Sbjct: 32 YRYEIGQVELLSKDEVTDLAQRIEKAQANIRKQRGLSRSARLDDNEAQEAKRQLIEANLR 91 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 LV+ IA YRG+G+ + +++ EGN+GLM AV KFD ++G+R +TY+ WWI+ +YI R Sbjct: 92 LVMHIARKYRGFGVDLMDLIQEGNLGLMHAVDKFDYKKGYRFSTYATWWIR----QYITR 147 Query: 120 SWS------LVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNV--SE 170 + S V + KRL R++ +G T L + +++ + + + + Sbjct: 148 ALSEQAHMIRVPLYKIEEIKRLGRVKRKMQQGETGEPTLEELAVQMEISVPEVIALLSTN 207 Query: 171 SEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E IS++ R GD+ ++ S +D +Y E+V++ + ++ +++L Sbjct: 208 QETISLDMPRKGGDDEISL--------SEVLEDDPIY---SPERVVLTQTLQEQVQDIL- 255 Query: 230 RSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE+++ + R L N +L + +S E VRQ+E RA KK+ Sbjct: 256 ---NCLTPREKKVLQLRFGLNGNGEHSLTETGKKMGLSHEAVRQMEFRALKKL 305 >gi|238760057|ref|ZP_04621208.1| RNA polymerase sigma factor rpoD [Yersinia aldovae ATCC 35236] gi|238701744|gb|EEP94310.1| RNA polymerase sigma factor rpoD [Yersinia aldovae ATCC 35236] Length = 611 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 490 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 534 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 535 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 594 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 595 KLRHPSRSEV 604 >gi|153828433|ref|ZP_01981100.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 623-39] gi|148876142|gb|EDL74277.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 623-39] Length = 572 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 334 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 393 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 394 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 451 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 452 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 495 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 496 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 555 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 556 KLRHPSRSEV 565 >gi|121591668|ref|ZP_01678905.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 2740-80] gi|121546475|gb|EAX56696.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 2740-80] Length = 603 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 365 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 424 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 425 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 482 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 483 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 526 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 527 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 586 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 587 KLRHPSRSEV 596 >gi|323359909|ref|YP_004226305.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Microbacterium testaceum StLB037] gi|323276280|dbj|BAJ76425.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Microbacterium testaceum StLB037] Length = 436 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 81/311 (26%), Positives = 142/311 (45%), Gaps = 64/311 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------DLSAAHR------------------ 52 Y+ +I K+P+L EE LA R E G ++SAA + Sbjct: 141 YLKQIGKVPLLNAAEEVELAMRI-EAGLFAEEKLSNMSAAEKTSQLGLDLQWVARDGQRA 199 Query: 53 ---LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI Sbjct: 200 KSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWI 259 Query: 110 KAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 + A+ + ++I Q+++ +L R + + ++ PE+V+ Sbjct: 260 RQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKVI 319 Query: 161 AIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K E IS++ L GD LI ++ V D ++++ Sbjct: 320 EVQK----YGREPISLHTPLGEDGDSEFGDLIEDTEA---------VVPADAVGFTMLQR 366 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARA 276 + L + L+ RE + R L + P TL+ + F V+RER+RQIE++ Sbjct: 367 Q--------LESLLDSLSEREAGVIRMRFGLGDGQPKTLDQIGDTFGVTRERIRQIESKT 418 Query: 277 FKKVQESIQKQ 287 K++ + Q Sbjct: 419 MAKLRHPSRSQ 429 >gi|261820103|ref|YP_003258209.1| RNA polymerase sigma factor RpoD [Pectobacterium wasabiae WPP163] gi|261604116|gb|ACX86602.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium wasabiae WPP163] Length = 611 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|229507128|ref|ZP_04396634.1| RNA polymerase sigma factor RpoD [Vibrio cholerae BX 330286] gi|229509009|ref|ZP_04398497.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|229512571|ref|ZP_04402042.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TMA 21] gi|229519677|ref|ZP_04409120.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC9] gi|229520813|ref|ZP_04410235.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TM 11079-80] gi|229530331|ref|ZP_04419719.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 12129(1)] gi|229606193|ref|YP_002876841.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MJ-1236] gi|229332104|gb|EEN97592.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 12129(1)] gi|229342046|gb|EEO07042.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TM 11079-80] gi|229344366|gb|EEO09341.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC9] gi|229350464|gb|EEO15413.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TMA 21] gi|229353934|gb|EEO18868.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|229355873|gb|EEO20793.1| RNA polymerase sigma factor RpoD [Vibrio cholerae BX 330286] gi|229368848|gb|ACQ59271.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MJ-1236] Length = 642 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 404 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 463 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 464 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 521 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 522 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 565 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 566 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 625 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 626 KLRHPSRSEV 635 >gi|152984199|ref|YP_001346113.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PA7] gi|150959357|gb|ABR81382.1| sigma factor RpoD [Pseudomonas aeruginosa PA7] Length = 617 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 493 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D S D++ D Q IE ++ + Sbjct: 494 PEDKIRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDSTMQSPIEMATSESLKEST 548 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 549 REVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 603 >gi|115378523|ref|ZP_01465679.1| sigma-D factor [Stigmatella aurantiaca DW4/3-1] gi|115364445|gb|EAU63524.1| sigma-D factor [Stigmatella aurantiaca DW4/3-1] Length = 171 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 46/125 (36%), Positives = 76/125 (60%), Gaps = 1/125 (0%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 GLS Y+ + L +++EY LA+ R+ GD SA L TS+L VV +A + G Sbjct: 11 GLSHYLRHLGGHHQLTREQEYELARAARK-GDESARQTLATSNLAFVVAVAKKFANRGAR 69 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ EGN+GLM+A++ FDP++ R ATY++WWI+A + Y+ + S V+ G + Sbjct: 70 LDDLIQEGNVGLMKAIEHFDPKKNVRFATYAVWWIRAYITRYLKDNRSQVRGGESERGSM 129 Query: 135 LFFNL 139 + F+L Sbjct: 130 VDFSL 134 >gi|107099562|ref|ZP_01363480.1| hypothetical protein PaerPA_01000575 [Pseudomonas aeruginosa PACS2] Length = 604 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 366 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 425 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 426 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 480 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D S D++ D Q IE ++ + Sbjct: 481 PEDKIRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDSTMQSPIEMATSESLKEST 535 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 536 REVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 590 >gi|170719016|ref|YP_001784175.1| RNA polymerase sigma factor RpoD [Haemophilus somnus 2336] gi|168827145|gb|ACA32516.1| RNA polymerase, sigma 70 subunit, RpoD [Haemophilus somnus 2336] Length = 621 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 383 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 442 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + E+ +A+++ + Sbjct: 443 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQKMGREATSEE---LAERMGM 497 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 498 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDNTLELPLDSATAQSLRAAT 552 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 553 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 606 >gi|300718455|ref|YP_003743258.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia billingiae Eb661] gi|299064291|emb|CAX61411.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia billingiae Eb661] Length = 612 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|238782836|ref|ZP_04626865.1| RNA polymerase sigma factor rpoD [Yersinia bercovieri ATCC 43970] gi|238716259|gb|EEQ08242.1| RNA polymerase sigma factor rpoD [Yersinia bercovieri ATCC 43970] Length = 612 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|292486903|ref|YP_003529773.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora CFBP1430] gi|292900702|ref|YP_003540071.1| RNA polymerase sigma-70 factor [Erwinia amylovora ATCC 49946] gi|291200550|emb|CBJ47679.1| RNA polymerase sigma-70 factor [Erwinia amylovora ATCC 49946] gi|291552320|emb|CBA19364.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora CFBP1430] gi|312170973|emb|CBX79232.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora ATCC BAA-2158] Length = 614 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 538 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 598 KLRHPSRSEV 607 >gi|269956779|ref|YP_003326568.1| RpoD subfamily RNA polymerase sigma-70 subunit [Xylanimonas cellulosilytica DSM 15894] gi|269305460|gb|ACZ31010.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Xylanimonas cellulosilytica DSM 15894] Length = 549 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/258 (27%), Positives = 126/258 (48%), Gaps = 34/258 (13%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +T Sbjct: 307 HDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFST 366 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNL 154 Y+ WWI+ A+ + ++I Q+++ +L R + + ++ Sbjct: 367 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDM 426 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+VV + K E IS++ L GD LI S+ V D Sbjct: 427 TPEKVVEVQK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVS 473 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVR 270 L++++ L + + L+ RE + R LQ+ P TL+ + + V+RER+R Sbjct: 474 FTLLQEQ--------LHQVLDTLSEREAGVVSMRFGLQDGQPKTLDEIGKVYGVTRERIR 525 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 526 QIESKTMSKLRHPSRSQV 543 >gi|238918478|ref|YP_002931992.1| RNA polymerase sigma factor RpoD [Edwardsiella ictaluri 93-146] gi|238868046|gb|ACR67757.1| RNA polymerase sigma factor RpoD, putative [Edwardsiella ictaluri 93-146] Length = 611 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 121/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 433 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMMMPED 490 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 534 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 535 SESLRSATRDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 594 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 595 KLRHPSRSEV 604 >gi|149194280|ref|ZP_01871377.1| RNA polymerase sigma factor RpoD [Caminibacter mediatlanticus TB-2] gi|149135455|gb|EDM23934.1| RNA polymerase sigma factor RpoD [Caminibacter mediatlanticus TB-2] Length = 604 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 122/240 (50%), Gaps = 21/240 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GLP +++ EGNIGLM+A+ KF+ E+G++ +TY+ WW Sbjct: 365 AKEKMARANLRLVVSIAKKYTNRGLPFLDLIQEGNIGLMKAIDKFEFEKGYKFSTYATWW 424 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I V+I + N+ ++ ++ K + IAK++ + Sbjct: 425 IRQAISRAIADQARTVRIPI-----HMIENINQINKIIRKYVQEEGKEPSLEVIAKEMKM 479 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWL---VYDHDGQEQVLIEKEERKNR 224 E I +++ + SL A + + ++ D++ + + E VL ++ Sbjct: 480 P-VEKIKQILKISKEPISLEAPVGEEE--DGKFGDFIEDKSFSNPYDEVVL------EDL 530 Query: 225 RNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + + LN RE+ + + R ++ TLE + V+RERVRQIE+ A KK++ Sbjct: 531 RKHIDEILENLNEREKAVIKMRFGLMPDKSERTLEEIGKALNVTRERVRQIESSAIKKLR 590 >gi|94263318|ref|ZP_01287133.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93456273|gb|EAT06403.1| Sigma-70-like protein [delta proteobacterium MLMS-1] Length = 442 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 124/244 (50%), Gaps = 19/244 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL +++++ EGN+GLM+AV +FD +G + +TY+ WW Sbjct: 206 AKDAMIKANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYTKGNKFSTYASWW 265 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR--LKGHLQAITDNNLKPEQVVAIAKKL 166 I+ A+ IL +++ F LR K + + +P V I++K Sbjct: 266 IRQAITRAILDKTRTIRLPVH------FLELRSQFFKAFYSLLKELGREP-TPVEISEKT 318 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-R 225 + +++++ SL + D S D+L + QE + + + N+ Sbjct: 319 GLPMEKILAIFEASREPISLETPVGDDD---STLGDFL----ENQESISPYEAVKGNQLA 371 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +T +S L+PRE +I R ++ TLE + F VSRER+RQIE +A +++ S Sbjct: 372 ERVTTILSTLSPREEKIIRLRFGIGEDAEYTLEEIGKRFNVSRERIRQIEKKALNRLRHS 431 Query: 284 IQKQ 287 +++ Sbjct: 432 SRRE 435 >gi|269137812|ref|YP_003294512.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Edwardsiella tarda EIB202] gi|267983472|gb|ACY83301.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Edwardsiella tarda EIB202] gi|304557867|gb|ADM40531.1| RNA polymerase sigma factor RpoD [Edwardsiella tarda FL6-60] Length = 611 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 121/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 433 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMMMPED 490 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 534 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 535 SESLRSATRDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 594 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 595 KLRHPSRSEV 604 >gi|113461378|ref|YP_719447.1| RNA polymerase sigma factor RpoD [Haemophilus somnus 129PT] gi|112823421|gb|ABI25510.1| RNA polymerase, sigma 70 subunit, RpoD [Haemophilus somnus 129PT] Length = 595 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 357 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 416 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + E+ +A+++ + Sbjct: 417 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQKMGREATSEE---LAERMGM 471 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 472 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDNTLELPLDSATAQSLRAAT 526 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 527 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 580 >gi|322831339|ref|YP_004211366.1| RNA polymerase, sigma 70 subunit, RpoD [Rahnella sp. Y9602] gi|321166540|gb|ADW72239.1| RNA polymerase, sigma 70 subunit, RpoD [Rahnella sp. Y9602] Length = 612 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|254237208|ref|ZP_04930531.1| sigma factor RpoD [Pseudomonas aeruginosa C3719] gi|126169139|gb|EAZ54650.1| sigma factor RpoD [Pseudomonas aeruginosa C3719] Length = 617 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPNPEE---LGERMDM 493 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D S D++ D Q IE ++ + Sbjct: 494 PEDKIRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDSTMQSPIEMATSESLKEST 548 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 549 REVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 603 >gi|147756|gb|AAA24601.1| RNA polymerase sigma-subunit [Escherichia coli] Length = 613 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/251 (28%), Positives = 125/251 (49%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|37527834|ref|NP_931179.1| RNA polymerase sigma factor RpoD [Photorhabdus luminescens subsp. laumondii TTO1] gi|36787270|emb|CAE16351.1| RNA polymerase sigma factor rpoD (Sigma-70) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 614 Score = 90.1 bits (222), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|242310656|ref|ZP_04809811.1| RNA polymerase sigma factor [Helicobacter pullorum MIT 98-5489] gi|239523054|gb|EEQ62920.1| RNA polymerase sigma factor [Helicobacter pullorum MIT 98-5489] Length = 615 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 124/246 (50%), Gaps = 14/246 (5%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR ++ D A ++ S+LRLVV IA Y GLP +++ EGNIGLM+AV KF+ ++G Sbjct: 367 KRGKDIAD-RAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKG 425 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I ++I + + R+ ++ K Sbjct: 426 YKFSTYATWWIRQAISRAIADQARTIRIPI-----HMIETINRINKIMRKYLQEEGKEPD 480 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + IA+++ + +V ++ SL A I + + ++ D++ D ++ Sbjct: 481 IEKIAEEVGLPVDKVKNVIKITKEPISLEAPIGNGE--DGKFGDFV---EDKASLGPMDS 535 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEAR 275 +++ + + + LN RE+ + R E+ TLE + E V+RERVRQIE+ Sbjct: 536 ILKEDLKAQIDDVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESS 595 Query: 276 AFKKVQ 281 A KK++ Sbjct: 596 AIKKLK 601 >gi|262392398|ref|YP_003284252.1| RNA polymerase sigma factor RpoD [Vibrio sp. Ex25] gi|262335992|gb|ACY49787.1| RNA polymerase sigma factor RpoD [Vibrio sp. Ex25] Length = 620 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 499 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 500 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 543 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 544 ATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 603 Query: 279 KVQ 281 K++ Sbjct: 604 KLR 606 >gi|294634612|ref|ZP_06713146.1| RNA polymerase sigma factor RpoD [Edwardsiella tarda ATCC 23685] gi|291091942|gb|EFE24503.1| RNA polymerase sigma factor RpoD [Edwardsiella tarda ATCC 23685] Length = 613 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 121/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 435 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMMMPED 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 SESLRSATRDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 597 KLRHPSRSEV 606 >gi|259907100|ref|YP_002647456.1| RNA polymerase sigma factor RpoD [Erwinia pyrifoliae Ep1/96] gi|224962722|emb|CAX54177.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia pyrifoliae Ep1/96] gi|283476901|emb|CAY72757.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia pyrifoliae DSM 12163] gi|310766301|gb|ADP11251.1| RNA polymerase sigma factor RpoD [Erwinia sp. Ejp617] Length = 613 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 597 KLRHPSRSEV 606 >gi|149910043|ref|ZP_01898691.1| RNA polymerase sigma factor [Moritella sp. PE36] gi|149806911|gb|EDM66872.1| RNA polymerase sigma factor [Moritella sp. PE36] Length = 609 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 371 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 430 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ I ++I + L R+ + PE++ Sbjct: 431 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEELAERMMMPED 488 Query: 162 -IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + ++ Sbjct: 489 RIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLSLPVDAAT 532 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + + ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 533 KDSLKGATDDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 592 Query: 279 KVQ 281 K++ Sbjct: 593 KLR 595 >gi|330831100|ref|YP_004394052.1| RNA polymerase sigma factor [Aeromonas veronii B565] gi|328806236|gb|AEB51435.1| RNA polymerase sigma factor [Aeromonas veronii B565] Length = 618 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 119/250 (47%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPNPEELAMRMGMPED 497 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + + Sbjct: 498 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLALPADAAT 541 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ RN ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 542 SESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 601 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 602 KLRHPSRSEV 611 >gi|145597737|ref|YP_001161813.1| RNA polymerase sigma factor RpoD [Yersinia pestis Pestoides F] gi|145209433|gb|ABP38840.1| RNA polymerase sigma factor RpoD [Yersinia pestis Pestoides F] Length = 608 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 370 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 429 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 430 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 487 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 488 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLKLPLDSA 530 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 531 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 590 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 591 RKLRHPSRSEV 601 >gi|72162538|ref|YP_290195.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71916270|gb|AAZ56172.1| carbamoyl-phosphate synthase L chain, ATP-binding [Thermobifida fusca YX] Length = 616 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 79/311 (25%), Positives = 141/311 (45%), Gaps = 63/311 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------------------------EHGDLSAA 50 Y+ +I K+P+L ++E LAKR E G + Sbjct: 322 YLKQIGKVPLLNAEQEVELAKRIEAGLFAEEKLSKKGHELTPEEREELEWIAEDGKRAKK 381 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 382 H-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 440 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + ++ PE+VV Sbjct: 441 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVE 500 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI D + Q + + + L++++ Sbjct: 501 VQKYGR----EPISLHTPLGEDGDSEFGDLIE--DSEAIQPGEAVSF-------TLLQEQ 547 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 548 --------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTM 599 Query: 278 KKVQESIQKQV 288 K++ + QV Sbjct: 600 SKLRHPSRSQV 610 >gi|323495834|ref|ZP_08100902.1| RNA polymerase sigma factor RpoD [Vibrio sinaloensis DSM 21326] gi|323319050|gb|EGA71993.1| RNA polymerase sigma factor RpoD [Vibrio sinaloensis DSM 21326] Length = 620 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 499 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 500 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 543 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 544 ATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 603 Query: 279 KVQ 281 K++ Sbjct: 604 KLR 606 >gi|262189558|ref|ZP_06047968.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CT 5369-93] gi|262034560|gb|EEY52890.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CT 5369-93] Length = 522 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 284 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 343 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 344 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 401 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 402 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 445 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 446 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 505 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 506 KLRHPSRSEV 515 >gi|227329605|ref|ZP_03833629.1| RNA polymerase sigma factor RpoD [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 611 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|50726933|gb|AAT81163.1| principal sigma factor [Streptomyces ansochromogenes] Length = 440 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 79/308 (25%), Positives = 140/308 (45%), Gaps = 58/308 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 147 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 205 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 206 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 265 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 266 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 325 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 326 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQP 372 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R V++ R F Q P TL+ + + V+RER+RQIE++ K+ Sbjct: 373 DSVLDTLSEREAGVVSMR----FGLTDGQ--PKTLDEIGKVYGVTRERIRQIESKTMSKL 426 Query: 281 QESIQKQV 288 + + QV Sbjct: 427 RHPSRSQV 434 >gi|323493625|ref|ZP_08098746.1| RNA polymerase sigma factor RpoD [Vibrio brasiliensis LMG 20546] gi|323312148|gb|EGA65291.1| RNA polymerase sigma factor RpoD [Vibrio brasiliensis LMG 20546] Length = 617 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 497 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 ATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 279 KVQ 281 K++ Sbjct: 601 KLR 603 >gi|256832655|ref|YP_003161382.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Jonesia denitrificans DSM 20603] gi|256686186|gb|ACV09079.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Jonesia denitrificans DSM 20603] Length = 504 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 81/310 (26%), Positives = 141/310 (45%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH--------GDLS--------------AAH 51 Y+ +I K+ +L ++E LAKR Y E GD A + Sbjct: 210 YLKQIGKVALLNAEQEVELAKRIEAGLYAEERLAAGVAEGDRKLEREYRWIIQDGKRAKN 269 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 270 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 329 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 330 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEV 389 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 390 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 435 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 436 -------LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 488 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 489 KLRHPSRSQV 498 >gi|172036788|ref|YP_001803289.1| group 2 sigma-70 RNA polymerase sigma factor C [Cyanothece sp. ATCC 51142] gi|171698242|gb|ACB51223.1| group 2 sigma-70 RNA polymerase sigma factor C [Cyanothece sp. ATCC 51142] Length = 420 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 64/232 (27%), Positives = 125/232 (53%), Gaps = 13/232 (5%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ WWI+ Sbjct: 185 MIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPIKGYRFSTYAYWWIRQG 244 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I ++++ +K L ++K + I+ + + I K+LN++ ++ Sbjct: 245 ITRAIATQSRIIRLPVHVTEK-----LNKIKQVQRQISQAKGRNATLEEIGKELNMTPTQ 299 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 V + ++ SL I + ++ D L + E+ L + R++ +L Sbjct: 300 VREVFMKIPRSVSLE--IKVGKEKDTELVDLLESEDISPEENLAIESLRRDIGILLED-- 355 Query: 233 SVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQE 282 L RE+ + + R E+ V +L ++ ++SRERVRQIEA+A +K+++ Sbjct: 356 --LTEREQEVIKLRYGFEDGVSYSLADIGRTLDLSRERVRQIEAKALQKLRQ 405 >gi|16130963|ref|NP_417539.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. MG1655] gi|89109837|ref|AP_003617.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. W3110] gi|170082610|ref|YP_001731930.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. DH10B] gi|238902178|ref|YP_002927974.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli BW2952] gi|1710680|sp|P00579|RPOD_ECOLI RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|882590|gb|AAA89147.1| CG Site No. 231; alternate gene name alt [Escherichia coli str. K-12 substr. MG1655] gi|1789448|gb|AAC76103.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. MG1655] gi|73671318|gb|AAZ80070.1| RpoD [Escherichia coli LW1655F+] gi|85675868|dbj|BAE77118.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K12 substr. W3110] gi|169890445|gb|ACB04152.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. DH10B] gi|238863501|gb|ACR65499.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli BW2952] gi|260447898|gb|ACX38320.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli DH1] gi|315137660|dbj|BAJ44819.1| RNA polymerase sigma factor RpoD [Escherichia coli DH1] Length = 613 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/251 (28%), Positives = 125/251 (49%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|304312382|ref|YP_003811980.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [gamma proteobacterium HdN1] gi|301798115|emb|CBL46337.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [gamma proteobacterium HdN1] Length = 627 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 68/245 (27%), Positives = 117/245 (47%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPEE---LGERMDM 499 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE S D++ D Q ++ Sbjct: 500 PEDKVRKVLKIAKEPISMETPIGDDE------------DSHLGDFI---EDTTMQSPVDA 544 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 545 ATAESLREATRDVLASLTAREAKVLAMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 604 Query: 277 FKKVQ 281 +K++ Sbjct: 605 LRKLR 609 >gi|254229773|ref|ZP_04923181.1| sigma-70, non-essential region family [Vibrio sp. Ex25] gi|269968567|ref|ZP_06182570.1| RNA polymerase sigma factor [Vibrio alginolyticus 40B] gi|151937740|gb|EDN56590.1| sigma-70, non-essential region family [Vibrio sp. Ex25] gi|269826825|gb|EEZ81156.1| RNA polymerase sigma factor [Vibrio alginolyticus 40B] Length = 639 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 401 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 461 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 518 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 519 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 562 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 563 ATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 622 Query: 279 KVQ 281 K++ Sbjct: 623 KLR 625 >gi|91227144|ref|ZP_01261628.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] gi|91188796|gb|EAS75083.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] Length = 574 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 336 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 395 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 396 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 453 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 454 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 497 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 498 ATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 557 Query: 279 KVQ 281 K++ Sbjct: 558 KLR 560 >gi|224372659|ref|YP_002607031.1| RNA polymerase sigma factor RpoD [Nautilia profundicola AmH] gi|223588464|gb|ACM92200.1| rna polymerase sigma factor [Nautilia profundicola AmH] Length = 604 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 119/239 (49%), Gaps = 19/239 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GLP +++ EGNIGLM+A+ KF+ E+G++ +TY+ WW Sbjct: 365 AKEKMARANLRLVVSIAKKYTNRGLPFLDLIQEGNIGLMKAIDKFEFEKGYKFSTYATWW 424 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I V+I + N+ ++ ++ K + IAK++ + Sbjct: 425 IRQAISRAIADQARTVRIPI-----HMIENINQINKIVRKYVQEEGKEPSLEVIAKEMKM 479 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL---VYDHDGQEQVLIEKEERKNRR 225 +V + SL A + + ++ D++ + + +E V ++ R Sbjct: 480 PIEKVKQILKISKEPVSLEAPVGEEE--DGKFGDFIEDKTFTNPYEEVV------NEDLR 531 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + LN RER + + R ++ TLE + V+RERVRQIE+ A KK++ Sbjct: 532 KHIEEILEQLNERERAVIKMRFGLMPDKSERTLEEIGKALNVTRERVRQIESSAIKKLR 590 >gi|117618585|ref|YP_855378.1| RNA polymerase sigma factor RpoD [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117559992|gb|ABK36940.1| RNA polymerase sigma factor RpoD [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 618 Score = 89.7 bits (221), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 119/250 (47%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPNPEELAMRMGMPED 497 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + + Sbjct: 498 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLALPADAAT 541 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ RN ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 542 SESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 601 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 602 KLRHPSRSEV 611 >gi|227113748|ref|ZP_03827404.1| RNA polymerase sigma factor RpoD [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 611 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 127/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|27904560|ref|NP_777686.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Bp (Baizongia pistaciae)] gi|31340403|sp|Q89B10|RPOD_BUCBP RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|27903957|gb|AAO26791.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Bp (Baizongia pistaciae)] Length = 609 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 119/248 (47%), Gaps = 40/248 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 371 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 430 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL----------QAITDNNLKPE- 157 I+ A+ I ++I + L R+ + + +++ L PE Sbjct: 431 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQEIGREPTPEELSERMLIPED 488 Query: 158 ---QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 +V+ IAK E ISM + D+ S D+L D ++ Sbjct: 489 KIRKVLKIAK-------EPISMETPIGEDD------------DSHLGDFL---EDTNIEL 526 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQI 272 ++ + R+ +S L RE ++ R + N TLE + +F+V+RER+RQI Sbjct: 527 PLDSATSASLRSATKNVLSGLTTREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQI 586 Query: 273 EARAFKKV 280 EA+A +K+ Sbjct: 587 EAKALRKL 594 >gi|290474860|ref|YP_003467740.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus bovienii SS-2004] gi|289174173|emb|CBJ80960.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus bovienii SS-2004] Length = 616 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 125/242 (51%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEE---LAERMLM 492 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R+ Sbjct: 493 PEDKIRKV-LKIAK-EPISMETPVGDDDDSHLGDFI---EDTTLELPLDSATSESLRSAT 547 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ + Sbjct: 548 HDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 607 Query: 287 QV 288 +V Sbjct: 608 EV 609 >gi|225163701|ref|ZP_03726004.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] gi|224801692|gb|EEG19985.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] Length = 631 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 116/245 (47%), Gaps = 34/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 332 AKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 391 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N QK+L + + NL E+V Sbjct: 392 IRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQEFGHEPTPEEVADEMNLPVERV 451 Query: 160 VAIAKKLNVSESEVISMNCRL--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I K + IS+ + D S I DK++ D Y +L E Sbjct: 452 QQIMKMAQ----QPISLQSPVGDGDDTSFGDFIE--DKSAENPYDMTAYS------LLRE 499 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEAR 275 K + + L RER++ R + TLE + +F+V+RER+RQIEA+ Sbjct: 500 K---------IIDVLDSLTERERKVLSLRFGLVDGYSRTLEEVGKQFKVTRERIRQIEAK 550 Query: 276 AFKKV 280 A +K+ Sbjct: 551 ALRKM 555 >gi|302537866|ref|ZP_07290208.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] gi|302446761|gb|EFL18577.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] Length = 481 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 79/313 (25%), Positives = 147/313 (46%), Gaps = 42/313 (13%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------- 48 +++V G + Y+ I K+P+L ++E LAKR E G S Sbjct: 174 TVMVAGATADPVKDYLKLIGKVPLLNAEQEVELAKRI-EAGLFSEYKLEEEEDHKPAFKR 232 Query: 49 -----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD + Sbjct: 233 ELEILVEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNVGLIRAVEKFDYTK 292 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 GF+ +TY+ WWI+ A+ + ++I + + L R++ + PE Sbjct: 293 GFKFSTYATWWIRQAITRAMADQSRTIRI--PVHMVEIINKLARVQRQMLQDLGREPTPE 350 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + + K+L+++ +VI + G E ++ ++ S++ D + D + V + Sbjct: 351 E---LGKELDMTPEKVIEVQKY--GREPISLHTPLGEEGDSEFGDLI---EDSEAVVPAD 402 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEAR 275 + L + L+ RE + R L + P TL+ + + V+RER+RQIE++ Sbjct: 403 AVSFTFLQEQLQSILGTLSEREAGVVSMRYGLNDGQPKTLDEIGRVYGVTRERIRQIESK 462 Query: 276 AFKKVQESIQKQV 288 K++ + QV Sbjct: 463 TMSKLRHPSRSQV 475 >gi|297827203|ref|XP_002881484.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata] gi|297327323|gb|EFH57743.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata] Length = 546 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 75/256 (29%), Positives = 128/256 (50%), Gaps = 38/256 (14%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H S+ +L+T++LRLVV IA Y+ GL +++ EG++GLM++V+KF P+ G R AT Sbjct: 301 HRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFAT 360 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ ++++ I ++ + RL N+ L G V+ A Sbjct: 361 YAYWWIRQSIRKSIFQNSRTI---------RLPENVYMLLGK--------------VSEA 397 Query: 164 KKLNVSESEVISMNCRLAG-----DESLNALI-NSSDKNSSQWQDWLVYDHDGQE----- 212 +K V E +LAG E L+ L+ N+ S Q W D QE Sbjct: 398 RKTCVQEGNYRPSKEQLAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTTFQEITPDS 457 Query: 213 --QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRER 268 + ++ RN + ++VL+P+ERRI + R + +L + + +S+ER Sbjct: 458 GIETPTMSVGKQMMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKER 517 Query: 269 VRQIEARAFKKVQESI 284 VRQ+E+RA ++++ + Sbjct: 518 VRQLESRALYRLKQHM 533 >gi|218442621|ref|YP_002380941.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7424] gi|218174979|gb|ACK73711.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7424] Length = 308 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 117/238 (49%), Gaps = 14/238 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LV +LRLV+ +A Y G GL +++ EGNIGL++A + F+P +G++ +TY+ WW Sbjct: 83 AKNQLVQGNLRLVINLAKKYLGRGLSFEDLLQEGNIGLIRAAELFEPSKGYKFSTYAYWW 142 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I S +++ + L R+K + + V IA L + Sbjct: 143 IRQQIIRAINNSARTIRLPV-----HIIARLNRIKKTQHKLAAQLGRTPTVQEIATSLQM 197 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S E+ SL+ +++ + + QD L+ D + Q L ER + Sbjct: 198 SAQEIEKYREVAQKTISLSTIVDEQGRET--LQD-LIADPNPQPDFL----ERVFSYEQI 250 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 M L PR + I + R +E TLE + + ++S+ERVRQI +A +++E K Sbjct: 251 LEKMETLPPRYQDILKKRIYEEQ--TLEAIGTSTKLSKERVRQIFQKALSRLREEFLK 306 >gi|254382161|ref|ZP_04997522.1| sigma factor [Streptomyces sp. Mg1] gi|194341067|gb|EDX22033.1| sigma factor [Streptomyces sp. Mg1] Length = 416 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 79/313 (25%), Positives = 147/313 (46%), Gaps = 42/313 (13%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------- 48 +++V G + Y+ I K+P+L ++E LAKR E G S Sbjct: 109 TVMVAGATADPVKDYLKLIGKVPLLNAEQEVELAKRI-EAGLFSEYKLEEEEDHKATFKR 167 Query: 49 -----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD + Sbjct: 168 ELEILVEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNVGLIRAVEKFDYTK 227 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 GF+ +TY+ WWI+ A+ + ++I + + L R++ + PE Sbjct: 228 GFKFSTYATWWIRQAITRAMADQSRTIRI--PVHMVEIINKLARVQRQMLQDLGREPTPE 285 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + + K+L+++ +VI + G E ++ ++ S++ D + D + V + Sbjct: 286 E---LGKELDMTPEKVIEVQK--YGREPISLHTPLGEEGDSEFGDLI---EDSEAVVPAD 337 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEAR 275 + L + L+ RE + R L + P TL+ + + V+RER+RQIE++ Sbjct: 338 AVSFTFLQEQLQSILGTLSEREAGVVSMRYGLNDGQPKTLDEIGRVYGVTRERIRQIESK 397 Query: 276 AFKKVQESIQKQV 288 K++ + QV Sbjct: 398 TMSKLRHPSRSQV 410 >gi|167855425|ref|ZP_02478190.1| RNA polymerase sigma factor 70 [Haemophilus parasuis 29755] gi|219871370|ref|YP_002475745.1| RNA polymerase sigma factor RpoD [Haemophilus parasuis SH0165] gi|167853419|gb|EDS24668.1| RNA polymerase sigma factor 70 [Haemophilus parasuis 29755] gi|219691574|gb|ACL32797.1| RNA polymerase sigma factor RpoD [Haemophilus parasuis SH0165] Length = 621 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 81/281 (28%), Positives = 141/281 (50%), Gaps = 27/281 (9%) Query: 16 LSRYIHEIR-KIPMLEKQEEY--VLAKRYRE------HGDLSA---AHRLVTSHLRLVVK 63 L+ Y+ IR I L+K EE + + RE G+L A +V ++LRLV+ Sbjct: 337 LANYVDNIRVNIANLQKLEETTGLTITQIREIGGRIADGELKARKAKKEMVEANLRLVIS 396 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 397 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 456 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + L R+ PE+ +A+K+ + E ++ + ++A Sbjct: 457 IRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAEKMGMPEDKIRKV-LKIAK- 509 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM--SVLNPRERR 241 E ++ D + S D++ D ++ ++ ++ R + T ++ L PRE + Sbjct: 510 EPISMETPVGDDDDSHLGDFI---EDSSLELPLDSATAESLR-IATNAVLEEGLTPREAK 565 Query: 242 IFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 566 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 606 >gi|326332703|ref|ZP_08198965.1| RNA polymerase sigma (70) factor RpoD [Nocardioidaceae bacterium Broad-1] gi|325949484|gb|EGD41562.1| RNA polymerase sigma (70) factor RpoD [Nocardioidaceae bacterium Broad-1] Length = 530 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 79/328 (24%), Positives = 147/328 (44%), Gaps = 62/328 (18%) Query: 2 NRKNMSIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLS- 48 + +++V G + Y+ +I K+P+L + E LAKR + G ++ Sbjct: 218 DEPEQTVMVAGATADPVKDYLKQIGKVPLLNAEMEVELAKRIEAGLFAEEKLGKGGKITP 277 Query: 49 ---------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KF Sbjct: 278 KMLDELEWIAEDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKF 337 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKG 144 D +G++ +TY+ WWI+ A+ + ++I Q+++ +L R Sbjct: 338 DYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPT 397 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQD 202 + + ++ PE+V+ + K E IS++ L GD LI S+ Sbjct: 398 PEELAKELDMTPEKVIEVQK----YGREPISLHTPLGEDGDSEFGDLIEDSEA------- 446 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSS 260 + D L++++ L + L+ RE + R P TL+ + Sbjct: 447 --IVPADAVSFTLLQEQ--------LHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGK 496 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQV 288 + V+RER+RQIE++ K++ + QV Sbjct: 497 VYGVTRERIRQIESKTMSKLRHPSRSQV 524 >gi|312282671|dbj|BAJ34201.1| unnamed protein product [Thellungiella halophila] Length = 547 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 130/255 (50%), Gaps = 36/255 (14%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H S+ +L+T++LRLVV IA Y+ GL +++ EG++GLM++V+KF P+ G R AT Sbjct: 302 HRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFAT 361 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQ 158 Y+ WWI+ ++++ I ++ + RL N+ L G + I D N +P + Sbjct: 362 YAYWWIRQSIRKSIFQNSRTI---------RLPENVYMLLGKVSEARKTCIQDGNYRPSK 412 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--- 215 +A + VS ++ + L N+ S Q W D QE Sbjct: 413 -EQLASHVGVSTEKLDKL------------LYNTRTPLSMQQPIWSDQDTTFQEVTPDSG 459 Query: 216 IEKEE----RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERV 269 IE ++ RN + ++VL+P+E+RI + R + +L + + +S+ERV Sbjct: 460 IETPSMSVGKQLMRNHVRNLLNVLSPKEKRIIKLRFGIDGGKQRSLSEIGEIYGLSKERV 519 Query: 270 RQIEARAFKKVQESI 284 RQ+E+RA ++++++ Sbjct: 520 RQLESRALYRLKQNM 534 >gi|302557983|ref|ZP_07310325.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] gi|302475601|gb|EFL38694.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] Length = 509 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 139/310 (44%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 216 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 274 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI Sbjct: 275 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWICQ 334 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 335 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEV 394 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 395 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 440 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 441 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 493 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 494 KLRHPSRSQV 503 >gi|184201082|ref|YP_001855289.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201] gi|183581312|dbj|BAG29783.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201] Length = 572 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 83/323 (25%), Positives = 145/323 (44%), Gaps = 63/323 (19%) Query: 8 IIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKR-----YREH--GDLS---------- 48 ++V G + Y+ +I K+ +L ++E LA R Y EH D + Sbjct: 265 VVVAGATADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLYAEHKFADEADSMDANTRRA 324 Query: 49 ----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G Sbjct: 325 YRWVIHDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKG 384 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAI 149 F+ +TY+ WWI+ A+ + ++I Q+++ +L R + Sbjct: 385 FKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELA 444 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYD 207 + ++ PE+VV + K E IS++ L GD LI S+ V Sbjct: 445 NELDMTPEKVVEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVP 491 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVS 265 D L++++ L + L+ RE + R P TL+ + + V+ Sbjct: 492 ADAVSFTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVT 543 Query: 266 RERVRQIEARAFKKVQESIQKQV 288 RER+RQIE++ K++ + QV Sbjct: 544 RERIRQIESKTMSKLRHPSRSQV 566 >gi|110834924|ref|YP_693783.1| RNA polymerase sigma factor RpoD [Alcanivorax borkumensis SK2] gi|110648035|emb|CAL17511.1| RNA polymerase sigma factor RpoD [Alcanivorax borkumensis SK2] Length = 633 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 78/250 (31%), Positives = 119/250 (47%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 393 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 452 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N Q+++ + R L L+ D Sbjct: 453 IRQAITRSIADQARTIRIPVHMIETINKINRVQRQMLQEMGREPTPEELGVRLEMPED-- 510 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQ 211 K +V+ IAK E ISM + DE SL I + S D Sbjct: 511 -KVRKVLKIAK-------EPISMETPIGDDEDSSLGDFIEDGNMESPV---------DSA 553 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 + +E+ R N+ R VL R F ++ TLE + +F+V+RER+RQ Sbjct: 554 TSLGLEEATRDVLANLTAREAKVLRMR----FGIDMNTDH--TLEEVGKQFDVTRERIRQ 607 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 608 IEAKALRKLR 617 >gi|78060207|ref|YP_366782.1| sigma 70 (RpoD) [Burkholderia sp. 383] gi|77964757|gb|ABB06138.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. 383] Length = 677 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 116/234 (49%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 439 AKREMIEANLRLVISIAKKYVNRGMQFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 498 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +AK++ + Sbjct: 499 VRQAVTRALADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHP---AVLAKRMEM 553 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE +V S+ SL + D + D + D E N R + Sbjct: 554 SEEKVRSILKIAKQPVSLETPVG--DDADATLGDMI---EDVSASSPAEAAIHANMRAAI 608 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 +++ L+PRE ++ R L N TLE + +F+V+RER+RQIE++A +K+ Sbjct: 609 DEALNGLSPREAKVLRMRFGLDTNSDHTLEEVGKQFDVTRERIRQIESKAMRKL 662 >gi|307152083|ref|YP_003887467.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306982311|gb|ADN14192.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 418 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 122/236 (51%), Gaps = 13/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV +A Y+ GL + +++ EG +GL +AV KFDP +G+R +TY+ WW Sbjct: 179 AKEQMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWW 238 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I ++++ +K L ++K + I + ++++L + Sbjct: 239 IRQGITRAIATQSRIIRLPVHITEK-----LNKIKKAQRKIAQLKGATPSIEELSQELEM 293 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S ++ + R+ SL I + ++ D L E + + R++ N+L Sbjct: 294 SPPQIREVLMRVPRSVSLE--IKVGKEKDTELIDLLETTEASPEDNIANEALRQDLHNLL 351 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L RER + + R ++ +L ++ ++SRERVRQIEA+A +K+++ Sbjct: 352 ----ADLTTREREVIQLRYGFKDGKSYSLADIGRTLQLSRERVRQIEAKAIQKLRQ 403 >gi|198284078|ref|YP_002220399.1| RNA polymerase sigma-32 subunit RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218665176|ref|YP_002426733.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248599|gb|ACH84192.1| RNA polymerase, sigma 32 subunit, RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218517389|gb|ACK77975.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] Length = 285 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/282 (25%), Positives = 132/282 (46%), Gaps = 37/282 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS ++ + P L +++E L +R R GD A L+++H+ LV +A GYR GL Sbjct: 25 LSDFVDDENGGPFLSQKQELQLIRRLR-RGDECARATLISAHMPLVRAVARGYRNKGLSQ 83 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EG +GL++AV +F G R ++Y+ WWI+ AMQ ++RS + A Sbjct: 84 EDLLQEGYMGLLRAVDRFQEGLGTRFSSYATWWIREAMQRALIRSRFIRLPDYLAKSLHA 143 Query: 136 FFNLRRLKGHLQAITDNNLKPEQ-------VVAIAKKLNVSESEVISMNCRLAGD----E 184 + ++ + +D ++ EQ + + L+ ++ V S++ ++ E Sbjct: 144 Y-----MQSGAEEDSDAGVRREQRREALGVRESTMRALDFADIRVFSLDEEISDGPGRIE 198 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 + + S D + YD D + L E N + RE +F Sbjct: 199 QVTGDVASPDSD---------YDRDAICKALREHLTELNEKQ-----------REVMVFR 238 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + P+TLE ++ VSRE VRQ++ RA ++++S+ + Sbjct: 239 YGMHGDAPMTLEAVAERMGVSREAVRQLQVRALTRLRQSLSE 280 >gi|323453176|gb|EGB09048.1| hypothetical protein AURANDRAFT_53467 [Aureococcus anophagefferens] Length = 468 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 122/245 (49%), Gaps = 14/245 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLVV I+ Y+ GL +V+ EG GL +AV+KFDPE+GF+ +TY+ Sbjct: 211 LKAKAAMINANLRLVVSISKRYQHRGLHFQDVIQEGTFGLTRAVEKFDPEKGFKFSTYAT 270 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQVVA 161 WWIK A+ I +++ + + +++++ L A TD L + +A Sbjct: 271 WWIKQAVMRAIADQSRTIRLPVHVHDQ--LQSMKKVTRDLGAELGRECTDEELAGKLDLA 328 Query: 162 IAKK--LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 K L E + +SM+ + ++ N ++ D L D E + Sbjct: 329 TTKMDWLRSCERQTMSMDATVRVSGKGSSAGTGGAGNEAKLSDNLA-DAAALPDERAETK 387 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ + L R + L+ RE + R L + TLE + + F ++RERVRQIEARA Sbjct: 388 SLQSDIHGLLR--TALSDRECDVVRLRFGLDDGKARTLEEIGTVFSITRERVRQIEARAL 445 Query: 278 KKVQE 282 K+++ Sbjct: 446 HKLRQ 450 >gi|300724881|ref|YP_003714206.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|297631423|emb|CBJ92120.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] Length = 616 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 121/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 496 KIRKVLKIAK-EPISMETPVGDDE------------DSHLGDFI---EDTTLELPLDSAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 600 KLRHPSRSEV 609 >gi|261250212|ref|ZP_05942788.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891] gi|260939328|gb|EEX95314.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891] Length = 618 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 497 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 498 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 541 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 542 AGSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 601 Query: 279 KVQ 281 K++ Sbjct: 602 KLR 604 >gi|254509368|ref|ZP_05121455.1| RNA polymerase sigma factor [Vibrio parahaemolyticus 16] gi|219547710|gb|EED24748.1| RNA polymerase sigma factor [Vibrio parahaemolyticus 16] Length = 620 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 499 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 500 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 543 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 544 AGSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 603 Query: 279 KVQ 281 K++ Sbjct: 604 KLR 606 >gi|282895663|ref|ZP_06303788.1| sigF (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281199357|gb|EFA74222.1| sigF (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 396 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 121/248 (48%), Gaps = 37/248 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ WW Sbjct: 158 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 217 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKP------EQVV 160 I+ A+ I +++ +K +L R LK Q N + E V Sbjct: 218 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELK---QKFARNPTEAEMAEFLEMTV 274 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 ++L + +S+N R+ +E ++ D L+ D D Q E Sbjct: 275 QQLRQLQQLRRQALSLNHRVGKEE------------DTELMD-LLEDEDNQ------SPE 315 Query: 221 RKNRRNMLTRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 K NM+ + + VL RE+ + R P TLE + + F +SRERVRQI+ Sbjct: 316 AKMNENMMRQEIWEVLGDVLTSREKDVISLRYGLTTSEPCTLEEVGNIFNLSRERVRQIQ 375 Query: 274 ARAFKKVQ 281 ++A +K++ Sbjct: 376 SKAMRKLR 383 >gi|186472529|ref|YP_001859871.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] gi|184194861|gb|ACC72825.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] Length = 664 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 119/236 (50%), Gaps = 16/236 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 425 AKREMIEANLRLVISIAKKYVNRGMHFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 484 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I +++ + L R++ + T P +A+++++ Sbjct: 485 VRQAITRAIADQARTIRVPVHMIES--INKLNRIQREIVQQTGQEPHPS---VLAERMDM 539 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRN 226 E+++ S+ ++A + + S D + D + D D + N R Sbjct: 540 PEAKIRSI-LKIAKNPA------SLDSPVGEDADTTLGDMIEDTSATSPADAAVHANMRR 592 Query: 227 MLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ L PRE ++ R + +TLE + +F+V+RER+RQIE +A +K+ Sbjct: 593 AIDEALDALTPREAKVLRMRYGIDTASELTLEEVGRQFDVTRERIRQIEGKAIRKL 648 >gi|312883925|ref|ZP_07743642.1| RNA polymerase sigma factor RpoD [Vibrio caribbenthicus ATCC BAA-2122] gi|309368383|gb|EFP95918.1| RNA polymerase sigma factor RpoD [Vibrio caribbenthicus ATCC BAA-2122] Length = 618 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 440 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 497 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 498 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 541 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 542 AGSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 601 Query: 279 KVQ 281 K++ Sbjct: 602 KLR 604 >gi|126695941|ref|YP_001090827.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|126542984|gb|ABO17226.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9301] Length = 307 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 81/296 (27%), Positives = 140/296 (47%), Gaps = 32/296 (10%) Query: 12 GEIGLSRYIHEIRKIPMLEK-QEEYVLAKRYREHG------DLSAAHR------------ 52 GEIG + + R++ M K QE VL R +E G + S A R Sbjct: 9 GEIGRHQLLTPERELTMGRKVQEMVVLVNRCQEAGGKGPACEYSEAERKKIKIGEKAKNE 68 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 69 MITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + ++I N+K LR K L + P +A+++ +++ E Sbjct: 129 LNRALSTQSRTIRIPVNINEK--LTKLRSAKSKLMQLKG---IPPSTDELAEEMKITKEE 183 Query: 173 VIS-MNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + ++C L SL + S + S+ D L D ++ E + +L + Sbjct: 184 IDELLSCELRSITVSLQGTVKSKS-DPSELVDILPSDQTPPMELAELAERTASAWKLLDK 242 Query: 231 SMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L +ER+I R + TL ++ SRE RQ+ RA +K++++ Sbjct: 243 AN--LTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLRKA 296 >gi|323142246|ref|ZP_08077080.1| RNA polymerase sigma factor RpoD [Phascolarctobacterium sp. YIT 12067] gi|322413309|gb|EFY04194.1| RNA polymerase sigma factor RpoD [Phascolarctobacterium sp. YIT 12067] Length = 546 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 80/251 (31%), Positives = 125/251 (49%), Gaps = 21/251 (8%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K GD A L ++LRLVV IA Y G G+ +++ EGN+GL++AV KFD Sbjct: 298 LLKAVAHQGD-EAKQCLSEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYN 356 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDN 152 +GF+ +TY+ WWI+ A+ I ++I T N +L R+L LQ + Sbjct: 357 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETIN--KLIRVSRQL---LQELGRE 411 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 L PE+ IAK+++ S V + ++A E ++ ++ S D++ D Sbjct: 412 PL-PEE---IAKEMDTSVDRVREI-MKIA-QEPVSLETPIGEEEDSHLGDFI---EDHDA 462 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVR 270 + R L + L RE+R+ E R E+ TLE + F V+RER+R Sbjct: 463 PAPADAASFTLLREQLEEVLETLTIREKRVLELRFGLEDGRSRTLEEVGQHFGVTRERIR 522 Query: 271 QIEARAFKKVQ 281 QIEA+A +K++ Sbjct: 523 QIEAKALRKLR 533 >gi|117924113|ref|YP_864730.1| RpoD family RNA polymerase sigma factor [Magnetococcus sp. MC-1] gi|117607869|gb|ABK43324.1| RNA polymerase, sigma 70 subunit, RpoD [Magnetococcus sp. MC-1] Length = 683 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 119/238 (50%), Gaps = 18/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 445 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEWRRGYKFSTYATWW 504 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R + PE+ IA+++++ Sbjct: 505 IRQAITRSIADQARTIRI--PVHMIETINKLVRTSRQMVQEMGREPTPEE---IAERMSM 559 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRR 225 S +V + ++A E ++ D+ S D++ +++ ++ E N R Sbjct: 560 SLEKVRKV-LKIA-KEPISLETPVGDEEDSHLGDFI------EDKSMLSPSEHAIMSNLR 611 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R + L RE + R P TLE + +F V+RER+RQIEA+A +K++ Sbjct: 612 DTTGRVLQTLTSREEHVLRMRFGIGLPTDHTLEEVGKQFNVTRERIRQIEAKALRKLR 669 >gi|148244277|ref|YP_001218971.1| DNA-directed RNA polymerase sigma-70 factor [Candidatus Vesicomyosocius okutanii HA] gi|146326104|dbj|BAF61247.1| DNA-directed RNA polymerase sigma-70 factor [Candidatus Vesicomyosocius okutanii HA] Length = 603 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 77/258 (29%), Positives = 122/258 (47%), Gaps = 34/258 (13%) Query: 37 LAKRYREHGD---LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 L K YR GD A +++ ++LRLV+ IA Y GL +++ EGN+GLM+AV KF Sbjct: 352 LNKMYR-RGDRRAKKAKSQMIEANLRLVISIAKKYANRGLQFLDLIQEGNVGLMKAVDKF 410 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKG 144 + RG++ +TY+ WWI+ A+ I ++I T N+ ++L R Sbjct: 411 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVRRQLLQKFGREAS 470 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + T+ L PE + K E +SM + DE N D N S Sbjct: 471 SEELATEMEL-PEYKIIKILK---IAKEPLSMETPVGDDEDSNIGDFIEDTNLSSP---- 522 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEF 262 +E +++ R +S L+PRE ++ + R TLE + +F Sbjct: 523 -----------VEITTKESLRETTGDLLSNLSPREAKVLKMRFGINMNTDHTLEEVGRQF 571 Query: 263 EVSRERVRQIEARAFKKV 280 +V+RER+RQIEA+A +K+ Sbjct: 572 DVTRERIRQIEAKALRKL 589 >gi|254429850|ref|ZP_05043557.1| Sigma-70, non-essential region family [Alcanivorax sp. DG881] gi|196196019|gb|EDX90978.1| Sigma-70, non-essential region family [Alcanivorax sp. DG881] Length = 633 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 78/250 (31%), Positives = 119/250 (47%), Gaps = 42/250 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 393 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 452 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRR------LKGHLQAITDNN 153 I+ A+ I ++I T N Q+++ + R L L+ D Sbjct: 453 IRQAITRSIADQARTIRIPVHMIETINKINRVQRQMLQEMGREPTPEELGVRLEMPED-- 510 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQ 211 K +V+ IAK E ISM + DE SL I + S D Sbjct: 511 -KVRKVLKIAK-------EPISMETPIGDDEDSSLGDFIEDGNMESPV---------DSA 553 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 + +E+ R N+ R VL R F ++ TLE + +F+V+RER+RQ Sbjct: 554 TSLGLEEATRDVLANLTAREAKVLRMR----FGIDMNTDH--TLEEVGKQFDVTRERIRQ 607 Query: 272 IEARAFKKVQ 281 IEA+A +K++ Sbjct: 608 IEAKALRKLR 617 >gi|226946707|ref|YP_002801780.1| RNA polymerase sigma factor RpoD [Azotobacter vinelandii DJ] gi|226721634|gb|ACO80805.1| RNA polymerase sigma factor, sigma70; RpoD [Azotobacter vinelandii DJ] Length = 620 Score = 89.7 bits (221), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 496 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D S D++ D Q IE ++ + Sbjct: 497 PEDKIRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDSTMQSPIEVATVESLKEAT 551 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 552 REVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 606 >gi|330970856|gb|EGH70922.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aceris str. M302273PT] Length = 616 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 116/244 (47%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTNH-TLEEVGKQFDVTRERIRQIEAKAL 598 Query: 278 KKVQ 281 +K++ Sbjct: 599 RKLR 602 >gi|220912379|ref|YP_002487688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arthrobacter chlorophenolicus A6] gi|219859257|gb|ACL39599.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arthrobacter chlorophenolicus A6] Length = 433 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/275 (26%), Positives = 130/275 (47%), Gaps = 40/275 (14%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P +++ E+++ H A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 180 PKYKRELEFII------HDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGL 233 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFF 137 ++AV+KFD +GF+ +TY+ WWI+ A+ + ++I Q+++ Sbjct: 234 IRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQ 293 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDK 195 +L R + + ++ PE+VV + K E IS++ L GD LI S+ Sbjct: 294 DLGREPTPEELALELDMTPEKVVEVQK----YGREPISLHTPLGEDGDSEFGDLIEDSEA 349 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPV 253 V D L++++ L + L+ RE + R P Sbjct: 350 ---------VVPADAVSFTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPK 392 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 393 TLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 427 >gi|120553592|ref|YP_957943.1| RpoD family RNA polymerase sigma factor [Marinobacter aquaeolei VT8] gi|120323441|gb|ABM17756.1| RNA polymerase, sigma 70 subunit, RpoD [Marinobacter aquaeolei VT8] Length = 618 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 490 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D S D++ D Q ++ + R Sbjct: 491 PEDKIRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDIQALSPVDSATAEGLREAT 545 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 546 RSVLAGLTARESKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 600 >gi|297569039|ref|YP_003690383.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] gi|296924954|gb|ADH85764.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] Length = 445 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 33/251 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL +++++ EGN+GLM+AV +FD +G + +TY+ WW Sbjct: 209 AKDAMIKANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYTKGNKFSTYASWW 268 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKR-----LFFNLRRLKGHLQAITD----NNLKPEQV 159 I+ A+ IL +++ + R F++L + G + L E++ Sbjct: 269 IRQAITRAILDKTRTIRLPVHFLELRSQFFKAFYSLLKELGREPTPAEISEKTGLPMEKI 328 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +AI + + E IS+ + D+ S D+L + QE V + Sbjct: 329 LAIFE----ASREPISLETPVGDDD-------------STLGDFL----ENQESVSPYEA 367 Query: 220 ERKNR-RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 + N+ +T +S L+PRE +I R ++ TLE + F VSRER+RQIE +A Sbjct: 368 VKGNQLAERVTTILSTLSPREEKIIRLRFGIGEDAEYTLEEIGKRFNVSRERIRQIEKKA 427 Query: 277 FKKVQESIQKQ 287 +++ S +++ Sbjct: 428 LNRLRHSSRRE 438 >gi|229828460|ref|ZP_04454529.1| hypothetical protein GCWU000342_00522 [Shuttleworthia satelles DSM 14600] gi|229793054|gb|EEP29168.1| hypothetical protein GCWU000342_00522 [Shuttleworthia satelles DSM 14600] Length = 614 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 87/314 (27%), Positives = 142/314 (45%), Gaps = 73/314 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-------------REH---GDLS-------------- 48 Y+ EI K+ +L +EE LA++ RE GDLS Sbjct: 308 YLKEIGKVHLLTAEEEVDLAQKMEKGLKADEQIEILREEIRSGDLSEEDMMNLEAQIKIL 367 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +L ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G+ Sbjct: 368 KNDSAVGERAKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGY 427 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAIT 150 + +TY+ WWI+ A+ I ++I T N+ ++L L R + Sbjct: 428 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAR 487 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDH 208 + P++V I L +S+ E +S+ + +E L I D+N+ + + Sbjct: 488 EMETTPDRVREI---LKISQ-EPVSLETPIGEEEDSHLGDFIQ--DENAPVPAEAATF-- 539 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSR 266 L+ + L + L RER++ R E+ TLE + EF V+R Sbjct: 540 -----TLL--------KEQLNEVLDTLTERERKVLILRFGLEDGRGRTLEEVGKEFNVTR 586 Query: 267 ERVRQIEARAFKKV 280 ER+RQIEA+A +K+ Sbjct: 587 ERIRQIEAKALRKL 600 >gi|262364690|gb|ACY61247.1| RNA polymerase sigma factor RpoD [Yersinia pestis D182038] Length = 352 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 126/250 (50%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 114 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 173 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 174 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 231 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 232 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 275 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R+ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 276 SESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 335 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 336 KLRHPSRSEV 345 >gi|119473196|ref|ZP_01614893.1| RNA polymerase sigma factor rpoD (Sigma-70) [Alteromonadales bacterium TW-7] gi|119444560|gb|EAW25875.1| RNA polymerase sigma factor rpoD (Sigma-70) [Alteromonadales bacterium TW-7] Length = 614 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 122/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + + + PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPNPEELAERMMMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D I+ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTIDSPIDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TMESLRGATNDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQ 281 +K++ Sbjct: 596 RKLR 599 >gi|91227014|ref|ZP_01261551.1| RpoS-like sigma factor [Vibrio alginolyticus 12G01] gi|91188816|gb|EAS75102.1| RpoS-like sigma factor [Vibrio alginolyticus 12G01] gi|210148643|gb|ACJ09227.1| RpoS-like sigma factor [Vibrio alginolyticus] Length = 279 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 47/118 (39%), Positives = 74/118 (62%), Gaps = 4/118 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY--- 68 G+ + Y+ +I I +L ++EE AK R GD A L+ S+LRLVVKIA GY Sbjct: 8 GKDPYAHYLKDIVGIDLLSREEELHYAKLNRA-GDEEAREMLIESNLRLVVKIAKGYLKR 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 G + +++ EGNIGL++AV KFDPE G+R +TY++WWI+ ++ ++ + V++ Sbjct: 67 PGNNFTLLDLIEEGNIGLIKAVDKFDPEPGYRFSTYAVWWIRENIEAALMNNGRTVRL 124 >gi|33151868|ref|NP_873221.1| RNA polymerase sigma factor RpoD [Haemophilus ducreyi 35000HP] gi|33148089|gb|AAP95610.1| RNA polymerase sigma factor [Haemophilus ducreyi 35000HP] Length = 613 Score = 89.4 bits (220), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 119/235 (50%), Gaps = 15/235 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 490 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E ++ + ++A + S+ I D S D++ D ++ ++ ++ R Sbjct: 491 PEDKIRKV-LKIAKEPISMETPIGDDD---SHLGDFI---QDENLELPLDSATAESLRLA 543 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 544 TNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 598 >gi|72383848|ref|YP_293202.1| sigma-70 region 1.2 [Ralstonia eutropha JMP134] gi|72123191|gb|AAZ65345.1| Sigma-70 region 1.2 [Ralstonia eutropha JMP134] Length = 624 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 116/234 (49%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 386 AKRELIEANLRLVISIAKKYVNRGMHFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 445 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + + L R+ + T P +A+++ + Sbjct: 446 VRQAVTRALADQARTIRV--PVHMVEMINKLNRISRDFRQQTGREAHP---AVLAERMEM 500 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE +V S+ SL + D + D + D E + R + Sbjct: 501 SEEKVRSILRSARQPVSLETPVG--DDADATLGDMI---EDVSASSPAEAAIHADMRAAI 555 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L+PRE ++ R + TLE +S +F+V+RER+RQIE++A +K+ Sbjct: 556 DEALDGLSPREAKVLRMRFGLDTTSDRTLEEVSKQFDVTRERIRQIESQAMRKL 609 >gi|162455526|ref|YP_001617893.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161166108|emb|CAN97413.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 715 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 124/242 (51%), Gaps = 17/242 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +R V ++LRLVV IA Y LP+ +++ EGNIGLM+AV++FD RG+R +TY+ WW Sbjct: 484 AKNRFVKANLRLVVSIARRYNRGRLPLIDLIQEGNIGLMKAVERFDHSRGYRFSTYASWW 543 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + V+I + R+ QAI + + K+ V Sbjct: 544 IRHAISRALADKGRAVRIPV-----HMLDTYNRVARATQAIIARTGHEPTIEELEKETGV 598 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR-- 225 ++ + A SL+ + D++ ++ D+L +E L + NR+ Sbjct: 599 PREKLDKVKDFYAETPFSLDRPVG--DEDGRKFIDFLQ-----EENALSPFDHLANRKWS 651 Query: 226 NMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + R ++ L P E RI R E+ +TL+ + ++ +SRER+RQ++ +A K+++ Sbjct: 652 DEVRRLLTTLTPIESRIIRWRFGLDDEDELTLKEIGDKYNLSRERIRQLQEQALGKIRKQ 711 Query: 284 IQ 285 ++ Sbjct: 712 MR 713 >gi|302338308|ref|YP_003803514.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635493|gb|ADK80920.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 281 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 125/247 (50%), Gaps = 28/247 (11%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A HRL+ ++LRLVVKIA Y G + +++ EGN+GL++A +K+D + R +TY Sbjct: 42 GDEAARHRLIEANLRLVVKIAKSYVTPGFGLLDLIQEGNMGLIRAAEKYDHRKQVRFSTY 101 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 + WWI+ ++ I + +++ N +R ++ L + H + + ++ Sbjct: 102 AAWWIRQSIVRAIAKKQKAIRLPHRKNNLLKKIQRTYYQLSQELEHEPSAEEIAVEIGIE 161 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +I ++ + V+S++C + D S L+ L +S+ Y+ E+V I Sbjct: 162 PSIVDQMLQVGNPVVSLDCEIGDDASTLLDMLEDST------------YE---PERVCIN 206 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEAR 275 K +++ + L L RER+I R TL+ + E +S E VRQIE R Sbjct: 207 KSMQEDTMHFLDH----LKERERQILLYRFAFFGGKKYTLKKIGMEMGISPETVRQIEMR 262 Query: 276 AFKKVQE 282 A +K+++ Sbjct: 263 AIRKLRD 269 >gi|327398426|ref|YP_004339295.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hippea maritima DSM 10411] gi|327181055|gb|AEA33236.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hippea maritima DSM 10411] Length = 491 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 118/233 (50%), Gaps = 12/233 (5%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R++ ++LRLVV IA + GL +++ EGNIGLM++V KFD ++GF+ +TY+ WWI+ Sbjct: 256 QRMIKANLRLVVSIAKKHLNRGLSFLDLIQEGNIGLMKSVDKFDYKKGFKFSTYATWWIR 315 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ I ++I + + ++ + + N K +A+ L + E Sbjct: 316 QSISRAIADQARTIRIPV-----HMIETINKIVRASKLLIQENGKEPTAQELAEYLGMDE 370 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 ++ S+ SL I D N + +D++ D + + ++ + N + + Sbjct: 371 EKIKSIIKIAKEPISLETPI--GDDNDTHLEDFI---EDTKSESPLDYVIKSNLKEKVEE 425 Query: 231 SMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L RER++ R + TLE + V+RERVRQIEA+A +K++ Sbjct: 426 VLSTLTDRERKVLMMRYGIGDGFDHTLEEVGKVLGVTRERVRQIEAKALRKLR 478 >gi|288919497|ref|ZP_06413828.1| RNA polymerase, sigma 32 subunit, RpoH [Frankia sp. EUN1f] gi|288349100|gb|EFC83346.1| RNA polymerase, sigma 32 subunit, RpoH [Frankia sp. EUN1f] Length = 936 Score = 89.4 bits (220), Expect = 6e-16, Method: Composition-based stats. Identities = 66/236 (27%), Positives = 118/236 (50%), Gaps = 10/236 (4%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV + RLV IA+ Y G GL + ++ G IGL++AV+KFD +G++ +TYS WWI+ A Sbjct: 478 LVLHNQRLVHSIALKYEGQGLELEDLSQHGMIGLLRAVQKFDATKGYKFSTYSTWWIRQA 537 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + L+++ +K +RR+ G L D A E Sbjct: 538 ITRALADEGRLIRLPAHFVEK--VNKVRRVLGQLGMSVDGADVVTVAAAAGLSEQEVERC 595 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 +++++ R+ G ++ + + D + + VL +RK R + RS+ Sbjct: 596 LLALHQRVVGLDT--PVGDGGDTVLGELVGLPAPPDTDPDTVL----DRKWLRMAVARSL 649 Query: 233 SVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L+PR + R ++ P TLE + F V+RER+RQIE +A ++++E +++ Sbjct: 650 AELSPRNAEVVRLRFGFDDGEPRTLEQIGQVFGVTRERIRQIEKKALEQLREPLRQ 705 >gi|256375630|ref|YP_003099290.1| RNA polymerase sigma factor SigB [Actinosynnema mirum DSM 43827] gi|255919933|gb|ACU35444.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 330 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 71/249 (28%), Positives = 120/249 (48%), Gaps = 32/249 (12%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A + L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY+ Sbjct: 91 LRAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYAT 150 Query: 107 WWIKAAMQEYILRSWSLVK--------IGTTANQKR-LFFNLRRLKGHLQAITDNNLKPE 157 WWI+ A+ + ++ + A KR L L R + + ++ L P Sbjct: 151 WWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATNEELAAESGLSPT 210 Query: 158 QVVAIAKKLNVSESEV-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V + L+ + V + M D L I SD + E +I Sbjct: 211 KVSDL---LDHARDPVSLDMPVGAEEDAPLGDFIEDSDATDA-------------ESAVI 254 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEA 274 + + R R ++ L RE+ + R E+ P TL+ + +F +SRERVRQIE Sbjct: 255 SGLLQDDLR----RVLATLEQREQAVIRLRYGLEDGQPRTLDQIGKQFGLSRERVRQIER 310 Query: 275 RAFKKVQES 283 K+++ Sbjct: 311 EVMSKLRQG 319 >gi|218661227|ref|ZP_03517157.1| RNA polymerase factor sigma-32 [Rhizobium etli IE4771] Length = 62 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 42/62 (67%), Positives = 48/62 (77%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VV 62 VV Sbjct: 61 VV 62 >gi|170076992|ref|YP_001733630.1| group II sigma-70 type sigma factor [Synechococcus sp. PCC 7002] gi|1769590|gb|AAB95227.1| sigma factor [Synechococcus sp. PCC 7002] gi|169884661|gb|ACA98374.1| Group II sigma-70 type sigma factor (RpoD family) [Synechococcus sp. PCC 7002] Length = 365 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 117/234 (50%), Gaps = 11/234 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ WW Sbjct: 127 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 186 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L +LK + + + +A++L++ Sbjct: 187 IRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQRTLKQTLQRNPTEAELAQELDI 241 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + ++ + SLN + + ++ D L + DG + E R+ + Sbjct: 242 TADQLHQLLQLRRQSLSLNHRVGKGE--DTELVDLL--EDDGLQLPEERMSEAMMRQELW 297 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 VL RE+ + R E P TLE + F +SRERVRQI+++A +K+ Sbjct: 298 DVLGDVLTDREKEVIALRYGLSSEQPHTLEEVGGMFNLSRERVRQIQSKAMRKL 351 >gi|153826548|ref|ZP_01979215.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-2] gi|149739640|gb|EDM53854.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-2] Length = 302 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 120/250 (48%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 64 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 123 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 124 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPED 181 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 182 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 225 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 226 ATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 285 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 286 KLRHPSRSEV 295 >gi|62181728|ref|YP_218145.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62129361|gb|AAX67064.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322716214|gb|EFZ07785.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 658 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 420 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 479 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 480 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 537 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 538 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 580 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 581 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 640 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 641 RKLRHPSRSEV 651 >gi|146313109|ref|YP_001178183.1| RNA polymerase sigma factor RpoD [Enterobacter sp. 638] gi|145319985|gb|ABP62132.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter sp. 638] Length = 631 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 393 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 452 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 453 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 510 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 511 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 553 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 554 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 613 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 614 RKLRHPSRSEV 624 >gi|326629245|gb|EGE35588.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 660 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 482 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 539 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 540 -KIRKVLKIAK-EPISMEAPIGDDE------------DSHLGDFI---EDTTLELPLDSA 582 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 583 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 642 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 643 RKLRHPSRSEV 653 >gi|16761985|ref|NP_457602.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|29143472|ref|NP_806814.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|25288442|pir||AB0893 RNA polymerase sigma-70 factor [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16504288|emb|CAD07736.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhi] gi|29139106|gb|AAO70674.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] Length = 660 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 482 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 539 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 540 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 582 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 583 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 642 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 643 RKLRHPSRSEV 653 >gi|6273430|emb|CAB60192.1| putative sigma-like transcription factor [Arabidopsis thaliana] Length = 487 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 76/256 (29%), Positives = 128/256 (50%), Gaps = 38/256 (14%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H S+ +L+T++LRLVV IA Y+ GL +++ EG++GLM++V+KF P+ G R AT Sbjct: 242 HRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFAT 301 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ ++++ I ++ + RL N+ L G V+ A Sbjct: 302 YAYWWIRQSIRKSIFQNSRTI---------RLPENVYMLLGK--------------VSEA 338 Query: 164 KKLNVSESEVISMNCRLAG-----DESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +K V E LAG E L+ L+ N+ S Q W D QE Sbjct: 339 RKTCVQEGNYRPSKEELAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTTFQEITPDS 398 Query: 218 KEE-------RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRER 268 E ++ RN + ++VL+P+ERRI + R + +L + + +S+ER Sbjct: 399 GIETPTMSVGKQLMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKER 458 Query: 269 VRQIEARAFKKVQESI 284 VRQ+E+RA ++++++ Sbjct: 459 VRQLESRALYRLKQNM 474 >gi|51246355|ref|YP_066239.1| RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] gi|50877392|emb|CAG37232.1| probable RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] Length = 447 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 70/246 (28%), Positives = 120/246 (48%), Gaps = 31/246 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL +++++ EGN+GLM+AV +FD +G + +TY+ WW Sbjct: 211 AKDTMIRANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYTKGNKFSTYASWW 270 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKR---------LFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ IL +++ + R LF L R L+ NL +++ Sbjct: 271 IRQAITRAILDKTRTIRLPVHFLELRSQFFKAFYALFKELGREPTPLEISKTTNLPMDKI 330 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 ++I + + E IS+ + D+ S D+L + + Q E Sbjct: 331 LSILE----ASREPISLETPVGDDD-------------STLGDFL---ENQESQSPYEAV 370 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + +T +S L+ RE +I R ++ TLE + F VSRER+RQIE +A Sbjct: 371 QNRELSGRVTEILSTLSDREEKIIRLRFGIGEKAEYTLEEIGKRFNVSRERIRQIEKKAL 430 Query: 278 KKVQES 283 +++ S Sbjct: 431 NRLRHS 436 >gi|89094383|ref|ZP_01167323.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] gi|89081275|gb|EAR60507.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] Length = 616 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 115/247 (46%), Gaps = 36/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEE---LAERMEM 491 Query: 169 SESEV----------ISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E +V ISM + DE SL I + +S + Sbjct: 492 PEDKVRKVLKIAKEPISMETPIGDDEDSSLGDFIEDTTISSP-----------------V 534 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEA 274 + + R ++ L RE ++ R E TLE + +F+V+RER+RQIEA Sbjct: 535 DSATGEGLREATREVLAGLTVRESKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEA 594 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 595 KALRKLR 601 >gi|315127802|ref|YP_004069805.1| RNA polymerase sigma factor [Pseudoalteromonas sp. SM9913] gi|315016316|gb|ADT69654.1| RNA polymerase sigma factor [Pseudoalteromonas sp. SM9913] Length = 614 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 122/244 (50%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + + + PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPNPEELAERMMMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D I+ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTIDSPIDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TMESLRGATNDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQ 281 +K++ Sbjct: 596 RKLR 599 >gi|260592476|ref|ZP_05857934.1| RNA polymerase sigma-43 factor [Prevotella veroralis F0319] gi|260535522|gb|EEX18139.1| RNA polymerase sigma-43 factor [Prevotella veroralis F0319] Length = 228 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/269 (26%), Positives = 122/269 (45%), Gaps = 47/269 (17%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +YI EI + +L +EE LA + + GD A +L ++L+ VV +A Y+ GL + Sbjct: 6 KYIEEIVQEQLLSSEEEQTLAAKIK-LGDAKALEKLTKANLKFVVSLAHHYKNQGLGEDD 64 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +VSEGNIG+M A +KFD +G R +Y+ +I+ AM+E I +L K+ K Sbjct: 65 LVSEGNIGMMHAAQKFDGTKGIRFVSYAAPYIRKAMEEAIKEQTALYKLPKDEKSK---- 120 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 R + H +I +Q + + N + V+ DE LN Sbjct: 121 -FERKRTHAISI-------DQPIPVGSSNNFTLQHVLENEDAPQADEHLN---------- 162 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENPVTLE 256 ++ L ++ + + ++ LN RE+RI A L T+ Sbjct: 163 ---KELLNFE--------------------IQKGLNELNEREKRIIIAIYGLNGTHYTMA 199 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ + RERVRQI +A +K+ + ++ Sbjct: 200 EIAENMGLKRERVRQIRNKALRKLHKKMK 228 >gi|167584375|ref|ZP_02376763.1| sigma 70 (RpoD) [Burkholderia ubonensis Bu] Length = 611 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 115/234 (49%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKRQMIEANLRLVISIAKKYVNRGMQFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +AK++ + Sbjct: 433 VRQAVTRALADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHP---AVLAKRMEM 487 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE +V S+ SL + D + D + D E N R + Sbjct: 488 SEEKVRSILKIAKQPVSLETPVG--DDADATLGDMI---EDVSASSPAEAAIHANMRAAI 542 Query: 229 TRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L+PRE ++ R + TLE + +F+V+RER+RQIE++A +K+ Sbjct: 543 DEALDGLSPREAKVLRMRFGLDTTSDHTLEEVGKQFDVTRERIRQIESKAMRKL 596 >gi|82778397|ref|YP_404746.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae Sd197] gi|309785377|ref|ZP_07680008.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 1617] gi|81242545|gb|ABB63255.1| RNA polymerase, sigma(70) factor [Shigella dysenteriae Sd197] gi|308926497|gb|EFP71973.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 1617] Length = 613 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|206576865|ref|YP_002236518.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae 342] gi|288933503|ref|YP_003437562.1| RNA polymerase, sigma 70 subunit, RpoD [Klebsiella variicola At-22] gi|290511438|ref|ZP_06550807.1| RNA polymerase primary sigma factor [Klebsiella sp. 1_1_55] gi|206565923|gb|ACI07699.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae 342] gi|288888232|gb|ADC56550.1| RNA polymerase, sigma 70 subunit, RpoD [Klebsiella variicola At-22] gi|289776431|gb|EFD84430.1| RNA polymerase primary sigma factor [Klebsiella sp. 1_1_55] Length = 613 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|161506225|ref|YP_001573337.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160867572|gb|ABX24195.1| hypothetical protein SARI_04418 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 660 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 482 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 539 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 540 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 582 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 583 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 642 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 643 RKLRHPSRSEV 653 >gi|156932573|ref|YP_001436489.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii ATCC BAA-894] gi|156530827|gb|ABU75653.1| hypothetical protein ESA_00355 [Cronobacter sakazakii ATCC BAA-894] Length = 614 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|152971991|ref|YP_001337100.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|330003818|ref|ZP_08304768.1| RNA polymerase sigma factor RpoD [Klebsiella sp. MS 92-3] gi|150956840|gb|ABR78870.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|328536802|gb|EGF63114.1| RNA polymerase sigma factor RpoD [Klebsiella sp. MS 92-3] Length = 613 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|123968168|ref|YP_001009026.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|123198278|gb|ABM69919.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. AS9601] Length = 307 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 82/296 (27%), Positives = 140/296 (47%), Gaps = 32/296 (10%) Query: 12 GEIGLSRYIHEIRKIPMLEK-QEEYVLAKRYREHG------DLSAAHR------------ 52 GEIG + + R++ M K QE VL R +E G + S A R Sbjct: 9 GEIGRHQLLTPERELTMGRKVQEMVVLVNRCQEAGGKGPACEYSEAERKKIKIGEKAKNE 68 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 69 MITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + ++I N+K LR K L + P +A+++ +++ E Sbjct: 129 LNRALSTQSRTIRIPVNINEK--LTKLRSAKSKLMQLKG---IPPTSDELAEEMKITKEE 183 Query: 173 VIS-MNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V ++C L SL + S + S+ D L D ++ E + +L + Sbjct: 184 VDELLSCELRSITVSLQGTVKSKS-DPSELVDILPSDQTPPMELAELAERTASAWKLLDK 242 Query: 231 SMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L +ER+I R + TL ++ SRE RQ+ RA +K++++ Sbjct: 243 AN--LTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLRKA 296 >gi|224585014|ref|YP_002638813.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|224469542|gb|ACN47372.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] Length = 658 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 420 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 479 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 480 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 537 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 538 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 580 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 581 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 640 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 641 RKLRHPSRSEV 651 >gi|56415151|ref|YP_152226.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197364081|ref|YP_002143718.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|205358509|ref|ZP_02656872.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205359720|ref|ZP_02831723.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|16421768|gb|AAL22085.1| sigma D factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|56129408|gb|AAV78914.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197095558|emb|CAR61123.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|205333914|gb|EDZ20678.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205343355|gb|EDZ30119.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|261248341|emb|CBG26178.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267995406|gb|ACY90291.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|320087665|emb|CBY97429.1| RNA polymerase sigma factor rpoD Sigma-70 [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|323131572|gb|ADX19002.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|326624968|gb|EGE31313.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|332990077|gb|AEF09060.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 660 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 482 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 539 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 540 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 582 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 583 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 642 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 643 RKLRHPSRSEV 653 >gi|332531768|ref|ZP_08407653.1| RNA polymerase sigma factor RpoD [Pseudoalteromonas haloplanktis ANT/505] gi|332038744|gb|EGI75186.1| RNA polymerase sigma factor RpoD [Pseudoalteromonas haloplanktis ANT/505] Length = 616 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 115/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPNPEELAERMMMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D I+ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTIDSPIDSAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 MESLRGATNDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|238897855|ref|YP_002923534.1| RNA polymerase, sigma 70 (sigma D) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229465612|gb|ACQ67386.1| RNA polymerase, sigma 70 (sigma D) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 610 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 122/242 (50%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGHLQA---ITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G A + + L PE+ Sbjct: 432 IRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPAPEELAERMLMPEE-- 489 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + D + S D++ D ++ ++ Sbjct: 490 KIRKVLKIAK-EPISMETPIG------------DDDDSHLGDFI---EDTTLELPLDSAT 533 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 534 SESLRLATNDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 593 Query: 279 KV 280 K+ Sbjct: 594 KL 595 >gi|260599325|ref|YP_003211896.1| RNA polymerase sigma factor RpoD [Cronobacter turicensis z3032] gi|260218502|emb|CBA33681.1| RNA polymerase sigma factor rpoD [Cronobacter turicensis z3032] Length = 614 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|289827081|ref|ZP_06545870.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] Length = 615 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|116333403|ref|YP_794930.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus brevis ATCC 367] gi|116098750|gb|ABJ63899.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus brevis ATCC 367] Length = 368 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 44/108 (40%), Positives = 68/108 (62%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI ++ +L EE LA R E+G+ +A L ++LRLVV IA Y G G+ ++ Sbjct: 108 YLKEIGRVNLLTADEEVALALRI-ENGEEAAKQELAEANLRLVVSIAKRYVGRGMQFLDL 166 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 167 IQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI 214 >gi|301064644|ref|ZP_07205038.1| RNA polymerase sigma factor RpoD [delta proteobacterium NaphS2] gi|300441264|gb|EFK05635.1| RNA polymerase sigma factor RpoD [delta proteobacterium NaphS2] Length = 590 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 79/249 (31%), Positives = 121/249 (48%), Gaps = 40/249 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 351 AKSELIQANLRLVVSIAKKYTNRGLMFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 410 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRL-KGHLQAITDNNL--------- 154 I+ A+ I ++I T N +L R L + H + T + Sbjct: 411 IRQAITRAIADQARTIRIPVHMIETIN--KLMRTSRYLVQEHGREPTSEEIAEKMEFPLD 468 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 K +V+ IAK E IS+ + +E + DKN D +V + EQ Sbjct: 469 KVRKVLKIAK-------EPISLETPIGEEEDSHLGDFIEDKNILSPGDAVV-NFGLAEQT 520 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 R +LT L PRE ++ R ++ TLE + +F V+RER+RQI Sbjct: 521 ----------RKVLT----TLTPREEKVLRMRFGIGEKADHTLEEVGRDFSVTRERIRQI 566 Query: 273 EARAFKKVQ 281 EA+A +K++ Sbjct: 567 EAKALRKLR 575 >gi|170731361|ref|YP_001763308.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia MC0-3] gi|169814603|gb|ACA89186.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia MC0-3] Length = 857 Score = 89.4 bits (220), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 71/247 (28%), Positives = 122/247 (49%), Gaps = 38/247 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ ++L+LV +A YR G P+ ++ EGNIGL++AV++FD RGF+ +TY+ WW Sbjct: 515 ARERMAVANLKLVFHLAKKYRYSGEPLDDLAQEGNIGLLKAVERFDWRRGFKFSTYATWW 574 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ V++ ++K +RL QA+ + ++ IA +LN+ Sbjct: 575 IRQQIGRHLADKCRTVRVPVHVHEK-----AQRLSRETQALESETGRAPELHEIAARLNM 629 Query: 169 SESEVISMNCRLAGD---------ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + +V + RLA + + L A+ SD S D ++ K Sbjct: 630 AVQKVAELQ-RLAPEPLPIHELPIDELIAVEVRSDFVSPDPMD------------IVSKS 676 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEA 274 E + L +S L P+E + RL+ E +TLE + ++ V+RERVRQIE Sbjct: 677 ELLETIDKL---LSTLKPKEEQTL---RLRFGIGVEEALTLEEIGCQYGVTRERVRQIEV 730 Query: 275 RAFKKVQ 281 A + ++ Sbjct: 731 AALRNLK 737 >gi|304415465|ref|ZP_07396113.1| RNA polymerase sigma 70 (sigma D) subunit [Candidatus Regiella insecticola LSR1] gi|304282694|gb|EFL91209.1| RNA polymerase sigma 70 (sigma D) subunit [Candidatus Regiella insecticola LSR1] Length = 612 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 74/251 (29%), Positives = 120/251 (47%), Gaps = 34/251 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK-----PE----QV 159 I+ A+ I ++I + N R + LQ PE +V Sbjct: 438 IRQAITRSIADQARTIRIPVHMIETINKLN-RVARQMLQEXXXXXXXXXXXMPEDKIRKV 496 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + IAK E ISM + DE S D++ D ++ + Sbjct: 497 LKIAK-------EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLGSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 535 TSESLRSATHEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|302344687|ref|YP_003809216.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] gi|301641300|gb|ADK86622.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] Length = 363 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 120/241 (49%), Gaps = 23/241 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +V ++LRL V IA Y GL ++++ EGNIGLM+AV ++D G+R +T++ W Sbjct: 125 AAVSEMVEANLRLAVSIAKKYTFRGLSFADLIQEGNIGLMKAVNRYDYRTGYRFSTFASW 184 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ + I ++I + R + R G L+ + E +A+K+ Sbjct: 185 WIRQTISRAIYDQARTIRIPIHLLELRSKY-FRVYYGLLKELGREPTPKE----VAEKVG 239 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERK 222 ++E +V E +N ++S+ + +D + + D ++ + E Sbjct: 240 ITEDKV---------KEIINLTLDSTSLETPVGEDGDELGDFIENKDAEDPFSMVGETEM 290 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L ++ L+ RERRI E R E+ TLE + F +SRERVRQIE +A +++ Sbjct: 291 H--GHLEAALDSLDGRERRILEMRFGLGDEDEHTLEEVGQVFGLSRERVRQIEKKALQRL 348 Query: 281 Q 281 + Sbjct: 349 R 349 >gi|238896571|ref|YP_002921314.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae NTUH-K2044] gi|238548896|dbj|BAH65247.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] Length = 632 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 394 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 453 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 454 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 511 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 512 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 554 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 555 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 614 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 615 RKLRHPSRSEV 625 >gi|218550316|ref|YP_002384107.1| RNA polymerase sigma factor RpoD [Escherichia fergusonii ATCC 35469] gi|218357857|emb|CAQ90501.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia fergusonii ATCC 35469] gi|325498620|gb|EGC96479.1| RNA polymerase sigma factor RpoD [Escherichia fergusonii ECD227] Length = 613 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|18404292|ref|NP_565856.1| SIGF (RNA POLYMERASE SIGMA-SUBUNIT F); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|7209640|dbj|BAA92288.1| SigF [Arabidopsis thaliana] gi|7688083|emb|CAB89775.1| sigma factor-like protein [Arabidopsis thaliana] gi|16604647|gb|AAL24116.1| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana] gi|20197948|gb|AAD31584.2| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana] gi|20259557|gb|AAM14121.1| putative RNA polymerase sigma-70 factor protein [Arabidopsis thaliana] gi|330254238|gb|AEC09332.1| RNApolymerase sigma-subunit F [Arabidopsis thaliana] Length = 547 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 76/256 (29%), Positives = 128/256 (50%), Gaps = 38/256 (14%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H S+ +L+T++LRLVV IA Y+ GL +++ EG++GLM++V+KF P+ G R AT Sbjct: 302 HRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFAT 361 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ ++++ I ++ + RL N+ L G V+ A Sbjct: 362 YAYWWIRQSIRKSIFQNSRTI---------RLPENVYMLLGK--------------VSEA 398 Query: 164 KKLNVSESEVISMNCRLAG-----DESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +K V E LAG E L+ L+ N+ S Q W D QE Sbjct: 399 RKTCVQEGNYRPSKEELAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTTFQEITPDS 458 Query: 218 KEE-------RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRER 268 E ++ RN + ++VL+P+ERRI + R + +L + + +S+ER Sbjct: 459 GIETPTMSVGKQLMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKER 518 Query: 269 VRQIEARAFKKVQESI 284 VRQ+E+RA ++++++ Sbjct: 519 VRQLESRALYRLKQNM 534 >gi|269968333|ref|ZP_06182353.1| conserved hypothetical protein [Vibrio alginolyticus 40B] gi|269827051|gb|EEZ81365.1| conserved hypothetical protein [Vibrio alginolyticus 40B] Length = 296 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 47/118 (39%), Positives = 74/118 (62%), Gaps = 4/118 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY--- 68 G+ + Y+ +I I +L ++EE AK R GD A L+ S+LRLVVKIA GY Sbjct: 25 GKDPYAHYLKDIVGIDLLSREEELHYAKLNR-VGDEEAREMLIESNLRLVVKIAKGYLKR 83 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 G + +++ EGNIGL++AV KFDPE G+R +TY++WWI+ ++ ++ + V++ Sbjct: 84 PGNNFTLLDLIEEGNIGLIKAVDKFDPEPGYRFSTYAVWWIRENIEAALMNNGRTVRL 141 >gi|237729995|ref|ZP_04560476.1| RNA polymerase sigma-70 factor [Citrobacter sp. 30_2] gi|226908601|gb|EEH94519.1| RNA polymerase sigma-70 factor [Citrobacter sp. 30_2] Length = 660 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 422 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 481 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 482 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 539 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 540 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 582 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 583 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 642 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 643 RKLRHPSRSEV 653 >gi|288923254|ref|ZP_06417393.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] gi|288345398|gb|EFC79788.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] Length = 400 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 70/253 (27%), Positives = 120/253 (47%), Gaps = 36/253 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y G G+ + +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 163 AKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 222 Query: 109 IKAAMQEYILRSWSLVKI----GTTAN-----QKRLFFNLRRLKGHLQAITDNNL---KP 156 I+ A+ + ++I T N Q++L L R + T +L K Sbjct: 223 IRQAVTRALADQGRTIRIPVHMAETVNKVTRIQRQLLQELGREPSPEEIGTQIDLTAHKV 282 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E+++ IA+ E+ + + D L I D + + VL+ Sbjct: 283 EEILKIAQTPVALETPIGAEQ-----DSQLGDFIEDDDA---------IAPFEAASSVLL 328 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 +K + + L RE+++ + R P TLE + EF + +ER+RQIE+ Sbjct: 329 QKH--------IESVLHTLPAREKKVIQLRFGLTDGQPRTLEQIGREFGIPQERIRQIES 380 Query: 275 RAFKKVQESIQKQ 287 R K+ + Q Sbjct: 381 RTLAKLSHPARSQ 393 >gi|266618720|pdb|3IYD|F Chain F, Three-Dimensional Em Structure Of An Intact Activator- Dependent Transcription Initiation Complex Length = 613 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|91212497|ref|YP_542483.1| RNA polymerase sigma factor RpoD [Escherichia coli UTI89] gi|117625379|ref|YP_855524.1| RNA polymerase sigma factor RpoD [Escherichia coli APEC O1] gi|218560154|ref|YP_002393067.1| RNA polymerase sigma factor RpoD [Escherichia coli S88] gi|218691372|ref|YP_002399584.1| RNA polymerase sigma factor RpoD [Escherichia coli ED1a] gi|227887792|ref|ZP_04005597.1| RNA polymerase sigma factor RpoD [Escherichia coli 83972] gi|237706170|ref|ZP_04536651.1| RNA polymerase sigma factor RpoD [Escherichia sp. 3_2_53FAA] gi|300973231|ref|ZP_07172070.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 45-1] gi|301048094|ref|ZP_07195132.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 185-1] gi|306816579|ref|ZP_07450711.1| RNA polymerase sigma factor RpoD [Escherichia coli NC101] gi|331648869|ref|ZP_08349957.1| RNA polymerase sigma factor RpoD [Escherichia coli M605] gi|331659358|ref|ZP_08360300.1| RNA polymerase sigma factor RpoD (Sigma-70) [Escherichia coli TA206] gi|91074071|gb|ABE08952.1| RNA polymerase, sigma(70) factor; regulation of proteins induced at high temperatures [Escherichia coli UTI89] gi|115514503|gb|ABJ02578.1| RNA polymerase, sigma(70) factor; regulation of proteins induced at high temperatures [Escherichia coli APEC O1] gi|218366923|emb|CAR04694.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli S88] gi|218428936|emb|CAR09739.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli ED1a] gi|226899210|gb|EEH85469.1| RNA polymerase sigma factor RpoD [Escherichia sp. 3_2_53FAA] gi|227835188|gb|EEJ45654.1| RNA polymerase sigma factor RpoD [Escherichia coli 83972] gi|281180121|dbj|BAI56451.1| RNA polymerase sigma factor RpoD [Escherichia coli SE15] gi|294493374|gb|ADE92130.1| RNA polymerase sigma factor RpoD [Escherichia coli IHE3034] gi|300300014|gb|EFJ56399.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 185-1] gi|300410811|gb|EFJ94349.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 45-1] gi|305850144|gb|EFM50603.1| RNA polymerase sigma factor RpoD [Escherichia coli NC101] gi|307555174|gb|ADN47949.1| hypothetical protein ECABU_c34860 [Escherichia coli ABU 83972] gi|307625318|gb|ADN69622.1| RNA polymerase sigma factor RpoD [Escherichia coli UM146] gi|312947638|gb|ADR28465.1| RNA polymerase sigma factor RpoD [Escherichia coli O83:H1 str. NRG 857C] gi|315288818|gb|EFU48216.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 110-3] gi|315295035|gb|EFU54372.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 153-1] gi|315297744|gb|EFU57021.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 16-3] gi|320195230|gb|EFW69859.1| RNA polymerase sigma factor RpoD [Escherichia coli WV_060327] gi|323951399|gb|EGB47274.1| RNA polymerase sigma proteinRpoD [Escherichia coli H252] gi|323957772|gb|EGB53486.1| RNA polymerase sigma proteinRpoD [Escherichia coli H263] gi|324008872|gb|EGB78091.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 57-2] gi|330909133|gb|EGH37647.1| RNA polymerase sigma factor RpoD [Escherichia coli AA86] gi|331042616|gb|EGI14758.1| RNA polymerase sigma factor RpoD [Escherichia coli M605] gi|331053940|gb|EGI25969.1| RNA polymerase sigma factor RpoD (Sigma-70) [Escherichia coli TA206] Length = 613 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|187733221|ref|YP_001881829.1| RNA polymerase sigma factor RpoD [Shigella boydii CDC 3083-94] gi|187430213|gb|ACD09487.1| RNA polymerase sigma factor RpoD [Shigella boydii CDC 3083-94] Length = 613 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|15803609|ref|NP_289642.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 EDL933] gi|15833204|ref|NP_311977.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. Sakai] gi|24114367|ref|NP_708877.1| RNA polymerase sigma factor RpoD [Shigella flexneri 2a str. 301] gi|74313602|ref|YP_312021.1| RNA polymerase sigma factor RpoD [Shigella sonnei Ss046] gi|82545322|ref|YP_409269.1| RNA polymerase sigma factor RpoD [Shigella boydii Sb227] gi|110643311|ref|YP_671041.1| RNA polymerase sigma factor RpoD [Escherichia coli 536] gi|110806954|ref|YP_690474.1| RNA polymerase sigma factor RpoD [Shigella flexneri 5 str. 8401] gi|157155497|ref|YP_001464528.1| RNA polymerase sigma factor RpoD [Escherichia coli E24377A] gi|168749343|ref|ZP_02774365.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4113] gi|168754040|ref|ZP_02779047.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4401] gi|168762022|ref|ZP_02787029.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4501] gi|168769477|ref|ZP_02794484.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4486] gi|168781203|ref|ZP_02806210.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4076] gi|168785943|ref|ZP_02810950.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC869] gi|168797660|ref|ZP_02822667.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC508] gi|170683578|ref|YP_001745339.1| RNA polymerase sigma factor RpoD [Escherichia coli SMS-3-5] gi|188493368|ref|ZP_03000638.1| RNA polymerase sigma factor RpoD [Escherichia coli 53638] gi|191166845|ref|ZP_03028670.1| RNA polymerase sigma factor RpoD [Escherichia coli B7A] gi|191172227|ref|ZP_03033770.1| RNA polymerase sigma factor RpoD [Escherichia coli F11] gi|193062048|ref|ZP_03043144.1| RNA polymerase sigma factor RpoD [Escherichia coli E22] gi|193067502|ref|ZP_03048470.1| RNA polymerase sigma factor RpoD [Escherichia coli E110019] gi|194427683|ref|ZP_03060230.1| RNA polymerase sigma factor RpoD [Escherichia coli B171] gi|194431653|ref|ZP_03063944.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae 1012] gi|195937213|ref|ZP_03082595.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4024] gi|208809700|ref|ZP_03252037.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4206] gi|208813639|ref|ZP_03254968.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4045] gi|208820039|ref|ZP_03260359.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4042] gi|209399452|ref|YP_002272540.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4115] gi|209920540|ref|YP_002294624.1| RNA polymerase sigma factor RpoD [Escherichia coli SE11] gi|215488398|ref|YP_002330829.1| RNA polymerase sigma factor RpoD [Escherichia coli O127:H6 str. E2348/69] gi|217326836|ref|ZP_03442919.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. TW14588] gi|218555637|ref|YP_002388550.1| RNA polymerase sigma factor RpoD [Escherichia coli IAI1] gi|218696772|ref|YP_002404439.1| RNA polymerase sigma factor RpoD [Escherichia coli 55989] gi|218701838|ref|YP_002409467.1| RNA polymerase sigma factor RpoD [Escherichia coli IAI39] gi|218706692|ref|YP_002414211.1| RNA polymerase sigma factor RpoD [Escherichia coli UMN026] gi|254795019|ref|YP_003079856.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. TW14359] gi|256019017|ref|ZP_05432882.1| RNA polymerase sigma factor RpoD [Shigella sp. D9] gi|260845821|ref|YP_003223599.1| RNA polymerase, sigma 70 factor [Escherichia coli O103:H2 str. 12009] gi|260857197|ref|YP_003231088.1| RNA polymerase, sigma 70 factor [Escherichia coli O26:H11 str. 11368] gi|260869819|ref|YP_003236221.1| RNA polymerase, sigma 70 factor [Escherichia coli O111:H- str. 11128] gi|261228080|ref|ZP_05942361.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli O157:H7 str. FRIK2000] gi|261254936|ref|ZP_05947469.1| RNA polymerase, sigma 70 factor [Escherichia coli O157:H7 str. FRIK966] gi|291284446|ref|YP_003501264.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. CB9615] gi|293406680|ref|ZP_06650606.1| RNA polymerase sigma factor RpoD [Escherichia coli FVEC1412] gi|293412444|ref|ZP_06655167.1| RNA polymerase sigma factor rpoD [Escherichia coli B354] gi|293416506|ref|ZP_06659145.1| RNA polymerase primary sigma factor [Escherichia coli B185] gi|293449405|ref|ZP_06663826.1| RNA polymerase primary sigma factor [Escherichia coli B088] gi|298382421|ref|ZP_06992018.1| RNA polymerase sigma factor rpoD [Escherichia coli FVEC1302] gi|300818835|ref|ZP_07099041.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 107-1] gi|300821663|ref|ZP_07101809.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 119-7] gi|300901451|ref|ZP_07119536.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 198-1] gi|300917392|ref|ZP_07134058.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 115-1] gi|300923730|ref|ZP_07139755.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 182-1] gi|300937447|ref|ZP_07152273.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 21-1] gi|300977468|ref|ZP_07173931.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 200-1] gi|301021861|ref|ZP_07185824.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 69-1] gi|307310308|ref|ZP_07589956.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli W] gi|309793633|ref|ZP_07688059.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 145-7] gi|312968589|ref|ZP_07782798.1| RNA polymerase sigma factor rpoD [Escherichia coli 2362-75] gi|331654667|ref|ZP_08355667.1| RNA polymerase sigma factor RpoD [Escherichia coli M718] gi|331664680|ref|ZP_08365586.1| RNA polymerase sigma factor RpoD [Escherichia coli TA143] gi|331669908|ref|ZP_08370753.1| RNA polymerase sigma factor RpoD [Escherichia coli TA271] gi|331679143|ref|ZP_08379815.1| RNA polymerase sigma factor RpoD [Escherichia coli H591] gi|331684720|ref|ZP_08385312.1| RNA polymerase sigma factor RpoD [Escherichia coli H299] gi|332280114|ref|ZP_08392527.1| RNA polymerase sigma 70 (sigma D) factor [Shigella sp. D9] gi|12517649|gb|AAG58201.1|AE005536_2 RNA polymerase, sigma(70) factor; regulation of proteins induced at high temperatures [Escherichia coli O157:H7 str. EDL933] gi|13363423|dbj|BAB37373.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli O157:H7 str. Sakai] gi|24053533|gb|AAN44584.1| sigmaD(70) factor of RNA polymerase [Shigella flexneri 2a str. 301] gi|73857079|gb|AAZ89786.1| RNA polymerase, sigma(70) factor [Shigella sonnei Ss046] gi|81246733|gb|ABB67441.1| RNA polymerase sigma(70) factor [Shigella boydii Sb227] gi|110344903|gb|ABG71140.1| RNA polymerase sigma factor RpoD [Escherichia coli 536] gi|110616502|gb|ABF05169.1| RpoD protein [Shigella flexneri 5 str. 8401] gi|157077527|gb|ABV17235.1| RNA polymerase sigma factor RpoD [Escherichia coli E24377A] gi|170521296|gb|ACB19474.1| RNA polymerase sigma factor RpoD [Escherichia coli SMS-3-5] gi|188016365|gb|EDU54487.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4113] gi|188488567|gb|EDU63670.1| RNA polymerase sigma factor RpoD [Escherichia coli 53638] gi|189000977|gb|EDU69963.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4076] gi|189358698|gb|EDU77117.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4401] gi|189361403|gb|EDU79822.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4486] gi|189367616|gb|EDU86032.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4501] gi|189374126|gb|EDU92542.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC869] gi|189379773|gb|EDU98189.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC508] gi|190903087|gb|EDV62811.1| RNA polymerase sigma factor RpoD [Escherichia coli B7A] gi|190907537|gb|EDV67133.1| RNA polymerase sigma factor RpoD [Escherichia coli F11] gi|192932268|gb|EDV84866.1| RNA polymerase sigma factor RpoD [Escherichia coli E22] gi|192959459|gb|EDV89894.1| RNA polymerase sigma factor RpoD [Escherichia coli E110019] gi|194414191|gb|EDX30466.1| RNA polymerase sigma factor RpoD [Escherichia coli B171] gi|194420009|gb|EDX36087.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae 1012] gi|195183229|dbj|BAG66772.1| RNA polymerase, sigma(70) factor [Escherichia coli O111:H-] gi|208729501|gb|EDZ79102.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4206] gi|208734916|gb|EDZ83603.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4045] gi|208740162|gb|EDZ87844.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4042] gi|209160852|gb|ACI38285.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4115] gi|209759228|gb|ACI77926.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759230|gb|ACI77927.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759232|gb|ACI77928.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759234|gb|ACI77929.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759236|gb|ACI77930.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209913799|dbj|BAG78873.1| RNA polymerase sigma factor RpoD [Escherichia coli SE11] gi|215266470|emb|CAS10908.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli O127:H6 str. E2348/69] gi|217319203|gb|EEC27628.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. TW14588] gi|218353504|emb|CAU99623.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli 55989] gi|218362405|emb|CAR00029.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli IAI1] gi|218371824|emb|CAR19679.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli IAI39] gi|218433789|emb|CAR14706.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli UMN026] gi|254594419|gb|ACT73780.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli O157:H7 str. TW14359] gi|257755846|dbj|BAI27348.1| RNA polymerase, sigma 70 factor [Escherichia coli O26:H11 str. 11368] gi|257760968|dbj|BAI32465.1| RNA polymerase, sigma 70 factor [Escherichia coli O103:H2 str. 12009] gi|257766175|dbj|BAI37670.1| RNA polymerase, sigma 70 factor [Escherichia coli O111:H- str. 11128] gi|281602456|gb|ADA75440.1| putative DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Shigella flexneri 2002017] gi|284923096|emb|CBG36189.1| RNA polymerase sigma-70 factor [Escherichia coli 042] gi|290764319|gb|ADD58280.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. CB9615] gi|291322495|gb|EFE61924.1| RNA polymerase primary sigma factor [Escherichia coli B088] gi|291426686|gb|EFE99718.1| RNA polymerase sigma factor RpoD [Escherichia coli FVEC1412] gi|291431862|gb|EFF04845.1| RNA polymerase primary sigma factor [Escherichia coli B185] gi|291469215|gb|EFF11706.1| RNA polymerase sigma factor rpoD [Escherichia coli B354] gi|298277561|gb|EFI19077.1| RNA polymerase sigma factor rpoD [Escherichia coli FVEC1302] gi|300308326|gb|EFJ62846.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 200-1] gi|300355153|gb|EFJ71023.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 198-1] gi|300397877|gb|EFJ81415.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 69-1] gi|300415349|gb|EFJ98659.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 115-1] gi|300420000|gb|EFK03311.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 182-1] gi|300457482|gb|EFK20975.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 21-1] gi|300525801|gb|EFK46870.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 119-7] gi|300528620|gb|EFK49682.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 107-1] gi|306909203|gb|EFN39698.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli W] gi|308122590|gb|EFO59852.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 145-7] gi|312286807|gb|EFR14718.1| RNA polymerase sigma factor rpoD [Escherichia coli 2362-75] gi|313648184|gb|EFS12630.1| RNA polymerase sigma factor rpoD [Shigella flexneri 2a str. 2457T] gi|315062375|gb|ADT76702.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli W] gi|320176471|gb|EFW51521.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae CDC 74-1112] gi|320179315|gb|EFW54273.1| RNA polymerase sigma factor RpoD [Shigella boydii ATCC 9905] gi|320182888|gb|EFW57762.1| RNA polymerase sigma factor RpoD [Shigella flexneri CDC 796-83] gi|320189419|gb|EFW64078.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC1212] gi|320201978|gb|EFW76553.1| RNA polymerase sigma factor RpoD [Escherichia coli EC4100B] gi|320640141|gb|EFX09713.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. G5101] gi|320645439|gb|EFX14448.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H- str. 493-89] gi|320650750|gb|EFX19207.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H- str. H 2687] gi|320656128|gb|EFX24040.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320661818|gb|EFX29226.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. USDA 5905] gi|320666969|gb|EFX33945.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. LSU-61] gi|323154524|gb|EFZ40724.1| RNA polymerase sigma factor rpoD [Escherichia coli EPECa14] gi|323163118|gb|EFZ48951.1| RNA polymerase sigma factor rpoD [Escherichia coli E128010] gi|323168088|gb|EFZ53775.1| RNA polymerase sigma factor rpoD [Shigella sonnei 53G] gi|323173687|gb|EFZ59316.1| RNA polymerase sigma factor rpoD [Escherichia coli LT-68] gi|323178773|gb|EFZ64349.1| RNA polymerase sigma factor rpoD [Escherichia coli 1180] gi|323183651|gb|EFZ69048.1| RNA polymerase sigma factor rpoD [Escherichia coli 1357] gi|323188489|gb|EFZ73774.1| RNA polymerase sigma factor rpoD [Escherichia coli RN587/1] gi|323377037|gb|ADX49305.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli KO11] gi|323946863|gb|EGB42881.1| RNA polymerase sigma protein RpoD [Escherichia coli H120] gi|323966596|gb|EGB62029.1| RNA polymerase sigma proteinRpoD [Escherichia coli M863] gi|323978859|gb|EGB73939.1| RNA polymerase sigma proteinRpoD [Escherichia coli TW10509] gi|324011983|gb|EGB81202.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 60-1] gi|324018214|gb|EGB87433.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 117-3] gi|324119675|gb|EGC13556.1| RNA polymerase sigma proteinRpoD [Escherichia coli E1167] gi|326337771|gb|EGD61605.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. 1125] gi|326347336|gb|EGD71061.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. 1044] gi|327251853|gb|EGE63539.1| RNA polymerase sigma factor rpoD [Escherichia coli STEC_7v] gi|331048049|gb|EGI20126.1| RNA polymerase sigma factor RpoD [Escherichia coli M718] gi|331058611|gb|EGI30592.1| RNA polymerase sigma factor RpoD [Escherichia coli TA143] gi|331062821|gb|EGI34735.1| RNA polymerase sigma factor RpoD [Escherichia coli TA271] gi|331073208|gb|EGI44531.1| RNA polymerase sigma factor RpoD [Escherichia coli H591] gi|331078335|gb|EGI49541.1| RNA polymerase sigma factor RpoD [Escherichia coli H299] gi|332086727|gb|EGI91867.1| RNA polymerase sigma factor rpoD [Shigella boydii 5216-82] gi|332086765|gb|EGI91902.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 155-74] gi|332086940|gb|EGI92075.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 155-74] gi|332092163|gb|EGI97241.1| RNA polymerase sigma factor rpoD [Shigella boydii 3594-74] gi|332102466|gb|EGJ05812.1| RNA polymerase sigma 70 (sigma D) factor [Shigella sp. D9] gi|332752740|gb|EGJ83125.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-671] gi|332753124|gb|EGJ83508.1| RNA polymerase sigma factor rpoD [Shigella flexneri 4343-70] gi|332754402|gb|EGJ84768.1| RNA polymerase sigma factor rpoD [Shigella flexneri 2747-71] gi|332765316|gb|EGJ95540.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor [Shigella flexneri 2930-71] gi|332998670|gb|EGK18266.1| RNA polymerase sigma factor rpoD [Shigella flexneri VA-6] gi|332999827|gb|EGK19411.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-272] gi|332999919|gb|EGK19502.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-218] gi|333014798|gb|EGK34143.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-304] gi|333015695|gb|EGK35034.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-227] Length = 613 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|90416498|ref|ZP_01224429.1| RNA polymerase sigma factor RpoD [marine gamma proteobacterium HTCC2207] gi|90331697|gb|EAS46925.1| RNA polymerase sigma factor RpoD [marine gamma proteobacterium HTCC2207] Length = 612 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 118/246 (47%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPSPEELAERMEMPED 491 Query: 161 AIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I K L +++ E ISM + DE S+ LI +D + L Sbjct: 492 KIRKVLKIAK-EPISMETPIGEDEDASIGDLI----------EDTTI--------ALPLD 532 Query: 219 EERKNRRNMLTRS-MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 E KN TR +S L RE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 533 EATKNNLTESTRGVLSSLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 592 Query: 276 AFKKVQ 281 A +K++ Sbjct: 593 ALRKLR 598 >gi|18477825|emb|CAC83730.1| sigma factor [Rhodococcus fascians] Length = 323 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 82/303 (27%), Positives = 142/303 (46%), Gaps = 58/303 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG--------------------------DLSAAH- 51 Y++ I + +L +EE LAKR E G D SAA Sbjct: 30 YLNGIGRTALLTAEEEVDLAKRI-EAGLYAKQVLENTKRLSAVKKRNLAIIVRDGSAARS 88 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ Sbjct: 89 HLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQ 148 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVAIAKKL 166 A+ + +++ ++ L R+K L + TD L E +A+ K Sbjct: 149 AITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQQLGREATDEELSSESGIAVEKIA 206 Query: 167 NVSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++ + + +S++ + DE L I S+ S+ E +I Sbjct: 207 DLLDHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSA-------------ENAVIAGLLHS 253 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R +L L+ RE+++ R ++ P TL+ + F +SRERVRQIE K+ Sbjct: 254 DVRVVL----GTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMVKL 309 Query: 281 QES 283 ++ Sbjct: 310 RQG 312 >gi|3893860|gb|AAC78467.1| RNA polymerase sigma factor 1 [Zea mays] Length = 398 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 128/253 (50%), Gaps = 40/253 (15%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S+ RLV+ IA Y G+ + +++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 159 LAMSNTRLVISIAQKYDNLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 218 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES- 171 + + + ++ T +++ L ++G A+ D + P V IA+ LN+SE Sbjct: 219 VSRALADNSRSFRLPTYLHER-----LVAIRGAKYALEDQGIAP-TVENIAESLNISEKK 272 Query: 172 ---------EVISMNCR-------LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +VIS++ + L GD +L++ I + + W H +E+ L Sbjct: 273 VHNATEAVHKVISLDQQAFPSLNGLPGD-TLHSYIEDQNVANDPW-------HGFEERYL 324 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEA 274 KEE + N S LN RER I + + T E++S +F +SRERVRQ+ Sbjct: 325 --KEEVNSLIN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGL 376 Query: 275 RAFKKVQESIQKQ 287 A +K++ + +++ Sbjct: 377 VAMEKLKHAARRE 389 >gi|77359315|ref|YP_338890.1| RNA polymerase sigma factor [Pseudoalteromonas haloplanktis TAC125] gi|76874226|emb|CAI85447.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pseudoalteromonas haloplanktis TAC125] Length = 615 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 122/248 (49%), Gaps = 38/248 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPE-- 157 I+ A+ I ++I T N+ +++ + R + + + + + + PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPNPEELAERMMMPEDK 494 Query: 158 --QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +V+ IAK E ISM + DE S D++ D Sbjct: 495 VRKVLKIAK-------EPISMETPIGDDE------------DSHLGDFI---EDTTIDSP 532 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 I+ ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIE Sbjct: 533 IDSATMESLRGATNDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 592 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 593 AKALRKLR 600 >gi|262042263|ref|ZP_06015428.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|259040327|gb|EEW41433.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 611 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 373 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 432 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 433 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 490 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 491 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 533 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 534 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 594 RKLRHPSRSEV 604 >gi|1072030|gb|AAB60181.1| RNA polymerase sigma-subunit [Escherichia coli] Length = 603 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 365 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 424 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 425 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 482 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 483 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 525 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 526 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 585 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 586 RKLRHPSRSEV 596 >gi|324115354|gb|EGC09318.1| RNA polymerase sigma proteinRpoD [Escherichia fergusonii B253] Length = 613 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|302336705|ref|YP_003801911.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301633890|gb|ADK79317.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 322 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 83/299 (27%), Positives = 139/299 (46%), Gaps = 44/299 (14%) Query: 16 LSRYIHEIRKIPMLEKQEE------------------------------YVLAKRYREHG 45 LS Y+ +I P+L K+EE Y+ KR E Sbjct: 23 LSLYLKQISAYPLLTKEEELMIGREIQERKQELLELEELLGKEEIERSAYLFRKRTIEAV 82 Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 + R++TS+LRLVV IA Y+ GL +++ EGNIGL++AV++FD + + +TY Sbjct: 83 LRKSRDRMITSNLRLVVSIAKKYQHRGLSFLDLIDEGNIGLIEAVERFDYTKRCKFSTYG 142 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN-LRRLKGHLQAITDNNLKPEQVVAIAK 164 WWI Q+ +++ +L G T N +R+L + +T + IA Sbjct: 143 TWWI----QQSVIK--ALADKGRTIRIPIHVLNIIRKLFSVTKHLTQELGRDPSSAEIAA 196 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +++ V S+ SL+ ++ D+N + D LV+ D E E Sbjct: 197 YMDLPVERVESILQYSGETASLDVTVD--DENITSLSD-LVFSDDYIEP--FESVFHVTL 251 Query: 225 RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +++L + L+ RE+ I + R P+TLE + S ++RERVRQI+ +A +K++ Sbjct: 252 KDLLDTILGQLSEREQTIIKLRFGLADRTPLTLEEIGSILGITRERVRQIQNKAIEKLR 310 >gi|205354126|ref|YP_002227927.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205273907|emb|CAR38909.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] Length = 615 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMEAPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|170765503|ref|ZP_02900314.1| RNA polymerase sigma factor RpoD [Escherichia albertii TW07627] gi|170124649|gb|EDS93580.1| RNA polymerase sigma factor RpoD [Escherichia albertii TW07627] Length = 613 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|39546362|ref|NP_462126.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|161616204|ref|YP_001590169.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167551873|ref|ZP_02345626.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|167990234|ref|ZP_02571334.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168237909|ref|ZP_02662967.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168243042|ref|ZP_02667974.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168262827|ref|ZP_02684800.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168463576|ref|ZP_02697493.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|194445988|ref|YP_002042478.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194451693|ref|YP_002047209.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194472915|ref|ZP_03078899.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194736124|ref|YP_002116168.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197251872|ref|YP_002148141.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197264102|ref|ZP_03164176.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|198242489|ref|YP_002217192.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200389116|ref|ZP_03215728.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204928094|ref|ZP_03219294.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|207858469|ref|YP_002245120.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213425630|ref|ZP_03358380.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213586893|ref|ZP_03368719.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213646106|ref|ZP_03376159.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213865054|ref|ZP_03387173.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|238910014|ref|ZP_04653851.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|61234163|sp|P0A2E3|RPOD_SALTY RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|61234169|sp|P0A2E4|RPOD_SALTI RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|154406|gb|AAA27242.1| rpoD protein [Salmonella enterica subsp. enterica serovar Typhimurium] gi|161365568|gb|ABX69336.1| hypothetical protein SPAB_04007 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194404651|gb|ACF64873.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194409997|gb|ACF70216.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194459279|gb|EDX48118.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194711626|gb|ACF90847.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195633147|gb|EDX51561.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197215575|gb|ACH52972.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197242357|gb|EDY24977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197289083|gb|EDY28452.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197937005|gb|ACH74338.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199606214|gb|EDZ04759.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204322416|gb|EDZ07613.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205323318|gb|EDZ11157.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205331247|gb|EDZ18011.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205337819|gb|EDZ24583.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205348629|gb|EDZ35260.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206710272|emb|CAR34630.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|301159764|emb|CBW19283.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312914239|dbj|BAJ38213.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|321225894|gb|EFX50948.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] Length = 615 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|157162543|ref|YP_001459861.1| RNA polymerase sigma factor RpoD [Escherichia coli HS] gi|170018681|ref|YP_001723635.1| RNA polymerase sigma factor RpoD [Escherichia coli ATCC 8739] gi|194439798|ref|ZP_03071864.1| RNA polymerase sigma factor RpoD [Escherichia coli 101-1] gi|253772097|ref|YP_003034928.1| RNA polymerase sigma factor RpoD [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254038237|ref|ZP_04872295.1| RNA polymerase sigma factor RpoD [Escherichia sp. 1_1_43] gi|254163014|ref|YP_003046122.1| RNA polymerase sigma factor RpoD [Escherichia coli B str. REL606] gi|256024353|ref|ZP_05438218.1| RNA polymerase sigma factor RpoD [Escherichia sp. 4_1_40B] gi|300905790|ref|ZP_07123524.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 84-1] gi|300931954|ref|ZP_07147251.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 187-1] gi|300950721|ref|ZP_07164609.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 116-1] gi|300958456|ref|ZP_07170595.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 175-1] gi|301021226|ref|ZP_07185258.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 196-1] gi|301301890|ref|ZP_07208024.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 124-1] gi|301644765|ref|ZP_07244740.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 146-1] gi|307139755|ref|ZP_07499111.1| RNA polymerase sigma factor RpoD [Escherichia coli H736] gi|312972668|ref|ZP_07786841.1| RNA polymerase sigma factor rpoD [Escherichia coli 1827-70] gi|331643766|ref|ZP_08344897.1| RNA polymerase sigma factor RpoD [Escherichia coli H736] gi|157068223|gb|ABV07478.1| RNA polymerase sigma factor RpoD [Escherichia coli HS] gi|169753609|gb|ACA76308.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli ATCC 8739] gi|194421246|gb|EDX37267.1| RNA polymerase sigma factor RpoD [Escherichia coli 101-1] gi|226839861|gb|EEH71882.1| RNA polymerase sigma factor RpoD [Escherichia sp. 1_1_43] gi|242378617|emb|CAQ33404.1| RNA polymerase, sigma 70 (sigma D) factor, subunit of RNA polymerase sigma 70 [Escherichia coli BL21(DE3)] gi|253323141|gb|ACT27743.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253974915|gb|ACT40586.1| RNA polymerase sigma factor [Escherichia coli B str. REL606] gi|253979071|gb|ACT44741.1| RNA polymerase sigma factor [Escherichia coli BL21(DE3)] gi|299881584|gb|EFI89795.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 196-1] gi|300314897|gb|EFJ64681.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 175-1] gi|300402389|gb|EFJ85927.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 84-1] gi|300449958|gb|EFK13578.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 116-1] gi|300460377|gb|EFK23870.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 187-1] gi|300842871|gb|EFK70631.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 124-1] gi|301076919|gb|EFK91725.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 146-1] gi|309703498|emb|CBJ02838.1| RNA polymerase sigma-70 factor [Escherichia coli ETEC H10407] gi|310332610|gb|EFP99823.1| RNA polymerase sigma factor rpoD [Escherichia coli 1827-70] gi|315256981|gb|EFU36949.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 85-1] gi|315617141|gb|EFU97750.1| RNA polymerase sigma factor rpoD [Escherichia coli 3431] gi|323935931|gb|EGB32226.1| RNA polymerase sigma protein RpoD [Escherichia coli E1520] gi|323941835|gb|EGB38014.1| RNA polymerase sigma proteinRpoD [Escherichia coli E482] gi|323960998|gb|EGB56615.1| RNA polymerase sigma proteinRpoD [Escherichia coli H489] gi|323971810|gb|EGB67035.1| RNA polymerase sigma proteinRpoD [Escherichia coli TA007] gi|331037237|gb|EGI09461.1| RNA polymerase sigma factor RpoD [Escherichia coli H736] gi|332345022|gb|AEE58356.1| RNA polymerase sigma factor protein RpoD [Escherichia coli UMNK88] Length = 613 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|331017645|gb|EGH97701.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 616 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKITK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|309790481|ref|ZP_07685041.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] gi|308227468|gb|EFO81136.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] Length = 346 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 88/305 (28%), Positives = 138/305 (45%), Gaps = 66/305 (21%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGD-----------LSAAHR--------------- 52 Y+ EI ++ +L EE L++R E GD LS R Sbjct: 53 YLQEIGRVSLLTANEEVELSERI-ERGDEAEERLATEDQLSGTQRRNLEHEVERGNDARR 111 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y G GL + +++ EGNIGLM+AV+KFD +G R +TY+ WWI+ Sbjct: 112 HLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDHRKGNRFSTYATWWIRQ 171 Query: 112 AMQEYILRSWSLVKIGTTANQ---------KRLFFNLRRLKGHLQ---AITDNNLKPEQV 159 A+ I +++ ++ +RL +L R + A+ + E+V Sbjct: 172 AVTRSIAEQGRTIRLPVHMSESVSQVKRTSERLSQSLERQPSAEEIAIALGQPTERIERV 231 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIEK 218 + A++ E+ V GDE + L + D + D+ Q+L Sbjct: 232 LEAARRPVSLETPV--------GDEGEHTLGDFLPDDDLPTPGDF------ASAQLL--- 274 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 R L ++ LN RERRI + R L TLE + ++RER RQIEA A Sbjct: 275 ------RQDLCAALDHLNERERRIIDLRYGLLDGRRRTLEEVGRTLGMTRERARQIEAEA 328 Query: 277 FKKVQ 281 ++++ Sbjct: 329 LRRLR 333 >gi|283787203|ref|YP_003367068.1| RNA polymerase sigma-70 factor [Citrobacter rodentium ICC168] gi|282950657|emb|CBG90329.1| RNA polymerase sigma-70 factor [Citrobacter rodentium ICC168] Length = 614 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|283836397|ref|ZP_06356138.1| RNA polymerase sigma factor RpoD [Citrobacter youngae ATCC 29220] gi|291067770|gb|EFE05879.1| RNA polymerase sigma factor RpoD [Citrobacter youngae ATCC 29220] Length = 615 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|126666520|ref|ZP_01737498.1| RNA polymerase sigma factor RpoD [Marinobacter sp. ELB17] gi|126628908|gb|EAZ99527.1| RNA polymerase sigma factor RpoD [Marinobacter sp. ELB17] Length = 616 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 114/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 491 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q ++ Sbjct: 492 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDIQALSPVDSAT 535 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 + R ++ L RE ++ R E TLE + +F+V+RER+RQIEA+A + Sbjct: 536 AEGLREATRSVLAGLTARESKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALR 595 Query: 279 KVQ 281 K++ Sbjct: 596 KLR 598 >gi|30064415|ref|NP_838586.1| RNA polymerase sigma factor RpoD [Shigella flexneri 2a str. 2457T] gi|30042672|gb|AAP18396.1| sigmaD(70) factor of RNA polymerase [Shigella flexneri 2a str. 2457T] Length = 608 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|54025745|ref|YP_119987.1| RNA polymerase sigma factor SigB [Nocardia farcinica IFM 10152] gi|54017253|dbj|BAD58623.1| putative principal sigma factor [Nocardia farcinica IFM 10152] Length = 322 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 80/302 (26%), Positives = 143/302 (47%), Gaps = 56/302 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDLSAAHR---------------- 52 Y++ I + +L +E LAKR Y +H LSAA + Sbjct: 29 YLNGIGRTALLTAADEVELAKRIEAGLYAQHLLETSKRLSAAKKKDLAMIVRDGQAARSH 88 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 89 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 148 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K L TD L E + + K + Sbjct: 149 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQQLGREATDEELAAESGIPVEKIAD 206 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + + + +S++ + DE L I S+ S+ E +I + Sbjct: 207 LLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSA-------------ESAVIAGLLHHD 253 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 254 VRSVL----ATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 309 Query: 282 ES 283 + Sbjct: 310 KG 311 >gi|157148639|ref|YP_001455958.1| RNA polymerase sigma factor RpoD [Citrobacter koseri ATCC BAA-895] gi|157085844|gb|ABV15522.1| hypothetical protein CKO_04466 [Citrobacter koseri ATCC BAA-895] Length = 614 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|311278024|ref|YP_003940255.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae SCF1] gi|308747219|gb|ADO46971.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae SCF1] Length = 614 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|297626466|ref|YP_003688229.1| RNA polymerase principal sigma factor HrdB [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296922231|emb|CBL56801.1| RNA polymerase principal sigma factor HrdB [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 509 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 82/310 (26%), Positives = 140/310 (45%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLSA-------------AHR--- 52 Y+ +I K+ +L +E LAKR ++GD A HR Sbjct: 215 YLKQIGKVALLNAAQEVDLAKRIEAGLFAGEQLTKNGDKIARADRGDYEWITEDGHRAKN 274 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWIK Sbjct: 275 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIKQ 334 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 335 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEV 394 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 395 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AVVPADAVNFTLLQEQ- 440 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 441 -------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 493 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 494 KLRHPSRSQV 503 >gi|158339615|ref|YP_001521004.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] gi|158309856|gb|ABW31472.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 268 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 71/279 (25%), Positives = 130/279 (46%), Gaps = 29/279 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L + EI + P+L +EE LA R + G L A R++ +LR VV IA Y+ GLP+ Sbjct: 8 LHFFFKEIARYPLLSHEEEIQLA-RQAQAGSLRAKQRMIECNLRFVVSIAKKYQNRGLPL 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EG+IGL AV KFD +G R +TY+ WWI+ + A + + Sbjct: 67 LDLIQEGSIGLSTAVDKFDLAQGCRFSTYAYWWIRQG-----------ITAAVRAKSRPI 115 Query: 136 FF------NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD-ESLNA 188 + + ++K H + +T + + +++ N+ + + IS +L SL+ Sbjct: 116 YLPHYHWDTVGKIKKHFRVLTQQLGREPSLSELSEATNI-KPKTISRTLQLFQQISSLDQ 174 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 L+ K++ + D E E + L++ M+ L+ RER + R Sbjct: 175 LVGPQQKDT-------LLDMLAGEDQPTHYLESLQLDDELSQVMASLDERERFVLSQRYG 227 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 E+ P +++ + + +S E +R I + +K++ Q Sbjct: 228 LEDDHPKSMKEIGQQIGLSHEGIRLILKKIMQKLERYAQ 266 >gi|219849486|ref|YP_002463919.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219543745|gb|ACL25483.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 345 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 79/292 (27%), Positives = 137/292 (46%), Gaps = 40/292 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY------------------REHGDL--------SAAHR 52 Y+ EI ++ +L EE LA+R RE +L A Sbjct: 52 YLQEIGRVALLTAVEEVELAERIERGNAAEQRLATATDLTPRERCELLKAVQEGEEARRH 111 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV IA Y G GL + +++ EGNIGLM+AV+KFD +G R +TY+ WWI+ A Sbjct: 112 LIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDHHKGNRFSTYATWWIRQA 171 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSES 171 + + +++ ++ ++R+ L + PE++ +A+ + + + Sbjct: 172 VTRALAEQGRTIRLPVHMSES--VAQVKRIADRLAQSLERQPTPEEIAMALGQPVERIQR 229 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + + C + SL + D+ D++ D + E +K L + Sbjct: 230 ILEAARCPV----SLETPVG--DEGEHTLGDFIT---DEELPAPGEIAAQKLLHRDLCAA 280 Query: 232 MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L+ RERRI + R L TLE + ++RER RQIEA A ++++ Sbjct: 281 LNQLSDRERRIIDLRYGLLDGRRRTLEEVGRVLGMTRERARQIEAEALRRLR 332 >gi|311693206|gb|ADP96079.1| RNA polymerase, sigma 70 subunit, RpoD [marine bacterium HP15] Length = 615 Score = 89.0 bits (219), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 114/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 432 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 489 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q ++ Sbjct: 490 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDIQALSPVDSAT 533 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 + R ++ L RE ++ R E TLE + +F+V+RER+RQIEA+A + Sbjct: 534 AEGLREATRSVLAGLTARESKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALR 593 Query: 279 KVQ 281 K++ Sbjct: 594 KLR 596 >gi|261342495|ref|ZP_05970353.1| RNA polymerase sigma factor RpoD [Enterobacter cancerogenus ATCC 35316] gi|288315137|gb|EFC54075.1| RNA polymerase sigma factor RpoD [Enterobacter cancerogenus ATCC 35316] Length = 614 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|124023525|ref|YP_001017832.1| type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9303] gi|123963811|gb|ABM78567.1| Putative type II alternative sigma factor, sigma70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 308 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 124/245 (50%), Gaps = 23/245 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 66 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 125 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKL 166 I+ + + ++I N+K LR K L + N L P EQ+V +L Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKSRL--MQSNGLPPTAEQLVK-TMRL 180 Query: 167 NVSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 ++E E + + C L + SL ++ S S LV +E +E+ E R Sbjct: 181 PMAEVEDL-LACELRSVTVSLQGVVKSKSDPSE-----LVDVLPSEEIPPMERAEMAERT 234 Query: 226 ----NMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFK 278 +L R+ L P+ER + R + TL ++ SRE RQ+ RA + Sbjct: 235 ASVWTLLNRAN--LTPKERMVVTLRFGLDGSHEWRTLAEVARHMSCSREYCRQVVQRALR 292 Query: 279 KVQES 283 K++++ Sbjct: 293 KLRKT 297 >gi|322613615|gb|EFY10556.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322621208|gb|EFY18066.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322624271|gb|EFY21105.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322627991|gb|EFY24780.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322633109|gb|EFY29851.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322636314|gb|EFY33022.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322643488|gb|EFY40050.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322644793|gb|EFY41328.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322648602|gb|EFY45049.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322653654|gb|EFY49980.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322657762|gb|EFY54030.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322663863|gb|EFY60062.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322669126|gb|EFY65277.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322672881|gb|EFY68988.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322678129|gb|EFY74192.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322681305|gb|EFY77338.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322687765|gb|EFY83732.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323195577|gb|EFZ80754.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323199742|gb|EFZ84832.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323202510|gb|EFZ87550.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323208002|gb|EFZ92948.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323212446|gb|EFZ97263.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323215072|gb|EFZ99820.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323222802|gb|EGA07167.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323224117|gb|EGA08410.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323230441|gb|EGA14559.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323235207|gb|EGA19293.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323239248|gb|EGA23298.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323244394|gb|EGA28400.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323247011|gb|EGA30977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323253507|gb|EGA37336.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323256187|gb|EGA39923.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323262637|gb|EGA46193.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323267267|gb|EGA50751.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323269331|gb|EGA52786.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] Length = 615 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|1769598|gb|AAB39998.1| sigma factor [Synechococcus sp. PCC 7002] Length = 398 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 67/247 (27%), Positives = 122/247 (49%), Gaps = 35/247 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV KFDP +G+R +TY+ WW Sbjct: 159 AKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWW 218 Query: 109 IKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDN----NLKPEQV 159 I+ + +++ + K+ + + +G ++ D + PEQV Sbjct: 219 IRQGITRGDRTQSRTIRLPVHVTEKLNKIKKAQRQISQTQGCTPSLDDVAQALEMTPEQV 278 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + +K+ S +S+ R+ D L L+ + D + E+ L+ Sbjct: 279 REVLQKVPRS----VSLEIRVGKDRDTELGDLLETQDASP--------------EENLVR 320 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT--LENLSSEFEVSRERVRQIEAR 275 + +++ N+LT L RER + + R + T L + +VSRERVRQIEA+ Sbjct: 321 ESLQRDLHNLLTE----LTDREREVIQLRYGLGDGKTYSLAEIGRMLDVSRERVRQIEAK 376 Query: 276 AFKKVQE 282 A +K+++ Sbjct: 377 ALQKLRQ 383 >gi|269925486|ref|YP_003322109.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789146|gb|ACZ41287.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 338 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 80/302 (26%), Positives = 139/302 (46%), Gaps = 61/302 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR--------------------------EHGDLSAAHR 52 Y+ EI +P+L ++E LAK+ + G+ + H Sbjct: 46 YLREIGLVPLLTAEQEVELAKKMERGKKAQSVLDSGKYEPEQRDKLLAEVDEGERARRH- 104 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A + GL + +++ EGNIGLM+A KFD +GF+ +TY+ WWI+ A Sbjct: 105 LIEANLRLVVSVAKKHMNRGLSLLDLIEEGNIGLMRATDKFDYRKGFKFSTYATWWIRQA 164 Query: 113 MQEYILRSWSLVK--IGTTANQKRLFFNLRRLKGHL-------QAITDNNLKPEQVVAIA 163 + I ++ + T L+ R+L L + + PE+V I Sbjct: 165 VTRAIADQARTIRLPVHITETMNHLYKASRKLSQELGREPTCEELAEYMGMNPEKVRLIM 224 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 + + +S+ + GD SL I D + D + + ++++E Sbjct: 225 R----ASRHPLSLEGPVGTDGDSSLGQFI--PDSTTETPVDLAIGE-------VLKRE-- 269 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKK 279 L++ ++ L +ER++ R E +P TLE + V+RERVRQIEA+A +K Sbjct: 270 ------LSKVLNSLTEKERKVMVLRYGLEGSSPHTLEEVGHRLGVTRERVRQIEAKALEK 323 Query: 280 VQ 281 ++ Sbjct: 324 LR 325 >gi|301325578|ref|ZP_07219046.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 78-1] gi|300847629|gb|EFK75389.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 78-1] Length = 613 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDPTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|26249652|ref|NP_755692.1| RpoD protein [Escherichia coli CFT073] gi|26110080|gb|AAN82266.1|AE016767_26 RpoD protein [Escherichia coli CFT073] Length = 246 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 124/250 (49%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 8 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 67 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 68 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 125 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 126 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 169 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 ++ R ++ L RE ++ R + TLE + +F+V+RER+RQIEA+A + Sbjct: 170 TESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 229 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 230 KLRHPSRSEV 239 >gi|257483092|ref|ZP_05637133.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tabaci ATCC 11528] gi|289627702|ref|ZP_06460656.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289649021|ref|ZP_06480364.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi str. 2250] gi|298485287|ref|ZP_07003379.1| RNA polymerase sigma factor RpoD [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298160137|gb|EFI01166.1| RNA polymerase sigma factor RpoD [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|320325995|gb|EFW82053.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea str. B076] gi|320332070|gb|EFW88006.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea str. race 4] gi|330868477|gb|EGH03186.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330881700|gb|EGH15849.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea str. race 4] gi|330891182|gb|EGH23843.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. mori str. 301020] gi|330985810|gb|EGH83913.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. lachrymans str. M301315] gi|331011674|gb|EGH91730.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 616 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|24372864|ref|NP_716906.1| RNA polymerase sigma-70 factor [Shewanella oneidensis MR-1] gi|24346976|gb|AAN54351.1|AE015572_6 RNA polymerase sigma-70 factor [Shewanella oneidensis MR-1] Length = 616 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ ++ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 SESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|330963831|gb|EGH64091.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. actinidiae str. M302091] Length = 616 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|296932701|gb|ADH93504.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. In5] Length = 616 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|28867765|ref|NP_790384.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213967690|ref|ZP_03395837.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato T1] gi|301382750|ref|ZP_07231168.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato Max13] gi|302064027|ref|ZP_07255568.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato K40] gi|302130708|ref|ZP_07256698.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato NCPPB 1108] gi|28851000|gb|AAO54079.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213927466|gb|EEB61014.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato T1] gi|330878419|gb|EGH12568.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 616 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|329910007|ref|ZP_08275189.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] gi|327546317|gb|EGF31339.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] Length = 452 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 120/249 (48%), Gaps = 42/249 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLVV IA Y G+ +++ EGNIGL++AV KF+ RG++ +TY+ WW Sbjct: 213 AKRDMTEANLRLVVSIAKKYINRGMQFLDLIQEGNIGLLKAVDKFEYRRGYKFSTYATWW 272 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLF------FNLRRLKGHLQAITDNN 153 I+ A+ I +++ T N+ +R+ +L L H++ +T+ Sbjct: 273 IRQAVSRAIADQARTIRVPVHMLETVNKLNRIARRILQETGVEADLPTLALHME-LTEQK 331 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 ++ +++ IA+ E ISM + D SQ D++ D Sbjct: 332 VR--EIMKIAR-------EPISMESPVG------------DDGDSQLGDFI---QDSTTT 367 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQ 271 +E + R + + L PRE +I R ++ TLE + +FEV+RER+RQ Sbjct: 368 APLEAAVDASMRTAIKEVLDALPPREAKILRMRYGLDTQSDHTLEEVGKQFEVTRERIRQ 427 Query: 272 IEARAFKKV 280 IE++A K+ Sbjct: 428 IESKALVKL 436 >gi|326384463|ref|ZP_08206143.1| RNA polymerase sigma factor SigB [Gordonia neofelifaecis NRRL B-59395] gi|326196808|gb|EGD54002.1| RNA polymerase sigma factor SigB [Gordonia neofelifaecis NRRL B-59395] Length = 332 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 74/262 (28%), Positives = 132/262 (50%), Gaps = 30/262 (11%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K+ +Y + R G+ + AH L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV Sbjct: 81 KKRDYAILVR---EGEQARAH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAV 136 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFFNLRR-LKGHL-Q 147 +KFD +G++ +TY+ WWI+ A+ + +++ Q +RR L L + Sbjct: 137 EKFDYAKGYKFSTYATWWIRQAISRGMADQSRTIRLPVHLVEQVNKLARIRRELHQQLGR 196 Query: 148 AITDNNLKPEQVVAIAKKLNVSES--EVISMNCRLAGDE--SLNALINSSDKNSSQWQDW 203 TD L E + K ++ + + +S++ + DE L I ++ S+ Sbjct: 197 EATDEELALESGIPAEKIADLMDHSRDPVSLDMPVGNDEEAPLGDFIEDAEATSA----- 251 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSE 261 E V+I + R++L S L+ RE ++ R ++ P TL+ + Sbjct: 252 --------ETVVIANLLHSDIRSVL----STLDEREMQVITMRYGLDDGQPRTLDQIGRA 299 Query: 262 FEVSRERVRQIEARAFKKVQES 283 F +SRERVRQIE K+++ Sbjct: 300 FGLSRERVRQIEREVMGKLRQG 321 >gi|302185957|ref|ZP_07262630.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae 642] Length = 616 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|302338588|ref|YP_003803794.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635773|gb|ADK81200.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 612 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 74/251 (29%), Positives = 117/251 (46%), Gaps = 33/251 (13%) Query: 44 HGDL---SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 HG + +A RL+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +GF+ Sbjct: 366 HGQVMMKNAKDRLIQANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKFEYSKGFK 425 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV- 159 +TY+ WWI+ A+ I +++ ++ + R L I + E+V Sbjct: 426 FSTYATWWIRQAITRSISDQARTIRVPVHMIEQ--INKVVRESRQLMQILGRDPTDEEVA 483 Query: 160 ------VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQ 211 V K + E IS+ + +E L I D + Q Q Sbjct: 484 ERLGWTVLRVKSVKNVAREPISLETPIGEEEDSLLGDFIEDKDIENPANQTAFTL---LQ 540 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERV 269 EQ L M L PRE+ + + R ++ +TLE + F V+RER+ Sbjct: 541 EQ--------------LQEVMKTLPPREQEVLKMRFGLDDGYSLTLEEVGLYFNVTRERI 586 Query: 270 RQIEARAFKKV 280 RQIEA+A +++ Sbjct: 587 RQIEAKALRRL 597 >gi|295097580|emb|CBK86670.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 614 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 493 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 494 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 536 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 537 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 597 RKLRHPSRSEV 607 >gi|296104731|ref|YP_003614877.1| RNA polymerase sigma-70 factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295059190|gb|ADF63928.1| RNA polymerase sigma-70 factor [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 615 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 437 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 494 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 495 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 537 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 598 RKLRHPSRSEV 608 >gi|66047868|ref|YP_237709.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae B728a] gi|63258575|gb|AAY39671.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Pseudomonas syringae pv. syringae B728a] Length = 616 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|113971243|ref|YP_735036.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-4] gi|113885927|gb|ABI39979.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-4] Length = 619 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 498 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 499 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 542 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ ++ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 543 SESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 602 Query: 279 KVQ 281 K++ Sbjct: 603 KLR 605 >gi|237803341|ref|ZP_04590926.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. oryzae str. 1_6] gi|331025322|gb|EGI05378.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. oryzae str. 1_6] Length = 615 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|172035517|ref|YP_001802018.1| group 2 sigma-70 RNA polymerase sigma factor E [Cyanothece sp. ATCC 51142] gi|171696971|gb|ACB49952.1| group 2 sigma-70 RNA polymerase sigma factor E [Cyanothece sp. ATCC 51142] Length = 374 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 73/244 (29%), Positives = 124/244 (50%), Gaps = 15/244 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +R H +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ Sbjct: 128 HRLHRGRTAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYK 187 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I +++ +K L +LK + + + Sbjct: 188 FSTYAYWWIRQAITRTIANDARTIRLPIHVVEK-----LNKLKKAQRVLKQKLQRNPNEK 242 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQVLIEK 218 +A +L VS S++ + SLN + + ++ D L+ D D Q E+++ E Sbjct: 243 ELADELEVSPSQLRQLLQLRRQSLSLNHRVGKGE--DTELVD-LLEDQDLQLPEELMNEG 299 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 R +L+ VL RE+ + R P TLE + F +SRERVRQI+++A Sbjct: 300 MLRYEVSAVLS---DVLTQREKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKA 356 Query: 277 FKKV 280 +K+ Sbjct: 357 MRKL 360 >gi|77461370|ref|YP_350877.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Pf0-1] gi|77385373|gb|ABA76886.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas fluorescens Pf0-1] Length = 615 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|117921525|ref|YP_870717.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. ANA-3] gi|117613857|gb|ABK49311.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. ANA-3] Length = 619 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 498 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 499 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 542 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ ++ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 543 SESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 602 Query: 279 KVQ 281 K++ Sbjct: 603 KLR 605 >gi|226939395|ref|YP_002794468.1| RNA polymerase sigma factor RpoD [Laribacter hongkongensis HLHK9] gi|226714321|gb|ACO73459.1| RpoD [Laribacter hongkongensis HLHK9] Length = 649 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 64/245 (26%), Positives = 114/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 406 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 465 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T P + +A+++++ Sbjct: 466 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGAEPDPAE---LARRMDM 520 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D + D +Y Sbjct: 521 PEDKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDLATMAPSDAAMY------------ 568 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + + + L PRE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 569 ---ASLKEATKEVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 625 Query: 277 FKKVQ 281 +K++ Sbjct: 626 LRKLR 630 >gi|194699556|gb|ACF83862.1| unknown [Zea mays] gi|223944677|gb|ACN26422.1| unknown [Zea mays] Length = 496 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 128/253 (50%), Gaps = 40/253 (15%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S+ RLV+ IA Y G+ + +++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 257 LAMSNTRLVISIAQKYDNLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 316 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES- 171 + + + ++ T +++ L ++G A+ D + P V IA+ LN+SE Sbjct: 317 VSRALADNSRSFRLPTYLHER-----LVAIRGAKYALEDQGIAP-TVENIAESLNISEKK 370 Query: 172 ---------EVISMNCR-------LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +VIS++ + L GD +L++ I + + W H +E+ L Sbjct: 371 VHNATEAVHKVISLDQQAFPSLNGLPGD-TLHSYIEDQNVANDPW-------HGFEERYL 422 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEA 274 KEE + N S LN RER I + + T E++S +F +SRERVRQ+ Sbjct: 423 --KEEVNSLIN------STLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGL 474 Query: 275 RAFKKVQESIQKQ 287 A +K++ + +++ Sbjct: 475 VAMEKLKHAARRE 487 >gi|182416400|ref|YP_001821466.1| RpoD family RNA polymerase sigma factor [Opitutus terrae PB90-1] gi|177843614|gb|ACB77866.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutus terrae PB90-1] Length = 640 Score = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 116/245 (47%), Gaps = 34/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGN+GLM+AV+KF+ RG++ +TY+ WW Sbjct: 337 AKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 396 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N QK+L + + NL E+V Sbjct: 397 IRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQEYGHEPTPEEVADEMNLPVERV 456 Query: 160 VAIAKKLNVSESEVISMNCRL--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I K + IS+ + D S I DK++ D + +L E Sbjct: 457 QQIMKMAQ----QPISLQSPVGDGDDTSFGDFIE--DKSAENPYDMTAF------SLLRE 504 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEAR 275 K + + L RERR+ R + TLE + +F+V+RER+RQIEA+ Sbjct: 505 K---------IIDVLDSLTERERRVLSLRFGLIDGYSRTLEEVGKQFKVTRERIRQIEAK 555 Query: 276 AFKKV 280 A +K+ Sbjct: 556 ALRKM 560 >gi|229592968|ref|YP_002875087.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens SBW25] gi|229364834|emb|CAY52873.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas fluorescens SBW25] Length = 616 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|251793982|ref|YP_003008714.1| RNA polymerase sigma factor RpoD [Aggregatibacter aphrophilus NJ8700] gi|247535381|gb|ACS98627.1| RNA polymerase sigma factor RpoD (Sigma-70) [Aggregatibacter aphrophilus NJ8700] Length = 623 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 119/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 385 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 444 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 445 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREASPEE---LAERMGM 499 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ + Sbjct: 500 PEDKIRKV-LKIAK-EPISMETPIGDDDDSHLGDFI---EDSTLELPLDSATAQSLKAAT 554 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 555 HEVLEGLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608 >gi|114048481|ref|YP_739031.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-7] gi|113889923|gb|ABI43974.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-7] Length = 619 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 498 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 499 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 542 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ ++ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 543 SESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 602 Query: 279 KVQ 281 K++ Sbjct: 603 KLR 605 >gi|330812146|ref|YP_004356608.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327380254|gb|AEA71604.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 615 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|197286218|ref|YP_002152090.1| RNA polymerase sigma factor RpoD [Proteus mirabilis HI4320] gi|227357334|ref|ZP_03841691.1| RNA polymerase sigma-70 factor [Proteus mirabilis ATCC 29906] gi|194683705|emb|CAR44685.1| RNA polymerase sigma-70 factor [Proteus mirabilis HI4320] gi|227162597|gb|EEI47586.1| RNA polymerase sigma-70 factor [Proteus mirabilis ATCC 29906] Length = 618 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 440 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPSPEELAERMLMPED- 497 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 498 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 540 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ + L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 541 TSESLRSATHEVLGGLTLREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 600 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 601 RKLRHPSRSEV 611 >gi|312963434|ref|ZP_07777916.1| sigma-70 [Pseudomonas fluorescens WH6] gi|311282240|gb|EFQ60839.1| sigma-70 [Pseudomonas fluorescens WH6] Length = 616 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|255066480|ref|ZP_05318335.1| RNA polymerase sigma factor RpoD [Neisseria sicca ATCC 29256] gi|255049360|gb|EET44824.1| RNA polymerase sigma factor RpoD [Neisseria sicca ATCC 29256] Length = 649 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 70/252 (27%), Positives = 120/252 (47%), Gaps = 44/252 (17%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 405 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 464 Query: 108 WIKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKG---------HLQAITDNN 153 WI+ A+ I ++I T R+ + G L + ++ Sbjct: 465 WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQYLQETGEEPDSAKLAELMEMPEDK 524 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQ 211 ++ +++ IAK E ISM + D+ + D N+ D +Y H+ Sbjct: 525 IR--KIMKIAK-------EPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVT 575 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERV 269 +++L L PRE ++ R + N TLE + +F+V+RER+ Sbjct: 576 KEIL-----------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERI 618 Query: 270 RQIEARAFKKVQ 281 RQIEA+A +K++ Sbjct: 619 RQIEAKALRKLR 630 >gi|111023771|ref|YP_706743.1| RNA polymerase sigma factor SigB [Rhodococcus jostii RHA1] gi|110823301|gb|ABG98585.1| sigma factor, sigma 70 type, group 2 (proven non-essential) [Rhodococcus jostii RHA1] Length = 323 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 124/248 (50%), Gaps = 32/248 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ W Sbjct: 85 SARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATW 144 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQVVA- 161 WI+ A+ + +++ ++ L R+K L TD+ L E + Sbjct: 145 WIRQAITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQQLGREATDDELAEESGIPA 202 Query: 162 --IAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA L+ S V S++ + DE L I S+ S+ E +I Sbjct: 203 HKIADLLDHSRDPV-SLDMPVGNDEEAPLGDFIEDSEATSA-------------ENAVIA 248 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 + R++L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE Sbjct: 249 GLLHSDVRSVL----ATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIERE 304 Query: 276 AFKKVQES 283 K+++ Sbjct: 305 VMGKLRQG 312 >gi|71736970|ref|YP_272918.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. phaseolicola 1448A] gi|71557523|gb|AAZ36734.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. phaseolicola 1448A] Length = 616 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|53802939|ref|YP_115383.1| RNA polymerase sigma-70 factor [Methylococcus capsulatus str. Bath] gi|53756700|gb|AAU90991.1| RNA polymerase sigma-70 factor [Methylococcus capsulatus str. Bath] Length = 599 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 360 AKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 419 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + P+++ A ++++ Sbjct: 420 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPDELAA---RMDM 474 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D + S D++ D + +E + R Sbjct: 475 PEDKVRKV-MKIAK-EPISMETPIGDDDDSHLGDFI---EDSRVLSPVEHATVASLRETT 529 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 530 QQVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 584 >gi|70732951|ref|YP_262722.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Pf-5] gi|1710687|sp|P52326|RPOD_PSEFL RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|929808|emb|CAA59134.1| sigma 70 [Pseudomonas fluorescens] gi|68347250|gb|AAY94856.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Pf-5] Length = 615 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|330898880|gb|EGH30299.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. japonica str. M301072PT] gi|330980978|gb|EGH79081.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 616 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|124025343|ref|YP_001014459.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|123960411|gb|ABM75194.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. NATL1A] Length = 307 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 129/255 (50%), Gaps = 13/255 (5%) Query: 34 EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 EY A++ R A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+ Sbjct: 50 EYSSAEKKRFKAGERAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKY 109 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 DP+RG R +TY+ WWI+ + + ++I N+K LR K L + + Sbjct: 110 DPKRGHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNINEK--LTKLRAAKSRL--MQELG 165 Query: 154 LKPE-QVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + P +AI K+ + E E + + C L SL + S + S+ D L + Sbjct: 166 VHPSTNQIAIQMKIPLEEVEEL-LACELRSITVSLQGAVK-SKADPSELVDILPSEEVPP 223 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRER 268 ++ E + ++L +S L P+ER I R + TL ++ + SRE Sbjct: 224 MELAELAERSASAWSLLDKSN--LTPKERTILSLRFGLDGSNEWRTLAEVARQMNCSREY 281 Query: 269 VRQIEARAFKKVQES 283 RQ+ RA +K++++ Sbjct: 282 CRQVVQRALRKLRKT 296 >gi|226366207|ref|YP_002783990.1| RNA polymerase sigma factor SigB [Rhodococcus opacus B4] gi|226244697|dbj|BAH55045.1| RNA polymerase sigma factor SigB [Rhodococcus opacus B4] gi|254553060|dbj|BAH85842.1| RNA polymerase sigma B factor [Rhodococcus opacus] Length = 323 Score = 89.0 bits (219), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 123/248 (49%), Gaps = 32/248 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ W Sbjct: 85 SARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATW 144 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQVVA- 161 WI+ A+ + +++ ++ L R+K L TD+ L E + Sbjct: 145 WIRQAITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQQLGREATDDELAEESGIPA 202 Query: 162 --IAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA L+ S V S++ + DE L I S+ S+ E +I Sbjct: 203 HKIADLLDHSRDPV-SLDMPVGNDEEAPLGDFIEDSEATSA-------------ENAVIA 248 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 + R +L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE Sbjct: 249 GLLHSDVRTVL----ATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIERE 304 Query: 276 AFKKVQES 283 K+++ Sbjct: 305 VMGKLRQG 312 >gi|325264732|ref|ZP_08131461.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] gi|324030024|gb|EGB91310.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] Length = 292 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 85/282 (30%), Positives = 138/282 (48%), Gaps = 28/282 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ EI +I L EE L K+ E GD A +L S L LVV IA Y G GL Sbjct: 29 LKIYLKEIGQISPLSSGEELELGKKIAE-GDEGAKLKLEESALCLVVSIAGQYSGRGLLF 87 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EGNIGLMQA +K+D + + Y+ WI+ A++ + +++ + Sbjct: 88 MDLIQEGNIGLMQAAEKYDYTKDGGFSGYARRWIEDAIKHAVDEQSREIRVPAYVAE--- 144 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKL-NVSESEVISMNCRLAGDESLNALINSSD 194 N+++++ + + IA KL + SE E+ S+ L SL+A + D Sbjct: 145 --NMKKVQKAAYELQQELGREATAGEIAGKLGDKSEEEIESILTFLKNPVSLDAPVEDGD 202 Query: 195 KNSSQWQDWLVYDHDGQEQV-------LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 + +D + D +E+ LI+KEE + + L+ +ER++ R Sbjct: 203 DEN--LEDTIA---DREEKTPEDAVNSLIQKEE-------VLHLLESLSEKERQVISKRF 250 Query: 247 RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L++ V TLE + E VSRER+ QIE A KK++++ K+ Sbjct: 251 GLEDGRVHTLEEVGQELNVSRERISQIEEHAMKKLRQAAGKE 292 >gi|325962990|ref|YP_004240896.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Arthrobacter phenanthrenivorans Sphe3] gi|323469077|gb|ADX72762.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Arthrobacter phenanthrenivorans Sphe3] Length = 437 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/275 (26%), Positives = 130/275 (47%), Gaps = 40/275 (14%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P +++ E+++ H A + L+ ++LRLVV +A Y G G+ +++ EGN+GL Sbjct: 184 PKYKRELEFII------HDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGL 237 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFF 137 ++AV+KFD +GF+ +TY+ WWI+ A+ + ++I Q+++ Sbjct: 238 IRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQ 297 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDK 195 +L R + + ++ PE+VV + K E IS++ L GD LI S+ Sbjct: 298 DLGREPTPEELALELDMTPEKVVEVQK----YGREPISLHTPLGEDGDSEFGDLIEDSEA 353 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPV 253 V D L++++ L + L+ RE + R P Sbjct: 354 ---------VVPADAVSFTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPK 396 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 397 TLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 431 >gi|57864855|gb|AAW57030.1| putative group 2 RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] Length = 368 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 73/244 (29%), Positives = 124/244 (50%), Gaps = 15/244 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +R H +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ Sbjct: 122 HRLHRGRTAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYK 181 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I +++ +K L +LK + + + Sbjct: 182 FSTYAYWWIRQAITRTIANDARTIRLPIHVVEK-----LNKLKKAQRVLKQKLQRNPNEK 236 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQVLIEK 218 +A +L VS S++ + SLN + + ++ D L+ D D Q E+++ E Sbjct: 237 ELADELEVSPSQLRQLLQLRRQSLSLNHRVGKGE--DTELVD-LLEDQDLQLPEELMNEG 293 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 R +L+ VL RE+ + R P TLE + F +SRERVRQI+++A Sbjct: 294 MLRYEVSAVLS---DVLTQREKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKA 350 Query: 277 FKKV 280 +K+ Sbjct: 351 MRKL 354 >gi|256825489|ref|YP_003149449.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Kytococcus sedentarius DSM 20547] gi|256688882|gb|ACV06684.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Kytococcus sedentarius DSM 20547] Length = 594 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 80/309 (25%), Positives = 141/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----GDL-----------------SAAHR 52 Y+ +I K+ +L ++E LAKR + E GD +A + Sbjct: 301 YLKQIGKVALLNAEQEVDLAKRIEAGLFAEQRLNSGDKIDAKLKRELWWVASDGKNAKNH 360 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 361 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 420 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 421 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEVQ 480 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 481 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPSDAVSFTLLQEQ-- 525 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 526 ------LHSVLDTLSEREAGVVSMRFGLADGQPKTLDEIGRVYGVTRERIRQIESKTMSK 579 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 580 LRHPSRSQV 588 >gi|261363710|ref|ZP_05976593.1| RNA polymerase sigma factor RpoD [Neisseria mucosa ATCC 25996] gi|288568271|gb|EFC89831.1| RNA polymerase sigma factor RpoD [Neisseria mucosa ATCC 25996] Length = 649 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 70/252 (27%), Positives = 120/252 (47%), Gaps = 44/252 (17%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 405 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 464 Query: 108 WIKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKG---------HLQAITDNN 153 WI+ A+ I ++I T R+ + G L + ++ Sbjct: 465 WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQYLQETGEEPDSAKLAELMEMPEDK 524 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQ 211 ++ +++ IAK E ISM + D+ + D N+ D +Y H+ Sbjct: 525 IR--KIMKIAK-------EPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVT 575 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERV 269 +++L L PRE ++ R + N TLE + +F+V+RER+ Sbjct: 576 KEIL-----------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERI 618 Query: 270 RQIEARAFKKVQ 281 RQIEA+A +K++ Sbjct: 619 RQIEAKALRKLR 630 >gi|327479259|gb|AEA82569.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri DSM 4166] Length = 617 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 115/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 497 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSAMQSPIDVAT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 279 KV 280 K+ Sbjct: 601 KL 602 >gi|319425507|gb|ADV53581.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella putrefaciens 200] Length = 613 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 435 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ ++ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 SESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQ 281 K++ Sbjct: 597 KLR 599 >gi|308177806|ref|YP_003917212.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117] gi|307745269|emb|CBT76241.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117] Length = 403 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 69/253 (27%), Positives = 121/253 (47%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 166 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 225 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + ++I Q+++ +L R + + ++ PE+V Sbjct: 226 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 285 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 V + K E IS++ L GD LI S+ V D L++ Sbjct: 286 VEVQK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQ 332 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEAR 275 ++ L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 333 EQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESK 384 Query: 276 AFKKVQESIQKQV 288 K++ + QV Sbjct: 385 TMSKLRHPSRSQV 397 >gi|307153454|ref|YP_003888838.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306983682|gb|ADN15563.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 372 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 120/242 (49%), Gaps = 25/242 (10%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 133 AAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 192 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ T AN R RL H+ + K ++V+ N Sbjct: 193 WIRQAITR------------TIANDARTI----RLPIHIVEKLNKLKKAQRVLKQQLHRN 236 Query: 168 VSESEV---ISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE---E 220 +E E+ + ++C L L S + + +D + D E++ + +E E Sbjct: 237 PTEQELAQALEIDCEHLRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDEELQLPEEKMNE 296 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 R+++ VL RE+ + R + P TLE + F +SRERVRQI+++A + Sbjct: 297 AMMRQDIAAVLTDVLTEREKDVIALRYGLITSQPYTLEEVGGIFNLSRERVRQIQSKAMR 356 Query: 279 KV 280 K+ Sbjct: 357 KL 358 >gi|222034799|emb|CAP77541.1| RNA polymerase sigma factor rpoD [Escherichia coli LF82] Length = 613 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 435 IRQAITRSIAVQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 492 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 493 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 535 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 536 TTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 596 RKLRHPSRSEV 606 >gi|33340521|gb|AAQ14856.1| RpoD [Pseudomonas fluorescens] Length = 616 Score = 88.6 bits (218), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|227499199|ref|ZP_03929334.1| RNA polymerase [Acidaminococcus sp. D21] gi|226904646|gb|EEH90564.1| RNA polymerase [Acidaminococcus sp. D21] Length = 582 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/235 (31%), Positives = 115/235 (48%), Gaps = 13/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 344 AKKALSEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGFKFSTYATWW 403 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ L PE+ IA++++V Sbjct: 404 IRQAITRAIADQARTIRI--PVHMVETINKLVRVSRQLLQELGREPTPEE---IAQEMDV 458 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 V + SL I ++ S D++ D + E + L Sbjct: 459 PVERVREIQKIAQEPVSLETPIG--EEEDSHLGDFI---EDQEAPSPAEAASYTLLQEQL 513 Query: 229 TRSMSV-LNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + + L+PRERR+ E R L TLE + F V+RER+RQIEA+A +K+ Sbjct: 514 GKVLQEHLSPRERRVLELRFGLLDGRTRTLEEVGQYFGVTRERIRQIEAKALRKL 568 >gi|13357909|ref|NP_078183.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|170762330|ref|YP_001752432.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|11357048|pir||E82901 RNA polymerase sigma factor UU349 [imported] - Ureaplasma urealyticum gi|6899329|gb|AAF30758.1|AE002132_2 RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|168827907|gb|ACA33169.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 27815] Length = 448 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/254 (27%), Positives = 124/254 (48%), Gaps = 40/254 (15%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++L TS++RLV IA Y GL + +++ EG+ GL++A+ KFD E+G + +TY+ WWI+ Sbjct: 195 NQLYTSNMRLVTSIAKKYLNRGLDLEDLIQEGSSGLLKAIDKFDHEKGHKFSTYATWWIR 254 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRR------LKGHLQAITDNNLK 155 ++ I ++I T ++ L L R + + ++ + Sbjct: 255 QSITRAIADQARQIRIPVHMVETINKLTKAERNLIQELGRDPTAEEIAQAMNKVSQAKNQ 314 Query: 156 PEQVVAIA-----KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 EQ++ KKLNV + +S++ ++ DE SQ+ D++ D Sbjct: 315 KEQLITAQKVVEIKKLNV---DPVSLDKQIGHDE------------ESQFSDFISDDEII 359 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ---ENPVTLENLSSEFEVSRE 267 + EK+ ++ N + VLN E+R+ + R E P TLE + V+RE Sbjct: 360 SPEKYTEKKALNDQINEMFE--KVLNDNEQRVIKMRYGLLPFERPYTLEEVGEYLGVTRE 417 Query: 268 RVRQIEARAFKKVQ 281 R RQIE++A +K++ Sbjct: 418 RARQIESKAIRKLK 431 >gi|256823391|ref|YP_003147354.1| RNA polymerase sigma-70 subunit RpoD [Kangiella koreensis DSM 16069] gi|256796930|gb|ACV27586.1| RNA polymerase, sigma 70 subunit, RpoD [Kangiella koreensis DSM 16069] Length = 616 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 116/244 (47%), Gaps = 32/244 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + +PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPQPEELAERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I K L +++ E ISM + DE L I S +S ++ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDSTIDSP-----------------VDA 537 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 ++ + + ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 538 ATGESLKEVTDEILAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 597 Query: 277 FKKV 280 +K+ Sbjct: 598 LRKL 601 >gi|3769432|gb|AAC78468.1| RNA polymerase sigma factor 2 [Zea mays] Length = 349 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 128/253 (50%), Gaps = 40/253 (15%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S++RLV+ IA Y G+ +++++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 110 LTMSNIRLVISIAHKYDNLGVDLADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 169 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES- 171 + + + ++ T +++ L ++G A+ D + P + IA+ LN+S Sbjct: 170 VSRALADNSKTFRLPTYLHER-----LLAIRGAKYALEDQGIAP-TIENIAESLNISVKK 223 Query: 172 ---------EVISMNCR-------LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +V+S++ + L GD +L++ I + + W H +E L Sbjct: 224 VHNATEAVHKVLSLDQQAFPSLNGLPGD-TLHSYIEDQNVANDPW-------HGFEEMYL 275 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEA 274 KEE N N S LN RER I + + T E++S +F +SRERVRQ+ Sbjct: 276 --KEEVNNLIN------SNLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVRL 327 Query: 275 RAFKKVQESIQKQ 287 A +K++ + +++ Sbjct: 328 VAMEKLKHAARRK 340 >gi|159903122|ref|YP_001550466.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159888298|gb|ABX08512.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9211] Length = 312 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 124/246 (50%), Gaps = 25/246 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++TS+LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP+RG R +TY+ WW Sbjct: 65 AKNQMITSNLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPKRGHRFSTYAYWW 124 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + + ++I N+K LR K L + N L P + +AKK+++ Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEK--LTKLRAAKSQL--MQANGLTPSSEM-LAKKMHL 179 Query: 169 SESEVI--------SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 S+ EV S+ L G + S + S+ D L + +V E Sbjct: 180 SKEEVEELLECELRSITVSLQG-------VVQSKSDPSELGDVLPSEEIPPMEVAELAER 232 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAF 277 + ++L ++ L P+ER I R + TL ++ SRE RQ+ RA Sbjct: 233 NDSAWSLLNKAN--LTPKERTIVSLRFGLDGSNEWRTLAEVAKHMNCSREYCRQVVQRAL 290 Query: 278 KKVQES 283 +K++++ Sbjct: 291 RKLRKT 296 >gi|269794902|ref|YP_003314357.1| RNA polymerase sigma-70 subunit RpoD [Sanguibacter keddieii DSM 10542] gi|269097087|gb|ACZ21523.1| RNA polymerase, sigma 70 subunit, RpoD [Sanguibacter keddieii DSM 10542] Length = 516 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 81/311 (26%), Positives = 141/311 (45%), Gaps = 63/311 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG----------DLS------------------AA 50 Y+ +I K+ +L ++E LAKR E G D S A Sbjct: 222 YLKQIGKVALLNAEQEVDLAKRI-EAGLFAEERLSAPDASFAPKARRELEWIAGDGRRAK 280 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 281 NHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 340 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + ++ PE+VV Sbjct: 341 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVE 400 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ V D L++++ Sbjct: 401 VQK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ 447 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 448 --------LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTM 499 Query: 278 KKVQESIQKQV 288 K++ + QV Sbjct: 500 SKLRHPSRSQV 510 >gi|3646419|emb|CAA07705.1| sigma-70 factor [Pseudomonas tolaasii] Length = 616 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|119773960|ref|YP_926700.1| RNA polymerase sigma-70 factor [Shewanella amazonensis SB2B] gi|119766460|gb|ABL99030.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella amazonensis SB2B] Length = 620 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 382 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 442 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMAMPED 499 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 500 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 543 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 544 SESLKQATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 603 Query: 279 KVQ 281 K++ Sbjct: 604 KLR 606 >gi|92113104|ref|YP_573032.1| sigma 70 (RpoD) [Chromohalobacter salexigens DSM 3043] gi|91796194|gb|ABE58333.1| RNA polymerase, sigma 70 subunit, RpoD [Chromohalobacter salexigens DSM 3043] Length = 614 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + ++L + Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPEE---LGERLEM 490 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D + S D++ DG + I+ + Sbjct: 491 PEDKVRKV-LKIA-KEPISMETPIGDDDDSHLGDFI---EDGTMLLPIDSATGEGLIEAT 545 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 546 RNVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 600 >gi|238022360|ref|ZP_04602786.1| hypothetical protein GCWU000324_02267 [Kingella oralis ATCC 51147] gi|237866974|gb|EEP68016.1| hypothetical protein GCWU000324_02267 [Kingella oralis ATCC 51147] Length = 654 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 123/236 (52%), Gaps = 14/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 411 AAKQKMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 470 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + +LQ ++ P+ +A+ + Sbjct: 471 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQYLQETGED---PDS-AKLAELME 525 Query: 168 VSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E ++ + ++A + S+ + I D + S D++ D E + R Sbjct: 526 MPEDKIRKI-MKIAKEPISMESPI--GDDDDSHLGDFI---EDVNNVAPAEAAMYSSLRE 579 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 580 VTAGVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 635 >gi|170723972|ref|YP_001751660.1| RNA polymerase sigma factor RpoD [Pseudomonas putida W619] gi|169761975|gb|ACA75291.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida W619] Length = 616 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|120599857|ref|YP_964431.1| RpoD family RNA polymerase sigma factor [Shewanella sp. W3-18-1] gi|146292207|ref|YP_001182631.1| RpoD family RNA polymerase sigma factor [Shewanella putrefaciens CN-32] gi|120559950|gb|ABM25877.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. W3-18-1] gi|145563897|gb|ABP74832.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella putrefaciens CN-32] Length = 616 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 118/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ ++ ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 SESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|171920395|ref|ZP_02931720.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|183508771|ref|ZP_02958238.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|186701631|ref|ZP_02971335.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 6 str. ATCC 27818] gi|171902833|gb|EDT49122.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|182675710|gb|EDT87615.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|186700864|gb|EDU19146.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 6 str. ATCC 27818] Length = 448 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/254 (27%), Positives = 124/254 (48%), Gaps = 40/254 (15%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++L TS++RLV IA Y GL + +++ EG+ GL++A+ KFD E+G + +TY+ WWI+ Sbjct: 195 NQLYTSNMRLVTSIAKKYLNRGLDLEDLIQEGSSGLLKAIDKFDHEKGHKFSTYATWWIR 254 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRR------LKGHLQAITDNNLK 155 ++ I ++I T ++ L L R + + ++ + Sbjct: 255 QSITRAIADQARQIRIPVHMVETINKLTKAERNLIQELGRDPTAEEIAQAMNKVSQAKNQ 314 Query: 156 PEQVVAIA-----KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 EQ++ KKLNV + +S++ ++ DE SQ+ D++ D Sbjct: 315 KEQLITAQKVVEIKKLNV---DPVSLDKQIGHDE------------ESQFSDFISDDEII 359 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ---ENPVTLENLSSEFEVSRE 267 + EK+ ++ N + VLN E+R+ + R E P TLE + V+RE Sbjct: 360 SPEKYTEKKALNDQINEMFE--KVLNDNEQRVIKMRYGLLPFERPYTLEEVGEYLGVTRE 417 Query: 268 RVRQIEARAFKKVQ 281 R RQIE++A +K++ Sbjct: 418 RARQIESKAIRKLK 431 >gi|294669659|ref|ZP_06734726.1| hypothetical protein NEIELOOT_01560 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308572|gb|EFE49815.1| hypothetical protein NEIELOOT_01560 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 496 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/245 (27%), Positives = 118/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 254 AKEEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 313 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + N R + +LQ ++ P+ +A+ + + Sbjct: 314 IRQAITRSIADQARTIRIPVHMIETINKMN-RISRQYLQETGED---PDS-AKLAELMEM 368 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D N+ D +Y Sbjct: 369 PEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDVNNVAPADAAMY------------ 416 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 + R + + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 417 ---SSLREVTADVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 473 Query: 277 FKKVQ 281 +K++ Sbjct: 474 LRKLR 478 >gi|167031434|ref|YP_001666665.1| RNA polymerase sigma factor RpoD [Pseudomonas putida GB-1] gi|166857922|gb|ABY96329.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida GB-1] Length = 616 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|307546061|ref|YP_003898540.1| RNA polymerase sigma factor RpoD [Halomonas elongata DSM 2581] gi|307218085|emb|CBV43355.1| RNA polymerase sigma factor RpoD [Halomonas elongata DSM 2581] Length = 615 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + ++L + Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPEE---LGERLEM 491 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D + S D++ DG + I+ + Sbjct: 492 PEDKVRKV-LKIA-KEPISMETPIGDDDDSHLGDFI---EDGTMVLPIDSATGEGLIEAT 546 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 547 RNVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 601 >gi|297520936|ref|ZP_06939322.1| RNA polymerase sigma factor RpoD [Escherichia coli OP50] Length = 436 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 124/250 (49%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 198 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 257 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + + + L PE Sbjct: 258 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED-- 315 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 316 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSAT 359 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 ++ R ++ L RE ++ R + TLE + +F+V+RER+RQIEA+A + Sbjct: 360 TESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 419 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 420 KLRHPSRSEV 429 >gi|50954703|ref|YP_061991.1| RNA polymerase sigma factor [Leifsonia xyli subsp. xyli str. CTCB07] gi|50951185|gb|AAT88886.1| RNA polymerase, sigma-70 family factor [Leifsonia xyli subsp. xyli str. CTCB07] Length = 440 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 82/309 (26%), Positives = 139/309 (44%), Gaps = 62/309 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY---------------------RE------HGDLSAAH 51 Y+ +I K+P+L EE LA R RE G + +H Sbjct: 147 YLKQIGKVPLLNAAEEVELAMRIEAGLFAEDRLANTPNMPRELERELRWVARDGQRAKSH 206 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 207 -LLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQ 265 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 266 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSKELDMTPEKVVEV 325 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI + V D +++K+ Sbjct: 326 QK----YGREPISLHTPLGEDGDSEFGDLIEDIEA---------VVPADAVGFTMLQKQ- 371 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R L + P TL+ + F V+RER+RQIE++ Sbjct: 372 -------LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMA 424 Query: 279 KVQESIQKQ 287 K++ + Q Sbjct: 425 KLRHPSRSQ 433 >gi|88858406|ref|ZP_01133048.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pseudoalteromonas tunicata D2] gi|88820023|gb|EAR29836.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pseudoalteromonas tunicata D2] Length = 615 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 115/242 (47%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPNPEELAERMMMPED 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + I+ Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTIESPIDSAT 537 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 538 MESLKGATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 597 Query: 279 KV 280 K+ Sbjct: 598 KL 599 >gi|224370025|ref|YP_002604189.1| RpoD [Desulfobacterium autotrophicum HRM2] gi|223692742|gb|ACN16025.1| RpoD [Desulfobacterium autotrophicum HRM2] Length = 618 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 380 AKSELVRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 439 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R +L PE+ IA+K+ + Sbjct: 440 IRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQEMGKEPSPEE---IAEKMEI 494 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ ++ S D++ D + + E N Sbjct: 495 PLDKVRRV-LKIAR-EPISLETPIGEEEDSHLGDFI---EDKKFSLPSEAAINLNLAEQT 549 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ L PRE ++ R ++ TLE + +F V+RER+RQIEA+A +K++ Sbjct: 550 RKVLATLTPREEKVLRMRFGIGEKADHTLEEVGRDFTVTRERIRQIEAKALRKLR 604 >gi|325273045|ref|ZP_08139355.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. TJI-51] gi|324101818|gb|EGB99354.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. TJI-51] Length = 616 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|158335492|ref|YP_001516664.1| RNA polymerase sigma factor [Acaryochloris marina MBIC11017] gi|158305733|gb|ABW27350.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 327 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 77/326 (23%), Positives = 142/326 (43%), Gaps = 73/326 (22%) Query: 4 KNMSIIVNGEIGLSR-YIHEIRKIPMLEKQEEYVLAKR---------------------- 40 K +I V+ + R Y+HEI ++P+L +EE V K+ Sbjct: 7 KQQAISVSPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMDELGREP 66 Query: 41 ----YREHGDLS-------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 + E +LS A +++ ++LRLVV +A Y+ L + +++ EG Sbjct: 67 SLEEWAEKANLSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGT 126 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 +GL + V+KFDP RG++ +TY+ WWI+ A+ I + +++ +K L ++K Sbjct: 127 LGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK-----LNKIK 181 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSS 193 + ++ + IA+ L + S++ IS++ R+ Sbjct: 182 KAQRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVG------------ 229 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D ++ +D L D EQ + R + +L L P++R + R N Sbjct: 230 DNQDTELRDLLEDDGQSPEQFTTTEALRDDVNQLLKE----LTPQQRDVLMLRFGLNNGK 285 Query: 252 PVTLENLSSEFEVSRERVRQIEARAF 277 ++L + + +SRERVRQ+E +A Sbjct: 286 ELSLAKVGQQLSLSRERVRQLERQAL 311 >gi|81299483|ref|YP_399691.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 7942] gi|123557285|sp|Q31QG5|RPOD3_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD3 gi|81168364|gb|ABB56704.1| group2 RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 7942] Length = 320 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/308 (24%), Positives = 143/308 (46%), Gaps = 55/308 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR--------------EHGD-------------LS--- 48 Y+ EI ++P+L +EE VL KR + E GD LS Sbjct: 15 YLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEE 74 Query: 49 ----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 A +++ ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G Sbjct: 75 LRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKG 134 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPE 157 +R +TY+ WWI+ A+ I +++ +K +++++ L Q + PE Sbjct: 135 YRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEK--LNKIKKMQRQLSQQLGRTATLPE 192 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +A L+++ ++V + SL+ + D ++ D L D E+ ++ Sbjct: 193 ----LAAALDLTPAQVRDYLEKARHPLSLD--LRVGDNQDTELGDLLETDCTTPEEFTLQ 246 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEAR 275 R++ + R + L ++R++ R E+ +TL ++ ++SRERVRQ+E Sbjct: 247 ASMRRD----IDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLERE 302 Query: 276 AFKKVQES 283 A ++++ Sbjct: 303 ALHTLRQA 310 >gi|56750866|ref|YP_171567.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 6301] gi|56685825|dbj|BAD79047.1| group2 RNA polymerase sigma factor RpoD3 [Synechococcus elongatus PCC 6301] Length = 326 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/308 (24%), Positives = 143/308 (46%), Gaps = 55/308 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR--------------EHGD-------------LS--- 48 Y+ EI ++P+L +EE VL KR + E GD LS Sbjct: 21 YLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEE 80 Query: 49 ----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 A +++ ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G Sbjct: 81 LRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKG 140 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPE 157 +R +TY+ WWI+ A+ I +++ +K +++++ L Q + PE Sbjct: 141 YRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEK--LNKIKKMQRQLSQQLGRTATLPE 198 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +A L+++ ++V + SL+ + D ++ D L D E+ ++ Sbjct: 199 ----LAAALDLTPAQVRDYLEKARHPLSLD--LRVGDNQDTELGDLLETDCTTPEEFTLQ 252 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEAR 275 R++ + R + L ++R++ R E+ +TL ++ ++SRERVRQ+E Sbjct: 253 ASMRRD----IDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLERE 308 Query: 276 AFKKVQES 283 A ++++ Sbjct: 309 ALHTLRQA 316 >gi|16330303|ref|NP_441031.1| RNA polymerase sigma factor SigD [Synechocystis sp. PCC 6803] gi|1652792|dbj|BAA17711.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 318 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 76/315 (24%), Positives = 140/315 (44%), Gaps = 73/315 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYRE---------------------------HGDLS--- 48 Y+ EI ++P+L +EE V AK+ ++ DLS Sbjct: 13 YLREIGRVPLLTHEEEIVYAKQIQQVVSLNEIKKSLAEGKDGEPVSPSEWAKAADLSIRE 72 Query: 49 ----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G Sbjct: 73 LEKAIKEGERAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKG 132 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 +R +TY+ WWI+ A+ I +++ +K L ++K + ++ + Sbjct: 133 YRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQLSQEKGRAAS 187 Query: 159 VVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + +A+ L ++ +V +S++ R+ GD L + + + +D+ Y Sbjct: 188 IAELAEHLELTPKQVREYLERSRHPLSLDLRV-GDNQDTELGDLLEDDGPLPEDFATY-- 244 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSR 266 + + L M+ L P++R + R L + P+TL ++ S +SR Sbjct: 245 -------------ASLQLDLDSLMAELTPQQREVLILRFGLNDGQPLTLASIGSMLSISR 291 Query: 267 ERVRQIEARAFKKVQ 281 ERVRQIE A K++ Sbjct: 292 ERVRQIEREALNKLR 306 >gi|292490206|ref|YP_003525645.1| RNA polymerase sigma factor RpoD [Nitrosococcus halophilus Nc4] gi|291578801|gb|ADE13258.1| RNA polymerase sigma factor RpoD [Nitrosococcus halophilus Nc4] Length = 602 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 113/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 361 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 420 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + P+++ Sbjct: 421 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPDELAERVDMPKD 478 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE + D D ++ Sbjct: 479 KVRKVLKIAK-EPISMETPIGDDEDSHLGDFVEDAEVVSPPDAAIF-------------- 523 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 R + ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 524 -SGLRETTQQILAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 582 Query: 279 KVQ 281 K++ Sbjct: 583 KLR 585 >gi|295698783|ref|YP_003603438.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] gi|291157386|gb|ADD79831.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] Length = 607 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 113/236 (47%), Gaps = 28/236 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 390 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 449 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R + + +++ L PE+ Sbjct: 450 IRQAITRSIADQARTIRIPVHMIETINKLNHISRQILQETGREPSPEELSERMLIPEE-- 507 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L ++ E ISM + DE S D++ D ++ +E Sbjct: 508 KIRKVLKIAR-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLESAT 551 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 ++ R+ +S L RE ++ R TLE + +F+V+RER+RQIEA Sbjct: 552 SESLRSATNEVLSGLTTREAKVLRMRFGIDMHTDHTLEEVGKQFDVTRERIRQIEA 607 >gi|112702894|emb|CAL34114.1| RNA polymerase sigma factor rpoD [Cronobacter sakazakii] Length = 359 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/254 (27%), Positives = 121/254 (47%), Gaps = 36/254 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 121 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 180 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVV---- 160 I+ A+ I ++I T N+ L R+ + PE++ Sbjct: 181 IRQAITRSIADQARTIRIPVHMIETINK------LNRISRQMLQEMGREPTPEELAERML 234 Query: 161 ----AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 I K L +++ E ISM + DE S D++ D ++ + Sbjct: 235 MPEDKIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPL 278 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEA 274 + ++ R ++ L RE ++ R + TLE + +F+V+RER+RQIEA Sbjct: 279 DSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 338 Query: 275 RAFKKVQESIQKQV 288 +A +K++ + +V Sbjct: 339 KALRKLRHPSRSEV 352 >gi|120403441|ref|YP_953270.1| RNA polymerase sigma factor SigB [Mycobacterium vanbaalenii PYR-1] gi|119956259|gb|ABM13264.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium vanbaalenii PYR-1] Length = 329 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 80/300 (26%), Positives = 142/300 (47%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L +E LAKR Y +H DL+A R Sbjct: 36 YLNGIGKTALLNAADEVELAKRIEAGLYAQHLLDTRKRLGENRKRDLAAVVRDGEAARRH 95 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 96 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQA 155 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 156 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAAESGIPVEKITD 213 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + DE L I ++ S+ E +I + + Sbjct: 214 LLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSA-------------ENAVISELLHTD 260 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 261 IRYVL----ATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 316 >gi|146281106|ref|YP_001171259.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri A1501] gi|145569311|gb|ABP78417.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri A1501] Length = 569 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 331 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 390 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 391 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 448 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 449 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSAMQSPIDVAT 492 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 493 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 552 Query: 279 KVQ 281 K++ Sbjct: 553 KLR 555 >gi|26987129|ref|NP_742554.1| RNA polymerase sigma factor RpoD [Pseudomonas putida KT2440] gi|148545673|ref|YP_001265775.1| RNA polymerase sigma factor RpoD [Pseudomonas putida F1] gi|24981760|gb|AAN66018.1|AE016231_1 RNA polymerase sigma factor RpoD [Pseudomonas putida KT2440] gi|2654492|gb|AAB87749.1| DNA-directed RNA polymerase sigma subunit [Pseudomonas putida] gi|2731762|gb|AAC38073.1| sigma-70 [Pseudomonas putida] gi|148509731|gb|ABQ76591.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida F1] gi|313496752|gb|ADR58118.1| RpoD [Pseudomonas putida BIRD-1] Length = 616 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|298369314|ref|ZP_06980632.1| RNA polymerase sigma factor RpoD [Neisseria sp. oral taxon 014 str. F0314] gi|298283317|gb|EFI24804.1| RNA polymerase sigma factor RpoD [Neisseria sp. oral taxon 014 str. F0314] Length = 648 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/248 (27%), Positives = 120/248 (48%), Gaps = 36/248 (14%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 404 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 463 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ Q + + +P+ +A+ + Sbjct: 464 WIRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QYLQETGEEPDS-AKLAELME 518 Query: 168 VSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVL 215 + E ++ ISM + D+ + D N+ D +Y H+ ++VL Sbjct: 519 MPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDINNVAPADAAMYSSLHEVTKEVL 578 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 L PRE ++ R + N TLE + +F+V+RER+RQIE Sbjct: 579 -----------------ESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 621 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 622 AKALRKLR 629 >gi|94676896|ref|YP_589041.1| RNA polymerase, sigma 70 factor [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] gi|94220046|gb|ABF14205.1| RNA polymerase, sigma 70 factor [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] Length = 612 Score = 88.6 bits (218), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/242 (27%), Positives = 123/242 (50%), Gaps = 12/242 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 434 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEIGREPTPEE---LAERMFM 488 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E L+ D + D++ D ++ +E ++ R+ Sbjct: 489 PEDKIRKV-LKIAK-EPLSMETPIGDDEDTHLGDFI---EDTTLELPLESATSESLRSAT 543 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE ++ R + N TLE + +F V+RER+RQIEA+A +K++ + Sbjct: 544 HEILAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFAVTRERIRQIEAKALRKLRHPSRS 603 Query: 287 QV 288 +V Sbjct: 604 EV 605 >gi|255076341|ref|XP_002501845.1| predicted protein [Micromonas sp. RCC299] gi|226517109|gb|ACO63103.1| predicted protein [Micromonas sp. RCC299] Length = 595 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/249 (27%), Positives = 130/249 (52%), Gaps = 35/249 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++ ++LRLVV IA Y + +++ EG +GL++ +KFD +RG++ +TY+ WW Sbjct: 345 AKNAMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAEKFDFKRGYKFSTYAHWW 404 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ + ++++ L R H + + E++ Sbjct: 405 IRQAVTRSISDQSRTIRLPVHLFEIISRMSKVERQMVLKLGRDPTHEELADAMEMTVEKI 464 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH----DGQEQVL 215 I K V IS++ +++N NS+ ++ +D L+ D+ +G+ + Sbjct: 465 KQIKKASLVP----ISLS------QTVN---NSNGEDKRTVEDTLIDDYTEHPEGETGKV 511 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 + KE+ +N ++ LNPRER + R L + V TLE + + F V+RER+RQIE Sbjct: 512 LLKEDLEN-------VLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERIRQIE 564 Query: 274 ARAFKKVQE 282 A+A +K+++ Sbjct: 565 AKALRKLRQ 573 >gi|104779687|ref|YP_606185.1| RNA polymerase sigma factor RpoD [Pseudomonas entomophila L48] gi|95108674|emb|CAK13368.1| sigma D (sigma 70) factor of RNA polymerase [Pseudomonas entomophila L48] Length = 616 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 438 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 495 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 496 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 539 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 540 VESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 599 Query: 279 KVQ 281 K++ Sbjct: 600 KLR 602 >gi|254526924|ref|ZP_05138976.1| sigma-70 factor family protein [Prochlorococcus marinus str. MIT 9202] gi|221538348|gb|EEE40801.1| sigma-70 factor family protein [Prochlorococcus marinus str. MIT 9202] Length = 307 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 81/296 (27%), Positives = 140/296 (47%), Gaps = 32/296 (10%) Query: 12 GEIGLSRYIHEIRKIPMLEK-QEEYVLAKRYREHG------DLSAAHR------------ 52 GEIG + + R++ M K QE VL R +E G + S A R Sbjct: 9 GEIGRHQLLTPERELTMGRKVQEMVVLVNRCQEAGGKGPACEYSEAERKKIKIGEKAKNE 68 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 69 MITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + ++I N+K LR K L + P +A+++ +++ E Sbjct: 129 LNRALSTQSRTIRIPVNINEK--LTKLRSAKSKLMQLKG---IPPTSDELAEEMKITKEE 183 Query: 173 VIS-MNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + ++C L SL + S + S+ D L D ++ E + +L + Sbjct: 184 IDELLSCELRSITVSLQGTVKSKS-DPSELVDILPSDQAPPMELAELAERTASAWKLLDK 242 Query: 231 SMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L +ER+I R + TL ++ SRE RQ+ RA +K++++ Sbjct: 243 AN--LTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLRKA 296 >gi|167627930|ref|YP_001678430.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167597931|gb|ABZ87929.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 578 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 115/248 (46%), Gaps = 36/248 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 340 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 399 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 I+ A+ I A+Q R R+ H+ + I N Q++ K Sbjct: 400 IRQAITRSI------------ADQARTI----RVPVHMIETINKVNRIKRQILQ-EKGRE 442 Query: 168 VSESEVISMNCRLAGDESLNALINSS-----------DKNSSQWQDWLVYDHDGQEQVLI 216 +E E+I + D+ L ++N S D S D++ D I Sbjct: 443 ATEEEIIEYTPNMTKDK-LKKILNISHTPISMESPIGDDEDSTVGDFI---EDKNNYSPI 498 Query: 217 EKEERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 E +N R + + L RE ++ R TLE + +F V+RER+RQIE Sbjct: 499 EAANLENLREAIKELIDTGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIE 558 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 559 AKALRKLK 566 >gi|94971322|ref|YP_593370.1| sigma 38, RpoS [Candidatus Koribacter versatilis Ellin345] gi|94553372|gb|ABF43296.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Koribacter versatilis Ellin345] Length = 574 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/247 (27%), Positives = 127/247 (51%), Gaps = 23/247 (9%) Query: 44 HGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 GD+ A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ Sbjct: 325 QGDMDAEQAKKELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 384 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQV 159 +TY+ WWI+ A+ I ++I + + +L + Q + + +P Sbjct: 385 FSTYATWWIRQAITRAIADQARTIRIPV-----HMIETINKLIRTSRQLVQELGREPSS- 438 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK++++ ++V + ++A E ++ ++ S D++ +++ ++ Sbjct: 439 EEIAKRMDIPVAKVRKV-LKIA-QEPISLETPIGEEEDSHLGDFI------EDRSMVSPA 490 Query: 220 E---RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEA 274 E N ++ + + L RE ++ + R E+ TLE + F V+RER+RQIEA Sbjct: 491 EAVINVNLKDQTAQVLRTLTAREEKVIKMRFGLEDGSEHTLEEVGQSFAVTRERIRQIEA 550 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 551 KALRKLR 557 >gi|159904297|ref|YP_001551641.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159889473|gb|ABX09687.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9211] Length = 335 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 119/243 (48%), Gaps = 12/243 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV IA Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 100 AKERMVAANLRLVVSIAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 159 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A+ ++V Sbjct: 160 IRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQRDLSQQLSRTPSVAELAEYIDV 214 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 SE EV + + + SL + DK+ + D L D+D +Q IE + K +L Sbjct: 215 SEEEVKDLMLKASQPVSLE--MKVGDKDDTVLLDLLSTDNDSPQQQ-IELDCMKGDLEIL 271 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE---ARAFKKVQESIQ 285 + L R R+ E P++L + +SR+RVR +E R + E+++ Sbjct: 272 LEKLPELQYRVLRMRYGID-GEEPMSLTGIGRVLGISRDRVRNLERSGLRGLRSKGEAVE 330 Query: 286 KQV 288 V Sbjct: 331 AYV 333 >gi|152965499|ref|YP_001361283.1| RNA polymerase sigma factor [Kineococcus radiotolerans SRS30216] gi|151360016|gb|ABS03019.1| RNA polymerase, sigma 70 subunit, RpoD family [Kineococcus radiotolerans SRS30216] Length = 502 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 139/310 (44%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+ +L ++E LAKR E G + A + Sbjct: 209 YLKQIGKVALLNAEQEVELAKRI-EAGLFAEEKLHSGEDIDSIFKRELWWISEDGRRAKN 267 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 268 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 327 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 328 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEV 387 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 388 QK----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 433 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 434 -------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 486 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 487 KLRHPSRSQV 496 >gi|241668482|ref|ZP_04756060.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254877016|ref|ZP_05249726.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254843037|gb|EET21451.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 578 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 115/248 (46%), Gaps = 36/248 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 340 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 399 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 I+ A+ I A+Q R R+ H+ + I N Q++ K Sbjct: 400 IRQAITRSI------------ADQARTI----RVPVHMIETINKVNRIKRQILQ-EKGRE 442 Query: 168 VSESEVISMNCRLAGDESLNALINSS-----------DKNSSQWQDWLVYDHDGQEQVLI 216 +E E+I + D+ L ++N S D S D++ D I Sbjct: 443 ATEEEIIEYTPNMTKDK-LKKILNISHTPISMESPIGDDEDSTVGDFI---EDKNNYSPI 498 Query: 217 EKEERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 E +N R + + L RE ++ R TLE + +F V+RER+RQIE Sbjct: 499 EAANLENLREAIKELIDTGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIE 558 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 559 AKALRKLK 566 >gi|163841160|ref|YP_001625565.1| RNA polymerase principal sigma factor [Renibacterium salmoninarum ATCC 33209] gi|1808669|emb|CAA71796.1| RNA polymerase [Renibacterium salmoninarum] gi|162954636|gb|ABY24151.1| RNA polymerase principal sigma factor [Renibacterium salmoninarum ATCC 33209] Length = 462 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/258 (27%), Positives = 122/258 (47%), Gaps = 34/258 (13%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +T Sbjct: 220 HDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNMGLIRAVEKFDYTKGFKFST 279 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNL 154 Y+ WWI+ A+ + ++I Q+++ +L R + + ++ Sbjct: 280 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELALELDM 339 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 PE+VV + K E IS++ L GD LI S+ V D Sbjct: 340 TPEKVVEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVS 386 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVR 270 L++++ L + L+ RE + R P TL+ + + V+RER+R Sbjct: 387 FTLLQEQ--------LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIR 438 Query: 271 QIEARAFKKVQESIQKQV 288 QIE++ K++ + QV Sbjct: 439 QIESKTMSKLRHPSRSQV 456 >gi|148823899|ref|YP_001288653.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis F11] gi|253798208|ref|YP_003031209.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 1435] gi|308232219|ref|ZP_07415326.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu001] gi|308369834|ref|ZP_07419229.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu002] gi|308371106|ref|ZP_07423839.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu003] gi|308372374|ref|ZP_07428435.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu004] gi|308373485|ref|ZP_07432499.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu005] gi|308374669|ref|ZP_07436917.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu006] gi|308375503|ref|ZP_07444157.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu007] gi|308377104|ref|ZP_07441142.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu008] gi|308378072|ref|ZP_07481430.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu009] gi|308379289|ref|ZP_07485765.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu010] gi|308380449|ref|ZP_07489983.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu011] gi|148722426|gb|ABR07051.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis F11] gi|253319711|gb|ACT24314.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 1435] gi|308214646|gb|EFO74045.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu001] gi|308326293|gb|EFP15144.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu002] gi|308329821|gb|EFP18672.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu003] gi|308333464|gb|EFP22315.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu004] gi|308337459|gb|EFP26310.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu005] gi|308341132|gb|EFP29983.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu006] gi|308346083|gb|EFP34934.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu007] gi|308348958|gb|EFP37809.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu008] gi|308353656|gb|EFP42507.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu009] gi|308357503|gb|EFP46354.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu010] gi|308361457|gb|EFP50308.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu011] Length = 345 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 82/298 (27%), Positives = 143/298 (47%), Gaps = 52/298 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL+A R Sbjct: 52 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAAVVRDGEAARRH 111 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 112 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 171 Query: 113 MQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVS 169 + + +++ ++ +L R + HL + TD L E + I K ++ Sbjct: 172 ITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGIPIDKINDLL 231 Query: 170 ES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 E + +S++ + +E L I ++ S+ E +I + + R Sbjct: 232 EHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTDIR 278 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 279 SVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 332 >gi|166367266|ref|YP_001659539.1| RNA polymerase sigma factor SigD [Microcystis aeruginosa NIES-843] gi|166089639|dbj|BAG04347.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 318 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/250 (26%), Positives = 122/250 (48%), Gaps = 34/250 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G+R +TY Sbjct: 80 GDF-AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I +++ +K L ++K + + + + + +A+ Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQLAQDKGRAATIAELAE 193 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 +L+++ +V +S++ ++ GD L + +D+ Y QV Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKV-GDNQDTELGELLEDTGLSPEDYTAY---SSLQV 249 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQI 272 +EK M+ L P+++ + R +N P+TL + +SRERVRQI Sbjct: 250 DLEK------------LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQI 297 Query: 273 EARAFKKVQE 282 E A K+++ Sbjct: 298 EREAIAKLRK 307 >gi|257068601|ref|YP_003154856.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM 4810] gi|256559419|gb|ACU85266.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM 4810] Length = 433 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/254 (27%), Positives = 123/254 (48%), Gaps = 34/254 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ W Sbjct: 195 AAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYAKGYKFSTYATW 254 Query: 108 WIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ A+ + ++I Q+++ +L R + + ++ PE+ Sbjct: 255 WIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEK 314 Query: 159 VVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 VV + K E IS++ L GD LI S+ V D L+ Sbjct: 315 VVEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLL 361 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEA 274 +++ L + L+ RE + R E+ P TL+ + + V+RER+RQIE+ Sbjct: 362 QEQ--------LHSVLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIES 413 Query: 275 RAFKKVQESIQKQV 288 + K++ + QV Sbjct: 414 KTMSKLRHPSRSQV 427 >gi|163847594|ref|YP_001635638.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222525449|ref|YP_002569920.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163668883|gb|ABY35249.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222449328|gb|ACM53594.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 345 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 83/294 (28%), Positives = 139/294 (47%), Gaps = 44/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHG-----------DLSAAHR--------------- 52 Y+ EI ++ +L EE LA+R E G DL+ R Sbjct: 52 YLQEIGRVSLLTAAEEIELAERI-ERGNEAEAQLATATDLTPRERYELLQAVQQGEEARR 110 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y G GL + +++ EGNIGLM+AV+KFD +G R +TY+ WWI+ Sbjct: 111 HLIQANLRLVVSIAKKYVGRGLALLDLIQEGNIGLMRAVEKFDYHKGNRFSTYATWWIRQ 170 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + ++ + G T RL ++ G ++ I + + + A+++ ++ Sbjct: 171 AV------TRAIAEQGRTI---RLPVHMSESVGQVKRIAERLAQSLERQPTAEEIAMALG 221 Query: 172 EVISMNCRL--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 + + R+ A ++ D+ D+L D + E +K R L Sbjct: 222 QPVERIQRILEAARRPVSLETPVGDEGEHTLGDFLT---DEELPTPGEMAAQKLLRRDLC 278 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ LN RERRI + R + TLE + ++RER RQIEA A ++++ Sbjct: 279 AALDRLNDRERRIIDLRYGLVDGRRRTLEEVGRVLGMTRERARQIEAEALRRLR 332 >gi|317050370|ref|YP_004111486.1| RNA polymerase sigma factor RpoD [Desulfurispirillum indicum S5] gi|316945454|gb|ADU64930.1| RNA polymerase sigma factor RpoD [Desulfurispirillum indicum S5] Length = 627 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 79/255 (30%), Positives = 129/255 (50%), Gaps = 36/255 (14%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 388 AAKMQLIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 447 Query: 108 WIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL------QAITDNNLKPE 157 WI+ A+ I ++I T N +L R L L + I D P Sbjct: 448 WIRQAITRAIADQARTIRIPVHMIETIN--KLVRTSRNLVQELGREPTPEEIADKMDLP- 504 Query: 158 QVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 V + K L +++ E IS+ + D SL I DKN+ + ++ + +EQV Sbjct: 505 -VEKVRKVLKIAK-EPISLETPIGEEEDSSLGDFIE--DKNTVSPAEAVI-SFNLKEQV- 558 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 R++L L+ RE + + R ++ TLE + +F V+RER+RQIE Sbjct: 559 ---------RSVL----HTLSAREAEVLKLRFGIDTDSDHTLEEVGKKFNVTRERIRQIE 605 Query: 274 ARAFKKVQESIQKQV 288 A+A +K++ + ++ Sbjct: 606 AKALRKLRHPTRSKI 620 >gi|37520903|ref|NP_924280.1| RNA polymerase sigma factor RpoD [Gloeobacter violaceus PCC 7421] gi|35211898|dbj|BAC89275.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 350 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 118/248 (47%), Gaps = 32/248 (12%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 G+ + AH LV ++LRLVV +A Y+G GL + +++ EG +GL++A +KFD RGF+ +T Sbjct: 105 EGERAKAH-LVKANLRLVVSVAKKYQGRGLHLLDLIQEGTLGLIRAAEKFDYTRGFKFST 163 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVA 161 Y+ WWI+ + I +++ +K R+ R+L L E +A Sbjct: 164 YATWWIRQGITRAIAMQARTIRLPVHIVEKVNRIKKATRQLSQQL-----GRSPSEDEIA 218 Query: 162 IAKKLNVSESEVISMNCRL-------AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 A +++ + + +L G E AL + ++ + +V D Q+ Sbjct: 219 QAVEMDADQLRFVRKAIQLPVSLETPVGREEDTALGDLIQAKGNEPEHGVVRDLMNQD-- 276 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 L + L PRER + R + TL+ + +F ++RER+RQI Sbjct: 277 -------------LESLLQTLTPRERDVLRLRYGLIDGRSRTLDEVGQQFGLTRERIRQI 323 Query: 273 EARAFKKV 280 EARA +K+ Sbjct: 324 EARALRKL 331 >gi|261855081|ref|YP_003262364.1| RNA polymerase, sigma 70 subunit, RpoD [Halothiobacillus neapolitanus c2] gi|261835550|gb|ACX95317.1| RNA polymerase, sigma 70 subunit, RpoD [Halothiobacillus neapolitanus c2] Length = 608 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 64/236 (27%), Positives = 119/236 (50%), Gaps = 14/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 367 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 426 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++++ Sbjct: 427 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREATPEE---LAERMDL 481 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E ++ + ++A + S+ I D S D++ D ++ + + Sbjct: 482 PEDKIRKV-LKIAKEPISMETPIGEDD--DSNLGDFI---EDQSAISPMDSATNASLSEI 535 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ L PRE ++ R TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 536 VREILASLTPREAKVLMMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 591 >gi|257454210|ref|ZP_05619480.1| RNA polymerase sigma factor RpoD [Enhydrobacter aerosaccus SK60] gi|257448383|gb|EEV23356.1| RNA polymerase sigma factor RpoD [Enhydrobacter aerosaccus SK60] Length = 634 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 395 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 454 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + + R+ L PE++ V Sbjct: 455 IRQAITRSIADQARTIRI--PVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEV 512 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +++ E ISM + DE S D++ D +++ Sbjct: 513 KVRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSSISSPVDEAT 556 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFK 278 + + ++ L RE ++ + R + TLE + +F+V+RER+RQIEA+A + Sbjct: 557 AQGLKEATREVLANLTEREAKVLKMRFGIDMSTDHTLEEVGKQFDVTRERIRQIEAKALR 616 Query: 279 KVQ 281 K++ Sbjct: 617 KLR 619 >gi|169837518|ref|ZP_02870706.1| RNA polymerase sigma factor rpoD [candidate division TM7 single-cell isolate TM7a] Length = 149 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 44/108 (40%), Positives = 71/108 (65%), Gaps = 1/108 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI +IP+L +EE A+R +G+ A +L+ S+LRLVV IA + GL + ++ Sbjct: 2 YLREIGQIPLLSYEEEIDYAQRVL-NGEEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDL 60 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + EGN+GLM+AV+KF+ E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 61 IQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRI 108 >gi|226306291|ref|YP_002766251.1| RNA polymerase sigma factor SigB [Rhodococcus erythropolis PR4] gi|229491301|ref|ZP_04385127.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] gi|226185408|dbj|BAH33512.1| RNA polymerase sigma factor SigB [Rhodococcus erythropolis PR4] gi|229321840|gb|EEN87635.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] Length = 323 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 122/246 (49%), Gaps = 32/246 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ W Sbjct: 85 SARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATW 144 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQVVA- 161 WI+ A+ + +++ ++ L R+K L TD+ L E + Sbjct: 145 WIRQAITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQQLGREATDDELAEESGIPA 202 Query: 162 --IAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA L+ S V S++ + DE L I S+ S+ E +I Sbjct: 203 HKIADLLDHSRDPV-SLDMPVGNDEEAPLGDFIEDSEATSA-------------ENAVIA 248 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 + R++L L+ RE+++ R ++ P TL+ + F +SRERVRQIE Sbjct: 249 GLLHSDVRSVL----GTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIERE 304 Query: 276 AFKKVQ 281 K++ Sbjct: 305 VMGKLR 310 >gi|320353903|ref|YP_004195242.1| RpoD subfamily RNA polymerase sigma-70 factor [Desulfobulbus propionicus DSM 2032] gi|320122405|gb|ADW17951.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobulbus propionicus DSM 2032] Length = 439 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 129/253 (50%), Gaps = 37/253 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV IA Y GL +++++ EGN+GLM+AV +FD ++G + +TY+ WW Sbjct: 203 AKDSMIRANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYKKGNKFSTYASWW 262 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKR-----LFFNLRRLKG------HLQAITDNNLKPE 157 I+ A+ IL +++ + R F++L + G + +TD L + Sbjct: 263 IRQAITRAILDKTRTIRLPVHFLELRSQFFKAFYSLLKELGREPTPVEISKMTD--LPMD 320 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDES-LNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +++AI + + E IS+ + D+S L + + + S YD + Sbjct: 321 KILAILE----ASREPISLETPVGDDDSTLGDFLENQESESP-------YDA-------V 362 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 + E +R +T +S L RE +I R ++ TLE + F VSRER+RQIE Sbjct: 363 QNRELAHR---VTEVLSTLTDREEKIIRLRFGIGEKAEYTLEEIGKRFNVSRERIRQIEK 419 Query: 275 RAFKKVQESIQKQ 287 +A +++ S +++ Sbjct: 420 KALNRLRHSSRRE 432 >gi|218247827|ref|YP_002373198.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 8801] gi|257060853|ref|YP_003138741.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 8802] gi|218168305|gb|ACK67042.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] gi|256591019|gb|ACV01906.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 318 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 77/308 (25%), Positives = 139/308 (45%), Gaps = 60/308 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+ EI ++P+L +EE + AKR + Sbjct: 14 YLREIGRVPLLTHEEEILYAKRVQRFVALETLKESLTEELGQEPTIAQWAKAAKMTQKEL 73 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ +A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G Sbjct: 74 RSAIEAGE-AAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKG 132 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 +R +TY+ WWI+ A+ I +++ +K L ++K + ++ + Sbjct: 133 YRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQLSQEKGRAAT 187 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +A++L ++ +V R SL+ + D ++ D L + GQ Sbjct: 188 IAELAEELELTPRQVREYLERARQPLSLD--LRVGDNQDTELGDLL--EDTGQ-----SP 238 Query: 219 EERKNRRNM---LTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIE 273 E+ ++ L R M L P+++ + R L + P+TL + S +SRERVRQIE Sbjct: 239 EDYATHSSLQLDLDRLMEELTPQQKEVLALRFGLSDGKPLTLAKIGSILNISRERVRQIE 298 Query: 274 ARAFKKVQ 281 A K++ Sbjct: 299 REALAKLR 306 >gi|149175263|ref|ZP_01853885.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] gi|148845872|gb|EDL60213.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] Length = 561 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/242 (30%), Positives = 124/242 (51%), Gaps = 16/242 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L +LRLVV IA YR GL +++ EGN GLM+AV K++ RG++ +TY+ W Sbjct: 299 TAMRELSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATW 358 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKK 165 WI+ A+ I ++I + LR++ L + +N +P E+ +A Sbjct: 359 WIRQAITRAIADQARTIRI--PVHMIETMSKLRKVSKQL--LQENGREPTLEETAEVA-G 413 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 +++ E+ + R SL+ + S+ S + D+ + D D V +E + Sbjct: 414 ISLEETRRVLKISRHPI--SLDRPVGESE--DSYFGDF-IEDSDSDSPVNTASQE--MLK 466 Query: 226 NMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + + L RER I + R L + TLE + F+V+RERVRQIEA+A +K+Q Sbjct: 467 DKIDHVLKTLTYREREIIKLRFGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHP 526 Query: 284 IQ 285 ++ Sbjct: 527 VR 528 >gi|119511025|ref|ZP_01630145.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] gi|119464276|gb|EAW45193.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] Length = 332 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/299 (25%), Positives = 138/299 (46%), Gaps = 53/299 (17%) Query: 13 EIGLSRYIHEIR-----KIPMLEKQEEYVLAKRYR--EHGDL-----SAAHRLVTSHLRL 60 ++ SR +HE+R +I EE+ LA E D +A ++V ++LRL Sbjct: 49 QVQFSRILHEVRDSLINQIGREPSLEEWALAANLEVAELNDAIADGETAKRKMVEANLRL 108 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV +A Y + + +++ EG+IG+ + V+KFDP +G+R +TY+ WWI+ A+ I Sbjct: 109 VVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEK 168 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV------- 173 +++ +K L ++K + ++ + +A++L+++ +V Sbjct: 169 ARTIRLPIHITEK-----LNKIKKAQRQLSQQLGRAPSAAELAQELDLTPKQVREYLERA 223 Query: 174 ---ISMNCRLAG--DESLNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRN 226 +S++ RL D L ++ + ++ Q L YD Sbjct: 224 RLPLSLDLRLGDNYDTELGEMLEDPGASPEEFVMQSSLSYD------------------- 264 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 L R M L P+++ + + R L +TL + +SRERVRQIE A K+++S Sbjct: 265 -LERLMEELTPQQKEVIKLRFGLLDGQALTLAKIGDILNISRERVRQIEREALTKLRKS 322 >gi|1657704|gb|AAC44535.1| sigma factor MytB [Mycobacterium tuberculosis] Length = 345 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 82/298 (27%), Positives = 143/298 (47%), Gaps = 52/298 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL+A R Sbjct: 52 YLNGIGKTALLNPAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAAVVRDGEAARRH 111 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 112 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 171 Query: 113 MQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVS 169 + + +++ ++ +L R + HL + TD L E + I K ++ Sbjct: 172 ITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGIPIDKINDLL 231 Query: 170 ES--EVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 E + +S++ + +E L I ++ S+ E +I + + R Sbjct: 232 EHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTDIR 278 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 279 SVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 332 >gi|296129901|ref|YP_003637151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas flavigena DSM 20109] gi|296021716|gb|ADG74952.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas flavigena DSM 20109] Length = 495 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 79/311 (25%), Positives = 140/311 (45%), Gaps = 63/311 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS----------------------------AA 50 Y+ +I K+ +L ++E LAKR E G + A Sbjct: 201 YLKQIGKVALLNAEQEVELAKRI-EAGLFAEEKLAETRDSLEPKLRRELEWIAQDGRRAK 259 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 260 NHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIR 319 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 A+ + ++I Q+++ +L R + + ++ PE+VV Sbjct: 320 QAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVE 379 Query: 162 IAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + K E IS++ L GD LI S+ V D L++++ Sbjct: 380 VQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ 426 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L + + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 427 --------LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTM 478 Query: 278 KKVQESIQKQV 288 K++ + QV Sbjct: 479 SKLRHPSRSQV 489 >gi|300784474|ref|YP_003764765.1| RNA polymerase primary-like sigma factor [Amycolatopsis mediterranei U32] gi|299793988|gb|ADJ44363.1| RNA polymerase primary-like sigma factor [Amycolatopsis mediterranei U32] Length = 343 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/246 (27%), Positives = 118/246 (47%), Gaps = 30/246 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 106 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 165 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA------- 161 I+ A+ + +++ ++ L R+K L + E++ A Sbjct: 166 IRQAITRGMADQGRTIRLPVHLVEQ--VNKLARIKRDLHQQLGRDATHEELAAESGIPAH 223 Query: 162 -IAKKLNVSESEV-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I+ L+ S V + M D L I S+ + E +I Sbjct: 224 KISDLLDHSRDPVSLDMPVGTEEDAPLGDFIEDSEATDA-------------ESAVISGL 270 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + L R ++ L+ RE+ + R ++ P TL+ + F +SRERVRQIE Sbjct: 271 LQDD----LRRVLATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVM 326 Query: 278 KKVQES 283 K+++ Sbjct: 327 SKLRQG 332 >gi|320334918|ref|YP_004171629.1| RpoD subfamily RNA polymerase sigma-70 factor [Deinococcus maricopensis DSM 21211] gi|319756207|gb|ADV67964.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus maricopensis DSM 21211] Length = 525 Score = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 78/293 (26%), Positives = 136/293 (46%), Gaps = 38/293 (12%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHG-------------------------DLSAAHR 52 +Y+HEI ++P+L +EE LA+R E D +AA + Sbjct: 228 QYLHEIGRVPLLTLEEEISLARRIEEGEEARKVLDEQPELEDRQRRRLQRQVEDGAAARQ 287 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ R ++ +TY+ WWI+ Sbjct: 288 GLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYATWWIRQ 347 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSE 170 A+ I ++I + L R LQ E++ A+ + ++ Sbjct: 348 AINRAIADQARTIRI--PVHMVETINKLTRTARQLQQELSREPTYEEIAEAMGPGWDAAK 405 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E + + E ++ D+ S + D++ D +E + L + Sbjct: 406 VEEVQKVSQ----EPVSLETPIGDEKDSFYGDFI---PDENLDSPVENAAKTLLSEELEK 458 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++S L RE + + R+ + TLE + F V+RER+RQIE +A +K++ Sbjct: 459 ALSKLTEREAMVLKFRKGLVDGREHTLEEVGQRFNVTRERIRQIENKALRKLK 511 >gi|22297808|ref|NP_681055.1| RNA polymerase sigma factor SigD [Thermosynechococcus elongatus BP-1] gi|22293985|dbj|BAC07817.1| group2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 315 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/253 (26%), Positives = 124/253 (49%), Gaps = 38/253 (15%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E+G+ A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R + Sbjct: 75 ENGE-RAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFS 133 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ WWI+ A+ I +++ +K L ++K + ++ + + + Sbjct: 134 TYAYWWIRQAITRAIAEKGRTIRLPIHITEK-----LNKIKKAQRQLSQRLGRAATINEL 188 Query: 163 AKKLNVSESEV----------ISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDG 210 A +L ++ ++V +S++ R+ D L L+ S + ++ Sbjct: 189 AAELELTPAQVREYLERARQPLSLDVRVGDNQDTELGELLEDSSISPEEFAT-------- 240 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRER 268 Q L+ R+ L R M+ L P++R + R EN P+TL + +SRER Sbjct: 241 --QSLL--------RSDLERLMAELTPQQRHVLSLRFGLENGQPLTLAKVGELLNISRER 290 Query: 269 VRQIEARAFKKVQ 281 VRQIE A K++ Sbjct: 291 VRQIEREALSKLR 303 >gi|256377300|ref|YP_003100960.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] gi|255921603|gb|ACU37114.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 349 Score = 88.2 bits (217), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 81/294 (27%), Positives = 133/294 (45%), Gaps = 43/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREHG-DLSAAHR-------------------- 52 Y+ I ++ +L +E LA+R Y EH DL A R Sbjct: 55 YLKAIGRVRLLTADQEVELARRVEAGLYAEHLLDLPPAARGSRRPIELRRVVRDGQRAKD 114 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y G G+ + +V+ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 115 HLLEANLRLVVSIAKRYTGKGMALLDVIQEGNLGLVRAVEKFDYAKGFKFSTYATWWIRQ 174 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + +++ + + L R++ L E+V A +L+V+ Sbjct: 175 AITRALADQSRTIRL--PVHMVEVVTKLARVERDLLHRNGREATAEEV---AVELDVTPE 229 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--RNMLT 229 +V+ + SL+ I + S + D E + E + L Sbjct: 230 KVVELRQHARTPVSLDQTIGAEADTS-------IGDLIADENAVAPLEAVSSALLSADLR 282 Query: 230 RSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE + R + V TLE + + V+RER+RQIE+R K+Q Sbjct: 283 AVLDTLTPREAGVVRMRYGFPDGVLHTLEEVGRVYGVTRERIRQIESRTMAKLQ 336 >gi|289676145|ref|ZP_06497035.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae FF5] Length = 438 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 200 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 259 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--------V 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 260 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 317 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 318 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 361 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 362 VESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 421 Query: 279 KVQ 281 K++ Sbjct: 422 KLR 424 >gi|167970067|ref|ZP_02552344.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Ra] gi|215404675|ref|ZP_03416856.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis 02_1987] gi|215428138|ref|ZP_03426057.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T92] gi|215431649|ref|ZP_03429568.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis EAS054] gi|218754446|ref|ZP_03533242.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis GM 1503] gi|219558719|ref|ZP_03537795.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T17] gi|254551766|ref|ZP_05142213.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis '98-R604 INH-RIF-EM'] gi|260187727|ref|ZP_05765201.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis CPHL_A] gi|260201835|ref|ZP_05769326.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T46] gi|260206019|ref|ZP_05773510.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis K85] gi|289746512|ref|ZP_06505890.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis 02_1987] gi|294994199|ref|ZP_06799890.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis 210] gi|297635318|ref|ZP_06953098.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN 4207] gi|297732314|ref|ZP_06961432.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN R506] gi|289687040|gb|EFD54528.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis 02_1987] gi|323718704|gb|EGB27866.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis CDC1551A] gi|328457981|gb|AEB03404.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 4207] Length = 333 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 82/298 (27%), Positives = 143/298 (47%), Gaps = 52/298 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL+A R Sbjct: 40 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAAVVRDGEAARRH 99 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 100 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVS 169 + + +++ ++ +L R + HL + TD L E + I K ++ Sbjct: 160 ITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGIPIDKINDLL 219 Query: 170 ES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 E + +S++ + +E L I ++ S+ E +I + + R Sbjct: 220 EHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTDIR 266 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 267 SVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 320 >gi|171920947|ref|ZP_02932089.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|185178923|ref|ZP_02964687.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188024158|ref|ZP_02996885.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188518597|ref|ZP_03004049.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|188524519|ref|ZP_03004514.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195868018|ref|ZP_03080013.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198273631|ref|ZP_03206166.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|209554143|ref|YP_002284749.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 10 str. ATCC 33699] gi|225550349|ref|ZP_03771298.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 2 str. ATCC 27814] gi|225551084|ref|ZP_03772030.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 8 str. ATCC 27618] gi|171903184|gb|EDT49473.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|184209186|gb|EDU06229.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188018789|gb|EDU56829.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188997798|gb|EDU66895.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|195659715|gb|EDX53095.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195660310|gb|EDX53572.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198249659|gb|EDY74440.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|209541644|gb|ACI59873.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 10 str. ATCC 33699] gi|225378899|gb|EEH01264.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 8 str. ATCC 27618] gi|225379503|gb|EEH01865.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 2 str. ATCC 27814] Length = 448 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 73/254 (28%), Positives = 123/254 (48%), Gaps = 40/254 (15%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++L TS++RLV IA Y GL + +++ EG+ GL++A+ KFD E+G + +TY+ WWI+ Sbjct: 195 NQLYTSNMRLVTSIAKKYLNRGLDLEDLIQEGSSGLLKAIDKFDHEKGHKFSTYATWWIR 254 Query: 111 AAMQEYILRSWSLVKIGT---------TANQKRLFFNLRR-------LKGHLQAITDNNL 154 ++ I ++I T ++ L L R + +A N Sbjct: 255 QSITRAIADQARQIRIPVHMVETINKLTKAERSLIQELGRDPTAEEIAQAMNKASQAKNQ 314 Query: 155 KPE----QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 K + Q V KKLNV + +S++ ++ DE SQ+ D++ D Sbjct: 315 KEQLITAQKVVEIKKLNV---DPVSLDKQIGHDE------------ESQFSDFISDDEII 359 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ---ENPVTLENLSSEFEVSRE 267 + EK+ ++ N + VLN E+R+ + R E P TLE + V+RE Sbjct: 360 SPEKYTEKKALNDQINEMFE--KVLNDNEQRVIKMRYGLLPFERPYTLEEVGEHLGVTRE 417 Query: 268 RVRQIEARAFKKVQ 281 R RQIE++A +K++ Sbjct: 418 RARQIESKAIRKLK 431 >gi|225025101|ref|ZP_03714293.1| hypothetical protein EIKCOROL_01993 [Eikenella corrodens ATCC 23834] gi|224942062|gb|EEG23271.1| hypothetical protein EIKCOROL_01993 [Eikenella corrodens ATCC 23834] Length = 648 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/245 (27%), Positives = 117/245 (47%), Gaps = 32/245 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 404 AAKREMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 463 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + N R + +LQ ++ P+ +A+ + Sbjct: 464 WIRQAITRSIADQARTIRIPVHMIETINKMN-RISRQYLQETGED---PD-AAKLAELME 518 Query: 168 VSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + E ++ ISM + D+ + D N+ D +Y Sbjct: 519 MPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDVNNIAPADAAMY----------- 567 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 + R + L PRE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 568 ----SSLREATKDVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 623 Query: 276 AFKKV 280 A +K+ Sbjct: 624 ALRKL 628 >gi|332670669|ref|YP_004453677.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cellulomonas fimi ATCC 484] gi|332339707|gb|AEE46290.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas fimi ATCC 484] Length = 538 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 81/309 (26%), Positives = 141/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY---------------------RE----HGD-LSAAHR 52 Y+ +I K+ +L ++E LAKR RE GD A + Sbjct: 245 YLKQIGKVALLNAEQEVELAKRIEAGLFAEERLNAGVAMEPKLRRELEWIAGDGRRAKNH 304 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 305 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 364 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 365 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEVQ 424 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 425 KYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 469 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 470 ------LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 523 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 524 LRHPSRSQV 532 >gi|320536473|ref|ZP_08036507.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] gi|320146682|gb|EFW38264.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] Length = 282 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 43/111 (38%), Positives = 74/111 (66%), Gaps = 1/111 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ +I KIP+L +EE LA R E GD +A +L+ ++LR VV +A Y+ GLP+ Sbjct: 12 LAGYLRDINKIPLLTLEEEVELATRAAE-GDKAAKDKLIQANLRFVVNVAKKYQNQGLPL 70 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 +++SEGNIGLM A +FD +G++ +Y++WWI+ ++ + I ++++ Sbjct: 71 MDLISEGNIGLMNAADRFDVTKGYKFISYAVWWIRQSILKAICEKSRMIRL 121 >gi|323388685|gb|ADX60147.1| SIGMA70-like transcription factor [Zea mays] Length = 428 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 121/256 (47%), Gaps = 36/256 (14%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +R HG + +R+V S++RLV+ IA + G G+ S+++ +G GL++ +KFD +G Sbjct: 178 RRRLNHG-VYCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKG 236 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---------KRLFFNLRRLKGHLQAI 149 FR +TYS WWIK A+++ +L ++++ + +RL L+RL + + Sbjct: 237 FRFSTYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIA 296 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI--NSSDKNSSQWQDWLVYD 207 D + +V A S S + C D + ++ S++ WL+ Sbjct: 297 VDTGMTIRRVEAAMSLPKYSVSFTSKVGCT---DVTYQEIMPDTSAETAEETLHRWLM-- 351 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVS 265 + + ++ L+PRE+++ R E TL ++ VS Sbjct: 352 -----------------KKDVNTALDSLSPREKQVMRYRFGIEGGRARTLHDIGQLMGVS 394 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIE AF+K++ Sbjct: 395 RERIRQIELGAFRKLR 410 >gi|307824736|ref|ZP_07654959.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacter tundripaludum SV96] gi|307734094|gb|EFO04948.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacter tundripaludum SV96] Length = 602 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 113/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 363 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 422 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ +A+++ + Sbjct: 423 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQILQELGREATPEE---LAERMEM 477 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE S D++ D + +E Sbjct: 478 PEDKVRKVLKIAKEPISMETPIGDDE------------DSHLGDFI---EDAKVLSPVEA 522 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARA 276 R ++ L RE ++ R TLE + +F+V+RER+RQIEA+A Sbjct: 523 ATIAGLRESTQNVLAGLTAREAKVLRMRFGINMNTDHTLEEVGKQFDVTRERIRQIEAKA 582 Query: 277 FKKVQ 281 +K++ Sbjct: 583 LRKLR 587 >gi|289553505|ref|ZP_06442715.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 605] gi|289438137|gb|EFD20630.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 605] Length = 338 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 82/298 (27%), Positives = 143/298 (47%), Gaps = 52/298 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL+A R Sbjct: 45 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAAVVRDGEAARRH 104 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 105 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 164 Query: 113 MQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVS 169 + + +++ ++ +L R + HL + TD L E + I K ++ Sbjct: 165 ITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGIPIDKINDLL 224 Query: 170 ES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 E + +S++ + +E L I ++ S+ E +I + + R Sbjct: 225 EHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTDIR 271 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 272 SVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 325 >gi|332711345|ref|ZP_08431277.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] gi|332349894|gb|EGJ29502.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] Length = 319 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 120/245 (48%), Gaps = 33/245 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA ++V ++LRLVV +A Y L + +++ EG IGL + V+KFDP +G+R +TY+ W Sbjct: 82 SAKRKMVEANLRLVVAVAKKYIKRNLELLDLIQEGTIGLQRGVEKFDPTKGYRFSTYAYW 141 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L ++K + ++ + + +A +LN Sbjct: 142 WIRQAITRAIAEKGRTIRLPIHITEK-----LNKIKKAQRQLSQKLGRTATISELAIELN 196 Query: 168 VSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 ++ ++ +S+ R+ GD L+ + +D++ Q L++ Sbjct: 197 LTPDQLREYFEQARQPLSLELRV-GDNKDTELVELLEDTGPGPEDFV-------NQSLMQ 248 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEAR 275 + L + M L P++R++ R L E P+TL + +SRERVRQIE Sbjct: 249 LD--------LEKFMDDLTPQQRQVLRLRYGLAEVEPMTLAKIGQHLNISRERVRQIERE 300 Query: 276 AFKKV 280 A K+ Sbjct: 301 AIAKL 305 >gi|312139424|ref|YP_004006760.1| sigma-70 factor sigb [Rhodococcus equi 103S] gi|325672687|ref|ZP_08152383.1| RNA polymerase principal sigma factor SigB [Rhodococcus equi ATCC 33707] gi|311888763|emb|CBH48075.1| sigma-70 factor SigB [Rhodococcus equi 103S] gi|325556564|gb|EGD26230.1| RNA polymerase principal sigma factor SigB [Rhodococcus equi ATCC 33707] Length = 322 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/251 (29%), Positives = 125/251 (49%), Gaps = 33/251 (13%) Query: 46 DLSAAHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 D AA R L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY Sbjct: 81 DGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 140 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQV 159 + WWI+ A+ + +++ ++ L R+K L TD L E Sbjct: 141 ATWWIRQAITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQQLGREATDEELSQESG 198 Query: 160 VA---IAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + IA L+ S V S++ + DE L I S+ S+ E Sbjct: 199 IPEHKIADLLDHSRDPV-SLDMPVGNDEEAPLGDFIEDSEATSA-------------ENA 244 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQI 272 +I + R++L + L+ RE+++ R ++ P TL+ + F +SRERVRQI Sbjct: 245 VIAGLLHSDVRSVL----ATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQI 300 Query: 273 EARAFKKVQES 283 E K+++ Sbjct: 301 EREVMGKLRQG 311 >gi|269793869|ref|YP_003313324.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Sanguibacter keddieii DSM 10542] gi|269096054|gb|ACZ20490.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Sanguibacter keddieii DSM 10542] Length = 342 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 76/307 (24%), Positives = 139/307 (45%), Gaps = 56/307 (18%) Query: 19 YIHEIRKIPMLEKQEEY---------VLAKRYREHGD-----------------LSAAHR 52 Y+ I ++P+L ++E +LA Y E G+ + A Sbjct: 49 YLKIIGRVPLLNAEQEIEIAMRIEAGMLAAHYLESGEYPKGATKRELEVITADGVRAKSH 108 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++LRLVV IA Y G GL +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 109 LVEANLRLVVSIAKKYTGRGLLFLDLIQEGNTGLIRAVEKFDYAKGFKFSTYATWWIRQA 168 Query: 113 MQEYILRSWSLVKIG---------TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I + Q+++ +L R + + ++ PE+V+ + Sbjct: 169 ITRGMADQARTIRIPVHMVEVINKVSRAQRQMLQDLGREPTPEELALELDMTPEKVLEVQ 228 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 K E IS++ L ++ S++ D + D + V + Sbjct: 229 KH----GREPISLHTPLG------------EEGGSEFGDLI---EDTEAVVPADAVNFSF 269 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + L+ RE + R + P TL+ + + V+RER+RQIE++ K++ Sbjct: 270 LQQQIHGILDTLSEREAGVITMRYGLTDGLPKTLDQIGHVYGVTRERIRQIESKTMSKLR 329 Query: 282 ESIQKQV 288 + QV Sbjct: 330 HPSRSQV 336 >gi|72381853|ref|YP_291208.1| putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. NATL2A] gi|72001703|gb|AAZ57505.1| possible type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. NATL2A] Length = 307 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/255 (28%), Positives = 129/255 (50%), Gaps = 13/255 (5%) Query: 34 EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 EY A++ + A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+ Sbjct: 50 EYSSAEKKKFKAGERAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKY 109 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 DP+RG R +TY+ WWI+ + + ++I N+K LR K L + + Sbjct: 110 DPKRGHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNINEK--LTKLRAAKSRL--MQELG 165 Query: 154 LKPE-QVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + P +AI K+ + E E + + C L SL + S + S+ D L + Sbjct: 166 VHPSTNQIAIQMKIPLEEVEEL-LACELRSITVSLQGAVK-SKADPSELVDILPSEEVPP 223 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRER 268 ++ E + ++L +S L P+ER I R + TL ++ + SRE Sbjct: 224 MELAELAERSASAWSLLDKSN--LTPKERTILSLRFGLDGSNEWRTLAEVARQMNCSREY 281 Query: 269 VRQIEARAFKKVQES 283 RQ+ RA +K++++ Sbjct: 282 CRQVVQRALRKLRKT 296 >gi|15609847|ref|NP_217226.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Rv] gi|15842248|ref|NP_337285.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis CDC1551] gi|31793882|ref|NP_856375.1| RNA polymerase sigma factor SigB [Mycobacterium bovis AF2122/97] gi|121638585|ref|YP_978809.1| RNA polymerase sigma factor SigB [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148662551|ref|YP_001284074.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Ra] gi|215412516|ref|ZP_03421250.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis 94_M4241A] gi|215446963|ref|ZP_03433715.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85] gi|224991077|ref|YP_002645766.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|254365367|ref|ZP_04981412.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis str. Haarlem] gi|289444252|ref|ZP_06433996.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T46] gi|289448365|ref|ZP_06438109.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis CPHL_A] gi|289570886|ref|ZP_06451113.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T17] gi|289575408|ref|ZP_06455635.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis K85] gi|289751363|ref|ZP_06510741.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T92] gi|289754812|ref|ZP_06514190.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis EAS054] gi|289758838|ref|ZP_06518216.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85] gi|289762881|ref|ZP_06522259.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis GM 1503] gi|298526180|ref|ZP_07013589.1| RNA polymerase principal sigma factor SigB [Mycobacterium tuberculosis 94_M4241A] gi|307085405|ref|ZP_07494518.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu012] gi|313659647|ref|ZP_07816527.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN V2475] gi|1171103|gb|AAA86044.1| sigma factor MysB [Mycobacterium tuberculosis H37Rv] gi|2182001|emb|CAB09470.1| RNA POLYMERASE SIGMA FACTOR SIGB [Mycobacterium tuberculosis H37Rv] gi|13882539|gb|AAK47099.1| RNA polymerase principal sigma factor SigB [Mycobacterium tuberculosis CDC1551] gi|31619476|emb|CAD94914.1| RNA POLYMERASE SIGMA FACTOR SIGB [Mycobacterium bovis AF2122/97] gi|121494233|emb|CAL72711.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|134150880|gb|EBA42925.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis str. Haarlem] gi|148506703|gb|ABQ74512.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Ra] gi|224774192|dbj|BAH26998.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|289417171|gb|EFD14411.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T46] gi|289421323|gb|EFD18524.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis CPHL_A] gi|289539839|gb|EFD44417.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis K85] gi|289544640|gb|EFD48288.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T17] gi|289691950|gb|EFD59379.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T92] gi|289695399|gb|EFD62828.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis EAS054] gi|289710387|gb|EFD74403.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis GM 1503] gi|289714402|gb|EFD78414.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85] gi|298495974|gb|EFI31268.1| RNA polymerase principal sigma factor SigB [Mycobacterium tuberculosis 94_M4241A] gi|308365051|gb|EFP53902.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu012] gi|326904326|gb|EGE51259.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis W-148] Length = 323 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 82/298 (27%), Positives = 143/298 (47%), Gaps = 52/298 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL+A R Sbjct: 30 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAAVVRDGEAARRH 89 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 90 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 149 Query: 113 MQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVS 169 + + +++ ++ +L R + HL + TD L E + I K ++ Sbjct: 150 ITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGIPIDKINDLL 209 Query: 170 ES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 E + +S++ + +E L I ++ S+ E +I + + R Sbjct: 210 EHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTDIR 256 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 257 SVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 310 >gi|288801981|ref|ZP_06407422.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|302347072|ref|YP_003815370.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] gi|288335416|gb|EFC73850.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|302150546|gb|ADK96807.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] Length = 290 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 82/292 (28%), Positives = 135/292 (46%), Gaps = 52/292 (17%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA+ + G A +L+ ++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I A Q Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAI------------AEQ 124 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL--I 190 R+ L QV AI+ K+N +E + + R L L I Sbjct: 125 SRIV----------------RLPLNQVGAIS-KINQVTNEFVQQHNRRPSIHELAELTGI 167 Query: 191 NSSDKNSSQWQD---------WLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-------- 233 + + SQ D + D + +L ++ + R + SMS Sbjct: 168 DEARIRQSQSADNHHMSIDAPFSDDDDNSMSDMLSSGDDSRTDRGVDFESMSDDLRAVLQ 227 Query: 234 -VLNPRERRIF-EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 L RE +I E + LE + +E ++RERVRQI +A +K++ES Sbjct: 228 NTLKDREIKIVTECFGIGCQEKGLEEIGTEMGLTRERVRQIREKAIEKIRES 279 >gi|109897363|ref|YP_660618.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoalteromonas atlantica T6c] gi|109699644|gb|ABG39564.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoalteromonas atlantica T6c] Length = 613 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 121/243 (49%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + +++ L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELSERMLMPED-- 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTIVQPLDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 GGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQ 281 K++ Sbjct: 597 KLR 599 >gi|330466466|ref|YP_004404209.1| RNA polymerase sigma factor SigB [Verrucosispora maris AB-18-032] gi|328809437|gb|AEB43609.1| RNA polymerase sigma factor SigB [Verrucosispora maris AB-18-032] Length = 335 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/230 (28%), Positives = 118/230 (51%), Gaps = 16/230 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A + L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ W Sbjct: 97 AAKNHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATW 156 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WI+ A+ + ++I ++ R+ R L L + V IA+ Sbjct: 157 WIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELSVSLG-------REPSVAEIARA 209 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 L+V E +VI + SL+ + + S D++ +++ +R R Sbjct: 210 LDVPEFQVIELISYDREPVSLDQTVG--EDGESALGDFVAAVDPSS---MVDDADRGELR 264 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 N ++ ++ L+ RE+ + R ++ TL+ + EF +SRER+RQIE Sbjct: 265 NEVSIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIE 314 >gi|217969610|ref|YP_002354844.1| RNA polymerase sigma factor RpoD [Thauera sp. MZ1T] gi|217506937|gb|ACK53948.1| RNA polymerase, sigma 70 subunit, RpoD [Thauera sp. MZ1T] Length = 666 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 109/235 (46%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 426 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T P +A+K+ + Sbjct: 486 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGQEPDP---ATLAEKMEM 540 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ E ++ D + S D++ D E R+ Sbjct: 541 PEEKI--RKIMKISKEPISMETPIGDDDDSHLGDFI---EDTATLAPAEAAMYSGLRDAT 595 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 596 CEVLDSLTQREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 650 >gi|56477911|ref|YP_159500.1| RNA polymerase sigma factor RpoD [Aromatoleum aromaticum EbN1] gi|56313954|emb|CAI08599.1| DNA-dependent RNA polymerase sigma subunits (Sigma70/32) [Aromatoleum aromaticum EbN1] Length = 663 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/245 (26%), Positives = 112/245 (45%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 423 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 482 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ + T P +A+K+ + Sbjct: 483 IRQAITRSIADQARTIRI--PVHMIETINKMNRISRQILQETGQEPDP---ATLAEKMEM 537 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E ++ ISM + D+ + D+ + D +Y Sbjct: 538 PEEKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDQATLAPADAAMY------------ 585 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 + R+ + L RE ++ R E TLE + +F+V+RER+RQIEA+A Sbjct: 586 ---SSLRDATGEVLDSLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA 642 Query: 277 FKKVQ 281 +K++ Sbjct: 643 LRKLR 647 >gi|329120411|ref|ZP_08249077.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria bacilliformis ATCC BAA-1200] gi|327462095|gb|EGF08423.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria bacilliformis ATCC BAA-1200] Length = 649 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 118/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 407 AKEEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 466 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R+ Q + ++ P+ +A+ + + Sbjct: 467 IRQAITRSIADQARTIRI--PVHMIETINKMNRIS--RQYLQEHGEDPDS-AKLAELMEM 521 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D E + R + Sbjct: 522 PEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDVNNVAPAEAAMYSSLREVT 576 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 577 ADVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 630 >gi|332307721|ref|YP_004435572.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola agarilytica 4H-3-7+YE-5] gi|332175050|gb|AEE24304.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola agarilytica 4H-3-7+YE-5] Length = 613 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 121/243 (49%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + +++ L PE Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELSERMLMPED-- 492 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ Sbjct: 493 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTIVQPLDSAT 536 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + +N ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 537 GGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 596 Query: 279 KVQ 281 K++ Sbjct: 597 KLR 599 >gi|86607249|ref|YP_476012.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab] gi|86555791|gb|ABD00749.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab] Length = 361 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/239 (27%), Positives = 119/239 (49%), Gaps = 22/239 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ ++LRLVV +A Y G+P +++ EGN+GL++A +KF+ ERGFR +TY+ WW Sbjct: 124 AQRKLINANLRLVVSVAKKYLNRGVPFLDLIQEGNMGLIRATEKFNAERGFRFSTYAHWW 183 Query: 109 IKAAMQEYILRSWSLVKIGT-TANQKRLFFNLRR--LKGHLQAITDNNLKPEQVVAIAKK 165 I+ + I +++ ++ RL R +K + T+ L + + K Sbjct: 184 IRQGITRCIANQARTIRLPVHMVDKVRLLKRTNRELMKARGRRPTEAELAEALGIKVKKL 243 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERKN 223 + ++ + + SL+ + + S+ D L + Q E++L++ + Sbjct: 244 RMIQQAAALPL--------SLDVPVGQ--EGESRLGDLLPDERQEQPFEEILVQ-----S 288 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 R + +M L P ER++ E R + TL + F ++RER+RQIE A +K+ Sbjct: 289 LRQDVRSAMQALKPIERQVLELRYGLDGQRARTLREVGDHFNLTRERIRQIERDALRKL 347 >gi|239927194|ref|ZP_04684147.1| RNA polymerase principal sigma factor HrdC [Streptomyces ghanaensis ATCC 14672] gi|291435537|ref|ZP_06574927.1| RNA polymerase principal sigma factor HrdC [Streptomyces ghanaensis ATCC 14672] gi|291338432|gb|EFE65388.1| RNA polymerase principal sigma factor HrdC [Streptomyces ghanaensis ATCC 14672] Length = 339 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 81/306 (26%), Positives = 147/306 (48%), Gaps = 46/306 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKR-------------------------YRE-----HG 45 L +Y+ +I P+L+ ++E LA+R +RE H Sbjct: 39 LGQYLRQIGATPLLDAEDEVRLAQRIAAGLRAKEEYERAESGGHHLTRERWRELEAAVHD 98 Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +A R++ ++LRLVV +A + GLP+ +V+ EGN+GL++AV+KFD +GF+ +TY+ Sbjct: 99 GQAAKDRMIRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHTKGFKFSTYA 158 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WWI+ A++ + V++ ++ L +++ L D E+V A++ Sbjct: 159 TWWIRQAIERGVATHARTVRLPVHVVEQ--LQKLGKVERRLHLSLDREPTVEEV---ARE 213 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERKN 223 ++E +V+ + R G + + S D D +V D +VL E E + Sbjct: 214 SGLAEKKVVWL--RRVGRQ-----VVSLDTPVDDTGDTVVGDLIPDTEVLQAPEVAEFQA 266 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L ++ L PRE I R L + TL+ ++ ++RERVRQ+E ++ +++ Sbjct: 267 LAEELRGAVDTLAPREALILSLRYGLHDGQTRTLQEVADHVGLTRERVRQLEKQSLAQLR 326 Query: 282 ESIQKQ 287 E Q + Sbjct: 327 EREQGE 332 >gi|84495969|ref|ZP_00994823.1| RNA polymerase sigma factor [Janibacter sp. HTCC2649] gi|84382737|gb|EAP98618.1| RNA polymerase sigma factor [Janibacter sp. HTCC2649] Length = 546 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 78/309 (25%), Positives = 138/309 (44%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYRE---------HGDL-----------------SAAHR 52 Y+ +I K+ +L ++E LAKR GD +A + Sbjct: 253 YLKQIGKVALLNAEQEVELAKRIEAGLFGEERLNSGDKIDMKLKRELWWIAQDGKNAKNH 312 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 313 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 372 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 373 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAIELDMTPEKVVEVQ 432 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 433 K----YGREPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 477 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 478 ------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 531 Query: 280 VQESIQKQV 288 ++ + Q Sbjct: 532 LRHPSRSQA 540 >gi|146309042|ref|YP_001189507.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina ymp] gi|145577243|gb|ABP86775.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas mendocina ymp] Length = 615 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 VESLKEATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|39132|emb|CAA49185.1| vegetative sigma factor [Agrobacterium tumefaciens str. C58] Length = 684 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 81/279 (29%), Positives = 136/279 (48%), Gaps = 33/279 (11%) Query: 10 VNGEIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Sbjct: 418 LSTETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKK 464 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 465 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI- 523 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + + R + PE+ +A+KL + +V + ++A E ++ Sbjct: 524 -PVHMIETINKIVRTSRQMLHEIGREPTPEE---LAEKLAMPLEKVRKV-LKIA-KEPIS 577 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 D+ S D++ D + I+ + R TR ++ L P E R+ R Sbjct: 578 LETPVGDEEDSHLGDFI---EDKNALLPIDAAIQGFLRETTTRVLASLTPSEERVL---R 631 Query: 248 L-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE + +F V+RER+RQIEA+A + V+ Sbjct: 632 MPFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRNVK 670 >gi|172037252|ref|YP_001803753.1| group 2 sigma-70 RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] gi|171698706|gb|ACB51687.1| group 2 sigma-70 RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] Length = 297 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 73/275 (26%), Positives = 142/275 (51%), Gaps = 28/275 (10%) Query: 13 EIGLSRYIHEIRKIPMLEKQ-----EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 EI L+ I + +P+LEK+ EE ++AK R A +++ ++LRLVV IA Sbjct: 28 EIKLAEEIQAM--LPLLEKEALSKEEEKIVAKGQR------ARDKMIQANLRLVVSIAKK 79 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL + +++ EG++GL++ V+KFDP RG++ +TY+ WWI+ + I +++ Sbjct: 80 YLNSGLSLLDLIQEGSLGLIRGVEKFDPSRGYKFSTYAYWWIRQGITRAIAEQSRTIRLP 139 Query: 128 TTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNCRLAGDES 185 N+ NL + + ++ +T KP +Q +A ++V + + S Sbjct: 140 IHINE-----NLNKYRKSIRELTLKLGRKPTQQEIAENMDISVDKLRFLQQAAFKTKSRS 194 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN +I D+N ++ L + ++++E+ ++ N R + L+PR++ + Sbjct: 195 LNIVI---DENHTELGQLLPDEDSVSPSDFVKQQEKISQIN---RMLENLSPRQKEVIIL 248 Query: 246 R-RLQENP-VTLENLSSEFEVSRERVRQIEARAFK 278 R L++ ++ + + + +S ER RQI +RA + Sbjct: 249 RFGLRDGKQLSYKAIGEQCGISHERARQIYSRALR 283 >gi|218440090|ref|YP_002378419.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218172818|gb|ACK71551.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 295 Score = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 81/287 (28%), Positives = 142/287 (49%), Gaps = 36/287 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------EHGDLSAAHR------------LVTSHLRL 60 Y+ EI +IP+L +EE LA + + E +L+AA + ++ ++LRL Sbjct: 12 YLQEIGRIPLLNSEEEVQLATKVQNMLPLLEKENLTAAEKKIVEQGQIAKRKMIQANLRL 71 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y+ GL + +++ EG++GL++AV+KFDP +G++ +TY+ WW++ A+ + Sbjct: 72 VVSIAKRYQRRGLSLLDLIQEGSLGLIRAVEKFDPSKGYKFSTYAYWWVRQAITRALAEK 131 Query: 121 WSLVK--IGTTANQKRLFFNLRRLKGHLQAITDNNLKP-EQVVAIAKKLNVSESEVISMN 177 ++ I T N +L ++R L G L KP EQ VA ++ V + I Sbjct: 132 SRTIRLPIHMTENLNQLKKSVRELTGEL------GRKPNEQEVAQRMEIPVEKLREIRHA 185 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 +SLN + D N ++ + L D + + E + N L + L P Sbjct: 186 VYRTDAKSLNITL---DDNQTELGEVLP-DETSLPIEFVSQWELVTKINDL---LEDLPP 238 Query: 238 RERRIFEAR-RLQENP-VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R+R I R LQ ++ + + + +S ER RQ+ RA + +++ Sbjct: 239 RQREIITLRFGLQTGKRMSYKEIGRQCGISHERARQLLNRAMRTLKQ 285 >gi|254784701|ref|YP_003072129.1| RNA polymerase sigma factor RpoD [Teredinibacter turnerae T7901] gi|237686864|gb|ACR14128.1| RNA polymerase sigma factor RpoD [Teredinibacter turnerae T7901] Length = 619 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 118/238 (49%), Gaps = 18/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMEM 495 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ ++ + E + ++ Sbjct: 496 PEDKVRKV-LKIAK-EPISMETPIGDDEDSHLGDFI------EDTTITSPVESATSQGLM 547 Query: 229 TRSMSV---LNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +V L RE ++ R E TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 548 EATKAVLAGLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 605 >gi|309812669|ref|ZP_07706413.1| RNA polymerase sigma factor RpoD [Dermacoccus sp. Ellin185] gi|308433364|gb|EFP57252.1| RNA polymerase sigma factor RpoD [Dermacoccus sp. Ellin185] Length = 550 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 79/309 (25%), Positives = 141/309 (45%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR---------EHG---DL--------------SAAHR 52 Y+ +I K+ +L ++E LAKR E G D+ +A + Sbjct: 257 YLKQIGKVALLNAEQEVELAKRIEAGLFAEQKLESGVKMDMKLKRELWWIASDGKNAKNH 316 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 317 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 376 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+V+ + Sbjct: 377 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQ 436 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 437 KYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 481 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 482 ------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 535 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 536 LRHPSRSQV 544 >gi|1710688|sp|P52327|RPOD_PSEPU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|762877|dbj|BAA06281.1| principal sigma factor [Pseudomonas putida] gi|1586519|prf||2204230A sigma factor Length = 614 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 119/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 493 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D+ + D Q + + E Sbjct: 494 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDF-IEDSTMQSPIYVATVE 539 Query: 221 --RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 ++ R++L S L RE ++ R + TLE + +F+V+RER+RQIEA+A Sbjct: 540 SLKEATRDVL----SGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595 Query: 277 FKKVQ 281 ++K++ Sbjct: 596 WRKLR 600 >gi|284049111|ref|YP_003399450.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidaminococcus fermentans DSM 20731] gi|283953332|gb|ADB48135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidaminococcus fermentans DSM 20731] Length = 589 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 75/248 (30%), Positives = 121/248 (48%), Gaps = 32/248 (12%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A L ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY Sbjct: 348 GD-NAKKCLSEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGFKFSTY 406 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I ++I + L R+ L PE+ IAK Sbjct: 407 ATWWIRQAITRAIADQARTIRI--PVHMVETINKLVRVSRQLLQELGREPTPEE---IAK 461 Query: 165 KLNVS----------ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 +++VS E +S+ + +E + D+ + D Y Sbjct: 462 EMDVSVERVREIQKIAQEPVSLETPIGEEEDSHLGDFIEDQEAPSPADAASY-------T 514 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQI 272 L++++ K +L +S RERR+ E R + TLE + F V+RER+RQI Sbjct: 515 LLQEQLGK----VLQEHLSA---RERRVLELRFGLMDGRTRTLEEVGQYFGVTRERIRQI 567 Query: 273 EARAFKKV 280 EA+A +K+ Sbjct: 568 EAKALRKL 575 >gi|157412994|ref|YP_001483860.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157387569|gb|ABV50274.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9215] Length = 307 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 80/296 (27%), Positives = 141/296 (47%), Gaps = 32/296 (10%) Query: 12 GEIGLSRYIHEIRKIPMLEK-QEEYVLAKRYREHG------DLSAAHR------------ 52 GEIG + + R++ M K QE VL R +E G + S A R Sbjct: 9 GEIGRHQLLTPERELTMGRKVQEMVVLVNRCQEAGGKGPACEYSEAERKKIKIGEKAKNE 68 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 69 MITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + ++I N+K LR K L + P +++++ +++ E Sbjct: 129 LNKALSTQSRTIRIPVNINEK--LTKLRSAKSKLMQLKGI---PPTSDELSEEMKITKEE 183 Query: 173 VIS-MNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + ++C L SL + S + S+ D L D ++ E + +L + Sbjct: 184 IEELLSCELRSITVSLQGTVKSKS-DPSELVDILPSDQTPPMELAELAERTASAWKLLDK 242 Query: 231 SMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L +ER+I R + TL ++ SRE RQ+ RA +K++++ Sbjct: 243 AN--LTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLRKA 296 >gi|330505280|ref|YP_004382149.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina NK-01] gi|328919566|gb|AEB60397.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina NK-01] Length = 615 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 437 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPED 494 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D Q I+ Sbjct: 495 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDSTMQSPIDVAT 538 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 539 VESLKEATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 598 Query: 279 KVQ 281 K++ Sbjct: 599 KLR 601 >gi|320537570|ref|ZP_08037508.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] gi|320145572|gb|EFW37250.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] Length = 274 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/277 (26%), Positives = 134/277 (48%), Gaps = 23/277 (8%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 GE S+Y+ +I++ P+L QEE LA + ++GD A +L+ S+LRLVVK+A Sbjct: 2 GENIFSQYLKDIKRYPLLTAQEELCLADKI-QNGDRGALQQLINSNLRLVVKMAKDRTPS 60 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 + +++ EGN+GLM A +KF R ++Y+ WWI+ ++ Y+ +++ Sbjct: 61 ENLLMDLIQEGNMGLMIAAEKFSSSFNARFSSYACWWIRQSLNRYLNGKHETIRLPFRKA 120 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC-----RLAGDESL 186 LR+++ + + + IA+ + V VI + C ++ D L Sbjct: 121 DL-----LRKIEKTIDLFKEKYRRTPSYEEIAEIIQVPLKSVIQI-CVFTEKPISFDSPL 174 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 +++ + ++ D+ E+ K + + R L + L RE+ I E R Sbjct: 175 QIHFSANLYDLTENNDY------NPEKEYFRKVQIEAFRKFL---QNTLKSREKDIIEER 225 Query: 247 R--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +NP +L +L ++ +S E VRQ E RA KK++ Sbjct: 226 LPITDKNPKSLRSLGIKYGISAESVRQTEIRALKKLR 262 >gi|229820409|ref|YP_002881935.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Beutenbergia cavernae DSM 12333] gi|229566322|gb|ACQ80173.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Beutenbergia cavernae DSM 12333] Length = 499 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 79/310 (25%), Positives = 139/310 (44%), Gaps = 62/310 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+ +L ++E LAKR E G + A + Sbjct: 206 YLKQIGKVALLNAEQEVELAKRI-EAGLFAEETLAAGGSMEFKLRRELEWIAADGRRAKN 264 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 265 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 324 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 325 AITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEV 384 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI S+ V D L++++ Sbjct: 385 QKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ- 430 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L+ RE + R P TL+ + + V+RER+RQIE++ Sbjct: 431 -------LHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 483 Query: 279 KVQESIQKQV 288 K++ + QV Sbjct: 484 KLRHPSRSQV 493 >gi|284931435|gb|ADC31373.1| RNA polymerase sigma factor RpoD (Sigma-A) [Mycoplasma gallisepticum str. F] Length = 646 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/255 (30%), Positives = 126/255 (49%), Gaps = 45/255 (17%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LVTS+LRLV IA Y GL +++ EG+IGLM+A+ KF+ + G + +TY+ WW Sbjct: 397 AINQLVTSNLRLVTSIAKKYLNRGLDFVDLIQEGSIGLMKAISKFNYKLGNKFSTYATWW 456 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITD------NNL 154 I+ A+ I V+I T N+ +R+ L+ +T+ N Sbjct: 457 IRQAITRAIADQARTVRIPVHMVETINKLIKTERMLTQQLGRDPTLEELTEAMGGQVNGF 516 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 P++V I KKLN E +S++ + DE SQ+ D+ V D D Sbjct: 517 TPKKVADI-KKLN---QEPVSLDKPIGHDE------------ESQFVDF-VKDRD----- 554 Query: 215 LIEKEERKNRRNMLTRSM-----SVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSR 266 I K + + ++T + + L +E +I R +TLE + +F V+R Sbjct: 555 -ILKPDEYTEKLIVTEHINELFVNTLTKKEEQIIRMRYGLHPWHQQMTLEEVGQKFNVTR 613 Query: 267 ERVRQIEARAFKKVQ 281 ER+RQIE++A +K++ Sbjct: 614 ERIRQIESKALRKLK 628 >gi|192362484|ref|YP_001981272.1| transcription initiation factor sigma 70 [Cellvibrio japonicus Ueda107] gi|190688649|gb|ACE86327.1| transcription initiation factor sigma 70 [Cellvibrio japonicus Ueda107] Length = 633 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 118/238 (49%), Gaps = 18/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 395 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 454 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 455 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPEE---LGERMDM 509 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ ++ +I E ++ Sbjct: 510 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI------EDTTIISPVESATMEGLM 561 Query: 229 TRSMSV---LNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + V L RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 562 EATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 619 >gi|218440063|ref|YP_002378392.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218172791|gb|ACK71524.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 372 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 119/237 (50%), Gaps = 15/237 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 133 SAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 192 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L +LK + + + +A+ L Sbjct: 193 WIRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQRVLKQQLHRNPTEKELAQALE 247 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRR 225 V + + SLN + + ++ D L+ D D Q E+ + E R++ Sbjct: 248 VDAENLRQLLQLRRQSLSLNHRVGKGE--DTELVD-LLEDEDLQLPEEKMNEAMMRQDIS 304 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +LT VL RE+ + R P TLE + F +SRERVRQI+++A +K+ Sbjct: 305 AVLT---DVLTEREKDVIALRYGLSTSQPYTLEEVGGIFNLSRERVRQIQSKAMRKL 358 >gi|329898803|ref|ZP_08272472.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC3088] gi|328920738|gb|EGG28203.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC3088] Length = 600 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 362 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 421 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 422 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 476 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D ++ + + Sbjct: 477 PEDKVRKV-LKIAK-EPISMETPIGDDEDSHLGDFI---EDVTIASPVDSATGQGLQEAT 531 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 T ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 532 TEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 586 >gi|148239078|ref|YP_001224465.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147847617|emb|CAK23168.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 308 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 78/252 (30%), Positives = 126/252 (50%), Gaps = 19/252 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R + Y+ WW Sbjct: 66 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSNYAYWW 125 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + + ++I N+K LR K L + N L P +A LN+ Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEK--LTKLRASKARL--MQRNGLSP-STEQLADDLNL 180 Query: 169 SESEVIS-MNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 SEV + C L + SL ++ S S LV +E +E+ E R Sbjct: 181 PISEVEDLLGCELRSVTVSLQGVVKSKSDPSE-----LVDVLPSEEVPPMERAEIAERTA 235 Query: 227 MLTRSM--SVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + S L P+ER + R + TL ++ + SRE RQ+ RA +K++ Sbjct: 236 SAWKLLDKSNLTPKERTVVMLRFGLDGSNEWRTLAEVARQMNCSREYCRQVVQRALRKLR 295 Query: 282 ES-IQKQ-VELS 291 ++ IQ VELS Sbjct: 296 KTGIQHGLVELS 307 >gi|317124635|ref|YP_004098747.1| RNA polymerase, sigma 70 subunit, RpoD [Intrasporangium calvum DSM 43043] gi|315588723|gb|ADU48020.1| RNA polymerase, sigma 70 subunit, RpoD [Intrasporangium calvum DSM 43043] Length = 587 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 79/309 (25%), Positives = 139/309 (44%), Gaps = 60/309 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------EHGDLS--------------AAHR 52 Y+ +I K+ +L ++E LAKR E D+ A + Sbjct: 294 YLKQIGKVALLNAEQEVELAKRIEAGLFAEEKLNSGEKIDMKLKRELWWIAQDGKKAKNH 353 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 354 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 413 Query: 113 MQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + ++I Q+++ +L R + + ++ PE+VV + Sbjct: 414 ITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVVEVQ 473 Query: 164 KKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K E IS++ L GD LI S+ V D L++++ Sbjct: 474 KYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------VVPADAVSFTLLQEQ-- 518 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 519 ------LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 572 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 573 LRHPSRSQV 581 >gi|308050979|ref|YP_003914545.1| RNA polymerase, sigma 70 subunit, RpoD [Ferrimonas balearica DSM 9799] gi|307633169|gb|ADN77471.1| RNA polymerase, sigma 70 subunit, RpoD [Ferrimonas balearica DSM 9799] Length = 610 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 113/242 (46%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 432 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMMMPED 489 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D ++ Sbjct: 490 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLAQPVDSAT 533 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFK 278 ++ + ++ L RE ++ R E TLE + +F+V+RER+RQIEA+A + Sbjct: 534 AESLKAATAEVLAGLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALR 593 Query: 279 KV 280 K+ Sbjct: 594 KL 595 >gi|297571337|ref|YP_003697111.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arcanobacterium haemolyticum DSM 20595] gi|296931684|gb|ADH92492.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arcanobacterium haemolyticum DSM 20595] Length = 510 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 76/298 (25%), Positives = 142/298 (47%), Gaps = 38/298 (12%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH---------------------GDLSAAHR 52 Y+ +I K+ +L +EE LAKR + +H A + Sbjct: 217 YLKQIGKVALLNAEEEVELAKRIEAGLFAQHILETTTIDDPRKRRELEIISRDGHKAKNH 276 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A Sbjct: 277 LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLVRAVEKFDYAKGYKFSTYATWWIRQA 336 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + ++I + + L R++ Q + D +P V +A +L+++E + Sbjct: 337 ITRAMADQARTIRI--PVHMVEVINKLARVQ--RQMLQDLGREP-TVEELAHELDMTEEK 391 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 VI + G E ++ + S++ D + D + V + + L + + Sbjct: 392 VIEVQKY--GREPISLHTPLGEDGDSEFGDLI---EDSEAVVPADAVGFTLLQEQLHQVL 446 Query: 233 SVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L+ RE + R P TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 447 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 504 >gi|158336372|ref|YP_001517546.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158306613|gb|ABW28230.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 120/243 (49%), Gaps = 35/243 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V S+LRLVV IA Y + +++ EG IGL + V+KFDP +G+R +TY+ WW Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGYRFSTYAYWW 142 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-----------QAITDNNLKPE 157 I+ AM I +++ N+K LR+++ L + + +L P+ Sbjct: 143 IRQAMTRAIAEQERTIRLPIHINEK--LSKLRKVRRQLSQKLHRDPTVQELAVEMDLAPK 200 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + I LN + IS++ ++ GD+ +N+ W+ L+ D + Sbjct: 201 K---IEDYLNYARRS-ISLDIQI-GDQ----------QNTELWE--LLEDPNESPDTYAT 243 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + R+ L + + L+P++R + R + +NP+TL + VSRE VR++E Sbjct: 244 A---SSLRSDLAKLLQDLSPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVERE 300 Query: 276 AFK 278 AFK Sbjct: 301 AFK 303 >gi|148239880|ref|YP_001225267.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 7803] gi|147848419|emb|CAK23970.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 322 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/306 (23%), Positives = 135/306 (44%), Gaps = 51/306 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAH--------------------------- 51 Y+ +I ++P+L Q+E L ++ +E DL A Sbjct: 16 YLRDIGRVPLLSHQQEITLGRQVQELMDLEATEAELQEKRGGEAVPAAELAKAAGLSAVQ 75 Query: 52 -------------RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG Sbjct: 76 LKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRG 135 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ + I +++ + L +LK + ++ + + Sbjct: 136 YKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITE-----MLNKLKKGQRELSQDLGRTPS 190 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIE 217 V +A + + E EV + CR SL + D + ++ D L D + EQV E Sbjct: 191 VTELAAFVELPEDEVKELMCRARQPVSLE--MKVGDGDDTELLDLLAGDGELPSEQV--E 246 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 E K L + L R R+ E+P++L ++ ++SR+R R++E Sbjct: 247 GECLKGDLRDLLGQLPELQERVLRMRYGMD-GEDPMSLTGIAKTLKMSRDRTRRLEREGL 305 Query: 278 KKVQES 283 + ++++ Sbjct: 306 ESLRQA 311 >gi|108799144|ref|YP_639341.1| RNA polymerase sigma factor SigB [Mycobacterium sp. MCS] gi|119868259|ref|YP_938211.1| RNA polymerase sigma factor SigB [Mycobacterium sp. KMS] gi|126434752|ref|YP_001070443.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JLS] gi|108769563|gb|ABG08285.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119694348|gb|ABL91421.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. KMS] gi|126234552|gb|ABN97952.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. JLS] Length = 319 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 80/300 (26%), Positives = 142/300 (47%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L +E LAKR Y +H DL+A R Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQHLLNTKKRLGESRKRDLAAVVRDGEAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAEESGIPAEKIAD 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + DE L I ++ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSA-------------ENAVISELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 251 IRHVL----ATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306 >gi|4218586|emb|CAA10725.1| chloroplast sigma factor [Triticum aestivum] Length = 461 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/242 (31%), Positives = 125/242 (51%), Gaps = 28/242 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S++RLV+ IA Y G+ +S+++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 222 LTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 281 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + ++ T +++ L ++G A+ D + P IAK LN+SE + Sbjct: 282 VSRALADNSKTFRLPTYLHER-----LIAIRGAKYALEDQGVSPT-TQNIAKLLNISEKK 335 Query: 173 VI----SMNCRLAGDE----SLNALINSSDKNSSQWQDWLVYD---HDGQEQVLIEKEER 221 V ++N L+ D+ SLN L D S +D V + H +E L KEE Sbjct: 336 VHNATEAVNKALSLDQQAFPSLNGL--PGDTLHSYIEDQNVANDPWHGFEEWYL--KEEV 391 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 N S L RER I + + + T E++S +F +SRERVRQ+ A +K+ Sbjct: 392 NKLLN------SNLTERERDIIQLYHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMEKL 445 Query: 281 QE 282 ++ Sbjct: 446 KQ 447 >gi|308270755|emb|CBX27365.1| RNA polymerase sigma factor rpoD [uncultured Desulfobacterium sp.] Length = 568 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 120/239 (50%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 330 AKSELTRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 389 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ L R +L PE+ IA+ Sbjct: 390 IRQAITRAIADQARTIRIPVHMIETINK------LIRTSRYLVQEQGREPSPEE---IAE 440 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 K+ + +V + ++A E ++ ++ S D++ D + + + +N Sbjct: 441 KMEIPLEKVRKV-LKIAR-EPISLETPIGEEEDSHLGDFI---EDKKFMLPSDAAINQNL 495 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ L PRE ++ R + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 496 AEQTRKVLATLTPREEKVLRMRFGIGERADHTLEEVGQDFQVTRERIRQIEAKALRKLR 554 >gi|158340842|ref|YP_001522010.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158311083|gb|ABW32696.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 299 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/246 (28%), Positives = 119/246 (48%), Gaps = 28/246 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A HR++ +LRLVV IA Y+ G+ + +++ EG++GL +AV+KFDP +G+R +TY+ WW Sbjct: 62 AKHRMICGNLRLVVTIAKKYQKRGMDLIDLIQEGSLGLERAVEKFDPAKGYRFSTYAYWW 121 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK---------RLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ ++ I ++I +K L L R H + + + + EQ+ Sbjct: 122 IRQSITRAIAMQSHTIRIPVHMTEKLNRIKRVRRELSQTLGRTPTHQEMVAELGITLEQL 181 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + +S E S+N R+ D+ + + D L D Q E Sbjct: 182 QKTLQAAQISNPE--SLNIRVGKDQEM------------ELGDLL---EDLQMPSPNEVV 224 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAF 277 E+ RN L +++ LN ER + R E+ +L +S + +SRE VR++E A Sbjct: 225 EQDFLRNALWSALAQLNDNERTVLILRYGLEDGRERSLYRVSQQMGISREWVRKLEQTAK 284 Query: 278 KKVQES 283 K+ +S Sbjct: 285 SKLLQS 290 >gi|294660419|ref|NP_853171.2| RNA polymerase sigma factor RpoD [Mycoplasma gallisepticum str. R(low)] gi|284812078|gb|AAP56739.2| RNA polymerase sigma factor RpoD (Sigma-A) [Mycoplasma gallisepticum str. R(low)] gi|284930653|gb|ADC30592.1| RNA polymerase sigma factor RpoD (Sigma-A) [Mycoplasma gallisepticum str. R(high)] Length = 643 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/255 (30%), Positives = 126/255 (49%), Gaps = 45/255 (17%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LVTS+LRLV IA Y GL +++ EG+IGLM+A+ KF+ + G + +TY+ WW Sbjct: 394 AINQLVTSNLRLVTSIAKKYLNRGLDFVDLIQEGSIGLMKAISKFNYKLGNKFSTYATWW 453 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITD------NNL 154 I+ A+ I V+I T N+ +R+ L+ +T+ N Sbjct: 454 IRQAITRAIADQARTVRIPVHMVETINKLIKTERMLTQQLGRDPTLEELTEAMGGQVNGF 513 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 P++V I KKLN E +S++ + DE SQ+ D+ V D D Sbjct: 514 TPKKVADI-KKLN---QEPVSLDKPIGHDE------------ESQFVDF-VKDRD----- 551 Query: 215 LIEKEERKNRRNMLTRS-----MSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSR 266 I K + + ++T ++ L +E +I R +TLE + +F V+R Sbjct: 552 -ILKPDEYTEKLIVTEHINELFINTLTKKEEQIIRMRYGLHPWHQQMTLEEVGQKFNVTR 610 Query: 267 ERVRQIEARAFKKVQ 281 ER+RQIE++A +K++ Sbjct: 611 ERIRQIESKALRKLK 625 >gi|302035824|ref|YP_003796146.1| RNA polymerase sigma-70 factor [Candidatus Nitrospira defluvii] gi|300603888|emb|CBK40220.1| RNA polymerase sigma-70 factor [Candidatus Nitrospira defluvii] Length = 419 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 119/256 (46%), Gaps = 39/256 (15%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A LV +LRLVV +A Y G GL + ++V EGNIGLM+A +++ +GF+ +TY+ W Sbjct: 183 TAKDELVRCNLRLVVNVAKHYTGRGLTLLDLVQEGNIGLMKAAERYQHRKGFKFSTYATW 242 Query: 108 WIKAAMQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHL-------QAITDNNLKPEQ 158 WI+ + + ++I T R+ RRL L + + ++P++ Sbjct: 243 WIRQGITRSLADQSRTIRIPVHQTEASNRILRASRRLVQQLGRQPRLEEVASTMRMRPDR 302 Query: 159 VVAIAKKLNVSESEVISMNCRLA-GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + + E +++ R+ G L L+ +Q + Sbjct: 303 LHETIQAFQ----EPVALEHRVGDGGTELGELLP--------------------DQQAVP 338 Query: 218 KEERKNRRNM---LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 + NR + + R + L PRE+ + R ++ TLE + V+RER+RQI Sbjct: 339 PDAHVNRTELTREMDRILGTLTPREQTVIRLRFGIGEDQARTLEQVGQHLSVTRERIRQI 398 Query: 273 EARAFKKVQESIQKQV 288 EA+A KK++ + K++ Sbjct: 399 EAKALKKLKTPMVKEM 414 >gi|225619915|ref|YP_002721172.1| RNA polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] gi|225214734|gb|ACN83468.1| RNA polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] Length = 587 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 130/250 (52%), Gaps = 30/250 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL ++V EGNIGL++AV KF+ ++G++ +TY+ WW Sbjct: 349 AKDHIVKANLRLVIAIAKKYVNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFSTYATWW 408 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ + + +++ L+ + + + IAK L+ Sbjct: 409 IRQAITRSISDQARTIRVPV-----HMIEQINKVQRVLRQYMQQHGREPSIQEIAKALSW 463 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ES V S+ SLNA I +D ++ G+ LIE +E ++ +N+ Sbjct: 464 PESRVKSVRNVAKDPVSLNAPIGDE-------EDTIL----GE---LIEDKEFESPQNIT 509 Query: 229 TRSM------SVLN---PRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 T + S+L+ RE+++ R + TLE + F+V+RER+RQIEA+A Sbjct: 510 TFKILRKQIDSILDSLPDREQKVIRMRFGLVDGYSHTLEEVGYVFKVTRERIRQIEAKAI 569 Query: 278 KKVQESIQKQ 287 ++++ +K+ Sbjct: 570 RRLRAQSKKK 579 >gi|158340730|ref|YP_001521898.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] gi|158310971|gb|ABW32584.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 269 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/279 (27%), Positives = 146/279 (52%), Gaps = 37/279 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ E+ + P+L +EE LA++ + G L A R++ +LRLVV IA ++ GLP+ Sbjct: 9 LHFYLKEMARYPLLSHEEEIELARQAKA-GSLRAKQRMIECNLRLVVSIAKKHQNRGLPL 67 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK----AAMQEYILRSWSLVKIGTTAN 131 +++ EG+IGL AV KFD +G R +TY+ WWI+ AA++E + AN Sbjct: 68 LDLIQEGSIGLSTAVDKFDLAQGCRFSTYAYWWIRQGITAALREKSRPIYLPHNHWDKAN 127 Query: 132 Q-KRLFFNLRRLKGHLQAITD----NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 + K+ + L + G ++++ ++KP+ I + L + + +V S++ + G E Sbjct: 128 KIKKHYRELNQTLGRKPSLSELSEATDIKPK---TINRTLQLFQ-KVSSLD-QPVGPEQK 182 Query: 187 NALIN--SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 ++L++ + D +Q+ + L D + L++ M+ L+ RER + Sbjct: 183 DSLLDLLAGDDQPTQYMESLQLDEE------------------LSQVMANLDERERFVLS 224 Query: 245 ARR-LQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L++N P +++ + + +S E +R I + KK++ Sbjct: 225 QRYGLEDNQPKSMKAIGQQIGLSHEAIRLILNKIMKKLE 263 >gi|144227447|gb|AAZ44150.2| DNA-directed RNA polymerase sigma factor [Mycoplasma hyopneumoniae J] Length = 676 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 138/271 (50%), Gaps = 33/271 (12%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G + R L+ +LRLVV A Y+ GL +++SEGN+G Sbjct: 408 LLTAEEERELAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLG 467 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV K+D RGF+ +TY+ WWI+ A+ + L++I T N+ ++ L+ Sbjct: 468 IIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQ 527 Query: 141 RLKG------HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + KG + D P+++ I KK+N+ + IS++ + D S + I Sbjct: 528 QEKGLNPTAEEISERLDGEFSPDKIRYI-KKINI---DPISLDKAIGKEEDSSFSDFI-- 581 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQ 249 D+N D+ + + + +VL+E + + R+ + R V E ++A Sbjct: 582 KDENMISPVDYAI--REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAH--- 636 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + E L++ V++ERVRQIEA+ KK+ Sbjct: 637 ----SFEELAAMRRVTKERVRQIEAKILKKL 663 >gi|163846411|ref|YP_001634455.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222524178|ref|YP_002568649.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163667700|gb|ABY34066.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222448057|gb|ACM52323.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 313 Score = 87.4 bits (215), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 122/244 (50%), Gaps = 13/244 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ S+LRLVV IA Y+G+GL + +++ EG++GLM+AV KFD RG + +TY+ +W Sbjct: 74 ARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSVGLMRAVDKFDASRGLKFSTYATYW 133 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ I V++ ++ L RL+ L D E+ +A A L+V Sbjct: 134 IRQSIGRAIADHSRTVRLPVHLGER--LSRLSRLRQELSQQLDREPTLEE-LAQAAGLSV 190 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + E AG + ++ + L D + ++ + + Sbjct: 191 EQVE----RAEQAGLAPTSLDEPHTEDGGGALAEILT---DPLQPTPFDEVSESMLQADV 243 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE-SIQ 285 ++ L+PRER I R L P+ TLE + ++RERVRQ+E A +K+++ S+ Sbjct: 244 QHALQQLSPRERSILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEHEALRKLRDPSLH 303 Query: 286 KQVE 289 Q++ Sbjct: 304 PQLQ 307 >gi|331006388|ref|ZP_08329697.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC1989] gi|330419812|gb|EGG94169.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC1989] Length = 601 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 115/235 (48%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 363 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 422 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++ + Sbjct: 423 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMEM 477 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ DG +E Sbjct: 478 PEEKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDGTITSPVESATDVGLTEST 532 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 533 RDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 587 >gi|307246390|ref|ZP_07528466.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307255376|ref|ZP_07537186.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307259826|ref|ZP_07541544.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306852723|gb|EFM84952.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306861685|gb|EFM93669.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306866124|gb|EFM97994.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 619 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 118/234 (50%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ PE+ +A+++ + Sbjct: 441 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQCLQEMGREATPEE---LAERMGM 495 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E ++ + ++A E ++ D + S D++ D ++ ++ ++ R Sbjct: 496 PEDKIRKV-LKIA-KEPISMETPIGDDDDSHLGDFI---QDESLELPLDSATAESLRLAT 550 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 551 NEVLEGLTLREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 604 >gi|118618673|ref|YP_907005.1| RNA polymerase sigma factor SigB [Mycobacterium ulcerans Agy99] gi|118570783|gb|ABL05534.1| RNA polymerase sigma factor SigB [Mycobacterium ulcerans Agy99] Length = 323 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 81/292 (27%), Positives = 140/292 (47%), Gaps = 56/292 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH--------GD-----LSAAHR-------- 52 Y++ I K +L + E LAKR Y EH GD L+A R Sbjct: 30 YLNGIGKTALLNAEGEVELAKRIEAGLYAEHLLATRKRLGDNRKRELAAVVRDGAEARRH 89 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 90 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 149 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 150 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREIHQNLGREATDEELAAESGIPVEKIND 207 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + DE L I ++ S+ E +I + + Sbjct: 208 LLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 254 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE Sbjct: 255 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIE 302 >gi|237785656|ref|YP_002906361.1| RNA polymerase sigma factor SigB [Corynebacterium kroppenstedtii DSM 44385] gi|237758568|gb|ACR17818.1| RNA polymerase sigma factor B [Corynebacterium kroppenstedtii DSM 44385] Length = 326 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 75/270 (27%), Positives = 137/270 (50%), Gaps = 32/270 (11%) Query: 28 MLEKQEEYVLAKR-----YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 +LE E++ +K+ + G + AH L+ ++LRLVV +A Y G G+P+ +++ EG Sbjct: 65 LLESDEQFTPSKKRDLKAVAKDGRAARAH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEG 123 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLR 140 N+GL++AV+KFD +GF+ +TY+ WWI+ A+ + +++ ++ +L R Sbjct: 124 NLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKR 183 Query: 141 RLKGHL-QAITDNNLKPEQVVAIAK-KLNVSES-EVISMNCRLAGDES--LNALINSSDK 195 + HL + T+ L E + +K L + +S + +S++ + DE L I S+ Sbjct: 184 EMYQHLGREATNEELAEESGIDESKIDLLLKQSRDPVSLDMPVGTDEEAPLGDFIEDSEA 243 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PV 253 D +E V+ R + + ++ L RE+ + R ++ P Sbjct: 244 T------------DAEEAVVASL-----RHSDIRTVLATLEKREQDVIRLRFGLDDGVPR 286 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQES 283 TL+ + EF +SRERVRQIE K+++ Sbjct: 287 TLDQIGREFGLSRERVRQIEREVMAKLRKG 316 >gi|328676046|gb|AEB28721.1| RNA polymerase sigma factor RpoD [Francisella cf. novicida 3523] Length = 577 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDN--NLKPEQ 158 I+ A+ I +++ T N+ KR + + + I ++ N+ E+ Sbjct: 399 IRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEIIEHTPNMTKEK 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + I LN+S + ISM + DE DKN+ IE Sbjct: 459 LKKI---LNISHTP-ISMESPIGDDEDSTVGDFIEDKNNYSP---------------IEA 499 Query: 219 EERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +N R + + L RE ++ R TLE + +F V+RER+RQIEA+ Sbjct: 500 ANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAK 559 Query: 276 AFKKVQ 281 A +K++ Sbjct: 560 ALRKLK 565 >gi|255556952|ref|XP_002519509.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223541372|gb|EEF42923.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 548 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 64/247 (25%), Positives = 124/247 (50%), Gaps = 36/247 (14%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L+ ++LR+VV IA Y+G GL + +++ EG++GLM++++KF P+ G R ATY+ WWI+ Sbjct: 311 KLINANLRMVVHIAKQYQGRGLSLQDLLQEGSMGLMKSIEKFKPQVGCRFATYAYWWIRQ 370 Query: 112 AMQEYILRSWSLVK--------IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 +++ I + ++ +G + KR + I + N P + +A Sbjct: 371 TVRKAIFQHSRTIRLPENVYHTLGKVSEAKRSY------------IMEGNHNPTK-EELA 417 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE--- 220 K++ ++ + + S+ + W D + + +E E Sbjct: 418 KRIGITTVRLERLLYMARMPLSMQQTV---------WADQETTFQEITADIEVEIPELCV 468 Query: 221 -RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 ++ R + +++LNPRER+I R E+ +L + S F +S+ERVRQ+E+RA Sbjct: 469 AKQLMRKHVLSLLNILNPRERKIIRLRYGIEDGKKKSLSEIGSVFGLSKERVRQLESRAL 528 Query: 278 KKVQESI 284 K+++ + Sbjct: 529 YKLKQCL 535 >gi|219849586|ref|YP_002464019.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219543845|gb|ACL25583.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 314 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 118/236 (50%), Gaps = 12/236 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ S+LRLVV IA Y+G+GL + +++ EG+IGLM+AV KFD RG + +TY+ +W Sbjct: 74 ARAQLINSNLRLVVSIARRYQGHGLTLLDLIQEGSIGLMRAVDKFDAGRGLKFSTYATYW 133 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ I V++ ++ L RL+ L D E+ +A A L+V Sbjct: 134 IRQSIGRAIADHSRTVRLPVHLGER--LSRLARLRQELAQQLDREPTLEE-LANAAGLSV 190 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + E AG + ++ + L D + ++ + + Sbjct: 191 EQVE----RAEQAGLAPTSLDEAHTEDGGGALSEILT---DPLQPTPFDEVSEGMLQADV 243 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++S L+PRER I R L P+ TLE + ++RERVRQ+E A +K+++ Sbjct: 244 QAALSQLSPRERNILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEYEALRKLRD 299 >gi|225351336|ref|ZP_03742359.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium pseudocatenulatum DSM 20438] gi|225157680|gb|EEG70963.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium pseudocatenulatum DSM 20438] Length = 472 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 66/253 (26%), Positives = 125/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 234 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 293 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 294 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 353 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 354 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTDA---------IAPSDAVAFSLLQ 400 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ R+ + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 401 EQFRQ--------VLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 452 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 453 TMSKLRHPSRSQT 465 >gi|257061333|ref|YP_003139221.1| RNA polymerase sigma factor [Cyanothece sp. PCC 8802] gi|256591499|gb|ACV02386.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 328 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/305 (21%), Positives = 143/305 (46%), Gaps = 56/305 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+HEI ++P+L ++E V K+ + Sbjct: 23 YLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQGTEPSDKEWAKAVNLKEPEL 82 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G Sbjct: 83 QKTIEQGN-RAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKG 141 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I + +++ +K +++ + L + P + Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK--LNKIKKTQRELSQKLGRSATPAE 199 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIE 217 + A+ L + S++ C + ++ + D ++ + L+ DH+ +Q + + Sbjct: 200 IAAV---LEIEPSQI--RECLSMARQPISLDVRVGDNQDTELSE-LLEDHEASPDQYITQ 253 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 + R++ +N+ M L P++R + R E+ ++L + + +SRERVRQ+E + Sbjct: 254 ELLRQDLKNL----MEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQLEHQ 309 Query: 276 AFKKV 280 A ++ Sbjct: 310 ALAQL 314 >gi|37362432|gb|AAO23112.1| sigma factor S [Vibrio vulnificus] Length = 167 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 36/74 (48%), Positives = 56/74 (75%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A R++ S+LRLVVKI+ Y GL + +++ EGN+GL++AV+KFDPERGFR +TY Sbjct: 9 GDEAARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTY 68 Query: 105 SMWWIKAAMQEYIL 118 + WWI+ ++ ++ Sbjct: 69 ATWWIRQTIERALM 82 >gi|170782020|ref|YP_001710352.1| putative RNA polymerase sigma factor [Clavibacter michiganensis subsp. sepedonicus] gi|169156588|emb|CAQ01739.1| putative RNA polymerase sigma factor [Clavibacter michiganensis subsp. sepedonicus] Length = 355 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 68/252 (26%), Positives = 121/252 (48%), Gaps = 34/252 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 118 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 177 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + ++I Q+++ +L R + + ++ PE+V Sbjct: 178 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKV 237 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + + K E IS++ L GD LI ++ V D +++ Sbjct: 238 IEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTEA---------VVPADAVGFTMLQ 284 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEAR 275 K+ L + L+ RE + R L + P TL+ + F V+RER+RQIE++ Sbjct: 285 KQ--------LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESK 336 Query: 276 AFKKVQESIQKQ 287 K++ + Q Sbjct: 337 TMAKLRHPSRSQ 348 >gi|26554290|ref|NP_758224.1| RNA polymerase sigma factor [Mycoplasma penetrans HF-2] gi|26454299|dbj|BAC44628.1| RNA polymerase sigma factor [Mycoplasma penetrans HF-2] Length = 427 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 79/293 (26%), Positives = 140/293 (47%), Gaps = 50/293 (17%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAK-------RYREHGDLSAAHRLVTSHLRLVVKIAMG 67 G+ +++ + ML QEE + K RE+ A ++L+TS+LRLV IA Sbjct: 142 GIKSFLNVLGSSKMLTSQEEQEIGKMLDSEDKTIREY----AINQLMTSNLRLVTSIAKK 197 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y GL + +++ EG++GLM+A+ KFD + G + +TY+ WWI+ A+ I ++I Sbjct: 198 YLNRGLDLEDLLQEGSLGLMKAITKFDYKLGNKFSTYATWWIRQAITRAIADQARTIRIP 257 Query: 128 T----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA---------IAKK-LNVSESEV 173 T N+ L + + L + PE++ AKK LN+ + + Sbjct: 258 VHMVETINK------LSKAERQLMQEYGRDPTPEELADAMDGTAAGFTAKKILNIKKLNI 311 Query: 174 --ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +S++ + DE S++ D++ D + + EKE + + + Sbjct: 312 DPVSLDKPVGKDE------------ESKFVDFVKDDDNLNPEQFTEKELMGEHIDDILKK 359 Query: 232 MSVLNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +E I R +P+TLE + ++ ++RERVRQIEA+A +K++ Sbjct: 360 F--LQEKEEDIIRMRYGLPPYSHPMTLEEVGEKYGITRERVRQIEAKALRKIK 410 >gi|308234847|ref|ZP_07665584.1| RNA polymerase sigma factor [Gardnerella vaginalis ATCC 14018] gi|311114490|ref|YP_003985711.1| DNA-directed RNA polymerase sigma subunit RpoD [Gardnerella vaginalis ATCC 14019] gi|310945984|gb|ADP38688.1| DNA-directed RNA polymerase sigma subunit RpoD [Gardnerella vaginalis ATCC 14019] Length = 434 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 66/253 (26%), Positives = 125/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 196 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 255 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 256 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 315 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 316 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTDA---------IAPSDAVAFSLLQ 362 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ R+ + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 363 EQFRQ--------VLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 414 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 415 TMSKLRHPSRSQT 427 >gi|218780916|ref|YP_002432234.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfatibacillum alkenivorans AK-01] gi|218762300|gb|ACL04766.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfatibacillum alkenivorans AK-01] Length = 595 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 115/235 (48%), Gaps = 12/235 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A L+ ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 356 DAKAELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 415 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R +L PE+ IA+K+ Sbjct: 416 WIRQAITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQELGREPTPEE---IAQKME 470 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E + ++A E ++ ++ S D++ D + + E N Sbjct: 471 FP-LEKVRRVLKIA-KEPISLETPIGEEEDSHLGDFI---EDKKFMLPSEAAISLNLAEQ 525 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ L PRE ++ R ++ TLE + +F V+RER+RQIEA+A +K+ Sbjct: 526 TRKVLATLTPREEKVLRMRFGIGEKADHTLEEVGKDFSVTRERIRQIEAKALRKL 580 >gi|300933022|ref|ZP_07148278.1| RNA polymerase sigma factor SigB [Corynebacterium resistens DSM 45100] Length = 337 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 80/300 (26%), Positives = 141/300 (47%), Gaps = 52/300 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDLSAAHR---------------- 52 Y++ I K +L ++E L++R Y EH DL+ A + Sbjct: 44 YLNGIGKTALLTAEDEVELSQRIEVGLYAEHLLKNSTDLTRARKRDLKILAREGKAARSH 103 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 104 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 163 Query: 113 MQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAK-KLNV 168 + + +++ ++ +L R + HL + T+ L E + +K +L + Sbjct: 164 ITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATNEELAEESGIEESKIELLL 223 Query: 169 SES-EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 +S + +S++ + DE L I SD ++ H VL Sbjct: 224 KQSRDPVSLDMPVGSDEEAPLGDFIEDSDATDAEAAVVASLRHSDVRAVL---------- 273 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 L RE+ + + R ++ P TL+ + F +SRERVRQIE K++E Sbjct: 274 -------GTLEEREQDVIKLRYGLDDGMPRTLDQIGRRFGLSRERVRQIEREVMAKLREG 326 >gi|220907092|ref|YP_002482403.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 7425] gi|219863703|gb|ACL44042.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 318 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 64/248 (25%), Positives = 122/248 (49%), Gaps = 34/248 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+L A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY Sbjct: 80 GEL-AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I +++ +K L ++K + ++ + + +A+ Sbjct: 139 AYWWIRQAITRAIAEKGRTIRLPIHITEK-----LNKIKKAQRQLSQQLGRAATIGELAQ 193 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 +L ++ +V +S++ R+ GD L + ++ +D+ Sbjct: 194 ELELTPKQVREYLERSRQPLSLDVRV-GDNQDTELGELLEDTAASPEDFT---------- 242 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQI 272 + + R L R M+ L P++R++ R E+ P+TL + +SRERVRQI Sbjct: 243 -----SQASLRADLDRLMADLTPQQRQVLSLRFGLEDGQPLTLAKVGDMLNISRERVRQI 297 Query: 273 EARAFKKV 280 E A K+ Sbjct: 298 EREALSKL 305 >gi|213964561|ref|ZP_03392761.1| RNA polymerase sigma factor RpoD [Corynebacterium amycolatum SK46] gi|213952754|gb|EEB64136.1| RNA polymerase sigma factor RpoD [Corynebacterium amycolatum SK46] Length = 329 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 81/303 (26%), Positives = 140/303 (46%), Gaps = 58/303 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------------------GDLSAAH 51 Y++ I K +L +EE L+KR Y EH G + AH Sbjct: 36 YLNGIGKTALLSAEEEVELSKRIEAGVYAEHLLQTGAKMTRAKKRDVKILAKEGKAARAH 95 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ Sbjct: 96 -LLEANLRLVVSLAKRYTNRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQ 154 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVAIAK-- 164 A+ + +++ ++ + R+K L + T+ L E + AK Sbjct: 155 AITRGMADQSRTIRLPVHLVEQ--VNKISRIKRELYQQLGREATNEELAEESGIPEAKIE 212 Query: 165 KLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 L + +S++ + DE L I S+ D +E V+ Sbjct: 213 MLLRQSRDPVSLDMPVGTDEEAPLGDFIEDSEAT------------DAEEAVVASL---- 256 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 R + + + +S L RE+ + + R ++ P TL+ + F +SRERVRQIE K+ Sbjct: 257 -RHHDVRKVLSTLEIREQEVIKLRYGLDDGLPRTLDQIGRHFGLSRERVRQIEREVMSKL 315 Query: 281 QES 283 +E Sbjct: 316 REG 318 >gi|261342189|ref|ZP_05970047.1| RNA polymerase sigma factor [Enterobacter cancerogenus ATCC 35316] gi|288315522|gb|EFC54460.1| RNA polymerase sigma factor [Enterobacter cancerogenus ATCC 35316] Length = 147 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 42/87 (48%), Positives = 62/87 (71%), Gaps = 1/87 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYS 105 + EGN+GL++AV+KFDPERGFR +TY+ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYA 146 >gi|332678201|gb|AEE87330.1| RNA polymerase sigma factor RpoD [Francisella cf. novicida Fx1] Length = 577 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDN--NLKPEQ 158 I+ A+ I +++ T N+ KR + + + I ++ N+ E+ Sbjct: 399 IRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEIIEHTPNMTKEK 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + I LN+S + ISM + DE DKN+ IE Sbjct: 459 LKKI---LNISHTP-ISMESPIGDDEDSTVGDFIEDKNNYSP---------------IEA 499 Query: 219 EERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +N R + + L RE ++ R TLE + +F V+RER+RQIEA+ Sbjct: 500 ANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAK 559 Query: 276 AFKKVQ 281 A +K++ Sbjct: 560 ALRKLK 565 >gi|218247332|ref|YP_002372703.1| RNA polymerase sigma factor [Cyanothece sp. PCC 8801] gi|218167810|gb|ACK66547.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] Length = 328 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/305 (21%), Positives = 143/305 (46%), Gaps = 56/305 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+HEI ++P+L ++E V K+ + Sbjct: 23 YLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQGTEPSDKEWAKAVNLKEPEL 82 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G Sbjct: 83 KKTIEQGN-RAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKG 141 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I + +++ +K +++ + L + P + Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK--LNKIKKTQRELSQKLGRSATPAE 199 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-EQVLIE 217 + A+ L + S++ C + ++ + D ++ + L+ DH+ +Q + + Sbjct: 200 IAAV---LEIEPSQI--RECLSMARQPISLDVRVGDNQDTELSE-LLEDHEASPDQYITQ 253 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 + R++ +N+ M L P++R + R E+ ++L + + +SRERVRQ+E + Sbjct: 254 ELLRQDLKNL----MEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQLEHQ 309 Query: 276 AFKKV 280 A ++ Sbjct: 310 ALAQL 314 >gi|89256388|ref|YP_513750.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica LVS] gi|115314834|ref|YP_763557.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica OSU18] gi|156502477|ref|YP_001428542.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FTNF002-00] gi|167010407|ref|ZP_02275338.1| RNA polymerase sigma factor RpoD [Francisella tularensis subsp. holarctica FSC200] gi|254367725|ref|ZP_04983746.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica 257] gi|290953811|ref|ZP_06558432.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica URFT1] gi|295312822|ref|ZP_06803554.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica URFT1] gi|89144219|emb|CAJ79489.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica LVS] gi|115129733|gb|ABI82920.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. holarctica OSU18] gi|134253536|gb|EBA52630.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica 257] gi|156253080|gb|ABU61586.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FTNF002-00] Length = 577 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDN--NLKPEQ 158 I+ A+ I +++ T N+ KR + + + I ++ N+ E+ Sbjct: 399 IRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEIIEHTPNMSKEK 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + I LN+S + ISM + DE DKN+ IE Sbjct: 459 LKKI---LNISHTP-ISMESPIGDDEDSTVGDFIEDKNNYSP---------------IEA 499 Query: 219 EERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +N R + + L RE ++ R TLE + +F V+RER+RQIEA+ Sbjct: 500 ANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAK 559 Query: 276 AFKKVQ 281 A +K++ Sbjct: 560 ALRKLK 565 >gi|134301933|ref|YP_001121902.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis WY96-3418] gi|254369360|ref|ZP_04985372.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FSC022] gi|254372870|ref|ZP_04988359.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. novicida GA99-3549] gi|134049710|gb|ABO46781.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis WY96-3418] gi|151570597|gb|EDN36251.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella novicida GA99-3549] gi|157122310|gb|EDO66450.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FSC022] Length = 577 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDN--NLKPEQ 158 I+ A+ I +++ T N+ KR + + + I ++ N+ E+ Sbjct: 399 IRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEIIEHTPNMTKEK 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + I LN+S + ISM + DE DKN+ IE Sbjct: 459 LKKI---LNISHTP-ISMESPIGDDEDSTVGDFIEDKNNYSP---------------IEA 499 Query: 219 EERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +N R + + L RE ++ R TLE + +F V+RER+RQIEA+ Sbjct: 500 ANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAK 559 Query: 276 AFKKVQ 281 A +K++ Sbjct: 560 ALRKLK 565 >gi|325002338|ref|ZP_08123450.1| RpoD family RNA polymerase sigma factor [Pseudonocardia sp. P1] Length = 425 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 79/292 (27%), Positives = 132/292 (45%), Gaps = 61/292 (20%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYR---------EHGDLS----------------AAHR 52 RY E + +++ EE VLA+ E+GD + A R Sbjct: 152 RYRQETGRAGLIDAGEEVVLARAIEVGLLAAERLENGDETTPAALPLRLLIAAGEGAYER 211 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 VT++LRLV+ IA GY GL ++V EG +GL++AV+KFD +G + +TY+ WWI+ A Sbjct: 212 FVTANLRLVLSIASGYGAPGLDALDLVQEGTLGLIRAVQKFDIAQGTKFSTYATWWIRQA 271 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I A+Q R L L A + L P+ A A+ + + Sbjct: 272 ITRAI------------ADQSRTIRYPVHLVERLNAFSRRAL-PDDDSATAELVATLPTT 318 Query: 173 VISMNCR-LAGDESLNALINSS-DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V + R + G+E L + + D + + + V D + Sbjct: 319 VPFESARDVLGEEVLQDVADRYLDPPAPDLRGFTVED--------------------VAA 358 Query: 231 SMSVLNPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++S+L+ RER I + R + TL+ + E V+RER+RQI+++A +++ Sbjct: 359 ALSILSERERTIVDRRFGFVGDAATLDVIGGELGVTRERIRQIQSKALGRLE 410 >gi|149917806|ref|ZP_01906301.1| sigma 70 (RpoD) [Plesiocystis pacifica SIR-1] gi|149821326|gb|EDM80728.1| sigma 70 (RpoD) [Plesiocystis pacifica SIR-1] Length = 431 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 71/259 (27%), Positives = 128/259 (49%), Gaps = 12/259 (4%) Query: 34 EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 EYV R SA ++ V ++LRLVV IA + +P+ +++ EGNIGLM+AV +F Sbjct: 182 EYVANVRRSSRKLRSAKNKFVKANLRLVVSIARRFNHGRMPLQDLIQEGNIGLMKAVDRF 241 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 D +GFR +TY WWI+ A+ I V++ + + + + + L+A Sbjct: 242 DYRKGFRFSTYGSWWIRHAISRAIADKGRQVRL--PVHMIDAYHKVNKARRELEAKLGRE 299 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 E+ +A+ ++ +++ M L D ++ SD + + D+L D + Sbjct: 300 PTREE---LAQHTGIALAKIERMGTMLV-DNPISLDKPVSDADGRKMGDFL---EDENAE 352 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQ 271 E E + R +S L P E I R + + +TL+ + ++ +SRER+RQ Sbjct: 353 DPGEGLEADALNEQVKRLVSKLRPIEADIIRKRFGLIDDEELTLKEIGGQYSLSRERIRQ 412 Query: 272 IEARAFKKVQESIQKQVEL 290 ++ +A K++ + K++EL Sbjct: 413 LQEQALGKIRREL-KRLEL 430 >gi|254374325|ref|ZP_04989807.1| RNA polymerase sigma-70 factor [Francisella novicida GA99-3548] gi|151572045|gb|EDN37699.1| RNA polymerase sigma-70 factor [Francisella novicida GA99-3548] Length = 577 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDN--NLKPEQ 158 I+ A+ I +++ T N+ KR + + + I ++ N+ E+ Sbjct: 399 IRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEIIEHTPNMTKEK 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + I LN+S + ISM + DE DKN+ IE Sbjct: 459 LKKI---LNISHTP-ISMESPIGDDEDSTVGDFIEDKNNYSP---------------IEA 499 Query: 219 EERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +N R + + L RE ++ R TLE + +F V+RER+RQIEA+ Sbjct: 500 ANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAK 559 Query: 276 AFKKVQ 281 A +K++ Sbjct: 560 ALRKLK 565 >gi|118497505|ref|YP_898555.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. novicida U112] gi|195536199|ref|ZP_03079206.1| RNA polymerase sigma factor RpoD [Francisella tularensis subsp. novicida FTE] gi|208779304|ref|ZP_03246650.1| RNA polymerase sigma factor RpoD [Francisella novicida FTG] gi|118423411|gb|ABK89801.1| RNA polymerase sigma-70 factor [Francisella novicida U112] gi|194372676|gb|EDX27387.1| RNA polymerase sigma factor RpoD [Francisella tularensis subsp. novicida FTE] gi|208745104|gb|EDZ91402.1| RNA polymerase sigma factor RpoD [Francisella novicida FTG] Length = 577 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDN--NLKPEQ 158 I+ A+ I +++ T N+ KR + + + I ++ N+ E+ Sbjct: 399 IRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEIIEHTPNMTKEK 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + I LN+S + ISM + DE DKN+ IE Sbjct: 459 LKKI---LNISHTP-ISMESPIGDDEDSTVGDFIEDKNNYSP---------------IEA 499 Query: 219 EERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +N R + + L RE ++ R TLE + +F V+RER+RQIEA+ Sbjct: 500 ANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAK 559 Query: 276 AFKKVQ 281 A +K++ Sbjct: 560 ALRKLK 565 >gi|187931644|ref|YP_001891628.1| RNA polymerase sigma 70 factor RpoD [Francisella tularensis subsp. mediasiatica FSC147] gi|187712553|gb|ACD30850.1| RNA polymerase sigma 70 factor RpoD [Francisella tularensis subsp. mediasiatica FSC147] Length = 577 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 116/246 (47%), Gaps = 32/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ----KRLFFNLRRLKGHLQAITDN--NLKPEQ 158 I+ A+ I +++ T N+ KR + + + I ++ N+ E+ Sbjct: 399 IRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEIIEHTPNMTKEK 458 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + I LN+S + ISM + DE DKN+ IE Sbjct: 459 LKKI---LNISHTP-ISMESPIGDDEDSTVGDFIEDKNNYSP---------------IEA 499 Query: 219 EERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +N R + + L RE ++ R TLE + +F V+RER+RQIEA+ Sbjct: 500 ANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAK 559 Query: 276 AFKKVQ 281 A +K++ Sbjct: 560 ALRKLK 565 >gi|156742838|ref|YP_001432967.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156234166|gb|ABU58949.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 351 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 118/233 (50%), Gaps = 14/233 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A RL+ ++LRLVV +A Y G L ++V EGNIGLM+AV+KFD +G R +TY+ WW Sbjct: 114 ARRRLIQANLRLVVSVAKKYIGGPLSFMDLVQEGNIGLMRAVEKFDASKGNRFSTYATWW 173 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLN 167 I+ A+ I L+++ + + +RR+ L+ +L+ E + IA+ + Sbjct: 174 IRQAITRAIAEQSRLIRLPVHLSD--VIAQVRRVARRLE----QSLEREPTIKEIAEAVG 227 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E +V + A SL I N + Q + DG + + + +R+ Sbjct: 228 MPERKVKMLLQASAQPISLEQPIT----NDGEGQIGELLADDGADAPMEIATQHMLQRD- 282 Query: 228 LTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFK 278 L +++ L RER + R + TLE + S F ++RER RQIEA A + Sbjct: 283 LEQALMDLPDRERAVLRLRYGLTDGRRRTLEEIGSAFGITRERTRQIEADALR 335 >gi|254421571|ref|ZP_05035289.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196189060|gb|EDX84024.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 390 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 75/319 (23%), Positives = 140/319 (43%), Gaps = 82/319 (25%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYRE--------------------------HGDLSAA-- 50 Y+HEI ++P+L ++E VL K+ ++ + D +AA Sbjct: 79 YLHEIGRVPLLSHEDEIVLGKQVQKMMALLAIKEELAAKLSEAEGEEAEVSNADWAAAAS 138 Query: 51 -----------------HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 +++ ++LRLVV +A Y+ L +++ EG +GL + V+KF Sbjct: 139 IPESELDHHMRRGQRSKRKMIEANLRLVVAVAKKYQKRNLEFLDLIQEGTLGLERGVEKF 198 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKG 144 DP +G++ +TY+ WWI+ A+ I + +++ Q+ L L R Sbjct: 199 DPMKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRVQRELSQKLGRSPN 258 Query: 145 HLQAITDNNLKPEQV---VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 + + L+P+QV ++IA+ + IS++ R+ D ++ Q Sbjct: 259 AAEIGQELELEPKQVREYLSIAR-------QPISLDVRIG------------DNQDTELQ 299 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLS 259 D L D E +++ R + + R +S L +++ + R NP++L + Sbjct: 300 DLLEDDGASPEDYTVQQSLRSD----IFRMLSELTSQQQEVINLRFGLADGNPLSLAKVG 355 Query: 260 SEFEVSRERVRQIEARAFK 278 +SRERVRQ+E +A K Sbjct: 356 QRMGISRERVRQLEQQALK 374 >gi|86608149|ref|YP_476911.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-2-3B'a(2-13)] gi|86556691|gb|ABD01648.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-2-3B'a(2-13)] Length = 361 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 115/237 (48%), Gaps = 18/237 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ ++LRLVV +A Y G+P +++ EGNIGL++A +KF+ ERGFR +TY+ WW Sbjct: 124 AQRKLINANLRLVVSVAKKYLNRGVPFLDLIQEGNIGLIRATEKFNAERGFRFSTYAHWW 183 Query: 109 IKAAMQEYILRSWSLVKIGT-TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 I+ + I +++ ++ RL R LQ E +A A + Sbjct: 184 IRQGITRCIANQARTIRLPVHMVDKVRLLKRTNRELMKLQG----RRPTEAELAEALGIK 239 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERKNRR 225 V + +I L L+ + + S+ D L + Q + +L++ ++ R Sbjct: 240 VKKLRMIQQAAAL----PLSLDVPVGQEGESRLGDLLQDERQEQPFQGILVQSMQQDVRS 295 Query: 226 NMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 M T L P ER++ E R + TL + F ++RER+RQIE A +K+ Sbjct: 296 AMQT-----LKPIERQVLELRYGLDGQQARTLREVGDHFNLTRERIRQIERDALRKL 347 >gi|126659670|ref|ZP_01730799.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] gi|126619015|gb|EAZ89755.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] Length = 369 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/247 (29%), Positives = 122/247 (49%), Gaps = 21/247 (8%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +R H +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ Sbjct: 123 HRLHRGRTAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYK 182 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I +++ +K L +LK + + + Sbjct: 183 FSTYAYWWIRQAITRTIANDARTIRLPIHVVEK-----LNKLKKAQRVLKQKLQRNPNEK 237 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 +A +L VS S++ + SLN + + ++ D L ++Q L EE Sbjct: 238 ELADELEVSPSQLRQLLQLRRQSLSLNHRVGKGE--DTELVDLL------EDQELQLPEE 289 Query: 221 RKNRRNMLTRSMS-----VLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 N ML +S VL RE+ + R P TLE + F +SRERVRQI+ Sbjct: 290 LMN-EGMLRYEVSAVLSDVLTQREKDVISLRYGLCTAQPHTLEEVGGIFNLSRERVRQIQ 348 Query: 274 ARAFKKV 280 ++A +K+ Sbjct: 349 SKAMRKL 355 >gi|6175924|gb|AAF05338.1|AF182104_2 truncated RNA polymerase sigma subunit [Escherichia coli] Length = 147 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 42/87 (48%), Positives = 62/87 (71%), Gaps = 1/87 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYS 105 + EGN+GL++AV+KFDPERGFR +TY+ Sbjct: 120 IEEGNLGLIRAVEKFDPERGFRFSTYA 146 >gi|71893415|ref|YP_278861.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae J] Length = 489 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 76/270 (28%), Positives = 138/270 (51%), Gaps = 29/270 (10%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G + R L+ +LRLVV A Y+ GL +++SEGN+G Sbjct: 221 LLTAEEERELAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLG 280 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV K+D RGF+ +TY+ WWI+ A+ + L++I T N+ ++ L+ Sbjct: 281 IIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQ 340 Query: 141 RLKG------HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + KG + D P+++ I KK+N+ + IS++ + +E + D Sbjct: 341 QEKGLNPTAEEISERLDGEFSPDKIRYI-KKINI---DPISLDKAIGKEEDSSFSDFIKD 396 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +N D+ + + + +VL+E + + R+ + R V E ++A Sbjct: 397 ENMISPVDYAI--REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAH----- 449 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + E L++ V++ERVRQIEA+ KK++ Sbjct: 450 --SFEELAAMRRVTKERVRQIEAKILKKLR 477 >gi|33866043|ref|NP_897602.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639018|emb|CAE08024.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] Length = 308 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 123/253 (48%), Gaps = 39/253 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 66 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 125 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQV-----VA 161 I+ + + ++I N+K LR K L + N L P EQ+ + Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKARL--MQRNGLTPTAEQLADFMEIP 181 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 IA+ ++ E+ S+ L G + S + S+ D L D E +E+ E Sbjct: 182 IAEVEDLLACELRSVTVSLQG-------VVKSKSDPSELVDVLPSD----ELPPMERAE- 229 Query: 222 KNRRNMLTRSMSV--------LNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVR 270 + RS SV L P+ER + R + TL ++ SRE R Sbjct: 230 -----IAERSASVWTLLGKANLTPKERTVVTLRFGLDGTNEWRTLAEVARHMNCSREYCR 284 Query: 271 QIEARAFKKVQES 283 Q+ RA +K++++ Sbjct: 285 QVVQRALRKLRKT 297 >gi|282854020|ref|ZP_06263357.1| sigma-70 region 2 [Propionibacterium acnes J139] gi|282583473|gb|EFB88853.1| sigma-70 region 2 [Propionibacterium acnes J139] gi|314922987|gb|EFS86818.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL001PA1] gi|314966764|gb|EFT10863.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL082PA2] gi|314981098|gb|EFT25192.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA3] gi|315091924|gb|EFT63900.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA4] gi|315093320|gb|EFT65296.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL060PA1] gi|315103425|gb|EFT75401.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL050PA2] gi|327327589|gb|EGE69365.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL103PA1] Length = 312 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 82/312 (26%), Positives = 142/312 (45%), Gaps = 59/312 (18%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE-------------------------- 43 ++G+ + Y+ I + P+L EE LA+R Sbjct: 13 IDGKDAVGLYLDGIARTPLLNAAEEVALARRIEAGVFARAVLEGHAETTSDATTEELHQI 72 Query: 44 --HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 GD + AH V ++LRLVV +A Y +P+ ++V EGN GL++AV+KFD +GF+ Sbjct: 73 AADGDEALAH-FVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKF 131 Query: 102 ATYSMWWIKAAMQEYILRSWSLVK----IGTTANQ-KRLFFNLRRLKGHLQAITDNNLKP 156 +TY+ WW++ A+ I + +V+ + NQ NL R G +P Sbjct: 132 STYATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGR---------EP 182 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHD-GQEQV 214 E IA +L ++E VI + R D SL+A + D + D + + G + + Sbjct: 183 E-TFEIADELEITEERVIEL-IRFGRDHVSLDAPVE--DDGDTSLGDLIARETSPGPDDI 238 Query: 215 LIEKEERKNRRNMLT----RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +++ E+R +L RS V+ R + + R+ + L ++ + ++ ERVR Sbjct: 239 VLDAEDRSRLEGLLDDLDERSADVVR-RRYGLVDGRQAK-----LADIGKVWGITAERVR 292 Query: 271 QIEARAFKKVQE 282 QIE A +++ Sbjct: 293 QIERAALASMRQ 304 >gi|55980501|ref|YP_143798.1| RNA polymerase pricipal sigma factor RpoD [Thermus thermophilus HB8] gi|209447478|pdb|3DXJ|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|209447484|pdb|3DXJ|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|55771914|dbj|BAD70355.1| RNA polymerase pricipal sigma factor (RpoD) [Thermus thermophilus HB8] Length = 423 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 123/242 (50%), Gaps = 22/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY+ W Sbjct: 182 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATW 241 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R LQ E+ IA+ + Sbjct: 242 WIRQAINRAIADQARTIRI--PVHMVETINKLSRTARQLQQELGREPTYEE---IAEAMG 296 Query: 168 VS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEER 221 +++ + ++A E ++ D+ S + D++ +H D Q L+ +E Sbjct: 297 PGWDAKRVEETLKIA-QEPVSLETPIGDEKDSFYGDFIPDEHLPSPVDAATQSLLSEE-- 353 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K Sbjct: 354 ------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAFFGVTRERIRQIENKALRK 407 Query: 280 VQ 281 ++ Sbjct: 408 LK 409 >gi|6463986|dbj|BAA86958.1| group 2 sigma factor RpoD4 [Synechococcus sp. PCC 7942] Length = 311 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 83/307 (27%), Positives = 151/307 (49%), Gaps = 43/307 (14%) Query: 3 RKNMSIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR------EHGD-------- 46 R+N++ V +S Y+ I +IP+L +EE L+++ + E+ D Sbjct: 6 RRNLNAAVERHTSDHVSWYLSSIGRIPLLTAEEEVELSRKVQLMMALLENPDAESNSENQ 65 Query: 47 --LSAAHR----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 L A R ++ ++LRLVV +A + GL + +++ EG++GL +AV+KFDP G++ Sbjct: 66 AVLQAGQRAKTKMLKANLRLVVSVAKKCQNQGLELLDLIQEGSLGLERAVEKFDPALGYK 125 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN--NLKPEQ 158 +TY+ WWI+ +M I +++ ++K + R+K + +T L Sbjct: 126 FSTYAYWWIRQSMTRAIDNHARTIRLPIHVSEK-----ISRIKKMTRELTHQLKRLPSRA 180 Query: 159 VVAIAKKLNVSESEVI---SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +A A KL + + E++ S C SL+A D S + L+ D E Sbjct: 181 EIAEALKLPLQDVEMLLSQSTPC-----TSLDAQARGDDGRS--FLGDLIPDPKSLEP-- 231 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIE 273 ++ +R + ++ ++ L RE+++ + R L + TL + VSRER+RQ+E Sbjct: 232 MDAMDRHIQHEQISTWLAHLTEREQQVLQLRFGLHDGEQHTLAEIGRRLNVSRERIRQVE 291 Query: 274 ARAFKKV 280 ARA +K+ Sbjct: 292 ARALQKL 298 >gi|46198472|ref|YP_004139.1| RNA polymerase sigma factor rpoD [Thermus thermophilus HB27] gi|21730342|pdb|1IW7|F Chain F, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|21730348|pdb|1IW7|P Chain P, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|49259060|pdb|1SMY|F Chain F, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|49259066|pdb|1SMY|P Chain P, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|78101162|pdb|1ZYR|F Chain F, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101168|pdb|1ZYR|P Chain P, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101224|pdb|2A68|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101230|pdb|2A68|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101236|pdb|2A69|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101242|pdb|2A69|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101248|pdb|2A6E|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101254|pdb|2A6E|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101260|pdb|2A6H|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101266|pdb|2A6H|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101762|pdb|2CW0|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|78101768|pdb|2CW0|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|83754377|pdb|2BE5|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|83754383|pdb|2BE5|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|210061069|pdb|3EQL|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|210061075|pdb|3EQL|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|4239959|dbj|BAA74758.1| principal sigma factor [Thermus thermophilus] gi|46196094|gb|AAS80512.1| RNA polymerase sigma factor rpoD [Thermus thermophilus HB27] Length = 423 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 123/242 (50%), Gaps = 22/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY+ W Sbjct: 182 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATW 241 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R LQ E+ IA+ + Sbjct: 242 WIRQAINRAIADQARTIRI--PVHMVETINKLSRTARQLQQELGREPTYEE---IAEAMG 296 Query: 168 VS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEER 221 +++ + ++A E ++ D+ S + D++ +H D Q L+ +E Sbjct: 297 PGWDAKRVEETLKIA-QEPVSLETPIGDEKDSFYGDFIPDEHLPSPVDAATQSLLSEE-- 353 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K Sbjct: 354 ------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAFFGVTRERIRQIENKALRK 407 Query: 280 VQ 281 ++ Sbjct: 408 LK 409 >gi|237809411|ref|YP_002893851.1| RNA polymerase, sigma 70 subunit, RpoD [Tolumonas auensis DSM 9187] gi|237501672|gb|ACQ94265.1| RNA polymerase, sigma 70 subunit, RpoD [Tolumonas auensis DSM 9187] Length = 617 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 118/250 (47%), Gaps = 28/250 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPNPEELAERMGMPED 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ D + + Sbjct: 497 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLALPADAAT 540 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 541 SESLKAATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 279 KVQESIQKQV 288 K++ + +V Sbjct: 601 KLRHPSRSEV 610 >gi|327539652|gb|EGF26260.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodopirellula baltica WH47] Length = 567 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 124/277 (44%), Gaps = 35/277 (12%) Query: 21 HEIRKIPMLEKQEEYVLAKRY---REHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPI 75 E+R++ ++ ++ L R R H D A + L +LRLVV IA YR GL Sbjct: 294 QELRELMLVTQESPTSLHNRMAKVRRHFDQYEATKRELSAGNLRLVVSIAKKYRNRGLSF 353 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT------- 128 +++ EGN GLM+AV K++ RGF+ +TY+ WWI+ A+ I ++I Sbjct: 354 LDLIQEGNTGLMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDVLS 413 Query: 129 --TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 QKRL LRR + ++ E+V + +++ V SL Sbjct: 414 KLRQAQKRLTQTLRREPTYEDIAEATDVPIEEVRRV---MDIGRHPV-----------SL 459 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + + + +S V D + V I RN + + L RER I R Sbjct: 460 DRPVGEGEDSSF---GEFVQDSETDNPVRIAAS--GMLRNKIDELLKTLTFREREIIRLR 514 Query: 247 R--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE F+V+RERVRQIEA+A K+Q Sbjct: 515 YGLVDGYSYTLEECGRIFKVTRERVRQIEAKAVAKMQ 551 >gi|319638161|ref|ZP_07992924.1| RNA polymerase sigma factor rpoD [Neisseria mucosa C102] gi|317400434|gb|EFV81092.1| RNA polymerase sigma factor rpoD [Neisseria mucosa C102] Length = 650 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 64/236 (27%), Positives = 119/236 (50%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 406 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 465 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ Q + + +P+ +A+ + Sbjct: 466 WIRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QYLQETGEEPDS-AKLAELME 520 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D E + + Sbjct: 521 MPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDANNVAPAEAAMYTSLHEV 575 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 576 TKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 631 >gi|315444860|ref|YP_004077739.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|315263163|gb|ADT99904.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 319 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 80/300 (26%), Positives = 142/300 (47%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L +E LAKR Y +H DL+A R Sbjct: 26 YLNGIGKTALLTAADEVELAKRIEAGLYAQHLLATRKRLGENRKRDLAAVVRDGEAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAEESGIPVEKIND 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + DE L I ++ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSA-------------ENAVISELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 251 IRYVL----ATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306 >gi|241760450|ref|ZP_04758543.1| RNA polymerase sigma factor RpoD [Neisseria flavescens SK114] gi|241318954|gb|EER55456.1| RNA polymerase sigma factor RpoD [Neisseria flavescens SK114] Length = 650 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 64/236 (27%), Positives = 119/236 (50%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 406 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 465 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ Q + + +P+ +A+ + Sbjct: 466 WIRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QYLQETGEEPDS-AKLAELME 520 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D E + + Sbjct: 521 MPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDANNVAPAEAAMYTSLHEV 575 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 576 TKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 631 >gi|50842514|ref|YP_055741.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes KPA171202] gi|289425060|ref|ZP_06426837.1| sigma-70 region 2 [Propionibacterium acnes SK187] gi|289427240|ref|ZP_06428956.1| sigma-70 region 2 [Propionibacterium acnes J165] gi|295130591|ref|YP_003581254.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes SK137] gi|50840116|gb|AAT82783.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes KPA171202] gi|289154038|gb|EFD02726.1| sigma-70 region 2 [Propionibacterium acnes SK187] gi|289159709|gb|EFD07897.1| sigma-70 region 2 [Propionibacterium acnes J165] gi|291376720|gb|ADE00575.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes SK137] gi|313764457|gb|EFS35821.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL013PA1] gi|313772161|gb|EFS38127.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL074PA1] gi|313807516|gb|EFS46003.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL087PA2] gi|313810025|gb|EFS47746.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL083PA1] gi|313815996|gb|EFS53710.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL059PA1] gi|313818558|gb|EFS56272.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL046PA2] gi|313820325|gb|EFS58039.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL036PA1] gi|313822868|gb|EFS60582.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL036PA2] gi|313825200|gb|EFS62914.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL063PA1] gi|313827776|gb|EFS65490.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL063PA2] gi|313830353|gb|EFS68067.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL007PA1] gi|313833726|gb|EFS71440.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL056PA1] gi|314915450|gb|EFS79281.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA4] gi|314918267|gb|EFS82098.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL050PA1] gi|314920080|gb|EFS83911.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL050PA3] gi|314925213|gb|EFS89044.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL036PA3] gi|314931602|gb|EFS95433.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL067PA1] gi|314955755|gb|EFT00155.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL027PA1] gi|314958169|gb|EFT02272.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL002PA1] gi|314960004|gb|EFT04106.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL002PA2] gi|314967831|gb|EFT11930.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL037PA1] gi|314973357|gb|EFT17453.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL053PA1] gi|314976035|gb|EFT20130.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL045PA1] gi|314978426|gb|EFT22520.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL072PA2] gi|314983943|gb|EFT28035.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA1] gi|314988127|gb|EFT32218.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA2] gi|314989932|gb|EFT34023.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA3] gi|315080642|gb|EFT52618.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL078PA1] gi|315084315|gb|EFT56291.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL027PA2] gi|315085658|gb|EFT57634.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL002PA3] gi|315088920|gb|EFT60896.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL072PA1] gi|315095902|gb|EFT67878.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL038PA1] gi|315098533|gb|EFT70509.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL059PA2] gi|315101109|gb|EFT73085.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL046PA1] gi|315105655|gb|EFT77631.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL030PA1] gi|315108329|gb|EFT80305.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL030PA2] gi|327326184|gb|EGE67974.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL096PA2] gi|327331941|gb|EGE73678.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL096PA3] gi|327443142|gb|EGE89796.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL013PA2] gi|327445926|gb|EGE92580.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL043PA2] gi|327448094|gb|EGE94748.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL043PA1] gi|327450785|gb|EGE97439.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL087PA3] gi|327453871|gb|EGF00526.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL083PA2] gi|328753473|gb|EGF67089.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL020PA1] gi|328754203|gb|EGF67819.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL087PA1] gi|328754545|gb|EGF68161.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL025PA2] gi|328760855|gb|EGF74421.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL099PA1] gi|332675431|gb|AEE72247.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes 266] Length = 312 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 82/312 (26%), Positives = 142/312 (45%), Gaps = 59/312 (18%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE-------------------------- 43 ++G+ + Y+ I + P+L EE LA+R Sbjct: 13 IDGKDAVGLYLDGIARTPLLNAAEEVALARRIEAGVFARAILEGHAETTSDTTTKELHQI 72 Query: 44 --HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 GD + AH V ++LRLVV +A Y +P+ ++V EGN GL++AV+KFD +GF+ Sbjct: 73 AADGDEALAH-FVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKF 131 Query: 102 ATYSMWWIKAAMQEYILRSWSLVK----IGTTANQ-KRLFFNLRRLKGHLQAITDNNLKP 156 +TY+ WW++ A+ I + +V+ + NQ NL R G +P Sbjct: 132 STYATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGR---------EP 182 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHD-GQEQV 214 E IA +L ++E VI + R D SL+A + D + D + + G + + Sbjct: 183 E-TFEIADELEITEERVIEL-IRFGRDHVSLDAPVE--DDGDTSLGDLIARETSPGPDDI 238 Query: 215 LIEKEERKNRRNMLT----RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +++ E+R +L RS V+ R + + R+ + L ++ + ++ ERVR Sbjct: 239 VLDAEDRSRLEGLLDDLDERSADVVR-RRYGLVDGRQAK-----LADIGKVWGITAERVR 292 Query: 271 QIEARAFKKVQE 282 QIE A +++ Sbjct: 293 QIERAALASMRQ 304 >gi|88856913|ref|ZP_01131565.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] gi|88813881|gb|EAR23751.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] Length = 454 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/252 (27%), Positives = 121/252 (48%), Gaps = 34/252 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 217 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 276 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + ++I Q+++ +L R + + ++ PE+V Sbjct: 277 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKV 336 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 V + K E IS++ L GD LI ++ V D +++ Sbjct: 337 VEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDTEA---------VVPADAVGFTMLQ 383 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEAR 275 K+ L + L+ RE + R L + P TL+ + F V+RER+RQIE++ Sbjct: 384 KQ--------LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESK 435 Query: 276 AFKKVQESIQKQ 287 K++ + Q Sbjct: 436 TMAKLRHPSRSQ 447 >gi|32474203|ref|NP_867197.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] gi|32444741|emb|CAD74742.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] Length = 567 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 124/277 (44%), Gaps = 35/277 (12%) Query: 21 HEIRKIPMLEKQEEYVLAKRY---REHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPI 75 E+R++ ++ ++ L R R H D A + L +LRLVV IA YR GL Sbjct: 294 QELRELMLVTQESPTSLHNRMAKVRRHFDQYEATKRELSAGNLRLVVSIAKKYRNRGLSF 353 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT------- 128 +++ EGN GLM+AV K++ RGF+ +TY+ WWI+ A+ I ++I Sbjct: 354 LDLIQEGNTGLMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDVLS 413 Query: 129 --TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 QKRL LRR + ++ E+V + +++ V SL Sbjct: 414 KLRQAQKRLTQTLRREPTYEDIAEATDVPIEEVRRV---MDIGRHPV-----------SL 459 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + + + +S V D + V I RN + + L RER I R Sbjct: 460 DRPVGEGEDSSF---GEFVQDSETDNPVRIAAS--GMLRNKIDELLKTLTFREREIIRLR 514 Query: 247 R--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + TLE F+V+RERVRQIEA+A K+Q Sbjct: 515 YGLVDGYSYTLEECGRIFKVTRERVRQIEAKAVAKMQ 551 >gi|555686|gb|AAA85644.1| sigma factor MysB [Mycobacterium smegmatis str. MC2 155] Length = 319 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 81/300 (27%), Positives = 141/300 (47%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L +E LAKR Y +H DL A R Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQHLLDTKKRLGEARKRDLQAVVRDGEAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAEESGIPVEKIND 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + DE L I S+ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGTDEEAPLGDFIEDSEAMSA-------------ENAVISELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 251 IRYVL----ATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306 >gi|145224529|ref|YP_001135207.1| RNA polymerase sigma factor SigB [Mycobacterium gilvum PYR-GCK] gi|145217015|gb|ABP46419.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium gilvum PYR-GCK] Length = 329 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 80/300 (26%), Positives = 142/300 (47%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L +E LAKR Y +H DL+A R Sbjct: 36 YLNGIGKTALLTAADEVELAKRIEAGLYAQHLLATRKRLGENRKRDLAAVVRDGEAARRH 95 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 96 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQA 155 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-----ITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 156 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAEESGIPVEKIND 213 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + DE L I ++ S+ E +I + + Sbjct: 214 LLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSA-------------ENAVISELLHTD 260 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 261 IRYVL----ATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 316 >gi|332298226|ref|YP_004440148.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332181329|gb|AEE17017.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 332 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 82/305 (26%), Positives = 143/305 (46%), Gaps = 55/305 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREH---------GDLSAA---------------- 50 LS Y+ +I + +L QEE A +EH G L A Sbjct: 34 LSLYLKQISRYKLLSVQEEQATAAAIQEHKSRIRQLKSGLLEPAENSPAYEEIDRLERDL 93 Query: 51 ----HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 ++++ ++LRLVV IA Y+ GL + +++ EGNIGL++AV +F+P R R +TY + Sbjct: 94 LVLKNKMIQANLRLVVSIAKRYQHRGLGLLDLIDEGNIGLIEAVDRFEPARNCRFSTYGI 153 Query: 107 WWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 WWI+ A+ + + ++++ T N + FF + L T + + Sbjct: 154 WWIRQAIIKSLADKGRVIRVPVHMLNTIN--KCFFMAKLL-------TQEYGREPTTAEL 204 Query: 163 AKKLNVSESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 A+ L V+ +V I ++ ++ E+ N D NS++ D L+ D +G+ IE+ Sbjct: 205 ARFLCVTNEKVEDYIRLSQEMSSLET-----NVDDDNSTRLGD-LLTDENGEAP--IERV 256 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + ++ L+ RE I R + P TL + ++RERVRQI+ + Sbjct: 257 FAAALTDTVNLVLNQLSEREMSIIRLRYGLDGKAPRTLTETGNVLGITRERVRQIQEKTL 316 Query: 278 KKVQE 282 KK++E Sbjct: 317 KKLRE 321 >gi|325971191|ref|YP_004247382.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta sp. Buddy] gi|324026429|gb|ADY13188.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta sp. Buddy] Length = 685 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 125/244 (51%), Gaps = 30/244 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A RL+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +GF+ +TY+ W Sbjct: 448 DAKDRLIRANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKFEYRKGFKFSTYATW 507 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ ++ + +R + +Q++ E +A+KL Sbjct: 508 WIRQAITRSISDQARTIRVPVHMIEQ-INKVVRESRMLMQSLGREPTDEE----VAEKLG 562 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--- 224 +ES+V ++ SL + + +D L+ D IE +E +N Sbjct: 563 WTESKVKAVKNVAREPISLETPVG-------EEEDSLLSD-------FIEDKEVENPATQ 608 Query: 225 ------RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 + L ++ L RE+ + + R E+ +TLE + FE++RER+RQIEA+A Sbjct: 609 TAYSLLQEQLKDVLATLPAREQEVLKMRFGLEDGYSLTLEEVGLYFELTRERIRQIEAKA 668 Query: 277 FKKV 280 +++ Sbjct: 669 LRRL 672 >gi|296127158|ref|YP_003634410.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] gi|296018974|gb|ADG72211.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] Length = 587 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 129/250 (51%), Gaps = 30/250 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL ++V EGNIGL++AV KF+ ++G++ +TY+ WW Sbjct: 349 AKDHIVKANLRLVIAIAKKYVNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFSTYATWW 408 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ + + +++ L+ + + + IAK L Sbjct: 409 IRQAITRSISDQARTIRVPV-----HMIEQINKVQRVLRQYMQQHGREPSIQEIAKALGW 463 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ES V S+ SLNA I +D ++ G+ LIE +E ++ +N+ Sbjct: 464 PESRVKSVRNVAKDPVSLNAPIGDE-------EDTIL----GE---LIEDKEFESPQNIT 509 Query: 229 TRSM------SVLN---PRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 T + S+L+ RE+++ R + TLE + F+V+RER+RQIEA+A Sbjct: 510 TFKILRKQIDSILDSLPDREQKVIRMRFGLVDGYSHTLEEVGYVFKVTRERIRQIEAKAI 569 Query: 278 KKVQESIQKQ 287 ++++ +K+ Sbjct: 570 RRLRAQSKKK 579 >gi|56708122|ref|YP_170018.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis SCHU S4] gi|110670593|ref|YP_667150.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis FSC198] gi|224457213|ref|ZP_03665686.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis MA00-2987] gi|254370608|ref|ZP_04986613.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. tularensis FSC033] gi|254874922|ref|ZP_05247632.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis MA00-2987] gi|56604614|emb|CAG45668.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis SCHU S4] gi|110320926|emb|CAL09051.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis FSC198] gi|151568851|gb|EDN34505.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. tularensis FSC033] gi|254840921|gb|EET19357.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis MA00-2987] gi|282159323|gb|ADA78714.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis NE061598] Length = 577 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 114/248 (45%), Gaps = 36/248 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV A Y GL +++ EGNIGLM+AV KFD +GF+ +TY+ WW Sbjct: 339 AKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKGFKFSTYATWW 398 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 I+ A+ I A+Q R R+ H+ + I N Q++ K Sbjct: 399 IRQAITRSI------------ADQARTI----RVPVHMIETINKVNRIKRQILQ-EKGRE 441 Query: 168 VSESEVISMNCRLAGDESLNALINSS-----------DKNSSQWQDWLVYDHDGQEQVLI 216 +E E+I + E L ++N S D S D++ D I Sbjct: 442 ATEEEIIEHTPNMTK-EKLKKILNISHTPISMESPIGDDEDSTVGDFI---EDKSNYSPI 497 Query: 217 EKEERKNRRNMLTRSMSV-LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 E +N R + + L RE ++ R TLE + +F V+RER+RQIE Sbjct: 498 EAANLENLREAIKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIE 557 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 558 AKALRKLK 565 >gi|261380693|ref|ZP_05985266.1| RNA polymerase sigma factor RpoD [Neisseria subflava NJ9703] gi|284796404|gb|EFC51751.1| RNA polymerase sigma factor RpoD [Neisseria subflava NJ9703] Length = 650 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 406 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 465 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ Q + + +P+ +A+ + Sbjct: 466 WIRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QYLQETGEEPDS-AKLAELME 520 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D E + + Sbjct: 521 MPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDANNVAPAEAAMYTSLHEV 575 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 576 TKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 630 >gi|332708973|ref|ZP_08428943.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] gi|332352162|gb|EGJ31732.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] Length = 373 Score = 87.0 bits (214), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 123/242 (50%), Gaps = 25/242 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ S+LRLVV IA Y G+P +++ EG +GL +A +KFDP++G++ +TY+ WW Sbjct: 135 AKRKMIRSNLRLVVSIAKRYINRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYWW 194 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 I+ A+ I +++ +K +L R LK LQ P + + +A+ L Sbjct: 195 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRELKQKLQR------NPNE-LELAQAL 247 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +S S + + SLN + + ++ D L+ D+D + E K + Sbjct: 248 EISLSHLRQLLELRRRSLSLNHRVGKGE--DTELMD-LLEDND------LRLPEDKMNES 298 Query: 227 MLTRSM-----SVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 M+ + + VL RE+ + R P TLE + F +SRERVRQI+++A +K Sbjct: 299 MMRQEIWEVLSDVLTEREKDVISLRYGLASSEPYTLEEVGGMFNLSRERVRQIQSKAMRK 358 Query: 280 VQ 281 ++ Sbjct: 359 LR 360 >gi|283456279|ref|YP_003360843.1| RNA polymerase principal sigma factor hrdB [Bifidobacterium dentium Bd1] gi|283102913|gb|ADB10019.1| RNA polymerase principal sigma factor hrdB [Bifidobacterium dentium Bd1] Length = 328 Score = 86.7 bits (213), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 90 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 149 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 150 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 209 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 210 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTDA---------IAPSDAVAFSLLQ 256 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 257 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 308 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 309 TMSKLRHPSRSQT 321 >gi|313812945|gb|EFS50659.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL025PA1] Length = 312 Score = 86.7 bits (213), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 82/312 (26%), Positives = 142/312 (45%), Gaps = 59/312 (18%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE-------------------------- 43 ++G+ + Y+ I + P+L EE LA+R Sbjct: 13 IDGKDAVGLYLDGIARTPLLNAAEEVALARRIEAGVFARAILEGHAETTSDATTKELHQI 72 Query: 44 --HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 GD + AH V ++LRLVV +A Y +P+ ++V EGN GL++AV+KFD +GF+ Sbjct: 73 AADGDEALAH-FVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKF 131 Query: 102 ATYSMWWIKAAMQEYILRSWSLVK----IGTTANQ-KRLFFNLRRLKGHLQAITDNNLKP 156 +TY+ WW++ A+ I + +V+ + NQ NL R G +P Sbjct: 132 STYATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGR---------EP 182 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHD-GQEQV 214 E IA +L ++E VI + R D SL+A + D + D + + G + + Sbjct: 183 E-TFEIADELEITEERVIEL-IRFGRDHVSLDAPVE--DDGDTSLGDLIARETSPGPDDI 238 Query: 215 LIEKEERKNRRNMLT----RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +++ E+R +L RS V+ R + + R+ + L ++ + ++ ERVR Sbjct: 239 VLDAEDRSRLEGLLDDLDERSADVVR-RRYGLVDGRQAK-----LADIGKVWGITAERVR 292 Query: 271 QIEARAFKKVQE 282 QIE A +++ Sbjct: 293 QIERAALASMRQ 304 >gi|168700394|ref|ZP_02732671.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gemmata obscuriglobus UQM 2246] Length = 335 Score = 86.7 bits (213), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 116/238 (48%), Gaps = 15/238 (6%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 HRL ++++RL +A +R + L S+++ E GLMQA+ +FD G RLATY+ WWI+ Sbjct: 101 HRLASANIRLAAHVAKRFRHHSLAYSDLLQEAVCGLMQAIDRFDVSHGTRLATYATWWIR 160 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +Q + R LV + Q+ L L+ +A+ +A + S Sbjct: 161 QTLQIAVARQSHLVSLSPHHLQE-----LGLLQQESEALAHGGKHLPSPQELASRTGSSL 215 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + + SLNA+++ D + + + + D V+ E ER+ + L Sbjct: 216 EHLTHLQTATRTPVSLNAVLD--DDSDFKLTEAMP---DTGTLVMQENNERQEALSFL-- 268 Query: 231 SMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 M L PRER++ + R L N +L + +S+ERVRQI+ RA +K++ + ++ Sbjct: 269 -MENLRPRERKVLDLRFGLTGNGTHSLRQIGHLLRISKERVRQIQNRALEKLKANAER 325 >gi|158522162|ref|YP_001530032.1| RpoD family RNA polymerase sigma factor [Desulfococcus oleovorans Hxd3] gi|158510988|gb|ABW67955.1| RNA polymerase, sigma 70 subunit, RpoD family [Desulfococcus oleovorans Hxd3] Length = 738 Score = 86.7 bits (213), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 117/232 (50%), Gaps = 14/232 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV IA Y GL +++ EGN+GLM+AV KF+ RG++ +TY+ WWI+ A Sbjct: 504 LIRANLRLVVSIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWWIRQA 563 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I ++I + L R +L PE+ IA+K+ + E Sbjct: 564 ITRAIADQARTIRI--PVHMIETINKLIRTSRYLVQERGYEPSPEE---IAEKMEIP-LE 617 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + ++A + SL I ++ S D++ D + + E N + Sbjct: 618 KVRRVLKIAREPISLETPIG--EEEDSHLGDFI---EDKKFMIPSEAAVSMNLSEQTRKV 672 Query: 232 MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L PRE ++ R ++ TLE + +F V+RER+RQIEA+A +K++ Sbjct: 673 LATLTPREEKVLRMRFGIGEKADHTLEEVGRDFAVTRERIRQIEAKALRKLR 724 >gi|15807631|ref|NP_294640.1| RNA polymerase sigma-A factor [Deinococcus radiodurans R1] Length = 360 Score = 86.7 bits (213), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 77/298 (25%), Positives = 139/298 (46%), Gaps = 48/298 (16%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKR-------------------------YREHGDLSAAHR 52 +Y+HEI ++ +L +EE LA+R R+ D +AA + Sbjct: 63 QYLHEIGRVSLLTLEEEIALARRIEEGEEARKQLEEDESLDDRSRRRLMRQMEDGAAARQ 122 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ R ++ +TY+ WWI+ Sbjct: 123 GLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYATWWIRQ 182 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSE 170 A+ I ++I + L R LQ E++ A+ + ++ Sbjct: 183 AINRAIADQARTIRI--PVHMVETINKLTRTARQLQQELSREATHEEIAEAMGPGWDAAK 240 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEERKNRR 225 E + + E ++ D+ S + D++ ++ D + L+ +E Sbjct: 241 VEEVQKVSQ----EPVSLETPIGDEKDSFYGDFIPDENLDSPVDNAAKTLLSEE------ 290 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +++ L RE + + R+ + TLE + F V+RER+RQIE +A +K++ Sbjct: 291 --LEKALGKLTEREAMVLKFRKGLVDGREHTLEEVGQRFSVTRERIRQIENKALRKLK 346 >gi|21449377|gb|AAM54109.1|AF453501_35 RNA polymerase sigma factor [Actinosynnema pretiosum subsp. auranticum] Length = 348 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 80/294 (27%), Positives = 133/294 (45%), Gaps = 43/294 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREHG-DLSAAHR-------------------- 52 Y+ I ++ +L +E LA+R Y EH DL A R Sbjct: 54 YLKAIGRVRLLTADQEVELARRVEAGLYAEHLLDLPPAARGSRRPVELRRVVRDGQRAKD 113 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y G G+ + +V+ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 114 HLLEANLRLVVSIAKRYTGKGMALLDVIQEGNLGLVRAVEKFDYAKGFKFSTYATWWIRQ 173 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + +++ + + L R++ L E+V A +L+V+ Sbjct: 174 AITRALADQSRTIRL--PVHMVEVVTKLARIERDLLHRNGREATAEEV---AVELDVTPE 228 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--RNMLT 229 +V+ + SL+ I + S + D E + E + L Sbjct: 229 KVVELRQHARTPVSLDQTIGAEADTS-------IGDLIADENAVAPLEAVSSALLSADLR 281 Query: 230 RSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE + R + V TL+ + + V+RER+RQIE+R K+Q Sbjct: 282 AVLETLTPREAGVVRMRYGFPDGVLHTLDEVGRVYGVTRERIRQIESRTMAKLQ 335 >gi|313680173|ref|YP_004057912.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Oceanithermus profundus DSM 14977] gi|313152888|gb|ADR36739.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oceanithermus profundus DSM 14977] Length = 484 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 71/246 (28%), Positives = 126/246 (51%), Gaps = 25/246 (10%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+++ H L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R ++ +TY Sbjct: 241 GEIARQH-LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRYKFSTY 299 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IA 163 + WWI+ A+ I ++I + L R LQ L E A IA Sbjct: 300 ATWWIRQAINRAIADQARTIRI--PVHMVETINKLTRTARQLQ----QELGREATYAEIA 353 Query: 164 KKLNVS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIE 217 + +++ + ++A E ++ D+ S + D++ +H D Q L+ Sbjct: 354 DAMGPGWDAKKVEETFKIA-QEPVSLETPIGDEKDSFYGDFIPDEHLASPVDSAAQSLLS 412 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +E L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE + Sbjct: 413 EE--------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENK 464 Query: 276 AFKKVQ 281 A +K++ Sbjct: 465 ALRKLK 470 >gi|168704760|ref|ZP_02737037.1| transcription initiation factor sigma 70 [Gemmata obscuriglobus UQM 2246] Length = 556 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 125/253 (49%), Gaps = 16/253 (6%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 ++ +R+ E+ A L +LRLVV IA YR GL +++ EGN GLM+AV K++ Sbjct: 301 IMKQRFAEYE--QAKRDLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEH 358 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 RGF+ +TY+ WWI+ A+ I ++I + LR + L + + + Sbjct: 359 RRGFKFSTYATWWIRQAITRAIADQARTIRI--PVHMIETMSKLRNVSKQL--LQELGRE 414 Query: 156 PE-QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 P Q A A K++ E + + R SL+ + S+ S + D++ D + Sbjct: 415 PTVQETADAAKISYEECKRVLKISRQPI--SLDRPVGESE--DSYFGDFI---EDNSVES 467 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQI 272 + + ++ + + L RER I + R + TLE + F+V+RERVRQI Sbjct: 468 PVNAATNEMLKDKIEGVLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQI 527 Query: 273 EARAFKKVQESIQ 285 EA+A +K+Q ++ Sbjct: 528 EAKAVRKLQHPVR 540 >gi|225076460|ref|ZP_03719659.1| hypothetical protein NEIFLAOT_01506 [Neisseria flavescens NRL30031/H210] gi|224952139|gb|EEG33348.1| hypothetical protein NEIFLAOT_01506 [Neisseria flavescens NRL30031/H210] Length = 650 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 118/235 (50%), Gaps = 12/235 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 406 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 465 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + R+ Q + + +P+ +A+ + Sbjct: 466 WIRQAITRSIADQARTIRI--PVHMIETINKMNRISR--QYLQETGEEPDS-AKLAELME 520 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E ++ + ++A E ++ D + S D++ D E + + Sbjct: 521 MPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI---EDANNVAPAEAAMYTSLHEV 575 Query: 228 LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 576 TKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 630 >gi|118472772|ref|YP_887083.1| RNA polymerase sigma factor SigB [Mycobacterium smegmatis str. MC2 155] gi|118174059|gb|ABK74955.1| sigma factor SigB [Mycobacterium smegmatis str. MC2 155] Length = 319 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 81/300 (27%), Positives = 142/300 (47%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L +E LAKR Y +H DL A R Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQHLLDTKKRLGEARKRDLQAVVRDGEAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + + TD L E + + K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAEESGIPVEKIND 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + DE L I S+ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGTDEEAPLGDFIEDSEAMSA-------------ENAVISELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L + L+ RE+++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 251 IRYVL----ATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306 >gi|262202171|ref|YP_003273379.1| sigma-70 family RNA polymerase sigma factor [Gordonia bronchialis DSM 43247] gi|262085518|gb|ACY21486.1| RNA polymerase sigma factor, sigma-70 family [Gordonia bronchialis DSM 43247] Length = 337 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 126/251 (50%), Gaps = 33/251 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ + AH L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY Sbjct: 97 GEAARAH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 155 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQV 159 + WWI+ A+ + +++ ++ L R+K L + TD L E Sbjct: 156 ATWWIRQAITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQQLGREATDEELANESG 213 Query: 160 VA---IAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + IA L+ S V S++ + DE L I ++ S+ E Sbjct: 214 IPAEKIADLLDHSRDPV-SLDMPVGSDEEAPLGDFIEDAEATSA-------------ESA 259 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQI 272 +I + R +L + L+ RE+++ R ++ P TL+ + F +SRERVRQI Sbjct: 260 VIAGLMHTDVRAVL----ATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQI 315 Query: 273 EARAFKKVQES 283 E K+++ Sbjct: 316 EREVMGKLRQG 326 >gi|320096194|ref|ZP_08027783.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 178 str. F0338] gi|319976875|gb|EFW08629.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 178 str. F0338] Length = 543 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 68/253 (26%), Positives = 123/253 (48%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 306 AKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 365 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + ++I Q+++ +L R + + ++ PE+V Sbjct: 366 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 425 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 V + K E IS++ L GD LI S+ + D L++ Sbjct: 426 VEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSEA---------IVPADAVSFTLLQ 472 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEAR 275 ++ L + L+ RE + R L + P TL+ + + V+RER+RQIE++ Sbjct: 473 EQ--------LHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESK 524 Query: 276 AFKKVQESIQKQV 288 K++ + QV Sbjct: 525 TMSKLRHPSRSQV 537 >gi|302525710|ref|ZP_07278052.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] gi|302434605|gb|EFL06421.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] Length = 317 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 78/302 (25%), Positives = 137/302 (45%), Gaps = 56/302 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDLS----------------AAHR 52 Y++ I K +L +E LAKR + +H DL+ A + Sbjct: 24 YLNGIGKTALLTAADEVELAKRIEAGVFAQHMLDTAEDLTPQRRKELRALVRDGHVAKNH 83 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 84 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWWIRQA 143 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA--------IAK 164 + + +++ ++ L R++ L + E++ A I+ Sbjct: 144 ITRGMADQGRTIRLPVHLVEQ--VNKLARIRRDLHQQLGRDATHEELSAESGIPVHKISD 201 Query: 165 KLNVSESEV-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L+ S V + M D L I S+ + E +I + + Sbjct: 202 LLDQSRDPVSLDMPVGTEEDAPLGDFIEDSEATDA-------------ESAVISGLLQDD 248 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R ++ L+ RE+ + R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 249 ----LRRVLATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMAKLR 304 Query: 282 ES 283 + Sbjct: 305 QG 306 >gi|238926534|ref|ZP_04658294.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas flueggei ATCC 43531] gi|238885480|gb|EEQ49118.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas flueggei ATCC 43531] Length = 352 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 69/254 (27%), Positives = 124/254 (48%), Gaps = 33/254 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPERGF 99 + G+L A L + +LV K A+GY + L ++ G IGL+ A KKFD G+ Sbjct: 104 QQGNLQAEQDLCVKNKKLVDKYALGYEKRYRHRLDFDDIEQAGFIGLITAAKKFDISMGY 163 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGT--------TANQKRLFFNLRRLKGHLQAITD 151 +TY++WWIK A+ I+ +++I A + +F L R + ++ + + Sbjct: 164 SFSTYAVWWIKQAITREIMDHGFVIRIPVHMMEQIIKVAGVENMFSELNREERIVKVMDE 223 Query: 152 NNLKPEQV--VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 K E+V + K+ ++ S S+N + DE++ SD + ++ + Sbjct: 224 TGYKEERVRECMMLKEYVLTYS---SLNVTVGEDETVELGEFLSDDGAISIEEMI----- 275 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRE 267 E K R ML ++ L +E+++ + R L++N TLE + F V+RE Sbjct: 276 ----------ENKELRRMLDDVLNTLTEKEKKVIKLRFGLEDNRQWTLEEVGKLFNVTRE 325 Query: 268 RVRQIEARAFKKVQ 281 R+RQIE++A +K++ Sbjct: 326 RIRQIESKALRKLR 339 >gi|328950970|ref|YP_004368305.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinithermus hydrothermalis DSM 14884] gi|328451294|gb|AEB12195.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinithermus hydrothermalis DSM 14884] Length = 477 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 126/245 (51%), Gaps = 23/245 (9%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+L+ H L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R ++ +TY Sbjct: 234 GELARQH-LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRYKFSTY 292 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I ++I + L R LQ E+ IA+ Sbjct: 293 ATWWIRQAINRAIADQARTIRI--PVHMVETINKLTRTARQLQQEKGREPSYEE---IAE 347 Query: 165 KLNVS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEK 218 + +++ + ++A E ++ D+ S + D++ +H D Q L+ + Sbjct: 348 AMGPGWDAKRVEETFKIA-QEPVSLETPIGDEKDSFYGDFIPDEHMASPVDAAAQSLLSE 406 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARA 276 E L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A Sbjct: 407 E--------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKA 458 Query: 277 FKKVQ 281 +K++ Sbjct: 459 LRKLK 463 >gi|327330254|gb|EGE72003.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL097PA1] Length = 312 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 82/309 (26%), Positives = 143/309 (46%), Gaps = 53/309 (17%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE-------------------------- 43 ++G+ + Y+ I + P+L EE LA+R Sbjct: 13 IDGKDAVGLYLDGIARTPLLNAAEEVALARRIEAGVFARAILEGHAETTSDATTKELHQI 72 Query: 44 --HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 GD + AH V ++LRLVV +A Y +P+ ++V EGN GL++AV+KFD +GF+ Sbjct: 73 AADGDEALAH-FVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKF 131 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFFNLRR-LKGHLQAITDNNLKPEQV 159 +TY+ WW++ A+ I + +V++ A Q RR L+ L +PE Sbjct: 132 STYATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRSLERQL------GREPE-T 184 Query: 160 VAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIE 217 IA +L ++E VI + R D SL+A + D + D + + G + ++++ Sbjct: 185 FEIADELEITEERVIEL-IRFGRDHVSLDAPVE--DDGDTSLGDLIARETSPGPDDIVLD 241 Query: 218 KEERKNRRNMLT----RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 E+R +L RS V+ R + + R+ + L ++ + ++ ERVRQIE Sbjct: 242 AEDRSRLEGLLDDLDERSADVVR-RRYGLVDGRQAK-----LADIGKVWGITAERVRQIE 295 Query: 274 ARAFKKVQE 282 A +++ Sbjct: 296 RAALASMRQ 304 >gi|229817449|ref|ZP_04447731.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM 20098] gi|229785238|gb|EEP21352.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM 20098] Length = 482 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 75/310 (24%), Positives = 143/310 (46%), Gaps = 61/310 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDL-----------------SAAH 51 Y+ +I ++ +L ++E L++R Y +H GD A Sbjct: 187 YLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMDFKRKRELKWAANDGKKAKD 246 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ Sbjct: 247 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWWIRQ 306 Query: 112 AMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + +++ + Q+++ +L R + + ++ E+V + Sbjct: 307 AITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKVQEV 366 Query: 163 AKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K E IS++ L GD LI +D + D L++ Sbjct: 367 QK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ--- 410 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 + + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 411 -----DQFKQVLETLSPRESGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 465 Query: 279 KVQESIQKQV 288 K++ + Q Sbjct: 466 KLRHPSRSQT 475 >gi|148242708|ref|YP_001227865.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851018|emb|CAK28512.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 301 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 79/279 (28%), Positives = 137/279 (49%), Gaps = 20/279 (7%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLA--KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E+ L R + + +P+ +K E + KR G+ A ++++T++LRLVV +A Y+G Sbjct: 24 ELTLGRKVQAM--VPLQDKPVESLSEDEKRALRLGE-RAKNQMITANLRLVVNLAKRYQG 80 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 GL + +++ EG +GL +AV+KFDP RG R +TY+ WWI+ + + ++I Sbjct: 81 KGLELLDLIQEGTLGLTRAVEKFDPTRGHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNI 140 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNAL 189 N+K LR K L T E+ +A KL + E E + + C L + SL + Sbjct: 141 NEK--LTKLRAAKARLFQSTGRQPIAEE-LADYLKLPLDEVEDL-LGCELRSVTVSLQGV 196 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM--SVLNPRERRIFEARR 247 + S S LV +E +E+ E R + + + + L P+ER + R Sbjct: 197 VKSKSDPSE-----LVDVLPSEEMPPMERAELDERTQTVWKLLDQANLTPKERTVVMLRF 251 Query: 248 LQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + TL ++ + SRE RQ+ R+ +K++ + Sbjct: 252 GLDGTNEWRTLAEVARQMSCSREYCRQVVQRSLRKLRRA 290 >gi|17233195|ref|NP_490285.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] gi|17135717|dbj|BAB78263.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] Length = 316 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 64/231 (27%), Positives = 115/231 (49%), Gaps = 13/231 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++T++LRLVV IA Y+ L ++V EG IGL + ++KFDP RG++L+TY+ WW Sbjct: 81 AKQKMITANLRLVVSIAKKYQRRNLEFLDLVQEGAIGLQRGIEKFDPNRGYKLSTYAYWW 140 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + A+ I V++ N+K L ++K + + V IA+KL + Sbjct: 141 VTQAITRAIAEKSRTVRLPIHVNEK-----LNQIKKVQREFFQTLGRRATVAEIAQKLEL 195 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S++ +G SL+ I D ++ + L + ++ + + R++ ++L Sbjct: 196 EPSQIREYLKVASGTISLDLKIG--DNKETELSELLASEGVSPDENITHEMLRQDLSDLL 253 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + L P +R + R L +L + + +SRERVRQI+ +A Sbjct: 254 ----ASLKPMQREVLILRFGLLDNQEQSLAQIGEKLNLSRERVRQIQQKAM 300 >gi|291302005|ref|YP_003513283.1| RpoD subfamily RNA polymerase sigma-70 subunit [Stackebrandtia nassauensis DSM 44728] gi|290571225|gb|ADD44190.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stackebrandtia nassauensis DSM 44728] Length = 323 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 69/233 (29%), Positives = 117/233 (50%), Gaps = 14/233 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV IA Y G G+ + +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 90 LLKANLRLVVSIAKRYVGRGVALLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQA 149 Query: 113 MQEYILRSWSLVKIGT-TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 + + +++ TA Q +RR L A + E+ IA+++ + Sbjct: 150 ITRAMADQARTIRVPAHTAEQINRIAKIRR---ELTAEQGREPRHEE---IAERMGLEPY 203 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V+ + SL+ + SD + D + D + R L R+ Sbjct: 204 RVLELLSYDRDPISLDQPV--SDDRQTPLSDLVARPVDPAAE---PNPANAQLRQELERA 258 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ L RER + AR ++ TLE + E +SRERVRQ+E + K++E Sbjct: 259 LTDLPARERAVLRARFGIDDGRQRTLEEVGEELGLSRERVRQLEKLSLNKLRE 311 >gi|148272828|ref|YP_001222389.1| RNA polymerase sigma factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147830758|emb|CAN01698.1| RNA polymerase principal sigma factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 492 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 68/252 (26%), Positives = 121/252 (48%), Gaps = 34/252 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 255 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 314 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + ++I Q+++ +L R + + ++ PE+V Sbjct: 315 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKV 374 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + + K E IS++ L GD LI ++ V D +++ Sbjct: 375 IEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDTEA---------VVPADAVGFTMLQ 421 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEAR 275 K+ L + L+ RE + R L + P TL+ + F V+RER+RQIE++ Sbjct: 422 KQ--------LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESK 473 Query: 276 AFKKVQESIQKQ 287 K++ + Q Sbjct: 474 TMAKLRHPSRSQ 485 >gi|284991968|ref|YP_003410522.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] gi|284065213|gb|ADB76151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] Length = 327 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 74/269 (27%), Positives = 133/269 (49%), Gaps = 34/269 (12%) Query: 28 MLEKQEEYVLAKRYRE-HGDLSAAHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 + E+Q L + Y+ D AA R L+ ++LRLVV +A Y G+G+ +++ EGN+G Sbjct: 67 LTERQLTPALQRDYKALAADGKAAKRHLLEANLRLVVSVAKRYTGHGMTFLDLIQEGNVG 126 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI---------GTTANQKRLF 136 L++AV+KFD +GF+ +TY+ WWI+ A+ + S +++ ++R+ Sbjct: 127 LIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADSGRTIRLPVHLAEQVNKVVRTRRRIH 186 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 L R + + ++ PE++ + L S +++S++ + DE Sbjct: 187 QELEREPTAEELGLELDMTPERITEL---LEYSR-DLVSLDQTVGADE------------ 230 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERK-NRRNMLTRSMSVLNPRERRIFEARRLQEN--PV 253 S+ D++ + + + K + RN+L S L RER + R + P Sbjct: 231 ESRLGDFIEDADAAVAEDAVAFQMMKGDVRNVL----STLEERERDVVVLRFGLDGGQPR 286 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQE 282 TLE + +F +SRERVRQIE K+++ Sbjct: 287 TLEQIGKQFGLSRERVRQIERETMAKLRD 315 >gi|159026170|emb|CAO88820.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 318 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 64/252 (25%), Positives = 121/252 (48%), Gaps = 38/252 (15%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G+R +TY Sbjct: 80 GDF-AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I +++ +K L ++K + + + + + +A+ Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQLAQDKGRAATIAELAE 193 Query: 165 KLNVSESEV----------ISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQE 212 +L+++ +V +S++ ++ D L L+ + + Y Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPED------YTAHSSL 247 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVR 270 QV +EK M+ L P+++ + R +N P+TL + +SRERVR Sbjct: 248 QVDLEK------------LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVR 295 Query: 271 QIEARAFKKVQE 282 QIE A K+++ Sbjct: 296 QIEREAIAKLRK 307 >gi|284122199|ref|ZP_06386842.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] gi|283829365|gb|EFC33758.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] Length = 414 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 77/249 (30%), Positives = 115/249 (46%), Gaps = 39/249 (15%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +LRLVV IA + G G+ +++ EGNIGLM+A ++F +GF+ +TY+ WW++ Sbjct: 183 LVQHNLRLVVDIAKRFTGRGMGFLDLIQEGNIGLMRAAERFQYRKGFKFSTYATWWVRQG 242 Query: 113 MQEYILRSWS------LVKIGTTANQKRLFFNLRRLKGHLQAITDNN-------LKPEQV 159 ILR+ + V + TT +R+ RL L N +KPE+V Sbjct: 243 ----ILRAVADQSRTIRVPVHTTEAWQRMIKISHRLAQKLGREPSNEEIALALAVKPERV 298 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + E IS + A E+ D L DH +++E Sbjct: 299 QHTTQAF----LEPISFDQPNADGETF-------------LGDCLPDDHASPPDEHLQEE 341 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + R+ L R + VL PRE ++ R N TLE + V+RER+RQIE A Sbjct: 342 Q---MRSQLHRLLRVLTPREEQVIRLRFGIGNGQSRTLEEVGKLLNVTRERIRQIEVLAM 398 Query: 278 KKVQESIQK 286 KK++E K Sbjct: 399 KKLREPTVK 407 >gi|271963319|ref|YP_003337515.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270506494|gb|ACZ84772.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 312 Score = 86.7 bits (213), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 81/303 (26%), Positives = 135/303 (44%), Gaps = 53/303 (17%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYRE--------HGDLS------------------- 48 L Y+ EI ++P+L +EE LAKR G L+ Sbjct: 20 LGTYLAEIGRVPLLTAEEEVELAKRIEAGLFAEQLLDGGLAEPRIADAADEELERLAVSG 79 Query: 49 --AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A + ++LRLVV +A Y G G+P+ ++V EGN+GL++AV+KFD RG++ +TY+ Sbjct: 80 QRAKDEFIQANLRLVVAVARKYSGRGMPLIDLVQEGNLGLVRAVEKFDYRRGYKFSTYAT 139 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRL-FFNLRR--LKGHLQAITDNNLKP--EQVVA 161 WWI+ ++ I V++ T A ++ +RR L Q TD +L E + Sbjct: 140 WWIRQSVGRAIHEQARPVRLPTHAGEQMTRLMRVRRDMLAEFDQEPTDADLAAVLELPIE 199 Query: 162 IAKKLNVSESEVISMNCRLAGDES---LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 ++L S+ +S+ + GDE L +I + Q + + + EQ L Sbjct: 200 RVRELRRWASDPVSLQLGV-GDEDETELGDMIADETWADPEQQAMDILERERLEQWLTGL 258 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E R ML +++ RE TL + + + R+R R+IE A Sbjct: 259 E--GQTREMLRWRYGLMDGREH-------------TLTEVGERYGIGRDRARRIERDALA 303 Query: 279 KVQ 281 +++ Sbjct: 304 RLR 306 >gi|297625160|ref|YP_003706594.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Truepera radiovictrix DSM 17093] gi|297166340|gb|ADI16051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Truepera radiovictrix DSM 17093] Length = 446 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 79/300 (26%), Positives = 138/300 (46%), Gaps = 51/300 (17%) Query: 18 RYIHEIRKIPMLEKQEEYVLA----------------------------KRYREHGDLSA 49 +Y+HEI ++ +L +EE LA KR E G+++ Sbjct: 148 QYLHEIGRVSLLTLEEEISLARRIEEGEAAQKRLDEEGDSLPEREQRALKRIVEDGEMAR 207 Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 H L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ R ++ +TY+ WWI Sbjct: 208 QH-LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYATWWI 266 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNV 168 + A+ I ++I + L R LQ E+V A+ + Sbjct: 267 RQAINRAIADQARTIRI--PVHMVETINKLTRTARQLQQELSREPSYEEVAEAMGPGWSA 324 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEERKN 223 + E + + E ++ D+ S + D++ D+ D + L+ +E Sbjct: 325 EKVEEVFKVSQ----EPVSLETPIGDEKDSFYGDFIPDDNVESPVDQASKTLLSEE---- 376 Query: 224 RRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +++ L RE + + R+ + TLE + + F V+RER+RQIE +A +K++ Sbjct: 377 ----LEKALDKLTERESMVLKFRKGLVDGREHTLEEVGAHFGVTRERIRQIENKALRKLK 432 >gi|300871651|ref|YP_003786524.1| RNA polymerase sigma-70 factor RpoD [Brachyspira pilosicoli 95/1000] gi|300689352|gb|ADK32023.1| RNA polymerase sigma factor rpoD (Sigma-70) [Brachyspira pilosicoli 95/1000] Length = 568 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 130/250 (52%), Gaps = 30/250 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL ++V EGNIGL++AV KF+ ++G++ +TY+ WW Sbjct: 330 AKDHIVKANLRLVISIAKKYTNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFSTYATWW 389 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ + + ++ L+ + + IA+ L+ Sbjct: 390 IRQAITRSISDQARTIRVPV-----HMIEQINKVTRVLRQYMQQYGREPSIQEIARALSW 444 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ES V S+ SLNA I +D ++ G+ LIE +E ++ +N+ Sbjct: 445 PESRVKSVRNVAKDPVSLNAPIGDE-------EDTIL----GE---LIEDKEFESPQNIT 490 Query: 229 TRSM------SVLN---PRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAF 277 T + S+L+ RE+++ R ++ TLE + F+V+RER+RQIEA+A Sbjct: 491 TFKILRKHIDSLLDNLPEREQKVIRMRYGLDDGYNHTLEEVGYVFKVTRERIRQIEAKAI 550 Query: 278 KKVQESIQKQ 287 ++++ + +K+ Sbjct: 551 RRLRATSKKK 560 >gi|270283843|ref|ZP_05965086.2| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium gallicum DSM 20093] gi|270277549|gb|EFA23403.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium gallicum DSM 20093] Length = 485 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 247 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 306 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 307 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 366 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 367 QEVQK----YGREPISLHTPLGEDGDPEFGDLIEDTDA---------IAPSDAVAFSLLQ 413 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 414 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 465 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 466 TMSKLRHPSRSQT 478 >gi|119026029|ref|YP_909874.1| RNA polymerase sigma factor [Bifidobacterium adolescentis ATCC 15703] gi|118765613|dbj|BAF39792.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium adolescentis ATCC 15703] Length = 479 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 241 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 300 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 301 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 360 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 361 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 407 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 408 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 459 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 460 TMSKLRHPSRSQT 472 >gi|313837136|gb|EFS74850.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL037PA2] gi|314927842|gb|EFS91673.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL044PA1] gi|314971907|gb|EFT16005.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL037PA3] Length = 370 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 77/314 (24%), Positives = 143/314 (45%), Gaps = 43/314 (13%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 62 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIPEKDRE 121 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 122 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 180 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G++ +TY+ WWIK A+ + ++I + + L R++ + P Sbjct: 181 KGYKFSTYATWWIKQAITRAMADQARTIRI--PVHMVEVINKLARVQRQMLQDLGREPTP 238 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E+ +A +L+++ +VI + G E ++ + S++ D + D + V Sbjct: 239 EE---LANELDMTAEKVIEVQKY--GREPISLHTPLGEDGDSEFGDLI---EDSEAIVPA 290 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 + + L + L+ RE + R P TL+ + + V+RER+RQIE+ Sbjct: 291 DAVNFTLLQEQLHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIES 350 Query: 275 RAFKKVQESIQKQV 288 + K++ + QV Sbjct: 351 KTMSKLRHPSRSQV 364 >gi|300112780|ref|YP_003759355.1| RNA polymerase sigma 70 subunit RpoD [Nitrosococcus watsonii C-113] gi|299538717|gb|ADJ27034.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus watsonii C-113] Length = 602 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 113/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 360 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 419 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + P+++ Sbjct: 420 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPDELAERVEMPKD 477 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L ++ E ISM + DE + D D ++ + LI Sbjct: 478 KVRKVLKIA-REPISMETPIGDDEDSHLGDFVEDAAVISPPDSAIFSGLRETTQLI---- 532 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 533 -----------LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 581 Query: 279 KVQ 281 K++ Sbjct: 582 KLR 584 >gi|254480921|ref|ZP_05094167.1| Sigma-70, non-essential region family [marine gamma proteobacterium HTCC2148] gi|214038716|gb|EEB79377.1| Sigma-70, non-essential region family [marine gamma proteobacterium HTCC2148] Length = 605 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 367 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 426 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 427 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 481 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D ++ + + Sbjct: 482 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDSTISSPVDSATGQGLQEAT 536 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 537 KDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 591 >gi|212715646|ref|ZP_03323774.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM 16992] gi|212661013|gb|EEB21588.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM 16992] Length = 448 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 66/253 (26%), Positives = 125/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 210 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 269 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 270 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 329 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 330 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 376 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ R+ + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 377 EQFRQ--------VLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 428 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 429 TMSKLRHPSRSQT 441 >gi|307150096|ref|YP_003885480.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306980324|gb|ADN12205.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 298 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 77/289 (26%), Positives = 141/289 (48%), Gaps = 38/289 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYRE--------HGDLSAA------------HRLVTSHL 58 Y+ EI +IP+L +EE LA + ++ +L+AA +++ ++L Sbjct: 12 YLQEIGRIPLLNSEEEIQLATKVQKMLSLLELKKDNLAAAEQKIIEQGQRAKQQMIQANL 71 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV IA Y+ GL + +++ EG++GL++AV+KFDP +G++ +TY+ WW++ A+ + Sbjct: 72 RLVVSIAKRYQRRGLSLLDLIQEGSLGLIRAVEKFDPSKGYKFSTYAYWWVRQAITRALA 131 Query: 119 RSWSLVK--IGTTANQKRLFFNLRRLKGHLQAITDNNLKP-EQVVAIAKKLNVSESEVIS 175 ++ I T N L ++R L G L KP EQ VA ++ + + + I Sbjct: 132 EKSRTIRLPIHMTENLNHLKKSVRELTGEL------GRKPTEQEVAQRMEIPLEKLQEIR 185 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 +SLN + D N ++ + L + + E+E ++L L Sbjct: 186 HAVYRTDAKSLNITL---DDNQTELGEVLPDETSLPIDFVSERELMTKVDDLLED----L 238 Query: 236 NPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 PR+R I R L ++ + + + +S ER RQ+ RA + +++ Sbjct: 239 PPRQREIITLRFGLLTGKRMSYKEIGRQCGISHERARQLLNRAMRTLKQ 287 >gi|119489578|ref|ZP_01622338.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] gi|119454490|gb|EAW35638.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] Length = 319 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 62/240 (25%), Positives = 119/240 (49%), Gaps = 13/240 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ W Sbjct: 83 TAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYW 142 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L ++K +++ + + + +A +L+ Sbjct: 143 WIRQAITRAIAEKGRTIRLPIHITEK-----LNKIKKAQRSLAQDLGRAATIAELADELD 197 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 ++ ++ R SL+ + D ++ D L D E ++ R + Sbjct: 198 LNPKQIREYLERARLPLSLD--LRVGDNQDTELGDLLEDDGASPEDYALQSSMRSD---- 251 Query: 228 LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L M+ L ++R++ R EN +TL + +SRERVRQIE A K+++ Q Sbjct: 252 LEVLMADLTDQQRQVLALRFGLENGQTMTLAKIGDRLNISRERVRQIEREALTKLRKRKQ 311 >gi|77163592|ref|YP_342117.1| hypothetical protein Noc_0045 [Nitrosococcus oceani ATCC 19707] gi|254436143|ref|ZP_05049650.1| Sigma-70, non-essential region family [Nitrosococcus oceani AFC27] gi|76881906|gb|ABA56587.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus oceani ATCC 19707] gi|207089254|gb|EDZ66526.1| Sigma-70, non-essential region family [Nitrosococcus oceani AFC27] Length = 602 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 113/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 360 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 419 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + P+++ Sbjct: 420 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPDELAERVEMPKD 477 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L ++ E ISM + DE + D D ++ + LI Sbjct: 478 KVRKVLKIAR-EPISMETPIGDDEDSHLGDFVEDAAVISPPDSAIFSGLRETTQLI---- 532 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 533 -----------LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 581 Query: 279 KVQ 281 K++ Sbjct: 582 KLR 584 >gi|154488794|ref|ZP_02029643.1| hypothetical protein BIFADO_02101 [Bifidobacterium adolescentis L2-32] gi|154082931|gb|EDN81976.1| hypothetical protein BIFADO_02101 [Bifidobacterium adolescentis L2-32] Length = 478 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 240 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 299 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 300 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 359 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 360 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 406 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 407 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 458 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 459 TMSKLRHPSRSQT 471 >gi|257055481|ref|YP_003133313.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] gi|256585353|gb|ACU96486.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 315 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 79/295 (26%), Positives = 143/295 (48%), Gaps = 41/295 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------EHGDLS-----------------A 49 Y+ E+ + P+L +E LAKR + G+++ A Sbjct: 19 YLDEVGETPLLTANQEVELAKRIEAGVYAAELLRRADEGEITLDYDRRDLEIVARDGQRA 78 Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 ++ ++LRLVV A R LP+ + + EGN+GL++AV+KFD +GF+ +TY+MWWI Sbjct: 79 KDHMIRANLRLVVTAARKNRHTNLPLLDAIQEGNLGLIRAVEKFDYAKGFKFSTYAMWWI 138 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + A+Q + +++ +++ L RL+ LQ+ +++ L E++ A A ++ V Sbjct: 139 RQAIQRGNAFQSNAIRLPMHVSEQ--VAKLDRLERTLQSRSNHELTVEELAA-AAEMPVE 195 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E + R S +L S D++ + LV DG + E ER+ + + Sbjct: 196 RVEALRQAGR-----STVSLDMSLDEDGELYLRDLVA--DGTVPAVGEGIERQAMVDQVR 248 Query: 230 RSMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ L P E + R L++ + T+ +S +SR+RVR +E RA ++E Sbjct: 249 ATIDSLPPMEAAVVSLRYGLRDGHQHTIPEISQRLGLSRKRVRTLEQRAMAMLRE 303 >gi|284929771|ref|YP_003422293.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma factor, cyanobacterial RpoD-like family [cyanobacterium UCYN-A] gi|284810215|gb|ADB95912.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma factor, cyanobacterial RpoD-like family [cyanobacterium UCYN-A] Length = 318 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 72/304 (23%), Positives = 131/304 (43%), Gaps = 52/304 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL------------------------------- 47 Y+ EI ++P+L +EE + AKR + DL Sbjct: 14 YLREIGRVPLLTHEEEILYAKRVQRFVDLEKYRELFTKETGKEPTETQWAQAARISRREL 73 Query: 48 --------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G+ Sbjct: 74 HSAIASGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGY 133 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R +TY+ WWI+ A+ I +++ +K L ++K + ++ + + Sbjct: 134 RFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRELSQARGRDATI 188 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +A++L+++ +V R SL+ + D ++ D L D E Sbjct: 189 AELAEELDLTPKQVREYLERARQPLSLD--LRVGDNQDTELGDLLEDDGPSPEDFATHSS 246 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + L M L +++ + R P+TL + +SRERVRQIE A Sbjct: 247 LQFD----LEILMEDLTTQQKEVIALRFGLTDGQPLTLAKIGCRLNISRERVRQIEREAL 302 Query: 278 KKVQ 281 K++ Sbjct: 303 SKLR 306 >gi|306822519|ref|ZP_07455897.1| DNA-directed RNA polymerase sigma subunit RpoD [Bifidobacterium dentium ATCC 27679] gi|304554064|gb|EFM41973.1| DNA-directed RNA polymerase sigma subunit RpoD [Bifidobacterium dentium ATCC 27679] Length = 472 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 234 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 293 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 294 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 353 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 354 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 400 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 401 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 452 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 453 TMSKLRHPSRSQT 465 >gi|119944095|ref|YP_941775.1| RNA polymerase sigma-70 factor RpoD [Psychromonas ingrahamii 37] gi|119862699|gb|ABM02176.1| RNA polymerase sigma-70 factor RpoD [Psychromonas ingrahamii 37] Length = 617 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 114/244 (46%), Gaps = 32/244 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + +PE+ +A+++ + Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPQPEE---LAERMMM 493 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 E +V ISM + DE S D++ Sbjct: 494 PEDKVRKVLKIAKEPISMETPIGDDE------------DSHLGDFIEDTTIALPANCATS 541 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 E KN N + + L RE ++ R + N TLE + +F+V+RER+RQIEA+A Sbjct: 542 ESLKNATNDV---LEGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 598 Query: 277 FKKV 280 +K+ Sbjct: 599 LRKL 602 >gi|309801431|ref|ZP_07695558.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium JCVIHMP022] gi|308221946|gb|EFO78231.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium JCVIHMP022] Length = 461 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 223 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 282 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 283 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 342 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 343 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 389 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 390 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 441 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 442 TMSKLRHPSRSQT 454 >gi|227547666|ref|ZP_03977715.1| RNA polymerase sigma factor [Bifidobacterium longum subsp. infantis ATCC 55813] gi|227211921|gb|EEI79817.1| RNA polymerase sigma factor [Bifidobacterium longum subsp. infantis ATCC 55813] Length = 464 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 75/278 (26%), Positives = 137/278 (49%), Gaps = 37/278 (13%) Query: 28 MLEKQEEYVLAKRYRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +L+ + E + KR RE G + H L+ ++LRLVV +A Y G G+ +++ E Sbjct: 200 LLDTESEGMEFKRKRELKWAAADGKKAKDH-LLEANLRLVVSLAKRYTGRGMLFLDLIQE 258 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 GN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ + +++ + + L R Sbjct: 259 GNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRV--PVHMVEVINKLSR 316 Query: 142 LKGH-LQAI----TDNNLKPEQVVAIAKKLNVSE--SEVISMNCRLA--GDESLNALINS 192 ++ LQ + T + L E + + K V + E IS++ L GD LI Sbjct: 317 VQRQMLQDLGREPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIED 376 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 +D + D L++++ + + L+PRE + + R E+ Sbjct: 377 TD---------AIAPSDAVAFSLLQEQ--------FKQVLETLSPREAGVIKMRYGLEDG 419 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P TL+++ + V+RER+RQIE++ K++ + Q Sbjct: 420 QPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQT 457 >gi|254413477|ref|ZP_05027247.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196179584|gb|EDX74578.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 331 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 67/246 (27%), Positives = 118/246 (47%), Gaps = 35/246 (14%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ W Sbjct: 94 TAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYW 153 Query: 108 WIKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ A+ I +++ Q++L L R + T+ +L P+Q Sbjct: 154 WIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQTLGRAATISELATELDLTPKQ 213 Query: 159 VVAIAKKLNVSESEVISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 V +K + +S++ R+ D L L+ S + +D+ Y QV + Sbjct: 214 VREYLEKAR----QPLSLDLRVGDNQDTELGELLEDSGPSP---EDFATYSA---MQVDL 263 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEA 274 EK M+ L ++R + R + P+TL + + ++SRERVRQIE Sbjct: 264 EK------------LMADLTEQQREVLMLRFGLVDGQPMTLAKIGDQLKISRERVRQIER 311 Query: 275 RAFKKV 280 A K+ Sbjct: 312 EALSKL 317 >gi|23465986|ref|NP_696589.1| RNA polymerase sigma factor [Bifidobacterium longum NCC2705] gi|46191322|ref|ZP_00206768.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Bifidobacterium longum DJO10A] gi|189439160|ref|YP_001954241.1| RNA polymerase sigma factor [Bifidobacterium longum DJO10A] gi|312132592|ref|YP_003999931.1| rpod [Bifidobacterium longum subsp. longum BBMN68] gi|317482450|ref|ZP_07941467.1| RNA polymerase sigma factor RpoD [Bifidobacterium sp. 12_1_47BFAA] gi|322689398|ref|YP_004209132.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. infantis 157F] gi|322691364|ref|YP_004220934.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. longum JCM 1217] gi|23326702|gb|AAN25225.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium longum NCC2705] gi|189427595|gb|ACD97743.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium longum DJO10A] gi|311773536|gb|ADQ03024.1| RpoD [Bifidobacterium longum subsp. longum BBMN68] gi|316916110|gb|EFV37515.1| RNA polymerase sigma factor RpoD [Bifidobacterium sp. 12_1_47BFAA] gi|320456220|dbj|BAJ66842.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. longum JCM 1217] gi|320460734|dbj|BAJ71354.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. infantis 157F] Length = 474 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 75/278 (26%), Positives = 137/278 (49%), Gaps = 37/278 (13%) Query: 28 MLEKQEEYVLAKRYRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +L+ + E + KR RE G + H L+ ++LRLVV +A Y G G+ +++ E Sbjct: 210 LLDTESEGMEFKRKRELKWAAADGKKAKDH-LLEANLRLVVSLAKRYTGRGMLFLDLIQE 268 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 GN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ + +++ + + L R Sbjct: 269 GNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRV--PVHMVEVINKLSR 326 Query: 142 LKGH-LQAI----TDNNLKPEQVVAIAKKLNVSE--SEVISMNCRLA--GDESLNALINS 192 ++ LQ + T + L E + + K V + E IS++ L GD LI Sbjct: 327 VQRQMLQDLGREPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIED 386 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 +D + D L++++ + + L+PRE + + R E+ Sbjct: 387 TD---------AIAPSDAVAFSLLQEQ--------FKQVLETLSPREAGVIKMRYGLEDG 429 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P TL+++ + V+RER+RQIE++ K++ + Q Sbjct: 430 QPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQT 467 >gi|123965877|ref|YP_001010958.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123200243|gb|ABM71851.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9515] Length = 307 Score = 86.3 bits (212), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 77/296 (26%), Positives = 138/296 (46%), Gaps = 32/296 (10%) Query: 12 GEIGLSRYIHEIRKIPMLEK-QEEYVLAKRYREHGDLSAA------------------HR 52 GEIG + + +++ M K QE VL R + G +A + Sbjct: 9 GEIGRHQLLTPEKELTMGRKVQEMVVLINRCQTAGGKGSACEYSEVEKKKIKIGEKAKNA 68 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 69 MITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + ++I N+K LR K L + P +A+++ +++ E Sbjct: 129 LNRALSTQSRTIRIPVNINEK--LTKLRAAKSKLMQLKGF---PPTSFELAEEMKITKEE 183 Query: 173 VIS-MNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + ++C L SL + S + S+ D L D ++ E + +L + Sbjct: 184 IDELLSCELRSITVSLQGTVKSKS-DPSELVDILPSDQTPPMELAELAERTASAWTLLDK 242 Query: 231 SMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L +ER+I R + TL ++ SRE RQ+ RA +K++++ Sbjct: 243 AN--LTEKERKIVSLRFGLDGSNEWKTLAEVARHMSCSREYCRQVVQRALRKLRKA 296 >gi|23428541|gb|AAL11450.1| RNA polymerase sigma-70 subunit [Serratia plymuthica] Length = 612 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 71/251 (28%), Positives = 126/251 (50%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ +GNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIRKGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-----KRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N+ +++ + R + + + + L PE Sbjct: 434 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR-EPTPEELAERMLMPED- 491 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I K L +++ E ISM + DE S D++ D ++ ++ Sbjct: 492 -KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI---EDTTLELPLDSA 534 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAF 277 ++ R+ ++ L RE ++ R + N TLE + +F+V RER+RQIEA+A Sbjct: 535 TSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVIRERIRQIEAKAL 594 Query: 278 KKVQESIQKQV 288 +K++ + +V Sbjct: 595 RKLRHPSRSEV 605 >gi|283780465|ref|YP_003371220.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283438918|gb|ADB17360.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 544 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 76/252 (30%), Positives = 119/252 (47%), Gaps = 14/252 (5%) Query: 42 REHGDLSAAHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 R++ + AA R L + +LRLVV IA YR GL +++ EGN GLM+AV K++ RGF+ Sbjct: 295 RQYIEYEAAKRQLSSGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGFK 354 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I ++I + + LR ++ L E+V Sbjct: 355 FSTYATWWIRQAITRAIADQARTIRI--PVHMIDVLSKLRNVQKKLLQELGREPTTEEVT 412 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 A+ V+ + G ++ D S + ++ + D VL Sbjct: 413 ALVDLPLEEVKRVLDI-----GRHPVSLDRPVGDSEDSSFGEF-IEDTASDNPVLCATN- 465 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 R + + L RER I R TLE + F+V+RERVRQIEA+A + Sbjct: 466 -GILRERIDGLLKTLTWREREIIRLRYGLCDGYTYTLEEVGRIFKVTRERVRQIEAKAVR 524 Query: 279 KVQESIQ-KQVE 289 K+Q ++ KQ+E Sbjct: 525 KLQHPVRSKQLE 536 >gi|332994458|gb|AEF04513.1| RNA polymerase sigma factor [Alteromonas sp. SN2] Length = 608 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 122/245 (49%), Gaps = 34/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 370 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 429 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + +++ L PE Sbjct: 430 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELSERMLMPED-- 487 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ ++ +I+ + Sbjct: 488 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI------EDSTIIQPLD 528 Query: 221 RKNRRNMLTRSMSV---LNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 ++ + V L RE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 529 SATGGSLKDATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 588 Query: 276 AFKKV 280 A +K+ Sbjct: 589 ALRKL 593 >gi|331696792|ref|YP_004333031.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951481|gb|AEA25178.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudonocardia dioxanivorans CB1190] Length = 348 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 75/257 (29%), Positives = 118/257 (45%), Gaps = 56/257 (21%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY+ WW Sbjct: 111 ARNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGFKFSTYATWW 170 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + A+Q R RL HL EQV +A+ Sbjct: 171 IRQAITRGM------------ADQARTI----RLPVHLV---------EQVNKLARIKR- 204 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD--------GQEQ-----VL 215 M+ RL + + L S + D L + D G E+ Sbjct: 205 ------DMHQRLGREATHAELAEESGLPEEKIADLLDHARDPVSLDMPVGSEEEAPLGDF 258 Query: 216 IEKEERKNRRNM---------LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEV 264 IE E + N L R ++ L+ RE+ + R ++ P TL+ + F + Sbjct: 259 IEDAEAADAENTVISHLLHDDLRRVLATLDEREQNVIRMRYGLDDGQPCTLDQIGRRFGL 318 Query: 265 SRERVRQIEARAFKKVQ 281 SRERVRQIE K++ Sbjct: 319 SRERVRQIEREVMAKLR 335 >gi|260424772|ref|ZP_05733235.2| RNA polymerase sigma-43 factor [Dialister invisus DSM 15470] gi|260403136|gb|EEW96683.1| RNA polymerase sigma-43 factor [Dialister invisus DSM 15470] Length = 394 Score = 86.3 bits (212), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/270 (25%), Positives = 124/270 (45%), Gaps = 25/270 (9%) Query: 19 YIHEIRKIPMLEKQEEYVLAK-----RYREHGD------LSAAHRLVTSHLRLVVKIAMG 67 Y+ E P+L ++E LA+ + E D A + ++LRLVV IA Sbjct: 120 YLRECGTTPLLTSEQEMKLAQTIEIGKMPEATDEQKRMAAEAKKEMANANLRLVVSIAKK 179 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y G G+P +++ EGN+GL++AV KFD +G++ +TY+ WWI+ A+ I +++ Sbjct: 180 YPGRGMPFLDLIQEGNMGLLKAVDKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRV- 238 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + + R+ H E+ +AK++ S ++ + A + ++ Sbjct: 239 -PVHMVETINKMNRVGRHFLQEHGREATNEE---LAKEMETSVEKI--REAKKAAQDPIS 292 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEAR 246 +K S D++ + Q+ E E RR + + + L RE+ + R Sbjct: 293 LETPIGEKEDSHLGDFI----EDQKTASPEDEAAATMRREQIHQLLETLTEREKGVIALR 348 Query: 247 RLQENPV--TLENLSSEFEVSRERVRQIEA 274 ++ TLE + F V+RER+RQIE Sbjct: 349 YGIDDGTQRTLEEVGKYFGVTRERIRQIEG 378 >gi|119504971|ref|ZP_01627048.1| putative transcriptional regulator, Fis family protein [marine gamma proteobacterium HTCC2080] gi|119459257|gb|EAW40355.1| putative transcriptional regulator, Fis family protein [marine gamma proteobacterium HTCC2080] Length = 606 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 115/239 (48%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 368 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 427 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++ + Sbjct: 428 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMEM 482 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ E V I L Sbjct: 483 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI-------EDVTISSPVDSATEEGL 533 Query: 229 TRS----MSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 T + ++ L RE ++ R TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 534 TEATQDVLAGLTAREAKVLRMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 592 >gi|261415258|ref|YP_003248941.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|261371714|gb|ACX74459.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|302327293|gb|ADL26494.1| RNA polymerase sigma-70 factor [Fibrobacter succinogenes subsp. succinogenes S85] Length = 283 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 73/276 (26%), Positives = 140/276 (50%), Gaps = 27/276 (9%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +Y+++I + P+L +++E +L ++ E G+ +A LV S+LR VV IA Y+G GL I E Sbjct: 15 QYLNDISRYPLLTREQETILLQKSAE-GNKAALDMLVNSNLRFVVNIANLYKGRGLDIME 73 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 +++EGN+GL++A ++FD + +Y++WWI+ + I +++I +K L Sbjct: 74 LINEGNMGLIEAARRFDRSLKIKFISYAVWWIRQNITRAISEKGRMIRISA---EKELM- 129 Query: 138 NLRRLKGHL----QAITDNNLKPEQVVAIAKKLNVSESEVISM--NCRLAGDESLN---- 187 LRR H Q I Q + K SE E I M N + D +N Sbjct: 130 -LRRFNRHAKDVQQVIGGTFTINTQSLEGLSKYKASEIEKILMMGNSTSSLDAPVNEDGD 188 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + + +S D L D++ + +V +L +++S +++ + Sbjct: 189 ATLGDTISDSQSRTDELA-DNNNRAEVF---------DKVLDKNLSNQEKEIIKLYYGFK 238 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ + L+ ++ +S+ERVRQ++ A K++++ Sbjct: 239 M-DSDLNLKEIAPMVGLSKERVRQLKENALNKLRDA 273 >gi|75812337|ref|YP_319956.1| sigma-28 [Anabaena variabilis ATCC 29413] gi|75705093|gb|ABA24767.1| Sigma-28 [Anabaena variabilis ATCC 29413] Length = 316 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 112/231 (48%), Gaps = 13/231 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++T++LRLVV IA Y+ L ++V EG IGL + ++KFDP RG++L+TY+ WW Sbjct: 81 AKQKMITANLRLVVSIAKKYQRRNLEFLDLVQEGAIGLQRGIEKFDPNRGYKLSTYAYWW 140 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + A+ I V++ N+K L ++K + + V IA+KL + Sbjct: 141 VTQAITRAIAEKSRTVRLPIHVNEK-----LNQIKKVQREFFQTLGRRPSVAEIAQKLEL 195 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S++ +G SL+ + D ++ + L + E + R L Sbjct: 196 EPSQIREYLKVASGTISLD--LKVGDNQETELSELLASEGVSPN----ENTTHEMLRQDL 249 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + ++ L P +R + R L +L +S + +SRERVRQI+ +A Sbjct: 250 SDLLASLKPMQREVLILRFGLLDNQEQSLAQISEKLNLSRERVRQIQQKAM 300 >gi|271965471|ref|YP_003339667.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] gi|270508646|gb|ACZ86924.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] Length = 452 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 72/252 (28%), Positives = 126/252 (50%), Gaps = 19/252 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLVV +A Y G+ + +VV EGN+GL++AV+KFD +G++ +TY+MWW Sbjct: 215 AKDHMLEANLRLVVSVAKKYTDRGMALLDVVQEGNLGLIRAVEKFDYTKGYKFSTYAMWW 274 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+Q S +++ + + L R++ + PE+ +A +L+ Sbjct: 275 IRQAIQRGFADSARTIRL--PVHVLEMLSKLSRVERDMHQRLGREPTPEE---LAVELDK 329 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + ++ + SLNA I + + D L+ D D E E +R+ L Sbjct: 330 TPDQIEELLRTSRQPISLNATIG--EDGETTIGD-LIEDVDSPEAS--EVVDRQLLGEQL 384 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L+PRE +I R + P TL+ + ++RER+RQ+E +ES+ K Sbjct: 385 RGVLGNLSPREAKIMALRFGLVDGKPHTLDEIGKHLGLTRERIRQLE-------KESLSK 437 Query: 287 QVELSSSPPLLQ 298 S++ PLL Sbjct: 438 LRHPSNTRPLLD 449 >gi|67922139|ref|ZP_00515654.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67856039|gb|EAM51283.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 318 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 74/307 (24%), Positives = 139/307 (45%), Gaps = 60/307 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+ EI ++P+L +EE + AKR + Sbjct: 14 YLKEIGRVPLLSHEEEILYAKRVQRLINLEKLREEIIQETGKEPTNSQWAKAAKLSRKEF 73 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ +A ++V ++LRLVV +A Y L + +++ EG IG+ + V+KFDP +G Sbjct: 74 CSVVEAGE-AAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKG 132 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 +R +TY+ WWI+ A+ I +++ +K L ++K + ++ + Sbjct: 133 YRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRELSQQKGRAAT 187 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +A++L+++ +V R SL+ + D ++ D L + +GQ Sbjct: 188 ISELAEELDLTPKQVRDYLERSRQPLSLD--LRVGDNQDTELGDLL--EDEGQ-----SP 238 Query: 219 EERKNRRNM---LTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 E+ ++ L + M L +++++ R + P+TL + S +SRERVRQIE Sbjct: 239 EDFATHSSLQFDLEKLMEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIE 298 Query: 274 ARAFKKV 280 A K+ Sbjct: 299 REALSKL 305 >gi|19910026|dbj|BAB87264.1| RNA polymerase sigma factor [Cyanophora paradoxa] Length = 427 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 129/246 (52%), Gaps = 15/246 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRG-YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A RLV S+LR VV IA Y + +P+ +++ EG+IGLM+A ++FD ++GF+ TY+ W Sbjct: 178 ARARLVQSNLRWVVSIAKKYANKHTMPLQDLIQEGSIGLMKAAERFDLDKGFKFLTYATW 237 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ + +++ + + +++ + L + PE+ +A +LN Sbjct: 238 WIRQAIFRSLQDQGRTIRLPVHVHDS--LYLIKKTRQQLASRLGRIPTPEE---LADELN 292 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--- 224 + S + + + SL + I SS+ +S++ ++ L D E ++ +E+ R Sbjct: 293 IPVSRLAFITQAASLPISLESPI-SSETSSTKARNNL---GDFIESECLQPDEQLERTML 348 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R L ++ L RER I R + +P TL+ + ++RER+RQIE A +K++ Sbjct: 349 REDLENVLATLKARERDIIRMRYGLVDGSPKTLDEIGEIVGLTRERIRQIEQSAMRKLKA 408 Query: 283 SIQKQV 288 +K + Sbjct: 409 PYRKAI 414 >gi|189485247|ref|YP_001956188.1| RNA polymerase sigma factor [uncultured Termite group 1 bacterium phylotype Rs-D17] gi|170287206|dbj|BAG13727.1| RNA polymerase sigma factor [uncultured Termite group 1 bacterium phylotype Rs-D17] Length = 573 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 127/242 (52%), Gaps = 31/242 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +L+ ++ RLVV IA + G L +S+++ EGN+GL +AV+KF+ +RGF+ +TY+ WWI+ Sbjct: 338 KLIEANFRLVVSIAKKHVGISNLELSDLIQEGNLGLSKAVEKFEWKRGFKFSTYATWWIR 397 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ I ++I + K L L + K Q N+ E + Sbjct: 398 QSINRAIADQARTIRI--PVHMKELISKLTKSKKECQ----QNMGREPTIQ-------EY 444 Query: 171 SEVISMNC----RLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 S+++ ++C R+ E ++ + ++ S+ +D+ + D + V+ K ++ Sbjct: 445 SKILKLSCDRIRRILKMMQEPVSLAMPVGEEEDSRLEDF-IEDQNSPNPVV--KTQQYRL 501 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQEN-----PVTLENLSSEFEVSRERVRQIEARAFKK 279 + L + ++ L PRE I RL+ P TLE + +F ++RERVRQIEA+A +K Sbjct: 502 QLELEKVLATLAPREAEII---RLRYGIGIGYPSTLEEVGKKFGITRERVRQIEAKAIRK 558 Query: 280 VQ 281 ++ Sbjct: 559 LK 560 >gi|194476921|ref|YP_002049100.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Paulinella chromatophora] gi|171191928|gb|ACB42890.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Paulinella chromatophora] Length = 321 Score = 85.9 bits (211), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 82/323 (25%), Positives = 144/323 (44%), Gaps = 75/323 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYRE--------------HG------------DLS---- 48 Y+ EI +IP+L ++E L ++ +E +G DLS Sbjct: 18 YLKEISRIPLLTHEQEITLGRQVQELICIQETEQKLELKNGIKPTQEELANSLDLSINQV 77 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A ++V+S+LRLVV IA Y + + ++V EG IGL++ V+KFDP RG+ Sbjct: 78 KRKIIHGKRAKEQMVSSNLRLVVSIAKKYTKRSMELLDLVQEGTIGLIRGVEKFDPTRGY 137 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ + I +++ ++ L +LK + ++ + + V Sbjct: 138 KFSTYAYWWIRQGITRAISEQSRTIRLPIHITEE-----LNKLKKAQRDLSQSLGRTPTV 192 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE-- 217 + +AK + ++E EV + C SL I DG + VL+E Sbjct: 193 IELAKMIKLTEKEVKELLCHAKQPVSLEMKIG-----------------DGDDTVLLELL 235 Query: 218 ------KEERKNRRNM---LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSR 266 EE NR+ + L + L + RI + R ++ P+TL + +SR Sbjct: 236 PSEIELPEEYVNRKCLRRDLLALVEQLPEIQVRILKMRYGFDSTEPLTLTGIGRVLGMSR 295 Query: 267 ERVRQIEARAFKKVQESIQKQVE 289 +RVR +E ++Q+ + K +E Sbjct: 296 DRVRNLERDGINRLQK-LSKSIE 317 >gi|330721841|gb|EGG99811.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC2047] Length = 614 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 68/239 (28%), Positives = 119/239 (49%), Gaps = 20/239 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 436 IRQAITRSIADQARTIRI--PVHMIETINKLNRVSRQMLQEMGREPTPEE---LGERMDM 490 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ E V I+ L Sbjct: 491 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI-------EDVNIDSPIDSATAEGL 541 Query: 229 TRS----MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + +S L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 542 SEATRGVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 600 >gi|313792143|gb|EFS40244.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA1] gi|313801904|gb|EFS43138.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA2] gi|313838730|gb|EFS76444.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL086PA1] gi|314962802|gb|EFT06902.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL082PA1] gi|315078018|gb|EFT50069.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL053PA2] gi|327453138|gb|EGE99792.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL092PA1] Length = 312 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 81/311 (26%), Positives = 142/311 (45%), Gaps = 57/311 (18%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE----------HGDLS----------- 48 ++G+ + Y+ I + P+L EE LA+R H + + Sbjct: 13 IDGKDAVGLYLDGIARTPLLNAAEEVALARRIEAGVFARAILEGHAETTSDTTTKELHQI 72 Query: 49 ------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 A R V ++LRLVV +A Y +P+ ++V EGN GL++AV+KFD +GF+ + Sbjct: 73 AADGDEALARFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFS 132 Query: 103 TYSMWWIKAAMQEYILRSWSLVK----IGTTANQ-KRLFFNLRRLKGHLQAITDNNLKPE 157 TY+ WW++ A+ I + +V+ + NQ NL R G +PE Sbjct: 133 TYATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGR---------EPE 183 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHD-GQEQVL 215 IA +L ++E VI + R D SL+A + D + D + + G + ++ Sbjct: 184 -TFEIADELEITEERVIEL-IRFGRDHVSLDAPVE--DDGDTSLGDLIARETSPGPDDIV 239 Query: 216 IEKEERKNRRNMLT----RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 ++ E+R +L RS V+ R + + R+ + L ++ + ++ ERVRQ Sbjct: 240 LDAEDRSRLEGLLDDLDERSADVVR-RRYGLVDGRQAK-----LADIGKVWGITAERVRQ 293 Query: 272 IEARAFKKVQE 282 IE A +++ Sbjct: 294 IERAALASMRQ 304 >gi|302851352|ref|XP_002957200.1| hypothetical protein VOLCADRAFT_109400 [Volvox carteri f. nagariensis] gi|300257450|gb|EFJ41698.1| hypothetical protein VOLCADRAFT_109400 [Volvox carteri f. nagariensis] Length = 733 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 75/258 (29%), Positives = 125/258 (48%), Gaps = 33/258 (12%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 V+A R L A L+ S+ RLV+ + Y G G+ + ++VSEG GL++ V+ +D Sbjct: 461 VMAYNMRYDAGLKAKELLLKSNYRLVMTVCKRYIGKGMHLQDLVSEGVKGLLRGVEMYDA 520 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNL 154 RGFR TY+ WWI+ A+ + + V++ + L +LK A+ + N Sbjct: 521 SRGFRFGTYAHWWIRQAVSRSMAETGRAVRLPV-----HMIEQLTKLKNATAALAMELNR 575 Query: 155 KPE-QVVAIAKKLNVSESEVI--------SMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 +P + +A A L S E++ SM + GD+ L K++ Q + Sbjct: 576 EPSVEEMAEAVGLPPSRVELLLDAARAASSMESAIGGDDGLTI------KDAVQDERMAA 629 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFE 263 + G + + R + +ML L+ RE + R E+ V TLE++ S Sbjct: 630 DEAFGSDSM------RADVESML----EGLSDREACVLRLRFGLEDGVEWTLEDIGSRLG 679 Query: 264 VSRERVRQIEARAFKKVQ 281 V+RER+RQ+EA+A +K+Q Sbjct: 680 VTRERIRQLEAKALRKLQ 697 >gi|213691851|ref|YP_002322437.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium longum subsp. infantis ATCC 15697] gi|213523312|gb|ACJ52059.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium longum subsp. infantis ATCC 15697] gi|320457946|dbj|BAJ68567.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. infantis ATCC 15697] Length = 464 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 75/278 (26%), Positives = 137/278 (49%), Gaps = 37/278 (13%) Query: 28 MLEKQEEYVLAKRYRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +L+ + E + KR RE G + H L+ ++LRLVV +A Y G G+ +++ E Sbjct: 200 LLDTESEGMEFKRKRELKWAAADGKKAKDH-LLEANLRLVVSLAKRYTGRGMLFLDLIQE 258 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 GN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ + +++ + + L R Sbjct: 259 GNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRV--PVHMVEVINKLSR 316 Query: 142 LKGH-LQAI----TDNNLKPEQVVAIAKKLNVSE--SEVISMNCRLA--GDESLNALINS 192 ++ LQ + T + L E + + K V + E IS++ L GD LI Sbjct: 317 VQRQMLQDLGREPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIED 376 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 +D + D L++++ + + L+PRE + + R E+ Sbjct: 377 TD---------AIAPSDAVAFSLLQEQ--------FKQVLETLSPREAGVIKMRYGLEDG 419 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P TL+++ + V+RER+RQIE++ K++ + Q Sbjct: 420 QPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQT 457 >gi|19553123|ref|NP_601125.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC 13032] gi|62390759|ref|YP_226161.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC 13032] gi|1149591|emb|CAA89988.1| SigB sigma factor [Corynebacterium glutamicum] gi|21324689|dbj|BAB99312.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) (SigB) [Corynebacterium glutamicum ATCC 13032] gi|41326097|emb|CAF20260.1| RNA POLYMERASE SIGMA FACTOR [Corynebacterium glutamicum ATCC 13032] Length = 331 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 73/262 (27%), Positives = 130/262 (49%), Gaps = 31/262 (11%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ VLAK G + +H L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A+ Sbjct: 81 KRDLKVLAK----DGKKARSH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAM 135 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-Q 147 +KFD +GF+ +TY+ WWI+ A+ + +++ ++ +L R L HL + Sbjct: 136 EKFDYSKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKRELYQHLGR 195 Query: 148 AITDNNLKPEQVVAIAK--KLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDW 203 T+ L E + +K L + +S++ + DE L I S+ + Sbjct: 196 EATNEELAEESGIEESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA----- 250 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSE 261 E ++ + R +L + L PRE+ + R ++ P TL+ + Sbjct: 251 --------ESAVVASMRHSDIRAVL----NTLEPREQDVIRLRYGLDDGVPRTLDQIGRR 298 Query: 262 FEVSRERVRQIEARAFKKVQES 283 F +SRERVRQIE K+++ Sbjct: 299 FGLSRERVRQIEREVMSKLRDG 320 >gi|218665974|ref|YP_002426728.1| RNA polymerase sigma factor RpoD [Acidithiobacillus ferrooxidans ATCC 23270] gi|218518187|gb|ACK78773.1| RNA polymerase sigma factor RpoD [Acidithiobacillus ferrooxidans ATCC 23270] Length = 624 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 113/241 (46%), Gaps = 23/241 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 439 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMEMPED 496 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE + D+N + D V + E E Sbjct: 497 KIRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDRNVTAPADSAV------NAAIREVVE 549 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R VL R F ++ TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 550 ELLDNGLTAREAKVLRMR----FGIGMNTDH--TLEEVGKQFDVTRERIRQIEAKALRKL 603 Query: 281 Q 281 + Sbjct: 604 R 604 >gi|227488742|ref|ZP_03919058.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51867] gi|227542262|ref|ZP_03972311.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51866] gi|227091164|gb|EEI26476.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51867] gi|227182091|gb|EEI63063.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51866] Length = 327 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 78/304 (25%), Positives = 138/304 (45%), Gaps = 59/304 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----------------------GDLSAA 50 Y++ I K P+L +EE LAK Y H GD + Sbjct: 33 YLNGIGKTPLLSAEEEVELAKTVEVGLYARHLLNDPEYKPTRAMKRDLKELAREGDKARN 92 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H ++ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ Sbjct: 93 H-MLEANLRLVVSLAKRYSGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIR 151 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVAIAK- 164 A+ + +++ ++ L R+K + + +T+ L E + K Sbjct: 152 QAITRGMADQSRTIRLPVHLVEQ--VNKLSRIKREMYQQFGREVTNEELAEESGIDENKI 209 Query: 165 -KLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 L + +S++ + DE L I S+ D +E V++ Sbjct: 210 EMLFRQSRDPVSLDMPVGADEEAPLGDFIEDSEAT------------DAEEAVVVSL--- 254 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKK 279 R + + + L RE+ + R ++ P TL+ + + +SRERVRQIE K Sbjct: 255 --RHSDIRAVIDTLEGREQDVIRMRYGLDDGVPRTLDQIGRRYGLSRERVRQIEREVMAK 312 Query: 280 VQES 283 ++E Sbjct: 313 LREG 316 >gi|325475291|gb|EGC78476.1| region 2 family RNA polymerase sigma-70 factor [Treponema denticola F0402] Length = 275 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 71/282 (25%), Positives = 137/282 (48%), Gaps = 30/282 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +YI + +K P+L ++E LA ++ G+ A LVTS+LRLV+K+A + I Sbjct: 6 LLQYIKDSKKYPLLSAEQEAELADEVKK-GNTEAIEVLVTSNLRLVIKMAKKFSSNENQI 64 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT------- 128 E++ EGN+GLM+A KF R ++Y+ WWIK + Y+ + ++K+ Sbjct: 65 LELIQEGNMGLMKAASKFSKSFKVRFSSYAAWWIKQSFIRYLNSADKVIKLPVRKEALIR 124 Query: 129 TANQKRLFFNLRRLKGHLQAITD-NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 N++ + ++ G L + + + E+V IA+ + + +++ S++ + + S N Sbjct: 125 QVNKEEENYKIKY--GILPSYSQLAEIMKEKVDIIAQVKSFNYTDICSLDDPVDNERSAN 182 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 D++ + E+ I+ E ++ L + + +LN RE+ + R Sbjct: 183 ------------LYDFIPCNTYNPEEEFIDNEFKEK----LNKCLEILNDREKDVLRNRY 226 Query: 248 LQENPV---TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + + T L ++ +S E +RQ + RA KK++ K Sbjct: 227 GLDGTMTSTTFAVLGKKYSISAESIRQTQLRALKKLRADTNK 268 >gi|149197281|ref|ZP_01874333.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149139827|gb|EDM28228.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 404 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 124/245 (50%), Gaps = 30/245 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 ++ + +V +LRLV+ IA Y +++ EGNIGL+ AV+K+D G+ +TY+ W Sbjct: 167 NSVNAMVEGNLRLVISIARKYSNSQEGFLDLIQEGNIGLVSAVEKYDASFGYTFSTYATW 226 Query: 108 WIKAAMQEY---ILRSWSL-----VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 WI+ A+ ++R+ L VK+ +R F K +A D Sbjct: 227 WIRQAVSRARTELVRTMKLPANIMVKVNKIYRTERELFQ----KFGREATIDE------- 275 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +++ + +S +++ S+ SL + S++++ + D + D D VL + E Sbjct: 276 --VSEAVELSPAKIRSLKRMCQQPISLQTTV--SEEHTGELGDIVSNDDD----VLPDAE 327 Query: 220 -ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 E+K L + +LN RE+ I R L + TLEN+++EF +SRER+RQIE A Sbjct: 328 VEQKQLHESLVAMLDILNEREQEILRMRFGLADGEYHTLENIANEFGISRERIRQIETSA 387 Query: 277 FKKVQ 281 KK++ Sbjct: 388 LKKLR 392 >gi|325107209|ref|YP_004268277.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] gi|324967477|gb|ADY58255.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] Length = 590 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 120/250 (48%), Gaps = 22/250 (8%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 R H +A L +LRLVV IA YR G+ +++ EGN GLM+AV K++ RG++ Sbjct: 336 RYHDYETAMRELSGGNLRLVVSIAKKYRNRGMNFLDLIQEGNTGLMRAVDKYEYRRGYKF 395 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIG-----TTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +TY+ WWI+ A+ I ++I T + +++ +L + G I + Sbjct: 396 STYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRKVGKDLVQELGREPTIEEMAEAA 455 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E + A+++ + IS++ + E S + D+ + DH V Sbjct: 456 EVSLEEARRVMKISRQPISLDRPIGEGE------------DSYFGDF-IEDHSTDSPVST 502 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEA 274 +E ++ + + L RER I + R + TLE + F+V+RERVRQIEA Sbjct: 503 ATQE--MLKDKIDHVLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEA 560 Query: 275 RAFKKVQESI 284 +A +K+Q + Sbjct: 561 KAVRKLQHPV 570 >gi|239621277|ref|ZP_04664308.1| RNA polymerase principal sigma factor [Bifidobacterium longum subsp. infantis CCUG 52486] gi|239515738|gb|EEQ55605.1| RNA polymerase principal sigma factor [Bifidobacterium longum subsp. infantis CCUG 52486] Length = 488 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 75/278 (26%), Positives = 137/278 (49%), Gaps = 37/278 (13%) Query: 28 MLEKQEEYVLAKRYRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +L+ + E + KR RE G + H L+ ++LRLVV +A Y G G+ +++ E Sbjct: 224 LLDTESEGMEFKRKRELKWAAADGKKAKDH-LLEANLRLVVSLAKRYTGRGMLFLDLIQE 282 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 GN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ + +++ + + L R Sbjct: 283 GNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRV--PVHMVEVINKLSR 340 Query: 142 LKGH-LQAI----TDNNLKPEQVVAIAKKLNVSE--SEVISMNCRLA--GDESLNALINS 192 ++ LQ + T + L E + + K V + E IS++ L GD LI Sbjct: 341 VQRQMLQDLGREPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIED 400 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 +D + D L++++ + + L+PRE + + R E+ Sbjct: 401 TD---------AIAPSDAVAFSLLQEQ--------FKQVLETLSPREAGVIKMRYGLEDG 443 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 P TL+++ + V+RER+RQIE++ K++ + Q Sbjct: 444 QPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQT 481 >gi|148238489|ref|YP_001223876.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147847028|emb|CAK22579.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 355 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 73/296 (24%), Positives = 128/296 (43%), Gaps = 51/296 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAH--------------------------- 51 Y+ +I ++P+L Q+E L ++ +E DL A Sbjct: 50 YLRDIGRVPLLSHQQEITLGRQVQELMDLEATEAELQEKRGGEAVPAAELAKAAGLSAVQ 109 Query: 52 -------------RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG Sbjct: 110 LKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRG 169 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ + I +++ + L +LK + ++ + + Sbjct: 170 YKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQDLGRTPS 224 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIE 217 V +A + + E EV + CR SL + D + ++ D L D + EQV E Sbjct: 225 VTELAAFVELPEDEVKELMCRARQPVSLE--MKVGDGDDTELLDLLAGDGELPSEQV--E 280 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 E K L + L R R+ E+P++L + +SR+RVR +E Sbjct: 281 GECLKGDLRDLLGQLPELQERVLRMRYGMD-GEDPMSLTGIGRVIGISRDRVRNLE 335 >gi|262197687|ref|YP_003268896.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] gi|262081034|gb|ACY17003.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] Length = 465 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 67/257 (26%), Positives = 130/257 (50%), Gaps = 11/257 (4%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 YV R EH +A + V ++LRLVV IA + + +++++ EGN+GL++AV+++D Sbjct: 215 YVDQVRAAEHAARNARNEFVKANLRLVVSIARRFNHGRMSLADLIQEGNLGLIKAVERYD 274 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 RGFR +TY+ WWI+ A+ + V++ L + R LK Q Sbjct: 275 YRRGFRFSTYASWWIRHAIGRALADKGREVRLPV----HMLDAHHRLLKAQHQLTNTLGR 330 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 +P +++ N+S ++ M L SL+ +N D S ++ D G+E Sbjct: 331 QPTS-EELSEAANLSVEKIEKMRTHLLDQALSLDRPMNDEDGRSVA---EVLQDPHGEEH 386 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQ 271 + ++ + + +++ L P E I R +N +TL+ + ++ +SRER+RQ Sbjct: 387 SALNVLAQRTMSDEVRKTLQTLRPIEADILRRRFGLDNDEELTLKQIGEQYNLSRERIRQ 446 Query: 272 IEARAFKKVQESIQKQV 288 ++ +A K++ +++++ Sbjct: 447 LQEQALTKMRVALRRKA 463 >gi|291457726|ref|ZP_06597116.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve DSM 20213] gi|291380779|gb|EFE88297.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve DSM 20213] Length = 472 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 72/280 (25%), Positives = 136/280 (48%), Gaps = 41/280 (14%) Query: 28 MLEKQEEYVLAKRYRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +L+ + E + KR RE G + H L+ ++LRLVV +A Y G G+ +++ E Sbjct: 208 LLDTESEGMEFKRKRELKWAAADGKKAKDH-LLEANLRLVVSLAKRYTGRGMLFLDLIQE 266 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQ 132 GN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ + +++ + Q Sbjct: 267 GNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQ 326 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALI 190 +++ +L R + + ++ E+V + K E IS++ L GD LI Sbjct: 327 RQMLQDLGREPTPDELARELDMPVEKVQEVQK----YGREPISLHTPLGEDGDSEFGDLI 382 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D + D L++++ + + L+PRE + + R E Sbjct: 383 EDTD---------AIAPSDAVAFSLLQEQ--------FKQVLETLSPREAGVIKMRYGLE 425 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + P TL+++ + V+RER+RQIE++ K++ + Q Sbjct: 426 DGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQT 465 >gi|257058077|ref|YP_003135965.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] gi|256588243|gb|ACU99129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 375 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 122/239 (51%), Gaps = 19/239 (7%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 136 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 195 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L +LK + + + +A++L Sbjct: 196 WIRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQRILKQKLQRNPNEKELAQELE 250 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--- 224 ++ ++ + SLN + + ++ D L ++Q L EE+ N Sbjct: 251 MTPPQLRQLLQLRRQSLSLNHRVGKGE--DTELVDLL------EDQDLQLPEEQMNEGML 302 Query: 225 RNMLTRSMS-VLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 RN ++ +S VL RE+ + R P TLE + F +SRERVRQI+++A +K+ Sbjct: 303 RNEISAVLSDVLTEREKDVISLRYGLSTSQPHTLEEVGGMFNLSRERVRQIQSKAMRKL 361 >gi|296454312|ref|YP_003661455.1| RpoD family RNA polymerase sigma-70 factor [Bifidobacterium longum subsp. longum JDM301] gi|296183743|gb|ADH00625.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium longum subsp. longum JDM301] Length = 474 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 72/280 (25%), Positives = 136/280 (48%), Gaps = 41/280 (14%) Query: 28 MLEKQEEYVLAKRYRE------HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +L+ + E + KR RE G + H L+ ++LRLVV +A Y G G+ +++ E Sbjct: 210 LLDTESEGMEFKRKRELKWAAADGKKAKDH-LLEANLRLVVSLAKRYTGRGMLFLDLIQE 268 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQ 132 GN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ + +++ + Q Sbjct: 269 GNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQ 328 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALI 190 +++ +L R + + ++ E+V + K E IS++ L GD LI Sbjct: 329 RQMLQDLGREPTPDELARELDMPVEKVQEVQKYGR----EPISLHTPLGEDGDSEFGDLI 384 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D + D L++++ + + L+PRE + + R E Sbjct: 385 EDTD---------AIAPSDAVAFSLLQEQ--------FKQVLETLSPREAGVIKMRYGLE 427 Query: 251 N--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + P TL+++ + V+RER+RQIE++ K++ + Q Sbjct: 428 DGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQT 467 >gi|171742642|ref|ZP_02918449.1| hypothetical protein BIFDEN_01756 [Bifidobacterium dentium ATCC 27678] gi|171278256|gb|EDT45917.1| hypothetical protein BIFDEN_01756 [Bifidobacterium dentium ATCC 27678] Length = 461 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 223 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 282 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 283 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 342 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 343 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 389 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 390 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 441 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 442 TMSKLRHPSRSQT 454 >gi|310777993|ref|YP_003966326.1| RNA polymerase, sigma 32 subunit, RpoH [Ilyobacter polytropus DSM 2926] gi|309747316|gb|ADO81978.1| RNA polymerase, sigma 32 subunit, RpoH [Ilyobacter polytropus DSM 2926] Length = 329 Score = 85.9 bits (211), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 78/272 (28%), Positives = 137/272 (50%), Gaps = 27/272 (9%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +Y H+I + K++E + K+ ++ GD A LVTS+L+LV KIAM Y G+ Sbjct: 71 LEQYFHDISLYTPIPKEKEKDIVKKAQD-GDEEAREMLVTSNLKLVAKIAMKYSKSGVNY 129 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA---NQ 132 +++ +G IGL+ A+ K+D +G +YS+WWIK + I + +KI + N+ Sbjct: 130 IDLIQDGTIGLIAAIDKYDLSKGHSFTSYSVWWIKREIINSIANRINAIKIPSYVYLMNK 189 Query: 133 K-RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 K R+F + + NN KP I++ LN+S EV M + A + + Sbjct: 190 KIRIFED--------DFMERNNKKP-SYQEISEALNLSLEEVEKM--KEASEIGVGGF-- 236 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQE 250 +D N D+ D +E L+E+ R+ ++ M ++P E+++ E L + Sbjct: 237 -ADGNEPDLGDFNTVDQIDKELNLLEE------RSKISNLMRKISPEEQKVVEMYYGLDD 289 Query: 251 NP-VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 N + + +S VS E+V+ ++ RA K++ Sbjct: 290 NKRLGFKEISKIMGVSVEKVKFLKERAILKLK 321 >gi|90020363|ref|YP_526190.1| Fis family transcriptional regulator [Saccharophagus degradans 2-40] gi|89949963|gb|ABD79978.1| RNA polymerase sigma factor RpoD-like protein [Saccharophagus degradans 2-40] Length = 613 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 71/248 (28%), Positives = 116/248 (46%), Gaps = 38/248 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++ + Sbjct: 435 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMEM 489 Query: 169 SESEV----------ISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E +V ISM + DE L I + +S + Q L Sbjct: 490 PEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIDSPVDSATI--------QGLT 541 Query: 217 EKEERKNRRNMLTRS-MSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIE 273 E TRS ++ L RE ++ R + TLE + +F+V+RER+RQIE Sbjct: 542 EA----------TRSVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 591 Query: 274 ARAFKKVQ 281 A+A +K++ Sbjct: 592 AKALRKLR 599 >gi|25028367|ref|NP_738421.1| RNA polymerase sigma factor SigB [Corynebacterium efficiens YS-314] gi|259507424|ref|ZP_05750324.1| RNA polymerase principal sigma factor SigB [Corynebacterium efficiens YS-314] gi|23493652|dbj|BAC18621.1| sigma factor SigB [Corynebacterium efficiens YS-314] gi|259164989|gb|EEW49543.1| RNA polymerase principal sigma factor SigB [Corynebacterium efficiens YS-314] Length = 333 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 74/262 (28%), Positives = 130/262 (49%), Gaps = 31/262 (11%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ VLAK G + AH L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A+ Sbjct: 83 KRDLKVLAK----EGKKARAH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAM 137 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-Q 147 +KFD +GF+ +TY+ WWI+ A+ + +++ ++ +L R + HL + Sbjct: 138 EKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGR 197 Query: 148 AITDNNLKPEQVVAIAK--KLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDW 203 T+ L E + +K L + +S++ + DE L I S+ + Sbjct: 198 EATNEELAEESGIEESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA----- 252 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSE 261 E ++ + R++L S L RE+ + R E+ P TL+ + Sbjct: 253 --------ETAVVASMRHSDIRSVL----STLEQREQDVIRLRYGLEDGVPRTLDQIGRR 300 Query: 262 FEVSRERVRQIEARAFKKVQES 283 F +SRERVRQIE K+++ Sbjct: 301 FGLSRERVRQIEREVMSKLRDG 322 >gi|313812944|gb|EFS50658.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL025PA1] Length = 511 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 144/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 203 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 262 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 263 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 322 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 381 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 ++ ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 382 LASELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 428 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 429 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 480 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 481 VTRERIRQIESKTMSKLRHPSRSQV 505 >gi|218245053|ref|YP_002370424.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 8801] gi|218165531|gb|ACK64268.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] Length = 375 Score = 85.9 bits (211), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 122/239 (51%), Gaps = 19/239 (7%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 136 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 195 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L +LK + + + +A++L Sbjct: 196 WIRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQRILKQKLQRNPNEKELAQELE 250 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR--- 224 ++ ++ + SLN + + ++ D L ++Q L EE+ N Sbjct: 251 MTPPQLRQLLQLRRQSLSLNHRVGKGE--DTELVDLL------EDQDLQLPEEQMNEGML 302 Query: 225 RNMLTRSMS-VLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 RN ++ +S VL RE+ + R P TLE + F +SRERVRQI+++A +K+ Sbjct: 303 RNEISAVLSDVLTEREKDVISLRYGLSTSQPHTLEEVGGMFNLSRERVRQIQSKAMRKL 361 >gi|254281823|ref|ZP_04956791.1| RNA polymerase, sigma 70 subunit, RpoD family [gamma proteobacterium NOR51-B] gi|219678026|gb|EED34375.1| RNA polymerase, sigma 70 subunit, RpoD family [gamma proteobacterium NOR51-B] Length = 603 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 116/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 365 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 424 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++ + Sbjct: 425 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMEM 479 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D ++ + Sbjct: 480 PEDKVRKV-LKIAK-EPISMETPIGDDEDSSLGDFI---EDVTIASPVDSATEEGLTEAT 534 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 T ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 535 TDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 589 >gi|298253932|ref|ZP_06977519.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis 5-1] gi|297532075|gb|EFH71050.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis 5-1] Length = 489 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 69/251 (27%), Positives = 125/251 (49%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 251 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 310 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAI----TDNNLKPEQVVAIA 163 I+ A+ + +++ + + L R++ LQ + T + L E + + Sbjct: 311 IRQAITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVE 368 Query: 164 KKLNVSE--SEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 K V + E IS++ L GD LI +D + D L++++ Sbjct: 369 KVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDA---------IAPSDAVAFSLLQEQ 419 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R+ + L PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 420 FRQ--------VLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 471 Query: 278 KKVQESIQKQV 288 K++ + Q Sbjct: 472 SKLRHPSRSQT 482 >gi|78212534|ref|YP_381313.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78196993|gb|ABB34758.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] Length = 309 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 72/249 (28%), Positives = 123/249 (49%), Gaps = 31/249 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++TS+LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 67 AKNQMITSNLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 126 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQV-----VA 161 I+ + + ++I N+K LR K L + N L P EQ+ + Sbjct: 127 IRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKARL--MQRNGLSPSGEQLAEFMEIP 182 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 IA+ ++ E+ S+ L G + S + S+ D L D E +E+ E Sbjct: 183 IAEVEDLLACELRSVTVSLQG-------VVKSKSDPSELVDVLPSD----ELPPMERAEI 231 Query: 222 KNRR----NMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEA 274 R ++L ++ L P+E + R + TL ++ SRE RQ+ Sbjct: 232 AERTASVWSLLAKAN--LTPKEHTVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQ 289 Query: 275 RAFKKVQES 283 RA +K++++ Sbjct: 290 RALRKLRKT 298 >gi|315078017|gb|EFT50068.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL053PA2] Length = 511 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 144/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 203 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 262 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 263 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 322 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 381 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 ++ ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 382 LASELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 428 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 429 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 480 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 481 VTRERIRQIESKTMSKLRHPSRSQV 505 >gi|198284073|ref|YP_002220394.1| RNA polymerase sigma-70 subunit RpoD [Acidithiobacillus ferrooxidans ATCC 53993] gi|198248594|gb|ACH84187.1| RNA polymerase, sigma 70 subunit, RpoD [Acidithiobacillus ferrooxidans ATCC 53993] Length = 631 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 113/241 (46%), Gaps = 23/241 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 386 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 445 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + PE++ Sbjct: 446 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPSPEELAERMEMPED 503 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE + D+N + D V + E E Sbjct: 504 KIRKVLKIAK-EPISMETPIGDDEDSHLGDFIEDRNVTAPADSAV------NAAIREVVE 556 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R VL R F ++ TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 557 ELLDNGLTAREAKVLRMR----FGIGMNTDH--TLEEVGKQFDVTRERIRQIEAKALRKL 610 Query: 281 Q 281 + Sbjct: 611 R 611 >gi|313838731|gb|EFS76445.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL086PA1] Length = 511 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 144/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 203 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 262 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 263 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 322 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 381 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 ++ ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 382 LASELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 428 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 429 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 480 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 481 VTRERIRQIESKTMSKLRHPSRSQV 505 >gi|295700891|ref|YP_003608784.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] gi|295440104|gb|ADG19273.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] Length = 665 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 119/246 (48%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 427 AKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +A+++ + Sbjct: 487 VRQAVTRSLADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHP---AVLAERMEL 541 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 SE +V +S+ + GD +L +I D S D + Sbjct: 542 SEEKVRGILKIAKQPVSLETPVGDDGDATLGDMIE--DAAVSSPADAAM----------- 588 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 + + R + ++ L+PRE ++ R ++ TLE + +F+V+RER+RQIE+ Sbjct: 589 ----QADLRAAIDDALDSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIES 644 Query: 275 RAFKKV 280 +A +K+ Sbjct: 645 KAMRKL 650 >gi|314960003|gb|EFT04105.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL002PA2] Length = 511 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 144/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 203 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 262 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 263 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 322 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 381 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 ++ ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 382 LASELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 428 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 429 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 480 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 481 VTRERIRQIESKTMSKLRHPSRSQV 505 >gi|973980|gb|AAB05357.1| RNA polymerase sigma factor [Cyanidium caldarium] Length = 609 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 72/266 (27%), Positives = 132/266 (49%), Gaps = 36/266 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV +A + GL + +++ EG+IGL++ ++FD GFR +TY+MWW Sbjct: 333 ARESLVAANLRLVVSVAKQFTNRGLSMQDLIQEGSIGLIKGAERFDYRTGFRFSTYAMWW 392 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI-----TDNNLKPEQVVAIA 163 I+ AMQ I + ++I +T L + R + L + TD L +++ Sbjct: 393 IRQAMQRAIADTSRPIRIPSTITD--LSVQIYRARLELSSTLGRDPTDAELADFLDISVQ 450 Query: 164 K----KLNVSESEVISMNCRLAGDESLNALINS-----SDKNSSQWQDWLVYDHDGQEQV 214 + KL ++S +S++ ++ + N I S +D SS+ L + G Sbjct: 451 RLQDVKLYTNQSATVSLDAPVSR-QVTNTCIKSKGTGDTDVFSSKADGKLSKNGYGSRHK 509 Query: 215 L--------IEKEERKNRRNMLTRS---------MSVLNPRERRIFEAR-RLQENPV-TL 255 L ++ +E + +M+ S +S+LNP ER + R L + + ++ Sbjct: 510 LGDFTLGDTVQTDESVSPEHMMADSLMRDDIECALSLLNPYEREVIRMRFGLDDGRMKSV 569 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + + V R+R+IEARA +K++ Sbjct: 570 DEVCAYYCVQTSRIRRIEARALRKLR 595 >gi|313764456|gb|EFS35820.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL013PA1] gi|313772162|gb|EFS38128.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL074PA1] gi|313792142|gb|EFS40243.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA1] gi|313801905|gb|EFS43139.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA2] gi|313807517|gb|EFS46004.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL087PA2] gi|313815995|gb|EFS53709.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL059PA1] gi|313818559|gb|EFS56273.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL046PA2] gi|313820326|gb|EFS58040.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL036PA1] gi|313822867|gb|EFS60581.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL036PA2] gi|313825201|gb|EFS62915.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL063PA1] gi|313827777|gb|EFS65491.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL063PA2] gi|313830354|gb|EFS68068.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL007PA1] gi|313833727|gb|EFS71441.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL056PA1] gi|314915449|gb|EFS79280.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA4] gi|314918269|gb|EFS82100.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL050PA1] gi|314920081|gb|EFS83912.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL050PA3] gi|314925214|gb|EFS89045.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL036PA3] gi|314931603|gb|EFS95434.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL067PA1] gi|314955756|gb|EFT00156.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL027PA1] gi|314958170|gb|EFT02273.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL002PA1] gi|314962801|gb|EFT06901.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL082PA1] gi|314967832|gb|EFT11931.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL037PA1] gi|314973358|gb|EFT17454.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL053PA1] gi|314976037|gb|EFT20132.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL045PA1] gi|314978425|gb|EFT22519.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL072PA2] gi|314983942|gb|EFT28034.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA1] gi|314988126|gb|EFT32217.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA2] gi|314989931|gb|EFT34022.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA3] gi|315080641|gb|EFT52617.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL078PA1] gi|315084314|gb|EFT56290.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL027PA2] gi|315085657|gb|EFT57633.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL002PA3] gi|315088921|gb|EFT60897.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL072PA1] gi|315095903|gb|EFT67879.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL038PA1] gi|315098534|gb|EFT70510.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL059PA2] gi|315101108|gb|EFT73084.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL046PA1] gi|315105654|gb|EFT77630.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL030PA1] gi|315108328|gb|EFT80304.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL030PA2] gi|327326185|gb|EGE67975.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL096PA2] gi|327330255|gb|EGE72004.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL097PA1] gi|327331940|gb|EGE73677.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL096PA3] gi|327443141|gb|EGE89795.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL013PA2] gi|327445925|gb|EGE92579.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL043PA2] gi|327448095|gb|EGE94749.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL043PA1] gi|327450784|gb|EGE97438.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL087PA3] gi|327453139|gb|EGE99793.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL092PA1] gi|327453872|gb|EGF00527.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL083PA2] gi|328753472|gb|EGF67088.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL020PA1] gi|328754202|gb|EGF67818.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL087PA1] gi|328754546|gb|EGF68162.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL025PA2] gi|328760854|gb|EGF74420.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL099PA1] Length = 511 Score = 85.5 bits (210), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 144/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 203 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 262 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 263 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 322 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 381 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 ++ ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 382 LASELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 428 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 429 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 480 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 481 VTRERIRQIESKTMSKLRHPSRSQV 505 >gi|67925121|ref|ZP_00518496.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67853040|gb|EAM48424.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 374 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 120/247 (48%), Gaps = 21/247 (8%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +R H A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ Sbjct: 128 HRLHKGRIAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYK 187 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ WWI+ A+ I +++ +K L +LK + + + Sbjct: 188 FSTYAYWWIRQAITRTIANDARTIRLPIHVVEK-----LNKLKKAQRVLKQKLQRNPNEK 242 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 +A +L V+ ++ + SLN + + ++ D L ++Q L EE Sbjct: 243 ELADELEVTPPQLRQLLQLRRQSLSLNHRVGKGE--DTELVDLL------EDQDLQLPEE 294 Query: 221 RKNRRNMLTRSMS-----VLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 N ML +S VL RE+ + R P TLE + F +SRERVRQI+ Sbjct: 295 LMN-EGMLQYEVSAVLSDVLTQREKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQ 353 Query: 274 ARAFKKV 280 ++A +K+ Sbjct: 354 SKAMRKL 360 >gi|258593489|emb|CBE69828.1| RNA polymerase sigma factor rpoD (Sigma-80) [NC10 bacterium 'Dutch sediment'] Length = 654 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 120/235 (51%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 416 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMRAVDKFEYQRGYKFSTYATWW 475 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I ++I + L R +L PE+ IA+K+++ Sbjct: 476 VRQAITRAIADQARTIRI--PVHMIETINKLTRASRYLVQEFGREPTPEE---IAQKIDL 530 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +V + ++A E ++ ++ S D++ D IE N Sbjct: 531 PVDKVRKV-LKIA-QEPISLETPIGEEEGSHLGDFI---EDKGVISPIEAVIGMNLSGQT 585 Query: 229 TRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L RE++I + R L + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 586 EQVLETLTEREQKILKLRFGLGDGRDHTLEEVGQQFDVTRERIRQIEAKALRKLR 640 >gi|281421843|ref|ZP_06252842.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281404085|gb|EFB34765.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 136 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 46/119 (38%), Positives = 76/119 (63%), Gaps = 9/119 (7%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPI 75 RY+ +I + P+L EE LA++ R+ G A +L+ ++LR VV +A Y+ GL + Sbjct: 17 RYLMKIGREPLLSHDEELELARKIRKGGSEGERAKEKLIRANLRFVVSVAKRYQHRGLAL 76 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGT 128 ++++ EGNIGL++AV++FD RGF+ Y++WWI+ ++ Q +I R SL KIG+ Sbjct: 77 TDLIDEGNIGLIKAVERFDETRGFKFIQYAIWWIRQSILQAIAEQNHITRI-SLDKIGS 134 >gi|50842515|ref|YP_055742.1| RNA polymerase sigma factor [Propionibacterium acnes KPA171202] gi|289425323|ref|ZP_06427100.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK187] gi|289427207|ref|ZP_06428923.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J165] gi|295130592|ref|YP_003581255.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK137] gi|50840117|gb|AAT82784.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes KPA171202] gi|289154301|gb|EFD02989.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK187] gi|289159676|gb|EFD07864.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J165] gi|291377120|gb|ADE00975.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK137] gi|332675432|gb|AEE72248.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes 266] Length = 506 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 144/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 198 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 257 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 258 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 316 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 317 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 376 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 ++ ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 377 LASELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 423 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 424 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 475 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 476 VTRERIRQIESKTMSKLRHPSRSQV 500 >gi|260590675|ref|ZP_05856133.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] gi|260537416|gb|EEX20033.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] Length = 290 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 40/114 (35%), Positives = 71/114 (62%), Gaps = 2/114 (1%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA+ + G A +L+ ++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL 130 >gi|209519886|ref|ZP_03268669.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] gi|209499704|gb|EDZ99776.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] Length = 665 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 119/246 (48%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 427 AKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +A+++ + Sbjct: 487 VRQAVTRSLADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHP---AVLAERMEL 541 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 SE +V +S+ + GD +L +I + +S D Q Sbjct: 542 SEEKVRGILKIAKQPVSLETPVGDDGDATLGDMIEDAAVSSPA---------DAAMQA-- 590 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 + R + ++ L+PRE ++ R ++ TLE + +F+V+RER+RQIE+ Sbjct: 591 ------DLRAAIDDALDSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIES 644 Query: 275 RAFKKV 280 +A +K+ Sbjct: 645 KAMRKL 650 >gi|86145220|ref|ZP_01063551.1| RpoS-like sigma factor [Vibrio sp. MED222] gi|85836797|gb|EAQ54917.1| RpoS-like sigma factor [Vibrio sp. MED222] Length = 298 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 73/278 (26%), Positives = 142/278 (51%), Gaps = 23/278 (8%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGL 73 + Y+ +I I +L +++E AK R GD A ++ S+LRLVVKIA Y +G Sbjct: 30 AHYLKDIVGIDLLSREDELYYAKLNRA-GDKHARDIMIESNLRLVVKIAKSYLKRKGNNF 88 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +++ EGNIGL++A+ K+DPE G+R +TY++WWI+ ++ ++ V++ ++ Sbjct: 89 TLLDLIEEGNIGLIKAIDKYDPEPGYRFSTYAVWWIRENIEAALMNKGRTVRLPAHVCKE 148 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS--ESEVISMNCRLAGDESLNALIN 191 ++L D + K + ++I++ N+S ++E + L+G + + Sbjct: 149 INSLASKKL--------DVSKKMRKEISISELSNISGVKAERVDQLVALSGFIDVTTTVG 200 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE 250 S Q Y D Q+ E ++ + L + ++ L P+ +++ R + Sbjct: 201 ISHAPLVLEQCESEYIPDPQQDC-----EDQSFTHALEQIINTLPPKLQKVLIHRFGFFD 255 Query: 251 NPV-TLENLSS--EFEVSRERVRQIEARAFKKVQESIQ 285 N V TL + + VS ERVRQ++ A +++Q+ ++ Sbjct: 256 NKVKTLSEVGQMLDVNVSNERVRQMQKEAVERIQKRLK 293 >gi|282859310|ref|ZP_06268422.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] gi|282587890|gb|EFB93083.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] Length = 290 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 40/114 (35%), Positives = 71/114 (62%), Gaps = 2/114 (1%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA+ + G A +L+ ++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL 130 >gi|297243591|ref|ZP_06927522.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis AMD] gi|296888342|gb|EFH27083.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis AMD] Length = 489 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 69/251 (27%), Positives = 125/251 (49%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 251 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 310 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAI----TDNNLKPEQVVAIA 163 I+ A+ + +++ + + L R++ LQ + T + L E + + Sbjct: 311 IRQAITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVE 368 Query: 164 KKLNVSE--SEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 K V + E IS++ L GD LI +D + D L++++ Sbjct: 369 KVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDA---------IAPSDAVAFSLLQEQ 419 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R+ + L PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 420 FRQ--------VLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 471 Query: 278 KKVQESIQKQV 288 K++ + Q Sbjct: 472 SKLRHPSRSQT 482 >gi|186681941|ref|YP_001865137.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186464393|gb|ACC80194.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 339 Score = 85.5 bits (210), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 58/231 (25%), Positives = 114/231 (49%), Gaps = 13/231 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV +A Y+ L +++ EG +GL + V KFDP G++ +TY+ WW Sbjct: 104 AKQKMIQANLRLVVAVAKKYQHRNLEFMDLIQEGTLGLERGVDKFDPALGYKFSTYAYWW 163 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I + +++ +F L ++K + ++ + IA L++ Sbjct: 164 IRQGITRAIAQQGRTIRLPI-----HVFEKLNKIKRVQRELSQQLGRVPTTAEIANALSL 218 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + S+V C + + ++ ++ QD L D E +E+ ++ +++L Sbjct: 219 TPSQV--RECLYLARQPFSLEARVGEQQDTELQDILEDDGPSPEDYAVEESLHQDLQDLL 276 Query: 229 TRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 + L+P++R I R L + ++L + +SRERVRQIE +A Sbjct: 277 AK----LSPQQREILTLRFGLTDGYELSLAQIGDRMGISRERVRQIEQKAL 323 >gi|325269444|ref|ZP_08136061.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] gi|325855020|ref|ZP_08171736.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] gi|327313288|ref|YP_004328725.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola F0289] gi|324988365|gb|EGC20331.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] gi|325483998|gb|EGC86938.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] gi|326946004|gb|AEA21889.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola F0289] Length = 290 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 40/114 (35%), Positives = 71/114 (62%), Gaps = 2/114 (1%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA+ + G A +L+ ++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL 130 >gi|68536171|ref|YP_250876.1| RNA polymerase sigma factor SigB [Corynebacterium jeikeium K411] gi|260578869|ref|ZP_05846775.1| RNA polymerase principal sigma factor SigB [Corynebacterium jeikeium ATCC 43734] gi|68263770|emb|CAI37258.1| RNA polymerase sigma factor B [Corynebacterium jeikeium K411] gi|258603016|gb|EEW16287.1| RNA polymerase principal sigma factor SigB [Corynebacterium jeikeium ATCC 43734] Length = 343 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 77/284 (27%), Positives = 139/284 (48%), Gaps = 37/284 (13%) Query: 13 EIGL-SRYI-HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E+GL S Y+ K+ +K++ VLA+ G + +H L+ ++LRLVV +A Y G Sbjct: 73 EVGLYSEYLLSNAEKLTRAKKRDLKVLAR----EGKAARSH-LLEANLRLVVSLAKRYTG 127 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Sbjct: 128 RGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHL 187 Query: 131 NQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVAIAK-KLNVSES-EVISMNCRLAGD 183 ++ L R+K + + T+ L E + +K ++ + +S + +S++ + D Sbjct: 188 VEQ--VNKLSRIKREMYQQLGREATNEELSEESGIEESKIEMLLKQSRDPVSLDMPVGSD 245 Query: 184 ES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 E L I SD ++ H VL L RE+ Sbjct: 246 EEAPLGDFIEDSDATDAETAVVASLRHSDVRAVL-----------------GTLEEREQD 288 Query: 242 IFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + R ++ P TL+ + F +SRERVRQIE K++E Sbjct: 289 VIKLRYGLDDGMPRTLDQIGRRFGLSRERVRQIEREVMAKLREG 332 >gi|296268951|ref|YP_003651583.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296091738|gb|ADG87690.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 311 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 49/147 (33%), Positives = 79/147 (53%), Gaps = 29/147 (19%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKR-----YREH-----------GDLS----------- 48 L Y+ EI ++P+L +EE LAKR + E+ GD + Sbjct: 18 LGTYLAEIGRVPLLTAEEEVELAKRIEAGLFAEYLLDSALTEPRIGDATDEELERIAISG 77 Query: 49 --AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A + ++LRLVV +A Y G G+P+ ++V EGN+GL++AV+KFD RG++ +TY+ Sbjct: 78 RRAKDEFIKANLRLVVAVARKYAGRGMPLIDLVQEGNVGLVRAVEKFDYRRGYKFSTYAT 137 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQK 133 WWI+ A+ I V++ T A ++ Sbjct: 138 WWIRQAVGRSIHEQGRPVRLPTHAGEQ 164 >gi|283783165|ref|YP_003373919.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 409-05] gi|283441732|gb|ADB14198.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 409-05] Length = 489 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/251 (27%), Positives = 125/251 (49%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 251 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 310 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAI----TDNNLKPEQVVAIA 163 I+ A+ + +++ + + L R++ LQ + T + L E + + Sbjct: 311 IRQAITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVE 368 Query: 164 KKLNVSE--SEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 K V + E IS++ L GD LI +D + D L++++ Sbjct: 369 KVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDA---------IAPSDAVAFSLLQEQ 419 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R+ + L PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 420 FRQ--------VLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 471 Query: 278 KKVQESIQKQV 288 K++ + Q Sbjct: 472 SKLRHPSRSQT 482 >gi|239996603|ref|ZP_04717127.1| RNA polymerase sigma factor [Alteromonas macleodii ATCC 27126] Length = 382 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 123/246 (50%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 144 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 203 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + +++ L PE Sbjct: 204 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELSERMLMPED-- 261 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ ++ +I+ + Sbjct: 262 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI------EDSTIIQPLD 302 Query: 221 RKNRRNMLTRSMSV---LNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 ++ + V L RE ++ R + N TLE + +F+V+RER+RQIEA+ Sbjct: 303 SATGGSLKDATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 362 Query: 276 AFKKVQ 281 A +K++ Sbjct: 363 ALRKLR 368 >gi|317969234|ref|ZP_07970624.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0205] Length = 311 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 120/241 (49%), Gaps = 17/241 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 66 AKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 125 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP-EQVVAIAKKLN 167 I+ + + ++I N+K LR K L + N + P Q +A A L Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEK--LTRLRAAKARL--MQRNGMAPNSQQLATALGLP 181 Query: 168 VSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + E E + + C L + SL ++ S + LV ++ +E+ E R Sbjct: 182 LDEIEDL-LGCELRSVTVSLQGIVKSKSDPTE-----LVDVLPSEDLPPMERCELAERNA 235 Query: 227 MLTRSM--SVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + S L P+ER + R + TL ++ SRE RQ+ RA +K++ Sbjct: 236 AVWKLLDQSNLTPKERTVVMLRFGLDGSHEWRTLAEVARLLGCSREYCRQVVQRALRKLR 295 Query: 282 E 282 + Sbjct: 296 K 296 >gi|221134905|ref|ZP_03561208.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola sp. HTCC2999] Length = 607 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 122/246 (49%), Gaps = 34/246 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 369 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 428 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLRRLKGH---LQAITDNNLKPEQVV 160 I+ A+ I ++I T N+ R+ + + G + +++ + PE Sbjct: 429 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELSERMIMPED-- 486 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I K L +++ E ISM + DE S D++ ++ +I+ + Sbjct: 487 KIRKVLKIAK-EPISMETPIGDDE------------DSHLGDFI------EDNTIIQPLD 527 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEAR 275 ++ + VL +R + R++ TLE + +F+V+RER+RQIEA+ Sbjct: 528 SATGGSLKDATQDVLAGLTQREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 587 Query: 276 AFKKVQ 281 A +K++ Sbjct: 588 ALRKLR 593 >gi|78184480|ref|YP_376915.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78168774|gb|ABB25871.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] Length = 309 Score = 85.5 bits (210), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/248 (29%), Positives = 120/248 (48%), Gaps = 29/248 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 67 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 126 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + + ++I N+K LR K + EQ +A+ +NV Sbjct: 127 IRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKARIMQRNGLTATGEQ---LAEFMNV 181 Query: 169 SESEVIS-MNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +EV + C L + SL ++ S + S+ D L D I ER Sbjct: 182 PLTEVEDLLACELRSVTVSLQGIVKSKS-DPSELVDILPSDE-------IPPMERA---E 230 Query: 227 MLTRSMSV--------LNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEAR 275 + RS SV L P+E ++ R + TL ++ SRE RQ+ R Sbjct: 231 IAERSASVWALLSKANLTPKEHKVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQR 290 Query: 276 AFKKVQES 283 A +K++++ Sbjct: 291 ALRKLRKT 298 >gi|289178873|gb|ADC86119.1| HrdB [Bifidobacterium animalis subsp. lactis BB-12] Length = 522 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/302 (24%), Positives = 147/302 (48%), Gaps = 45/302 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDL-----------------SAAH 51 Y+ +I ++ +L ++E L++R Y +H GD A Sbjct: 227 YLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMEFRRKRELKWAAADGKKAKD 286 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ Sbjct: 287 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWWIRQ 346 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + +++ + + L R++ + P++ +A++L++ Sbjct: 347 AITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDE---LARELDMPVE 401 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNRRNML 228 +V + G E ++ + S++ D L+ D D E V + + R+ + Sbjct: 402 KV--QEVQKYGREPISLHTPLGEDGDSEFGD-LIEDTDAIAPSEAVAFSLLQEQFRQVLE 458 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 T L+PRE + + R E+ P TL+++ + V+RER+RQIE++ K++ + Sbjct: 459 T-----LSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRS 513 Query: 287 QV 288 Q Sbjct: 514 QT 515 >gi|218962087|ref|YP_001741862.1| RNA polymerase sigma factor [Candidatus Cloacamonas acidaminovorans] gi|167730744|emb|CAO81656.1| RNA polymerase sigma factor [Candidatus Cloacamonas acidaminovorans] Length = 579 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 119/238 (50%), Gaps = 17/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++ +++RLV+ IA Y GL +++ EGN GLM+AV+K+D +G++ +TY+ WW Sbjct: 336 AQNEMIEANVRLVISIAKHYNNRGLEFLDLIQEGNTGLMRAVEKYDYRKGYKFSTYATWW 395 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + + R L PE+ I++ L++ Sbjct: 396 IRQAITRAIADQARTIRIPVHMIES--INKINRTSRRLMQKLGREPYPEE---ISEVLDI 450 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE---ERKNRR 225 ++ ++ SL+ I D S D++ +++ +I E ER + Sbjct: 451 PVEKIKNIMSISKEPVSLDKPI-GHDSEDSILGDFI------EDRTIISPERLAERSLLK 503 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L PRE R+ R ++ TLE + + F+V+RER+RQIE +A KK++ Sbjct: 504 KQVDEVLKTLTPREERVIRLRFGIDDGYHRTLEEVGNIFQVTRERIRQIEDKALKKLR 561 >gi|67810071|gb|AAY81984.1| RNase polymerase sigma factor [Wolbachia pipientis] Length = 571 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/254 (29%), Positives = 122/254 (48%), Gaps = 27/254 (10%) Query: 32 QEEYVLAKRYREHG-DLS-AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 334 QEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKA 393 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHL- 146 V KFD +RG++ +TY WW++ ++ I +V+I + ++ LR++ + Sbjct: 394 VDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMG 453 Query: 147 QAITDNNLKPEQVVA---IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 + T L E + I K + ++ V S+ D+S DK S+ +D Sbjct: 454 REPTLEELSVELTMPLERIRKVMKIARDPV-SLEAPTGKDDSSTFGDCIEDKRVSRPEDA 512 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSS 260 + + R + T ++ L P+E RI R TLE + Sbjct: 513 AIL---------------ADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGK 557 Query: 261 EFEVSRERVRQIEA 274 F V+RER+RQIEA Sbjct: 558 IFNVTRERIRQIEA 571 >gi|297843640|ref|XP_002889701.1| hypothetical protein ARALYDRAFT_470915 [Arabidopsis lyrata subsp. lyrata] gi|297335543|gb|EFH65960.1| hypothetical protein ARALYDRAFT_470915 [Arabidopsis lyrata subsp. lyrata] Length = 572 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 128/242 (52%), Gaps = 17/242 (7%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HG L +++ S++RLV+ IA Y+G G+ + ++V EG GL++ +KFD +GF+ +T Sbjct: 328 HGTL-CKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFST 386 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWIK A+++ + ++++ + + ++ + L + T + K E+ IA Sbjct: 387 YAHWWIKQAVRKSLSDQSRMIRL--PFHMVEATYRVKEARKQLYSETGKHPKNEE---IA 441 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEER 221 + +S ++++ SL+ I N + ++ D + E +LI++ R Sbjct: 442 EATGLSMKRLMAVLLSPKPPRSLDQKIG---MNQNLKPSEVIADPEAVTSEDILIKEFMR 498 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L + + L RE+++ R E+ TL+ + VSRERVRQIE+ AF+K Sbjct: 499 QD----LDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRK 554 Query: 280 VQ 281 ++ Sbjct: 555 LK 556 >gi|257457793|ref|ZP_05622954.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] gi|257444843|gb|EEV19925.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] Length = 607 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 79/262 (30%), Positives = 125/262 (47%), Gaps = 40/262 (15%) Query: 36 VLAKRYREHGDL---SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 LAK R HG A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 354 ALAKEIR-HGHAMLKKAKDKLINANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEK 412 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI---------GTTANQKRLFFNLRRLK 143 F+ +G++ +TY+ WWI+ A+ I +++ T ++L R Sbjct: 413 FEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLMQKFGREP 472 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSD-KNSSQW 200 + E+V + NV+ E IS+ + +E SL I D +N S Sbjct: 473 TDEEIAVQLGWNVERVKQVK---NVA-REPISLETPIGEEEDSSLGDFIEDKDVENPSNL 528 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENL 258 ++++ QEQ L +S L RE+ + + R L E +TLE + Sbjct: 529 TEYILL----QEQ--------------LRSVLSCLPLREQEVLKMRFGLDEGYALTLEEV 570 Query: 259 SSEFEVSRERVRQIEARAFKKV 280 F V+RER+RQIEA+A +++ Sbjct: 571 GLYFNVTRERIRQIEAKALRRL 592 >gi|224068757|ref|XP_002326192.1| predicted protein [Populus trichocarpa] gi|222833385|gb|EEE71862.1| predicted protein [Populus trichocarpa] Length = 535 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/243 (25%), Positives = 128/243 (52%), Gaps = 28/243 (11%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L+ ++LR+VV IA Y+ GL + +++ EG +GLM++++KF P+ G R ATY+ WWI+ Sbjct: 298 KLINANLRMVVHIAKRYQNRGLGLQDLLQEGTVGLMKSIEKFKPQAGCRFATYAYWWIRQ 357 Query: 112 AMQEYILRSWSLVK--------IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + + I + ++ +G KR + I + N +P IA Sbjct: 358 TITKAIFQHSRTIRLPENVYGLLGKVMEAKRSY------------IQEGNHQP-TAEEIA 404 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +++ ++ ++ + C S+ + SD+N++ + + + + + ++ RK+ Sbjct: 405 RRVGIAIDKLEKLLCFTRTPLSMQQTV-WSDQNTTFQEITADTEIEIPDMSVAKQLMRKH 463 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L ++L+ +ERRI R E+ +L + + F +S+ERVRQ+E+RA K++ Sbjct: 464 IRGLL----NILSLKERRIIRLRFGIEDGKQKSLSEIGNVFGLSKERVRQLESRALYKLK 519 Query: 282 ESI 284 + + Sbjct: 520 QCV 522 >gi|255565968|ref|XP_002523972.1| RNA polymerase sigma factor rpoD1, putative [Ricinus communis] gi|223536699|gb|EEF38340.1| RNA polymerase sigma factor rpoD1, putative [Ricinus communis] Length = 569 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 133/249 (53%), Gaps = 31/249 (12%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HG + +++ S++RLV+ IA Y+G G+ + ++V EG GL++ +KFD +GF+ +T Sbjct: 327 HGTI-CKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFST 385 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL-----RRLKGHLQAITDNNLKP-E 157 Y+ WWIK A+++ + + RL F++ R + Q ++N P + Sbjct: 386 YAHWWIKQAVRK---------SLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPDD 436 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQ--EQV 214 + VA A L++ + + + SL+ I + D S+ ++ D + + E++ Sbjct: 437 EEVAEAAGLSMKRLSAVLLTPK--APRSLDQKIGMNMDLKPSE----VIADPEAETAEEL 490 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQI 272 L+++ +++ L + ++ LNPRE ++ R E+ TL+ + VSRER+RQI Sbjct: 491 LMKQFMKQD----LEKVLNTLNPRETQVVRWRFGLEDGRMKTLQEIGEIMGVSRERIRQI 546 Query: 273 EARAFKKVQ 281 E+ AF+K++ Sbjct: 547 ESSAFRKLK 555 >gi|254517369|ref|ZP_05129426.1| RNA polymerase sigma factor RpoD [gamma proteobacterium NOR5-3] gi|219674207|gb|EED30576.1| RNA polymerase sigma factor RpoD [gamma proteobacterium NOR5-3] Length = 607 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 119/238 (50%), Gaps = 18/238 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 367 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 426 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++ + Sbjct: 427 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMEM 481 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ ++Q + + + ++ Sbjct: 482 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI------EDQTINSPIDAATGQGLM 533 Query: 229 TRSMSV---LNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + V L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 534 EATKDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 591 >gi|15223259|ref|NP_172330.1| SIG2 (RNA POLYMERASE SIGMA SUBUNIT 2); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|6664315|gb|AAF22897.1|AC006932_14 T27G7.22 [Arabidopsis thaliana] gi|9802550|gb|AAF99752.1|AC003981_2 F22O13.2 [Arabidopsis thaliana] gi|2443357|dbj|BAA22427.1| SigB [Arabidopsis thaliana] gi|2597831|emb|CAA75584.1| sigma factor [Arabidopsis thaliana] gi|2879922|dbj|BAA24825.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana] gi|5478446|dbj|BAA82449.1| sigma factor SigB [Arabidopsis thaliana] gi|133778838|gb|ABO38759.1| At1g08540 [Arabidopsis thaliana] gi|332190182|gb|AEE28303.1| RNApolymerase sigma subunit 2 [Arabidopsis thaliana] Length = 572 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 128/242 (52%), Gaps = 17/242 (7%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HG L +++ S++RLV+ IA Y+G G+ + ++V EG GL++ +KFD +GF+ +T Sbjct: 328 HGTL-CKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFST 386 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWIK A+++ + ++++ + + ++ + L + T + K E+ IA Sbjct: 387 YAHWWIKQAVRKSLSDQSRMIRL--PFHMVEATYRVKEARKQLYSETGKHPKNEE---IA 441 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEER 221 + +S ++++ SL+ I N + ++ D + E +LI++ R Sbjct: 442 EATGLSMKRLMAVLLSPKPPRSLDQKIG---MNQNLKPSEVIADPEAVTSEDILIKEFMR 498 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L + + L RE+++ R E+ TL+ + VSRERVRQIE+ AF+K Sbjct: 499 QD----LDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRK 554 Query: 280 VQ 281 ++ Sbjct: 555 LK 556 >gi|260435993|ref|ZP_05789963.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] gi|260413867|gb|EEX07163.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] Length = 309 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 73/260 (28%), Positives = 128/260 (49%), Gaps = 31/260 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++++TS+LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 67 AKNQMITSNLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 126 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQV-----VA 161 I+ + + ++I N+K LR K L + N L P EQ+ + Sbjct: 127 IRQGLNRALSTQSRTIRIPVNVNEK--LTKLRAAKARL--MQRNGLSPSGEQLAEFMEIP 182 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 IA+ ++ E+ S+ L G + S + S+ D L +E +E+ E Sbjct: 183 IAEVEDLLACELRSVTVSLQG-------VVKSKSDPSELVDVL----PSEELPPLERAEI 231 Query: 222 KNRR----NMLTRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEA 274 R ++L ++ L P+E + R + TL ++ SRE RQ+ Sbjct: 232 AERTASAWSLLAKAN--LTPKEHTVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQ 289 Query: 275 RAFKKVQESIQKQVELSSSP 294 RA +K++++ + + S+P Sbjct: 290 RALRKLRKTGIQSGLVESTP 309 >gi|297736323|emb|CBI24961.3| unnamed protein product [Vitis vinifera] Length = 319 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/249 (26%), Positives = 125/249 (50%), Gaps = 40/249 (16%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R+ S+ RLVV IA Y+G GL + +++ EG+IGL++ ++FDP+RG++L+TY WWI+ Sbjct: 84 ERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWWIR 143 Query: 111 AAM------QEYILR-SWSLVKIGTTANQKRLFFN--LRRLKGH--LQAITDNNLKPEQV 159 A+ + I+R S+ ++ + R + LRRL + + D N+ ++ Sbjct: 144 QAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFIDVNVSTVRL 203 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V+ + +S + ++ G +L +I D+ + Q + Sbjct: 204 VSERSRTPISVDQAVTSQ----GCMTLQEIIPGPDETTPQ-----------------KMV 242 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEA 274 +R+ + + R+++ L RE I RL E P++ E + ++SRERVRQI + Sbjct: 243 KRQLMKQEVERALNTLCEREAYIL---RLYFGINGETPLSFEEIGRLMKLSRERVRQINS 299 Query: 275 RAFKKVQES 283 A K++++ Sbjct: 300 IALSKLRQT 308 >gi|307565781|ref|ZP_07628247.1| sigma-70 region 2 [Prevotella amnii CRIS 21A-A] gi|307345508|gb|EFN90879.1| sigma-70 region 2 [Prevotella amnii CRIS 21A-A] Length = 290 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 40/114 (35%), Positives = 71/114 (62%), Gaps = 2/114 (1%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYG 72 L +Y+ EI + PM+ EE LA+ + G A +L+ ++LR VV +A Y+ G Sbjct: 17 ALDKYLVEIGREPMITVDEEIELAQEIHKGGLKGERAKEKLIKANLRFVVSVAKQYQHQG 76 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L +++++ EGNIGL++A +KFD RGF+ +Y++WWI+ ++ + I +V++ Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRL 130 >gi|119474865|ref|ZP_01615218.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] gi|119451068|gb|EAW32301.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] Length = 600 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 115/234 (49%), Gaps = 12/234 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 362 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 421 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++++ Sbjct: 422 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMDM 476 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D ++ + + Sbjct: 477 PEDKVRKV-LKIAK-EPISMETPIGDDEDSHLGDFI---EDNTIAQPVDSATGQGLQEAT 531 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKV 280 + L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K+ Sbjct: 532 KDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 585 >gi|88808921|ref|ZP_01124430.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88786863|gb|EAR18021.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 322 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/293 (24%), Positives = 134/293 (45%), Gaps = 34/293 (11%) Query: 13 EIGLSRYIHEIRKIPMLEKQ------EEYVLAKRYREHGDLSAAH-------------RL 53 EI L R + E+ ++ +E + E VLA + LSA R+ Sbjct: 31 EITLGRQVQELMELESVEAELQEKRGGEAVLAAELAKAAGLSAVQLKRKLQAGRRAKERM 90 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WWI+ + Sbjct: 91 VAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGI 150 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ + L +LK + ++ + V +A + + E EV Sbjct: 151 TRAIAEKSRTIRLPIHITE-----MLNKLKKGQRELSQELGRTPSVTELASFVELPEDEV 205 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSM 232 + CR SL + D + ++ D L D + EQV E + + L + Sbjct: 206 KELMCRARQPVSLE--MKVGDGDDTELLDLLAGDGELPSEQV-----EGECLKGDLRDLL 258 Query: 233 SVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 L + R+ R E P++L ++ ++SR+R R++E + ++++ Sbjct: 259 GQLPELQERVLRMRYGMDGEEPMSLTGIAKTLKMSRDRTRRLEREGLQSLRQA 311 >gi|113474981|ref|YP_721042.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] gi|110166029|gb|ABG50569.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 496 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 60/237 (25%), Positives = 129/237 (54%), Gaps = 16/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++VT++LRLV +A Y+ GL +++ EG IGL++A +KFD +G++ +TY +WW Sbjct: 261 AKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLRATEKFDHTKGYKFSTYGIWW 320 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +V++ L+ + ++K ++ I+ P +A ++ + Sbjct: 321 IRQAITRAICDYSRIVRLPV-----YLYETISQIKKIVKQISI-ECSPLTAEEVATRMEM 374 Query: 169 SESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + +E + A + SL+ IN + + +++ + ++ + + + E +++ ++ Sbjct: 375 T-TEKLQFIIECAQETLSLDYPINKGE--NIIYKEMIKFNGETPTKYVFENCLQEDVESV 431 Query: 228 LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L L RER + + R ++ TL+ + F ++RER+RQIEA+A +K+++ Sbjct: 432 L----KTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALRKLED 484 >gi|226356403|ref|YP_002786143.1| RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] gi|226318393|gb|ACO46389.1| putative RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] Length = 547 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/293 (25%), Positives = 132/293 (45%), Gaps = 38/293 (12%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYRE--------------------------HGDLSAAH 51 +Y+HEI ++ +L +EE LA+R E +A Sbjct: 250 QYLHEIGRVSLLTLEEEIALARRIEEGEEARKLLEEDVELDDRGRRRLMRQMEDGANARQ 309 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ R ++ +TY+ WWI+ Sbjct: 310 GLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYATWWIRQ 369 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSE 170 A+ I ++I + L R LQ E++ A+ + ++ Sbjct: 370 AINRAIADQARTIRI--PVHMVETINKLTRTARQLQQELSREATHEEIAEAMGPGWDAAK 427 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 E + + E ++ D+ S + D++ D +E + L + Sbjct: 428 VEEVQKVSQ----EPVSLETPIGDEKDSFYGDFI---PDENLDSPVENAAKTLLSEELEK 480 Query: 231 SMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++S L RE + + R+ + TLE + F V+RER+RQIE +A +K++ Sbjct: 481 ALSKLTEREAMVLKFRKGLVDGREHTLEEVGQRFSVTRERIRQIENKALRKLK 533 >gi|88704608|ref|ZP_01102321.1| RNA polymerase sigma factor rpoD [Congregibacter litoralis KT71] gi|88700929|gb|EAQ98035.1| RNA polymerase sigma factor rpoD [Congregibacter litoralis KT71] Length = 607 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 115/235 (48%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 367 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 426 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I ++I + L R+ + PE+ + +++ + Sbjct: 427 IRQAITRSIADQARTIRI--PVHMIETINKLNRISRQMLQEMGREPTPEE---LGERMEM 481 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + ++A E ++ D S D++ D I+ + + Sbjct: 482 PEDKVRKV-LKIA-KEPISMETPIGDDEDSHLGDFI---EDQTIHSPIDSATGQGLQEAT 536 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 537 KDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 591 >gi|293189827|ref|ZP_06608541.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces odontolyticus F0309] gi|292821242|gb|EFF80187.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces odontolyticus F0309] Length = 561 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 74/299 (24%), Positives = 142/299 (47%), Gaps = 39/299 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-------------------REHGDL--------SAAH 51 Y+ +I K+ +L ++E LA+R RE +L A + Sbjct: 267 YLKQIGKVSLLNAEQEVDLARRIEAGLYAEYKLKNQADEMTSRERRELHFLAQDGQQAKN 326 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 327 HLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 386 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + ++I + + L R++ + PE+ +AK+L+++ Sbjct: 387 AITRAMADQARTIRI--PVHMVEVINKLARVQRQMLQDLGREPTPEE---LAKELDMTAE 441 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +V+ + G E ++ + S++ D + D + V + + L Sbjct: 442 KVVEVQKY--GREPISLHTPLGEDGDSEFGDLI---EDSEAIVPADAVSFTLLQEQLHHV 496 Query: 232 MSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + L+ RE + R L + P TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 497 LDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 555 >gi|183982017|ref|YP_001850308.1| RNA polymerase sigma factor SigB [Mycobacterium marinum M] gi|183175343|gb|ACC40453.1| RNA polymerase sigma factor SigB [Mycobacterium marinum M] Length = 333 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 80/292 (27%), Positives = 140/292 (47%), Gaps = 56/292 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH--------GD-----LSAAHR-------- 52 Y++ I K +L + E LAKR Y EH GD L+A R Sbjct: 40 YLNGIGKTALLNAEGEVELAKRIEAGLYAEHLLATRKRLGDNRKRELAAVVRDGAEARRH 99 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 100 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 160 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAAESGIPVEKIND 217 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + +E L I ++ S+ E +I + + Sbjct: 218 LLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 264 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE Sbjct: 265 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIE 312 >gi|225450015|ref|XP_002272444.1| PREDICTED: hypothetical protein [Vitis vinifera] Length = 426 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/249 (26%), Positives = 125/249 (50%), Gaps = 40/249 (16%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 R+ S+ RLVV IA Y+G GL + +++ EG+IGL++ ++FDP+RG++L+TY WWI+ Sbjct: 191 ERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWWIR 250 Query: 111 AAM------QEYILR-SWSLVKIGTTANQKRLFFN--LRRLKGH--LQAITDNNLKPEQV 159 A+ + I+R S+ ++ + R + LRRL + + D N+ ++ Sbjct: 251 QAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFIDVNVSTVRL 310 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 V+ + +S + ++ G +L +I D+ + Q + Sbjct: 311 VSERSRTPISVDQAVTSQ----GCMTLQEIIPGPDETTPQ-----------------KMV 349 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEA 274 +R+ + + R+++ L RE I RL E P++ E + ++SRERVRQI + Sbjct: 350 KRQLMKQEVERALNTLCEREAYIL---RLYFGINGETPLSFEEIGRLMKLSRERVRQINS 406 Query: 275 RAFKKVQES 283 A K++++ Sbjct: 407 IALSKLRQT 415 >gi|26452898|dbj|BAC43527.1| putative plastid RNA polymerase sigma-subunit SIG1 [Arabidopsis thaliana] Length = 572 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 128/242 (52%), Gaps = 17/242 (7%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HG L +++ S++RLV+ IA Y+G G+ + ++V EG GL++ +KFD +GF+ +T Sbjct: 328 HGTL-CKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFST 386 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWIK A+++ + ++++ + + ++ + L + T + K E+ IA Sbjct: 387 YAHWWIKQAVRKSLSDQSRMIRL--PFHMVEATYRVKEARKQLYSETGKHPKNEE---IA 441 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEER 221 + +S ++++ SL+ I N + ++ D + E +LI++ R Sbjct: 442 EATGLSMKRLMAVLLSPKPPRSLDQKIG---MNQNLKPSEVIADPEAVTPEDILIKEFMR 498 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L + + L RE+++ R E+ TL+ + VSRERVRQIE+ AF+K Sbjct: 499 QD----LDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRK 554 Query: 280 VQ 281 ++ Sbjct: 555 LK 556 >gi|313140538|ref|ZP_07802731.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum NCIMB 41171] gi|313133048|gb|EFR50665.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum NCIMB 41171] Length = 500 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/251 (27%), Positives = 125/251 (49%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 262 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 321 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAI----TDNNLKPEQVVAIA 163 I+ A+ + +++ + + L R++ LQ + T + L E + + Sbjct: 322 IRQAITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVE 379 Query: 164 KKLNVSE--SEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 K V + E IS++ L GD LI +D + D L++++ Sbjct: 380 KVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQEQ 430 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 431 --------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 482 Query: 278 KKVQESIQKQV 288 K++ + Q Sbjct: 483 SKLRHPSRSQT 493 >gi|162458864|ref|NP_001104924.1| sigma-like factor2B [Zea mays] gi|4336608|gb|AAD17855.1| sigma factor SIG2B [Zea mays] Length = 527 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/256 (25%), Positives = 121/256 (47%), Gaps = 36/256 (14%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +R HG + +R+V S++RLV+ IA + G G+ S+++ +G GL++ +KFD +G Sbjct: 277 RRRLNHG-VYCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKG 335 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---------KRLFFNLRRLKGHLQAI 149 FR +TYS WWIK A+++ +L ++++ + +RL L+RL + + Sbjct: 336 FRFSTYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIA 395 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI--NSSDKNSSQWQDWLVYD 207 D + +V A S S + C D + ++ S++ WL+ Sbjct: 396 VDTGMTIRRVEAAMSLPKYSVSFTSKVGCT---DVTYQEIMPDTSAETAEETLHRWLM-- 450 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVS 265 + + ++ L+PR++++ R E TL ++ VS Sbjct: 451 -----------------KKDVNTALDSLSPRKKQVMRYRFGIEGGRARTLHDIGQLMGVS 493 Query: 266 RERVRQIEARAFKKVQ 281 RER+RQIE AF+K++ Sbjct: 494 RERIRQIELGAFRKLR 509 >gi|23295779|gb|AAN12882.1| principal sigma factor RpoD [Bifidobacterium animalis subsp. lactis] Length = 508 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/302 (24%), Positives = 147/302 (48%), Gaps = 45/302 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDL-----------------SAAH 51 Y+ +I ++ +L ++E L++R Y +H GD A Sbjct: 213 YLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMEFRRKRELKWAAADGKKAKD 272 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ Sbjct: 273 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWWIRQ 332 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + +++ + + L R++ + P++ +A++L++ Sbjct: 333 AITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDE---LARELDMPVE 387 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNRRNML 228 +V + G E ++ + S++ D L+ D D E V + + R+ + Sbjct: 388 KV--QEVQKYGREPISLHTPLGEDGDSEFGD-LIEDTDAIAPSEAVAFSLLQEQFRQVLE 444 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 T L+PRE + + R E+ P TL+++ + V+RER+RQIE++ K++ + Sbjct: 445 T-----LSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRS 499 Query: 287 QV 288 Q Sbjct: 500 QT 501 >gi|99034132|ref|ZP_01314232.1| hypothetical protein Wendoof_01000979 [Wolbachia endosymbiont of Drosophila willistoni TSC#14030-0811.24] Length = 148 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 52/135 (38%), Positives = 82/135 (60%), Gaps = 1/135 (0%) Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQE 212 L E++ AI+ +L+VSE +V+ MN R+A D+SLN I D + + QD + + QE Sbjct: 6 LNNEEIKAISNELSVSEGDVLQMNYRMACKDQSLNDCIKIGDDSKRELQDMIPCNLVSQE 65 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 EE++ + +L +++ LN R R IF +R L EN TL+ LS ++ VSRER+RQ+ Sbjct: 66 VTYQNHEEKELKETILNNALASLNERARDIFISRYLSENIQTLDELSKKYCVSRERIRQL 125 Query: 273 EARAFKKVQESIQKQ 287 +A KV++ IQ + Sbjct: 126 AEQAMAKVKQYIQSE 140 >gi|145295824|ref|YP_001138645.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum R] gi|12958494|gb|AAK09322.1|AF320818_1 sigma factor SigB [[Brevibacterium] flavum] gi|140845744|dbj|BAF54743.1| hypothetical protein [Corynebacterium glutamicum R] Length = 331 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/262 (27%), Positives = 130/262 (49%), Gaps = 31/262 (11%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ VLAK G + +H L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A+ Sbjct: 81 KRDLKVLAK----DGKKARSH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAM 135 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-Q 147 +KFD +GF+ +TY+ WWI+ A+ + +++ ++ +L R + HL + Sbjct: 136 EKFDYSKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGR 195 Query: 148 AITDNNLKPEQVVAIAK--KLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDW 203 T+ L E + +K L + +S++ + DE L I S+ + Sbjct: 196 EATNEELAEESGIEESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA----- 250 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSE 261 E ++ + R +L + L PRE+ + R ++ P TL+ + Sbjct: 251 --------ESAVVASMRHSDIRAVL----NTLEPREQDVIRLRYGLDDGVPRTLDQIGRR 298 Query: 262 FEVSRERVRQIEARAFKKVQES 283 F +SRERVRQIE K+++ Sbjct: 299 FGLSRERVRQIEREVMSKLRDG 320 >gi|16331222|ref|NP_441950.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] gi|1001398|dbj|BAA10020.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 345 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/314 (21%), Positives = 142/314 (45%), Gaps = 72/314 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------------------------YREHGDLS---- 48 Y+HEI ++P+L ++E +L K+ + E DLS Sbjct: 40 YLHEIGRVPLLTHEQEIILGKQVQQMMALLEHKKALADRLGREPSDPEWAEAADLSVTKL 99 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G+ Sbjct: 100 HRYLGQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGY 159 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I + +++ +K L ++K + ++ + Sbjct: 160 KFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEK-----LNKIKKTQRELSQQLGRSATP 214 Query: 160 VAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 +AK L + S++ IS++ R+ D ++ + L + Sbjct: 215 AEVAKALEIDPSQIREYLSLSRQPISLDVRVG------------DNQDTELSELLEDEGV 262 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRE 267 + + ++ R++ +N+L L P+++ + R L + ++L + +SRE Sbjct: 263 SPDAYITQESMRQDLQNLLAE----LTPQQQAVLTMRFGLNDGQELSLAKIGQHLNISRE 318 Query: 268 RVRQIEARAFKKVQ 281 RVRQ+E +A +++ Sbjct: 319 RVRQLENQALAQLK 332 >gi|118463509|ref|YP_882780.1| RNA polymerase sigma factor SigB [Mycobacterium avium 104] gi|254776043|ref|ZP_05217559.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp. avium ATCC 25291] gi|118164796|gb|ABK65693.1| sigma factor SigB [Mycobacterium avium 104] Length = 319 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 81/300 (27%), Positives = 140/300 (46%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL A R Sbjct: 26 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLEAVVRDGQAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + I K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAAESGIPIDKIND 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + +E L I ++ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 251 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 306 >gi|41408924|ref|NP_961760.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp. paratuberculosis K-10] gi|41397283|gb|AAS05143.1| SigB [Mycobacterium avium subsp. paratuberculosis K-10] Length = 332 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 81/300 (27%), Positives = 140/300 (46%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL A R Sbjct: 39 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLEAVVRDGQAARRH 98 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 99 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 158 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + I K + Sbjct: 159 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAAESGIPIDKIND 216 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + +E L I ++ S+ E +I + + Sbjct: 217 LLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 263 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 264 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 319 >gi|307726409|ref|YP_003909622.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] gi|307586934|gb|ADN60331.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] Length = 664 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 119/246 (48%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 426 AKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +A+++++ Sbjct: 486 VRQAVTRSLADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHPS---VLAERMDL 540 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 SE +V +SM + GD +L +I S +S Sbjct: 541 SEEKVRGILKIAKQPVSMETPVGDDGDATLGDMIEDSAASSPADAAM------------- 587 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 + + R + ++ L+PRE ++ R ++ TLE + +F+V+RER+RQIE+ Sbjct: 588 ----QADLRAAIDDALDSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIES 643 Query: 275 RAFKKV 280 +A +K+ Sbjct: 644 KAMRKL 649 >gi|282854019|ref|ZP_06263356.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J139] gi|282583472|gb|EFB88852.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J139] gi|314922986|gb|EFS86817.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL001PA1] gi|314966763|gb|EFT10862.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL082PA2] gi|314981097|gb|EFT25191.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA3] gi|315091922|gb|EFT63898.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA4] gi|315093321|gb|EFT65297.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL060PA1] gi|327327588|gb|EGE69364.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL103PA1] Length = 510 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 143/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 202 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 261 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 262 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 320 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 321 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 380 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 + ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 381 LANELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 427 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 428 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 479 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 480 VTRERIRQIESKTMSKLRHPSRSQV 504 >gi|2353173|gb|AAB69385.1| sigma factor 2 [Arabidopsis thaliana] Length = 574 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 128/242 (52%), Gaps = 17/242 (7%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HG L +++ S++RLV+ IA Y+G G+ + ++V EG GL++ +KFD +GF+ +T Sbjct: 330 HGTL-CKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFST 388 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWIK A+++ + ++++ + + ++ + L + T + K E+ IA Sbjct: 389 YAHWWIKQAVRKSLSDQSRMIRL--PFHMVEATYRVKEARKQLYSETGKHPKNEE---IA 443 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEER 221 + +S ++++ SL+ I N + ++ D + E +LI++ R Sbjct: 444 EATGLSMKRLMAVLLSPKPPRSLDRKIG---MNQNLKPSEVIADPEAVTSEDILIKEFMR 500 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L + + L RE+++ R E+ TL+ + VSRERVRQIE+ AF+K Sbjct: 501 QD----LDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRK 556 Query: 280 VQ 281 ++ Sbjct: 557 LK 558 >gi|328907303|gb|EGG27069.1| RNA polymerase sigma factor RpoD [Propionibacterium sp. P08] Length = 506 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 143/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 198 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIPEKDRE 257 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 258 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 316 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 317 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 376 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 + ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 377 LANELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 423 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 424 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 475 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 476 VTRERIRQIESKTMSKLRHPSRSQV 500 >gi|294790965|ref|ZP_06756123.1| RNA polymerase sigma (70) factor RpoD [Scardovia inopinata F0304] gi|294458862|gb|EFG27215.1| RNA polymerase sigma (70) factor RpoD [Scardovia inopinata F0304] Length = 588 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/252 (28%), Positives = 126/252 (50%), Gaps = 32/252 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 349 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 408 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAI----TDNNLKPEQVVAIA 163 I+ A+ + +++ + + L R++ LQ + T + L E + + Sbjct: 409 IRQAITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVE 466 Query: 164 KKLNVSE--SEVISMNCRLA--GDESLNALINSSDK-NSSQWQDWLVYDHDGQEQVLIEK 218 K V + E IS++ L GD LI +D S+ + + QEQ Sbjct: 467 KVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLL----QEQ----- 517 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 T+ + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 518 ---------FTQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKT 568 Query: 277 FKKVQESIQKQV 288 K++ + Q Sbjct: 569 MSKLRHPSRSQT 580 >gi|323529380|ref|YP_004231532.1| RNA polymerase sigma-70 subunit RpoD [Burkholderia sp. CCGE1001] gi|323386382|gb|ADX58472.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1001] Length = 664 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 119/246 (48%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 426 AKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 485 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +A+++++ Sbjct: 486 VRQAVTRSLADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHPS---VLAERMDL 540 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 SE +V +SM + GD +L +I S +S Sbjct: 541 SEEKVRGILKIAKQPVSMETPVGDDGDATLGDMIEDSAASSPADAAM------------- 587 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 + + R + ++ L+PRE ++ R ++ TLE + +F+V+RER+RQIE+ Sbjct: 588 ----QADLRAAIDDALDSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIES 643 Query: 275 RAFKKV 280 +A +K+ Sbjct: 644 KAMRKL 649 >gi|311064624|ref|YP_003971349.1| RNA polymerase principal sigma factor HrdB [Bifidobacterium bifidum PRL2010] gi|310866943|gb|ADP36312.1| RNA polymerase principal sigma factor HrdB [Bifidobacterium bifidum PRL2010] Length = 506 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 268 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 327 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 328 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 387 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 388 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 434 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 435 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 486 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 487 TMSKLRHPSRSQT 499 >gi|224283384|ref|ZP_03646706.1| RNA polymerase sigma factor [Bifidobacterium bifidum NCIMB 41171] Length = 506 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 124/253 (49%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 268 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 327 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 328 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 387 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + D L++ Sbjct: 388 QEVQK----YGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQ 434 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 ++ + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 435 EQ--------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESK 486 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 487 TMSKLRHPSRSQT 499 >gi|296120487|ref|YP_003628265.1| RNA polymerase sigma factor RpoD [Planctomyces limnophilus DSM 3776] gi|296012827|gb|ADG66066.1| RNA polymerase sigma factor RpoD [Planctomyces limnophilus DSM 3776] Length = 550 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 122/240 (50%), Gaps = 14/240 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L +LRLVV IA YR GL +++ EGN GLM+AV K++ RG++ +TY+ WW Sbjct: 305 AMRDLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATWW 364 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE-QVVAIAKKLN 167 I+ A+ I ++I + LR++ L + + +P + A A ++ Sbjct: 365 IRQAITRAIADQARTIRI--PVHMIETMSKLRKVAKKL--LQEMGREPTLEETAEAAGVS 420 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E+ + R SL+ + S+ S + D+ + D + + V+ +E ++ Sbjct: 421 LEETRRVMKISRHPI--SLDRPVGESE--DSYFGDF-IEDDNTESPVMAATQE--MLKDK 473 Query: 228 LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + + L RER I + R + TLE + F+V+RERVRQIEA+A +K+Q ++ Sbjct: 474 IDNVLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVR 533 >gi|187918567|ref|YP_001884130.1| RNA polymerase sigma factor RpoD [Borrelia hermsii DAH] gi|119861415|gb|AAX17210.1| RNA polymerase sigma factor RpoD [Borrelia hermsii DAH] Length = 630 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/262 (28%), Positives = 134/262 (51%), Gaps = 38/262 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE + K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 378 EEILKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 433 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ L R +L + Sbjct: 434 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQ--INRLNRETRYLIQVLGK 491 Query: 153 NLKPEQVVA--------IAKKLNVSESEVISMNCRLAGDES--LNALI-NSSDKNSSQWQ 201 + E++ A + NVS E +S+ + +E L+ I + + KN ++ Sbjct: 492 DPTDEELSARLGWDLKKVKTVKNVSR-EPVSLETPIGEEEDSVLSDFIEDKAIKNPAKHT 550 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLS 259 ++V Q+Q+ R++L L RE+ + + R E+ +TLE + Sbjct: 551 SFVVL----QDQI----------RSVL----GTLPEREQEVVKMRFGLEDGYSLTLEEVG 592 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 593 LHFNVTRERIRQIESKALRRLK 614 >gi|186687052|ref|YP_001870195.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186469355|gb|ACC85154.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 316 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 122/235 (51%), Gaps = 21/235 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++VT++LRLVV +A Y+ Y L +++ EG +GL + ++KFDP +G++L+TY WW Sbjct: 81 AKQKMVTANLRLVVSVAKKYQNYSLDFLDLLQEGALGLQRGIEKFDPNKGYKLSTYVYWW 140 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I ++ + +++ N+K +RR++ Q ++ + +P V IA+ LN+ Sbjct: 141 ITQSITRAVADKSRTIRLPIHINEK--LNKIRRVQ---QQLSQSLGRPPVVAEIAESLNL 195 Query: 169 SESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKNR 224 S +++ + ++ L E D+ S+ D L D EQ+ +E ++ Sbjct: 196 SPNQIREYLQISKPLVSLEK-----RVGDEGESELADILPMDGISLDEQITLESLQQDL- 249 Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAF 277 + +++L PR+R + R L +N +TL ++ +SRE +R+ E A Sbjct: 250 ----AKLLALLKPRQREVLTLRFGLSDNQQLTLSQVAKRLNLSRETIRKTEHLAL 300 >gi|315103424|gb|EFT75400.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL050PA2] Length = 510 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 80/325 (24%), Positives = 143/325 (44%), Gaps = 65/325 (20%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 202 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 261 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 262 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 320 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQ 147 +G++ +TY+ WWIK A+ + ++I Q+++ +L R + Sbjct: 321 KGYKFSTYATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 380 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLV 205 + ++ E+V+ + K E IS++ L GD LI S+ + Sbjct: 381 LANELDMTAEKVIEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDSE---------AI 427 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 D L++++ L + L+ RE + R P TL+ + + Sbjct: 428 VPADAVNFTLLQEQ--------LHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 479 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 480 VTRERIRQIESKTMSKLRHPSRSQV 504 >gi|183601374|ref|ZP_02962744.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp. lactis HN019] gi|219683429|ref|YP_002469812.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis AD011] gi|241191127|ref|YP_002968521.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis Bl-04] gi|241196533|ref|YP_002970088.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis DSM 10140] gi|183218980|gb|EDT89621.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp. lactis HN019] gi|219621079|gb|ACL29236.1| principal sigma factor RpoD [Bifidobacterium animalis subsp. lactis AD011] gi|240249519|gb|ACS46459.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis subsp. lactis Bl-04] gi|240251087|gb|ACS48026.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis subsp. lactis DSM 10140] gi|295794116|gb|ADG33651.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis subsp. lactis V9] Length = 488 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/302 (24%), Positives = 147/302 (48%), Gaps = 45/302 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-----GDL-----------------SAAH 51 Y+ +I ++ +L ++E L++R Y +H GD A Sbjct: 193 YLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMEFRRKRELKWAAADGKKAKD 252 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ Sbjct: 253 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWWIRQ 312 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + +++ + + L R++ + P++ +A++L++ Sbjct: 313 AITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDE---LARELDMPVE 367 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNRRNML 228 +V + G E ++ + S++ D L+ D D E V + + R+ + Sbjct: 368 KV--QEVQKYGREPISLHTPLGEDGDSEFGD-LIEDTDAIAPSEAVAFSLLQEQFRQVLE 424 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 T L+PRE + + R E+ P TL+++ + V+RER+RQIE++ K++ + Sbjct: 425 T-----LSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRS 479 Query: 287 QV 288 Q Sbjct: 480 QT 481 >gi|310287737|ref|YP_003938995.1| RNA polymerase sigma factor [Bifidobacterium bifidum S17] gi|309251673|gb|ADO53421.1| RNA polymerase sigma factor [Bifidobacterium bifidum S17] Length = 506 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/251 (27%), Positives = 125/251 (49%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 268 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 327 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAI----TDNNLKPEQVVAIA 163 I+ A+ + +++ + + L R++ LQ + T + L E + + Sbjct: 328 IRQAITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVE 385 Query: 164 KKLNVSE--SEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 K V + E IS++ L GD LI +D + D L++++ Sbjct: 386 KVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTD---------AIAPSDAVAFSLLQEQ 436 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + + L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 437 --------FKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 488 Query: 278 KKVQESIQKQV 288 K++ + Q Sbjct: 489 SKLRHPSRSQT 499 >gi|298490014|ref|YP_003720191.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298231932|gb|ADI63068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 332 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 115/246 (46%), Gaps = 31/246 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG+IG+ + V+KFDP +G+R +TY+ WW Sbjct: 97 AKRRMVEANLRLVVSVAKKYIKRNIDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ Q++L L R ++ + L P QV Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTAIELADELELTPRQV 216 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +K + +S++ RL GD L + + +D+++ + Sbjct: 217 RECLEKARLP----LSLDLRL-GDNYDTELGEMLEDTGATPEDFVIQSSLSSD------- 264 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + R M L P+++ + + R + +TL + +SRERVRQIE A Sbjct: 265 --------IERLMKELTPQQKEVIKLRFGLIDGQALTLSKIGEILNISRERVRQIEREAL 316 Query: 278 KKVQES 283 K+++S Sbjct: 317 TKLRKS 322 >gi|254491243|ref|ZP_05104424.1| Sigma-70, non-essential region family [Methylophaga thiooxidans DMS010] gi|224463756|gb|EEF80024.1| Sigma-70, non-essential region family [Methylophaga thiooxydans DMS010] Length = 610 Score = 84.7 bits (208), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 113/243 (46%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WW Sbjct: 369 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 428 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-------- 160 I+ A+ I ++I + L R+ + P+++ Sbjct: 429 IRQAITRSIADQARTIRI--PVHMIETINKLNRVARQMLQEMGREPTPDELAERVEMPED 486 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K L +S+ E ISM + DE + D N D + Sbjct: 487 KVRKVLKISK-EPISMETPIGDDEDSHLGDFVEDVNVISPSDSAII-------------- 531 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 + R ++ L RE ++ R + N TLE + +F+V+RER+RQIEA+A + Sbjct: 532 -EGLREATQGVLNGLTEREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 590 Query: 279 KVQ 281 K++ Sbjct: 591 KLR 593 >gi|282899735|ref|ZP_06307698.1| sigD (sigma 28 (flagella/spoulation)) [Cylindrospermopsis raciborskii CS-505] gi|281195350|gb|EFA70284.1| sigD (sigma 28 (flagella/spoulation)) [Cylindrospermopsis raciborskii CS-505] Length = 332 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 60/244 (24%), Positives = 117/244 (47%), Gaps = 33/244 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG+IG+ + V+KFDP +G+R +TY+ WW Sbjct: 97 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPSKGYRFSTYAYWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L ++K + ++ + + +A++L + Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEK-----LNKIKKAQRYLSQTLGRSPSIAELAQELEI 211 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +V +S++ RL GD L + + +D+++ E Sbjct: 212 TPKQVRDCLEKARLPLSLDLRL-GDNYDTELGEMLEDPGASPEDYVIQSSLSSE------ 264 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARA 276 L R M+ L P++R + + R + +TL + +SRERVRQIE A Sbjct: 265 ---------LDRMMTHLTPQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIEREA 315 Query: 277 FKKV 280 ++ Sbjct: 316 LTRL 319 >gi|33861134|ref|NP_892695.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33639866|emb|CAE19036.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 307 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 77/296 (26%), Positives = 137/296 (46%), Gaps = 32/296 (10%) Query: 12 GEIGLSRYIHEIRKIPMLEK-QEEYVLAKRYREHGD------------------LSAAHR 52 GEIG + + +++ M K QE VL R + G A + Sbjct: 9 GEIGRHQLLTPEKELTMGRKVQEMVVLINRCQTAGGKGPDCEYSEEEKKKIKIGEKAKNE 68 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV ++ Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 69 MITANLRLVVNLSKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + ++I N+K LR K L + P + +A +L +++ E Sbjct: 129 LNRALSTQSRTIRIPVNINEK--LTKLRAAKSKLMQLKGF---PPTSIELANELKITKEE 183 Query: 173 VIS-MNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + ++C L SL + S + S+ D L D ++ E + +L + Sbjct: 184 IDELLSCELRSITVSLQGTVKSKS-DPSELVDILPSDQTPPMELAELAERTASAWTLLDK 242 Query: 231 SMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L +ER+I R + TL ++ SRE RQ+ RA +K++++ Sbjct: 243 AN--LTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLRKA 296 >gi|55274930|gb|AAV49266.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 198 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 2 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 61 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 62 TIERAIM 68 >gi|55274989|gb|AAV49292.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 199 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|54401890|gb|AAV34630.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274947|gb|AAV49273.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] Length = 203 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 2 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 61 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 62 TIERAIM 68 >gi|319441590|ref|ZP_07990746.1| RNA polymerase sigma factor SigB [Corynebacterium variabile DSM 44702] Length = 397 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/266 (27%), Positives = 125/266 (46%), Gaps = 27/266 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ K++ +LA+ R +A L+ ++LRLVV +A Y G G+P+ +++ EGN+ Sbjct: 141 KLTRARKRDLKILAREGR-----AARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNL 195 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRL 142 GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ ++ +L R + Sbjct: 196 GLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREM 255 Query: 143 KGHL-QAITDNNLKPEQVVAIAK--KLNVSESEVISMNCRLAGDES--LNALINSSDKNS 197 HL + T+ L E + +K L + +S++ + DE L I SD Sbjct: 256 YQHLGREATNEELAEESGIDESKIETLLKQSRDPVSLDMPVGSDEEAPLGDFIEDSDSTD 315 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 ++ H VL EER+ L + PR TL+ Sbjct: 316 AEAAVVASLRHSDVRAVLDTLEEREQDVIKLRYGLDDGMPR---------------TLDQ 360 Query: 258 LSSEFEVSRERVRQIEARAFKKVQES 283 + F +SRERVRQIE K++E Sbjct: 361 IGRSFGLSRERVRQIEREVMAKLREG 386 >gi|294786990|ref|ZP_06752244.1| RNA polymerase sigma (70) factor RpoD [Parascardovia denticolens F0305] gi|294485823|gb|EFG33457.1| RNA polymerase sigma (70) factor RpoD [Parascardovia denticolens F0305] Length = 403 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 64/245 (26%), Positives = 127/245 (51%), Gaps = 18/245 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 164 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 223 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + + L R++ + P++ +A++L++ Sbjct: 224 IRQAITRAMADQARTIRV--PVHMVEVINKLSRVQRQMLQDLGREPTPDE---LARELDM 278 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNRR 225 +V + G E ++ + S++ D L+ D D E V + + ++ Sbjct: 279 PVEKV--QEVQKYGREPISLHTPLGEDGDSEFGD-LIEDTDAIAPSEAVAFSLLQEQFKQ 335 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + T L+PRE + + R E+ P TL+++ + V+RER+RQIE++ K++ Sbjct: 336 VLET-----LSPREAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLRHP 390 Query: 284 IQKQV 288 + Q Sbjct: 391 SRSQT 395 >gi|218676616|ref|YP_002395435.1| RpoS-like sigma factor [Vibrio splendidus LGP32] gi|218324884|emb|CAV26646.1| RpoS-like sigma factor [Vibrio splendidus LGP32] Length = 298 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 41/113 (36%), Positives = 71/113 (62%), Gaps = 4/113 (3%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGL 73 + Y+ +I I +L +++E AK R GD A ++ S+LRLVVKIA Y +G Sbjct: 30 AHYLKDIVGIDLLSREDELYYAKLNRA-GDKQARDIMIESNLRLVVKIAKSYLKRKGNNF 88 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + +++ EGNIGL++A+ K+DPE G+R +TY++WWI+ ++ ++ V++ Sbjct: 89 TLLDLIEEGNIGLIKAIDKYDPEPGYRFSTYAVWWIRENIEAALMNKGRTVRL 141 >gi|154509177|ref|ZP_02044819.1| hypothetical protein ACTODO_01698 [Actinomyces odontolyticus ATCC 17982] gi|153798811|gb|EDN81231.1| hypothetical protein ACTODO_01698 [Actinomyces odontolyticus ATCC 17982] Length = 561 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 74/299 (24%), Positives = 142/299 (47%), Gaps = 39/299 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-------------------REHGDL--------SAAH 51 Y+ +I K+ +L ++E LA+R RE +L A + Sbjct: 267 YLKQIGKVSLLNAEQEVDLARRIEAGLYAEYKLKNQADEMTSRERRELHFLAQDGQQAKN 326 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 327 HLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 386 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + ++I + + L R++ + PE+ +AK+L+++ Sbjct: 387 AITRAMADQARTIRI--PVHMVEVINKLARVQRQMLQDLGREPTPEE---LAKELDMTAE 441 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +V+ + G E ++ + S++ D + D + V + + L Sbjct: 442 KVVEVQKY--GREPISLHTPLGEDGDSEFGDLI---EDSEAIVPADAVSFTLLQEQLHHV 496 Query: 232 MSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + L+ RE + R L + P TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 497 LDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 555 >gi|312601028|gb|ADQ90283.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 168] Length = 676 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 140/271 (51%), Gaps = 33/271 (12%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G + R L+ +LRLVV A Y+ GL +++SEGN+G Sbjct: 408 LLTAEEERELAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLG 467 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV K+D RGF+ +TY+ WWI+ A+ + L++I T N+ ++ L+ Sbjct: 468 IIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQ 527 Query: 141 RLKG---HLQAITD---NNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + KG + I++ P+++ I KK+N+ + IS++ + D S + I Sbjct: 528 QEKGLNPTAEEISERLGGEFSPDKIRYI-KKINI---DPISLDKAIGKEEDSSFSDFI-- 581 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQ 249 D+N D+ + + + +VL+E + + R+ + R V E ++A Sbjct: 582 KDENMISPVDYAI--REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAH--- 636 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + E L++ V++ERVRQIEA+ KK+ Sbjct: 637 ----SFEELAAMRRVTKERVRQIEAKILKKL 663 >gi|302802267|ref|XP_002982889.1| hypothetical protein SELMODRAFT_117159 [Selaginella moellendorffii] gi|302818650|ref|XP_002990998.1| hypothetical protein SELMODRAFT_132663 [Selaginella moellendorffii] gi|300141329|gb|EFJ08042.1| hypothetical protein SELMODRAFT_132663 [Selaginella moellendorffii] gi|300149479|gb|EFJ16134.1| hypothetical protein SELMODRAFT_117159 [Selaginella moellendorffii] Length = 292 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 120/235 (51%), Gaps = 18/235 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V+S+L LV+K+A + G I +++ EG GL+ V+KFD RGFRL+TY +WWI+ + Sbjct: 51 MVSSNLGLVIKVARKFGLKGTTIEDLIQEGINGLLHGVEKFDTSRGFRLSTYVLWWIELS 110 Query: 113 MQEYILRSWSLVKIGTTANQKRLF-FNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVS 169 ++ ++ + ++ LF + R LK + + P E+V I L + Sbjct: 111 VRRASVKRSIMCQV-----PMHLFDTHTRVLKTRARIFEERGTFPTNEEVATI---LGTT 162 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 +V + +SL+ + D N + + ++ D + + +L+ E+ + L Sbjct: 163 AQKVHLAANLMRHPKSLDDNVPGCD-NVTLLE--ILPDPEVESSLLV--AEKALLKEQLD 217 Query: 230 RSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + +++L PRE+ + R TLE LS F +SRERVRQIE RA K+ E Sbjct: 218 KVLNLLKPREKEVLTLRYGIGDGRDRTLEELSHHFNLSRERVRQIEKRALAKIHE 272 >gi|33862185|ref|NP_893746.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33634403|emb|CAE20088.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 333 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 114/242 (47%), Gaps = 16/242 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 98 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 157 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + + +AK + + Sbjct: 158 IRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQRELSQEMSRTPTISELAKYVEL 212 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + C+ SL + D + D L G E + E+ E R L Sbjct: 213 PEDDVKDLMCKAGQPVSLETKVG--DGEDTVLLDLLA----GGEDLPDEQIEMDCMRGDL 266 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE---ARAFKKVQES 283 + L + R+ R + P++L + +SR+RVR +E R +++ ES Sbjct: 267 HSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSES 326 Query: 284 IQ 285 ++ Sbjct: 327 VE 328 >gi|55274951|gb|AAV49275.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 205 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 2 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 61 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 62 TIERAIM 68 >gi|55274970|gb|AAV49284.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 196 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|54401892|gb|AAV34631.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 200 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|53987186|gb|AAV27387.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 232] Length = 676 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 140/271 (51%), Gaps = 33/271 (12%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G + R L+ +LRLVV A Y+ GL +++SEGN+G Sbjct: 408 LLTAEEERELAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLG 467 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV K+D RGF+ +TY+ WWI+ A+ + L++I T N+ ++ L+ Sbjct: 468 IIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQ 527 Query: 141 RLKG---HLQAITD---NNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + KG + I++ P+++ I KK+N+ + IS++ + D S + I Sbjct: 528 QEKGLNPTAEEISERLGGEFSPDKIRYI-KKINI---DPISLDKAIGKEEDSSFSDFI-- 581 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQ 249 D+N D+ + + + +VL+E + + R+ + R V E ++A Sbjct: 582 KDENMISPVDYAI--REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAH--- 636 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + E L++ V++ERVRQIEA+ KK+ Sbjct: 637 ----SFEELAAMRRVTKERVRQIEAKILKKL 663 >gi|144575263|gb|AAZ53437.2| DNA-directed RNA polymerase sigma factor [Mycoplasma hyopneumoniae 7448] Length = 676 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 78/271 (28%), Positives = 140/271 (51%), Gaps = 33/271 (12%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G + R L+ +LRLVV A Y+ GL +++SEGN+G Sbjct: 408 LLTAEEERELAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLG 467 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV K+D RGF+ +TY+ WWI+ A+ + L++I T N+ ++ L+ Sbjct: 468 IIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQ 527 Query: 141 RLKG---HLQAITD---NNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + KG + I++ P+++ I KK+N+ + IS++ + D S + I Sbjct: 528 QEKGLNPTAEEISERLGGEFSPDKIRYI-KKINI---DPISLDKAIGKEEDSSFSDFI-- 581 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQ 249 D+N D+ + + + +VL+E + + R+ + R V E ++A Sbjct: 582 KDENMISPVDYAI--REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAH--- 636 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + E L++ V++ERVRQIEA+ KK+ Sbjct: 637 ----SFEELAAMRRVTKERVRQIEAKILKKL 663 >gi|55274937|gb|AAV49269.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 204 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|213621937|ref|ZP_03374720.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 197 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 3 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 62 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 63 TIERAIM 69 >gi|55274943|gb|AAV49271.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] Length = 204 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|254821657|ref|ZP_05226658.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC 13950] Length = 319 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 80/300 (26%), Positives = 140/300 (46%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL A R Sbjct: 26 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLEAVVRDGKAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAAESGIPVDKIND 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + +E L I ++ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 251 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 306 >gi|326523529|dbj|BAJ92935.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 506 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 76/247 (30%), Positives = 129/247 (52%), Gaps = 28/247 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S++RLV+ IA Y G+ +S+++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 267 LTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 326 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + ++ T +++ L ++ A+ D + P IA+ LN+SE + Sbjct: 327 VSRALADNSKTFRLPTYMHER-----LIAIRAAKYALEDQGVSPT-TQNIAELLNISEKK 380 Query: 173 VI----SMNCRLAGDE----SLNALINSSDKNSSQWQDWLVYD---HDGQEQVLIEKEER 221 V ++N L+ D+ SLN L D S +D V + H +E L KEE Sbjct: 381 VHNATEAVNKALSLDQQAFPSLNGL--PGDTLHSYIEDQNVANDPWHGFEEWYL--KEEV 436 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 N+L +S L RER I + + T E++S +F +SRERVRQ+ A +K+ Sbjct: 437 N---NLL---ISNLTERERHIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMEKL 490 Query: 281 QESIQKQ 287 + + +++ Sbjct: 491 KHAARRK 497 >gi|55274915|gb|AAV49259.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274917|gb|AAV49260.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274923|gb|AAV49263.1| RNA polymerase subunit sigma-38 [Shigella flexneri] gi|55274925|gb|AAV49264.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274928|gb|AAV49265.1| RNA polymerase subunit sigma-38 [Shigella sonnei] gi|55274932|gb|AAV49267.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274939|gb|AAV49270.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274949|gb|AAV49274.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] gi|55274955|gb|AAV49277.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] gi|55274957|gb|AAV49278.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] gi|55274959|gb|AAV49279.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274961|gb|AAV49280.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274974|gb|AAV49286.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274980|gb|AAV49289.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274991|gb|AAV49293.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274993|gb|AAV49294.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 204 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|302346408|ref|YP_003814706.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] gi|302150820|gb|ADK97081.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] Length = 228 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/269 (26%), Positives = 120/269 (44%), Gaps = 47/269 (17%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +YI +I +L +EE LA++ + GD A +L ++L+ VV +A YR GL + Sbjct: 6 KYIEDIANEQLLSDKEEQELAEKIKV-GDARALEKLTKANLKFVVSLAHQYRNRGLGEDD 64 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++SEGNIG+M A +KFD +G R ++ +I+ AM+E I +L K+ + F Sbjct: 65 LISEGNIGMMYAAQKFDGSKGVRFVIFAAPYIRKAMEETIKEQATLYKLPKNETSR---F 121 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 +R H +I +Q V + N + ++ DE LN I S Sbjct: 122 EQKR--SHAISI-------DQPVPVGSNNNFTLQHILENENAKHADEHLNQEILS----- 167 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENPVTLE 256 N + + + VL+ RE+R+ L T+ Sbjct: 168 ----------------------------NEIQKGLDVLDEREKRVITYIYGLTGAHYTMA 199 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ + + RERVRQI +A +K+ + ++ Sbjct: 200 EIAEDMGLKRERVRQIRDKALRKLHKKMK 228 >gi|296171822|ref|ZP_06852936.1| RNA polymerase principal sigma factor SigB [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295893958|gb|EFG73726.1| RNA polymerase principal sigma factor SigB [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 329 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 80/300 (26%), Positives = 140/300 (46%), Gaps = 56/300 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLSAAHR-------- 52 Y++ I K +L E LAKR Y EH DL A R Sbjct: 36 YLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRRRDLEAVVRDGQAARRH 95 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 96 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 155 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 156 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAAESGIPVEKIND 213 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + +E L I ++ S+ E +I + + Sbjct: 214 LLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 260 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE K++ Sbjct: 261 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 316 >gi|42525589|ref|NP_970687.1| sigma-70 family RNA polymerase sigma factor [Treponema denticola ATCC 35405] gi|41815600|gb|AAS10568.1| RNA polymerase sigma-70 factor, region 2 family [Treponema denticola ATCC 35405] Length = 275 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 72/283 (25%), Positives = 135/283 (47%), Gaps = 32/283 (11%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L +YI + +K P+L ++E LA ++ G+ A LVTS+LRLV+K+A + I Sbjct: 6 LLQYIKDSKKYPLLSAEQEAELADEVKK-GNTEAIEVLVTSNLRLVIKMAKKFSSNENQI 64 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 E++ EGN+GLM+A KF R ++Y+ WWIK + Y+ + ++K+ +K Sbjct: 65 LELIQEGNMGLMKAASKFSKSFKVRFSSYAAWWIKQSFIRYLNSADKVIKLPV---RKEA 121 Query: 136 FF--------NLRRLKGHLQAITD-NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 N + G L + + + E+V IA+ + + +++ S++ + + S Sbjct: 122 LIRQVHKEEENYKIKYGILPSYSQLAEIMKEKVDIIAQIKSFNYTDICSLDDPVDNERSA 181 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 N D++ + E+ I+ E ++ L + + +LN RE+ + R Sbjct: 182 N------------LYDFIPCNTYNPEEEFIDNEFKEK----LNKCLEILNDREKDVLRNR 225 Query: 247 RLQENPV---TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + + T L ++ +S E +RQ + RA KK++ K Sbjct: 226 YGLDGTMTSTTFAVLGKKYSISAESIRQTQLRALKKLRADTNK 268 >gi|296269678|ref|YP_003652310.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296092465|gb|ADG88417.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 478 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 70/272 (25%), Positives = 131/272 (48%), Gaps = 48/272 (17%) Query: 27 PMLEKQEEYVL--AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 P + E+V+ KR ++H ++ ++LRLVV +A Y G+ + +VV EGN+ Sbjct: 225 PGFREDLEWVIEDGKRAKDH--------MLEANLRLVVSVAKKYTDRGMSLLDVVQEGNL 276 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++AV+KFD +G++ +TY+MWWI+ A+Q S +++ + + L R++ Sbjct: 277 GLIRAVEKFDYTKGYKFSTYAMWWIRQAIQRGFADSARTIRL--PVHVLEMLSKLSRVER 334 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRLA--GDESLNALINS 192 + PE+ +A +L+ + ++ IS++ + G+ + LI Sbjct: 335 DMHQRLGREPTPEE---LAVELDKTPDQIEELLRTSRQPISLDSTIGEDGETCIGDLIED 391 Query: 193 SDK-NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQ 249 D +S+ D Q+L E+ L + L+PRE +I R + Sbjct: 392 VDSLEASEIVD---------RQLLAEQ---------LKGMLDNLSPREAKIMSLRFGLVD 433 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TL+ + ++RER+RQ+E + K++ Sbjct: 434 GKPHTLDEIGKRLGLTRERIRQLEKESLSKLR 465 >gi|193222342|emb|CAL62001.1| Putative RNA polymerase sigma-70 factor [Herminiimonas arsenicoxydans] Length = 808 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/251 (29%), Positives = 126/251 (50%), Gaps = 39/251 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++L+LV A Y G+ +++ EGNIGL++A++KFD RGF+ +TY++WW Sbjct: 436 ARSQMAIANLKLVHSTATKYSWSGMEFLDLIQEGNIGLLRAIEKFDYRRGFKFSTYAIWW 495 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I L+++ + NQ + R K ++ I +LK +++ Sbjct: 496 IRQAITRAIADQTRLIRVPVHLVESINQ------VERHKNQVEHILGKSLKAQEI----- 544 Query: 165 KLNVSESEVISMNCR-----LAGDES---LNALINSSDKNSSQ---WQDWLVYDHDGQEQ 213 S+ +SM R LA + S ++ LI +N + ++ L+ EQ Sbjct: 545 ------SDALSMPLRKVEQCLAANVSILNIDDLIERETENQDEALVLEENLIDPSATPEQ 598 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN--PVTLENLSSEFEVSRERVR 270 + I+ K +L R +S L +E I R L +N P TLE + ++RERVR Sbjct: 599 LAIKTSLSK----VLNRILSDLPEKEAHILRLRFGLYKNVEPHTLEEVGQLLGITRERVR 654 Query: 271 QIEARAFKKVQ 281 QIEA+A +++ Sbjct: 655 QIEAKALTRIR 665 >gi|72080402|ref|YP_287460.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 7448] Length = 489 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 76/270 (28%), Positives = 140/270 (51%), Gaps = 29/270 (10%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G + R L+ +LRLVV A Y+ GL +++SEGN+G Sbjct: 221 LLTAEEERELAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLG 280 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV K+D RGF+ +TY+ WWI+ A+ + L++I T N+ ++ L+ Sbjct: 281 IIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQ 340 Query: 141 RLKG---HLQAITD---NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + KG + I++ P+++ I KK+N+ + IS++ + +E + D Sbjct: 341 QEKGLNPTAEEISERLGGEFSPDKIRYI-KKINI---DPISLDKAIGKEEDSSFSDFIKD 396 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +N D+ + + + +VL+E + + R+ + R V E ++A Sbjct: 397 ENMISPVDYAI--REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAH----- 449 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + E L++ V++ERVRQIEA+ KK++ Sbjct: 450 --SFEELAAMRRVTKERVRQIEAKILKKLR 477 >gi|291059871|gb|ADD72606.1| RNA polymerase sigma factor RpoD [Treponema pallidum subsp. pallidum str. Chicago] Length = 610 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 81/289 (28%), Positives = 135/289 (46%), Gaps = 61/289 (21%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++G + ++R IH R ML+K A +L+ ++LRLVV IA Y Sbjct: 352 IDGILSMARAIH--RGHVMLKK-----------------AKDKLINANLRLVVSIAKKYT 392 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI--- 126 GL ++V EGNIGL++AV+KF+ +G++ +TY+ WWI+ A+ I +++ Sbjct: 393 NRGLLFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVH 452 Query: 127 ------GTTANQKRLFFNLRRLKGH---LQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 T ++L R Q + K +QV ++A+ E IS+ Sbjct: 453 MIEQINKVTRESRQLLQKFGREPSDEEIAQQLCWTVEKVKQVKSVAR-------EPISLE 505 Query: 178 CRLA--GDESLNALINSSD-KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 + D SL + +D +N S+ E+VL+++E R +S Sbjct: 506 TPIGEEEDSSLGDFVPDADVENPSRV----------TERVLLKEEVRS--------ILSA 547 Query: 235 LNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L RE + R + TLE + F+V+RER+RQIEA+A K+++ Sbjct: 548 LPAREHEVLRMRFGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKRLR 596 >gi|55274872|gb|AAV49239.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 179 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 35/67 (52%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|87124760|ref|ZP_01080608.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86167639|gb|EAQ68898.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 321 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 61/228 (26%), Positives = 115/228 (50%), Gaps = 15/228 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 86 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 145 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A + + Sbjct: 146 IRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPTVTELAGFVEL 200 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNM 227 E EV + CR SL + D + ++ + L D + +EQV +E + + R++ Sbjct: 201 PEEEVKDLMCRARQPVSLE--MKVGDGDDTELLELLAGDGELPEEQVEVEC-LKGDLRDL 257 Query: 228 LTRSMSVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIE 273 L + L +RR+ R E P++L ++ +SR+R R++E Sbjct: 258 LEQ----LPDLQRRVLRMRYGMDGEEPMSLTGIAKSLRMSRDRTRRLE 301 >gi|15639484|ref|NP_218934.1| RNA polymerase sigma factor RpoD [Treponema pallidum subsp. pallidum str. Nichols] gi|189025724|ref|YP_001933496.1| RNA polymerase sigma factor RpoD [Treponema pallidum subsp. pallidum SS14] gi|6094131|sp|O83506|RPOD_TREPA RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|3322782|gb|AAC65480.1| RNA polymerase sigma-70 factor (rpoD) [Treponema pallidum subsp. pallidum str. Nichols] gi|189018299|gb|ACD70917.1| RNA polymerase sigma-70 factor [Treponema pallidum subsp. pallidum SS14] Length = 611 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 81/289 (28%), Positives = 135/289 (46%), Gaps = 61/289 (21%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++G + ++R IH R ML+K A +L+ ++LRLVV IA Y Sbjct: 353 IDGILSMARAIH--RGHVMLKK-----------------AKDKLINANLRLVVSIAKKYT 393 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI--- 126 GL ++V EGNIGL++AV+KF+ +G++ +TY+ WWI+ A+ I +++ Sbjct: 394 NRGLLFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVH 453 Query: 127 ------GTTANQKRLFFNLRRLKGH---LQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 T ++L R Q + K +QV ++A+ E IS+ Sbjct: 454 MIEQINKVTRESRQLLQKFGREPSDEEIAQQLCWTVEKVKQVKSVAR-------EPISLE 506 Query: 178 CRLA--GDESLNALINSSD-KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 + D SL + +D +N S+ E+VL+++E R +S Sbjct: 507 TPIGEEEDSSLGDFVPDADVENPSRV----------TERVLLKEEVRS--------ILSA 548 Query: 235 LNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L RE + R + TLE + F+V+RER+RQIEA+A K+++ Sbjct: 549 LPAREHEVLRMRFGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKRLR 597 >gi|116328273|ref|YP_797993.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116330997|ref|YP_800715.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis JB197] gi|116121017|gb|ABJ79060.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116124686|gb|ABJ75957.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis JB197] Length = 585 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 119/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y G+ +++ EGNIGL++AV KF+ ++G++ +TY+ WW Sbjct: 347 AKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWW 406 Query: 109 IKAAMQEYILRSWSLVK--------IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 I+ A+ I ++ + + RLF + + I + P Q V Sbjct: 407 IRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKV 466 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K NV+ E IS+ + +E S+ D++ D + + + Sbjct: 467 KMVK--NVA-REPISLEIPVGSEE------------DSELGDFI---PDTEVETPVNTAA 508 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE+++ R ++ P TLE + +F+V+RER+RQIEA+A + Sbjct: 509 SSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALR 568 Query: 279 KVQ 281 +++ Sbjct: 569 RLR 571 >gi|203284607|ref|YP_002222347.1| RNA polymerase sigma-70 factor [Borrelia duttonii Ly] gi|201084050|gb|ACH93641.1| RNA polymerase sigma-70 factor [Borrelia duttonii Ly] Length = 630 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 75/261 (28%), Positives = 133/261 (50%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE + K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 378 EEILKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 433 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + + Sbjct: 434 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLVQVLGKD 492 Query: 153 NLKPEQVVAIAKKL-------NVSESEVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 E + + L NVS E +S+ + +E L+ I + + KN ++ Sbjct: 493 PTDEELSIRLGWDLKKVKTVKNVS-REPVSLETPIGEEEDSVLSDFIEDKAIKNPAKHTS 551 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 552 FVVL----QDQI----------RAVL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 593 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 594 HFNVTRERIRQIESKALRRLK 614 >gi|307718768|ref|YP_003874300.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] gi|306532493|gb|ADN02027.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] Length = 580 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 120/237 (50%), Gaps = 16/237 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +G++ +TY+ W Sbjct: 341 TAKDKLIQANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATW 400 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ ++ ++R L + E+ IA +L Sbjct: 401 WIRQAITRSISDQARTIRVPVHMIEQ--INKVQREARQLMQVLGREPTDEE---IADRLG 455 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNS--SQWQDWLVYDHDGQEQVLIEKEERKNRR 225 S V S+ SL + I + +S +D + Q + +++ K+ Sbjct: 456 WPLSRVKSVKNVAREPISLESPIGEEEDSSVGDFIEDKTAINPSHQTAYALLQQQIKD-- 513 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L PRE+ + + R E+ +TLE + F V+RER+RQIEA+A +++ Sbjct: 514 -----VLATLPPREQEVLKMRFGLEDGYSLTLEEVGLYFNVTRERIRQIEAKALRRL 565 >gi|203288141|ref|YP_002223156.1| RNA polymerase sigma-70 factor [Borrelia recurrentis A1] gi|201085361|gb|ACH94935.1| RNA polymerase sigma-70 factor [Borrelia recurrentis A1] Length = 630 Score = 84.0 bits (206), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 127/261 (48%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE + K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 378 EEILKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 433 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 434 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 477 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V I K E ++ RL D + + + + + + D Sbjct: 478 LNRETRYLVQILGKDPTDEE----LSIRLGWDLKKVKTVKNVSREPVSLETPIGEEEDSV 533 Query: 212 EQVLIEKEERKN---------RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN ++ + + L RE+ + + R E+ +TLE + Sbjct: 534 LSDFIEDKAIKNPAKHTSFVILQDQIRAVLGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 593 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 594 YFNVTRERIRQIESKALRRLK 614 >gi|315604554|ref|ZP_07879617.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 180 str. F0310] gi|315313566|gb|EFU61620.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 180 str. F0310] Length = 516 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 74/299 (24%), Positives = 142/299 (47%), Gaps = 39/299 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRY-------------------REHGDL--------SAAH 51 Y+ +I K+ +L ++E LA+R RE +L A + Sbjct: 222 YLKQIGKVSLLNAEQEVDLARRIEAGLYAEYKLKNQADEMTSRERRELHFLAQDGQQAKN 281 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 282 HLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 341 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + ++I + + L R++ + PE+ +AK+L+++ Sbjct: 342 AITRAMADQARTIRI--PVHMVEVINKLARVQRQMLQDLGREPTPEE---LAKELDMTAE 396 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +V+ + G E ++ + S++ D + D + V + + L Sbjct: 397 KVVEVQKY--GREPISLHTPLGEDGDSEFGDLI---EDSEAIVPADAVSFTLLQEQLHHV 451 Query: 232 MSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + L+ RE + R L + P TL+ + + V+RER+RQIE++ K++ + QV Sbjct: 452 LDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQV 510 >gi|326512474|dbj|BAJ99592.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 506 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 76/247 (30%), Positives = 129/247 (52%), Gaps = 28/247 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L S++RLV+ IA Y G+ +S+++ G IGL++ ++KFD RGFR++TY WWI+ Sbjct: 267 LTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 326 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + ++ T +++ L ++ A+ D + P IA+ LN+SE + Sbjct: 327 VSRALADNSRTFRLPTYMHER-----LIAIRAAKYALEDQGVSPT-TQNIAELLNISEKK 380 Query: 173 VI----SMNCRLAGDE----SLNALINSSDKNSSQWQDWLVYD---HDGQEQVLIEKEER 221 V ++N L+ D+ SLN L D S +D V + H +E L KEE Sbjct: 381 VHNATEAVNKALSLDQQAFPSLNGL--PGDTLHSYIEDQNVANDPWHGFEEWYL--KEEV 436 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 N+L +S L RER I + + T E++S +F +SRERVRQ+ A +K+ Sbjct: 437 N---NLL---ISNLTERERHIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMEKL 490 Query: 281 QESIQKQ 287 + + +++ Sbjct: 491 KHAARRK 497 >gi|315185629|gb|EFU19397.1| RNA polymerase, sigma 70 subunit, RpoD [Spirochaeta thermophila DSM 6578] Length = 568 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 121/238 (50%), Gaps = 16/238 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +G++ +TY+ W Sbjct: 329 TAKDKLIQANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATW 388 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ ++ ++R L + E+ IA +L Sbjct: 389 WIRQAITRSISDQARTIRVPVHMIEQ--INKVQREARQLMQVLGREPTDEE---IADRLG 443 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNS--SQWQDWLVYDHDGQEQVLIEKEERKNRR 225 S V S+ SL + I + +S +D + Q + +++ K+ Sbjct: 444 WPLSRVKSVKNVAREPISLESPIGEEEDSSVGDFIEDKTAVNPSHQTAYALLQQQIKD-- 501 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L PRE+ + + R E+ +TLE + F V+RER+RQIEA+A ++++ Sbjct: 502 -----VLATLPPREQEVLKMRFGLEDGYSLTLEEVGLYFNVTRERIRQIEAKALRRLR 554 >gi|161936260|ref|YP_115577.2| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 232] Length = 489 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 76/270 (28%), Positives = 140/270 (51%), Gaps = 29/270 (10%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G + R L+ +LRLVV A Y+ GL +++SEGN+G Sbjct: 221 LLTAEEERELAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLG 280 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV K+D RGF+ +TY+ WWI+ A+ + L++I T N+ ++ L+ Sbjct: 281 IIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQ 340 Query: 141 RLKG---HLQAITD---NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + KG + I++ P+++ I KK+N+ + IS++ + +E + D Sbjct: 341 QEKGLNPTAEEISERLGGEFSPDKIRYI-KKINI---DPISLDKAIGKEEDSSFSDFIKD 396 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +N D+ + + + +VL+E + + R+ + R V E ++A Sbjct: 397 ENMISPVDYAI--REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAH----- 449 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + E L++ V++ERVRQIEA+ KK++ Sbjct: 450 --SFEELAAMRRVTKERVRQIEAKILKKLR 477 >gi|87123242|ref|ZP_01079093.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86168962|gb|EAQ70218.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 309 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/228 (27%), Positives = 114/228 (50%), Gaps = 15/228 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 74 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 133 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A + + Sbjct: 134 IRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPTVTELAGFVEL 188 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNM 227 E EV + CR SL + D + ++ + L D + +EQV +E + + R++ Sbjct: 189 PEEEVKDLMCRARQPVSLE--MKVGDGDDTELLELLAGDGELPEEQVEVEC-LKGDLRDL 245 Query: 228 LTRSMSVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIE 273 L + L +RR+ R E P++L + +SR+RVR +E Sbjct: 246 LEQ----LPDLQRRVLRMRYGMDGEEPMSLTGIGRVIGISRDRVRNLE 289 >gi|24214932|ref|NP_712413.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai str. 56601] gi|45657567|ref|YP_001653.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] gi|26399555|sp|P59117|RPOD_LEPIN RecName: Full=RNA polymerase sigma factor rpoD gi|47605974|sp|P61540|RPOD_LEPIC RecName: Full=RNA polymerase sigma factor rpoD gi|24195965|gb|AAN49431.1|AE011394_5 RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai str. 56601] gi|45600806|gb|AAS70290.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] Length = 585 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 119/243 (48%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y G+ +++ EGNIGL++AV KF+ ++G++ +TY+ WW Sbjct: 347 AKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWW 406 Query: 109 IKAAMQEYILRSWSLVK--------IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 I+ A+ I ++ + + RLF + + I + P Q V Sbjct: 407 IRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKV 466 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 + K NV+ E IS+ + +E S+ D++ D + + + Sbjct: 467 KMVK--NVA-REPISLEIPVGSEE------------DSELGDFI---PDTEVETPVNAAA 508 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 + + + L RE+++ R ++ P TLE + +F+V+RER+RQIEA+A + Sbjct: 509 SSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALR 568 Query: 279 KVQ 281 +++ Sbjct: 569 RLR 571 >gi|296159716|ref|ZP_06842538.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295889930|gb|EFG69726.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 665 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 118/246 (47%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 427 AKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +A+++ + Sbjct: 487 VRQAVTRSLADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHPS---VLAERMEL 541 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 SE +V +SM + GD +L +I S +S Sbjct: 542 SEEKVRGILKIAKQPVSMETPVGDDGDATLGDMIEDSAASSPADAAM------------- 588 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 + + R + ++ L+PRE ++ R ++ TLE + +F+V+RER+RQIE+ Sbjct: 589 ----QADLRAAIDDALDSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIES 644 Query: 275 RAFKKV 280 +A +K+ Sbjct: 645 KAMRKL 650 >gi|113477482|ref|YP_723543.1| RNA polymerase sigma factor SigD [Trichodesmium erythraeum IMS101] gi|110168530|gb|ABG53070.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 319 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 61/239 (25%), Positives = 115/239 (48%), Gaps = 13/239 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ WW Sbjct: 84 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 143 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L ++K + +T + IA++L + Sbjct: 144 IRQAITRAIAEKGRTIRLPIHITEK-----LNKIKKVQRQLTQQLGRSATTGEIAEELGL 198 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + ++ C L+ + D ++ D L E ++ R + L Sbjct: 199 TPKQI--RECLERARLPLSLDLRVGDNQDTELGDLLEDTGASPEDYALQSSMRTD----L 252 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 M L P+++++ R E+ +TL + + +SRERVRQIE A K+++ Q Sbjct: 253 ESIMVDLTPQQKQVLALRFGLEDGQTMTLSKIGAHLNISRERVRQIEREALSKLRKRKQ 311 >gi|119953489|ref|YP_945698.1| RNA polymerase sigma factor RpoD [Borrelia turicatae 91E135] gi|119862260|gb|AAX18028.1| RNA polymerase sigma factor RpoD [Borrelia turicatae 91E135] Length = 630 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 75/261 (28%), Positives = 127/261 (48%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE + K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 378 EEILKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 433 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 434 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 477 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL D + + + + + + D Sbjct: 478 LNRETRYLVQVLGKDPTDEE----LSSRLGWDLKKVKTVKNVSREPVSLETPIGEEEDSV 533 Query: 212 EQVLIEKEERKNR---------RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN ++ + + L RE+ + + R E+ +TLE + Sbjct: 534 LSDFIEDKAIKNPAKHTSFVVLQDQIRAVLGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 593 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 594 HFNVTRERIRQIESKALRRLK 614 >gi|113955141|ref|YP_730472.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113882492|gb|ABI47450.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 282 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 80/293 (27%), Positives = 141/293 (48%), Gaps = 51/293 (17%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-----------EHGDLSAAHRLVTSHLR 59 NG I +++ EI + P+L EE L R + A R++ ++LR Sbjct: 6 NGNI--DQFLDEIGRTPLLTAAEEITLGTSVRMSQSPEATPAQKRAGKRAKDRMIKANLR 63 Query: 60 LVVKIAMGY--RGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 LVV ++ Y R G L ++V EG+IGL +AV+KFDPE G++ +TY+ WWI+ ++ Sbjct: 64 LVVTVSRKYLHRQLGQLEFGDLVQEGSIGLNRAVEKFDPELGYKFSTYAYWWIRQSISRA 123 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLK--------GHLQAITDNNLKPEQVVAIAKKLNV 168 I ++ + +++ T+ N + L +L L ++D LK + +AK+ Sbjct: 124 IDQTSATIRVPTSMN--LVLAKLNQLPQGLNDEQICELLEVSDTQLKNLRHAFVAKR--- 178 Query: 169 SESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + S++ +L D + L D+ S+ L YD E V +R++ Sbjct: 179 ----IASLDMKLGADRDGSTLTELLCDEQST-----LNYDEFQWEAV---------KRSL 220 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ LN + + RR + +L+++++E +SRERVRQ RA K + Sbjct: 221 GDQAKIALNNDQELL---RRNVVDEQSLQSIANEIGISRERVRQKVDRAKKHL 270 >gi|6463980|dbj|BAA86957.1| group 2 sigma factor RpoD3 [Synechococcus sp. PCC 7942] Length = 320 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 74/307 (24%), Positives = 141/307 (45%), Gaps = 53/307 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR--------------EHGD-------------LS--- 48 Y+ EI ++P+L +EE VL KR + E GD LS Sbjct: 15 YLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEE 74 Query: 49 ----------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 A +++ ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G Sbjct: 75 LRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKG 134 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 +R +TY+ WWI+ A+ I +++ +K +++++ L PE Sbjct: 135 YRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEK--LNKIKKMQRQLSQQLSTATLPE- 191 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 +A L+++ ++V + SL+ + D ++ D L D + + E Sbjct: 192 ---LAAALDLTPAQVRDYLEKARHPLSLD--LRVGDNQDTELGDLLETDMQRRRK---EF 243 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRERVRQIEARA 276 + + R + R + L ++R++ R L++ V TL ++ ++SRERVRQ+E A Sbjct: 244 TLQASMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREA 303 Query: 277 FKKVQES 283 ++++ Sbjct: 304 LHTLRQA 310 >gi|186685842|ref|YP_001869038.1| RNA polymerase sigma factor SigD [Nostoc punctiforme PCC 73102] gi|186468294|gb|ACC84095.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 332 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/250 (26%), Positives = 113/250 (45%), Gaps = 39/250 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG+IG+ + V+KFDP +G+R +TY+ WW Sbjct: 97 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ Q++L L R + + L P+QV Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTAGELAQELELTPKQV 216 Query: 160 VAIAKKLNVSESEVISMNCRLAG--DESLNALINSSDKNSSQW--QDWLVYDHDGQEQVL 215 +K + +S++ RL D L ++ + ++ Q L YD D Sbjct: 217 REYLEKARLP----LSLDLRLGDNYDTELGEMLEDPGASPEEFVMQSSLSYDLD------ 266 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 R M L P++R + R +TL + +SRERVRQIE Sbjct: 267 --------------RLMGDLTPQQREVITLRFGLTDGQALTLAKIGEILNISRERVRQIE 312 Query: 274 ARAFKKVQES 283 A K+++S Sbjct: 313 REALTKLRKS 322 >gi|254430393|ref|ZP_05044096.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] gi|197624846|gb|EDY37405.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] Length = 302 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 79/304 (25%), Positives = 140/304 (46%), Gaps = 47/304 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEY----------VLAKRYREHGDLSAA--------------- 50 +S Y+ EI + +L ++E VL +R RE G A Sbjct: 1 MSAYLGEIGRHQLLTPEQELTLGRKVQAMAVLQERCREAGGQGPACEYDDREKRVLRLGE 60 Query: 51 ---HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 ++++T++LRLVV +A Y+ GL + +++ EG +GL +AV+K+DP RG R +TY+ W Sbjct: 61 RAKNQMITANLRLVVNLAKRYQNKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYW 120 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RL-FFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 WI+ + + ++I N+K RL R L+ H + + L E + +A+ Sbjct: 121 WIRQGLNRALSTQSRTIRIPVNVNEKLTRLRAAKARYLQSHGVSPSPKALAGEMQLPLAE 180 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + E+ S+ L G + S + S+ D L E +E+ E R Sbjct: 181 VEELLGCELRSITVSLQG-------VVKSKADPSELVDVL----PSPELAPMERAELAER 229 Query: 225 RNMLTRSM--SVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKK 279 + + + S L P+ER + R + TL ++ + + SRE RQ+ RA +K Sbjct: 230 SASVWKLLESSNLTPKERTVVMLRFGLDGSHEWRTLAEVARQLDCSREYCRQVVQRALRK 289 Query: 280 VQES 283 ++++ Sbjct: 290 LRKT 293 >gi|91777566|ref|YP_552774.1| sigma 70 (RpoD) [Burkholderia xenovorans LB400] gi|91690226|gb|ABE33424.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia xenovorans LB400] Length = 665 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 118/246 (47%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 427 AKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +A+++ + Sbjct: 487 VRQAVTRSLADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHPS---VLAERMEL 541 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 SE +V +SM + GD +L +I S +S Sbjct: 542 SEEKVRGILKIAKQPVSMETPVGDDGDATLGDMIEDSAASSPADAAM------------- 588 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 + + R + ++ L+PRE ++ R ++ TLE + +F+V+RER+RQIE+ Sbjct: 589 ----QADLRAAIDDALDSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIES 644 Query: 275 RAFKKV 280 +A +K+ Sbjct: 645 KAMRKL 650 >gi|307592489|ref|YP_003900080.1| RNA polymerase sigma-32 factor RpoH [Cyanothece sp. PCC 7822] gi|306986134|gb|ADN18014.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7822] Length = 307 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 116/243 (47%), Gaps = 44/243 (18%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 AA LV ++L+ V+ IA Y G GL +S+++ EG++GL++A ++FDP G++ +TY+ WW Sbjct: 82 AADTLVRANLKFVIFIANRYVGRGLELSDLIQEGSLGLIRAAERFDPSLGYQFSTYANWW 141 Query: 109 IKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGH-------LQAITDNNLKP 156 ++A M + +++ + N K+ NL +L G QA+ + L+ Sbjct: 142 VRAFMTRALANQSRTIRLPSQVNDKLNKIKKTRHNLAQLLGRSPSSSELAQALGISVLQL 201 Query: 157 EQVVAIAKKLNVSESEVISMNCRL--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + + KK IS++ + G E+L LI SSD+ S D EQ+ Sbjct: 202 HSLAQLDKK-------TISLSVWVDEQGRETLQDLIPSSDEPSLDE----TLKPDEIEQL 250 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 L L+PR + I R L+ TL + F +SRERVR+I Sbjct: 251 L-----------------QTLSPRNQEIVRLRILEGK--TLSEIGQSFHLSRERVRKICL 291 Query: 275 RAF 277 R+ Sbjct: 292 RSL 294 >gi|254415890|ref|ZP_05029647.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196177317|gb|EDX72324.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 352 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 71/303 (23%), Positives = 136/303 (44%), Gaps = 52/303 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------------------------YREHGDLS---- 48 Y+HEI ++P+L ++E V K+ + +H DL Sbjct: 48 YLHEIGRVPLLTHEQEIVYGKQVQQMMPLLEAKDALAETLEREPTMQEWADHVDLEESAL 107 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG+ Sbjct: 108 KKIINQGTRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGY 167 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I + +++ +K +++++ L N P + Sbjct: 168 KFSTYAYWWIRQAITRAIAQQARAIRLPIHITEK--LNKIKKVQRELSQRLGRNATPTE- 224 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I ++L + +++ SL+ + D ++ D L + G V + Sbjct: 225 --IGQELELEPAQIREYLSIARQPVSLD--VRVGDNQDTELSDLL--EDSGPTPVHYTTQ 278 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 E + R L ++ L P++R + R E N ++L + +SRERVRQ+E +A Sbjct: 279 E--SLRQDLDNLLAELTPQQREVLALRFGLEDGNELSLAKVGQRLNLSRERVRQLEHQAL 336 Query: 278 KKV 280 ++ Sbjct: 337 AQL 339 >gi|88809912|ref|ZP_01125417.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88786102|gb|EAR17264.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 355 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 75/281 (26%), Positives = 126/281 (44%), Gaps = 30/281 (10%) Query: 13 EIGLSRYIHEIRKIPMLEKQ------EEYVLAKRYREHGDLSAAH-------------RL 53 EI L R + E+ ++ +E + E VLA + LSA R+ Sbjct: 65 EITLGRQVQELMELESVEAELQEKRGGEAVLAAELAKAAGLSAVQLKRKLQAGRRAKERM 124 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WWI+ + Sbjct: 125 VAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGI 184 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ + L +LK + ++ + V +A + + E EV Sbjct: 185 TRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPSVTELASFVELPEDEV 239 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSM 232 + CR SL + D + ++ D L D + EQV E E K L + Sbjct: 240 KELMCRARQPVSLE--MKVGDGDDTELLDLLAGDGELPSEQV--EGECLKGDLRDLLGQL 295 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 L R R+ E P++L + +SR+RVR +E Sbjct: 296 PELQERVLRMRYGMD-GEEPMSLTGIGRVIGISRDRVRNLE 335 >gi|51598964|ref|YP_073152.1| RNA polymerase sigma factor RpoD [Borrelia garinii PBi] gi|51573535|gb|AAU07560.1| RNA polymerase sigma-70 factor [Borrelia garinii PBi] Length = 631 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 72/261 (27%), Positives = 130/261 (49%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ L R +L + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQ--INRLNRETRYLVQVLGK 492 Query: 153 NLKPEQV-------VAIAKKLNVSESEVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 + E++ + K + E +S+ + +E L+ I + + KN + Sbjct: 493 DPTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R++L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RSIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|39840783|emb|CAD20832.1| sigma factor [Spinacia oleracea] Length = 548 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 122/234 (52%), Gaps = 19/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S LV+ ++ YRG G+ +++ GNIG++Q ++FD RG++ +TY +WI+ A Sbjct: 315 LLKSGRSLVLYLSRYYRGLGVAHEDLMQAGNIGILQGAERFDHTRGYQFSTYVQYWIRKA 374 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + + R +K+ TT L + R++ + + + K V ++K +S + Sbjct: 375 MSQLVSRHGRGIKVPTT-----LSTTINRVQKARKILKRSQGKHPDDVEVSKSTGLSLDK 429 Query: 173 VISM-NC-RLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + S NC R+ G D+ + IN +L D ++ + +++ RN + Sbjct: 430 IKSADNCLRIVGSLDQKVGHFIN---------MKYLECTPDTALEMPEKTVMKQHMRNDV 480 Query: 229 TRSMSVLNPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L+P+ERR+ R L+ + ++L + F+VS+E +R++E RA K++ Sbjct: 481 HKLLQELDPKERRVLIHRYGLEGHCMSLHEVGKVFDVSKEWIRKMEKRALTKLR 534 >gi|324999213|ref|ZP_08120325.1| RNA polymerase sigma factor SigB [Pseudonocardia sp. P1] Length = 380 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 119/261 (45%), Gaps = 57/261 (21%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G L+ H L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++AV+KFD +GF+ +TY Sbjct: 140 GALAKNH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTY 198 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ + A+Q R RL HL EQV +A+ Sbjct: 199 ATWWIRQAITRGM------------ADQARTI----RLPVHLV---------EQVNKLAR 233 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD--------GQEQ--- 213 M+ R + S L S + D L + D G E+ Sbjct: 234 IKR-------DMHQRQGREPSEAELAQESGIPEHKISDLLDHARDPVSLDMPVGSEEEAP 286 Query: 214 --VLIEKEERKNRRNM---------LTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE E + N L R ++ L RE+++ R ++ P TL+ + Sbjct: 287 LGDFIEDAEATDAENTVISSLLSDDLRRVLATLEDREQKVIRMRFGLDDGQPRTLDQIGR 346 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F +SRERVRQIE K++ Sbjct: 347 AFTLSRERVRQIEREVMAKLR 367 >gi|269963639|ref|ZP_06177962.1| conserved hypothetical protein [Vibrio harveyi 1DA3] gi|269831652|gb|EEZ85788.1| conserved hypothetical protein [Vibrio harveyi 1DA3] Length = 279 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 42/118 (35%), Positives = 73/118 (61%), Gaps = 4/118 (3%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY--- 68 G+ + Y+ +I I +L +++E AK R GD A ++ S+LRLVVKIA Y Sbjct: 8 GKDPYAHYLKDIVGIDLLSREDELHYAKLNRA-GDKEAREVMIESNLRLVVKIAKSYLKR 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 G + +++ EGNIGL++A+ K+DPE G+R +TY++WWI+ ++ ++ + V++ Sbjct: 67 TGNNFTLLDLIEEGNIGLIKAIDKYDPEPGYRFSTYAVWWIRENIEAALMNNGRTVRL 124 >gi|187921222|ref|YP_001890254.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phytofirmans PsJN] gi|187719660|gb|ACD20883.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phytofirmans PsJN] Length = 665 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 118/246 (47%), Gaps = 36/246 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 427 AKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYATWW 486 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ + +++ + L R+ + T P +A+++ + Sbjct: 487 VRQAVTRSLADQARTIRV--PVHMIETINKLNRISREILQQTGQEAHPS---VLAERMEL 541 Query: 169 SESEV----------ISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 SE +V +SM + GD +L +I S +S Sbjct: 542 SEEKVRGILKIAKQPVSMETPVGDDGDATLGDMIEDSAASSPADAAM------------- 588 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEA 274 + + R + ++ L+PRE ++ R ++ TLE + +F+V+RER+RQIE+ Sbjct: 589 ----QADLRAAIDDALDSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIES 644 Query: 275 RAFKKV 280 +A +K+ Sbjct: 645 KAMRKL 650 >gi|158337052|ref|YP_001518227.1| RNA polymerase sigma factor SigD [Acaryochloris marina MBIC11017] gi|158307293|gb|ABW28910.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 59/239 (24%), Positives = 117/239 (48%), Gaps = 13/239 (5%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H +A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +T Sbjct: 78 HEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 137 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ A+ I +++ +K L ++K + ++ + + +A Sbjct: 138 YAYWWIRQAITRAIAEKGRTIRLPIHITEK-----LNKIKKTQRQLSQKLGRAATISELA 192 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L+++ +V R SL+ + D ++ + + + E ++ R + Sbjct: 193 TSLDLTTKQVREYLERARQPLSLD--VRVGDNQDTELGELIEDPSESPENFTLQASLRGD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 L R M+ L +++++ R ++ P+TL + +SRERVRQIE A K+ Sbjct: 251 ----LERLMADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRERVRQIEREALSKL 305 >gi|85813983|emb|CAD20831.2| sigma factor [Spinacia oleracea] Length = 575 Score = 83.6 bits (205), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/251 (27%), Positives = 126/251 (50%), Gaps = 25/251 (9%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +R HG +++ S++RLV+ IA Y+G G+ + ++V EG GL++ +KFD +G Sbjct: 328 RRRLNHGTF-CKDKMIKSNVRLVISIAKNYQGSGMNLQDLVQEGCRGLVRGAEKFDASKG 386 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL-----RRLKGHLQAITDNN 153 F+ +TY+ WWIK A+++ + + RL F++ R + Q +++N Sbjct: 387 FKFSTYAHWWIKQAVRK---------SLSDQSRTIRLPFHMVEATYRVKEARKQLLSENG 437 Query: 154 LKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 +P + VA A L++ + M + N + K S D + + E Sbjct: 438 KQPNNEEVAEATGLSMKRLTAVLMTPKAPRSLDQKIGFNMNLKPSEVIAD---PEAETAE 494 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVR 270 +L ++ R++ L + + L+ RE+++ R E+ TL+ + VSRER+R Sbjct: 495 DLLTKQFMRQD----LEKVLDTLSSREKQVIRWRFGLEDGRMKTLQEIGELMGVSRERIR 550 Query: 271 QIEARAFKKVQ 281 QIE+ AF+K+Q Sbjct: 551 QIESSAFRKLQ 561 >gi|219684458|ref|ZP_03539402.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii PBr] gi|219672447|gb|EED29500.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii PBr] Length = 631 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 72/261 (27%), Positives = 130/261 (49%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ L R +L + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQ--INRLNRETRYLVQVLGK 492 Query: 153 NLKPEQV-------VAIAKKLNVSESEVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 + E++ + K + E +S+ + +E L+ I + + KN + Sbjct: 493 DPTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R++L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RSIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|328948870|ref|YP_004366207.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] gi|328449194|gb|AEB14910.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] Length = 272 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 44/106 (41%), Positives = 66/106 (62%), Gaps = 2/106 (1%) Query: 13 EIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 EI +++ Y++ ++K P+L EE LAKR + GD A + LV S+LRLVV +A + Sbjct: 2 EIDVAKGYLNSLKKYPLLSADEEIALAKRIKS-GDKEAFNLLVNSNLRLVVSVAGRFNKG 60 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 I +++ EGN+GLM A KKFDP G R +TY+ WI + ++I Sbjct: 61 AFCIMDLIQEGNLGLMVAAKKFDPAFGTRFSTYAYRWIVQRIMKFI 106 >gi|219685543|ref|ZP_03540360.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii Far04] gi|219672942|gb|EED29964.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii Far04] Length = 631 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 72/261 (27%), Positives = 130/261 (49%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ L R +L + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQ--INRLNRETRYLVQVLGK 492 Query: 153 NLKPEQV-------VAIAKKLNVSESEVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 + E++ + K + E +S+ + +E L+ I + + KN + Sbjct: 493 DPTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R++L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RSIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|21219415|ref|NP_625194.1| RNA polymerase principal sigma factor HrdC [Streptomyces coelicolor A3(2)] gi|256789543|ref|ZP_05527974.1| RNA polymerase principal sigma factor HrdC [Streptomyces lividans TK24] gi|289773432|ref|ZP_06532810.1| RNA polymerase principal sigma factor hrdC [Streptomyces lividans TK24] gi|123520|sp|P18184|HRDC_STRCO RecName: Full=RNA polymerase principal sigma factor hrdC gi|48741|emb|CAA37173.1| unnamed protein product [Streptomyces coelicolor A3(2)] gi|6562877|emb|CAB62686.1| RNA polymerase principal sigma factor HrdC [Streptomyces coelicolor A3(2)] gi|289703631|gb|EFD71060.1| RNA polymerase principal sigma factor hrdC [Streptomyces lividans TK24] Length = 339 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 80/292 (27%), Positives = 136/292 (46%), Gaps = 46/292 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRY------RE------------------------HG 45 L +Y+ +I P+L ++E LA R RE H Sbjct: 39 LGQYLTQIGATPLLTAEDEVRLATRIEAGVRAREELETADTGEPAPTPRRRRTLEETVHD 98 Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A +V ++LRLVV +A + GLP+ +V+ EGN+GL++AV+KFD +GF+ +TY+ Sbjct: 99 GQEAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHTKGFKFSTYA 158 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WWI+ A++ + V++ ++ L +++ L+A D E+V A + Sbjct: 159 TWWIRQAIERGLATHARTVRLPVHVVEQ--LQKLAKVERKLRAGLDREPTTEEVAA---E 213 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERKN 223 + +V+ + R G +++ S D + D +V D +VL E E + Sbjct: 214 SGIDVDKVVWL--RRVGRDAV-----SLDTPVDETGDTVVGDLIPDTEVLRAPEVAEFQA 266 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIE 273 L ++ L PRE I R L + P TL+ ++ ++RERVRQ+E Sbjct: 267 LAAELREAVGTLAPRESLILSLRYGLHDGRPRTLQQVAQHVGLTRERVRQLE 318 >gi|301320481|gb|ADK69124.1| putative RNA polymerase sigma factor RpoD [Mycoplasma mycoides subsp. mycoides SC str. Gladysdale] Length = 506 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 39/114 (34%), Positives = 71/114 (62%), Gaps = 3/114 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRY--REHGDLSAA-HRLVTSHLRLVVKIAMGYRGYG 72 + Y ++I + P+L K++E + AK + D+ ++L+ S+L+LV+ +A + G Sbjct: 171 IKTYFYKIGQAPILTKEQEIIYAKMAVSDDPEDVQEGRNKLIESNLKLVISVARKHLNRG 230 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L ++++ EGNIGLM+AV KF+ E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 231 LDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWWIRQAITRAIADQARTIRI 284 >gi|319948428|ref|ZP_08022566.1| RNA polymerase sigma factor SigB [Dietzia cinnamea P4] gi|319437910|gb|EFV92892.1| RNA polymerase sigma factor SigB [Dietzia cinnamea P4] Length = 322 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 77/303 (25%), Positives = 135/303 (44%), Gaps = 58/303 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------------------GDLSAAH 51 Y++ I K +L ++E L+KR Y +H G+ + AH Sbjct: 29 YLNGIGKTALLNAEDEVELSKRIEAGLYAKHLLETKKRLGPAKKADLKTIVAEGEAARAH 88 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ Sbjct: 89 -LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQ 147 Query: 112 AMQEYILRSWSLVK--------IGTTANQKR-LFFNLRRLKGHLQAITDNNLKPEQVVAI 162 A+ + ++ + A KR L L R + ++ + ++ Sbjct: 148 AITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATLEELAEESGIPAHKI--- 204 Query: 163 AKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 ++L + +S++ + DE L I ++ S++ H VL EE Sbjct: 205 -EELLDHSRDPVSLDMPVGADEEAPLGDFIEDAEATSAENTVVSNVMHSDVRAVLATLEE 263 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+ + L + PR TL+ + F +SRERVRQIE K+ Sbjct: 264 REQQVITLRFGLDDGQPR---------------TLDQIGKRFGLSRERVRQIEREVMAKL 308 Query: 281 QES 283 +E Sbjct: 309 REG 311 >gi|320449783|ref|YP_004201879.1| RNA polymerase sigma factor RpoD [Thermus scotoductus SA-01] gi|320149952|gb|ADW21330.1| RNA polymerase sigma factor RpoD [Thermus scotoductus SA-01] Length = 494 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 64/242 (26%), Positives = 124/242 (51%), Gaps = 22/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY+ W Sbjct: 253 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATW 312 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + + +L +++ + IA+ + Sbjct: 313 WIRQAINRAIADQARTIRIPV-----HMVETINKLSRTARSLQQELGREPTYEEIAEAMG 367 Query: 168 VS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEER 221 +++ + ++A E ++ D+ S + D++ ++ D Q L+ +E Sbjct: 368 PGWDAKRVEETLKIA-QEPVSLETPIGDEKDSFYGDFIPDENLPSPVDAAAQSLLAEE-- 424 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K Sbjct: 425 ------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRK 478 Query: 280 VQ 281 ++ Sbjct: 479 LK 480 >gi|317505016|ref|ZP_07962964.1| RNA polymerase sigma factor rpoD [Prevotella salivae DSM 15606] gi|315663898|gb|EFV03617.1| RNA polymerase sigma factor rpoD [Prevotella salivae DSM 15606] Length = 260 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 76/268 (28%), Positives = 132/268 (49%), Gaps = 50/268 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L+ Y++EI K +L EE L+++ ++ G S A ++L +++LR VV IA Y G+ Sbjct: 27 LNLYLNEIGKEELLSDDEENKLSQQIQQGGASSERAINKLTSANLRFVVAIAKQYTDRGV 86 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 I +++SEGNIGLM+A FD RG R Y+ +++ A++ + N++ Sbjct: 87 AILDLISEGNIGLMKAAMSFDGSRGLRFVGYAEPFVRRAIEAAV-------------NEQ 133 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 F RL H + PE+ K N S S++ L ++++ L S Sbjct: 134 SGIF---RLPKHENS-------PEE------KAN---SRAFSVDAPLENGKNMSLLSVLS 174 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 D N+++ D V + +E+ L ++M++LN RE+ + EA P Sbjct: 175 DPNAARP-DQEVLEASVKEE--------------LMQAMNILNQREKNVVEAFYGIGQPH 219 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKV 280 +T ++ + + RERVRQI +A +K+ Sbjct: 220 LTFAEIAEKMGLKRERVRQIRNKAVRKL 247 >gi|256383860|gb|ACU78430.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. capri str. GM12] gi|256384691|gb|ACU79260.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. capri str. GM12] gi|296455677|gb|ADH21912.1| RNA polymerase sigma-A factor [synthetic Mycoplasma mycoides JCVI-syn1.0] Length = 506 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 39/114 (34%), Positives = 71/114 (62%), Gaps = 3/114 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRY--REHGDLSAA-HRLVTSHLRLVVKIAMGYRGYG 72 + Y ++I + P+L K++E + AK + D+ ++L+ S+L+LV+ +A + G Sbjct: 171 IKTYFYKIGQAPILTKEQEIIYAKMAVSDDPEDVQEGRNKLIESNLKLVISVARKHLNRG 230 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L ++++ EGNIGLM+AV KF+ E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 231 LDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWWIRQAITRAIADQARTIRI 284 >gi|331703466|ref|YP_004400153.1| RNA polymerase sigma A factor [Mycoplasma mycoides subsp. capri LC str. 95010] gi|328802021|emb|CBW54175.1| RNA polymerase sigma A factor [Mycoplasma mycoides subsp. capri LC str. 95010] Length = 506 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 39/114 (34%), Positives = 71/114 (62%), Gaps = 3/114 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRY--REHGDLSAA-HRLVTSHLRLVVKIAMGYRGYG 72 + Y ++I + P+L K++E + AK + D+ ++L+ S+L+LV+ +A + G Sbjct: 171 IKTYFYKIGQAPILTKEQEIIYAKMAVSDDPEDVQEGRNKLIESNLKLVISVARKHLNRG 230 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L ++++ EGNIGLM+AV KF+ E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 231 LDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWWIRQAITRAIADQARTIRI 284 >gi|1553019|gb|AAC45101.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 126/260 (48%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 271 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 314 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL + + S + + + + D Sbjct: 315 LNRETRYLVQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 370 Query: 212 EQVLIEKEERKNRRNMLT--------RS-MSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + RS + L RE+ + + R E+ +TLE + Sbjct: 371 LSDFIEDKAIKNPANHTSFVVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|169630111|ref|YP_001703760.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus ATCC 19977] gi|169242078|emb|CAM63106.1| RNA polymerase sigma factor [Mycobacterium abscessus] Length = 323 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 76/301 (25%), Positives = 143/301 (47%), Gaps = 58/301 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------------------GDLSAAH 51 Y++ I K +L ++E LAKR Y +H G+ + +H Sbjct: 30 YLNGIGKTALLTAEDEVELAKRIEAGLYAQHLLDTKKRLGEARKKDLAVIVREGNAARSH 89 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ Sbjct: 90 -LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQ 148 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKL 166 A+ + +++ ++ L R+K L +D L E + + K Sbjct: 149 AITRGMADQSRTIRLPVHLVEQ--VNKLARIKRELHQRLGREASDEELAEESGIPVEKIG 206 Query: 167 NVSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++ + + +S++ + DE L I ++ S+ E +I + Sbjct: 207 DLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEAMSA-------------ENAVIAELLHS 253 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R++L + L+ RE+++ R ++ TL+ + F +SRERVRQIE K+ Sbjct: 254 DVRSVL----ATLDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVRQIEREVMAKL 309 Query: 281 Q 281 + Sbjct: 310 R 310 >gi|42561001|ref|NP_975452.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. mycoides SC str. PG1] gi|42492498|emb|CAE77094.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. mycoides SC str. PG1] Length = 522 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 39/114 (34%), Positives = 71/114 (62%), Gaps = 3/114 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRY--REHGDLSAA-HRLVTSHLRLVVKIAMGYRGYG 72 + Y ++I + P+L K++E + AK + D+ ++L+ S+L+LV+ +A + G Sbjct: 187 IKTYFYKIGQAPILTKEQEIIYAKMAVSDDPEDVQEGRNKLIESNLKLVISVARKHLNRG 246 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L ++++ EGNIGLM+AV KF+ E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 247 LDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWWIRQAITRAIADQARTIRI 300 >gi|253761922|ref|XP_002489335.1| hypothetical protein SORBIDRAFT_0010s016080 [Sorghum bicolor] gi|241946983|gb|EES20128.1| hypothetical protein SORBIDRAFT_0010s016080 [Sorghum bicolor] Length = 238 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 68/246 (27%), Positives = 122/246 (49%), Gaps = 43/246 (17%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +VTS++RLV+ IA + G G+ + +++ EG GL++ +KFD +GFR +TYS WWIK A Sbjct: 1 MVTSNVRLVISIAREFEGPGMDLYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWIKQA 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M++ + + Q ++F RL H+ + +K K +E Sbjct: 61 MRKSV------------SEQSQIF----RLPAHMVEAS-YRVKECTKRLRRKLRRRPTNE 103 Query: 173 VISMNCRLAGDE------------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 I+++ + SL++ I S+D + Y + EE Sbjct: 104 EIALDTGMPIKRVEAAVNLPKYSVSLDSKIGSTD---------MTYQEVTADPSAETAEE 154 Query: 221 RKNRRNM---LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEAR 275 NR +M + +++ L RE+++ R L+++ + TL+ + + VSRER+RQIE+ Sbjct: 155 MLNRMSMKKDVHKALDTLTTREKQVVVLRFGLEDDRIRTLQEIGNIMGVSRERIRQIESG 214 Query: 276 AFKKVQ 281 AF+K++ Sbjct: 215 AFRKLR 220 >gi|110626973|gb|ABG79025.1| RpoH [Wolbachia endosymbiont of Armadillidium vulgare] gi|110626982|gb|ABG79031.1| RpoH [Wolbachia endosymbiont of Armadillidium nasatum] gi|110626985|gb|ABG79033.1| RpoH [Wolbachia endosymbiont of Armadillidium album] Length = 78 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 37/72 (51%), Positives = 54/72 (75%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ VN L +YI E+RK PML ++EE LAK ++EH D+S+AH+L+TSHL LVVKIAM Sbjct: 7 NLYVNSSTNLMQYIAEVRKFPMLSQEEEVRLAKNWQEHKDISSAHKLITSHLNLVVKIAM 66 Query: 67 GYRGYGLPISEV 78 ++ YGL + ++ Sbjct: 67 KFKNYGLLLMDL 78 >gi|313837139|gb|EFS74853.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL037PA2] gi|314927839|gb|EFS91670.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL044PA1] gi|314971910|gb|EFT16008.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL037PA3] gi|328907302|gb|EGG27068.1| sigma-70 region 2 [Propionibacterium sp. P08] Length = 312 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 81/312 (25%), Positives = 141/312 (45%), Gaps = 59/312 (18%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE-------------------------- 43 ++G+ + Y+ I + +L EE LA+R Sbjct: 13 IDGKDAVGLYLDGIARTSLLNAAEEVALARRIEAGVFARAVLEGQAETTSDATTEELHQI 72 Query: 44 --HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 GD + AH V ++LRLVV +A Y +P+ ++V EGN GL++AV+KFD +GF+ Sbjct: 73 AADGDEAMAH-FVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKF 131 Query: 102 ATYSMWWIKAAMQEYILRSWSLVK----IGTTANQ-KRLFFNLRRLKGHLQAITDNNLKP 156 +TY+ WW++ A+ I + +V+ + NQ NL R G +P Sbjct: 132 STYATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGR---------EP 182 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHD-GQEQV 214 E IA +L ++E VI + R D SL+A + D + D + + G + + Sbjct: 183 E-TSEIADELEITEERVIEL-IRFGRDHVSLDAPVE--DDGDTSLGDLIARETSPGPDDI 238 Query: 215 LIEKEERKNRRNMLT----RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +++ E+R +L RS V+ R + + R+ + L ++ + ++ ERVR Sbjct: 239 VLDAEDRGRLEGLLDNLDERSADVVR-RRYGLVDGRQAK-----LADIGKVWGITAERVR 292 Query: 271 QIEARAFKKVQE 282 QIE A +++ Sbjct: 293 QIERAALDSMRQ 304 >gi|284044896|ref|YP_003395236.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283949117|gb|ADB51861.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 300 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 45/120 (37%), Positives = 70/120 (58%), Gaps = 2/120 (1%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG-L 73 L ++ + P+L EE L++R E GDL+A RLV +LRLVV IA ++G L Sbjct: 30 ALQLFLRRASRYPLLTPAEELALSRRI-ERGDLAAKERLVNHNLRLVVSIARRFQGVSEL 88 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + ++V EG +GL++A +KFD RGFR +TY+ WI+ A+Q I +++ Q+ Sbjct: 89 TLLDLVQEGVVGLIRAAEKFDWRRGFRFSTYATLWIRQAIQRGIATHGRTIRLPVNVAQR 148 >gi|1553023|gb|AAC45103.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 126/260 (48%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 271 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 314 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL + + S + + + + D Sbjct: 315 LNRETRYLVQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 370 Query: 212 EQVLIEKEERKNRRNMLT--------RS-MSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + RS + L RE+ + + R E+ +TLE + Sbjct: 371 LSDFIEDKAIKNPANHTSFVVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|1553029|gb|AAC45106.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 126/260 (48%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 271 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 314 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL + + S + + + + D Sbjct: 315 LNRETRYLVQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 370 Query: 212 EQVLIEKEERKNRRNMLT--------RS-MSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + RS + L RE+ + + R E+ +TLE + Sbjct: 371 LSDFIEDKAIKNPANHTSFVVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|1553025|gb|AAC45104.1| primary sigma factor [Borrelia garinii] gi|1553031|gb|AAC45107.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 83.2 bits (204), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 126/260 (48%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 271 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 314 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL + + S + + + + D Sbjct: 315 LNRETRYLVQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 370 Query: 212 EQVLIEKEERKNRRNMLT--------RS-MSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + RS + L RE+ + + R E+ +TLE + Sbjct: 371 LSDFIEDKAIKNPANHTSFVVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|284031338|ref|YP_003381269.1| RpoD subfamily RNA polymerase sigma-70 subunit [Kribbella flavida DSM 17836] gi|283810631|gb|ADB32470.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kribbella flavida DSM 17836] Length = 316 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 77/310 (24%), Positives = 146/310 (47%), Gaps = 51/310 (16%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--------------------- 48 ++G+ + Y+ EI + P+L +EE LA+ E G L+ Sbjct: 11 IDGKDSVGLYLEEIARTPLLTAEEEVELAETV-EAGLLAEQLLAEGRVGRKKGGAPKYAT 69 Query: 49 -------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 A R VT++LRLVV IA Y +P+ ++V EGN GL++AV+KFD Sbjct: 70 EEELEWLAAEGQRAQQRFVTANLRLVVSIARRYGRSQMPLLDLVQEGNTGLIRAVEKFDY 129 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +GF+ +TY+ WW++ A+ I + +V++ ++ L ++ + + + Sbjct: 130 RKGFKFSTYATWWVRQAITRGIAQQARVVRLPVHVVEQ-----LNQIGSARRTLERKLGR 184 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYD-HDGQEQ 213 ++ IA +L++ E V + R+ D SL+ I+ D+ + D + + G +Q Sbjct: 185 EPEIDEIAAELDLDEERVTEL-IRIGRDHISLDNPID--DEGETSLGDLIAAETAPGPDQ 241 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQ 271 ++ + +R +++ + L+PR + R L + L ++ + +S ERVRQ Sbjct: 242 LVADASDRSGLFSLVDQ----LDPRSADVIRRRYGLHDGRQAKLADIGAVHGISAERVRQ 297 Query: 272 IEARAFKKVQ 281 IE A +++ Sbjct: 298 IEREALGRLR 307 >gi|55274945|gb|AAV49272.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 204 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 34/67 (50%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRL+VKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLMVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|88854620|ref|ZP_01129287.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] gi|88816428|gb|EAR26283.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] Length = 1108 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 74/256 (28%), Positives = 119/256 (46%), Gaps = 40/256 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R S+ RLV IA Y GL ++++ EG +GL++A++KFD +GF+ +TY+ WW Sbjct: 683 AFARFAASNYRLVFSIARRYVNNGLDYADLIQEGALGLLRAIQKFDYMKGFKFSTYATWW 742 Query: 109 IKAAMQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 ++ A+ + S ++I Q +L R + LQ N+ KP + +A Sbjct: 743 VRQAITRALADLGSTIRIPVHMVEQQNKLRQAARSFE--LQ----NDRKP-TISELAAGA 795 Query: 167 NVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 V+E + +S++ L E +L N LV + +LI Sbjct: 796 EVTEQDASRALGYEYSFLSIDKELDPGEGFGSLHN-----------LLVDESVAPVDLLI 844 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEA 274 E R N+L S L RE + R ++P TL+++ F V+RER+RQIE Sbjct: 845 HAEFRGAMNNVL----SALPKRESTTIQMRFGIGGQDPATLDHIGDIFGVTRERIRQIE- 899 Query: 275 RAFKKVQESIQKQVEL 290 KK ES++ E+ Sbjct: 900 ---KKTMESLRSSAEV 912 >gi|17231292|ref|NP_487840.1| RNA polymerase sigma factor [Nostoc sp. PCC 7120] gi|8489801|gb|AAF75758.1|AF262217_2 group 2 sigma 70-type sigma factor E [Nostoc sp. PCC 7120] gi|17132934|dbj|BAB75499.1| group 2 sigma 70-type sigma factor E [Nostoc sp. PCC 7120] Length = 327 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 59/231 (25%), Positives = 114/231 (49%), Gaps = 13/231 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG++ +TY+ WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K +++++ L + P + IAK+L + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEK--LNKIKKVQRELAQTLGRSPSPAE---IAKELEL 206 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +++ SL+ + D ++ Q+ L D E ++ R++ +L Sbjct: 207 EPAQIREYLNMARQPVSLD--VKVGDNQDTELQEMLEDDGPSPEYYTTQEFLRQDLNTLL 264 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L P++R + R L N ++L + +SRERVRQ+E +A Sbjct: 265 AE----LTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQAL 311 >gi|1553027|gb|AAC45105.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 126/260 (48%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 271 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 314 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL + + S + + + + D Sbjct: 315 LNRETRYLVQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 370 Query: 212 EQVLIEKEERKNRRNMLT--------RS-MSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + RS + L RE+ + + R E+ +TLE + Sbjct: 371 LSDFIEDKAIKNPANHTSFVVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|596248|gb|AAC44104.1| primary sigma factor [Borrelia burgdorferi] Length = 543 Score = 82.8 bits (203), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 291 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 346 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 347 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 405 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 406 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 464 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 465 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 506 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 507 HFNVTRERIRQIESKALRRLK 527 >gi|332708935|ref|ZP_08428906.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] gi|332352477|gb|EGJ32046.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] Length = 333 Score = 82.8 bits (203), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 72/313 (23%), Positives = 140/313 (44%), Gaps = 72/313 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR-------EHGDLS----------------------- 48 Y+HEI ++P+L ++E V K+ + E L+ Sbjct: 29 YLHEIGRVPLLTHEQEIVYGKQVQQMMALLGEKATLAQELEREPTTEEWASYVNKSEAEL 88 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG+ Sbjct: 89 KKAIDQGTRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGY 148 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I + +++ +K +++++ L N P + Sbjct: 149 KFSTYAYWWIRQAITRAIAQQARAIRLPIHITEK--LNKIKKVQRELSQTLGRNATPTE- 205 Query: 160 VAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 IAK+L++ +++ IS++ R+ D ++ + L + D Sbjct: 206 --IAKELDLEPAQIREYLSIARQPISLDVRVG------------DNQDTELSELL--EDD 249 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRE 267 G V +E + R L ++ L P++R + R E+ ++L + +SRE Sbjct: 250 GLTPVNYTTQE--SLRQDLNLLLAELTPQQREVLALRFGLEDGKELSLAKVGKRLNLSRE 307 Query: 268 RVRQIEARAFKKV 280 RVRQ+E +A ++ Sbjct: 308 RVRQLEHQALAQL 320 >gi|162448460|ref|YP_001610827.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161159042|emb|CAN90347.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 446 Score = 82.8 bits (203), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 77/249 (30%), Positives = 128/249 (51%), Gaps = 20/249 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRL V IA ++ +G+P+ ++V EGN+GL++A KF+ RG R TY+ WW Sbjct: 209 AKSELVQANLRLAVAIAREHQRFGVPLLDLVQEGNLGLIRAADKFEYRRGHRFGTYAAWW 268 Query: 109 IKAAMQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK- 165 IK A++ IL V++ TA + ++ R L + + +P V IA++ Sbjct: 269 IKQAIKRTILNQGKPVRMPVHLTAIRSQVVRARRDL------VQERGREP-SVEEIAERS 321 Query: 166 -LNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L V + VIS LA + SL+A + ++ +++ D L D +L + + Sbjct: 322 GLTVEKVRVIS---ELALEPLSLDAPVG--EEGDTRYGDLLANDEPTPADMLARRRLIEQ 376 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L RR F ++ TLE + F ++RER+RQIEA+ +K++ + Sbjct: 377 TRELLDSLQPRERELLRRRFGLDGNEDE--TLEEIGQSFSLTRERIRQIEAKLLEKLR-T 433 Query: 284 IQKQVELSS 292 +Q EL S Sbjct: 434 RSRQRELGS 442 >gi|1553011|gb|AAC45097.1| primary sigma factor [Borrelia afzelii] Length = 450 Score = 82.8 bits (203), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 126/260 (48%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 271 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 314 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL + + S + + + + D Sbjct: 315 LNRETRYLVQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 370 Query: 212 EQVLIEKEERKNRRNMLT--------RS-MSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + RS + L RE+ + + R E+ +TLE + Sbjct: 371 LSDFIEDKAIKNPANHTSFVVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|110626976|gb|ABG79027.1| RpoH [Wolbachia endosymbiont of Armadillidium vulgare] Length = 78 Score = 82.8 bits (203), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 37/67 (55%), Positives = 51/67 (76%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ VN L +YI E+RK PML ++EE LAK ++EH D+S+AH+L+TSHL LVVKIAM Sbjct: 7 NLYVNSSTNLMQYIAEVRKFPMLSQEEEVRLAKNWQEHKDISSAHKLITSHLNLVVKIAM 66 Query: 67 GYRGYGL 73 ++ YGL Sbjct: 67 KFKNYGL 73 >gi|331028036|ref|YP_004421751.1| group 2 RNA polymerase sigma factor [Synechococcus phage S-CBS3] gi|294805649|gb|ADF42487.1| group 2 RNA polymerase sigma factor [Synechococcus phage S-CBS3] Length = 299 Score = 82.8 bits (203), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 76/302 (25%), Positives = 142/302 (47%), Gaps = 51/302 (16%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR-------EHGDLS---------------AAHRL 53 ++ Y+ +I + P+L EE +++ + EH D S A R+ Sbjct: 4 VADYLKQIGRHPLLTATEEIEYSRQIQAMLAVQAEHPDSSTHTHQQRVIIRRGQRAKERM 63 Query: 54 VTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 + +LRLVV IA Y R L + ++V +GN+GL +A + FDP RG++ +TY+ WWI+ Sbjct: 64 IVRNLRLVVTIAKKYVKRCTSLEMLDLVQDGNMGLARATELFDPSRGYKFSTYAYWWIRQ 123 Query: 112 AMQEYILRSWSLVKIGTTANQK----RLFFNLR-RLKGHLQAITDN----NLKPEQVVAI 162 ++ + ++++ ++K R + N + + G + I + + P ++ A Sbjct: 124 SISRGLQDRDRMIRLPIHRHEKVIKARAYMNHQLAMTGKMPTIAECAAAVDADPHELQAS 183 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 V +V S++ + +G + L+ +++ +S +D ++ LIE+E Sbjct: 184 L----VMAQDVCSLDAKASGRDDLSPILDLIPDPASLHKD---------DEYLIEREILH 230 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + NML+ + R + A + VTL L E VSRE +RQ +A KV++ Sbjct: 231 DAINMLSEDEQDIVRRHNGLGGAPK-----VTLGQLGQERGVSREAIRQKHTKAMNKVRQ 285 Query: 283 SI 284 I Sbjct: 286 QI 287 >gi|90580452|ref|ZP_01236258.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] gi|90438361|gb|EAS63546.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] Length = 231 Score = 82.8 bits (203), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 62/230 (26%), Positives = 118/230 (51%), Gaps = 19/230 (8%) Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + IA YR L + +++ EGN+GL+ AV+KFDPE+GFR +TY+ WWIK ++ I Sbjct: 1 MSIAKKYRAAHLLLGDMIDEGNLGLITAVEKFDPEKGFRFSTYATWWIKQNIERAIHNQN 60 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 +++ +++ L+ H + N +P IA++LN ++ + Sbjct: 61 RTIRLPVHVSKEINGL----LRTHRDLMKKQNHEPTH-EDIAQQLNKETHDISILFSYEQ 115 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN---PR 238 SL+ I D+N+ +V + ++E+ +M+ + +LN PR Sbjct: 116 KIVSLDQTI-GDDENTGTIASLIVDEQIPSPSHIVEE------NSMVNLAEDILNKIKPR 168 Query: 239 ERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ER I RR + P TL+ ++ ++RERVRQ++A++ ++++ +++ Sbjct: 169 EREIL-CRRFGVMGYEPQTLQEVALALGITRERVRQLQAKSLERLKMNLK 217 >gi|123967051|ref|YP_001012132.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123201417|gb|ABM73025.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9515] Length = 333 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 60/242 (24%), Positives = 114/242 (47%), Gaps = 16/242 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 98 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 157 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + + +AK + + Sbjct: 158 IRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQRELSQEMSRTPTISELAKYVEL 212 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + C+ SL + D + D L G E + E+ E R L Sbjct: 213 PEDDVKDLMCKAGQPVSLETKVG--DGEDTVLLDLLA----GGEDLPDEQIEMDCMRGDL 266 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE---ARAFKKVQES 283 + L + R+ R + P++L + +SR+RVR +E R +++ E+ Sbjct: 267 HSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSEN 326 Query: 284 IQ 285 ++ Sbjct: 327 VE 328 >gi|123969371|ref|YP_001010229.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|123199481|gb|ABM71122.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. AS9601] Length = 344 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 71/324 (21%), Positives = 141/324 (43%), Gaps = 56/324 (17%) Query: 7 SIIVNGEIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREHGDLS----------------- 48 SI + ++ L R Y+ +I ++P+L ++E L ++ +E+ ++ Sbjct: 27 SIKASNDVDLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMEVERIELEIIELTGEKPSID 86 Query: 49 ----------------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 A R+V ++LRLVV +A Y + + +++ EG IGL Sbjct: 87 ELSAKLNLTTSTIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGL 146 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ V+KFDP RG++ +TY+ WWI+ + I +++ + L +LK Sbjct: 147 VRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQ 201 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + ++ + V +AK + + E +V + C+ SL + D + D L Sbjct: 202 RELSQEMSRTPTVSELAKYVELPEDDVKDLMCKAGQPVSLETKVG--DGEDTVLLDLLA- 258 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEV 264 G E + E+ E R L + L + R+ R + P++L + + Sbjct: 259 ---GGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGI 315 Query: 265 SRERVRQIE---ARAFKKVQESIQ 285 SR+RVR +E R +++ ++++ Sbjct: 316 SRDRVRNLERDGLRGLRRLSDNVE 339 >gi|223889384|ref|ZP_03623970.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 64b] gi|223885070|gb|EEF56174.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 64b] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|225551881|ref|ZP_03772824.1| RNA polymerase sigma factor RpoD [Borrelia sp. SV1] gi|225371676|gb|EEH01103.1| RNA polymerase sigma factor RpoD [Borrelia sp. SV1] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|15595057|ref|NP_212846.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi B31] gi|216264471|ref|ZP_03436463.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 156a] gi|221217929|ref|ZP_03589396.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 72a] gi|225548954|ref|ZP_03769931.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 94a] gi|225549892|ref|ZP_03770853.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 118a] gi|226320452|ref|ZP_03796018.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 29805] gi|226321409|ref|ZP_03796936.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi Bol26] gi|3915854|sp|P52323|RPOD_BORBU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|2688647|gb|AAC67061.1| RNA polymerase sigma-70 factor (rpoD) [Borrelia burgdorferi B31] gi|215980944|gb|EEC21751.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 156a] gi|221192235|gb|EEE18455.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 72a] gi|225369351|gb|EEG98803.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 118a] gi|225370557|gb|EEG99993.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 94a] gi|226233205|gb|EEH31957.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi Bol26] gi|226234094|gb|EEH32809.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 29805] gi|312148540|gb|ADQ31199.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi JD1] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|38233998|ref|NP_939765.1| RNA polymerase sigma factor SigB [Corynebacterium diphtheriae NCTC 13129] gi|38605711|sp|P33118|RPSB_CORDI RecName: Full=RNA polymerase sigma factor sigB gi|38200260|emb|CAE49944.1| RNA polymerase sigma factor [Corynebacterium diphtheriae] Length = 329 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 74/288 (25%), Positives = 138/288 (47%), Gaps = 44/288 (15%) Query: 13 EIGL-SRYIHEIRKIPMLE--KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 E+GL + Y+ E + P+ K++ VL K R+ A L+ ++LRLVV +A Y Sbjct: 58 EVGLYAEYLLENSQEPLTRAMKRDLKVLVKEGRK-----ARSHLLEANLRLVVSLAKRYT 112 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Sbjct: 113 GRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWWIRQAITRGMADQSRTIRLPVH 172 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 ++ L R+K + E+ +A++ + ES++ +S++ Sbjct: 173 LVEQ--VNKLSRIKREMYQQLGREATNEE---LAEESGIEESKIEMLLRQSRDPVSLDMP 227 Query: 180 LAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 + DE L I S+ + E ++ + R +L L Sbjct: 228 VGADEEAPLGDFIEDSEATDA-------------ESAVVASLRHSDIRTVL----DTLEQ 270 Query: 238 RERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RE+ + R ++ P TL+ + +F +SRERVRQIE K+++ Sbjct: 271 REQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMSKLRDG 318 >gi|328948111|ref|YP_004365448.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] gi|328448435|gb|AEB14151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] Length = 655 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 125/242 (51%), Gaps = 28/242 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +RL+ ++LRLVV IA Y GL + +++ EGNIGL++AV+KF+ +G++ +TY+ WW Sbjct: 417 AKNRLINANLRLVVSIAKKYTNRGLQLFDLIQEGNIGLIKAVEKFEYRKGYKFSTYATWW 476 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRL-KGHLQAITDNNLKPEQV--VAIA 163 I+ A+ I +++ ++ ++ R+L + + + TD + + +A Sbjct: 477 IRQAITRSISDQARTIRVPVHMIEQINKVVRESRQLMQKYGREPTDEEIAAQLSWPLARV 536 Query: 164 KKLNVSESEVISMNCRLAGDE--SLNALINSSD-KNSSQWQDWLVYDHDGQEQVLIEKEE 220 K++ E IS+ + +E SL I + +N + + + QEQ Sbjct: 537 KQVKNVAREPISLETPIGEEEDSSLGDFIEDKEIENPANQTAYTLL----QEQ------- 585 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 L +S L RE+ + + R ++ +TLE + F V+RER+RQIEA+A + Sbjct: 586 -------LRSVLSTLPQREQEVLKMRFGLDDGYSLTLEEVGLYFNVTRERIRQIEAKALR 638 Query: 279 KV 280 ++ Sbjct: 639 RL 640 >gi|195941530|ref|ZP_03086912.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 80a] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|224532358|ref|ZP_03672988.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi WI91-23] gi|224512665|gb|EEF83036.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi WI91-23] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|216263390|ref|ZP_03435385.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia afzelii ACA-1] gi|215980234|gb|EEC21055.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia afzelii ACA-1] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 72/261 (27%), Positives = 129/261 (49%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ L R +L + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQ--INRLNRETRYLVQVLGK 492 Query: 153 NLKPEQV-------VAIAKKLNVSESEVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 + E++ + K + E +S+ + +E L+ I + + KN + Sbjct: 493 DPTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|1519640|gb|AAB07553.1| SigC [Chloroflexus aurantiacus J-10-fl] Length = 312 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 118/249 (47%), Gaps = 29/249 (11%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L+ S+LRLVV IA Y+G+ L + +++ EG++GLM AV KFD RG + +TY+ +WI+ Sbjct: 76 QLINSNLRLVVSIARRYQGHALSLLDLIQEGSVGLMGAVDKFDASRGLKFSTYATYWIRQ 135 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ I V++ ++ L RL+ L D E++ A Sbjct: 136 SIGRAIADHSRTVRLPVHLGER--LSRLSRLRQELSQQLDREPTLEELAA---------- 183 Query: 172 EVISMNCRL---AGDESLNALINSSDKNSSQWQDWL-----VYDHDGQEQVLIEKEERKN 223 CR AG + A + + + +D + Q E E Sbjct: 184 -----GCRPERRAGRTAEQAGLAPTSLDEPHTEDGGGALAEILTDPLQPTPFDEVSESML 238 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + ++ ++ L+PRER I R L P+ TLE + ++RERVRQ+E A +K++ Sbjct: 239 QADV-QHALQQLSPRERSILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEHEALRKLR 297 Query: 282 E-SIQKQVE 289 + S+ Q++ Sbjct: 298 DPSLHPQLQ 306 >gi|291295726|ref|YP_003507124.1| RNA polymerase sigma 70 subunit, RpoD subfamily [Meiothermus ruber DSM 1279] gi|290470685|gb|ADD28104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Meiothermus ruber DSM 1279] Length = 507 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 72/260 (27%), Positives = 127/260 (48%), Gaps = 53/260 (20%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G++ H L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY Sbjct: 264 GEICRQH-LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEFKRRFKFSTY 322 Query: 105 SMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL------QAITD--- 151 + WWI+ A+ I ++I T N +L R+++ L + I D Sbjct: 323 ATWWIRQAINRAIADQARTIRIPVHMVETIN--KLTRTARQMQQELGREPSYEEIADAMG 380 Query: 152 ---NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + K E+ IA+ E +S+ + D+ S + D++ +H Sbjct: 381 PGWDAKKVEETFKIAQ-------EPVSLETPIG------------DEKDSFYGDFIPDEH 421 Query: 209 -----DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSE 261 D Q ++ +E L +++ L+ RE + + R+ + TLE + + Sbjct: 422 MASPVDSAAQSMLSEE--------LEKALGKLSEREAMVLKLRKGLIDGREHTLEEVGAY 473 Query: 262 FEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE +A +K++ Sbjct: 474 FGVTRERIRQIENKALRKLK 493 >gi|16330349|ref|NP_441077.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] gi|1652838|dbj|BAA17757.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 369 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 66/237 (27%), Positives = 117/237 (49%), Gaps = 15/237 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP++G++ +TY+ W Sbjct: 131 AAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPDKGYKFSTYAYW 190 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L ++K +++ + +A L+ Sbjct: 191 WIRQAITRTIANDARTIRLPIHVVEK-----LNKIKKAQRSLKQELKRNPNEGELAAALD 245 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--EERKNRR 225 ++ +++ + SLN + + LV + Q+ L E E RR Sbjct: 246 ITPAQLRQLLQLRRQSLSLNHRVGKGEDTE------LVDLLEDQQLQLPEDLMNESMLRR 299 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ VL RE + R TLE + + F +SRERVRQI+++A +K+ Sbjct: 300 EIVEVLAEVLTEREMEVICLRYGIASHQSYTLEEVGNMFNLSRERVRQIQSKAMRKL 356 >gi|218249968|ref|YP_002375211.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi ZS7] gi|218165156|gb|ACK75217.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi ZS7] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|312149387|gb|ADQ29458.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi N40] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|111115542|ref|YP_710160.1| RNA polymerase sigma factor RpoD [Borrelia afzelii PKo] gi|110890816|gb|ABH01984.1| RNA polymerase sigma-70 factor [Borrelia afzelii PKo] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 72/261 (27%), Positives = 129/261 (49%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ L R +L + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQ--INRLNRETRYLVQVLGK 492 Query: 153 NLKPEQV-------VAIAKKLNVSESEVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 + E++ + K + E +S+ + +E L+ I + + KN + Sbjct: 493 DPTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|320105081|ref|YP_004180672.1| RNA polymerase sigma-32 subunit RpoH [Isosphaera pallida ATCC 43644] gi|319752363|gb|ADV64123.1| RNA polymerase, sigma 32 subunit, RpoH [Isosphaera pallida ATCC 43644] Length = 322 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 122/240 (50%), Gaps = 26/240 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L +++RLV +A +R G+ S+++ EG GL++A+ +FD G +LATY+ WWI+ Sbjct: 94 KLALANMRLVAHVAKRFRDRGVSYSDLLQEGFCGLLEAIDRFDLAHGTKLATYATWWIRQ 153 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA--IAKKLNVS 169 AMQ + + V++ + + ++L N ++ Q T E+ V+ + ++++ + Sbjct: 154 AMQRAVAATAYPVRL-SPRHLRQLARNQEEIERGGQPRTRKKASDEESVSPEMIQRIHAA 212 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 +S++ + D S + L SD D G+ ++ +E + Sbjct: 213 TRPTVSLDATVDSDSSFSLLHTMSDPEG---------DRTGE----VDMDE------TIV 253 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSS---EFEVSRERVRQIEARAFKKVQESIQK 286 + M L PRE ++ + R N T +LS +VS+ERVRQI+ RA +K++ +Q+ Sbjct: 254 KLMENLRPREIQVL-SLRFGLNGATRHSLSQVGKVLDVSKERVRQIQDRALEKLRLCVQE 312 >gi|238063483|ref|ZP_04608192.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] gi|237885294|gb|EEP74122.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] Length = 334 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 119/233 (51%), Gaps = 21/233 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ W Sbjct: 95 TAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATW 154 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVA-IAK 164 WI+ A+ + ++I ++ R+ R L A+T L E VA +A+ Sbjct: 155 WIRQAITRAMADQARTIRIPVHMVEQVNRMVRARREL-----AVT---LGREPTVAEVAR 206 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE--QVLIEKEERK 222 ++V E +VI + SL+ + + S D++ E ++ E R Sbjct: 207 AMDVPEFQVIELISYDREPVSLDQAVG--EDGESALGDFVAAVDPAAEPGATAVDGELRN 264 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIE 273 R +L + L+ RE+ + R ++ TL+ + EF +SRER+RQIE Sbjct: 265 EVRIVL----ATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIE 313 >gi|55274998|gb|AAV49296.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 198 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 51/66 (77%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|224534471|ref|ZP_03675047.1| RNA polymerase sigma factor RpoD [Borrelia spielmanii A14S] gi|224514148|gb|EEF84466.1| RNA polymerase sigma factor RpoD [Borrelia spielmanii A14S] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|54401898|gb|AAV34634.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274877|gb|AAV49241.1| RNA polymerase subunit sigma-38 [Escherichia albertii] gi|55274996|gb|AAV49295.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 201 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 51/66 (77%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|224531865|ref|ZP_03672497.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia valaisiana VS116] gi|224511330|gb|EEF81736.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia valaisiana VS116] Length = 631 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 134/261 (51%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 379 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 434 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 435 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 493 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 494 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 552 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 553 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 594 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 595 HFNVTRERIRQIESKALRRLK 615 >gi|186684216|ref|YP_001867412.1| RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186466668|gb|ACC82469.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 327 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 71/300 (23%), Positives = 135/300 (45%), Gaps = 52/300 (17%) Query: 19 YIHEIRKIPMLEKQEEYV-----------------LAKRYREHGDLS------------- 48 Y+ EI ++P+L +++E V LAK+ D+S Sbjct: 23 YLREIGRVPLLTREQEIVYGKQVQQMMTLIDAKEVLAKKLHREPDMSEWADVVQQSETEV 82 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG+ Sbjct: 83 QQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGY 142 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I + +++ +K +++++ L + P + Sbjct: 143 KFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEK--LNKIKKVQRELAQTLGRSPTPAE- 199 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IAK+L + +++ SL+ + D ++ Q+ L E ++ Sbjct: 200 --IAKELELEPAQIREYLNMARQPVSLD--VKVGDNQDTELQEMLEDSGPSPEYYTNQEF 255 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 R++ N+L L P++R + R E N ++L + +SRERVRQ+E +A Sbjct: 256 LRQDLNNLLAE----LTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQAL 311 >gi|332297995|ref|YP_004439917.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332181098|gb|AEE16786.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 599 Score = 82.8 bits (203), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 121/244 (49%), Gaps = 30/244 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +RL+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +G++ +TY+ WW Sbjct: 362 AKNRLINANLRLVVSIAKKYTNRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWW 421 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQ--VVAIA 163 I+ A+ I +++ ++ ++ R+L + TD + + V Sbjct: 422 IRQAITRSISDQARTIRVPVHMIEQINKVVRESRQLMQRFGREPTDEEIAAQLGWPVNRV 481 Query: 164 KKLNVSESEVISMNCRLAGDES--LNALINSS--DKNSSQWQDWLVYDHDGQEQVLIEKE 219 K++ E IS+ + +E L I + +++ ++ DH Sbjct: 482 KQVKSVAREPISLETPIGEEEDSLLGDFIEDKEVENPAAKTAYTMLQDH----------- 530 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L ++ L PRE+ + + R ++ +TLE + F V+RER+RQIEA+A Sbjct: 531 --------LRSILATLPPREQEVLKMRFGLDDGFSLTLEEVGLYFNVTRERIRQIEAKAL 582 Query: 278 KKVQ 281 ++++ Sbjct: 583 RRLR 586 >gi|33864638|ref|NP_896197.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33632161|emb|CAE06617.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8102] Length = 332 Score = 82.4 bits (202), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 64/253 (25%), Positives = 122/253 (48%), Gaps = 15/253 (5%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 KR +HG A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG Sbjct: 88 KRKLQHGR-RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRG 146 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ + I +++ + L +LK + ++ + Sbjct: 147 YKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPT 201 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +A+ + + E +V + CR SL + D + ++ + L D D + E Sbjct: 202 ITELAQYVELPEDDVKDLMCRARQPVSLE--MKVGDGDDTELLELLAGDADLPSDQVEED 259 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIEARA 276 + + R++L + L + ++ R E+P++L + +SR+RVR +E Sbjct: 260 CMKGDLRSLLGQ----LPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDG 315 Query: 277 FKKVQESIQKQVE 289 ++ I QVE Sbjct: 316 LAGLRR-ISDQVE 327 >gi|55274913|gb|AAV49258.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274972|gb|AAV49285.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 200 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 51/66 (77%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|197294657|ref|YP_001799198.1| RNA polymerase sigma factor [Candidatus Phytoplasma australiense] gi|171853984|emb|CAM11947.1| RNA polymerase sigma factor [Candidatus Phytoplasma australiense] Length = 476 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 87/315 (27%), Positives = 146/315 (46%), Gaps = 58/315 (18%) Query: 19 YIHEIRKIPMLEKQEEYV--------------LAKRYREHGDLS---------------- 48 Y+ EI +IP+L K+EE L K + DLS Sbjct: 175 YLKEIGRIPLLSKEEEQKKTFAVFLGKEAKKKLTKFRNQEIDLSDQEVKQLESQIIQANQ 234 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV S+ RLVV IA Y G G+ +++ EGN+GLM+AV KFD ++G RL+TY+ +W Sbjct: 235 AKDVLVESNYRLVVSIAKRYIGRGVLFLDLIQEGNMGLMRAVDKFDYQKGLRLSTYATYW 294 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + + I ++I T N+ L R+L L+ KP + +A+ Sbjct: 295 VIQGVTRAIADQARTIRIPVHIVETINKMSLC--TRKLTQELKK------KP-TIEELAE 345 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL-----VYDHDGQEQVLIEKE 219 K+N+ ++ S+ SL + ++ + D++ + H+ + + +K Sbjct: 346 KMNIPADKLRSIQYIEKKPISLEVPPAENKEDETSLGDFISDPNVLSPHEYMMKEVTQKL 405 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAF 277 + N LT RE ++ + R L TLE + + F V+RER+RQIE++A Sbjct: 406 LDEVLENTLTE-------REEKVLKMRYGFLDGKVYTLEEIGNLFGVTRERIRQIESKAL 458 Query: 278 KKVQESIQKQVELSS 292 ++++ + KQ +L S Sbjct: 459 RRLR-TPAKQSKLKS 472 >gi|55274911|gb|AAV49257.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274963|gb|AAV49281.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 202 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 51/66 (77%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|157414236|ref|YP_001485102.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157388811|gb|ABV51516.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9215] Length = 344 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 60/242 (24%), Positives = 114/242 (47%), Gaps = 16/242 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 109 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 168 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +AK + + Sbjct: 169 IRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQRELSQEMSRTPTVSELAKYVEL 223 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + C+ SL + D + D L G E + E+ E R L Sbjct: 224 PEDDVKDLMCKAGQPVSLETKVG--DGEDTVLLDLLA----GGEDLPDEQIEMDCMRGDL 277 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE---ARAFKKVQES 283 + L + R+ R + P++L + +SR+RVR +E R +++ ++ Sbjct: 278 HSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSDN 337 Query: 284 IQ 285 ++ Sbjct: 338 VE 339 >gi|148241197|ref|YP_001226354.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147849507|emb|CAK27001.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 324 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 62/245 (25%), Positives = 120/245 (48%), Gaps = 16/245 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 89 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 148 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A+ L + Sbjct: 149 IRQGITRAIAEKSRTIRLPIHITE-----TLNKLKKGQRELSQELGRTPTVGELAEFLEL 203 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + R SL + SD ++ + L D +++ + + R++L Sbjct: 204 PEPEVKDLLSRARQPVSLEMKVGDSD--DTELCELLQNDAPMPHELVDGDCLKGDMRSLL 261 Query: 229 TRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIE---ARAFKKVQES 283 + L P + R+ + R E P++L + E +SR+RVR +E +++ E+ Sbjct: 262 EQ----LPPLQGRVLKMRYGIDVEEPMSLTGIGRELGMSRDRVRNLERDGLAGLRRLSEA 317 Query: 284 IQKQV 288 ++ V Sbjct: 318 VEAYV 322 >gi|55274875|gb|AAV49240.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 193 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 51/66 (77%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|271966792|ref|YP_003340988.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270509967|gb|ACZ88245.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 331 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 63/248 (25%), Positives = 117/248 (47%), Gaps = 34/248 (13%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A + L+ ++LRLVV IA + G G+ ++++ EGN+GL++A +KFD +GF+ +TY+ Sbjct: 92 LRAKNHLLEANLRLVVSIAKRHTGRGMAFADLIQEGNLGLIRAAEKFDYTKGFKFSTYAT 151 Query: 107 WWIKAAMQEYILRSWSLVKI---------GTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 WWIK A+ + ++I Q+++ L R + + ++ E Sbjct: 152 WWIKQAVTRALADQGRTIRIPVHMVEVINKVARVQRQMMVTLGREPSPQELAVELDMTVE 211 Query: 158 QVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 ++ + K E IS++ L GD +I S+ + + +L Sbjct: 212 KITEVQK----YGREPISLHTPLGAEGDAEFGDVIEDSEA---------ILPEEAVTFIL 258 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 ++++ L + L+ RE + R P TL+ + F V+RER+RQIE Sbjct: 259 LQRQ--------LHAVLEALSEREAGVMRLRFGLADGQPKTLDEIGKVFGVTRERIRQIE 310 Query: 274 ARAFKKVQ 281 ++ K++ Sbjct: 311 SKTMSKLR 318 >gi|325270141|ref|ZP_08136748.1| RNA polymerase sigma-43 factor [Prevotella multiformis DSM 16608] gi|324987442|gb|EGC19418.1| RNA polymerase sigma-43 factor [Prevotella multiformis DSM 16608] Length = 228 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 71/273 (26%), Positives = 117/273 (42%), Gaps = 47/273 (17%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 I +Y+ EI L +EE LA R + GD A +L ++L+ VV +A YR GL Sbjct: 2 IANEKYMEEIAGGQPLSDREERTLAGRIKV-GDAQALEKLTKANLKYVVSLAHQYRNRGL 60 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++SEGNIG+M A ++FD RG R ++ +I+ AM+E I +L ++ Sbjct: 61 GEDDLISEGNIGMMHAAQRFDGSRGVRFVVFAAPYIRKAMEEAIKEQAALYRLP------ 114 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R K + + + +Q V + N + V+ + DE LN I SS Sbjct: 115 ------RNEKNRSEQKRSHAISIDQPVPVGSSNNFTLQNVLENDNAPHADEQLNQEILSS 168 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENP 252 + + + + VLN RER++ L Sbjct: 169 E---------------------------------IQKGLGVLNERERQVIACLYGLSGVH 195 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T+ + + RERVRQI +A +K+ + ++ Sbjct: 196 YTMAEAAEHMGLKRERVRQIRDKALRKLHKRLK 228 >gi|255019642|ref|ZP_05291721.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus caldus ATCC 51756] gi|254970865|gb|EET28348.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus caldus ATCC 51756] Length = 285 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 74/276 (26%), Positives = 130/276 (47%), Gaps = 51/276 (18%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++E + + R GD +A LV++H+ LV IA YR GL ++V EG +GL Sbjct: 36 PFLSPEQESAVIAQIRS-GDEAARATLVSAHMPLVRAIARSYRNKGLSQEDLVQEGYMGL 94 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW------SLVKIGTTANQKRLFFNLR 140 M+A+ +F G R ++Y+ WWI+ AMQ ++R+ L K QK +L Sbjct: 95 MRAMDRFQEGLGTRFSSYATWWIREAMQRALIRARFIRLPDYLAKSLHALQQK----SLD 150 Query: 141 RLKGH---------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GDESLNALI 190 + GH + D+ ++ L+ ++ V S++ +A G + ++ Sbjct: 151 EVDGHDAQRAQRREALGVRDSTMR---------ALDFADVRVCSLDEEMADGPSRIEQVV 201 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR--IFEARRL 248 + +S QD YD D + L E + +LN ++R I+ Sbjct: 202 GNV---ASPAQD---YDRDASVRALREH-------------LKLLNEKQREVMIYRFGLH 242 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + P+TLE ++ VSRE VRQ++ RA ++++++ Sbjct: 243 GDAPMTLEAIAERLGVSREAVRQLQVRALLRLRQAL 278 >gi|116073053|ref|ZP_01470315.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116068358|gb|EAU74110.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 321 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 57/227 (25%), Positives = 110/227 (48%), Gaps = 13/227 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 86 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 145 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A+ + + Sbjct: 146 IRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPTVTELAEFVEL 200 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + CR SL + D L+ G ++ E+ E + + L Sbjct: 201 PEEEVKDLMCRARQPVSLEMKVGDGDDTE------LLELLSGDGELPSEQVESECLKGDL 254 Query: 229 TRSMSVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIE 273 + L +R++ R E+P++L ++ ++SR+R R++E Sbjct: 255 RDLLEQLPELQRKVLRMRYGMNGEDPMSLTGIAKTLKMSRDRTRRLE 301 >gi|145594010|ref|YP_001158307.1| RNA polymerase sigma factor SigB [Salinispora tropica CNB-440] gi|145303347|gb|ABP53929.1| sigma-70 region 2 domain protein [Salinispora tropica CNB-440] Length = 332 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 119/240 (49%), Gaps = 19/240 (7%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ W Sbjct: 93 AAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATW 152 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WI+ A+ + ++I ++ R+ R L L + V +A+ Sbjct: 153 WIRQAITRAMADQARTIRIPVHMVEQVNRMVRTRRELSVSLG-------REPTVAEVART 205 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKN 223 L++ E +VI + SL+ + + S D++ V G + + E R+ Sbjct: 206 LDIPEIQVIELISYDREPVSLDQTVG--EDGESPLGDFVAAVDSTAGTDDTVSGGELRQE 263 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +L + L+ RE+ + R ++ TL+ + EF +SRER+RQIE K++ Sbjct: 264 MCGVL----ATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKGTLHKLR 319 >gi|54401894|gb|AAV34632.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401896|gb|AAV34633.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274921|gb|AAV49262.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274982|gb|AAV49290.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 203 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 51/66 (77%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|55274919|gb|AAV49261.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 201 Score = 82.4 bits (202), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 34/67 (50%), Positives = 52/67 (77%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ S+LRLVVKIA Y GL + +++ EG++GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 RMIESNLRLVVKIARRYGNRGLALLDLIEEGSLGLIRAVEKFDPERGFRFSTYATWWIRQ 60 Query: 112 AMQEYIL 118 ++ I+ Sbjct: 61 TIERAIM 67 >gi|323454681|gb|EGB10551.1| hypothetical protein AURANDRAFT_23034 [Aureococcus anophagefferens] Length = 388 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 119/244 (48%), Gaps = 18/244 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L +++LRLVV IA YR GL +++ EG GL +AV++FDPERGFR +TY+ +WI+ A Sbjct: 137 LTSANLRLVVSIAKRYRFCGLAQEDLLQEGAFGLSRAVERFDPERGFRFSTYATFWIRQA 196 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + ++++ + + ++R+ L + ++ +A L + + E Sbjct: 197 VLRACAEQSRVIRLPAHVHDQ--LASMRKASAELSRRLGRDATDDE---LADHLELEKPE 251 Query: 173 VISMNCRLAGDE--------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE---ER 221 ++ R A + +++A SS + + + +L+ E E Sbjct: 252 KLAFLRRCAAQDPSSLDEKHAIHAGRGSSVGGGGAAGATTIAESLSDDTILVPDEFVAEA 311 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKK 279 +R + +V N RER + R L N P++ ++ VSRERVRQIE RA K Sbjct: 312 ASREYVGDLLATVCNDRERDVLGMRFGLYGNAPISKTKIAERLAVSRERVRQIEVRALTK 371 Query: 280 VQES 283 ++++ Sbjct: 372 LRQT 375 >gi|288802544|ref|ZP_06407983.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|288335072|gb|EFC73508.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] Length = 257 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 69/269 (25%), Positives = 119/269 (44%), Gaps = 47/269 (17%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +YI +I +L +EE LA++ + GD A +L ++L+ VV +A Y GL + Sbjct: 35 KYIEDIANEQLLSDKEEQDLAEKIKV-GDARALEKLTKANLKFVVSLAHQYHNRGLGEDD 93 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++SEGNIG+M A +KFD +G R ++ +I+ AM+E I +L K+ + F Sbjct: 94 LISEGNIGMMYAAQKFDGSKGVRFVVFAAPYIRKAMEEAIKEQATLYKLPKNETSR---F 150 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 +R H +I +Q V + N + ++ DE LN I S Sbjct: 151 EQKR--SHAISI-------DQPVPVGSNNNFTLQHILENENAKHADEHLNQEILS----- 196 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENPVTLE 256 N + + + VL+ RE+R+ L T+ Sbjct: 197 ----------------------------NEIQKGLDVLDEREKRVITYIYGLTGAHYTMA 228 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ + + RERVRQI +A +K+ + ++ Sbjct: 229 EIAEDMGLKRERVRQIRDKALRKLHKKMK 257 >gi|240169688|ref|ZP_04748347.1| RNA polymerase sigma factor SigB [Mycobacterium kansasii ATCC 12478] Length = 319 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 78/292 (26%), Positives = 138/292 (47%), Gaps = 56/292 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH--------------------GDLSAAHR- 52 Y++ I K +L +E LAKR Y E+ D AA R Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAEYLLETRKRLGENRKRELAAVVRDGEAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + + K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAEESGIPVDKIND 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + +E L I ++ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE Sbjct: 251 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIE 298 >gi|55274976|gb|AAV49287.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 204 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 51/66 (77%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|78780107|ref|YP_398219.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|78713606|gb|ABB50783.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9312] Length = 344 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 74/324 (22%), Positives = 143/324 (44%), Gaps = 56/324 (17%) Query: 7 SIIVNGEIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREH--------------GD----- 46 S+ + ++ L R Y+ +I ++P+L ++E L ++ +E+ GD Sbjct: 27 SLKASNDVDLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTGDKPSIE 86 Query: 47 -------LS-------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 LS A R+V ++LRLVV +A Y + + +++ EG IGL Sbjct: 87 ELSSKLNLSIPIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGL 146 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ V+KFDP RG++ +TY+ WWI+ + I +++ + L +LK Sbjct: 147 VRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQ 201 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + ++ + V +AK + + E +V + C+ SL + D + D L Sbjct: 202 RELSQEMSRTPTVSELAKYVELPEEDVKDLMCKAGQPVSLETKVG--DGEDTVLLDLLA- 258 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEV 264 G E + E+ E R L + L + R+ R + P++L + + Sbjct: 259 ---GGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGI 315 Query: 265 SRERVRQIE---ARAFKKVQESIQ 285 SR+RVR +E R +++ ++++ Sbjct: 316 SRDRVRNLERDGLRGLRRLSDNVE 339 >gi|254255220|ref|ZP_04948536.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] gi|124900957|gb|EAY71707.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] Length = 241 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 110/240 (45%), Gaps = 26/240 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA YR GLP ++++ EGNIGL++A++++D RGFR +TY+ WWI+ + Sbjct: 8 LFDANLRLVVSIAKRYRDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWWIRQS 67 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-------IAKK 165 + + +++ T + L RL + + P Q+ A + Sbjct: 68 VTHALADLGRTIRVPT--HTVDALNKLARLAREHRQRAGSAATPAQLAAHIGEPVDKVRD 125 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 L E +S + ++ D L + + D + +D + R Sbjct: 126 LLAIVKEPVSADLPVSPDGDLTFIDVAPDTATPSPED---------------AADATQLR 170 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ L RE + + R + +L ++ + +S ERVRQIEA A +++ S Sbjct: 171 RTIAAAIERLPQREAMVLKLRYGLHADEGCSLRDIGRQLNLSAERVRQIEASALARLRAS 230 >gi|1553013|gb|AAC45098.1| primary sigma factor [Borrelia afzelii] gi|1553015|gb|AAC45099.1| primary sigma factor [Borrelia afzelii] gi|1553021|gb|AAC45102.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 76/260 (29%), Positives = 124/260 (47%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 271 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 314 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + +V + K E ++ RL + + S + + + + D Sbjct: 315 LNRETRYLVQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 370 Query: 212 EQVLIEKEERKNRRN---------MLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + + L RE+ + + R E+ +TLE + Sbjct: 371 LSDFIEDKAIKNPANHTSFVVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|15827487|ref|NP_301750.1| RNA polymerase sigma factor SigB [Mycobacterium leprae TN] gi|221229964|ref|YP_002503380.1| RNA polymerase sigma factor SigB [Mycobacterium leprae Br4923] gi|699187|gb|AAA62952.1| u1764a [Mycobacterium leprae] gi|13093037|emb|CAC31395.1| RNA polymerase sigma factor [Mycobacterium leprae] gi|219933071|emb|CAR71109.1| RNA polymerase sigma factor [Mycobacterium leprae Br4923] Length = 319 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 78/292 (26%), Positives = 138/292 (47%), Gaps = 56/292 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH--------GD-------------LSAAHR 52 Y++ I K +L +E LAKR Y EH G+ +A Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAEHLLQTRKRFGEGRKRALAAVARDGAAARRH 85 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIAKKLN 167 + + +++ ++ L R+K + TD L E + I K + Sbjct: 146 ITRGMADQSRTIRLPVHLVEQ--VNKLARIKREMHQNLGREATDEELAAESGIPIEKIND 203 Query: 168 VSES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E + +S++ + +E L I ++ S+ E +I + + Sbjct: 204 LLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-------------ENAVIAELLHTD 250 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 R++L + L+ RE ++ R ++ P TL+ + F +SRERVRQIE Sbjct: 251 IRSVL----ATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIE 298 >gi|305681000|ref|ZP_07403807.1| RNA polymerase sigma factor SigB [Corynebacterium matruchotii ATCC 14266] gi|305659205|gb|EFM48705.1| RNA polymerase sigma factor SigB [Corynebacterium matruchotii ATCC 14266] Length = 365 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 72/288 (25%), Positives = 139/288 (48%), Gaps = 44/288 (15%) Query: 13 EIGL-SRYIHEIRKIPML--EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 E+GL + Y+ P+ +K++ VL K R+ A L+ ++LRLVV +A Y Sbjct: 94 EVGLYAEYLLTDSDEPLTRAKKRDLKVLVKEGRK-----ARSHLLEANLRLVVSLAKRYT 148 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Sbjct: 149 GRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVH 208 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 ++ L R+K + E+ +A++ + ES++ +S++ Sbjct: 209 LVEQ--VNKLSRIKREMYQQLGREATNEE---LAEESGIDESKIELLLRQSRDPVSLDMP 263 Query: 180 LAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 + DE L I S+ + E ++ + R+++ L Sbjct: 264 VGADEEAPLGDFIEDSEAADA-------------ESAVVASLRHSDIRDVI----GTLED 306 Query: 238 RERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RE+ + R ++ P TL+ + +F +SRERVRQIE +K+++ Sbjct: 307 REQDVIRMRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMRKLRDG 354 >gi|307822780|ref|ZP_07653011.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] gi|307736384|gb|EFO07230.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] Length = 448 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 69/263 (26%), Positives = 135/263 (51%), Gaps = 22/263 (8%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 ++YV + E LS+ L ++ LV+ +A Y+ L ++V EG GL++A+ K Sbjct: 197 QQYVTDMIFAEQLWLSSRQALAEANSGLVLFLANQYKCGFLDFDDLVQEGQTGLLRAIDK 256 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT--TANQKRLFFNLRRLKGHLQAIT 150 FD GF+ +TY+ +WIK A+ + R+ +V++ AN ++ R K L + T Sbjct: 257 FDYHLGFQFSTYAAYWIKQAISRALSRNERVVRVPCEQVANIHKVL----RAKNELLSKT 312 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 +++ +K + + ++S++ E+L+ D++S D+L Sbjct: 313 GREPSIKELTEYSKIPDDQINVILSISQTAVSLENLD-----DDEDSLAPIDFL------ 361 Query: 211 QEQVL---IEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVS 265 ++QV +K E+ + + L +++ +L+PRE ++ N +TL+ + +E ++ Sbjct: 362 EQQVFANPFKKIEQSDLKAWLGKAIKILDPRELKVICCHFGINTGNEMTLQEIGAELNLT 421 Query: 266 RERVRQIEARAFKKVQESIQKQV 288 RERVRQI+ +A K++ S KQ+ Sbjct: 422 RERVRQIQVKALNKMKLSYGKQL 444 >gi|254526733|ref|ZP_05138785.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] gi|221538157|gb|EEE40610.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] Length = 333 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 60/242 (24%), Positives = 114/242 (47%), Gaps = 16/242 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 98 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 157 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +AK + + Sbjct: 158 IRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQRELSQEMSRTPTVSELAKYVEL 212 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E +V + C+ SL + D + D L G E + E+ E R L Sbjct: 213 PEDDVKDLMCKAGQPVSLETKVG--DGEDTVLLDLLA----GGEDLPDEQIEMDCMRGDL 266 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE---ARAFKKVQES 283 + L + R+ R + P++L + +SR+RVR +E R +++ ++ Sbjct: 267 HSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSDN 326 Query: 284 IQ 285 ++ Sbjct: 327 VE 328 >gi|224533326|ref|ZP_03673920.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi CA-11.2a] gi|224513491|gb|EEF83848.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi CA-11.2a] Length = 255 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 75/261 (28%), Positives = 125/261 (47%), Gaps = 36/261 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 3 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 58 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 F+ +RGF+ +TY+ WWI+ A I RS S +Q R R+ H+ + I Sbjct: 59 FEYKRGFKFSTYATWWIRQA----ITRSIS--------DQARTI----RVPVHMIEQINR 102 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 N + ++ + K E ++ RL + + S + + + + D Sbjct: 103 LNRETRYLIQVLGKDPTDEE----LSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSV 158 Query: 212 EQVLIEKEERKNRRN---------MLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 IE + KN N + + L RE+ + + R E+ +TLE + Sbjct: 159 LSDFIEDKAIKNPANHTSFVVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGL 218 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 F V+RER+RQIE++A ++++ Sbjct: 219 HFNVTRERIRQIESKALRRLK 239 >gi|126660003|ref|ZP_01731125.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] gi|126618681|gb|EAZ89428.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] Length = 297 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 71/282 (25%), Positives = 134/282 (47%), Gaps = 33/282 (11%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS------------------AAHRLVTSHLRL 60 Y+ I K P+L EE LA+ + L A +++ ++LRL Sbjct: 13 YLQSIGKTPLLSGAEEIKLAEEIQAMLPLLEKEELNKEEKKIVVIGQRARDKMIQANLRL 72 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y GL + +++ EG++GL++ V+KFDP RG++ +TY+ WWI+ + I Sbjct: 73 VVSIAKKYLNSGLSLLDLIQEGSLGLIRGVEKFDPSRGYKFSTYAYWWIRQGITRAIAEQ 132 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVSESEVISMNC 178 +++ N+ NL + + ++ +T KP +Q +A + V + + Sbjct: 133 SRTIRLPIHINE-----NLNKYRKSIRELTLKLGRKPTQQEIAENMDITVDKLRFLQQAA 187 Query: 179 RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 SLN +I+ ++ Q L+ D +G K++ K + + R + L+PR Sbjct: 188 FKTKSRSLNIVIDENNTELGQ----LLPDEEGVSPSDFVKQQEKI--SQINRMLENLSPR 241 Query: 239 ERRIFEAR-RLQENP-VTLENLSSEFEVSRERVRQIEARAFK 278 ++ + R L++ ++ + + + +S ER RQI +RA + Sbjct: 242 QKEVIILRFGLRDGKQLSYKAIGEQCGISHERARQIYSRALR 283 >gi|162458688|ref|NP_001104923.1| sigma factor SIG2A [Zea mays] gi|4336606|gb|AAD17854.1| sigma factor SIG2A [Zea mays] Length = 539 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 67/247 (27%), Positives = 125/247 (50%), Gaps = 19/247 (7%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R + + +R+VTS++RLV+ IA + G G+ +++ EG GL++ +KFD +GF Sbjct: 289 RKRLNYGIYCKNRMVTSNVRLVISIAREFEGPGMDFYDLIQEGMQGLIRGAEKFDSSKGF 348 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R +TYS WWIK AM++ + + ++ A+ + ++ L+ E+ Sbjct: 349 RFSTYSHWWIKQAMRKSVSEQSQIFRL--PAHMVEASYRVKECTKRLRRKLRRRPTNEE- 405 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +A+ + + E + + SL++ I S+D + Y + E Sbjct: 406 IAVDTGIPIKRVEAAVNLPKYS--VSLDSKIGSTD---------MTYQEVTADPSAETAE 454 Query: 220 ERKNRRNM---LTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEA 274 E NR +M + ++ L RE+++ R L++ + TL+ + + VSRER+RQIE+ Sbjct: 455 EMLNRMSMKKDVHMALDTLTTREKQVVVLRFGLEDGRIRTLQEIGNIMGVSRERIRQIES 514 Query: 275 RAFKKVQ 281 AF+K++ Sbjct: 515 GAFRKLR 521 >gi|21466008|pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution gi|21466014|pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 332 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 67/242 (27%), Positives = 123/242 (50%), Gaps = 22/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY+ W Sbjct: 91 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATW 150 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R LQ E+ IA+ + Sbjct: 151 WIRQAINRAIADQARTIRI--PVHMVETINKLSRTARQLQQELGREPSYEE---IAEAMG 205 Query: 168 VS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEER 221 +++ + ++A E ++ D+ S + D++ ++ + Q L+ +E Sbjct: 206 PGWDAKRVEETLKIA-QEPVSLETPIGDEKDSFYGDFIPDENLPSPVEAAAQSLLSEE-- 262 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K Sbjct: 263 ------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRK 316 Query: 280 VQ 281 ++ Sbjct: 317 LK 318 >gi|1553017|gb|AAC45100.1| primary sigma factor [Borrelia burgdorferi 297] Length = 450 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 76/260 (29%), Positives = 133/260 (51%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 271 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 329 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 330 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 388 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 389 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|256376033|ref|YP_003099693.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] gi|255920336|gb|ACU35847.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 320 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 70/291 (24%), Positives = 137/291 (47%), Gaps = 39/291 (13%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKR-----YREH--GDLS------------------AA 50 +Y+ ++ P+L EE VL++R Y EH D + A Sbjct: 25 FGQYLRQVGSTPLLTAAEEVVLSRRIEAGVYAEHLLADTAPTPARRRALNQVVADGRDAK 84 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++ ++LRLVV +A + GLP+ +VV EGN+GL++AV+KFD +G++ +TY++WWI+ Sbjct: 85 DHMIRANLRLVVSVAKKHSFRGLPLLDVVQEGNLGLIRAVEKFDYSKGYKFSTYAIWWIR 144 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 A++ + V++ ++ +++ + L+A D E+ +A + Sbjct: 145 QAIERGLAEQTRTVRLPVHVVEE--LSKIKKAERKLRAELDREPTVEE---LAGATGLRA 199 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V + R AG +++ D+ S+ D + +E+ + L Sbjct: 200 PRVAEL--RDAGRATISLETPVGDEGSASVADLIEDADAASAYDAVEQAAFSSELRALVE 257 Query: 231 SMSVLNPRERRIFEARR--LQENPV-TLENLSSEFEVSRERVRQIEARAFK 278 ++ P + + +RR L + V TL+ ++ E ++RER+RQ+E + + Sbjct: 258 TL----PARQALIVSRRYGLTDGRVHTLQEVAEELGLTRERIRQLEKESLR 304 >gi|40353309|gb|AAR84418.1| essential primary sigma 70 factor [Frankia sp. D11] gi|40353317|gb|AAR84422.1| essential primary sigma 70 factor [Frankia sp. HR2714] gi|40353319|gb|AAR84423.1| essential primary sigma 70 factor [Frankia sp. Flec] Length = 255 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 114/231 (49%), Gaps = 34/231 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 46 AKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 105 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 106 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKV 165 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I L VS+ E +S+ + +E L I D V D +L++ Sbjct: 166 REI---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQ 212 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSR 266 ++ L + L+ RE+++ + R +P TLE + EF V+R Sbjct: 213 EQ--------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTR 255 >gi|169883528|gb|ACA97859.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820] Length = 377 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 61/236 (25%), Positives = 112/236 (47%), Gaps = 11/236 (4%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L +LK + + + + +A+ L Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQRILKQDLQRNPNERELAEALE 252 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 ++ ++ + SLN + + ++++ E R+ + Sbjct: 253 ITPEQLRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKM----NEMMMRQEI 308 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VL RE+ + R P TLE + F +SRERVRQI+ +A +K++ Sbjct: 309 FAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLR 364 >gi|254432127|ref|ZP_05045830.1| group2 RNA polymerase sigma factor RpoD6 [Cyanobium sp. PCC 7001] gi|197626580|gb|EDY39139.1| group2 RNA polymerase sigma factor RpoD6 [Cyanobium sp. PCC 7001] Length = 335 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 83/292 (28%), Positives = 129/292 (44%), Gaps = 45/292 (15%) Query: 12 GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE---HGD---------LSAAHRLVTSHLR 59 G GLS Y+ I ++P+L EE LA +E H D A +R+VT++LR Sbjct: 55 GGDGLSDYLRLIARVPLLTPAEELHLAGTVQEWLQHPDPPLSLRRRGTRARNRMVTANLR 114 Query: 60 LVVKIAMGYRG----YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQE 115 LVV + YRG L + ++ GNIGLM+AV+ FDP RG+RL+TY+ WI A+Q Sbjct: 115 LVVMVCRRYRGRIGNLQLEMLDLYQAGNIGLMRAVELFDPSRGYRLSTYAFSWIHQAVQR 174 Query: 116 YILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 + T N R+ LR + Q + +P + AIA L E + Sbjct: 175 CMT---------ATGNGIRIPTALRNIAYRAQLLEACAEQPLSIGAIAALLGEKEQRL-- 223 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE--KEERKNRRN----MLT 229 + A S DK S+ G++ LIE + R N + L Sbjct: 224 ---QTALTVVRQCSTTSLDKPSASM---------GEDTTLIEVIPDRRGNVPHDDYRWLH 271 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L+ R+R++ + R + + + VS+ V+ +E R K ++ Sbjct: 272 EHLDALDLRDRQVLQLRYGDDESRSCSKTARVLGVSKSCVQSVERRTLKNLR 323 >gi|1769413|dbj|BAA13122.1| RpoD2 sigma factor [Microcystis aeruginosa] Length = 376 Score = 82.0 bits (201), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 112/236 (47%), Gaps = 12/236 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L +LK D P + +A++L Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQILKQDLQRNPNE-RELAERLE 251 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 ++ ++ + SLN + + ++++ E R+ + Sbjct: 252 ITPEQLRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKM----NEMMMRQEI 307 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VL RE+ + R P TLE + F +SRERVRQI+ +A +K++ Sbjct: 308 FAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLR 363 >gi|194246700|ref|YP_002004339.1| probable RNA polymerase sigma factor RpoD [Candidatus Phytoplasma mali] gi|193807057|emb|CAP18493.1| probable RNA polymerase sigma factor RpoD [Candidatus Phytoplasma mali] Length = 419 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 93/313 (29%), Positives = 144/313 (46%), Gaps = 77/313 (24%) Query: 19 YIHEIRKIPML---EKQEEYVLA----------------------KRYREHGDL-----S 48 Y+ EI +IP+L E+QE++ L K E D+ Sbjct: 116 YLKEIGQIPLLTLEEEQEQFRLVYDGREAEAKLESYRKKEIELSEKEISELNDILKISNK 175 Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A HRLV ++ RLVV IA Y GL +++ EGN GLM+A++KF+ ++G +L+TY+ +W Sbjct: 176 AKHRLVEANYRLVVSIAKRYIRRGLEFLDLIQEGNRGLMRAIEKFNIDKGCKLSTYATFW 235 Query: 109 I------KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 I A Q I+R V I N + + RLK H + + + Sbjct: 236 IVQKILRAVADQARIIRLP--VHIVDRINIISMAKSKLRLKLH---------REPTIEEL 284 Query: 163 AKKLNVSE----------SEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDG 210 ++ +N+SE + IS+ R+ D SL I SD +S D+++ Sbjct: 285 SEFINISEKKLRIIEIIKKKPISLEARVGEKDDSSLGEFI--SDPDSLSPHDYML----- 337 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPV-TLENLSSEFEVSRER 268 +E KN N + L RE +I R L V TLE + + F V+RER Sbjct: 338 -------QEIMKNTLNEILE--DTLTDREEKILRMRYGLSNGKVHTLEEVGNVFGVTRER 388 Query: 269 VRQIEARAFKKVQ 281 +RQIEA+AF++++ Sbjct: 389 IRQIEAKAFRRLR 401 >gi|67924587|ref|ZP_00518002.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67853561|gb|EAM48905.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 328 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 73/315 (23%), Positives = 144/315 (45%), Gaps = 76/315 (24%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+HEI ++P+L ++E + K+ + Sbjct: 23 YLHEIGRVPLLTHEQEIIYGKQVQKMMNFLEKKEELADKLGKEPTVKEWSKELEIEQKAL 82 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G Sbjct: 83 NQALEQGE-RAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKG 141 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I + +++ +K +++ + L + P + Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEK--LNKIKKTQRELSQTLGRSATPSE 199 Query: 159 VVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 IA++L + S++ IS++ R+ GD + D S+ L+ D Sbjct: 200 ---IAQELEIEPSQIREFLSIARQPISLDVRV-GD--------NQDTELSE----LLEDQ 243 Query: 209 DGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVS 265 + I +E R++ RN+ M+ L P++R + R E+ ++L + +S Sbjct: 244 GVSPDLYITQELLRQDLRNL----MAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNIS 299 Query: 266 RERVRQIEARAFKKV 280 RERVRQ+E +A ++ Sbjct: 300 RERVRQLEHQALAQL 314 >gi|159029420|emb|CAO90796.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 377 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 61/236 (25%), Positives = 112/236 (47%), Gaps = 11/236 (4%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L +LK + + + + +A+ L Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQRILKQDLQRNPNERELAEALE 252 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 ++ ++ + SLN + + ++++ E R+ + Sbjct: 253 ITPEQLRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKM----NEMMMRQEI 308 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VL RE+ + R P TLE + F +SRERVRQI+ +A +K++ Sbjct: 309 FAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLR 364 >gi|300858635|ref|YP_003783618.1| RNA polymerase sigma factor B [Corynebacterium pseudotuberculosis FRC41] gi|300686089|gb|ADK29011.1| RNA polymerase sigma factor B [Corynebacterium pseudotuberculosis FRC41] gi|302206344|gb|ADL10686.1| RNA polymerase sigma factor sigB [Corynebacterium pseudotuberculosis C231] gi|302330901|gb|ADL21095.1| RNA polymerase sigma factor sigB [Corynebacterium pseudotuberculosis 1002] gi|308276586|gb|ADO26485.1| RNA polymerase sigma factor sigB [Corynebacterium pseudotuberculosis I19] Length = 329 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/243 (26%), Positives = 118/243 (48%), Gaps = 27/243 (11%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 AH L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI Sbjct: 94 AH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWWI 152 Query: 110 KAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 + A+ + +++ ++ +L R + HL N E+ K+ Sbjct: 153 RQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATNEELAEESGIDESKIE 212 Query: 168 V---SESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 + + +S++ + DE L I S+ + E ++ Sbjct: 213 ILLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA-------------ESAVVASLRHS 259 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R++L L RE+ + R ++ P TL+ + +F +SRERVRQIE K+ Sbjct: 260 DIRSVL----DTLERREQDVIRMRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMTKL 315 Query: 281 QES 283 ++ Sbjct: 316 RDG 318 >gi|170078438|ref|YP_001735076.1| sigma factor [Synechococcus sp. PCC 7002] gi|169886107|gb|ACA99820.1| sigma factor [Synechococcus sp. PCC 7002] Length = 318 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 60/244 (24%), Positives = 116/244 (47%), Gaps = 29/244 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ WW Sbjct: 83 AKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L ++K + + N + + +A +L + Sbjct: 143 IRQAITRAIAEKSRTIRLPIHITEK-----LNKIKKAQRQLAQANGRSASIPELADELGL 197 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +V +S++ R+ GD + LI + + D+ + +++ Sbjct: 198 TTKQVRDYLEKSRQPLSLDLRV-GDNNDTELIELLEDDGLTPDDYATH-------AALKR 249 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + + ++ + VL R F R P TL + +SRERVRQIE A Sbjct: 250 DLARMLNDLTAQQQEVLTLR----FGLR--DGTPHTLAKIGEHLSISRERVRQIEREALA 303 Query: 279 KVQE 282 K+++ Sbjct: 304 KLRK 307 >gi|1553033|gb|AAC45108.1| primary sigma factor [Borrelia japonica] Length = 450 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 76/260 (29%), Positives = 133/260 (51%), Gaps = 36/260 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EE K+ +H A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+K Sbjct: 215 EEIAKGKQMMQH----AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEK 270 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--- 149 F+ +RGF+ +TY+ WWI+ A+ I +++ ++ N R + +Q + Sbjct: 271 FEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLN-RETRYLIQVLGKD 329 Query: 150 -TDNNLKPEQVVAIAKKLNVSES---EVISMNCRLAGDES--LNALI-NSSDKNSSQWQD 202 TD L +++ KK+ +S E +S+ + +E L+ I + + KN + Sbjct: 330 PTDEEL-SDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTS 388 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSS 260 ++V Q+Q+ R +L L RE+ + + R E+ +TLE + Sbjct: 389 FVVL----QDQI----------RAIL----GTLPEREQEVVKMRFGLEDGYSLTLEEVGL 430 Query: 261 EFEVSRERVRQIEARAFKKV 280 F V+RER+RQIE++A +++ Sbjct: 431 HFNVTRERIRQIESKALRRL 450 >gi|297566693|ref|YP_003685665.1| RpoD subfamily RNA polymerase sigma-70 subunit [Meiothermus silvanus DSM 9946] gi|296851142|gb|ADH64157.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Meiothermus silvanus DSM 9946] Length = 483 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 68/246 (27%), Positives = 126/246 (51%), Gaps = 25/246 (10%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+L+ H L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R ++ +TY Sbjct: 240 GELARQH-LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRYKFSTY 298 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + WWI+ A+ I ++I + L R +Q E+ I++ Sbjct: 299 ATWWIRQAINRAIADQARTIRI--PVHMVETINKLTRTARQMQQELGREPTYEE---ISE 353 Query: 165 KLNVS-ESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIE 217 + +++ + ++A + SL I D+ S + D++ +H D Q ++ Sbjct: 354 AMGPGWDAKKVEETFKIAQEPVSLETPIG--DEKDSFYGDFIPDEHMASPVDSAAQSMLS 411 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 +E L +++ L+ RE + + R+ + TLE + + F V+RER+RQIE + Sbjct: 412 EE--------LEKALGKLSDREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENK 463 Query: 276 AFKKVQ 281 A +K++ Sbjct: 464 ALRKLK 469 >gi|225021249|ref|ZP_03710441.1| hypothetical protein CORMATOL_01261 [Corynebacterium matruchotii ATCC 33806] gi|224945982|gb|EEG27191.1| hypothetical protein CORMATOL_01261 [Corynebacterium matruchotii ATCC 33806] Length = 391 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/288 (25%), Positives = 139/288 (48%), Gaps = 44/288 (15%) Query: 13 EIGL-SRYIHEIRKIPML--EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 E+GL + Y+ P+ +K++ VL K R+ A L+ ++LRLVV +A Y Sbjct: 120 EVGLYAEYLLTDSDEPLTRAKKRDLKVLVKEGRK-----ARSHLLEANLRLVVSLAKRYT 174 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Sbjct: 175 GRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVH 234 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCR 179 ++ L R+K + E+ +A++ + ES++ +S++ Sbjct: 235 LVEQ--VNKLSRIKREMYQQLGREATNEE---LAEESGIDESKIELLLRQSRDPVSLDMP 289 Query: 180 LAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 + DE L I S+ + E ++ + R+++ L Sbjct: 290 VGADEEAPLGDFIEDSEAADA-------------ESAVVASLRHSDIRDVI----GTLED 332 Query: 238 RERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RE+ + R ++ P TL+ + +F +SRERVRQIE +K+++ Sbjct: 333 REQDVIRMRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMRKLRDG 380 >gi|126697159|ref|YP_001092045.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|126544202|gb|ABO18444.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9301] Length = 344 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 73/317 (23%), Positives = 138/317 (43%), Gaps = 53/317 (16%) Query: 7 SIIVNGEIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREH--------------GD----- 46 S+ + ++ L R Y+ +I ++P+L ++E L ++ +E+ GD Sbjct: 27 SLKASNDVDLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEISELTGDKPSID 86 Query: 47 -------LS-------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 LS A R+V ++LRLVV +A Y + + +++ EG IGL Sbjct: 87 ELSTKLNLSTSVIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGL 146 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++ V+KFDP RG++ +TY+ WWI+ + I +++ + L +LK Sbjct: 147 VRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEM-----LNKLKKGQ 201 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + ++ + V +AK + + E +V + C+ SL + D + D L Sbjct: 202 RELSQEMSRTPTVSELAKYVELPEDDVKDLMCKAGQPVSLETKVG--DGEDTVLLDLLA- 258 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEV 264 G E + E+ E R L + L + R+ R + P++L + + Sbjct: 259 ---GGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGI 315 Query: 265 SRERVRQIEARAFKKVQ 281 SR+RVR +E + ++ Sbjct: 316 SRDRVRNLERDGLRGLR 332 >gi|55274978|gb|AAV49288.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 200 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 34/65 (52%), Positives = 50/65 (76%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ + Sbjct: 1 IESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTI 60 Query: 114 QEYIL 118 + I+ Sbjct: 61 ERAIM 65 >gi|55274953|gb|AAV49276.1| RNA polymerase subunit sigma-38 [Shigella flexneri 2a] Length = 193 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 34/65 (52%), Positives = 50/65 (76%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ + Sbjct: 1 IESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTI 60 Query: 114 QEYIL 118 + I+ Sbjct: 61 ERAIM 65 >gi|255325135|ref|ZP_05366241.1| RNA polymerase sigma factor RpoD [Corynebacterium tuberculostearicum SK141] gi|255297700|gb|EET77011.1| RNA polymerase sigma factor RpoD [Corynebacterium tuberculostearicum SK141] Length = 365 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 78/286 (27%), Positives = 141/286 (49%), Gaps = 41/286 (14%) Query: 13 EIGL-SRY-IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E+GL + Y ++ K+ EK++ +LA+ G + +H L+ ++LRLVV +A Y G Sbjct: 95 EVGLYAEYKLNNAEKLTRAEKRDLKILAR----EGKKARSH-LLEANLRLVVSLAKRYTG 149 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + A Sbjct: 150 RGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGM------------A 197 Query: 131 NQKRLFFNLRRLKGHL--QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 +Q R RL HL Q + +K E ++ ++ + +E +S + DE+ Sbjct: 198 DQSRTI----RLPVHLVEQVNKLSRIKREMYQSLGRE---ATNEELSEESGI--DENKIE 248 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM------SVLNPRERRI 242 ++ ++ + D + IE E + + SM V++ E+R Sbjct: 249 MLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDAETAVVASMRHSDIRGVIDTLEKRE 308 Query: 243 FEARRLQEN-----PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + RL+ P TL+ + F +SRERVRQIE K+++ Sbjct: 309 QDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMAKLRDG 354 >gi|227833285|ref|YP_002834992.1| RNA polymerase sigma factor B [Corynebacterium aurimucosum ATCC 700975] gi|262184270|ref|ZP_06043691.1| RNA polymerase sigma factor SigB [Corynebacterium aurimucosum ATCC 700975] gi|227454301|gb|ACP33054.1| RNA polymerase sigma factor B [Corynebacterium aurimucosum ATCC 700975] Length = 331 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 79/285 (27%), Positives = 139/285 (48%), Gaps = 39/285 (13%) Query: 13 EIGL-SRY-IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E+GL + Y + K+ EK++ +LA+ G + +H L+ ++LRLVV +A Y G Sbjct: 61 EVGLYAEYKLANAEKLTRAEKRDLKILAR----EGKKARSH-LLEANLRLVVSLAKRYTG 115 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Sbjct: 116 RGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHL 175 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNAL 189 ++ L R+K + E+ +A++ + ES+ I M R + D SL+ Sbjct: 176 VEQ--VNKLSRIKREMYQSLGREATNEE---LAEESGIEESK-IEMLLRQSRDPVSLDMP 229 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM------SVLNPRERRIF 243 + + D + IE E + + SM SV+ E R Sbjct: 230 VGT--------------DEEAPLGDFIEDAEATDAETAVVASMRHSDIRSVIGSLEEREQ 275 Query: 244 EARRLQEN-----PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + RL+ P TL+ + +F +SRERVRQIE K++E Sbjct: 276 DVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIEREVMAKLREG 320 >gi|7363218|emb|CAB83106.1| sigma factor 2 [Sinapis alba] Length = 575 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 124/240 (51%), Gaps = 13/240 (5%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HG R++ S++RLV+ IA Y+G G+ ++V EG GL++ +KFD +GF+ +T Sbjct: 328 HG-TQCKDRMIKSNIRLVISIAKNYQGAGMDFQDLVQEGCRGLVRGAEKFDATKGFKFST 386 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWIK A+++ + ++++ + + ++ + L + T K E+ VA A Sbjct: 387 YAHWWIKQAVRKSLSDQSRMIRL--PFHMVEATYRVKEARKQLYSETGKQPKNEE-VAEA 443 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L++ + ++ + IN + K S D + + E +L+++ R++ Sbjct: 444 TGLSMKRLMAVLLSPKPPRSLDQKIGINLNLKPSEVIAD---PEAETSEDILMKQFMRQD 500 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + + L+ RE+++ R E+ TL+ + VSRERVRQI+ AF+K++ Sbjct: 501 ----LDKVLDSLSTREKQVIRWRFGMEDGRMKTLQEIGETMGVSRERVRQIDTSAFRKLK 556 >gi|55274967|gb|AAV49283.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 194 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 34/65 (52%), Positives = 50/65 (76%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + S+LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ + Sbjct: 1 IESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTI 60 Query: 114 QEYIL 118 + I+ Sbjct: 61 ERAIM 65 >gi|171322946|ref|ZP_02911628.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171091683|gb|EDT37240.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 498 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 109/240 (45%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A++++D RGFR +TY+ WWI+ A Sbjct: 265 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWWIRQA 324 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLN---- 167 + + +++ T + L RL + H Q E V + + ++ Sbjct: 325 ITHALADLGRTIRVPT--HTVDALNKLSRLARAHRQRAGTAATPAELAVHMGEPVDKVRD 382 Query: 168 ----VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 V E + GD + + + S + D G Q+ Sbjct: 383 LMAIVKEPVSADVPVSPEGDMTFADVAPDTTTPSPE-------DAAGAAQL--------- 426 Query: 224 RRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +T + L PRE + + R + +L ++ + +S ERVRQIEA A +++ Sbjct: 427 -RRTITAVIDRLPPREAMVLKLRYGLHTDEGCSLRDIGRQLNLSAERVRQIEASALARLR 485 >gi|21466021|pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction Promoter Dna Complex At 6.5 A Resolution gi|11527292|gb|AAG36964.1|AF291720_1 sigma factor SigA [Thermus aquaticus] Length = 438 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/242 (27%), Positives = 123/242 (50%), Gaps = 22/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY+ W Sbjct: 197 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATW 256 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R LQ E+ IA+ + Sbjct: 257 WIRQAINRAIADQARTIRI--PVHMVETINKLSRTARQLQQELGREPSYEE---IAEAMG 311 Query: 168 VS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEER 221 +++ + ++A E ++ D+ S + D++ ++ + Q L+ +E Sbjct: 312 PGWDAKRVEETLKIA-QEPVSLETPIGDEKDSFYGDFIPDENLPSPVEAAAQSLLSEE-- 368 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K Sbjct: 369 ------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRK 422 Query: 280 VQ 281 ++ Sbjct: 423 LK 424 >gi|318041996|ref|ZP_07973952.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 318 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 121/242 (50%), Gaps = 17/242 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WW Sbjct: 75 AKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 134 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE-QVVAIAKKLN 167 I+ + + ++I N+K LR K L + + +P Q ++ A L Sbjct: 135 IRQGLNRALSTQSRTIRIPVNVNEK--LTRLRAAKARL--LQRHGSQPSAQQLSEAMDLP 190 Query: 168 VSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 V E E + + C L + SL ++ S + LV ++ +E+ E R Sbjct: 191 VQEVEDL-LGCELRSVTVSLQGVVKSKSDPTE-----LVDVLPSEDLPPMERCELAERNA 244 Query: 227 MLTRSM--SVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + S L P+ER + R + TL ++ SRE RQ+ RA +K++ Sbjct: 245 AVWKLLDQSNLTPKERTVVMLRFGLDGSHEWRTLAEVARLLGCSREYCRQVVQRALRKLR 304 Query: 282 ES 283 ++ Sbjct: 305 KA 306 >gi|297626467|ref|YP_003688230.1| RNA polymerase principal sigma factor HrdD [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296922232|emb|CBL56802.1| RNA polymerase principal sigma factor HrdD [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 309 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 81/310 (26%), Positives = 143/310 (46%), Gaps = 53/310 (17%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAK-----RYR---------------------- 42 ++G+ + Y+ I K P+L EE LA+ +Y Sbjct: 13 IDGKDSVGLYLESIAKTPLLTAAEEVELARLIEVGQYAQAVLRGEVKTKTKATEEELLGI 72 Query: 43 -EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 E G+ + H V ++LRLVV +A Y +P+ ++V EGN GL++AV+KFD +GF+ Sbjct: 73 AEEGERAMQH-FVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKF 131 Query: 102 ATYSMWWIKAAMQEYILRSWSLVK----IGTTANQ-KRLFFNLRRLKGHLQAITDNNLKP 156 +TY+ WW++ A+ I + +V+ + NQ + NL R G +P Sbjct: 132 STYATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQISAVRRNLERQLGR---------EP 182 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD-HDGQEQVL 215 E V IA +L + E++VI + SL+A + D + D + + G ++++ Sbjct: 183 E-VSEIANELGLEENKVIDLIRYSREHVSLDAPVE--DDGDTSLGDLIARETAPGPDELV 239 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 ++ E+R +L L+ R + R L + L ++ + ++ ERVRQIE Sbjct: 240 LDLEDRSRLEALLAN----LDDRSADVMRRRYGLLDGHQAKLSDIGKVWGITAERVRQIE 295 Query: 274 ARAFKKVQES 283 A +++ S Sbjct: 296 RAALNQLRTS 305 >gi|260436019|ref|ZP_05789989.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] gi|260413893|gb|EEX07189.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] Length = 335 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 75/298 (25%), Positives = 137/298 (45%), Gaps = 34/298 (11%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEY---------VLAK----------RYREHGDLSAAHRL 53 EI L R + E+ + LE + E VLAK R +HG A R+ Sbjct: 46 EITLGRQVQELMDLESLEAELESKAGEKPSRDVLAKASGLSSMQLKRKLQHGR-RAKERM 104 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WWI+ + Sbjct: 105 VAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGI 164 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ + L +LK + ++ + V +A+ + + E +V Sbjct: 165 TRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPTVTELAEFVELPEDDV 219 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 + CR SL + D + ++ + L D D + E + + R++L + Sbjct: 220 KDLMCRARQPVSLE--MKVGDGDDTELLELLSGDGDLPSDQVEEDCLKGDLRSLLGQ--- 274 Query: 234 VLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 L + ++ R E+P++L + +SR+RVR +E ++ + QVE Sbjct: 275 -LPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRR-VSDQVE 330 >gi|110626979|gb|ABG79029.1| RpoH [Wolbachia endosymbiont of Armadillidium vulgare] Length = 78 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 36/67 (53%), Positives = 51/67 (76%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ VN L +YI E+RK PML ++EE LAK ++E+ D+S+AH+L+TSHL LVVKIAM Sbjct: 7 NLCVNSSTNLMQYIAEVRKFPMLSQEEEVRLAKNWQEYKDISSAHKLITSHLNLVVKIAM 66 Query: 67 GYRGYGL 73 ++ YGL Sbjct: 67 KFKNYGL 73 >gi|254432638|ref|ZP_05046341.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] gi|197627091|gb|EDY39650.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] Length = 335 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 60/237 (25%), Positives = 116/237 (48%), Gaps = 12/237 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 95 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 154 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A + + Sbjct: 155 IRQGITRAIAEKSRTIRLPIHITE-----TLNKLKKGQRELSQELGRTPTVTELAGYVEL 209 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + CR SL + D ++ D L D + E+ + + + + R +L Sbjct: 210 PEEEVKDLLCRARQPVSLETKVG--DGEDTELLDLLAGDGELPEERVDGECLKGDLRALL 267 Query: 229 TR----SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + VL R E + L E P++L +++ +SR++ R +E +A + ++ Sbjct: 268 EQLPELQGRVLKMRYGLDPEGQGLTE-PMSLSSIAKNLGMSRDKTRNLERKALEGIR 323 >gi|218295160|ref|ZP_03495996.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermus aquaticus Y51MC23] gi|218244363|gb|EED10888.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermus aquaticus Y51MC23] Length = 439 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/242 (27%), Positives = 123/242 (50%), Gaps = 22/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY+ W Sbjct: 198 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATW 257 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I ++I + L R LQ E+ IA+ + Sbjct: 258 WIRQAINRAIADQARTIRI--PVHMVETINKLSRTARQLQQELGREPSYEE---IAEAMG 312 Query: 168 VS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH-----DGQEQVLIEKEER 221 +++ + ++A E ++ D+ S + D++ ++ + Q L+ +E Sbjct: 313 PGWDAKRVEETLKIA-QEPVSLETPIGDEKDSFYGDFIPDENLPSPVEAAAQSLLSEE-- 369 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K Sbjct: 370 ------LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRK 423 Query: 280 VQ 281 ++ Sbjct: 424 LK 425 >gi|116070855|ref|ZP_01468124.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] gi|116066260|gb|EAU72017.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] Length = 239 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 116/238 (48%), Gaps = 17/238 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T++LRLVV +A Y+G GL + +++ EG +GL +AV+K+DP RG R +TY+ WWI+ Sbjct: 1 MITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWWIRQG 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + ++I N+K LR K + EQ +A+ +N+ +E Sbjct: 61 LNRALSTQSRTIRIPVNVNEK--LTKLRAAKARVMQRNGLTATAEQ---LAEFMNLPLTE 115 Query: 173 VIS-MNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML-- 228 V + C L + SL ++ S S LV +E +E+ E R + Sbjct: 116 VEDLLACELRSVTVSLQGIVKSKSDPSE-----LVDILPSEEIPPMERAEIAERSASVWA 170 Query: 229 TRSMSVLNPRERRIFEARRLQENP---VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 S + L P+E ++ R + TL ++ SRE RQ+ RA +K++++ Sbjct: 171 LLSKANLTPKEHKVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQRALRKLRKT 228 >gi|158339957|ref|YP_001521127.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158310198|gb|ABW31813.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 39/98 (39%), Positives = 63/98 (64%), Gaps = 1/98 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ E+ + P+L +EE LA++ + G L A R++ +LRLVV IA ++ GLP+ Sbjct: 8 LHYYLQEMGRYPLLSHEEEIELARQAKA-GSLRAKQRMIECNLRLVVSIAKKHQNRGLPL 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++ EG+IGL AV KF+ +G R +TY+ WWI+ + Sbjct: 67 LDLIQEGSIGLSTAVDKFEIAQGCRFSTYAYWWIRQGI 104 >gi|94313583|ref|YP_586792.1| RNA polymerase sigma 70 (sigma D) factor [Cupriavidus metallidurans CH34] gi|93357435|gb|ABF11523.1| RNA polymerase sigma 70 (sigma D) factor [Cupriavidus metallidurans CH34] Length = 617 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 111/241 (46%), Gaps = 32/241 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVV A Y G+P+ +++ EGN+GLM+AV +FD RG++ +TY+ WWI+ Sbjct: 382 MIRSNLRLVVSNAKKYLHRGMPLLDLIQEGNLGLMRAVDRFDYRRGYKFSTYATWWIRQG 441 Query: 113 MQEYILRSWSLVKI--------GTTANQKR-LFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + I ++I G R LF +L ++V AI Sbjct: 442 ITRAIADKGPTIRIPIHLVEVVGKVNRASRELFHETGEAPAPEALAARLSLSVKKVKAIL 501 Query: 164 KKLNVSESEVISMNCRLAGDESL-NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 V E + M+ +GD L + L + + E R Sbjct: 502 DL--VKEPLSLEMSVGESGDALLWDTLTDECSASPD------------------ESAMRV 541 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + R L +++ L PRE +I + R + TLE + ++ +SRERVRQ+E +A +K+ Sbjct: 542 SLRKDLDEALATLKPREAKIVKMRYGVDAGTDYTLEEIGQQYGLSRERVRQLERQALRKL 601 Query: 281 Q 281 + Sbjct: 602 R 602 >gi|315608976|ref|ZP_07883948.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|315249356|gb|EFU29373.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 287 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 76/285 (26%), Positives = 130/285 (45%), Gaps = 49/285 (17%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 +K+ + N L+ Y+ EI + L ++E LA + GD A +L ++L+ V Sbjct: 41 TKKSKDMDSNERNALNTYLDEIGQESPLTPEKEQDLAACI-QAGDRGALEQLTRANLKFV 99 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V +A +RG GL S+++SEGNIGLM+A KFD RG R Y+ +++ AM+ + + Sbjct: 100 VAMARRFRGRGLAQSDLISEGNIGLMEAAGKFDGSRGNRFVAYAAPYVRKAMERAVEQQA 159 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 L ++ ++ R K + + ++P V A +SE ++ Sbjct: 160 GLYRVPR---------DIMRQK------SRHEVQPASVDA-----PLSEGNKFTL----- 194 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 L+ L N +D + D D Q +IE L ++ L+ RE+R Sbjct: 195 ----LDILEN---------KDAIHPDDDYNVQAMIE---------ALESLVATLDEREQR 232 Query: 242 IFEA-RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + L ++L ++ + + RER RQI RA +K+ S Q Sbjct: 233 VVRGFYGLGTGRISLAEIAEQMGIKRERARQIRDRALRKIARSTQ 277 >gi|9082209|gb|AAF82776.1|AF273254_1 RNA polymerase sigma factor [Coxiella burnetii] Length = 410 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 70/260 (26%), Positives = 114/260 (43%), Gaps = 62/260 (23%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 170 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 229 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 I+ A+ I ++I T N+ L R+ + T PE+ + + Sbjct: 230 IRQAITRSIADQARTIRIPVHMIETINK------LNRISRQILQETGIEATPEE---LGR 280 Query: 165 KLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDW----------- 203 ++++ E +V ISM + DE N D N D+ Sbjct: 281 RMDMPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLMEATR 340 Query: 204 --LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 VY + + QVL R M+ + TLE + + Sbjct: 341 RNFVYAYPARSQVL---------RMRFGIDMNTDH-----------------TLEEVGNN 374 Query: 262 FEVSRERVRQIEARAFKKVQ 281 +V+RER+RQIEA+A +K++ Sbjct: 375 SDVTRERIRQIEAKALRKLR 394 >gi|296393377|ref|YP_003658261.1| RpoD subfamily RNA polymerase sigma-70 factor [Segniliparus rotundus DSM 44985] gi|296180524|gb|ADG97430.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Segniliparus rotundus DSM 44985] Length = 377 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 118/238 (49%), Gaps = 32/238 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ W Sbjct: 139 AARTHLLEANLRLVVSLAKRYTGRGIPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATW 198 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVA- 161 WI+ A+ + +++ ++ L R+K L + T L E + Sbjct: 199 WIRQAITRGVADQSRTIRLPVHLVEQ--VNKLSRIKRELHQQLGREATSEELSRETGIPE 256 Query: 162 --IAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA L+ S V S++ + DE L I S+ S+ E +I Sbjct: 257 HRIADLLDHSRDPV-SLDMPVGADEEAPLGDFIEDSEGASA-------------ENAVIA 302 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 ++ R +L + LN E+++ R ++ P TL+ + F +SRERVRQIE Sbjct: 303 GFLHRDVRTVL----ATLNEVEQQVIRLRYGLDDGQPRTLDQIGKVFSLSRERVRQIE 356 >gi|227503471|ref|ZP_03933520.1| RNA polymerase sigma factor SigB [Corynebacterium accolens ATCC 49725] gi|306836281|ref|ZP_07469263.1| RNA polymerase principal sigma factor SigB [Corynebacterium accolens ATCC 49726] gi|227075974|gb|EEI13937.1| RNA polymerase sigma factor SigB [Corynebacterium accolens ATCC 49725] gi|304567873|gb|EFM43456.1| RNA polymerase principal sigma factor SigB [Corynebacterium accolens ATCC 49726] Length = 337 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 78/286 (27%), Positives = 141/286 (49%), Gaps = 41/286 (14%) Query: 13 EIGL-SRY-IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E+GL + Y ++ K+ EK++ +LA+ G + +H L+ ++LRLVV +A Y G Sbjct: 67 EVGLYAEYKLNNAEKLTRAEKRDLKILAR----EGKKARSH-LLEANLRLVVSLAKRYTG 121 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + A Sbjct: 122 RGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGM------------A 169 Query: 131 NQKRLFFNLRRLKGHL--QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 +Q R RL HL Q + +K E ++ ++ + +E +S + DE+ Sbjct: 170 DQSRTI----RLPVHLVEQVNKLSRIKREMYQSLGRE---ATNEELSEESGI--DENKIE 220 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM------SVLNPRERRI 242 ++ ++ + D + IE E + + SM V++ E+R Sbjct: 221 MLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDAETAVVASMRHSDIRGVIDTLEKRE 280 Query: 243 FEARRLQEN-----PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + RL+ P TL+ + F +SRERVRQIE K+++ Sbjct: 281 QDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMAKLRDG 326 >gi|159037062|ref|YP_001536315.1| RNA polymerase sigma factor SigB [Salinispora arenicola CNS-205] gi|157915897|gb|ABV97324.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora arenicola CNS-205] Length = 328 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 121/240 (50%), Gaps = 19/240 (7%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ W Sbjct: 89 AAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATW 148 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WI+ A+ + ++I ++ R+ R L L + V +A+ Sbjct: 149 WIRQAITRAMADQSRTIRIPVHMVEQVNRMVRTRRDLSVSLG-------REPTVTEVARA 201 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL-VYDHDGQEQVLIEKEE-RKN 223 L+V E ++I + SL+ + + S D++ V + E+ E R+ Sbjct: 202 LDVPEVQIIELISYDREPVSLDQAVG--EDGESPLGDFVAVVNATAAPDNTAERGELRQE 259 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L + L+ RE+ + R ++ TL+ + EF +SRER+RQIE +K++ Sbjct: 260 VRGVL----ATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKGTLRKLR 315 >gi|170704115|ref|ZP_02894732.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] gi|170130976|gb|EDS99686.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] Length = 575 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 113/238 (47%), Gaps = 22/238 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A++++D RGFR +TY+ WWI+ A Sbjct: 342 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWWIRQA 401 Query: 113 MQEYILRSWSLVKIGT-TANQ----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 + + +++ T T + RL R+ G + + + V + L Sbjct: 402 ITHALADLGRTIRVPTHTVDALNKLSRLAREHRQRAGTAATPAELAVHMGEPVDKVRDLM 461 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E +S + ++ + + ++D ++ +D G Q+ R Sbjct: 462 AIVKEPVSADVPVSPEGDMTFADVAADTSTPSPEDAA-----GATQL----------RRT 506 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + L PRE + + R + +L ++ + +S ERVRQIEA A +++ S Sbjct: 507 IAAVIDRLPPREAMVLKLRYGLHADEGCSLRDIGRQLNLSAERVRQIEASALARLRAS 564 >gi|116074383|ref|ZP_01471645.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116069688|gb|EAU75440.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 341 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 71/283 (25%), Positives = 130/283 (45%), Gaps = 34/283 (12%) Query: 13 EIGLSRYIHEIRKIPMLEKQ------EEYVLAKRYREHGDLS-------------AAHRL 53 EI L R + ++ ++ LE + EE V + + LS A R+ Sbjct: 51 EITLGRQVQDLMELEALESELKSESGEEVVAPEALAKKAGLSGVQLKRKLQAGRRAKERM 110 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WWI+ + Sbjct: 111 VAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGI 170 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ + L +LK + ++ + V +A+ + + E EV Sbjct: 171 TRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPTVTELAEFVELPEEEV 225 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSM 232 + CR SL + D + ++ + L D + EQV E + + L + Sbjct: 226 KDLMCRARQPVSLE--MKVGDGDDTELLELLAGDGELPSEQV-----EGECLKGDLRDLL 278 Query: 233 SVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIE 273 L +R++ R E+P++L + +SR+RVR +E Sbjct: 279 EQLPELQRKVLRMRYGMNGEDPMSLTGIGRIIGISRDRVRNLE 321 >gi|313665390|ref|YP_004047261.1| RNA polymerase sigma factor RpoD [Mycoplasma leachii PG50] gi|312949647|gb|ADR24243.1| putative RNA polymerase sigma factor RpoD [Mycoplasma leachii PG50] Length = 498 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 39/114 (34%), Positives = 70/114 (61%), Gaps = 3/114 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRY--REHGDLSAA-HRLVTSHLRLVVKIAMGYRGYG 72 + Y ++I + P+L K +E + AK + D+ ++L+ S+L+LV+ +A + G Sbjct: 163 IKTYFYKIGQAPILTKDQEIMYAKMAVSDDPEDVKEGRNKLIESNLKLVISVARKHLNRG 222 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L ++++ EGNIGLM+AV KF+ E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 223 LDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWWIRQAITRAIADQARTIRI 276 >gi|311739612|ref|ZP_07713447.1| RNA polymerase principal sigma factor SigB [Corynebacterium pseudogenitalium ATCC 33035] gi|311305428|gb|EFQ81496.1| RNA polymerase principal sigma factor SigB [Corynebacterium pseudogenitalium ATCC 33035] Length = 337 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 78/286 (27%), Positives = 141/286 (49%), Gaps = 41/286 (14%) Query: 13 EIGL-SRY-IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E+GL + Y ++ K+ EK++ +LA+ G + +H L+ ++LRLVV +A Y G Sbjct: 67 EVGLYAEYKLNNAEKLTRAEKRDLKILAR----EGKKARSH-LLEANLRLVVSLAKRYTG 121 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + A Sbjct: 122 RGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGM------------A 169 Query: 131 NQKRLFFNLRRLKGHL--QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 +Q R RL HL Q + +K E ++ ++ + +E +S + DE+ Sbjct: 170 DQSRTI----RLPVHLVEQVNKLSRIKREMYQSLGRE---ATNEELSEESGI--DENKIE 220 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM------SVLNPRERRI 242 ++ ++ + D + IE E + + SM V++ E+R Sbjct: 221 MLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDAETAVVASMRHSDIRGVIDTLEKRE 280 Query: 243 FEARRLQEN-----PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + RL+ P TL+ + F +SRERVRQIE K+++ Sbjct: 281 QDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMAKLRDG 326 >gi|115360900|ref|YP_778037.1| RNA polymerase, sigma 28 subunit [Burkholderia ambifaria AMMD] gi|115286228|gb|ABI91703.1| RNA polymerase, sigma 28 subunit [Burkholderia ambifaria AMMD] Length = 617 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 112/238 (47%), Gaps = 22/238 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A++++D RGFR +TY+ WWI+ A Sbjct: 384 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDHRRGFRFSTYATWWIRQA 443 Query: 113 MQEYILRSWSLVKIGT-TANQ----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 + + +++ T T + RL R+ G + + + V ++L Sbjct: 444 ITHALADLGRTIRVPTHTVDALNKLSRLAREHRQRAGTAATPAELAVHMGEPVDKVRELM 503 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E +S + ++ + + + D + +D G Q+ R Sbjct: 504 AIVKEPVSADVPVSPEGDMTFADVAPDTTTPSPEDAA-----GATQL----------RRT 548 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + L PRE + + R + +L ++ + +S ERVRQIEA A +++ S Sbjct: 549 IAAVIDRLPPREAMVLKLRYGLHTDEGCSLRDIGRQLNLSAERVRQIEASALARLRAS 606 >gi|126661338|ref|ZP_01732404.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] gi|126617371|gb|EAZ88174.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] Length = 328 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/314 (22%), Positives = 142/314 (45%), Gaps = 74/314 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+HEI ++P+L ++E + K+ + Sbjct: 23 YLHEIGRVPLLTHEQEIIYGKQVQTMMNLLEKKEELAQRVGKEPSIQEWAKEVNIEEKAL 82 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G Sbjct: 83 QKALEQGE-RAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKG 141 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I + +++ +K L ++K + ++ + + Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK-----LNKIKKTQRELSQSLGRSAT 196 Query: 159 VVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 IA++L + S++ IS++ R+ GD + D S+ L+ D Sbjct: 197 PAEIAQELEIEPSQIREFLSIARQPISLDVRV-GD--------NQDTELSE----LLEDQ 243 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSR 266 + I +E R L+ M+ L P++R + R E+ ++L + +SR Sbjct: 244 GVSPDIYITQE---LLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISR 300 Query: 267 ERVRQIEARAFKKV 280 ERVRQ+E +A ++ Sbjct: 301 ERVRQLEHQALAQL 314 >gi|114778492|ref|ZP_01453336.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] gi|114551217|gb|EAU53776.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] Length = 660 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/248 (25%), Positives = 113/248 (45%), Gaps = 26/248 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV+KF+ RG++ +TY+ WW Sbjct: 411 AKREMIEANLRLVISIAKKYTNRGLGFLDLIQEGNIGLMKAVEKFEWRRGYKFSTYATWW 470 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-----VAIA 163 I+ A+ I ++I + + R+ + PE++ + + Sbjct: 471 IRQAITRSIADQARTIRI--PVHMIETINKMMRVSRQIAQEIGREPTPEELAEHLELPVE 528 Query: 164 KKLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K L + E E +S+ + DE D N+ D + + + + Sbjct: 529 KVLQILEVAKEPVSLETPIGDDEDSQLGDFVEDDNAENPLDSTIGAALAEATLEV----- 583 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + L RE+++ R TLE + +F V+RER+RQIEA+A +K Sbjct: 584 ----------LENLTDREQKVLRMRFGIGMNTDHTLEEVGKQFGVTRERIRQIEAKALRK 633 Query: 280 VQESIQKQ 287 ++ + Q Sbjct: 634 LRHPSRSQ 641 >gi|113474616|ref|YP_720677.1| RNA polymerase sigma factor [Trichodesmium erythraeum IMS101] gi|110165664|gb|ABG50204.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 336 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/300 (24%), Positives = 138/300 (46%), Gaps = 52/300 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR--------------------------YREHGDLS---- 48 Y+HEI ++P+L ++EE V K+ + EH +S Sbjct: 32 YLHEIGRVPLLTREEEIVYGKQVQQMMQFLELKEKLEEKLNRTATLLEWAEHLLVSEKVL 91 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG+ Sbjct: 92 KQAIKQGQRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGY 151 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I + +++ +K ++R++ L + P + Sbjct: 152 KFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK--LNKIKRVQRELIQSLGRSPTPSE- 208 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IA+ L + S++ L ++ + D ++ Q+ L+ D I E Sbjct: 209 --IAQALELEPSQI--REYLLMARHPISLDLRVGDNQDTELQE-LLEDETSSPDDYITGE 263 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + N L ++ L+ ++RR+ R E+ ++L + + ++SRERVRQ+E +A Sbjct: 264 LLRQDINTL---LAELSEQQRRVLVLRFGLEDGKEMSLAKVGDKLQLSRERVRQLEHQAL 320 >gi|172035560|ref|YP_001802061.1| RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] gi|171697014|gb|ACB49995.1| group 2 sigma-70 RNA polymerase sigma factor B [Cyanothece sp. ATCC 51142] Length = 328 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/314 (22%), Positives = 141/314 (44%), Gaps = 74/314 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR------------------------------------ 42 Y+HEI ++P+L ++E + K+ + Sbjct: 23 YLHEIGRVPLLTHEQEIIYGKQVQKMMSLLETKEELAQSLGKEPSLQEWAKEVNLEEKAL 82 Query: 43 ----EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 E G+ A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G Sbjct: 83 TKALEQGE-RAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKG 141 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I + +++ +K +++ + L + P + Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK--LNKIKKTQRELSQTLGRSATPAE 199 Query: 159 VVAIAKKLNVSESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 IA++L + S++ IS++ R+ GD + D S+ L+ D Sbjct: 200 ---IAQELEIEPSQIREFLSIARQPISLDVRV-GD--------NQDTELSE----LLEDQ 243 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSR 266 + I +E R L+ M+ L P++R + R E+ ++L + +SR Sbjct: 244 GVSPDIYITQE---LLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISR 300 Query: 267 ERVRQIEARAFKKV 280 ERVRQ+E +A ++ Sbjct: 301 ERVRQLEHQALAQL 314 >gi|170737511|ref|YP_001778771.1| RpoD family RNA polymerase sigma factor [Burkholderia cenocepacia MC0-3] gi|169819699|gb|ACA94281.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia cenocepacia MC0-3] Length = 627 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 115/244 (47%), Gaps = 34/244 (13%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L S+LRLVV +A Y GLP S+++ EGNIGLM+AV ++D RGF+ +TY+ WWI+ Sbjct: 393 KLFQSNLRLVVSVAKRYADRGLPFSDLIQEGNIGLMKAVDRYDHRRGFKFSTYATWWIRQ 452 Query: 112 AMQEYILRSWSLVKIGT-TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 A+ + +++ T T + L RL H Q + +V++ Sbjct: 453 AITHALADLGRTIRVPTHTVDTLNKLSRLARL--HRQ----------------RTGDVAD 494 Query: 171 SEVISMNCRLAGDE--SLNALIN---SSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKN 223 + +S RL D+ L +++ S+D S D + D D E Sbjct: 495 ARALSTQMRLPVDKVRELMSIVREPISADLPVSPDHDLTLCDVTIDPDAPTPEEAASAGQ 554 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFK 278 R ++ + L RE I RL+ +N +L + + +S ERVRQ+E A + Sbjct: 555 LRAVVAELIDSLPVREAWIL---RLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALE 611 Query: 279 KVQE 282 ++++ Sbjct: 612 RIRQ 615 >gi|40353313|gb|AAR84420.1| essential primary sigma 70 factor [Frankia sp. ACN1ag] Length = 255 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 113/231 (48%), Gaps = 34/231 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 46 AKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 105 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 106 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKV 165 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I L VS+ E +S+ + +E L I D V D +L++ Sbjct: 166 REI---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQ 212 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSR 266 + L + L+ RE+++ + R +P TLE + EF V+R Sbjct: 213 E--------XLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTR 255 >gi|269126860|ref|YP_003300230.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268311818|gb|ACY98192.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 360 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 79/295 (26%), Positives = 135/295 (45%), Gaps = 44/295 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH---------------------GDLSAAHR 52 Y+ I + +L+ QEE LAK Y EH + A R Sbjct: 22 YLDRIGRTHLLDAQEEVDLAKAIEGGLYAEHLLEEDRVPPGVTRQELEELVAAGVRAKQR 81 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 V ++LRLVV IA Y LP+ +++ EGN+GLM+AV+KFD RGF+ +TY+ WWI+ + Sbjct: 82 FVEANLRLVVSIARKYPTDALPLIDLIQEGNLGLMRAVEKFDYRRGFKFSTYATWWIRQS 141 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + + +++ ++ LRR + L E+ +A+ L + Sbjct: 142 IGRGLSHTARTIRLPVHVEEE--LSRLRRAERQLGRELGREPTREE---LAEALGAAVDH 196 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNRRNMLT 229 V + SL+A ++ D + D L+ D +G + +VL + L Sbjct: 197 VDELLRWRRDPASLDAAVD--DAGETPMGD-LLEDPEGVSPEAEVLALDDI-----AGLA 248 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R + L RE I AR E+ P++ + + + +S RVRQI R+ +++++ Sbjct: 249 RLLDRLPERESAILRARFGIEDGQPLSYAQIGARYGLSHNRVRQITDRSLRRLRQ 303 >gi|83944156|ref|ZP_00956612.1| RNA polymerase sigma-32 factor [Sulfitobacter sp. EE-36] gi|83955144|ref|ZP_00963800.1| RNA polymerase sigma-32 factor [Sulfitobacter sp. NAS-14.1] gi|83840473|gb|EAP79646.1| RNA polymerase sigma-32 factor [Sulfitobacter sp. NAS-14.1] gi|83845023|gb|EAP82904.1| RNA polymerase sigma-32 factor [Sulfitobacter sp. EE-36] Length = 223 Score = 81.3 bits (199), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 69/258 (26%), Positives = 111/258 (43%), Gaps = 57/258 (22%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 R PML ++E VL K ++ D A LV SH R+V A +++SEG Sbjct: 9 RNAPMLALEDERVLLKDWQVSKDKFALESLVLSHARIVFYWARKLSDDQAEREDLISEGI 68 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 +GL+ A FD +R R +TY+ WW+K A TA + Sbjct: 69 LGLIHAADLFDLDRDVRFSTYAKWWVKNA--------------TMTA------------R 102 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 HL+AI + ++ V + D+S AL+ S D N Sbjct: 103 NHLRAIVETPAGVQKTV----------------QHSIDDDDSF-ALLASEDPNP------ 139 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 E+ +I + + R L +M L P +R + AR LQ+ P ++++L++ E Sbjct: 140 --------EEAVIAQSSQTLIRARLLEAMERLQPMDREVLRARTLQQPPESIQDLATRME 191 Query: 264 VSRERVRQIEARAFKKVQ 281 V+ ++RQIE RA +++ Sbjct: 192 VTPAKLRQIERRAMSRLK 209 >gi|323456432|gb|EGB12299.1| hypothetical protein AURANDRAFT_12561 [Aureococcus anophagefferens] Length = 233 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/239 (25%), Positives = 113/239 (47%), Gaps = 27/239 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA LV +++RLVV +A Y G GL +S++V EG++GLM+A KFDP RG + +TY+ W Sbjct: 6 SARQALVATNMRLVVSVAKRYTGLGLGLSDLVQEGSLGLMRAATKFDPARGCKFSTYACW 65 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ + L+++ +Q +L +LK + T + + +A+ L Sbjct: 66 WIQQAILRAVAFQSRLIRLPMHVHQ-----DLAKLKRGTRDFTAAHGREPSDGELAELLE 120 Query: 168 VSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 ++ +++ + R L + S + + + D Sbjct: 121 MTPAKLRKVRAAARQGDTLKLEDTLASKEPTGETAVELALLHED---------------- 164 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L +M L+ E+R+ R E+ P T +++ S+E VR+ E RA +K+++ Sbjct: 165 --LHAAMDDLDADEKRVISLRYGLEDGVPCTPAQVAASCAESKEWVRRCEMRAIRKLRK 221 >gi|317506478|ref|ZP_07964279.1| sigma-70 protein [Segniliparus rugosus ATCC BAA-974] gi|316255239|gb|EFV14508.1| sigma-70 protein [Segniliparus rugosus ATCC BAA-974] Length = 348 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 79/294 (26%), Positives = 135/294 (45%), Gaps = 60/294 (20%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH----------------------GDLSAAH 51 Y++ I + +L ++E LAK Y EH G + H Sbjct: 55 YLNGIGRTALLTAEDEVTLAKSIEAGLYAEHLINTSEGLTPQRRRELKAVVRDGRAARTH 114 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ Sbjct: 115 -LLEANLRLVVSLAKRYTGRGIPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWWIRQ 173 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVA---IA 163 A+ + +++ ++ L R+K L T L E + IA Sbjct: 174 AITRGVADQSRTIRLPVHLVEQ--VNKLSRIKRELHQQLGREATSEELSRETGIPEHRIA 231 Query: 164 KKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 L+ S V S++ + DE L I S+ S+ E +I Sbjct: 232 DLLDHSRDPV-SLDMPVGADEEAPLGDFIEDSEGASA-------------ENAVIAGFLH 277 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 ++ R++L + L+ E+++ R ++ P TL+ + F +SRERVRQIE Sbjct: 278 RDVRSVL----ATLSDSEQQVIRLRYGLDDGQPRTLDQIGKIFSLSRERVRQIE 327 >gi|224144900|ref|XP_002325455.1| predicted protein [Populus trichocarpa] gi|222862330|gb|EEE99836.1| predicted protein [Populus trichocarpa] Length = 564 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 122/238 (51%), Gaps = 24/238 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +++ S++RLV+ IA Y+G G+ + ++V EG GL++ V+KFD +GF+ +TY+ WWI+ Sbjct: 329 KMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGVEKFDASKGFKFSTYAHWWIRQ 388 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNL-----RRLKGHLQAITDNNLKP-EQVVAIAKK 165 A++ RS S + RL F++ R + Q ++N P ++ VA A Sbjct: 389 AVR----RSLS-----DQSRTIRLPFHMVDATYRVKEARKQFYSENGRHPDDKEVAEATG 439 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 L++ + + + N K S D + + E +L+++ +K+ Sbjct: 440 LSMKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTAD---PEAETAEDLLMKEFMKKD-- 494 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R + L+PRE ++ R E+ TL+ + VSRER+RQIE AF+K++ Sbjct: 495 --LERVLESLSPRENQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIELSAFRKLK 550 >gi|40353315|gb|AAR84421.1| essential primary sigma 70 factor [Frankia sp. HRX401a] Length = 255 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/231 (29%), Positives = 113/231 (48%), Gaps = 34/231 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y G G+ ++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 46 AKRKLVEANLRLVVSIAKRYVGRGMLFLHLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 105 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 106 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKV 165 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I L VS+ E +S+ + +E L I D V D +L++ Sbjct: 166 REI---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCDA---------VVPVDAASFILLQ 212 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSR 266 ++ L + L+ RE+++ + R +P TLE + EF V+R Sbjct: 213 EQ--------LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTR 255 >gi|288927103|ref|ZP_06420991.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|288336130|gb|EFC74523.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] Length = 287 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 76/285 (26%), Positives = 130/285 (45%), Gaps = 49/285 (17%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 +K+ + N L+ Y+ EI + L ++E LA + GD A +L ++L+ V Sbjct: 41 TKKSKDMDSNERNALNTYLDEIGQESPLTPEKEQDLAACI-QAGDRGALEQLTRANLKFV 99 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 V +A +RG GL S+++SEGNIGLM+A KFD RG R Y+ +++ AM+ + + Sbjct: 100 VAMARRFRGRGLAQSDLISEGNIGLMEAAGKFDGSRGNRFVAYAAPYVRKAMERAVEQQA 159 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 L ++ ++ R K + + ++P V A +SE ++ Sbjct: 160 GLYRVPR---------DIMRQK------SRHEVQPASVDA-----PLSEGNKFTL----- 194 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 L+ L N +D + D D Q +IE L ++ L+ RE+R Sbjct: 195 ----LDILEN---------KDAIHPDDDYNVQAMIE---------ALESLVATLDEREQR 232 Query: 242 IFEA-RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + L ++L ++ + + RER RQI RA +K+ S Q Sbjct: 233 VVRGFYGLGTGRISLAEIAEQMGIKRERARQIRDRALRKIARSTQ 277 >gi|55275000|gb|AAV49297.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 203 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 50/66 (75%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + ++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLALIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|332753462|gb|EGJ83842.1| RNA polymerase sigma factor rpoS domain protein [Shigella flexneri 4343-70] Length = 215 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 61/219 (27%), Positives = 105/219 (47%), Gaps = 24/219 (10%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRL 135 +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + + Sbjct: 3 DLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNV 62 Query: 136 FFNLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + R H + I + KP V+ +LN + S++ L GD Sbjct: 63 YLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKAL 119 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 L +D+ + +D D Q V E +R +L R +L +EA Sbjct: 120 LDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA--- 170 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 171 ----ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 205 >gi|166368031|ref|YP_001660304.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] gi|166090404|dbj|BAG05112.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 377 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 61/236 (25%), Positives = 112/236 (47%), Gaps = 11/236 (4%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +++ S+LRLVV IA Y G+P +++ EG IGL +A +KFDP +G++ +TY+ W Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ +K L +LK + + + + +A+ L Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEK-----LNKLKKAQRILKQDLQRNPNERELAEALE 252 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 ++ ++ + SLN + + ++++ E R+ + Sbjct: 253 MTPEQLRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKM----NEMMMRQEI 308 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 VL RE+ + R P TLE + F +SRERVRQI+ +A +K++ Sbjct: 309 FAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLR 364 >gi|54401900|gb|AAV34635.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 203 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 34/66 (51%), Positives = 50/66 (75%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVVKIA Y GL + +++ EGN+GL +AV+KFDPERGFR +TY+ WWI+ Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLNRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 113 MQEYIL 118 ++ I+ Sbjct: 61 IERAIM 66 >gi|282895449|ref|ZP_06303586.1| sigE (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281199482|gb|EFA74345.1| sigE (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 327 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 113/240 (47%), Gaps = 31/240 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP G++ +TY+ WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTMGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I + +++ Q+ L L R + + L+P Q Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSPTEIAKELELEPAQ- 210 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I + LN++ + IS++ R+ D ++ Q+ L D E ++ Sbjct: 211 --IREYLNIA-RQPISLDVRVG------------DNQDTELQEMLEDDGLSPEHYTTQEF 255 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 R + N+L L P++R + R E N ++L + +SRERVRQ+E +A Sbjct: 256 LRHDLNNLLAE----LTPQQREVVTLRFGLEDGNEMSLAKVGDRLNISRERVRQLEHQAL 311 >gi|224126061|ref|XP_002319746.1| predicted protein [Populus trichocarpa] gi|222858122|gb|EEE95669.1| predicted protein [Populus trichocarpa] Length = 567 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 71/254 (27%), Positives = 128/254 (50%), Gaps = 26/254 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L R R + + +++ S++RLV+ IA Y+G G+ + ++V EG GL++ +KFD Sbjct: 317 LTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGTGMNLQDLVQEGCRGLVRGAEKFDAS 376 Query: 97 RGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL-----RRLKGHLQAIT 150 +GF+ +TY+ WWIK A+++ + RS ++ RL F++ R + Q + Sbjct: 377 KGFKFSTYAHWWIKQAVRKSLSDRSRTI----------RLPFHMVDATYRVKEARKQLYS 426 Query: 151 DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 +N P ++ VA A L++ + + + N K S D + + Sbjct: 427 ENGRHPDDKEVAEAAGLSMKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTAD---PEAE 483 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRE 267 E +L+++ +K+ L + + L+PRE ++ R E+ TL+ + VSRE Sbjct: 484 TAEDLLMKEFMKKD----LAKVLGSLSPRENQVVRWRFGMEDGRMKTLQEIGELMGVSRE 539 Query: 268 RVRQIEARAFKKVQ 281 RVRQIE AF+K++ Sbjct: 540 RVRQIELSAFRKLK 553 >gi|298490639|ref|YP_003720816.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298232557|gb|ADI63693.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 327 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 59/231 (25%), Positives = 115/231 (49%), Gaps = 13/231 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG++ +TY+ WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K +++++ L + P + IAK+L + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEK--LNKIKKVQRELAQKLGRSPSPTE---IAKELEL 206 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +++ SL+ + D ++ Q+ L + E ++ R++ N+L Sbjct: 207 EPAQIREYLNMARQPVSLD--VRVGDNQDTELQEMLEDEGPSPEYYTTQEFLRQDLNNLL 264 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 L P++R + R E N ++L + +SRERVRQ+E +A Sbjct: 265 AE----LTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQAL 311 >gi|83319868|ref|YP_424476.1| RNA polymerase sigma factor RpoD [Mycoplasma capricolum subsp. capricolum ATCC 27343] gi|83283754|gb|ABC01686.1| RNA polymerase sigma factor RpoD [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 505 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 39/114 (34%), Positives = 69/114 (60%), Gaps = 3/114 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRY--REHGDLSAA-HRLVTSHLRLVVKIAMGYRGYG 72 + Y ++I + P+L K +E + AK + D+ ++L+ S+L+LV+ +A + G Sbjct: 171 IKTYFYKIGQAPILTKDQEIMYAKMAVSDDPEDVKEGRNKLIESNLKLVISVARKHLNRG 230 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 L ++++ EGNIGLM+AV KF+ E+GF+ +TY+ WWI A+ I ++I Sbjct: 231 LDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWWISQAITRAIADQARTIRI 284 >gi|294673921|ref|YP_003574537.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] gi|294472533|gb|ADE81922.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] Length = 250 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 40/119 (33%), Positives = 73/119 (61%), Gaps = 1/119 (0%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L+RY+ EI + +L +EE LA+R + GD A +L+ ++L+ VV +A Y+G G+ Sbjct: 21 ALNRYLDEIGREQLLTNEEERELAERIAK-GDERALSKLIEANLKFVVSVARQYKGKGVD 79 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + ++VSEGN+GLM+A KFD +G R ++ +I+ ++++ I + L ++ Q+ Sbjct: 80 MEDLVSEGNLGLMKAAAKFDASKGVRFVNFAFVYIRQSIEKAIDQQGGLYQVPKDVKQE 138 >gi|75908126|ref|YP_322422.1| RNA polymerase sigma factor [Anabaena variabilis ATCC 29413] gi|75701851|gb|ABA21527.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 327 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 58/231 (25%), Positives = 114/231 (49%), Gaps = 13/231 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG++ +TY+ WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K +++++ L + P + IAK+L + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEK--LNKIKKVQRELAQTLGRSPSPAE---IAKELEL 206 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +++ SL+ + D ++ Q+ L + E ++ R++ +L Sbjct: 207 EPAQIREYLNMARQPVSLD--VKVGDNQDTELQEMLEDEGPSPEYYTTQEFLRQDLNTLL 264 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L P++R + R L N ++L + +SRERVRQ+E +A Sbjct: 265 AE----LTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQAL 311 >gi|227549119|ref|ZP_03979168.1| RNA polymerase sigma factor SigB [Corynebacterium lipophiloflavum DSM 44291] gi|227078816|gb|EEI16779.1| RNA polymerase sigma factor SigB [Corynebacterium lipophiloflavum DSM 44291] Length = 331 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 126/264 (47%), Gaps = 27/264 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +K++ +LAK+ R A L+ ++LRLVV +A Y G G+P+ +++ EGN+ Sbjct: 75 KLTRAKKRDLKILAKQGRR-----ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNL 129 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFFNLRR-- 141 GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Q +RR Sbjct: 130 GLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIRREM 189 Query: 142 LKGHLQAITDNNLKPEQVVAIAK--KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ 199 + + T+ L E + +K L + +S++ + DE D ++ Sbjct: 190 YQSLGREPTNEELSDESGIEESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDAEATD 249 Query: 200 WQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +D +V HD + ++ E+R+ L + PR TL+ Sbjct: 250 AEDAVVSSLRHDDIQDIIGGLEQREQDVIRLRYGLDDGVPR---------------TLDQ 294 Query: 258 LSSEFEVSRERVRQIEARAFKKVQ 281 + +F +SRERVRQIE K++ Sbjct: 295 IGRQFGLSRERVRQIEREVMAKLR 318 >gi|119492598|ref|ZP_01623816.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] gi|119453067|gb|EAW34237.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] Length = 333 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 72/321 (22%), Positives = 146/321 (45%), Gaps = 57/321 (17%) Query: 3 RKNMSIIVNGEIGLS-----RYIHEIRKIPMLEKQEEY-------VLAKRYREHGDLS-- 48 +K+ S N G+S Y+HEI ++P+L ++EE + K+ E L+ Sbjct: 8 KKDQSTKRNTRPGVSVDTVRTYLHEIGRVPLLTQEEEIHYGKQVQQMMKQLEEKDKLTKK 67 Query: 49 ------------------------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 A +++ ++LRLVV IA Y+ + ++ Sbjct: 68 LEHEPSKTEWANEVELTEDELDRILDCGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDL 127 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + EG +GL + V+KFDP RG++ +TY+ WW++ A+ I ++ +++ +K Sbjct: 128 IQEGTLGLERGVEKFDPMRGYKFSTYAYWWVRQAITRAIAQNGRTIRLPIHITEK--LNK 185 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++R++ L N P + IA+ L + S++ LA ++ + D + Sbjct: 186 IKRVQRDLVQKYGRNPTPTE---IAEALELEPSQI--REYLLASRHPISLDLRVGDNQDT 240 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLE 256 + Q+ L + + + + R++ ++++ L P++R + R E+ ++L Sbjct: 241 ELQELLEDETASADNYVTHELLRQDLKSLIDE----LTPQQREVILLRYGLEDGKELSLS 296 Query: 257 NLSSEFEVSRERVRQIEARAF 277 + + +SRERVRQ+E +A Sbjct: 297 KVGARMSISRERVRQLENQAL 317 >gi|315226631|ref|ZP_07868419.1| DNA-directed RNA polymerase sigma subunit RpoD [Parascardovia denticolens DSM 10105] gi|315120763|gb|EFT83895.1| DNA-directed RNA polymerase sigma subunit RpoD [Parascardovia denticolens DSM 10105] Length = 690 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/253 (26%), Positives = 121/253 (47%), Gaps = 34/253 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WW Sbjct: 451 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 510 Query: 109 IKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ + +++ + Q+++ +L R + + ++ E+V Sbjct: 511 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 570 Query: 160 VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + K E IS++ L GD LI +D + + +QVL Sbjct: 571 QEVQKYGR----EPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQEQFKQVL-- 624 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 L+PRE + + R E+ P TL+++ + V+RER+RQIE++ Sbjct: 625 ---------------ETLSPREAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESK 669 Query: 276 AFKKVQESIQKQV 288 K++ + Q Sbjct: 670 TMSKLRHPSRSQT 682 >gi|210633875|ref|ZP_03297890.1| hypothetical protein COLSTE_01807 [Collinsella stercoris DSM 13279] gi|210159044|gb|EEA90015.1| hypothetical protein COLSTE_01807 [Collinsella stercoris DSM 13279] Length = 261 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 70/262 (26%), Positives = 127/262 (48%), Gaps = 27/262 (10%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +K++ L +R++E GD+ A +LV SHL LV IA ++ G PI ++V G +GL++A Sbjct: 12 DKEKTRELFRRFKEEGDMDAREKLVMSHLNLVRFIANKFKNRGEPIDDLVQVGYLGLLKA 71 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 + +FDP RG T++ I ++ + + WS+ R+ L+ L + Sbjct: 72 IDRFDPARGLEFTTFATPTIMGEIKRHFRDKGWSV----------RVPRRLQELSAKVNQ 121 Query: 149 ITD---NNLKPEQVVA-IAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQD 202 TD + L+ +A IA+ L+ + EV+ + SL A D ++ D Sbjct: 122 ATDTLTSQLQRSPTIAEIAEYLDATVDEVLEAMESSSAYSSVSLEAPSGMEDDDAPSVID 181 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 Y + +E + R ++ +++ +PRER + E R LQ +T ++ + Sbjct: 182 R--YATEDEELAFTDD------RIIIEEALASFSPREREVIEMRFLQ--GMTQIEIAEKL 231 Query: 263 EVSRERVRQIEARAFKKVQESI 284 +S+ +V ++ R KK+QE I Sbjct: 232 GISQVQVSRLLRRTLKKIQEKI 253 >gi|172065170|ref|YP_001815882.1| RpoD family RNA polymerase sigma factor [Burkholderia ambifaria MC40-6] gi|171997412|gb|ACB68329.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria MC40-6] Length = 621 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 111/238 (46%), Gaps = 22/238 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A++++D RGFR +TY+ WWI+ A Sbjct: 388 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWWIRQA 447 Query: 113 MQEYILRSWSLVKIGT-TANQ----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 + + +++ T T + RL R+ G + + + V + L Sbjct: 448 ITHALADLGRTIRVPTHTVDALNKLSRLAREHRQRAGTAATPAELAVHMGEPVDKVRDLM 507 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E +S + ++ + + + D + +D G Q+ R Sbjct: 508 AIVKEPVSADVPVSPEGDMTFADVAPDTTTPSPEDAA-----GATQL----------RRT 552 Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + L PRE + + R + +L ++ + +S ERVRQIEA A +++ S Sbjct: 553 IAAVIDRLPPREAMVLKLRYGLHTDEGCSLRDIGRQLNLSAERVRQIEASALARLRAS 610 >gi|78211648|ref|YP_380427.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78196107|gb|ABB33872.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9605] Length = 335 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 72/322 (22%), Positives = 141/322 (43%), Gaps = 54/322 (16%) Query: 10 VNGEIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREHGDLS-------------------- 48 V ++ L R Y+ +I ++P+L ++E L ++ +E DL Sbjct: 21 VTADVDLVRSYLRDIGRVPLLTHEQEITLGRQVQELMDLESLESELKSKAGEKPSRDQLA 80 Query: 49 -------------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 A R+V ++LRLVV +A Y + + +++ EG IGL++ Sbjct: 81 KASGLSSIQLKRKLQHGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRG 140 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 V+KFDP RG++ +TY+ WWI+ + I +++ + L +LK + + Sbjct: 141 VEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQREL 195 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 + + V +A+ + + E +V + CR SL + D + ++ + L D D Sbjct: 196 SQELGRTPTVTELAEFVELPEDDVKDLMCRARQPVSLE--MKVGDGDDTELLELLSGDGD 253 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRE 267 + E + + R++L + L + ++ R E+P++L + +SR+ Sbjct: 254 LPSDQVEEDCLKGDLRSLLGQ----LPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRD 309 Query: 268 RVRQIEARAFKKVQESIQKQVE 289 RVR +E ++ + QVE Sbjct: 310 RVRNLERDGLAGLRR-VSDQVE 330 >gi|320537364|ref|ZP_08037319.1| RNA polymerase sigma factor RpoD [Treponema phagedenis F0421] gi|320145829|gb|EFW37490.1| RNA polymerase sigma factor RpoD [Treponema phagedenis F0421] Length = 604 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 72/252 (28%), Positives = 127/252 (50%), Gaps = 29/252 (11%) Query: 41 YREHGDLSAA-HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +R H L A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +G+ Sbjct: 357 HRGHTMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYRKGY 416 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKP 156 + +TY+ WWI+ A+ I +++ ++ ++ R+L L + TD + Sbjct: 417 KFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVARESRQLLQKLGRDPTDEEIAT 476 Query: 157 EQV--VAIAKKLNVSESEVISMNCRLA--GDESLNALINSSD-KNSSQWQDWLVYDHDGQ 211 + V K++ E IS+ + D SL I ++ +N S + Sbjct: 477 QLCWTVEKVKQVKNVAREPISLETPIGEEEDSSLGDFIPDTEIENPS----------NVT 526 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERV 269 E++L+ +E + +S L RE + + R + TLE + F+V+RER+ Sbjct: 527 EKILLREE--------VQSVLSTLPSREHEVLKMRFGLDGDYSQTLEEVGLYFDVTRERI 578 Query: 270 RQIEARAFKKVQ 281 RQIEA+A ++++ Sbjct: 579 RQIEAKALRRLR 590 >gi|325473907|gb|EGC77095.1| RNA polymerase sigma-70 factor family protein [Treponema denticola F0402] Length = 619 Score = 80.9 bits (198), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 125/243 (51%), Gaps = 26/243 (10%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +G++ +TY+ W Sbjct: 380 NAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATW 439 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQV---VAI 162 WI+ A+ I +++ ++ ++ R+L L +++ Q+ + Sbjct: 440 WIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEK 499 Query: 163 AKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 K++ E IS+ + +E L LI +D V + + ++ + +E+ Sbjct: 500 VKQVKNVAREPISLETPIGEEEDTLLGDLI----------EDKGVENPSNRTELTLLQEQ 549 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFK 278 L +S L RE+ + + R E P+TLE + F+V+RER+RQIEA+ + Sbjct: 550 -------LEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLR 602 Query: 279 KVQ 281 +++ Sbjct: 603 RLR 605 >gi|42526854|ref|NP_971952.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35405] gi|41817169|gb|AAS11863.1| RNA polymerase sigma-70 factor family protein [Treponema denticola ATCC 35405] Length = 619 Score = 80.5 bits (197), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 122/244 (50%), Gaps = 28/244 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +L+ ++LRLVV IA Y GL ++V EGNIGL++AV+KF+ +G++ +TY+ W Sbjct: 380 NAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATW 439 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQV---VAI 162 WI+ A+ I +++ ++ ++ R+L L +++ Q+ + Sbjct: 440 WIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEK 499 Query: 163 AKKLNVSESEVISMNCRLAGDES--LNALINSSD-KNSSQWQDWLVYDHDGQEQVLIEKE 219 K++ E IS+ + +E L LI +N S + + QEQ Sbjct: 500 VKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTLL----QEQ------ 549 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L +S L RE+ + + R E P+TLE + F+V+RER+RQIEA+ Sbjct: 550 --------LEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGL 601 Query: 278 KKVQ 281 ++++ Sbjct: 602 RRLR 605 >gi|1769596|gb|AAB39997.1| sigma factor [Synechococcus sp. PCC 7002] Length = 317 Score = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/257 (25%), Positives = 122/257 (47%), Gaps = 34/257 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ WW Sbjct: 83 AKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L ++K + + N + + +A +L + Sbjct: 143 IRQAITRAIAEQSRTIRLPIHITEK-----LNKIKKAQRQLAQANGRSASIPELADELGL 197 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +V +S++ R+ GD + LI D D + D L Sbjct: 198 TTKQVRDYLEKSRQPLSLDLRV-GDNNDTELIELED-------DGELPDDYATHAAL--- 246 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARA 276 + L R ++ L +++ + R L++ P TL + +SRERVRQIE + Sbjct: 247 ------KRDLARMLNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLNISRERVRQIEHGS 300 Query: 277 FKKVQESIQKQVELSSS 293 K+++ +K E +S Sbjct: 301 LAKLRKQKRKLGEYLAS 317 >gi|217968787|ref|YP_002354021.1| sigma-70 region 2 domain protein [Thauera sp. MZ1T] gi|217506114|gb|ACK53125.1| sigma-70 region 2 domain protein [Thauera sp. MZ1T] Length = 590 Score = 80.1 bits (196), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 34/76 (44%), Positives = 52/76 (68%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +R++ S+LRLV+ IA Y G P +++ EGN+GLM+AV+KFD RGF+ +TY+ WWI+ Sbjct: 477 NRMIKSNLRLVISIAKKYTHTGFPFLDLIQEGNLGLMKAVEKFDYRRGFKFSTYATWWIR 536 Query: 111 AAMQEYILRSWSLVKI 126 A+ I LV++ Sbjct: 537 QAITRGIADQQRLVRV 552 >gi|108707415|gb|ABF95210.1| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica Group] gi|215695353|dbj|BAG90544.1| unnamed protein product [Oryza sativa Japonica Group] Length = 343 Score = 80.1 bits (196), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 67/250 (26%), Positives = 120/250 (48%), Gaps = 25/250 (10%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R + +S + +V S++RLV+ IA + G G+ S+++ EG GL++ +KFD +GF Sbjct: 93 RKRLNYGISCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGF 152 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R +TYS WWIK A+++ +L ++ RL H+ A + +K + Sbjct: 153 RFSTYSHWWIKQAIRKSVLEQTQII----------------RLPAHM-AEASSRVKECRR 195 Query: 160 VAIAKKLNVSESEVISMNC-----RLAGDESL-NALINSSDKNSSQWQDWLVYDHDGQEQ 213 + + +E I+ + R+ SL ++ + K + D + Sbjct: 196 RLRRQLKRLPTNEEIASDTGMPLRRVEAAMSLPKYTVSLTSKVGCTDMTYQEITPDTSTE 255 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQ 271 E R + + R++ L+PRER++ R ++ TL ++ VSRER+RQ Sbjct: 256 TAEEMLHRWLMKEDVDRALDGLSPRERQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQ 315 Query: 272 IEARAFKKVQ 281 IE AF+K++ Sbjct: 316 IELVAFRKLR 325 >gi|229082715|ref|ZP_04215161.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-2] gi|228700606|gb|EEL53146.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-2] Length = 323 Score = 80.1 bits (196), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 80/296 (27%), Positives = 132/296 (44%), Gaps = 59/296 (19%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISE 77 I EI +L KQE L +RY+ HG+ L ++ LV+ IA Y+ + + Sbjct: 40 IKEIGNYKVLSKQESLKLFQRYK-HGEKDLRDYLFHVNVGLVLSIARKYKNKHPDIEFDD 98 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLF 136 +V EGN G+++A++ F+P G+ +TY+ WWIK +M I R S KI NQ Sbjct: 99 LVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIKKSMLGIICRKKSGPFKIPNYVNQ---- 154 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC--RLAGDESLN------- 187 FNLR ++ + + N P V +AK+LNV+ VI N + A +L+ Sbjct: 155 FNLRYVELEDKYLQMYNRTP-SVEEVAKELNVTSETVIKYNVYYKRATTMTLDVDTINED 213 Query: 188 -ALINSSDKNSS-------------QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 ++N +SS ++ WL++D Sbjct: 214 IGILNPFYDDSSTIPSTNEMVIEDLNYEIWLIFDE------------------------- 248 Query: 234 VLNPRERRIFE-ARRLQENPVTL-ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 VLNP+++ + L + V L + ++ ++ ERV QI+ A KK+++ K Sbjct: 249 VLNPKQKMVLNLCFGLLDGKVYLHKEIAKALMITTERVSQIKDEAIKKLKKGDYKD 304 >gi|296139548|ref|YP_003646791.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] gi|296027682|gb|ADG78452.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] Length = 330 Score = 80.1 bits (196), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 78/296 (26%), Positives = 134/296 (45%), Gaps = 48/296 (16%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH-------------GDLS--------AAHR 52 Y++ I + +L ++E LAKR Y +H DL+ A Sbjct: 37 YLNGIGRTALLTAEDEVELAKRIEAGLYAQHLLDTKKRLSASKKRDLAFIVRDGQAARQH 96 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A Sbjct: 97 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQA 156 Query: 113 MQEYILRSWSLVKIGT-TANQKRLFFNLRR-LKGHL-QAITDNNLKPEQVVAIAKKLNVS 169 + + +++ Q +RR L L + TD L E + K ++ Sbjct: 157 ITRGMADQSRTIRLPVHLVEQVNKLARIRRELHQQLGREATDAELAAESGIPAEKIADLM 216 Query: 170 ES--EVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 + + +S++ + DE L I ++ S++ H VL +ER+ + Sbjct: 217 DHSRDPVSLDMPVGSDEEAPLGDFIEDAEAASAESAVISTLMHSDVRSVLATLDEREQQV 276 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + PR TL+ + F +SRERVRQIE K++ Sbjct: 277 IRLRYGLDDGQPR---------------TLDQIGKLFGLSRERVRQIEREVMSKLR 317 >gi|113954287|ref|YP_730230.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113881638|gb|ABI46596.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 318 Score = 80.1 bits (196), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 69/311 (22%), Positives = 138/311 (44%), Gaps = 56/311 (18%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSA---------------- 49 M+++ + ++ + Y+ +I ++P+L Q+E L ++ +E DL A Sbjct: 1 MALLPDADL-VRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEALEAELKDQRGGEEVAR 59 Query: 50 ------------------------AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 R+V ++LRLVV +A Y + + +++ EG IG Sbjct: 60 DEWAKAAGMSAAQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIG 119 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++ V+KFDP RG++ +TY+ WWI+ + I +++ + L +LK Sbjct: 120 LVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITE-----MLNKLKKG 174 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + ++ + V +A + + E EV + CR SL + D + ++ + L Sbjct: 175 QRELSQELGRTPSVTELASFVELPEEEVKDLMCRARQPVSLE--MKVGDGDDTELLELLA 232 Query: 206 YDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ--ENPVTLENLSSEF 262 D + +QV E + + L +S L + ++ R E P++L ++ Sbjct: 233 GDGELPSDQV-----EGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIAKSM 287 Query: 263 EVSRERVRQIE 273 ++SR+R R++E Sbjct: 288 KMSRDRTRRLE 298 >gi|84385871|ref|ZP_00988901.1| RNA polymerase sigma factor RpoS [Vibrio splendidus 12B01] gi|84379187|gb|EAP96040.1| RNA polymerase sigma factor RpoS [Vibrio splendidus 12B01] Length = 262 Score = 80.1 bits (196), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 77/274 (28%), Positives = 136/274 (49%), Gaps = 33/274 (12%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEG 82 I +L +++E AK R GD A ++ S+LRLVVKIA Y +G + +++ EG Sbjct: 3 IDLLSREDEVYYAKLNR-AGDKQARDIMIESNLRLVVKIAKSYLKRKGNNFTLLDLIEEG 61 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 NIGL++A+ K+DPE G+R +TY++WWI+ ++ +L+ G T RL Sbjct: 62 NIGLIKAIDKYDPEPGYRFSTYAVWWIRENIEA------ALMNKGRTV----------RL 105 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLN--VSESEVI-SMNCRLAGDESLNALINSSDKNSSQ 199 H+ + N + + ++KK++ +S SE+ S + + L AL D ++ Sbjct: 106 PAHV--CKEINSLASKKLDVSKKMSKEISISELSDSSGVKAKRVDQLVALSGFIDVTTTV 163 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM----SVLNPRERRIFEAR-RLQENPV- 253 + D E I +R T+++ S L P+ +++ R +N V Sbjct: 164 GTNHAPMVLDQCESEYIPDPQRDCEDQSFTQALEQIISTLPPKLQKVLIHRFGFFDNKVK 223 Query: 254 TLENLSS--EFEVSRERVRQIEARAFKKVQESIQ 285 TL + + VS ERVRQ++ A +++Q+ ++ Sbjct: 224 TLSEVGQMLDVNVSSERVRQMQKEAVERIQKRLK 257 >gi|307152078|ref|YP_003887462.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306982306|gb|ADN14187.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 328 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 69/324 (21%), Positives = 151/324 (46%), Gaps = 59/324 (18%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYRE----------------- 43 +N KN + ++ + Y+HEI ++P+L ++E V K+ ++ Sbjct: 6 VNPKNQKPTFSADM-VRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDELAIQLER 64 Query: 44 ---------HGDLS-------------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 H +S A +++ ++LRLVV IA Y+ + +++ E Sbjct: 65 EPSLTEWANHVQMSEEELNRAIQQGKRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQE 124 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G++GL + V+KFDP +G++ +TY+ WWI+ A+ I + +++ +K L + Sbjct: 125 GSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK-----LNK 179 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDKNSS 198 +K + ++ + IAK L++ ++ +SM+ + ++ + D + Sbjct: 180 IKKTQRELSQQLGRSATPSEIAKALDLEPDQIREFLSMSR-----QPISLDVRVGDNQDT 234 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENP-VTLE 256 + + L + + + ++ R++ +++L L P++R + R LQ+ ++L Sbjct: 235 ELSELLEDEGISPDNYITQELMRQDLQDLLAE----LTPQQREVLSLRFGLQDGKELSLA 290 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 + +SRERVRQ+E +A ++ Sbjct: 291 KIGQRMNISRERVRQLEHQALSQL 314 >gi|296117743|ref|ZP_06836327.1| RNA polymerase principal sigma factor SigB [Corynebacterium ammoniagenes DSM 20306] gi|295969474|gb|EFG82715.1| RNA polymerase principal sigma factor SigB [Corynebacterium ammoniagenes DSM 20306] Length = 334 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 71/287 (24%), Positives = 140/287 (48%), Gaps = 43/287 (14%) Query: 13 EIGL-SRY-IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 EIGL + Y ++ K+ EK++ +L K G + +H L+ ++LRLVV +A Y G Sbjct: 64 EIGLYAEYKLNTAEKLTRAEKRDMKILVK----EGKKARSH-LLEANLRLVVSLAKRYTG 118 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Sbjct: 119 RGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHL 178 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMNCRL 180 ++ L R+K + E+ +A++ + E+++ +S++ + Sbjct: 179 VEQ--VNKLSRIKREMYQSLGREATNEE---LAEESGIEENKIEMLLRQSRDPVSLDMPV 233 Query: 181 AGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 DE L I ++ + E ++ + R+++ L R Sbjct: 234 GADEEAPLGDFIEDAEATDA-------------ETAVVASMRHSDIRDVI----GTLEQR 276 Query: 239 ERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E+ + R ++ P TL+ + +F +SRERVRQIE K+++ Sbjct: 277 EQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIEREVMAKLRDG 323 >gi|46201746|ref|ZP_00054445.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 756 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 73/256 (28%), Positives = 126/256 (49%), Gaps = 49/256 (19%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A+R RE R ++L+LVV A + G P + + EGN+GL++AV++FD R Sbjct: 524 ARRARE--------RFALANLKLVVWGAKKFGGLTWP--DRIQEGNLGLLKAVERFDHRR 573 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G + +TY+ WWIK A+ + ++I A + LRR + + A+T PE Sbjct: 574 GAKFSTYATWWIKQAVTRAVADKGRTIRIPVHAQEA--MRKLRRAQNEVFALTGREALPE 631 Query: 158 QV-----VAIAKK---LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 +V + +A+ L V+E E S++ G +++++ S + D Sbjct: 632 EVGELTEIPLARVRRFLAVAE-EPASLDVEEVG-------LHAAEMASRE--------PD 675 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEV 264 +E++ + + M+ + +L PRE + RL+ E TLE + +F V Sbjct: 676 PEERLAV-----AEIKAMVRGQLELLPPREATVI---RLRFGIGCEREYTLEEIGQQFGV 727 Query: 265 SRERVRQIEARAFKKV 280 +RER+RQIEA+A +K+ Sbjct: 728 TRERIRQIEAKALRKL 743 >gi|312282731|dbj|BAJ34231.1| unnamed protein product [Thellungiella halophila] Length = 269 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 35/78 (44%), Positives = 53/78 (67%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ + RLVV IA GY+G GL + +++ EG+IGL++ ++FDPERG++L+TY WW Sbjct: 181 AREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPERGYKLSTYVYWW 240 Query: 109 IKAAMQEYILRSWSLVKI 126 IK A+ I LVK+ Sbjct: 241 IKQAILRAIAHKSRLVKL 258 >gi|218439771|ref|YP_002378100.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7424] gi|218172499|gb|ACK71232.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 328 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/306 (21%), Positives = 141/306 (46%), Gaps = 58/306 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL------------------------------- 47 Y+HEI ++P+L ++E V K+ ++ L Sbjct: 23 YLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDQLAIELGKEPNLTEWANQVQMSEEEL 82 Query: 48 --------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G+ Sbjct: 83 NRAIQQGKRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGY 142 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY+ WWI+ A+ I + +++ +K L ++K + ++ + Sbjct: 143 KFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK-----LNKIKKTQRELSQQLGRSATP 197 Query: 160 VAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 IAK L++ +++ +SM+ + ++ + D ++ + L + + + Sbjct: 198 AEIAKALDLEPAQIREFLSMS-----RQPISLDVRVGDNQDTELSELLEDEGISPDNYIT 252 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENP-VTLENLSSEFEVSRERVRQIEA 274 ++ R++ ++L L P++R + R LQ+ ++L + +SRERVRQ+E Sbjct: 253 QELMRQDLHDLLAE----LTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQLEH 308 Query: 275 RAFKKV 280 +A ++ Sbjct: 309 QALSQL 314 >gi|242041441|ref|XP_002468115.1| hypothetical protein SORBIDRAFT_01g039810 [Sorghum bicolor] gi|241921969|gb|EER95113.1| hypothetical protein SORBIDRAFT_01g039810 [Sorghum bicolor] Length = 528 Score = 79.7 bits (195), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 69/251 (27%), Positives = 121/251 (48%), Gaps = 26/251 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +R HG + +R+V S++RLV+ IA + G G+ S+++ EG GL++ +KFD +G Sbjct: 278 RRRLNHG-VYCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQEGMQGLIRGAEKFDASKG 336 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 FR +TYS WWIK A+++ +L ++ RL H+ A + +K Sbjct: 337 FRFSTYSHWWIKQAIRKSVLEQTQII----------------RLPAHM-AEASSRVKECC 379 Query: 159 VVAIAKKLNVSESEVISMNCRLAGD--ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + + +E I+++ + E+ +L S +S+ V + Sbjct: 380 RRLRRELKRLPSNEEIAVDTGMTIRRVEAAMSLPKYSVSFTSKVGCTDVTYQEIMPDTSA 439 Query: 217 EKEERKNRRNMLTRSMSV----LNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVR 270 E E R ++ + ++ L+PRE+ + R E P TL ++ VSRER+R Sbjct: 440 ETAEEVLHRWLMKKDVNTALESLSPREKLVMRYRFGIEGGRPRTLHDIGQIMGVSRERIR 499 Query: 271 QIEARAFKKVQ 281 QIE AF+K++ Sbjct: 500 QIELGAFRKLR 510 >gi|57996880|emb|CAI45888.1| negative response regulator [Escherichia coli] Length = 158 Score = 79.7 bits (195), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 33/69 (47%), Positives = 50/69 (72%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 LRSWSLVKI 126 + +++ Sbjct: 61 MNQTRTIRL 69 >gi|309790033|ref|ZP_07684607.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] gi|308227888|gb|EFO81542.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] Length = 358 Score = 79.7 bits (195), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 78/302 (25%), Positives = 131/302 (43%), Gaps = 58/302 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS--------------------------AAHR 52 Y+HEI ++ +L +EE LA + R + A R Sbjct: 65 YLHEIGQVALLSAEEERDLAMQIRAGKEAQMQLDTERFANGAARAQLELTVARGHEARRR 124 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A Y + ++V EGNIGLM+AV+KFD +G R +TY+ WWI+ A Sbjct: 125 LIQANLRLVVSVAKKYINSPMAFMDLVQEGNIGLMRAVEKFDHTKGNRFSTYATWWIRQA 184 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I ++++ ++ +RR L+ + ++ IA + +S + Sbjct: 185 VSRSIAEQSRVIRLPVHLSES--LVQMRRAIYKLEQQFEREPTAQE---IAHSMGLSLRK 239 Query: 173 VISMNCRLAGDESLNALINS----------SDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 V + A SL +N+ +D+N D QE Sbjct: 240 VKRLLQASAQPVSLEQPLNNEQEGRVGEVLADENVETPMDLATQKMFHQE---------- 289 Query: 223 NRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L +++ L RER+I + R TLE + F ++RER RQIEA A +++ Sbjct: 290 -----LYAALNDLPDRERKILQLRYGLFDGQRRTLEEVGMAFGITRERTRQIEAEAMRRL 344 Query: 281 QE 282 ++ Sbjct: 345 RQ 346 >gi|311897949|dbj|BAJ30357.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 323 Score = 79.7 bits (195), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 137/299 (45%), Gaps = 54/299 (18%) Query: 19 YIHEIRKIPMLEKQEEY---------VLAKRYREHGD-------------LSAAHR---- 52 Y+ EI + P+L+ EE V A+ + G+ A R Sbjct: 32 YLDEIARTPLLDAAEEVELSLRIEAGVFAQHLLDEGEGLDGVSTEELRAIAEDAERAKDV 91 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 92 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYSKGFKFSTYATWWIRQA 151 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK-----PEQVVAIAKKLN 167 I RS I + RL +L G ++ + K P+ IA +L+ Sbjct: 152 ----ITRS-----IADQSRTIRLPVHLVEELGRIRKVQREKAKELGREPDP-AEIAAELD 201 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNR 224 +E V + SLN ++ D+ +Q+ D LV D ++ V++ R Sbjct: 202 TTEQRVKDVLDWARDPVSLNMAVD--DEGETQFGD-LVEDTGAVSPEDAVMV-----MLR 253 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + L+ R I +R E+ TL + + ++RER+RQIE A +++ Sbjct: 254 REELDGLIGRLDDRTASIIRSRYGMEDGRERTLTEVGKQHGLTRERIRQIEKHALAELK 312 >gi|148241530|ref|YP_001226687.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147849840|emb|CAK27334.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 280 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 62/222 (27%), Positives = 114/222 (51%), Gaps = 15/222 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLVV +A Y+G GL + ++V EG++GL++AV+KFDP G+R +TY+ WI+ A Sbjct: 60 MIQANLRLVVTVAKTYQGRGLDLMDLVQEGSLGLIRAVEKFDPTLGYRFSTYAWNWIRQA 119 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + +++ Q+ LR L+ + + L + +VA+A + V + + Sbjct: 120 ISRGLETKGRTLRLPIHVTQQ-----LRALRRAHERLWQQGLSTD-LVAVAAEAGV-DLK 172 Query: 173 VISMNCRLA-GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 S+ R+A G SL+ S+ + L+ E +++ ER + + R Sbjct: 173 AASLALRMAPGTLSLDTPAAGSESD-------LLQLLPSAEPSPLDEAERHDGWERMGRQ 225 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + L R++++ + R L L + + SRER RQIE Sbjct: 226 LRHLPERDQQVLQWRYLTPERQKLSVVGEQLGCSRERARQIE 267 >gi|113954561|ref|YP_729335.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113881912|gb|ABI46870.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 335 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 72/306 (23%), Positives = 134/306 (43%), Gaps = 54/306 (17%) Query: 11 NGEIGLSR-YIHEIRKIPMLEKQEEYVLAKRYREHGDL---------------------- 47 E+ L R Y+ +I ++P+L Q+E L ++ +E DL Sbjct: 21 GAEVDLVRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEALEAELKDQRGGEEVAREEVA 80 Query: 48 -----SAAH-------------RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 SAA R+V ++LRLVV +A Y + + +++ EG IGL++ Sbjct: 81 KAAGVSAAQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRG 140 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 V+KFDP RG++ +TY+ WWI+ + I +++ + L +LK + + Sbjct: 141 VEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQREL 195 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 + + V +A + + E EV + CR SL + D + ++ + L D Sbjct: 196 SQELGRTPSVTELASFVELPEEEVKDLMCRARQPVSLE--MKVGDGDDTELLELLAGDG- 252 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRE 267 ++ ++ E + + L +S L + ++ R E P++L + +SR+ Sbjct: 253 ---ELPSDQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGISRD 309 Query: 268 RVRQIE 273 RVR +E Sbjct: 310 RVRNLE 315 >gi|255312689|gb|ACU01754.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 33/69 (47%), Positives = 50/69 (72%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 LRSWSLVKI 126 + +++ Sbjct: 61 MNQTRTIRL 69 >gi|327314688|ref|YP_004330125.1| sigma-70, region 4 [Prevotella denticola F0289] gi|326944846|gb|AEA20731.1| sigma-70, region 4 [Prevotella denticola F0289] Length = 228 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 71/273 (26%), Positives = 116/273 (42%), Gaps = 47/273 (17%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 I +YI EI L EE LA+R + GD A +L ++L+ VV +A YR GL Sbjct: 2 IANEKYIEEIAGGQPLSDVEERTLAERIKV-GDAHALEKLTKANLKYVVSLAHQYRNRGL 60 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++SEGNIG+M A ++FD RG R ++ +I+ AM+E I +L ++ Sbjct: 61 GEDDLISEGNIGMMHAAQRFDGARGVRFVVFAAPYIRKAMEEAIKEQAALYRLP------ 114 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R K + + + +Q V + N + V+ + DE LN I S+ Sbjct: 115 ------RNEKNRSEQKRSHAISIDQPVPVGSSNNFTLQNVLENDNAPHADEQLNQEILSA 168 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENP 252 + + + + VLN RER++ L Sbjct: 169 E---------------------------------IQKGLGVLNERERQVITCLYGLSGIH 195 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T+ + + RERVRQI A +K+ + ++ Sbjct: 196 YTMAEAAEHMGLKRERVRQIRDGALRKLHKRMK 228 >gi|107025596|ref|YP_623107.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia AU 1054] gi|116693222|ref|YP_838755.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia HI2424] gi|105894970|gb|ABF78134.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia AU 1054] gi|116651222|gb|ABK11862.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia HI2424] Length = 628 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 69/240 (28%), Positives = 113/240 (47%), Gaps = 26/240 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L S+LRLVV +A Y GLP S+++ EGNIGLM+AV ++D RGF+ +TY+ WWI+ Sbjct: 394 KLFQSNLRLVVSVAKRYADRGLPFSDLIQEGNIGLMKAVDRYDHRRGFKFSTYATWWIRQ 453 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + +L +G T R+ H T N L + + +V+++ Sbjct: 454 AI------THALADLGRTI----------RVPAH-TVDTLNKLSRLARLHRQRTGDVADA 496 Query: 172 EVISMNCRLAGDE--SLNALIN---SSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNR 224 +S RL D+ L +++ S+D S D + D D E Sbjct: 497 RALSTQMRLPVDKVRELMSIVREPISADLPVSPDHDLTLCDVTIDPDAPTPEEAASAGQL 556 Query: 225 RNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R + + L RE I R +N +L + + +S ERVRQ+E A +++++ Sbjct: 557 RAAVAELIDSLPVREAWILRLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALERIRQ 616 >gi|54401902|gb|AAV34636.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 194 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 33/62 (53%), Positives = 48/62 (77%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ Sbjct: 1 NLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERA 60 Query: 117 IL 118 I+ Sbjct: 61 IM 62 >gi|303237309|ref|ZP_07323879.1| sigma-70, region 4 [Prevotella disiens FB035-09AN] gi|302482696|gb|EFL45721.1| sigma-70, region 4 [Prevotella disiens FB035-09AN] Length = 235 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 68/257 (26%), Positives = 116/257 (45%), Gaps = 48/257 (18%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +YI +I +L +EE LAK+ + GD A +L S+L+ VV IA Y+ GL + Sbjct: 8 KYIKDIANEQLLSDKEEQELAKQIK-IGDAKALEKLTKSNLKFVVSIAHQYKNRGLGEDD 66 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++SEGNIG+M A +KFD +G R ++ +I+ AM+E I K+ +K Sbjct: 67 LISEGNIGMMYAAQKFDGTKGTRFVKFAAPYIRKAMEEAINEQLETFKVQNKDEKKP--- 123 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 R+ H V+I + + + ++ L NA +D+N Sbjct: 124 --RKRTAHR-------------VSIDQPIPAGSNGTFTLQTILE-----NANSQHADENL 163 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTL 255 ++ Q++ R + ++MSVL+ R+R++ E T+ Sbjct: 164 TK-------------QIV---------REEIKKAMSVLDARQRKVISLLYAIKDEEAYTM 201 Query: 256 ENLSSEFEVSRERVRQI 272 + + ++ RERVRQI Sbjct: 202 QETADIMDIKRERVRQI 218 >gi|262197834|ref|YP_003269043.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] gi|262081181|gb|ACY17150.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] Length = 436 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 63/242 (26%), Positives = 118/242 (48%), Gaps = 17/242 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 V ++LRLVV +A Y G+P+++++ EGN+GLM AV +FD RG R +TY+ WWI+ A Sbjct: 206 FVHANLRLVVTMARRYDRGGMPLADLIQEGNLGLMHAVSRFDYRRGLRFSTYACWWIRHA 265 Query: 113 MQEYILRSWSLVKIGT---TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + + V+I A Q+ L +++ L P + +AK V Sbjct: 266 IGRALADKSRAVRIPVHMLEAQQQ-----LAKVQAKLIGELGREPTPSE---LAKAAQVP 317 Query: 170 ESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 +++ M+ L G SL+ + D + + D L D ++ ++ + + + Sbjct: 318 LAKLNQMHRYLMGQPMSLDRPLYDDDDRA--FGDMLA-DPLSEDSSPVDDLTTQTLTSRV 374 Query: 229 TRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + L P E + R + + T + ++++SRER+RQI+ A K++ ++++ Sbjct: 375 ETLLDHLTPIEADVLRQRFGLMDDEERTFREIGDQYDLSRERIRQIQNAALGKLRRALER 434 Query: 287 QV 288 V Sbjct: 435 AV 436 >gi|33241240|ref|NP_876182.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33238770|gb|AAQ00835.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 328 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 113/237 (47%), Gaps = 15/237 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V+++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 93 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 152 Query: 109 IKAAMQEYILRSWSLVK--IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 I+ + I +++ I T +L R L HL+ + + ++ + Sbjct: 153 IRQGITRAIAEKSRIIRLPIHITELLNKLKKGQRELSQHLE-------RTPTMQELSAYV 205 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + EV + R + SL + + D + D L D D +Q IE + K Sbjct: 206 EIPVEEVKDLMFRASQPVSLESKVG--DGEDTSLLDLLAIDTDLPDQQ-IELDCMKGDLE 262 Query: 227 MLTRSMSVLNPRERRI-FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + + L R R+ F E P+TL + +SR+RVR + K +++ Sbjct: 263 VLLQKLPELQNRVLRMRFGIN--GEEPMTLTGIGRMLGISRDRVRNLLRDGLKGLRQ 317 >gi|323452445|gb|EGB08319.1| hypothetical protein AURANDRAFT_5759 [Aureococcus anophagefferens] Length = 239 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 71/262 (27%), Positives = 120/262 (45%), Gaps = 45/262 (17%) Query: 49 AAHRLVTSHLRLVVKIAMGYR----GYGL-PISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 A H LV ++ LVV IA GY+ G G+ + ++V EG +GL++AV+K++PERG R T Sbjct: 1 AKHALVRANGGLVVSIARGYQRLRTGAGVEALDDLVQEGTLGLIRAVEKYEPERGIRFGT 60 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WIKA++ ++ R +++K+ + L R LQ + E+V A Sbjct: 61 YATAWIKASISAWLKRGDAMIKV--PSRVADLGLRAARSSSALQNDLGRDATAEEV---A 115 Query: 164 KKLN------------VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + L + S V+S + GD N + +D +D V D Sbjct: 116 RDLGASTAAVEAAASALHGSRVVSYDASAGGDSESNFVACLAD------EDCAVGDL--- 166 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERV 269 + + N L +VL+ RE R+ R ++ + ++ + +E V Sbjct: 167 ---------KADLTNALA---AVLDDRELRVVRLRYGLDDGTQRSTRECAAALGIGKESV 214 Query: 270 RQIEARAFKKVQESIQKQVELS 291 RQI +AF+K++ + Q LS Sbjct: 215 RQICLKAFRKLRGTAQGSALLS 236 >gi|282896368|ref|ZP_06304389.1| sigD (sigma 28 (flagella/spoulation)) [Raphidiopsis brookii D9] gi|281198656|gb|EFA73536.1| sigD (sigma 28 (flagella/spoulation)) [Raphidiopsis brookii D9] Length = 332 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 58/244 (23%), Positives = 116/244 (47%), Gaps = 33/244 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRL+V +A Y + + +++ EG+IG+ + V+KFDP +G+R +TY+ WW Sbjct: 97 AKRKMVEANLRLLVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPSKGYRFSTYAYWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I +++ +K L ++K + ++ + + +A++L + Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEK-----LNKIKKAQRDLSQTLGRSPSIAELAQELEI 211 Query: 169 SESEV----------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +V +S++ RL GD L + + +D+++ E Sbjct: 212 TPKQVRDCLEKARLPLSLDLRL-GDNYDTELGEMLEDPGASPEDYVIQSSLSSE------ 264 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARA 276 L R M+ L ++R + + R + +TL + +SRERVRQIE A Sbjct: 265 ---------LERMMTHLTTQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIEREA 315 Query: 277 FKKV 280 ++ Sbjct: 316 LTRL 319 >gi|78183723|ref|YP_376157.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78168017|gb|ABB25114.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9902] Length = 332 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 72/296 (24%), Positives = 135/296 (45%), Gaps = 30/296 (10%) Query: 13 EIGLSRYIHEIRKIPMLEKQEE-------------------YVLAKRYREHGDLSAAHRL 53 EI L R + ++ +I LE + E V KR + G A R+ Sbjct: 43 EITLGRQVQQLMEIETLEAELESRDGAKPARDQLAKAAELSTVQLKRKLQQGH-RAKERM 101 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WWI+ + Sbjct: 102 VAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGI 161 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ + L +LK + ++ + V +A+ +++ E EV Sbjct: 162 TRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPTVTELAQFVDLPEDEV 216 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 + CR SL + D + ++ + L D++ + E + + R++L + Sbjct: 217 KDLMCRARQPVSLE--MKVGDGDDTELLELLSGDNELPSDQVEEDCLKGDLRSLLGQLPH 274 Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + R F E+P++L + +SR+RVR +E ++ + QVE Sbjct: 275 LQEQVLRMRFGMD--GEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRR-VSDQVE 327 >gi|116071698|ref|ZP_01468966.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] gi|116065321|gb|EAU71079.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] Length = 332 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 69/280 (24%), Positives = 129/280 (46%), Gaps = 29/280 (10%) Query: 13 EIGLSRYIHEIRKIPMLEKQEE-------------------YVLAKRYREHGDLSAAHRL 53 EI L R + ++ +I LE + E V KR + G A R+ Sbjct: 43 EITLGRQVQQLMEIETLEAELESRDGAKPARDQLAKAAELSTVQLKRKLQQGH-RAKERM 101 Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WWI+ + Sbjct: 102 VAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGI 161 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I +++ + L +LK + ++ + V +A+ +++ E EV Sbjct: 162 TRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQELGRTPTVTELAQFVDLPEDEV 216 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 + CR SL + D + ++ + L D++ + E + + R++L + Sbjct: 217 KDLMCRARQPVSLE--MKVGDGDDTELLELLSGDNELPSDQVEEDCLKGDLRSLLGQLPH 274 Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + R F E+P++L + +SR+RVR +E Sbjct: 275 LQEQVLRMRFGMD--GEDPMSLTGIGRILGMSRDRVRNLE 312 >gi|186682180|ref|YP_001865376.1| SigH/RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186464632|gb|ACC80433.1| RNA polymerase, sigma 70 subunit SigH, RpoD family [Nostoc punctiforme PCC 73102] Length = 321 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 114/236 (48%), Gaps = 31/236 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A H+++T++LRLVV IA Y+ L + +++ EG +GL + V+KF+P G+R +TY+ WW Sbjct: 94 AKHKMITANLRLVVSIAKQYQRRNLELMDLIQEGTLGLERGVEKFNPALGYRFSTYAYWW 153 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ + I + +++ N Q+ L L R+ + +LKP Q+ Sbjct: 154 IRQGITRAIAQQGRAIRLPIHINEKLNKIKRVQRELSQTLGRIPTSTEIANALSLKPSQI 213 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 ++ + + IS++ R++ ++ L + QD L+ D+ I +E Sbjct: 214 ----REFLLLATRTISLDIRVSSEKDL------------RLQD-LIEDYKYSSNSYITEE 256 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 N L +S L+ +++ I ++L+ + +SRERVRQIE Sbjct: 257 SLNQEVNSL---LSNLSRQQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQIE 309 >gi|298250481|ref|ZP_06974285.1| RNA polymerase, sigma 32 subunit, RpoH [Ktedonobacter racemifer DSM 44963] gi|297548485|gb|EFH82352.1| RNA polymerase, sigma 32 subunit, RpoH [Ktedonobacter racemifer DSM 44963] Length = 313 Score = 79.7 bits (195), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 35/74 (47%), Positives = 53/74 (71%), Gaps = 4/74 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +RLV ++LRLV +A YRG+G+ I +++ EGNIGL+ AV+KFDP +G+R +TY+ W Sbjct: 70 AKNRLVEANLRLVRSVAYQYRGFGVDIMDLIQEGNIGLIHAVEKFDPTKGYRFSTYATHW 129 Query: 109 IKAAMQEYILRSWS 122 I+ +YI R + Sbjct: 130 IR----QYICRELA 139 >gi|88809561|ref|ZP_01125068.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] gi|88786311|gb|EAR17471.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] Length = 211 Score = 79.3 bits (194), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 51/155 (32%), Positives = 84/155 (54%), Gaps = 10/155 (6%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P E E+ KR + G+ A ++++T++LRLVV +A Y+G GL + +++ EG +GL Sbjct: 48 PACEYSED---EKRIIKRGE-KAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGL 103 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 +AV+K+DP RG R +TY+ WWI+ + + ++I N+K LR K L Sbjct: 104 TRAVEKYDPTRGHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEK--LTKLRASKARL 161 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVIS-MNCRL 180 + N L P ++ +N+ SEV + C L Sbjct: 162 --MQRNGLSPS-TEQLSDDMNLPISEVEDLLGCEL 193 >gi|58699437|ref|ZP_00374184.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] gi|58534044|gb|EAL58296.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] Length = 57 Score = 79.3 bits (194), Expect = 6e-13, Method: Composition-based stats. Identities = 32/57 (56%), Positives = 48/57 (84%) Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 M AVKKF+P+ GFR +TY++WWI+A+++++IL+SWS VKIG+T Q+ L F+LR +K Sbjct: 1 MHAVKKFNPDLGFRFSTYAVWWIEASIKDFILKSWSFVKIGSTQAQRILCFSLREIK 57 >gi|255312633|gb|ACU01726.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 49/142 (34%), Positives = 78/142 (54%), Gaps = 12/142 (8%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 LRSWSLVKIGT-TANQKRLFFNLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVS 169 + +++ + ++ R H + IT+ KP V+ +LN Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEITEQLDKPVDDVSRMLRLN-- 118 Query: 170 ESEVISMNCRLAGDESLNALIN 191 + S++ L GD S AL++ Sbjct: 119 -ERITSVDTPLGGD-SEKALLD 138 >gi|55274965|gb|AAV49282.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 193 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|299115565|emb|CBN75768.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ectocarpus siliculosus] Length = 244 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 31/66 (46%), Positives = 54/66 (81%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +V +++R+V+ IA Y+ G+P+++++ EG++GL++AV+KFDPERGF+L+TYS W Sbjct: 81 AAKKTMVEANMRMVISIARKYQHLGVPLTDLIQEGSLGLVRAVEKFDPERGFKLSTYSAW 140 Query: 108 WIKAAM 113 WI+ A+ Sbjct: 141 WIQQAI 146 >gi|57996884|emb|CAI45890.1| negative response regulator [Escherichia coli] Length = 191 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|255312665|gb|ACU01742.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312669|gb|ACU01744.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|55274883|gb|AAV49244.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274899|gb|AAV49251.1| RNA polymerase subunit sigma-38 [Escherichia albertii] Length = 193 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|291060369|gb|ADD73104.1| RNA polymerase sigma-43 factor [Treponema pallidum subsp. pallidum str. Chicago] Length = 296 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 34/98 (34%), Positives = 65/98 (66%), Gaps = 1/98 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y++++++IP++ ++E GD A + LV +++R V+ +A YR GLP+ Sbjct: 13 LTAYLNDLKRIPLM-NEKEEYACACAAYAGDAQAKNALVRANVRFVISVARHYRTCGLPL 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 ++++SEGNIGL+ A ++F+P RG R +Y+ WI+ ++ Sbjct: 72 ADLISEGNIGLLTAAERFNPARGCRFISYAACWIRQSI 109 >gi|307564926|ref|ZP_07627446.1| sigma-70, region 4 [Prevotella amnii CRIS 21A-A] gi|307346366|gb|EFN91683.1| sigma-70, region 4 [Prevotella amnii CRIS 21A-A] Length = 228 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 65/264 (24%), Positives = 120/264 (45%), Gaps = 47/264 (17%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +YI +I +L +EE L+ R + GD A +L ++L VV IA Y+ GL + Sbjct: 6 KYIGDIIGENLLSDEEEVQLSNRIK-IGDAKALEKLTKANLTFVVSIAHQYKEQGLDEDD 64 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++SEGNIG+M A +KFD +G R ++ +I+ A+++ I +L K+ N+ F Sbjct: 65 LISEGNIGMMYAAQKFDGSKGIRFVKFAAPYIRKAIEKSIKEQTTLYKVPKKENK---LF 121 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 +R K + +Q + + ++ +I N D+S+N+ I ++ Sbjct: 122 EKKRAKP---------VSLDQPIPVGSNNKLTLQNLIPNNNNKDTDDSVNSNILNT---- 168 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQENPVTLE 256 +L +S++ LN RE+ + + + +T+ Sbjct: 169 -----------------------------ILMQSINCLNEREKAVITQLYGINGTSLTMA 199 Query: 257 NLSSEFEVSRERVRQIEARAFKKV 280 +++ + RERVRQI A +K+ Sbjct: 200 EVATSLGLKRERVRQIRNTALRKL 223 >gi|255312671|gb|ACU01745.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 79.3 bits (194), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|57996874|emb|CAI45885.1| negative response regulator [Escherichia coli] gi|57996882|emb|CAI45889.1| negative response regulator [Escherichia coli] Length = 191 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|117165089|emb|CAJ88642.1| putative RNA polymerase principal sigma factor HrdC [Streptomyces ambofaciens ATCC 23877] Length = 338 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 68/232 (29%), Positives = 118/232 (50%), Gaps = 20/232 (8%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +V ++LRLVV +A + GLP+ +V+ EGN+GL++AV+KFD +GF+ +TY+ W Sbjct: 100 AAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHTKGFKFSTYATW 159 Query: 108 WIKAAMQEYILRSWSLVK--IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WI+ A++ + V+ + ++L R+L+G L D ++V A + Sbjct: 160 WIRQAIERGLATHARTVRLPVHVVEQLQKLAKVERKLRGRL----DREPTADEVAA---E 212 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERKN 223 + +V+ + R G +++ S D + + +V D +VL E E + Sbjct: 213 SGIDGDKVVWL--RRVGRDAV-----SLDTPVDEAGETVVGDLIPDTEVLQAPEVAEFQA 265 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIE 273 L ++ L PRE I R L + P TL ++ ++RERVRQ+E Sbjct: 266 LAAELREAVGTLAPREAMILSLRYGLHDGRPRTLHQVAQHVGLTRERVRQLE 317 >gi|332297914|ref|YP_004439836.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332181017|gb|AEE16705.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 269 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 79/267 (29%), Positives = 132/267 (49%), Gaps = 19/267 (7%) Query: 17 SRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS 76 + Y+ +I++ P+L ++E L+ +GD SA +LV S+LRLVV IA Y + + Sbjct: 7 ASYMAQIQRYPLLTPEQEKKLSADIH-NGDTSAKLKLVQSNLRLVVSIANKYVSDRIGVM 65 Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGN+GL+ A KF R +TY+ WI +YILR + KI R Sbjct: 66 DLIQEGNLGLLTAASKFHYSFNTRFSTYAYSWIT----QYILR-FIQNKIPYITLPHRKE 120 Query: 137 FNLRRLKGHLQAIT-DNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 LR++ H+ I L+ E + IA ++VSES++ S++A I+ + Sbjct: 121 EMLRKI--HMAKIDLMQQLQSEPTLREIASYMDVSESDISGALMHEYVYSSIDAEIDGTS 178 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--- 251 + D + EQ+ ++ E ++ R+++ L RER++ R +N Sbjct: 179 NLTC--ADMIADPSPSPEQLCLKNLEAEDIRSLV----ETLPDRERQVIYYRFNFDNSRK 232 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFK 278 P TL +S +S E VRQ+E RA + Sbjct: 233 PWTLRQISEMLGISAETVRQMELRALQ 259 >gi|55274892|gb|AAV49248.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 190 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|55274885|gb|AAV49245.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|255312609|gb|ACU01714.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312611|gb|ACU01715.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312613|gb|ACU01716.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312615|gb|ACU01717.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312617|gb|ACU01718.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312619|gb|ACU01719.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312621|gb|ACU01720.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312623|gb|ACU01721.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312625|gb|ACU01722.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312627|gb|ACU01723.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312629|gb|ACU01724.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312631|gb|ACU01725.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312635|gb|ACU01727.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312637|gb|ACU01728.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312649|gb|ACU01734.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312651|gb|ACU01735.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312655|gb|ACU01737.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312657|gb|ACU01738.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312667|gb|ACU01743.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312673|gb|ACU01746.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312675|gb|ACU01747.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312677|gb|ACU01748.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312679|gb|ACU01749.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312681|gb|ACU01750.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312683|gb|ACU01751.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312685|gb|ACU01752.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312687|gb|ACU01753.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312691|gb|ACU01755.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312693|gb|ACU01756.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312695|gb|ACU01757.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312699|gb|ACU01759.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312701|gb|ACU01760.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312703|gb|ACU01761.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312705|gb|ACU01762.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|254249954|ref|ZP_04943274.1| DNA-directed RNA polymerase, sigma subunit [Burkholderia cenocepacia PC184] gi|124876455|gb|EAY66445.1| DNA-directed RNA polymerase, sigma subunit [Burkholderia cenocepacia PC184] Length = 662 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 115/243 (47%), Gaps = 32/243 (13%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L S+LRLVV +A Y GLP S+++ EGNIGLM+AV ++D RGF+ +TY+ WWI+ Sbjct: 428 KLFQSNLRLVVSVAKRYADRGLPFSDLIQEGNIGLMKAVDRYDHRRGFKFSTYATWWIRQ 487 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + +L +G T R+ H T N L + + +V+++ Sbjct: 488 AI------THALADLGRTI----------RVPAH-TVDTLNKLSRLARLHRQRTGDVADA 530 Query: 172 EVISMNCRLAGDE--SLNALIN---SSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNR 224 +S RL D+ L +++ S+D S D + D D E Sbjct: 531 RALSTQMRLPVDKVRELMSIVREPISADLPVSPDHDLTLCDVTIDPDAPTPEEAASAGQL 590 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R + + L RE I RL+ +N +L + + +S ERVRQ+E A ++ Sbjct: 591 RAAVAELIDSLPVREAWIL---RLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALER 647 Query: 280 VQE 282 +++ Sbjct: 648 IRQ 650 >gi|110004382|emb|CAK98720.1| probable rna polymerase sigma-a factor protein [Spiroplasma citri] Length = 445 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 34/75 (45%), Positives = 51/75 (68%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L+TS+L+LVV +A + GL S+++ EGNIGLM+AV KFD +RGF+ +TY+ WWI+ Sbjct: 150 KLITSNLKLVVSVARKHLNRGLDFSDLIEEGNIGLMKAVDKFDYKRGFKFSTYATWWIRQ 209 Query: 112 AMQEYILRSWSLVKI 126 A I ++I Sbjct: 210 ATTRAIADQARTIRI 224 Score = 39.3 bits (90), Expect = 0.77, Method: Compositional matrix adjust. Identities = 16/32 (50%), Positives = 25/32 (78%) Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++P TLE + EF+V+RER+RQIEA+ +K + Sbjct: 397 DSPKTLEEVGKEFKVTRERIRQIEAKTIRKFK 428 >gi|209524631|ref|ZP_03273179.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209495089|gb|EDZ95396.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 331 Score = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 116/248 (46%), Gaps = 31/248 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ WW Sbjct: 96 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 155 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ Q++L L R + + +L P+Q+ Sbjct: 156 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNELAAELDLTPKQI 215 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +K + +S++ R+ D ++ D L + EQ + Sbjct: 216 REYLEKSRLP----LSLDLRVG------------DNQDTELVDLLEDTSNSPEQFALNSS 259 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R + +++T L ++R++ R ++ +TL + +SRERVRQIE A Sbjct: 260 LRSDLESLMTD----LTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREAL 315 Query: 278 KKVQESIQ 285 K+++ Q Sbjct: 316 TKLRKRKQ 323 >gi|55274887|gb|AAV49246.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 199 Score = 79.0 bits (193), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|55274901|gb|AAV49252.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 198 Score = 79.0 bits (193), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 47/61 (77%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|213425678|ref|ZP_03358428.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] Length = 304 Score = 79.0 bits (193), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 72/277 (25%), Positives = 122/277 (44%), Gaps = 51/277 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRL+ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLI----------------- 102 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT-TANQKRLFF 137 +AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ + ++ Sbjct: 103 ---------RAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYL 153 Query: 138 NLRRLKGH-------LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 R H + I + KP V+ +LN + S++ L GD L Sbjct: 154 RTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLN---ERITSVDTPLGGDSEKALLD 210 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D+ + +D D Q V E +R +L R +L +EA Sbjct: 211 ILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG------YEA----- 259 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 260 --ATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 294 >gi|291565943|dbj|BAI88215.1| group 2 RNA polymerase sigma factor SigD [Arthrospira platensis NIES-39] Length = 331 Score = 79.0 bits (193), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 116/248 (46%), Gaps = 31/248 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ WW Sbjct: 96 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 155 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ Q++L L R + + +L P+Q+ Sbjct: 156 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNELAAELDLTPKQI 215 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +K + +S++ R+ D ++ D L + EQ + Sbjct: 216 REYLEKSRLP----LSLDLRVG------------DNQDTELVDLLEDTTNSPEQFALNSS 259 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R + +++T L ++R++ R ++ +TL + +SRERVRQIE A Sbjct: 260 LRSDLESLMTD----LTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREAL 315 Query: 278 KKVQESIQ 285 K+++ Q Sbjct: 316 TKLRKRKQ 323 >gi|227504896|ref|ZP_03934945.1| RNA polymerase sigma factor SigB [Corynebacterium striatum ATCC 6940] gi|227198489|gb|EEI78537.1| RNA polymerase sigma factor SigB [Corynebacterium striatum ATCC 6940] Length = 337 Score = 79.0 bits (193), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 73/288 (25%), Positives = 133/288 (46%), Gaps = 45/288 (15%) Query: 13 EIGL-SRY-IHEIRKIPMLEKQEEYVL---AKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 E+GL + Y + KI EK++ +L K+ R H L+ ++LRLVV +A Sbjct: 67 EVGLYAEYKLANAEKITRAEKRDLKILVREGKKARSH--------LLEANLRLVVSLAKR 118 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y G G+P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ Sbjct: 119 YTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLP 178 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----------ISMN 177 ++ L R+K + E+ +A++ + ES++ +S++ Sbjct: 179 VHLVEQ--VNKLSRIKREMYQSLGREATNEE---LAEESGIEESKIEMLLRQSRDPVSLD 233 Query: 178 CRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + DE L I ++ ++ H V+ EER+ L + Sbjct: 234 MPVGTDEEAPLGDFIEDAEATDAETAVVAAMRHSDIRGVIETLEEREQDVIRLRYGLDDG 293 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 PR TL+ + +F +SRERVRQIE K+++ Sbjct: 294 VPR---------------TLDQIGRKFGLSRERVRQIEREVMAKLRDG 326 >gi|119513754|ref|ZP_01632741.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414] gi|119461595|gb|EAW42645.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414] Length = 327 Score = 79.0 bits (193), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 58/231 (25%), Positives = 112/231 (48%), Gaps = 13/231 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG++ +TY+ WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K L ++K + + + IA +L + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEK-----LNKIKKVQRELAQKFGRSPTPTEIAHELEL 206 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ++ SL+ + D ++ Q+ L + E ++ R++ N+L Sbjct: 207 EPMQIREYLNMARQPVSLD--VKVGDNQDTELQEMLEDEGPSPEYYTTQEFLRQDLNNLL 264 Query: 229 TRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAF 277 L P++R++ R E N ++L + +SRERVRQ+E +A Sbjct: 265 AE----LTPQQRQVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQAL 311 >gi|284051429|ref|ZP_06381639.1| RNA polymerase sigma factor SigD [Arthrospira platensis str. Paraca] Length = 319 Score = 79.0 bits (193), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 116/248 (46%), Gaps = 31/248 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +TY+ WW Sbjct: 84 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 143 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ Q++L L R + + +L P+Q+ Sbjct: 144 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNELAAELDLTPKQI 203 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +K + +S++ R+ D ++ D L + EQ + Sbjct: 204 REYLEKSRLP----LSLDLRVG------------DNQDTELVDLLEDTTNSPEQFALNSS 247 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R + +++T L ++R++ R ++ +TL + +SRERVRQIE A Sbjct: 248 LRSDLESLMTD----LTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREAL 303 Query: 278 KKVQESIQ 285 K+++ Q Sbjct: 304 TKLRKRKQ 311 >gi|15639996|ref|NP_219449.1| RNA polymerase sigma-43 factor (sigA) [Treponema pallidum subsp. pallidum str. Nichols] gi|189026235|ref|YP_001934007.1| RNA polymerase sigma-43 factor [Treponema pallidum subsp. pallidum SS14] gi|3323340|gb|AAC65963.1| RNA polymerase sigma-43 factor (sigA) [Treponema pallidum subsp. pallidum str. Nichols] gi|189018810|gb|ACD71428.1| RNA polymerase sigma-43 factor [Treponema pallidum subsp. pallidum SS14] Length = 311 Score = 79.0 bits (193), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 34/98 (34%), Positives = 65/98 (66%), Gaps = 1/98 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y++++++IP++ ++E GD A + LV +++R V+ +A YR GLP+ Sbjct: 28 LTAYLNDLKRIPLM-NEKEEYACACAAYAGDAQAKNALVRANVRFVISVARHYRTCGLPL 86 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 ++++SEGNIGL+ A ++F+P RG R +Y+ WI+ ++ Sbjct: 87 ADLISEGNIGLLTAAERFNPARGCRFISYAACWIRQSI 124 >gi|281357254|ref|ZP_06243743.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] gi|281316285|gb|EFB00310.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] Length = 428 Score = 79.0 bits (193), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 62/231 (26%), Positives = 117/231 (50%), Gaps = 21/231 (9%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +++ ++LRLV+ IA YR GLP ++++ EGN+GL++A++KFD G + +TY+ WWIK Sbjct: 189 KMIEANLRLVISIAQKYRNRGLPFNDLIQEGNLGLLRALEKFDFRLGNKFSTYASWWIKH 248 Query: 112 AMQEYILRSWSLVKIGT---TANQKRLFFNLRRLKGHLQAITDNNLKPE--QVVAIAKKL 166 + I +++I A + R ++ H +PE ++ A+ + Sbjct: 249 NISRSIAEQSRVIRIPAHMVHAINSMTWAEQRFIQSH-------GREPEIDELAAVLEMP 301 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 S + M+C+ SL A ++SS+ + + +D + D + RK + Sbjct: 302 VARISAIRKMSCQTI---SLQAPVSSSE-DGAMLEDLIADDSTANP---VRDFARKILYD 354 Query: 227 MLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEAR 275 L + L R+++I R + + L ++S F ++RER+RQ+EA+ Sbjct: 355 KLYEMLRTLPERDQQIIILRFGLFGQPCLPLVDISRRFNLTRERIRQLEAK 405 >gi|219883041|ref|YP_002478205.1| RNA polymerase, sigma 32 subunit, RpoH [Arthrobacter chlorophenolicus A6] gi|219862047|gb|ACL42388.1| RNA polymerase, sigma 32 subunit, RpoH [Arthrobacter chlorophenolicus A6] Length = 951 Score = 79.0 bits (193), Expect = 9e-13, Method: Composition-based stats. Identities = 74/251 (29%), Positives = 118/251 (47%), Gaps = 50/251 (19%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV+ +LRLVV IA + G G+ +++ EGN GL +AV+KFD +GF+ +TY+ WW Sbjct: 528 AVLKLVSCNLRLVVSIAKRHTGRGMDFLDLIQEGNAGLYRAVQKFDYTKGFKFSTYATWW 587 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI---AKK 165 I+ A+ I A+Q R RL H EQVV++ + Sbjct: 588 IRQAITRGI------------ADQSRTI----RLPVHFH---------EQVVSVFIAERN 622 Query: 166 LNVSE-----SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 SE +E I+ C DE +NA+ +S DW V + G ++L E Sbjct: 623 FLQSEGRDGTAEEIAEACGKTVDE-INAVRRHRTPPAS--LDWEVPNGKGGVELLGETLY 679 Query: 221 RKNR------------RNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSR 266 + ++ + ++ L+ RE + R +TL+ + + + V+R Sbjct: 680 DPDEPTAYDAAVLAQLQSAVHGALDRLSEREAGVLAYRFGLATGEQLTLDQIGTIYGVTR 739 Query: 267 ERVRQIEARAF 277 ER+RQIEA+AF Sbjct: 740 ERIRQIEAKAF 750 >gi|2706544|emb|CAA75859.1| Sig1 [Sinapis alba] Length = 481 Score = 79.0 bits (193), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 72/254 (28%), Positives = 126/254 (49%), Gaps = 34/254 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 238 AREKLAMSNVRLVMSIAQRYDNMGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 297 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 298 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 351 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSD-----KNSSQWQDWLVYDHDGQEQVL 215 S+ +E +S L D SLN L + N + W YD L Sbjct: 352 SQKKVRNATEAVSKIFSLDRDAFPSLNGLPGETHHSYIADNRLENNPWHGYD------AL 405 Query: 216 IEKEERKNRRNMLTRSMSV-LNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIE 273 K+E +++ +SV L RER I L + +T E++S +SRERVRQ+ Sbjct: 406 ALKDE-------VSKLISVTLGEREREIIRLYYGLDKECLTWEDISQRIGLSRERVRQVG 458 Query: 274 ARAFKKVQESIQKQ 287 A +K++ + +K+ Sbjct: 459 LVALEKLKHAARKR 472 >gi|229815207|ref|ZP_04445543.1| hypothetical protein COLINT_02253 [Collinsella intestinalis DSM 13280] gi|229809217|gb|EEP44983.1| hypothetical protein COLINT_02253 [Collinsella intestinalis DSM 13280] Length = 261 Score = 78.6 bits (192), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 68/269 (25%), Positives = 130/269 (48%), Gaps = 35/269 (13%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +K++ L +R++E GD+ A +LV SHL LV IA ++ G PI +++ G +GL++A Sbjct: 12 DKEKTRELFRRFKEEGDMDAREKLVMSHLNLVRFIANKFKNRGEPIDDLIQVGYLGLLKA 71 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 + +FDP RG T++ I ++ + + WS+ R+ L+ L + Sbjct: 72 IDRFDPSRGLEFTTFATPTIMGEIKRHFRDKGWSV----------RVPRRLQELSAKVNQ 121 Query: 149 ITD---NNLKPEQVVA-IAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQD 202 TD + L+ +A IA L+ + EV+ + SL A + D ++ D Sbjct: 122 ATDTLTSQLQRSPTIAEIADYLDATVDEVLEAMESSSAYSSVSLEAPSGADDDDTPSVID 181 Query: 203 -WLVYDHD---GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 + D D ++++IE+ +++ +PRER + E R L+ +T + Sbjct: 182 RYATEDSDLAFTDDRIIIEE------------ALASFSPRERDVIEMRFLK--GMTQIEI 227 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + + +S+ +V ++ R KK+Q+ I + Sbjct: 228 AEKLGISQVQVSRLLRRTLKKIQDKIDPE 256 >gi|325860122|ref|ZP_08173248.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] gi|325482407|gb|EGC85414.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] Length = 228 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 71/273 (26%), Positives = 115/273 (42%), Gaps = 47/273 (17%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 I +YI EI L EE LA+R + GD A +L ++L+ VV +A YR GL Sbjct: 2 IANEKYIEEIAGGQPLSDVEERTLAERIKV-GDAHALEKLTKANLKYVVSLAHQYRNRGL 60 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++SEGNIG+M A ++FD RG R ++ +I+ AM+E I L ++ Sbjct: 61 GEDDLISEGNIGMMHAAQRFDGTRGVRFVVFAAPYIRKAMEEAIKEQAVLYRLP------ 114 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R K + + + +Q V + N + V+ + DE LN I S+ Sbjct: 115 ------RNEKNRSEQKRSHAISIDQPVPVGSSNNFTLQNVLENDNAPHADEQLNQEILSA 168 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENP 252 + + + + VLN RER++ L Sbjct: 169 E---------------------------------IQKGLGVLNERERQVITCLYGLSGIH 195 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T+ + + RERVRQI A +K+ + ++ Sbjct: 196 YTMAEAAEHMGLKRERVRQIRDGALRKLHKRMK 228 >gi|206564209|ref|YP_002234972.1| putative RNA polymerase sigma-subunit [Burkholderia cenocepacia J2315] gi|198040249|emb|CAR56232.1| putative RNA polymerase sigma-subunit [Burkholderia cenocepacia J2315] Length = 628 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 116/242 (47%), Gaps = 30/242 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L S+LRLVV +A Y GLP ++++ EGNIGLM+AV ++D RGF+ +TY+ WWI+ Sbjct: 394 KLFQSNLRLVVSVAKRYADRGLPFADLIQEGNIGLMKAVDRYDHRRGFKFSTYATWWIRQ 453 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL--NVS 169 A+ + +L +G T R+ H D+ K ++ I ++ +V+ Sbjct: 454 AI------THALADLGRTI----------RVPAH---TVDSLNKLSRLARIHRQRTGDVA 494 Query: 170 ESEVISMNCRLAGDE--SLNALIN---SSDKNSSQWQDWLVYDH--DGQEQVLIEKEERK 222 ++ +S RL D+ L +++ S+D S D + D D E Sbjct: 495 DARALSPQMRLPVDKVRELMSIVREPISADLPVSPDHDLTLCDVTIDADAPTPEEAASAG 554 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R + + L RE I R +N +L + + +S ERVRQ+E A +++ Sbjct: 555 QLRAAVAELIDSLPVREAWILRLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALERI 614 Query: 281 QE 282 ++ Sbjct: 615 RQ 616 >gi|87303408|ref|ZP_01086196.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87282056|gb|EAQ74018.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 330 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 57/235 (24%), Positives = 113/235 (48%), Gaps = 13/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 95 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 154 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + + +A + + Sbjct: 155 IRQGITRAIAEKSRTIRLPIHITE-----TLNKLKKGQRELSQELGRTPTLSELAVCVEL 209 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + CR SL + D ++ D L D + + + R + R +L Sbjct: 210 PEEEVKDLLCRARQPVSLETKVG--DGEDTELLDLLQGDGTLPAESVDSECLRGDMRALL 267 Query: 229 TRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L +R + R + P++L +++ +SR++ R +E RA + ++ Sbjct: 268 EQ----LPELQRSVLSMRYGIDGDEPMSLTSIARTLGMSRDKTRNLERRALEGIR 318 >gi|299141532|ref|ZP_07034668.1| RNA polymerase sigma-70 factor [Prevotella oris C735] gi|298576868|gb|EFI48738.1| RNA polymerase sigma-70 factor [Prevotella oris C735] Length = 252 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 74/268 (27%), Positives = 126/268 (47%), Gaps = 50/268 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L+ Y++EI K +L EE L+++ G + A +L +++LR VV IA Y G+ Sbjct: 18 LNIYLNEIGKETILSDDEEKQLSQQIMAGGAAAERAIGKLTSANLRFVVSIAKQYVDRGV 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 I +++SEGNIGLM+A + FD RG R Y+ +++ A++ + N++ Sbjct: 78 AILDLISEGNIGLMKAARSFDGSRGLRFVGYAEPFVRKAVEAAV-------------NEQ 124 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 F L P+ + +K N S S++ L +++N L S Sbjct: 125 SGIFRL----------------PKHEHSAEEKAN---SRAFSVDAPLQNGKNVNLLSILS 165 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 D +++ D + E + KEE L +M++L+ RER + EA P Sbjct: 166 DPTAARP------DQEALETSV--KEE-------LLEAMNILDNRERNVVEAFYGIGQPH 210 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKV 280 +T + + + RERVRQI +A +K+ Sbjct: 211 LTFAEIGEKMGLKRERVRQIRNKAVRKL 238 >gi|281425346|ref|ZP_06256259.1| RNA polymerase sigma-43 factor [Prevotella oris F0302] gi|281400509|gb|EFB31340.1| RNA polymerase sigma-43 factor [Prevotella oris F0302] Length = 252 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 74/268 (27%), Positives = 126/268 (47%), Gaps = 50/268 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGL 73 L+ Y++EI K +L EE L+++ G + A +L +++LR VV IA Y G+ Sbjct: 18 LNIYLNEIGKETILSDDEEKQLSQQIMAGGAAAEQAIGKLTSANLRFVVSIAKQYVDRGV 77 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 I +++SEGNIGLM+A + FD RG R Y+ +++ A++ + N++ Sbjct: 78 AILDLISEGNIGLMKAARSFDGSRGLRFVGYAEPFVRKAVEAAV-------------NEQ 124 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 F L P+ + +K N S S++ L +++N L S Sbjct: 125 SGIFRL----------------PKHEHSAEEKAN---SRAFSVDAPLQNGKNVNLLSILS 165 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 D +++ D + E + KEE L +M++L+ RER + EA P Sbjct: 166 DPTAARP------DQEALETSV--KEE-------LLEAMNILDNRERNVVEAFYGIGQPH 210 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKV 280 +T + + + RERVRQI +A +K+ Sbjct: 211 LTFAEIGEKMGLKRERVRQIRNKAVRKL 238 >gi|167579340|ref|ZP_02372214.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis TXDOH] Length = 482 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 64/242 (26%), Positives = 126/242 (52%), Gaps = 24/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEYRRGFKFSTYATW 300 Query: 108 WIKAAMQEYIL-RSWSL---VKIGTTANQKRLFFN-LRRLKGHLQAITDNNLKPEQVVAI 162 WI+ A+ I R+ ++ V +G A + R + + R G ++ + ++ Sbjct: 301 WIRQAISRAIADRARTIRVPVHVGDEARRVRKVADRIERRSGARASLAE--------LSE 352 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A L+ + M R SLNA + D + +++ D + D L + + Sbjct: 353 ATGLSAERLRAVLMLPREP--RSLNAPLG--DDDQAEFGDIV---EDASTPSLFDALAQG 405 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKK 279 +++T + ++ +E I RR + P + E ++++ VSRE++R+IE RA + Sbjct: 406 QMCDVVTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAAQAGVSREQIRRIEKRALQT 464 Query: 280 VQ 281 ++ Sbjct: 465 LR 466 >gi|83720670|ref|YP_440648.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] gi|167617444|ref|ZP_02386075.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis Bt4] gi|83654495|gb|ABC38558.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] Length = 483 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 64/242 (26%), Positives = 126/242 (52%), Gaps = 24/242 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 242 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEYRRGFKFSTYATW 301 Query: 108 WIKAAMQEYIL-RSWSL---VKIGTTANQKRLFFN-LRRLKGHLQAITDNNLKPEQVVAI 162 WI+ A+ I R+ ++ V +G A + R + + R G ++ + ++ Sbjct: 302 WIRQAISRAIADRARTIRVPVHVGDEARRVRKVADRIERRSGARASLAE--------LSE 353 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A L+ + M R SLNA + D + +++ D + D L + + Sbjct: 354 ATGLSAERLRAVLMLPREP--RSLNAPLG--DDDQAEFGDIV---EDASTPSLFDALAQG 406 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKK 279 +++T + ++ +E I RR + P + E ++++ VSRE++R+IE RA + Sbjct: 407 QMCDVVTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAAQAGVSREQIRRIEKRALQT 465 Query: 280 VQ 281 ++ Sbjct: 466 LR 467 >gi|12045103|ref|NP_072914.1| RNA polymerase sigma factor [Mycoplasma genitalium G37] gi|255660251|ref|ZP_05405660.1| RNA polymerase sigma factor [Mycoplasma genitalium G37] gi|1350862|sp|P47491|RPOD_MYCGE RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|1045940|gb|AAC71469.1| RNA polymerase sigma factor RpoD [Mycoplasma genitalium G37] gi|166078711|gb|ABY79329.1| RNA polymerase sigma factor RpoD [synthetic Mycoplasma genitalium JCVI-1.0] Length = 497 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 78/246 (31%), Positives = 126/246 (51%), Gaps = 19/246 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LVTS+LRLVV IA + GL ++++ EGN+GL++A+ KF+ G + +TY+ WW Sbjct: 246 AINQLVTSNLRLVVSIAKKHLERGLDFNDLIQEGNLGLLKAISKFNWSLGNKFSTYATWW 305 Query: 109 IKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIA 163 IK A+ I V+I T N RL R L L + TD L E++ A Sbjct: 306 IKQAITRAIADQARTVRIPVHMVETIN--RLAKAERALYQELGREPTDEEL-AEKMGGQA 362 Query: 164 KKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 + NV + I+ RL+ D SL+ + ++ SQ+ D+ V D D Q E R Sbjct: 363 EGFNVKK---IAEIKRLSLDPVSLDKTVGHDEE--SQFGDF-VKDTDAQTPDEF-TESRS 415 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 N + + L+ +E I R P TL+ + + + RE++RQIE +A +K Sbjct: 416 NSEKIDELLNNNLSEQEELIVRMRIGMPPYNEPKTLDEVGQKILIPREKIRQIENKAIRK 475 Query: 280 VQESIQ 285 ++ +++ Sbjct: 476 LRHAVR 481 >gi|161899381|ref|XP_001712917.1| sigma 2 transcription factor [Bigelowiella natans] gi|75756411|gb|ABA27305.1| sigma 2 transcription factor [Bigelowiella natans] Length = 389 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 60/238 (25%), Positives = 118/238 (49%), Gaps = 24/238 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ L+L++ IA Y G GL ++++EG +GLM+ ++K+D +G + +TY+ WWI+ + Sbjct: 154 LIKRSLKLIISIAKRYNGCGLSFEDLIAEGILGLMKGIRKYDFSKGHKFSTYAHWWIRQS 213 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI-------AKK 165 + I ++++ K + + ++K E++ + +K Sbjct: 214 ISRSIDDQSRIIRLPVYV--KEILSKINKIKNKFYEDKKRYPTEEEISLLIGIPLKKLRK 271 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 L +S +++IS++ + D + + ++N S ++S E IEK +++ Sbjct: 272 LLLSCNDLISLDSLIENDSNDSNMLNDSIEDSKVI---------NSEVYAIEKSLKQD-- 320 Query: 226 NMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +++ L+ RE + R + N TLE + V+RER RQIE +A KK+Q Sbjct: 321 --LNKALLTLSDRESAVIRLRYGLDDGNERTLEEIGEYLNVTRERARQIEIKALKKLQ 376 >gi|209883307|ref|YP_002287164.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] gi|209871503|gb|ACI91299.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] Length = 387 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 118/245 (48%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A R V S+L V K+A R L ++ EG +GL++A + FDPE GFR TY+ W Sbjct: 146 AKARFVESNLLYVRKLANRKRNLKHLTADDLFQEGLMGLLKATELFDPELGFRFKTYATW 205 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQ---------KRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ M + +++ ++ +L F L R + T+ L+ E+ Sbjct: 206 WIQQYMSRALDDGDRTIRLPVHRHEYFRKIKRKTAKLTFELGREPTLNELATELGLERER 265 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + + +L+V +E + + + D ++ L +D++ S + D +Q+ Sbjct: 266 LAKLLWRLHV--TECVEADAPIGEDTTV--LSYKADESPS------ILDLVALQQL---- 311 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARA 276 R M+ R ++ L PRE RI R + TLE + + F V+RER+RQIEA+A Sbjct: 312 ------RTMVARVLATLVPREERIIRMRFGLDGSGEQTLEAIGNVFGVTRERIRQIEAKA 365 Query: 277 FKKVQ 281 +K++ Sbjct: 366 LRKLK 370 >gi|297837779|ref|XP_002886771.1| RNA polymerase sigma subunit 1 [Arabidopsis lyrata subsp. lyrata] gi|297332612|gb|EFH63030.1| RNA polymerase sigma subunit 1 [Arabidopsis lyrata subsp. lyrata] Length = 503 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 72/254 (28%), Positives = 125/254 (49%), Gaps = 34/254 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 260 AREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 319 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 320 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 373 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSD-----KNSSQWQDWLVYDHDGQEQVL 215 S+ +E +S L D SLN L + N + W YD L Sbjct: 374 SQKKVRNATEAVSKIFSLDRDAFPSLNGLPGETHHSYIADNRVENNPWHGYDD------L 427 Query: 216 IEKEERKNRRNMLTRSMS-VLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQIE 273 KEE +++ +S L RER I L + +T E++S +SRERVRQ+ Sbjct: 428 ALKEE-------VSKLISATLGEREREIIRLYYGLDKECLTWEDISKRIGLSRERVRQVG 480 Query: 274 ARAFKKVQESIQKQ 287 A +K++ + +K+ Sbjct: 481 LVALEKLKHAARKR 494 >gi|50365086|ref|YP_053511.1| RNA polymerase sigma factor [Mesoplasma florum L1] gi|50363642|gb|AAT75627.1| RNA polymerase sigma factor [Mesoplasma florum L1] Length = 471 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 41/119 (34%), Positives = 67/119 (56%), Gaps = 13/119 (10%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAK--------RYREHGDLSAAHRLVTSHLRLVVKIAMG 67 + Y I + +L K +E V AK +E D+ L+TS+L+LV+ +A Sbjct: 137 IKTYFSTIGQTKILTKDQEIVYAKLANSEDPEERKEGRDM-----LITSNLKLVISVARK 191 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + GL ++++ EGNIGL++AV KFD E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 192 HLNRGLDFADLIEEGNIGLIKAVDKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRI 250 >gi|213162104|ref|ZP_03347814.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] Length = 225 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 109/235 (46%), Gaps = 28/235 (11%) Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I Sbjct: 2 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 61 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVIS 175 ++I + L R+ + PE++ I K L +++ E IS Sbjct: 62 IRI--PVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAK-EPIS 118 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 M + DE S D++ D ++ ++ ++ R ++ L Sbjct: 119 METPIGDDE------------DSHLGDFI---EDTTLELPLDSATTESLRAATHDVLAGL 163 Query: 236 NPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE ++ R + TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 164 TAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 218 >gi|172040574|ref|YP_001800288.1| RNA polymerase sigma factor SigB [Corynebacterium urealyticum DSM 7109] gi|171851878|emb|CAQ04854.1| RNA polymerase sigma factor B [Corynebacterium urealyticum DSM 7109] Length = 340 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 62/248 (25%), Positives = 116/248 (46%), Gaps = 32/248 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD ++GF+ +TY+ W Sbjct: 102 AARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYKKGFKFSTYATW 161 Query: 108 WIKAAMQEYILRSWSLVK--------IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 WI+ A+ + ++ + + KR + + + + + + PE Sbjct: 162 WIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATYEELAEESGIPEDR 221 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 + + K + +S++ + DE L I S+ ++ H VL Sbjct: 222 IEMLMK---QSRDPVSLDMPVGTDEEAPLGDFIEDSEAEDAEAAVVASLRHSDIRSVL-- 276 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEAR 275 + L RE+ + R ++ P TL+ + +F +SRERVRQIE Sbjct: 277 ---------------ATLEQREQDVITLRYGLDDGLPRTLDQIGRQFGLSRERVRQIERE 321 Query: 276 AFKKVQES 283 K++E Sbjct: 322 VMAKLREG 329 >gi|254432550|ref|ZP_05046253.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] gi|197627003|gb|EDY39562.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] Length = 319 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 59/229 (25%), Positives = 106/229 (46%), Gaps = 12/229 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 79 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 138 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A + + Sbjct: 139 IRQGITRAIAEKSRTIRLPIHITE-----TLNKLKKGQRELSQELGRTPTVTELAGYVEL 193 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + CR SL + D ++ D L D + E+ ++ E K L Sbjct: 194 PEEEVKDLLCRARQPVSLETKVG--DGEDTELLDLLAGDGELPEE-RVDGECLKGDLRAL 250 Query: 229 TRSMSVLNPRERRIFEARRLQE----NPVTLENLSSEFEVSRERVRQIE 273 + L R ++ Q P++L + +SR+RVR +E Sbjct: 251 LEQLPELQGRVLKMRYGIDPQSAEMAEPMSLTGIGRILGISRDRVRNLE 299 >gi|4972297|dbj|BAA78111.1| RNA polymerase sigma subunit SigD* [Arabidopsis thaliana] gi|16649075|gb|AAL24389.1| sigma-like factor [Arabidopsis thaliana] gi|21387209|gb|AAM48008.1| sigma-like factor [Arabidopsis thaliana] Length = 267 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 34/78 (43%), Positives = 53/78 (67%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ + RLVV IA GY+G GL + +++ EG+IGL++ ++FDP+RG++L+TY WW Sbjct: 179 AREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWW 238 Query: 109 IKAAMQEYILRSWSLVKI 126 IK A+ I LVK+ Sbjct: 239 IKQAILRAIAHKSRLVKL 256 >gi|255312697|gb|ACU01758.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + ++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLNLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|57996876|emb|CAI45886.1| negative response regulator [Escherichia coli] Length = 191 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + ++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLNLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|22298374|ref|NP_681621.1| RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] gi|22294553|dbj|BAC08383.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 309 Score = 78.2 bits (191), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 64/247 (25%), Positives = 122/247 (49%), Gaps = 13/247 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV +A Y+ L + ++V EG +GL + V+KFDP RG++ +TY+ WW Sbjct: 74 AKQKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERGVEKFDPTRGYKFSTYAYWW 133 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K ++R + L + P +V AK L + Sbjct: 134 IRQAITRAIAQQARTIRLPIHITEK--LNKIKRTQRELAQKLGRSATPAEV---AKALEL 188 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E E I LA + ++ + D ++ + L D EQ ++ R+ + Sbjct: 189 -EPEQIREYLTLA-RQPVSLDLRVGDNQDTELGELLEDDSLSPEQFTTV----ESLRDDV 242 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L P++R++ R ++L + + +SRERVRQ+E +A ++ Q+ Sbjct: 243 NLWLAELTPQQRQVLTLRYGLGDGQELSLAKVGEQLNLSRERVRQLERQALDHLRRRRQQ 302 Query: 287 QVELSSS 293 E +S Sbjct: 303 MYEYLAS 309 >gi|17231302|ref|NP_487850.1| RNA polymerase sigma factor SigD [Nostoc sp. PCC 7120] gi|8489797|gb|AAF75755.1|AF262216_2 group 2 sigma 70-type sigma factor D [Nostoc sp. PCC 7120] gi|17132944|dbj|BAB75509.1| group 2 sigma 70-type sigma factor D [Nostoc sp. PCC 7120] Length = 332 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 115/246 (46%), Gaps = 31/246 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG+IG+ + V+KFDP +G+R +TY+ WW Sbjct: 97 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ Q++L L R + + L P+QV Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGELANELELTPKQV 216 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +K + +S++ RL GD L + + +D+++ Sbjct: 217 REYLEKARLP----LSLDLRL-GDNYDTELGEMLEDPGASPEDFVM-------------- 257 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + N L M L P+++ + R + +TL + +SRERVRQIE A Sbjct: 258 -QSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREAL 316 Query: 278 KKVQES 283 K+++S Sbjct: 317 TKLRKS 322 >gi|55274894|gb|AAV49249.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 195 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + ++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLALIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|55274897|gb|AAV49250.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 198 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + ++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLALIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|75908113|ref|YP_322409.1| RNA polymerase sigma factor SigD [Anabaena variabilis ATCC 29413] gi|75701838|gb|ABA21514.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 332 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 115/246 (46%), Gaps = 31/246 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++V ++LRLVV +A Y + + +++ EG+IG+ + V+KFDP +G+R +TY+ WW Sbjct: 97 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I +++ Q++L L R + + L P+QV Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGELANELELTPKQV 216 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +K + +S++ RL GD L + + +D+++ Sbjct: 217 REYLEKARLP----LSLDLRL-GDNYDTELGEMLEDPGASPEDFVM-------------- 257 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + N L M L P+++ + R + +TL + +SRERVRQIE A Sbjct: 258 -QSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREAL 316 Query: 278 KKVQES 283 K+++S Sbjct: 317 TKLRKS 322 >gi|57996878|emb|CAI45887.1| negative response regulator [Escherichia coli] Length = 191 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 33/61 (54%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL +AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLNRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|85860024|ref|YP_462226.1| RNA polymerase sigma factor [Syntrophus aciditrophicus SB] gi|85723115|gb|ABC78058.1| RNA polymerase sigma factor [Syntrophus aciditrophicus SB] Length = 580 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 37/87 (42%), Positives = 55/87 (63%), Gaps = 3/87 (3%) Query: 43 EHGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 EHG+ A +LV ++LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG+ Sbjct: 337 EHGEKKAEEAKRKLVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGY 396 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 + +TY+ WWI+ A+ I ++I Sbjct: 397 KFSTYATWWIRQAITRAIADQARTIRI 423 >gi|298248273|ref|ZP_06972078.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297550932|gb|EFH84798.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 1341 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 74/298 (24%), Positives = 140/298 (46%), Gaps = 49/298 (16%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYR----------EHGDLS------------AAHR 52 L +Y EI + P+L ++E LA + + + G+ S A + Sbjct: 1048 SLRQYFREITQFPLLNAEQEKKLAHQIKFGQQAKEELEKRGEASSYIHVRIQQGKIAREK 1107 Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLV+ +A Y G + +++ EGN+GL++A +KFD ++G+R +TY+ WWI+ A Sbjct: 1108 LIEHNLRLVISVAKKYARVGRQLEDLIQEGNLGLIRACEKFDTDKGYRFSTYATWWIRQA 1167 Query: 113 MQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAK--KLN 167 + + +++ +K +L R L+ L + T L Q + I K + Sbjct: 1168 ITRSLAEQSRTIRLPVYLVEKLHQLHRGQRDLELQLGREPTLEELAKHQNLDIDKVQEYL 1227 Query: 168 VSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 V +++S++ + ++ +L +I D QE + + Sbjct: 1228 VLRQQILSLDAPIGAEQETTLGEMIEQPRS-------------DPQENI-----NNYADK 1269 Query: 226 NMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 +++ M L R+RR+ R L++ + LE + S V+RERVRQIE +A ++++ Sbjct: 1270 EAVSQLMQNLTERQRRVISLRFGLEDGKIHKLEEIGSMLNVTRERVRQIEEKALRQLK 1327 >gi|282858710|ref|ZP_06267864.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] gi|282588514|gb|EFB93665.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] Length = 228 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 72/269 (26%), Positives = 117/269 (43%), Gaps = 47/269 (17%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 +YI I +L +EE LA R + GD A +L ++L VV IA Y+ GL ++ Sbjct: 6 KYIENIIGETILTNEEERQLADRIKV-GDAKALEKLTKANLTFVVSIAHQYKEQGLDEND 64 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 ++SEGNIG+M A +KFD +G R ++ +I+ AM++ I +L K+ N+K F Sbjct: 65 LISEGNIGMMYAAQKFDGTKGVRFVNFAASYIRKAMEDAIKEQTALYKV--PKNEKNR-F 121 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 +R K + +Q V + N + VI +N N+ Sbjct: 122 EQKRAKA---------ISLDQPVPVGSNNNFTLQNVI---------------VNGDTANT 157 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF-EARRLQENPVTLE 256 D D +L L +SM LN RE + + L T+ Sbjct: 158 ---------DDDVTTNML---------NTALKQSMKFLNERETAVITQLYGLDGVHFTMA 199 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ + RER+RQI A +K+ +++ Sbjct: 200 EVAETLGLKRERIRQIRNTALRKLHRNLK 228 >gi|325523156|gb|EGD01548.1| RpoD family RNA polymerase sigma factor [Burkholderia sp. TJI49] Length = 206 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 32/66 (48%), Positives = 49/66 (74%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV S+LRLVV IA Y GLP+ +++ EGNIGL++AV+++D RGF+ +TY+ WWI+ Sbjct: 107 KLVKSNLRLVVSIAKRYPDRGLPLPDLIQEGNIGLLKAVERYDHRRGFKFSTYATWWIRQ 166 Query: 112 AMQEYI 117 A+ + Sbjct: 167 AITHAL 172 >gi|87303841|ref|ZP_01086550.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87281651|gb|EAQ73647.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 215 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 31/69 (44%), Positives = 51/69 (73%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R++ ++LRLVV +A Y+G GL + +++ EG++GL +AV+KFDP RG++ +TY+ WW Sbjct: 31 AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 90 Query: 109 IKAAMQEYI 117 I+ +M I Sbjct: 91 IRQSMTRAI 99 >gi|240047243|ref|YP_002960631.1| RNA polymerase sigma factor [Mycoplasma conjunctivae HRC/581] gi|239984815|emb|CAT04802.1| RNA polymerase sigma factor [Mycoplasma conjunctivae] Length = 533 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 72/275 (26%), Positives = 137/275 (49%), Gaps = 39/275 (14%) Query: 28 MLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LA++ G + A L+ +LRLV+ A Y+ GL +++SEGN+G Sbjct: 265 LLTYEEEQELARKMEIPGRVGRKARDTLIKRNLRLVINNAKRYKNRGLNFIDLISEGNLG 324 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +M+A+ K+D +GF+ +TY+ WWI+ ++ + L++I T N+ ++ L+ Sbjct: 325 IMKAISKYDRTKGFKFSTYATWWIRQSITRAVADQARLIRIPVHMVETINKINKIERELQ 384 Query: 141 RLKG------HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + G + + + PE+V I +K+N+ + IS++ + D S + I Sbjct: 385 QKNGVTPSAEEIADVMGADFTPEKVRYI-RKINI---DPISLDKAIGKEEDSSFSDFI-- 438 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIE------KEERKNRRNMLTRSMSVLNPRERRIFEAR 246 K+ S + + + +VLIE +EE + + R + N + R + A Sbjct: 439 --KDESVISPSDYAEQEEKSKVLIEMIKNNLEEE---EQEFIMRRYGIGNDKNGRQYRAH 493 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E L+++ V++ER+RQIE++ KK++ Sbjct: 494 SYDE-------LAADRGVTKERIRQIESKILKKLR 521 >gi|55274909|gb|AAV49256.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 193 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 33/63 (52%), Positives = 48/63 (76%) Query: 56 SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQE 115 S+LRLVVKIA Y GL + +++ EGN+ L++AV+KFDPERGFR +TY+ WWI+ ++ Sbjct: 2 SNLRLVVKIARRYGNRGLALLDLIEEGNLVLIRAVEKFDPERGFRFSTYATWWIRQTIER 61 Query: 116 YIL 118 I+ Sbjct: 62 AIM 64 >gi|40353299|gb|AAR84413.1| alternative primary sigma 70 factor [Frankia sp. ORS020607] Length = 220 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/161 (30%), Positives = 84/161 (52%), Gaps = 15/161 (9%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +LV+++LRLVV +A Y G G+ + ++V EGN+GL++AV+KFD +G++ +TY+ W Sbjct: 22 AAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATW 81 Query: 108 WIKAAMQEYILRSWSLVKIGT---------TANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 WI+ A+ + ++I T Q++L L R + + ++ EQ Sbjct: 82 WIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQ 141 Query: 159 VVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNS 197 VV +L + +S+ + GD L I SD S Sbjct: 142 VV----ELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATS 178 >gi|304373196|ref|YP_003856405.1| RNA polymerase sigma factor [Mycoplasma hyorhinis HUB-1] gi|304309387|gb|ADM21867.1| RNA polymerase sigma factor [Mycoplasma hyorhinis HUB-1] Length = 524 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 68/271 (25%), Positives = 130/271 (47%), Gaps = 31/271 (11%) Query: 28 MLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G A H L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 256 LLTPEEENNLAKQIKNGGRAGKRARHTLINRNLRLVINNAKRYKNRGLTFIDLISEGNQG 315 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRR 141 +++AV K+D +G++ +TY+ WWI+ A+ + +++I T N+ + + Sbjct: 316 ILKAVDKYDYTKGYKFSTYATWWIRQAITRAVADQARIIRIPVHMVETINK------INK 369 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 ++ LQ EQ+ V + + R +++ + S DK + + Sbjct: 370 IERELQQEYGVTPTDEQIAE------VMGGDFTAEKVRYTKKINIDPI--SLDKAIGKEE 421 Query: 202 DWLVYDHDGQEQVL--IEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPV---- 253 D D E V+ I+ ER+ + +L + + + ++F +R +P Sbjct: 422 DSSFSDFIKDESVISPIDYSEREEKTKILKQMIENNLDNDEKVFIMKRYGFGTDPNGEQY 481 Query: 254 ---TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L+ E V++ER+RQIE++ KK++ Sbjct: 482 RIHSFDELAKERGVTKERIRQIESKILKKLR 512 >gi|269114989|ref|YP_003302752.1| RNA polymerase sigma factor rpoD [Mycoplasma hominis] gi|268322614|emb|CAX37349.1| RNA polymerase sigma factor rpoD [Mycoplasma hominis ATCC 23114] Length = 538 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 74/276 (26%), Positives = 129/276 (46%), Gaps = 36/276 (13%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR-------LVTSHLRLVVKIAMGYRGYGLPISEVVS 80 +L EE LAK+ +E + + ++ LV +LRLV+ A Y+ GL +++S Sbjct: 257 LLTTNEEQALAKKMQEAKEANNYYKYKKARDMLVKRNLRLVINNAKRYKNRGLNFIDLIS 316 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLF 136 EGN G+M+AV K+D +GF+ +TY+ WWI+ A+ + V++ T N+ Sbjct: 317 EGNAGIMKAVSKYDYTKGFKFSTYATWWIRQAITRAVADQARTVRVPVHMVETINK---- 372 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + +++ LQ N P IAKK + + R +++ + S DKN Sbjct: 373 --ILKIERELQQ---ENGYPPTDEEIAKKYG---GDFTAEKVRYIRKINIDPI--SLDKN 422 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRR------NMLTRSMSVLNPRE--RRIFEARRL 248 + ++ D E V+ + M+ +S R+ R+ F L Sbjct: 423 IGKEENSSFSDFVKDESVISPTSYASHEELSVIINEMIEEGLSDQADRDLIRKRFGINDL 482 Query: 249 QEN---PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + N P TL+ LS E +S+E+VRQ+E + +K++ Sbjct: 483 KGNKYKPHTLDELSKELGISKEKVRQLETKVLRKLK 518 >gi|257067128|ref|YP_003153384.1| RNA polymerase, sigma 32 subunit, RpoH [Anaerococcus prevotii DSM 20548] gi|256799008|gb|ACV29663.1| RNA polymerase, sigma 32 subunit, RpoH [Anaerococcus prevotii DSM 20548] Length = 343 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 64/246 (26%), Positives = 123/246 (50%), Gaps = 19/246 (7%) Query: 45 GDLSAAHRLVTSHLRLV-VKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGFRL 101 G+ +A LV + LV + + +R +G L + ++V G +G+++A +KFD G++ Sbjct: 103 GNQNALAALVEKNQGLVRSRASYFFRSHGNDLDLEDLVQSGMLGMIRAAEKFDLSLGYKF 162 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 TY+ WI A+++ I + ++I + L +LK L+A + E++ Sbjct: 163 TTYAYKWIDKAIRKAINKEGHTIRIPAGK-----YLKLNKLKQILKA--NPEASDEELYR 215 Query: 162 IAKKLNVSE---SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I +K + + ++ +N SLN ++S D + D + + + +++E Sbjct: 216 ILEKEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMVGDESTPVDMLILE- 274 Query: 219 EERKNRRNMLTRSMSVLNPRERR--IFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 K+ N L +++ L RE++ IF E P TLE + +++SRER+RQIE +A Sbjct: 275 ---KDMENFLLKALDQLTDREKQIIIFRYGLDNEKPKTLEEIGKIYDLSRERIRQIENQA 331 Query: 277 FKKVQE 282 K++E Sbjct: 332 LGKLKE 337 >gi|81300555|ref|YP_400763.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus PCC 7942] gi|123556657|sp|Q31ME3|RPOD2_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD2 gi|81169436|gb|ABB57776.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus PCC 7942] Length = 320 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 120/235 (51%), Gaps = 21/235 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP +G++ +TY+ WW Sbjct: 85 AKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFDPSKGYKFSTYAYWW 144 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K L +LK + ++ + +A+ L + Sbjct: 145 IRQAITRAIAQQSRTIRLPIHITEK-----LNKLKKTQRELSQQLGRSATASELAEVLEL 199 Query: 169 SESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNR 224 +V I MN + ++ + D ++ Q+ L+ D +E+E R++ Sbjct: 200 PLEQVREYIQMN-----RQPVSLDVKVGDSQDTELQE-LLEDEQSSPSDYVEQESLRRDL 253 Query: 225 RNMLTRSMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEARAF 277 RN+ M+ L P+++ + R L E + ++L + +SRERVR++E +A Sbjct: 254 RNL----MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAM 304 >gi|257886121|ref|ZP_05665774.1| RNA polymerase sigma-70 factor [Enterococcus faecium 1,231,501] gi|257821977|gb|EEV49107.1| RNA polymerase sigma-70 factor [Enterococcus faecium 1,231,501] Length = 383 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 68/256 (26%), Positives = 128/256 (50%), Gaps = 20/256 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGY---GLPISEVVSEGNIGLMQAVKKFDPER 97 Y+ D S+ LV ++ RLV+KIA Y Y L I ++ G IGL++A KFD + Sbjct: 121 YQRERDNSSLDALVKANRRLVLKIAQRYNKYLTSSLDIDDLEQFGMIGLLKAADKFDLSK 180 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + +TY+ +WI+ ++ I+ + V++ +K L RL+ + N Sbjct: 181 EYAFSTYATYWIRQSISRGIMDTSLTVRLPVHIFEK--INKLNRLEARMMT----NSSTT 234 Query: 158 QVVAIAKKLNVSES---EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + +I K++++SE +++++ SL+ I + D L ++ E+V Sbjct: 235 DISSILKEMDISEEQYYDLLAIRSTYLSLPSLDTPIGID--GDATIGDMLPDNNYDIEEV 292 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQI 272 + + R + +SM+ L +ER + R E TLE + + F V+RER+RQI Sbjct: 293 I----DLGFLREDIKKSMTYLKEKEREVLYLRFGFDGEGRKTLEEIGNIFGVTRERIRQI 348 Query: 273 EARAFKKVQESIQKQV 288 EA+A +K+++ + +++ Sbjct: 349 EAKAIRKMKKKVNREL 364 >gi|297811483|ref|XP_002873625.1| hypothetical protein ARALYDRAFT_909325 [Arabidopsis lyrata subsp. lyrata] gi|297319462|gb|EFH49884.1| hypothetical protein ARALYDRAFT_909325 [Arabidopsis lyrata subsp. lyrata] Length = 273 Score = 77.4 bits (189), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 115/230 (50%), Gaps = 40/230 (17%) Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y+G GL + +++ EG+IGL++ ++FDP+RG++L+TY WWIK A ILR+ Sbjct: 52 YQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWWIKQA----ILRA------- 100 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-----------IAKKLNVSESEVISM 176 A++ RL +L G + +T + V+ IA+ LN+ S V Sbjct: 101 -IAHKSRLV----KLPGSMWELTAKVAEASNVLTRKLRRQPSCEEIAEHLNLHVSAV--- 152 Query: 177 NCRLAGDESLNALINSSDKNSSQ-----WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 RLA + S + + S D+ SQ Q+ + + + + ++++E K+ L S Sbjct: 153 --RLAVERSRSPV--SLDRVVSQNGRMTLQEIVRGPDETRPEEMVKREHMKHEIEQLLGS 208 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ R ++ E P++ E + ++SRERVRQI A KK++ Sbjct: 209 LTARESRVLGLYFGLN-GETPMSFEEIGKSLKLSRERVRQINGIALKKLR 257 >gi|254388870|ref|ZP_05004102.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|294813166|ref|ZP_06771809.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|326441537|ref|ZP_08216271.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|197702589|gb|EDY48401.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|294325765|gb|EFG07408.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] Length = 333 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 72/299 (24%), Positives = 132/299 (44%), Gaps = 60/299 (20%) Query: 19 YIHEIRKIPMLEKQEEY---------VLAKRYREHGDLS----AAHR------------- 52 Y+ EI + P+L+ +E V A++ + G S A H+ Sbjct: 39 YLDEIARTPLLDAAKEVELSQIIEAGVYARQILDQGVESDAGGATHKELEALVAEGERAK 98 Query: 53 --LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + S+LRLVV +A Y GLP+ ++V EGN GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 99 DVFIRSNLRLVVAVARRYPRSGLPLLDLVQEGNAGLVRAVEKFDYSKGFKFSTYATWWIR 158 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 A+ I +++ L L R++ + + + IA++L + Sbjct: 159 QAITRSIADQSRTIRLPV-----HLVEELGRIRRVQREFNREKGREPEAAEIAQELGSTP 213 Query: 171 SEV----------ISMNCRL--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 V +S+N + AG+ L+ + S + + +G + ++ + Sbjct: 214 ERVTDVLDWARDPVSLNMAVDDAGETQFGDLLEDTSAVSPEQSVLTLLRSEGLDDLIGKL 273 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 ++R +++ +++ RER TL + E ++RER+RQIE A Sbjct: 274 DQRTA--SIIRMRYGIMDGRER-------------TLTEVGKEHGLTRERIRQIEKHAL 317 >gi|2385506|dbj|BAA22190.1| RpoD2 protein [Synechococcus elongatus PCC 7942] Length = 320 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 120/235 (51%), Gaps = 21/235 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP +G++ +TY+ WW Sbjct: 85 AKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFDPSKGYKFSTYAYWW 144 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K L +LK + ++ + +A+ L + Sbjct: 145 IRQAITRAIAQQSRTIRLPIHITEK-----LNKLKKTQRELSQQLGRSATASELAEVLEL 199 Query: 169 SESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNR 224 +V I MN + ++ + D ++ Q+ L+ D +E+E R++ Sbjct: 200 PLEQVREYIQMN-----RQPVSLDVKVGDSQDTELQE-LLEDEQSSPSDYVEQESLRRDL 253 Query: 225 RNMLTRSMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEARAF 277 RN+ M+ L P+++ + R L E + ++L + +SRERVR++E +A Sbjct: 254 RNL----MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAM 304 >gi|307824191|ref|ZP_07654417.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] gi|307734571|gb|EFO05422.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] Length = 391 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/247 (25%), Positives = 124/247 (50%), Gaps = 12/247 (4%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +++ ++RL +A ++ L +++ EG +GL++AV +FDP RG++ +TY++ WIK Sbjct: 150 QQMIAGNVRLAAFVAHKHKTTVLSFDDLLQEGVVGLIKAVDRFDPYRGYQFSTYAIPWIK 209 Query: 111 AAMQEYILRSWSLVKIGTT-ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 A+ I++ +V++ A + F R +LQ T+ EQ+ ++ ++S Sbjct: 210 QAISRLIVKQEKIVRLPVALAERACAVFEAMR-NAYLQ--TERWPSIEQLKSLC---DLS 263 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E E+ ++ SL+A+ D + Q + Q + +++ +N L Sbjct: 264 EDEIKTIRNYYQATHSLDAV---GDAEEDEGQALMARMKQRQFALPLDELIDRNLGRYLD 320 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + ++ L +E I R +N +TL+ ++ + +VSRERVRQI+ A KK++ Sbjct: 321 QVVATLPDKEAAILNMRFGLKNHTEMTLQAIADQLQVSRERVRQIQNDALKKLKNQFGYD 380 Query: 288 VELSSSP 294 + L P Sbjct: 381 LMLFLEP 387 >gi|300781025|ref|ZP_07090879.1| RNA polymerase principal sigma factor SigB [Corynebacterium genitalium ATCC 33030] gi|300532732|gb|EFK53793.1| RNA polymerase principal sigma factor SigB [Corynebacterium genitalium ATCC 33030] Length = 330 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 66/260 (25%), Positives = 127/260 (48%), Gaps = 41/260 (15%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 +LAK+ R+ + AH L+ ++LRLVV +A Y G G+P+ +++ EGN+GL++A++KFD Sbjct: 85 ILAKQGRK----ARAH-LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDY 139 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +GF+ +TY+ WWI+ A+ + +++ ++ L R++ + Sbjct: 140 SKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQ--VNKLSRIRREMYQSLGREPS 197 Query: 156 PEQVVAIAKKLNVSESEV----------ISMNCRLAGDES--LNALINSSDKNSSQWQDW 203 E+ +A++ + ES++ +S++ + DE L I ++ ++ Sbjct: 198 NEE---LAEESGIDESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDAEAADAEDAVV 254 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSE 261 V HD ++ + L RE+ + R ++ P TL+ + + Sbjct: 255 SVLRHDDIHDII-----------------NGLEQREQDVIRLRYGLDDGVPRTLDQIGRK 297 Query: 262 FEVSRERVRQIEARAFKKVQ 281 F +SRERVRQIE K++ Sbjct: 298 FGLSRERVRQIEREVMSKLR 317 >gi|254282580|ref|ZP_04957548.1| RNA polymerase principal sigma factor SigA [gamma proteobacterium NOR51-B] gi|219678783|gb|EED35132.1| RNA polymerase principal sigma factor SigA [gamma proteobacterium NOR51-B] Length = 429 Score = 77.4 bits (189), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 116/232 (50%), Gaps = 14/232 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +LRLV IA Y+G G+ ++V EG +GL++A +KF+ E+G+R +TY WI + Sbjct: 192 LVMHNLRLVYSIAARYKGRGVNYLDLVQEGTLGLIRAAEKFEFEKGYRFSTYCFNWITQS 251 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y+ SL++ T ++ L R K A T ++P++ +AK L + + Sbjct: 252 VRRYVGDVGSLIRFPTHVQEQ--MGRLYREKALETART--GIEPDEET-LAKNLGMDLDK 306 Query: 173 VIS-MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + R G SL+A D + D + D G + + E+ + LT + Sbjct: 307 TRELLQLRNLG-VSLDA--PRFDDDEGTMVDSMTGDTFGDTE---DTAEQDSLNRFLTNA 360 Query: 232 MSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L P ER + AR L P++ ++ + VSRE VRQ+E KK++ Sbjct: 361 IDTLEPAERDVVTARWGLHSGPPLSRAEIADKLGVSREWVRQLERSGLKKLR 412 >gi|256546106|ref|ZP_05473459.1| RNA polymerase sigma factor RpoD (sigma-A) [Anaerococcus vaginalis ATCC 51170] gi|256398223|gb|EEU11847.1| RNA polymerase sigma factor RpoD (sigma-A) [Anaerococcus vaginalis ATCC 51170] Length = 333 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/249 (25%), Positives = 127/249 (51%), Gaps = 21/249 (8%) Query: 43 EHGDLSAAHRLVTSHLRLV-VKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGF 99 + G+ +A LV + LV + + YR +G L + ++V G +G+++A +KFD G+ Sbjct: 92 QEGNQNALGALVDKNQGLVRSRASYFYRSHGNDLELEDLVQSGMLGMIRAAEKFDLTLGY 151 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + TY+ WI A+++ I + ++I + L +LK L+A + E++ Sbjct: 152 KFTTYAYKWIDKAIRKAINKEGHTIRIPAGK-----YLKLNKLKQILKA--NPEASEEEL 204 Query: 160 VAIAKKLNVSE---SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 I K+ + + ++ +N SLN ++S D + D + G + + + Sbjct: 205 YKILKQEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMV-----GDDSIPV 259 Query: 217 EKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 + + +K+ + L +++ L+ RE++I R +N P TLE + + + +SRER+RQIE Sbjct: 260 DDQILKKDMEDFLMKALDQLSDREKQIIIYRYGLDNEKPKTLEEIGTIYNLSRERIRQIE 319 Query: 274 ARAFKKVQE 282 +A K+++ Sbjct: 320 NQALGKLKQ 328 >gi|147865632|emb|CAN83254.1| hypothetical protein VITISV_036980 [Vitis vinifera] Length = 611 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 123/247 (49%), Gaps = 42/247 (17%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S LV+ IA YRG G+ +++ GN+G++Q ++FD +G+R +TY +WI+ + Sbjct: 377 LLRSTHSLVLYIARNYRGMGVAFEDILQAGNLGVLQGAERFDHTKGYRFSTYVQYWIRKS 436 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ----AITDNNLKPEQVVAIAKKLNV 168 M + R VKI F L R G +Q A+ ++ + IAK + Sbjct: 437 MSTLVARHARGVKIP---------FTLNRAIGQIQKARKALYKSHGRYPDDNEIAKFTGL 487 Query: 169 SESEVISM-NC-RLAGDESLNALINSSDKNSSQWQD-W----LVYDHD----GQEQVLIE 217 S +++ S NC R+ G S+D++ +QD W L + D E+ ++ Sbjct: 488 SLAKIRSAGNCLRVVG---------STDQS---FQDCWGATILEFTPDTSIKSPEEGFMQ 535 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + +RK+ N+L L+PRER+I R ++ +LE + F VS+E +R++E Sbjct: 536 QCKRKDIHNLL----KGLDPRERQILVLRYGFGEQQRKSLEEIGRRFNVSKEWIRKLEKT 591 Query: 276 AFKKVQE 282 A +++ Sbjct: 592 ALANLRD 598 >gi|282900289|ref|ZP_06308240.1| sigE (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] gi|281194794|gb|EFA69740.1| sigE (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] Length = 327 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 114/241 (47%), Gaps = 33/241 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP G++ +TY+ WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTMGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I + +++ Q+ L L R + + L+P Q Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSPTEIAKELELEPAQ- 210 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEK 218 I + LN++ + IS++ R+ D ++ Q+ L DH E ++ Sbjct: 211 --IREYLNIA-RQPISLDVRVG------------DNQDTELQEML-EDHGLSPEHYTTQE 254 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARA 276 R + N+L L P++R + R E N ++L + +SRERVRQ+E +A Sbjct: 255 FLRHDLNNLLAE----LTPQQREVVILRFGLEDGNEMSLAKVGDRLNISRERVRQLEHQA 310 Query: 277 F 277 Sbjct: 311 L 311 >gi|225429414|ref|XP_002275831.1| PREDICTED: hypothetical protein [Vitis vinifera] gi|296081598|emb|CBI20603.3| unnamed protein product [Vitis vinifera] Length = 561 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 123/247 (49%), Gaps = 42/247 (17%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S LV+ IA YRG G+ +++ GN+G++Q ++FD +G+R +TY +WI+ + Sbjct: 327 LLRSTHSLVLYIARNYRGMGVAFEDILQAGNLGVLQGAERFDHTKGYRFSTYVQYWIRKS 386 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ----AITDNNLKPEQVVAIAKKLNV 168 M + R VKI F L R G +Q A+ ++ + IAK + Sbjct: 387 MSTLVARHARGVKIP---------FTLNRAIGQIQKARKALYKSHGRYPDDNEIAKFTGL 437 Query: 169 SESEVISMNCRLAGDESLNAL--INSSDKNSSQWQD-W----LVYDHD----GQEQVLIE 217 S +++ R AG N L + S+D++ +QD W L + D E+ ++ Sbjct: 438 SLAKI-----RSAG----NCLRVVGSTDQS---FQDCWGATILEFTPDTSIKSPEEGFMQ 485 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEAR 275 + +RK+ N+L L+PRER+I R ++ +LE + F VS+E +R++E Sbjct: 486 QCKRKDIHNLLKG----LDPRERQILVLRYGFGEQQRKSLEEIGRRFNVSKEWIRKLEKT 541 Query: 276 AFKKVQE 282 A +++ Sbjct: 542 ALANLRD 548 >gi|148909485|gb|ABR17840.1| unknown [Picea sitchensis] Length = 495 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/245 (24%), Positives = 123/245 (50%), Gaps = 26/245 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +++ +LRLV+ +A Y+ GL + +++ G++GLM++ +KFD RGF+ +TY+ WWI+ Sbjct: 260 KIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQ 319 Query: 112 AMQEYILRSWSLVK--IGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ + + ++ + + R+ R L + H + T + +++ + +V Sbjct: 320 SITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHV 379 Query: 169 SE-SEVISMNCRLAG---DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + S V + R G DE + ++ ++ S+ + ++ KE K Sbjct: 380 TRCSRVPTSLDRCVGKDMDEKFSEIVADTNSEST--------------ETIVSKELFKKD 425 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L R + L RE+++ R ++ +L + F +SRERVRQIE +A +K+++ Sbjct: 426 ---LDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQ 482 Query: 283 SIQKQ 287 + + Q Sbjct: 483 NHRTQ 487 >gi|261880927|ref|ZP_06007354.1| RNA polymerase sigma factor rpoD [Prevotella bergensis DSM 17361] gi|270332314|gb|EFA43100.1| RNA polymerase sigma factor rpoD [Prevotella bergensis DSM 17361] Length = 243 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 69/266 (25%), Positives = 123/266 (46%), Gaps = 48/266 (18%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 ++RY+++I +L +EE LA R + GD A L +++L V+ +A Y GL + Sbjct: 10 INRYLNDIGHHNLLSNEEELQLADRI-QAGDSQAIEELTSANLTYVITLANQYVKRGLAL 68 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++SEGNIG++QA KF + G R ++ +I+ AM++ I + L ++ A Sbjct: 69 EDLISEGNIGMLQAATKFSRDAGKRFVAFAAPYIRDAMEQAIEQQAGLYRVPRNA----- 123 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 DNN KL S+ +S++ L G L+ D+ Sbjct: 124 ---------------DNN-----------KLEKKRSKALSIDEPLCGSHELSLGHVIPDR 157 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENPVT 254 N++ V D D ++ +L+ + LT ++ L+ RE+++ A + T Sbjct: 158 NAT------VPDEDLEKDMLLGE---------LTELIADLDQREQQVIRALYGIGTEAKT 202 Query: 255 LENLSSEFEVSRERVRQIEARAFKKV 280 + + RERVRQI +A +K+ Sbjct: 203 MLETGMAMGLKRERVRQIRNKAIRKI 228 >gi|167843756|ref|ZP_02469264.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei B7210] gi|254197157|ref|ZP_04903580.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] gi|169653899|gb|EDS86592.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] Length = 482 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/265 (23%), Positives = 130/265 (49%), Gaps = 18/265 (6%) Query: 23 IRKIPMLEKQEEYVLAKRYREHGDL---SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 +R++P K+ + A+R G+ +A R+ ++LRLV+ IA Y GL +++++ Sbjct: 214 MRRLPTSPKKSD-AGAQRAFADGEARISAATARMAEANLRLVLSIARKYASRGLDLADLL 272 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 EGN+GL++A++KF+ RGF+ +TY+ WWI+ A+ I +++ + Sbjct: 273 QEGNLGLLRAIEKFEHRRGFKFSTYATWWIRQAISRAIADRARTIRVPVHVGDE-----A 327 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ 199 RR++ I + + +++ + + ++ SLNA + D + ++ Sbjct: 328 RRVRKAADRIERRSGVSASLAELSEATGLPAERLRAVLTLPREPRSLNAPLG--DDDQAE 385 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLE 256 + D + D L + +++T + ++ +E I RR + P + E Sbjct: 386 FGDIV---EDTSTPSLFDALAHGQMCDVVTSLLKTMSAQEADILR-RRFGIGGDEPWSYE 441 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 +++ VSRE+VR+IE RA + ++ Sbjct: 442 QIAARAGVSREQVRRIEKRALQTLR 466 >gi|139436946|ref|ZP_01771106.1| Hypothetical protein COLAER_00079 [Collinsella aerofaciens ATCC 25986] gi|133776593|gb|EBA40413.1| Hypothetical protein COLAER_00079 [Collinsella aerofaciens ATCC 25986] Length = 263 Score = 77.0 bits (188), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 69/267 (25%), Positives = 127/267 (47%), Gaps = 35/267 (13%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +K++ L +RY+E GD A +LV SH+ LV +A ++ G P+ +++ G +GL++A Sbjct: 13 DKEKTRELFRRYKETGDPDAREQLVMSHMNLVRFLANKFKNRGEPLDDLMQVGYLGLLKA 72 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 + +FDPERG T++ I ++ + + WS+ R+ L+ L + Sbjct: 73 IDRFDPERGLEFTTFATPTILGEIKRHFRDKGWSV----------RVPRRLQELSAKVNQ 122 Query: 149 ITD---NNL-KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 TD N L + +V IA+ L+V+ EV L A+ +SS S + Sbjct: 123 ATDKLTNELQRSPKVEEIAEYLDVTVDEV------------LEAMESSSAYTSVPIEAPG 170 Query: 205 VYDHDGQEQVLIEKEERKNR------RNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D D +L + N R ++ ++ +PRER + E R ++ +T + Sbjct: 171 ASDSDDAPSILDRYADDDNELDFTDDRLVIEEAIRDFSPREREVIELRFVK--GMTQIEI 228 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + + +S+ +V ++ R KK+Q+ I Sbjct: 229 AKKLGISQVQVSRLLRRTLKKIQDKID 255 >gi|300865041|ref|ZP_07109868.1| RNA polymerase sigma factor [Oscillatoria sp. PCC 6506] gi|300336978|emb|CBN55018.1| RNA polymerase sigma factor [Oscillatoria sp. PCC 6506] Length = 334 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 56/236 (23%), Positives = 115/236 (48%), Gaps = 13/236 (5%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG++ +T Sbjct: 94 HQGRRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGYKFST 153 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ A+ I + +++ +K +++++ L + P + I Sbjct: 154 YAYWWIRQAITRAIAQHARTIRLPIHITEK--LNKIKKVQRELAQQLGRSPTPAE---IG 208 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L + S++ L ++ + D ++ Q+ L + + + + R++ Sbjct: 209 SALELHPSQI--REYLLMARHPVSLDLRVGDNQDTELQELLEDESASPDDYITGELLRQD 266 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 N+ M+ L P++R + R E+ ++L + ++SRERVRQ+E +A Sbjct: 267 LNNL----MAELTPQQRDVLSLRFGLEDGHEMSLAKVGERLKLSRERVRQLEHQAL 318 >gi|212695902|ref|ZP_03304030.1| hypothetical protein ANHYDRO_00435 [Anaerococcus hydrogenalis DSM 7454] gi|212677025|gb|EEB36632.1| hypothetical protein ANHYDRO_00435 [Anaerococcus hydrogenalis DSM 7454] Length = 333 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 63/249 (25%), Positives = 127/249 (51%), Gaps = 21/249 (8%) Query: 43 EHGDLSAAHRLVTSHLRLV-VKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGF 99 + G+ +A LV + LV + + YR +G L + ++V G +G+++A +KFD G+ Sbjct: 92 QEGNQNALGALVDKNQGLVRSRASYFYRSHGNDLELEDLVQSGMLGMIRAAEKFDLTLGY 151 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + TY+ WI A+++ I + ++I + L +LK L+A + E++ Sbjct: 152 KFTTYAYKWIDKAIRKAINKEGHTIRIPAGK-----YLKLNKLKQILKA--NPEASEEEL 204 Query: 160 VAIAKKLNVSE---SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 I K+ + + ++ +N SLN ++S D + D + G + + + Sbjct: 205 YKILKQEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMV-----GDDSIPV 259 Query: 217 EKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 + + +K+ + L +++ L+ RE++I R +N P TLE + + + +SRER+RQIE Sbjct: 260 DDQILKKDMEDFLMKALDQLSDREKQIIIYRYGLDNEKPKTLEEIGTIYSLSRERIRQIE 319 Query: 274 ARAFKKVQE 282 +A K+++ Sbjct: 320 NQALGKLKQ 328 >gi|325845925|ref|ZP_08169123.1| putative RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325481831|gb|EGC84863.1| putative RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 333 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 63/249 (25%), Positives = 127/249 (51%), Gaps = 21/249 (8%) Query: 43 EHGDLSAAHRLVTSHLRLV-VKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGF 99 + G+ +A LV + LV + + YR +G L + ++V G +G+++A +KFD G+ Sbjct: 92 QEGNQNALGALVDKNQGLVRSRASYFYRSHGNDLELEDLVQSGMLGMIRAAEKFDLTLGY 151 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + TY+ WI A+++ I + ++I + L +LK L+A + E++ Sbjct: 152 KFTTYAYKWIDKAIRKAINKEGHTIRIPAGK-----YLKLNKLKQILKA--NPEASEEEL 204 Query: 160 VAIAKKLNVSE---SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 I K+ + + ++ +N SLN ++S D + D + G + + + Sbjct: 205 YKILKQEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMV-----GDDSIPV 259 Query: 217 EKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 + + +K+ + L +++ L+ RE++I R +N P TLE + + + +SRER+RQIE Sbjct: 260 DDQILKKDMEDFLMKALDQLSDREKQIIIYRYGLDNEKPKTLEEIGTIYSLSRERIRQIE 319 Query: 274 ARAFKKVQE 282 +A K+++ Sbjct: 320 NQALGKLKQ 328 >gi|15558898|dbj|BAB64922.1| chloroplast RNA polymerase sigma factor [Chlamydomonas reinhardtii] Length = 250 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 71/247 (28%), Positives = 119/247 (48%), Gaps = 21/247 (8%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R HG A L+ S+ +LV+ + + G G I ++VSEG GL++ V+K+D +GF Sbjct: 1 RIRVHG---AKELLLKSNYKLVMTVCKSFVGKGPHIQDLVSEGVKGLLKGVEKYDATKGF 57 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R TY+ WWI+ A+ + + V++ + L RLK +L A L E Sbjct: 58 RFGTYAHWWIRQAVSRSLAETGRAVRL-----PMHMIEQLTRLK-NLSAKLQTQLAREPT 111 Query: 160 ---VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +A A L V+ +++ R A SL+ I ++ + +D + + + ++ Sbjct: 112 LPELAKAAGLPVTRVQMLMETARSAA--SLDTPIGGNELGPTV-KDSVEDEREAADEEFG 168 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEA 274 R + ML L RE R+ R ++ TLE + V+RER+RQIEA Sbjct: 169 SDSLRNDMEAMLLE----LPEREARVVRLRFGLDDGKEWTLEEIGEALNVTRERIRQIEA 224 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 225 KALRKLR 231 >gi|149198541|ref|ZP_01875585.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149138256|gb|EDM26665.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 282 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 67/269 (24%), Positives = 125/269 (46%), Gaps = 12/269 (4%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+ + +++ E LA + + GD SA L ++LRLVV IA + G+ Sbjct: 5 ALDNYLKNLSDYDLIDSDREIALANKIAK-GDESAIQELTLANLRLVVTIAKQFMNRGVA 63 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + E+++EGN GL++A ++F P G + A+Y+ WWIK ++ I +V++ + Sbjct: 64 LGELIAEGNHGLVKAAQRFRPGHGAKFASYAAWWIKQNIRRAIRDDKRIVRVPVQS---- 119 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS 193 ++++K I A+AK++ +S V + + + S+N I+ Sbjct: 120 -LLRMQKIKNARLKIQQETGDASNDKAVAKEVGISPRLVRTTSLHVDTSSFSINEQISQD 178 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENP 252 K + + + L+ D Q + E + ++ L RE +I AR L + Sbjct: 179 GKATEKGE--LIPDSQAQTPGEV-MEFHDGYKTLMEIVRQELTEREYKILSARFGLDDGE 235 Query: 253 V-TLENLSSEFEVSRERVRQIEARAFKKV 280 TL S ++ ERVRQ++ A +++ Sbjct: 236 AKTLAETSELVGLTSERVRQLQQEALRRL 264 >gi|255550882|ref|XP_002516489.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223544309|gb|EEF45830.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 560 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 127/241 (52%), Gaps = 32/241 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S LV+ A YRG G+ + +++ GN+G+++ ++FD RG+R +TY +WI+ + Sbjct: 326 LIKSTRSLVLYFARNYRGTGIALEDLLQAGNLGVLEGAERFDHTRGYRFSTYVQYWIRKS 385 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK--KLNVSE 170 M + + R ++I T + R + +++ + +A+T +N K IAK L++++ Sbjct: 386 MSKIVSRLARGIQIPCTLS--RAIYQIQKAR---KALTTSNGKYPDDDEIAKYTGLSLAK 440 Query: 171 SEVISMNCRLAGD------ESLNALINSSDKNSSQWQDWLVYDHDGQ--EQVLIEKEERK 222 E S R+ G ESLNA ++ ++L D Q E+V++ + + Sbjct: 441 IESASRCLRVVGSIDQKIGESLNA----------KYLEFLP-DTSVQSPEEVVMRQHMIQ 489 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 + N+L RS L+ RER++ R + P +LE + F VS+E VR++E R ++ Sbjct: 490 DMHNLL-RS---LDSRERQVLILRFGLNDYQPKSLEEIGRHFHVSKEWVRRLEKRVMTRL 545 Query: 281 Q 281 + Sbjct: 546 R 546 >gi|2564653|gb|AAC45358.1| group 2 alternative sigma factor [Nostoc punctiforme PCC 73102] Length = 321 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 112/236 (47%), Gaps = 31/236 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A H+++T++LRLVV IA Y+ L + +++ EG +GL + V+KF+P G+R TY+ WW Sbjct: 94 AKHKMITANLRLVVSIAKQYQRRNLELMDLIQEGTLGLERGVEKFNPALGYRKTTYAYWW 153 Query: 109 IKAAMQEYILRSWSLVKIGTTAN---------QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ + I + +++ N Q+ L L R+ + +LKP Q+ Sbjct: 154 IRQGITRAIAQQGRAIRLPIHINEKLNKIKRVQRELSQTLGRIPTSTEIANALSLKPSQI 213 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 ++ + + IS++ R++ + L + QD L+ D+ I +E Sbjct: 214 ----REFLLLATRTISLDIRVSSAKDL------------RLQD-LIEDYKYSSNSYITEE 256 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 N L +S L+ +++ I ++L+ + +SRERVRQIE Sbjct: 257 SLNQEVNSL---LSNLSRQQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQIE 309 >gi|148907004|gb|ABR16646.1| unknown [Picea sitchensis] Length = 592 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 57/245 (23%), Positives = 122/245 (49%), Gaps = 26/245 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +++ +LRLV+ +A Y+ GL + +++ G++GLM++ +KFD RGF+ +TY+ WWI+ Sbjct: 357 KIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQ 416 Query: 112 AMQEYILRSWSLVK--IGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ + + ++ + + R+ R L + H + T + +++ + +V Sbjct: 417 SITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHV 476 Query: 169 SESEVISMNC-RLAG---DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + + + R G DE + ++ ++ S+ + ++ KE K Sbjct: 477 TRCSRVPTSLDRCVGKDMDEKFSEIVADTNSEST--------------ETIVSKELFKKD 522 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L R + L RE+++ R ++ +L + F +SRERVRQIE +A +K+++ Sbjct: 523 ---LDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQ 579 Query: 283 SIQKQ 287 + + Q Sbjct: 580 NHRTQ 584 >gi|108803518|ref|YP_643455.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108764761|gb|ABG03643.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 274 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 71/251 (28%), Positives = 114/251 (45%), Gaps = 34/251 (13%) Query: 45 GDLSAAHRLVTSHL-RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A R++ SHL R + +P +++ EG + L+ AV +DP RG R +T Sbjct: 34 GDREARRRVIESHLGLAAALARRYARRWVVPFEDLLQEGALALVHAVDHYDPSRGMRFST 93 Query: 104 YSMWWIKAAMQEYIL----------RSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDN 152 Y+ WW+K A++ + R+W L +RL R L+ L + I D Sbjct: 94 YATWWVKQAIRRAAMAYARPMRVPERTWRL--------SERLAEAERELRAELGREIEDR 145 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 +L+ L SE E+ + + SL + + +++ D LV D + ++ Sbjct: 146 DLR--------SGLGWSEEELSEVRRAMGPVVSLESPVGEEEEDV--LGD-LVADENAED 194 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQ 271 E R + R L ++S L RER + R L P T +L E VSRER RQ Sbjct: 195 PA--ELAARNDARRRLAHALSALPRRERAVLAGRYGLTGEPRTFVDLGRELGVSRERARQ 252 Query: 272 IEARAFKKVQE 282 +E A ++++E Sbjct: 253 LERAAAERLRE 263 >gi|330723944|gb|AEC46314.1| RNA polymerase sigma factor [Mycoplasma hyorhinis MCLD] Length = 524 Score = 76.3 bits (186), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 70/288 (24%), Positives = 136/288 (47%), Gaps = 55/288 (19%) Query: 28 MLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L +EE LAK+ + G A H L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 256 LLTPEEENNLAKQIKNGGRAGKRARHTLINRNLRLVINNAKRYKNRGLTFIDLISEGNQG 315 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQKRLFFNLRR 141 +++AV K+D +G++ +TY+ WWI+ A+ + +++I T N+ + + Sbjct: 316 ILKAVDKYDYTKGYKFSTYATWWIRQAITRAVADQARIIRIPVHMVETINK------INK 369 Query: 142 LKGHLQAITDNNLKPEQVVAI------------AKKLNVSESEVISMNCRLAGDESLNAL 189 ++ LQ EQ+ + KK+N+ + IS++ + +E Sbjct: 370 IERELQQEYGVTPTDEQIAEVMGGDFTAEKVRYTKKINI---DPISLDKAIGKEE----- 421 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVL--IEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 S + D++ E V+ I+ ER+ + +L + + + ++F +R Sbjct: 422 -------YSSFSDFI-----KDESVISPIDYSEREEKTKILKQMIENNLDNDEKVFIMKR 469 Query: 248 --LQENPV-------TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +P + + L+ E V++ER+RQIE++ KK++ +K Sbjct: 470 YGFGTDPNGEQYRIHSFDELAKERGVTKERIRQIESKILKKLRHPQKK 517 >gi|71894468|ref|YP_278576.1| RNA polymerase sigma factor [Mycoplasma synoviae 53] Length = 490 Score = 76.3 bits (186), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 80/287 (27%), Positives = 134/287 (46%), Gaps = 55/287 (19%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L QEE LA+ + G R ++ +LRLVV A Y+ GL ++VSEGN G Sbjct: 207 LLTPQEEKDLAEEMDKGGSRGKRARDLIIKRNLRLVVNAAKKYKNRGLSFIDLVSEGNAG 266 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A +KFD ++GF+ +TY+ WWI+ ++ + A+Q R+ R+ H Sbjct: 267 LLKAAQKFDIKKGFKFSTYATWWIRQSISRAV------------ADQARII----RVPVH 310 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-----DES-------LNALINSS 193 + + K E+ + + + E+ RL G D S +N S Sbjct: 311 MVETINKIYKIEREIQQENGGEIIDEEIA---ARLGGKSKKYDASYIRYIRKINTSPISL 367 Query: 194 DKNSSQWQDWLVYDHDGQEQVL-----IEKEERKNRRN-----MLTRSMSVLNPRERRI- 242 DK + D D E ++ +KEE + N +L+ + + L R I Sbjct: 368 DKQVGKENDSFFGDFVKDESIISPVEFADKEELITKINYYVEKLLSEAEADLIKRYHGIG 427 Query: 243 FEARRLQENPV---TLENLSSEF-----EVSRERVRQIEARAFKKVQ 281 ++A+ NPV TL+ +S +F ++S+ERVRQI + +KK++ Sbjct: 428 YDAKG---NPVRSATLDEISKDFRGEGKKISKERVRQIITKIYKKLR 471 >gi|302765387|ref|XP_002966114.1| hypothetical protein SELMODRAFT_266972 [Selaginella moellendorffii] gi|300165534|gb|EFJ32141.1| hypothetical protein SELMODRAFT_266972 [Selaginella moellendorffii] Length = 249 Score = 76.3 bits (186), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 67/250 (26%), Positives = 110/250 (44%), Gaps = 43/250 (17%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ S+LRLVV IA Y G+ I +++ EG +GL+ ++KFD RGF+ +TY+ WWI A Sbjct: 1 MILSNLRLVVAIARRYENMGVEIGDLIQEGTLGLIHGLEKFDVSRGFKFSTYAYWWIFQA 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL--QAITDNNLKPEQVVAIAK------ 164 M SL K G R L + + D + E ++ + K Sbjct: 61 MIR------SLDKRGKCVRYPFHLCEAIRKINQLRNRQVDDRPVSVETMMQVLKLPRARI 114 Query: 165 ---------KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +L + V + C GD + +++ + +N Q WL+ + D ++ L Sbjct: 115 EIALQASNYRLTSLDRHVANKRCFEEGDPLEDFIVDQNVEN----QPWLMAERDAVKEEL 170 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRL----QENPVTLENLSSEFEVSRERVRQ 271 E K L+ RER + R Q +P++ + +SRERVRQ Sbjct: 171 DRLLESK------------LDAREREVIRKRFGLHPNQTSPLSRHEIGRSCGISRERVRQ 218 Query: 272 IEARAFKKVQ 281 +E A K++ Sbjct: 219 LENDAMAKLR 228 >gi|260589293|ref|ZP_05855206.1| RNA polymerase sigma-F factor [Blautia hansenii DSM 20583] gi|331082700|ref|ZP_08331823.1| hypothetical protein HMPREF0992_00747 [Lachnospiraceae bacterium 6_1_63FAA] gi|260540374|gb|EEX20943.1| RNA polymerase sigma-F factor [Blautia hansenii DSM 20583] gi|330400319|gb|EGG79961.1| hypothetical protein HMPREF0992_00747 [Lachnospiraceae bacterium 6_1_63FAA] Length = 237 Score = 76.3 bits (186), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 74/254 (29%), Positives = 122/254 (48%), Gaps = 25/254 (9%) Query: 36 VLAKRYREH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 +LA R H GD SA L ++ LV IA ++ G + ++V G IGL++A+ KFD Sbjct: 4 ILALIGRAHQGDKSARDILTEKNMGLVHSIARRFQNRGAELEDLVQIGCIGLLKAIDKFD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 R +TY++ I ++ + LR +VK+ + L+ G A+ + L Sbjct: 64 LSYEVRFSTYAVPMITGEIKRF-LRDDGMVKVSRS---------LKEAAGKAYAVREELL 113 Query: 155 ----KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + + IAK+L+VSE E+I A ESL I SD + +D L Y+ D Sbjct: 114 MKTGQEPSMEEIAKELSVSEEELIMAMESSAQVESLQKTIYQSDGSDIALEDKLPYEKDE 173 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 QE+VL + +L + LN RER + R +E T +++ +S+ +V Sbjct: 174 QEEVL--------DKLLLEDILGSLNARERELIYLRFFKEKTQT--SIAKMMGMSQVQVS 223 Query: 271 QIEARAFKKVQESI 284 ++E + K ++E I Sbjct: 224 RLEKKILKALRERI 237 >gi|119503379|ref|ZP_01625463.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] gi|119461025|gb|EAW42116.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] Length = 430 Score = 76.3 bits (186), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 124/243 (51%), Gaps = 18/243 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV +LRLV IA Y+G G+ ++V EG +GL++A +KF+ E+GFR +TY W Sbjct: 188 ARDKLVMHNLRLVYSIAGRYKGRGVSYLDLVQEGTLGLIRAAEKFEFEKGFRFSTYCFNW 247 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I A++ Y+ +L+++ T ++ L + K Q T ++P++ +A KL + Sbjct: 248 ITQAVRRYVGDVGTLIRLPTHVQEQ--MGRLYKEKAIEQLRT--GVEPDEET-LAAKLGM 302 Query: 169 SESEVISMNCRLAGDESLNALINSS--DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 I +L +L +++ D + D L + G + + E+ + Sbjct: 303 D----IEKTRQLLQMRNLGVSLDAPRFDDDEGTLLDTLSGEPYGGTE---DSAEQASLHK 355 Query: 227 MLTRSMSVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKV--QE 282 L ++ L P E+R+ AR L + P++ ++ VSRE VRQ+E A +K+ Q+ Sbjct: 356 FLGGAVDALEPSEQRVVVARWGLHDGPPLSRAEVADSLGVSREWVRQLERSALRKLKAQD 415 Query: 283 SIQ 285 S++ Sbjct: 416 SVK 418 >gi|255312661|gb|ACU01740.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 76.3 bits (186), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 32/61 (52%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L LVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LLLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|46241495|gb|AAS82950.1| chloroplast RPOD [Chlamydomonas reinhardtii] Length = 311 Score = 76.3 bits (186), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 118/247 (47%), Gaps = 18/247 (7%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 + R L A L+ S+ +LV+ + + G G I ++VSEG GL++ V+K+D +GF Sbjct: 40 KLRYDAGLKAKELLLKSNYKLVMTVCKSFVGKGPHIQDLVSEGVKGLLKGVEKYDATKGF 99 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R TY+ WWI+ A+ + + V++ + L RLK +L A L E Sbjct: 100 RFGTYAHWWIRQAVSRSLAETGRAVRL-----PMHMIEQLTRLK-NLSAKLQTQLAREPT 153 Query: 160 ---VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +A A L V+ +++ R A SL+ I ++ + +D + + + ++ Sbjct: 154 LPELAKAAGLPVTRVQMLMETARSAA--SLDTPIGGNELGPT-VKDSVEDEREAADEEFG 210 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEA 274 R + ML L RE R+ R ++ TLE + V+RER+RQIEA Sbjct: 211 SDSLRNDMEAMLLE----LPEREARVVRLRFGLDDGKEWTLEEIGEALNVTRERIRQIEA 266 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 267 KALRKLR 273 >gi|293363636|ref|ZP_06610388.1| putative RNA polymerase sigma factor RpoD [Mycoplasma alligatoris A21JP2] gi|292552792|gb|EFF41550.1| putative RNA polymerase sigma factor RpoD [Mycoplasma alligatoris A21JP2] Length = 492 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 76/287 (26%), Positives = 141/287 (49%), Gaps = 58/287 (20%) Query: 28 MLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L+ +E LAK+ + G A +L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 220 LLKPDQEKQLAKQMEKGGFRGKRARDKLIMRNLRLVINNAKKYKNRGLTFIDLISEGNAG 279 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-KRLFFNLR 140 +++AV+K++ E+GF+ +TY+ WWI+ A+ + +++ T N+ ++ L+ Sbjct: 280 ILKAVQKYNVEKGFKFSTYATWWIRQAITRAVADQARTIRVPVHMVETINKITKIERELQ 339 Query: 141 RLKGHLQAITDN-------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + GH TD+ N E+ V +K+NV + IS++ ++ Sbjct: 340 QELGH--EPTDSQIANRFGNDYTEEKVRYIRKINV---DPISLDKQIGK----------- 383 Query: 194 DKNSSQWQDWL-------VYDHDGQEQV------LIEKEERKNRRNMLTRSMSV---LNP 237 +N S + D++ D+ QEQ+ LI+K K+ R ++ + V N Sbjct: 384 -ENDSSFSDFVKDDNILNPVDYASQEQLSELLIDLIDKSLEKDERELICKRYGVGVDSNG 442 Query: 238 RERRIFEARRLQENPVTLENLSSE-FEVSRERVRQIEARAFKKVQES 283 + R+ +L+ L+ E VS+ER+RQIE + +K++ S Sbjct: 443 EKYRVH----------SLDELARERGGVSKERIRQIENKILRKLKNS 479 >gi|255312639|gb|ACU01729.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312641|gb|ACU01730.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312643|gb|ACU01731.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312645|gb|ACU01732.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 32/61 (52%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L LVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LGLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|255312647|gb|ACU01733.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312653|gb|ACU01736.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 32/61 (52%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L LVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LLLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|134291946|ref|YP_001115715.1| RpoD family RNA polymerase sigma factor [Burkholderia vietnamiensis G4] gi|134135135|gb|ABO59460.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia vietnamiensis G4] Length = 628 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 111/240 (46%), Gaps = 26/240 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A+ ++D RGFR +TY+ WWI+ A Sbjct: 395 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWWIRQA 454 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSES 171 + + +++ T + L R+ + H Q E V + + L+ Sbjct: 455 ITHALADLGRTIRVPT--HTVDAINKLTRIAREHRQRSGAAATPHELAVQMGEPLDKVRD 512 Query: 172 ------EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 E +S + ++ + + + + D ++ +D G Q+ R Sbjct: 513 LMSIVKEPMSADAPVSPEGEMTFVDVAPDVSTPSPEDAA-----GAAQL----------R 557 Query: 226 NMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + + + L RE + R + +L ++ + +S ERVRQIEA A +++ S Sbjct: 558 DTIAAMIGRLPAREATVLRLRYGLHADEGCSLRDIGRQLNLSAERVRQIEASALARLRAS 617 >gi|159470255|ref|XP_001693275.1| chloroplast RNA polymerase sigma factor, c [Chlamydomonas reinhardtii] gi|42742499|gb|AAM88387.2|AF525691_1 RNA polymerase sigma factor [Chlamydomonas reinhardtii] gi|47076042|emb|CAF25319.1| sigma-like transcription factor [Chlamydomonas reinhardtii] gi|158277533|gb|EDP03301.1| chloroplast RNA polymerase sigma factor, c [Chlamydomonas reinhardtii] Length = 752 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 118/247 (47%), Gaps = 18/247 (7%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 + R L A L+ S+ +LV+ + + G G I ++VSEG GL++ V+K+D +GF Sbjct: 481 KLRYDAGLKAKELLLKSNYKLVMTVCKSFVGKGPHIQDLVSEGVKGLLKGVEKYDATKGF 540 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R TY+ WWI+ A+ + + V++ + L RLK +L A L E Sbjct: 541 RFGTYAHWWIRQAVSRSLAETGRAVRL-----PMHMIEQLTRLK-NLSAKLQTQLAREPT 594 Query: 160 ---VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 +A A L V+ +++ R A SL+ I ++ + +D + + + ++ Sbjct: 595 LPELAKAAGLPVTRVQMLMETARSAA--SLDTPIGGNELGPT-VKDSVEDEREAADEEFG 651 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEA 274 R + ML L RE R+ R ++ TLE + V+RER+RQIEA Sbjct: 652 SDSLRNDMEAMLLE----LPEREARVVRLRFGLDDGKEWTLEEIGEALNVTRERIRQIEA 707 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 708 KALRKLR 714 >gi|6682869|dbj|BAA88921.1| sigma factor [Nicotiana tabacum] Length = 508 Score = 76.3 bits (186), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 71/258 (27%), Positives = 124/258 (48%), Gaps = 42/258 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A RL S++RLV+ IA Y G ++++V G IGL++ ++KFDP +G++++TY WW Sbjct: 265 ARERLAMSNVRLVMSIAQRYDNVGAEMADLVQGGLIGLLRGIEKFDPSKGYKISTYVYWW 324 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T ++ RL +R K L+ + + P V IA LN+ Sbjct: 325 IRQGVSRALVENSRTLRLPTYLHE-RLSL-IRNAKARLE---EKGITP-SVNNIAASLNM 378 Query: 169 SESEV------------------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 S+ +V S+N L G E+L++ I + ++ W V+ Sbjct: 379 SQKKVRNATEASSKMYSLDREAFPSLN-GLPG-ETLHSYIADNHLENNPWHGVDVWALKD 436 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERV 269 + LI S L RER I L +T E++S +SRERV Sbjct: 437 EVNNLIS---------------STLRDREREIIRLYYGLDNECLTWEDISKRIGLSRERV 481 Query: 270 RQIEARAFKKVQESIQKQ 287 RQ+ A +K++ + +K+ Sbjct: 482 RQVGLVALEKLKHAARKR 499 >gi|167822153|ref|ZP_02453624.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 9] Length = 299 Score = 75.9 bits (185), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 58 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 117 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 118 WIRQAISRAIADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 172 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 173 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 227 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 228 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 283 >gi|13508091|ref|NP_110040.1| RNA polymerase sigma factor [Mycoplasma pneumoniae M129] gi|2500786|sp|P78022|RPOD_MYCPN RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|1674175|gb|AAB96132.1| Sigma-70 Factor Family [Mycoplasma pneumoniae M129] gi|301633308|gb|ADK86862.1| RNA polymerase sigma factor RpoD [Mycoplasma pneumoniae FH] Length = 499 Score = 75.9 bits (185), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 127/247 (51%), Gaps = 21/247 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LVTS+LRLVV IA + GL ++++ EGN+GL++A+ KF+ G + +TY+ WW Sbjct: 248 AINQLVTSNLRLVVSIAKKHLERGLDFNDLIQEGNLGLLKAISKFNWSLGNKFSTYATWW 307 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK A+ I V+I + + RL +A+ + +A+K+ Sbjct: 308 IKQAITRAIADQARTVRIPV-----HMVETINRLAKAERALNQELGREPTAEELAEKMG- 361 Query: 169 SESEVISMN-----CRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++E ++ RL+ D SL+ + ++ SQ+ D+ V D D Q E R Sbjct: 362 GQAEGFTVKKIAEIKRLSLDPVSLDKTVGHDEE--SQFGDF-VRDTDAQMPDEF-TESRS 417 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPV----TLENLSSEFEVSRERVRQIEARAFK 278 N + + L+ +E I R+ P TL+ +S + ++ RE++RQIE +A + Sbjct: 418 NYEKIDELLNNCLSEQEELIVRM-RIGMPPYNETKTLDEVSQKIKIPREKIRQIETKAIR 476 Query: 279 KVQESIQ 285 K++++++ Sbjct: 477 KLRQAVR 483 >gi|11762220|gb|AAG40388.1|AF325036_1 At1g64860 [Arabidopsis thaliana] Length = 502 Score = 75.9 bits (185), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 72/256 (28%), Positives = 126/256 (49%), Gaps = 38/256 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 259 AREKLAMSNVRLVMSIAQRYNNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 318 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 319 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 372 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSDKNSSQWQD-------WLVYDHDGQEQ 213 S+ +E +S L D SLN L + + S D W YD Sbjct: 373 SQKKVRNATEAVSKVFSLDRDAFPSLNGL--PGETHHSYIADTRLENNPWHGYDD----- 425 Query: 214 VLIEKEERKNRRNMLTRSMS-VLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQ 271 L KEE +++ +S L RE+ I L + +T E++S +SRERVRQ Sbjct: 426 -LALKEE-------VSKLISATLGEREKEIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 477 Query: 272 IEARAFKKVQESIQKQ 287 + A +K++ + +K+ Sbjct: 478 VGLVALEKLKHAARKR 493 >gi|302866072|ref|YP_003834709.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC 27029] gi|315502628|ref|YP_004081515.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Micromonospora sp. L5] gi|302568931|gb|ADL45133.1| RNA polymerase sigma factor, sigma-70 family [Micromonospora aurantiaca ATCC 27029] gi|315409247|gb|ADU07364.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Micromonospora sp. L5] Length = 328 Score = 75.9 bits (185), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 67/250 (26%), Positives = 120/250 (48%), Gaps = 21/250 (8%) Query: 44 HGDLS--------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 H DL+ A L+ ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD Sbjct: 77 HADLALIAAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDY 136 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +G++ +TY+ WWI+ A+ + ++I ++ + R++ L L Sbjct: 137 TKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQ--VNRMVRVRRELSV----TLG 190 Query: 156 PEQVVA-IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 E V+ +A L + E +VI + SL+ + + S D++ E Sbjct: 191 REPTVSEVATALEIPEFQVIELISYDREPVSLDQAVG--EDGESALGDFVAAVDPRTEPG 248 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQI 272 + RN + ++ L+ RE+ + R ++ TL+ + EF +SRER+RQI Sbjct: 249 --DAATNGELRNEVRIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQI 306 Query: 273 EARAFKKVQE 282 E K+++ Sbjct: 307 EKVTLLKLRD 316 >gi|47565382|ref|ZP_00236424.1| RNA polymerase sigma-43 factor, putative [Bacillus cereus G9241] gi|208742286|ref|YP_002267738.1| RNA polymerase sigma factor (sigma-A) (sigma-43) [Bacillus cereus] gi|47557736|gb|EAL16062.1| RNA polymerase sigma-43 factor, putative [Bacillus cereus G9241] Length = 325 Score = 75.9 bits (185), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 76/296 (25%), Positives = 133/296 (44%), Gaps = 59/296 (19%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISE 77 I I +L KQE L +RY+ HG+ L ++ LV+ IA Y+ + + Sbjct: 42 IKGIGNYKVLSKQESLKLFQRYK-HGEKDLRDYLFHVNVGLVLSIARKYKNKHPDIEFDD 100 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLF 136 +V EGN G+++A++ F+P G+ +TY+ WWI+ +M I + S KI + NQ Sbjct: 101 LVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIQKSMLGIICKKKSGPFKIPNSVNQ---- 156 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC--RLAGDESLN------- 187 FNLR ++ + + N +P V + K+LNV+ VI N + A +L+ Sbjct: 157 FNLRYVELEDKYLQMYN-RPPSVEEVVKELNVTSETVIKHNVYYKRATTMTLDVDTINED 215 Query: 188 -ALINSSDKNSS-------------QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 ++N +SS ++ WL++D Sbjct: 216 IGILNPFYDDSSAIPSTNEMVIEDLNYEIWLIFD-------------------------E 250 Query: 234 VLNPRERRIFE-ARRLQENPVTL-ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 VLNP+++ + L + V L + ++ ++ ERV QI+ A KK+++ K+ Sbjct: 251 VLNPKQKMVLNLCFGLLDGKVYLHKEIAKALMITTERVSQIKDEAIKKLKKCDYKE 306 >gi|21221637|ref|NP_627416.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|256787171|ref|ZP_05525602.1| RNA polymerase principal sigma factor [Streptomyces lividans TK24] gi|289771070|ref|ZP_06530448.1| RNA polymerase principal sigma factor hrdD [Streptomyces lividans TK24] gi|19856654|sp|P18249|HRDD_STRCO RecName: Full=RNA polymerase principal sigma factor hrdD gi|7799522|emb|CAB90986.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|289701269|gb|EFD68698.1| RNA polymerase principal sigma factor hrdD [Streptomyces lividans TK24] Length = 332 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 75/290 (25%), Positives = 131/290 (45%), Gaps = 43/290 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-------------YREHGDLSAAHRL------------ 53 Y+ EI + P+L+ +E L++ Y E G + L Sbjct: 39 YLDEIARTPLLDAAKEVELSQTIEAGVFARQVLEGYEETGADATREELQALIDESERAKD 98 Query: 54 --VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 99 VFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQ 158 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ I +++ L L R++ + + + + IA +L + Sbjct: 159 AITRSIADQSRTIRLPV-----HLVEELGRIRRVQREFNREHGREPEPAEIAAELGSTPE 213 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLT 229 V + SLN ++ D+ +Q+ D L+ D EQ ++ + +++ Sbjct: 214 RVTDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIG 270 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R L+PR I + R ++ TL + E ++RER+RQIE A Sbjct: 271 R----LDPRTASIIKMRYGIDDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|269926941|ref|YP_003323564.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269790601|gb|ACZ42742.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 596 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 34/82 (41%), Positives = 56/82 (68%), Gaps = 1/82 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD+ A RL+ ++LRLVV IA Y G G+ + +++ EGNIGL++AV+KF ++G++ +TY Sbjct: 252 GDI-ARKRLIEANLRLVVSIAKKYTGRGITLLDLIQEGNIGLIKAVEKFRHQKGYKFSTY 310 Query: 105 SMWWIKAAMQEYILRSWSLVKI 126 + WWI+ A+ I ++I Sbjct: 311 ATWWIRQAITRAIADQARTIRI 332 Score = 35.8 bits (81), Expect = 7.4, Method: Compositional matrix adjust. Identities = 15/33 (45%), Positives = 24/33 (72%) Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 P TLE + F V+RER+RQIE++A +K++ + Sbjct: 554 PRTLEEVGRAFGVTRERIRQIESKALRKLRRDV 586 >gi|144575120|gb|AAZ43865.2| DNA-directed RNA polymerase sigma factor [Mycoplasma synoviae 53] Length = 798 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 80/287 (27%), Positives = 134/287 (46%), Gaps = 55/287 (19%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L QEE LA+ + G R ++ +LRLVV A Y+ GL ++VSEGN G Sbjct: 515 LLTPQEEKDLAEEMDKGGSRGKRARDLIIKRNLRLVVNAAKKYKNRGLSFIDLVSEGNAG 574 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A +KFD ++GF+ +TY+ WWI+ ++ + A+Q R+ R+ H Sbjct: 575 LLKAAQKFDIKKGFKFSTYATWWIRQSISRAV------------ADQARII----RVPVH 618 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-----DES-------LNALINSS 193 + + K E+ + + + E+ RL G D S +N S Sbjct: 619 MVETINKIYKIEREIQQENGGEIIDEEIA---ARLGGKSKKYDASYIRYIRKINTSPISL 675 Query: 194 DKNSSQWQDWLVYDHDGQEQVL-----IEKEERKNRRN-----MLTRSMSVLNPRERRI- 242 DK + D D E ++ +KEE + N +L+ + + L R I Sbjct: 676 DKQVGKENDSFFGDFVKDESIISPVEFADKEELITKINYYVEKLLSEAEADLIKRYHGIG 735 Query: 243 FEARRLQENPV---TLENLSSEF-----EVSRERVRQIEARAFKKVQ 281 ++A+ NPV TL+ +S +F ++S+ERVRQI + +KK++ Sbjct: 736 YDAKG---NPVRSATLDEISKDFRGEGKKISKERVRQIITKIYKKLR 779 >gi|2398851|dbj|BAA22214.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana] Length = 502 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 72/256 (28%), Positives = 126/256 (49%), Gaps = 38/256 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 259 AREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 318 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 319 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 372 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSDKNSSQWQD-------WLVYDHDGQEQ 213 S+ +E +S L D SLN L + + S D W YD Sbjct: 373 SQKKVRNATEAVSKVFSLDRDAFPSLNGL--PGETHHSYIADTRLENNPWHGYDD----- 425 Query: 214 VLIEKEERKNRRNMLTRSMS-VLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQ 271 L KEE +++ +S L RE+ I L + +T E++S +SRERVRQ Sbjct: 426 -LALKEE-------VSKLISATLGEREKEIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 477 Query: 272 IEARAFKKVQESIQKQ 287 + A +K++ + +K+ Sbjct: 478 VGLVALEKLKHAARKR 493 >gi|318041080|ref|ZP_07973036.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Synechococcus sp. CB0101] Length = 279 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 41/115 (35%), Positives = 65/115 (56%), Gaps = 16/115 (13%) Query: 19 YIHEIRKIPMLEKQEEYVLA---KRYREHGDLSAA---------HRLVTSHLRLVVKIAM 66 Y+ I +IP+L QEE L K + E D S A R+VT++LRLVV +A+ Sbjct: 8 YLRTIGRIPLLTAQEEVHLGTIVKDWMESNDPSPALQRRGRRALQRIVTANLRLVVTVAL 67 Query: 67 GY----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 Y + ++V GN+GL++A +K+DP RG++ +TY WWI+ ++ Y+ Sbjct: 68 RYIRRLKHLAHDPMDLVQAGNLGLLRAAEKYDPTRGYKFSTYGYWWIRQSINRYL 122 >gi|167813607|ref|ZP_02445287.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 91] Length = 302 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 61 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 120 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 121 WIRQAISRAIADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 175 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 176 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 230 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 231 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 286 >gi|183220954|ref|YP_001838950.1| RNA polymerase sigma factor RpoD [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189911049|ref|YP_001962604.1| DNA-directed RNA polymerase sigma sigma70/sigma32 subunit [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167775725|gb|ABZ94026.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167779376|gb|ABZ97674.1| RNA polymerase sigma factor rpoD (Sigma-70) [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 590 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 115/245 (46%), Gaps = 32/245 (13%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV ++LRLVV IA Y G+ +++ EGNIGL++AV KF+ ++G++ +TY+ WW Sbjct: 353 AKRELVRANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIRAVDKFEYKKGYKFSTYATWW 412 Query: 109 IKAAMQEYILRSWSLVK--------IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 I+ A+ I ++ + + RLF I + P Q V Sbjct: 413 IRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFVQEFGRDPSNDEIAERLGWPVQKV 472 Query: 161 AIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 K NV+ E IS+ + +E L I + S + +L E+ Sbjct: 473 KAVK--NVA-REPISLEIPVGSEEDSELGDFIEDKEVISPL--------NSAASSILSEQ 521 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARA 276 + + + L RE+++ R ++ TLE + +F+V+RER+RQIEA+A Sbjct: 522 ---------IRQVLQTLPAREQKVIRMRFGLDDGYAQTLEEVGYQFKVTRERIRQIEAKA 572 Query: 277 FKKVQ 281 ++++ Sbjct: 573 LRRLR 577 >gi|124386302|ref|YP_001028216.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] gi|126449023|ref|YP_001081831.1| RNA polymerase sigma factor [Burkholderia mallei NCTC 10247] gi|126450673|ref|YP_001081854.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] gi|124294322|gb|ABN03591.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] gi|126241893|gb|ABO04986.1| RNA polymerase sigma factor [Burkholderia mallei NCTC 10247] gi|126243543|gb|ABO06636.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] Length = 482 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAIAERARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|329895346|ref|ZP_08270971.1| RNA polymerase sigma factor [gamma proteobacterium IMCC3088] gi|328922359|gb|EGG29703.1| RNA polymerase sigma factor [gamma proteobacterium IMCC3088] Length = 424 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 121/245 (49%), Gaps = 22/245 (8%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 G L+A +LV ++RLV K+A + G+ + ++V EG IGL++A +KFD GFR +T Sbjct: 181 QGYLAARDKLVMHNVRLVYKLAREKQNRGIAVRDLVQEGIIGLVRAAEKFDYRLGFRFST 240 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQK-RLFFNLRR----LKGHLQAITDNNLKPEQ 158 Y+ W +Q + SLV T Q+ + +R +G ++ + L Sbjct: 241 YAYNWTNQHIQRVCEGNGSLVTYPTHVTQEVNALYRVRNEWMDRRGEEPSLAE--LAEHS 298 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + + +++ ++++ + DE NAL S+ LV D +E+ Sbjct: 299 GFTLERVRELTQLTNLTVSIQSDDDEDTNALPESA----------LV---DEAANPALEQ 345 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARA 276 + ++ + +L + + L+ RE+ I AR L P TL L+ + EVSRE VRQ+E A Sbjct: 346 AQSRSLKRLLEQQLKQLDRREQMIVTARWGLDGRPSRTLAQLADQLEVSRELVRQLEKSA 405 Query: 277 FKKVQ 281 +K+Q Sbjct: 406 LRKLQ 410 >gi|55274934|gb|AAV49268.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 191 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 31/59 (52%), Positives = 45/59 (76%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 LVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 LVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 59 >gi|2385344|emb|CAA74896.1| sigma factorB [Arabidopsis thaliana] Length = 500 Score = 75.9 bits (185), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 72/256 (28%), Positives = 126/256 (49%), Gaps = 38/256 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 257 AREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 316 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 317 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 370 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSDKNSSQWQD-------WLVYDHDGQEQ 213 S+ +E +S L D SLN L + + S D W YD Sbjct: 371 SQKKVRNATEAVSKVFSLDRDAFPSLNGL--PGETHHSYIADTRLENNPWHGYDD----- 423 Query: 214 VLIEKEERKNRRNMLTRSMS-VLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQ 271 L KEE +++ +S L RE+ I L + +T E++S +SRERVRQ Sbjct: 424 -LALKEE-------VSKLISATLGEREKEIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 475 Query: 272 IEARAFKKVQESIQKQ 287 + A +K++ + +K+ Sbjct: 476 VGLVALEKLKHAARKR 491 >gi|54401904|gb|AAV34637.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 183 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 31/59 (52%), Positives = 45/59 (76%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 LVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 LVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 59 >gi|126441635|ref|YP_001057174.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] gi|126221128|gb|ABN84634.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] Length = 482 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAIAERARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|15217767|ref|NP_176666.1| SIGA (SIGMA FACTOR A); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|5042421|gb|AAD38260.1|AC006193_16 RNA polymerase sigma subunit 1 [Arabidopsis thaliana] gi|2353171|gb|AAB69384.1| sigma factor 1 [Arabidopsis thaliana] gi|2443408|dbj|BAA22421.1| SigA [Arabidopsis thaliana] gi|2558514|emb|CAA74640.1| plastid RNA polymerase sigma factor [Arabidopsis thaliana] gi|5478439|dbj|BAA82448.1| sigma factor SigA [Arabidopsis thaliana] gi|17064900|gb|AAL32604.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana] gi|20259916|gb|AAM13305.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana] gi|222423019|dbj|BAH19492.1| AT1G64860 [Arabidopsis thaliana] gi|332196177|gb|AEE34298.1| sigma factor A [Arabidopsis thaliana] Length = 502 Score = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 72/256 (28%), Positives = 126/256 (49%), Gaps = 38/256 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 259 AREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 318 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 319 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 372 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSDKNSSQWQD-------WLVYDHDGQEQ 213 S+ +E +S L D SLN L + + S D W YD Sbjct: 373 SQKKVRNATEAVSKVFSLDRDAFPSLNGL--PGETHHSYIADTRLENNPWHGYDD----- 425 Query: 214 VLIEKEERKNRRNMLTRSMS-VLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQ 271 L KEE +++ +S L RE+ I L + +T E++S +SRERVRQ Sbjct: 426 -LALKEE-------VSKLISATLGEREKEIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 477 Query: 272 IEARAFKKVQESIQKQ 287 + A +K++ + +K+ Sbjct: 478 VGLVALEKLKHAARKR 493 >gi|224007213|ref|XP_002292566.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220971428|gb|EED89762.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 338 Score = 75.5 bits (184), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 61/252 (24%), Positives = 120/252 (47%), Gaps = 21/252 (8%) Query: 49 AAHRLVTSHLRLVVKIA-----------MGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A L+ ++LRLV+ +A + + + +G IGL +A +KFDPE Sbjct: 75 AKAALIEANLRLVITVARQAVKKSPFRSSSHAASSVQFQDACQQGIIGLTRATEKFDPEL 134 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAITDNNLK 155 GFR +TY++WWI+ + + + V++ +A +K + R L L ++ Sbjct: 135 GFRFSTYAIWWIQKEVAKNVNEQSRTVRVPGSAIKKINDIRIQERVLMNELGRRPSDDEV 194 Query: 156 PEQVVAIAKKLNV---SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 E+ +KLN S EV S++ ++ + + D + + ++ D + Sbjct: 195 AEKCGLTVEKLNFYRQSAKEVKSLDKKIDSRTGKGSAASGGDDDGKTME---IFVRDTEH 251 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVR 270 E +++ + + R + L+PRE+ + R ++ P TL ++ +F V +ER++ Sbjct: 252 PSPSELIDQQMMQQDIRRLVKTLSPREQAVIRLRFGLDDGKPQTLGDIGEKFGVEKERIK 311 Query: 271 QIEARAFKKVQE 282 +IEARA K+++ Sbjct: 312 KIEARALLKLRQ 323 >gi|302535003|ref|ZP_07287345.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] gi|302443898|gb|EFL15714.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] Length = 325 Score = 75.5 bits (184), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 77/291 (26%), Positives = 131/291 (45%), Gaps = 44/291 (15%) Query: 19 YIHEIRKIPMLEKQEEY--------------VLAKRYREHGDLSAAHRL----------- 53 Y+ EI + P+L+ E +L G+L A L Sbjct: 31 YLDEIARTPLLDAAREVELSQIIEAGVYARQILDGEIERDGELPAREELEALAAEGERAK 90 Query: 54 ---VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 91 EVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFSTYATWWIR 150 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 A+ I +++ ++ +RR++ +N PE IA L+ +E Sbjct: 151 QAITRSIADQSRTIRLPVHLVEE--LGRIRRIQREFN--RENGRDPEH-AEIAAALDSTE 205 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNML 228 V + SLN ++ D+ +Q+ D L+ D EQ ++ + ++L Sbjct: 206 KRVGDVLDWARDPVSLNMSVD--DEGDTQFGD-LLEDTSAISPEQSVLSLLRSEELEDLL 262 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + L+ R I + R E+ TL + + ++RER+RQIE A Sbjct: 263 GK----LDQRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHAL 309 >gi|53724654|ref|YP_101962.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 23344] gi|121599433|ref|YP_994127.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|167001162|ref|ZP_02266961.1| RNA polymerase sigma factor [Burkholderia mallei PRL-20] gi|238561900|ref|ZP_00441190.2| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|254176911|ref|ZP_04883568.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|254203640|ref|ZP_04910000.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|254208616|ref|ZP_04914964.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|254360328|ref|ZP_04976598.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|52428077|gb|AAU48670.1| RNA polymerase sigma factor RpoD, putative [Burkholderia mallei ATCC 23344] gi|121228243|gb|ABM50761.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|147745152|gb|EDK52232.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|147750492|gb|EDK57561.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|148029568|gb|EDK87473.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|160697952|gb|EDP87922.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|238523583|gb|EEP87020.1| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|243062992|gb|EES45178.1| RNA polymerase sigma factor [Burkholderia mallei PRL-20] Length = 482 Score = 75.5 bits (184), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAIAERARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|159027100|emb|CAO89285.1| rpoD [Microcystis aeruginosa PCC 7806] Length = 328 Score = 75.5 bits (184), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 65/304 (21%), Positives = 134/304 (44%), Gaps = 60/304 (19%) Query: 19 YIHEIRKIPMLEKQEEYVLAK--------------------------------------- 39 Y+HEI ++P+L ++E + K Sbjct: 23 YLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQHLEWADSVNLSENEL 82 Query: 40 -RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 R + GD A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G Sbjct: 83 DRALKTGD-RAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKG 141 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I + +++ +K ++R + L + P + Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK--LNKIKRTQRELAQKLGRSATPAE 199 Query: 159 VVAIAKKLNVSESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 IA +L++ +++ +SM + ++ + D ++ + L + + Sbjct: 200 ---IALELDLEPAQIREYLSM-----ARQPISLDVRVGDNQDTELSELLEDSGVSPDTFI 251 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIE 273 ++ R++ N+L L P++R + R ++L + +SRERVRQ+E Sbjct: 252 TQELLRQDLANLLAE----LTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLE 307 Query: 274 ARAF 277 +A Sbjct: 308 HQAL 311 >gi|56752354|ref|YP_173055.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus PCC 6301] gi|56687313|dbj|BAD80535.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus PCC 6301] Length = 320 Score = 75.5 bits (184), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 119/235 (50%), Gaps = 21/235 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ + +++ EG +GL + +KFDP +G++ +TY+ WW Sbjct: 85 AKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGFEKFDPSKGYKFSTYAYWW 144 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ I + +++ +K L +LK + ++ + +A+ L + Sbjct: 145 IRQAITRAIAQQSRTIRLPIHITEK-----LNKLKKTQRELSQQLGRSATASELAEVLEL 199 Query: 169 SESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE-RKNR 224 +V I MN + ++ + D ++ Q+ L+ D +E+E R++ Sbjct: 200 PLEQVREYIQMN-----RQPVSLDVKVGDSQDTELQE-LLEDEQSSPSDYVEQESLRRDL 253 Query: 225 RNMLTRSMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEARAF 277 RN+ M+ L P+++ + R L E + ++L + +SRERVR++E +A Sbjct: 254 RNL----MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAM 304 >gi|55274986|gb|AAV49291.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 196 Score = 75.5 bits (184), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 31/59 (52%), Positives = 45/59 (76%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 LVVKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 LVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 59 >gi|2565297|gb|AAB81958.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana] Length = 502 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 72/256 (28%), Positives = 126/256 (49%), Gaps = 38/256 (14%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 259 AREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 318 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 319 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 372 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSDKNSSQWQD-------WLVYDHDGQEQ 213 S+ +E +S L D SLN L + + S D W YD Sbjct: 373 SQKKVRNATEAVSKVFSLDRDAFPSLNGL--PGETHHSYIADTRLENNPWHGYDD----- 425 Query: 214 VLIEKEERKNRRNMLTRSMS-VLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQ 271 L KEE +++ +S L RE+ I L + +T E++S +SRERVRQ Sbjct: 426 -LALKEE-------VSKLISATLGEREKEIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 477 Query: 272 IEARAFKKVQESIQKQ 287 + A +K++ + +K+ Sbjct: 478 VGLVALEKLKHAARKR 493 >gi|300868245|ref|ZP_07112876.1| RNA polymerase sigma factor SigD [Oscillatoria sp. PCC 6506] gi|300333769|emb|CBN58060.1| RNA polymerase sigma factor SigD [Oscillatoria sp. PCC 6506] Length = 319 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 61/244 (25%), Positives = 112/244 (45%), Gaps = 13/244 (5%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 H A +V ++LRLVV +A Y + + +++ EG IG+ + V+KFDP +G+R +T Sbjct: 79 HAGERAKRMMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 138 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ A+ I +++ +K L ++K + + + +A Sbjct: 139 YAYWWIRQAITRAIAEKGRTIRLPIHITEK-----LNKIKKAQRYLAQKLGRAATANELA 193 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +L ++ ++ R SL+ + D ++ D L E ++ R + Sbjct: 194 AELELTPKQIREYLERARLPLSLD--LRVGDNQDTELGDLLEDTGASPEDFALQASLRAD 251 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L M+ L ++R + R E+ +TL + +SRERVRQIE A K++ Sbjct: 252 ----LEMLMADLTQQQREVLALRFGLEDGQTLTLSKIGDRLNISRERVRQIEREALTKLR 307 Query: 282 ESIQ 285 + Q Sbjct: 308 KRKQ 311 >gi|302876248|ref|YP_003844881.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|307686980|ref|ZP_07629426.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|302579105|gb|ADL53117.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] Length = 281 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 68/265 (25%), Positives = 125/265 (47%), Gaps = 33/265 (12%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL-PISEVVSEGNIGLMQAVKKFDP 95 L Y+ + D++A L+ ++ RLV K A + L ++V EG IGLM ++KF+ Sbjct: 16 LVTLYQTNKDITARDYLIINNKRLVYKAASLKKDTSLLAYDDLVQEGLIGLMIGIEKFNA 75 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 + + +TY +WIK + I + + +++ + ++ + NN+K Sbjct: 76 DYNSKFSTYIYYWIKQRIDRAIYNTGTSIRLPIHL--------INKINKVMYVENKNNVK 127 Query: 156 --PEQVVAIAKKLNVSESE-------------VISMNCRLAGD--ESLNALINSSDKNSS 198 + L++++ + +IS+N L D E LI+ D+NSS Sbjct: 128 SLDNDSTDLCTDLDITDKQYDYYKFLVKQFKNIISLNSALLSDNSEGDEELIDFIDENSS 187 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLE 256 + D ++ ++ KEE + L + LN RE+ + R L + + TLE Sbjct: 188 NFGDPGSKNYSIDSNII--KEELSHD---LNEVLKTLNEREQHVLRMRFGLDDGEMKTLE 242 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + + F V+RER+RQIE++A KK++ Sbjct: 243 QIGNHFNVTRERIRQIESKALKKLR 267 >gi|255312663|gb|ACU01741.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 32/61 (52%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+ L++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLVLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|207743452|ref|YP_002259844.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum IPO1609] gi|206594849|emb|CAQ61776.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum IPO1609] Length = 203 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 62/208 (29%), Positives = 103/208 (49%), Gaps = 20/208 (9%) Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R + R K HL Sbjct: 1 MHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQVLRAKRHL 58 Query: 147 Q--AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS-SQWQDW 203 + I + E + + K +V+S+N E +L D +S + D+ Sbjct: 59 EKSGIDGRDASIEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPFDLDSGTSLLDF 112 Query: 204 LVYDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN---PVTLENLS 259 L +H +Q + +E + ++ L R L+ + R + E RR N P TLE L+ Sbjct: 113 LSDEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLNHIEPATLEELA 167 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E ++RERVRQI+ A K++ Q Sbjct: 168 AEMGLTRERVRQIQQEALVKLKRHFASQ 195 >gi|87301677|ref|ZP_01084517.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87283894|gb|EAQ75848.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 349 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 57/227 (25%), Positives = 107/227 (47%), Gaps = 13/227 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 111 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 170 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + + +A + + Sbjct: 171 IRQGITRAIAEKSRTIRLPIHITE-----TLNKLKKGQRELSQELGRTPTLSELAVCVEL 225 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + CR SL + D ++ D L D + + + R + R +L Sbjct: 226 PEEEVKDLLCRARQPVSLETKVG--DGEDTELLDLLQGDGTLPAESVDSECLRGDMRALL 283 Query: 229 TRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIE 273 + L +R + R E P++L + +SR+R+R +E Sbjct: 284 EQ----LPELQRSVLSMRYGIDVEEPMSLTGIGRILGMSRDRIRNLE 326 >gi|224000633|ref|XP_002289989.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] gi|220975197|gb|EED93526.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] Length = 321 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 48/65 (73%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++RLVV IA Y G G+ + ++V EG++GL +A +KFDP++GF+ +TY+ WW Sbjct: 62 AKQRMVQCNMRLVVSIARRYHGVGVNVQDLVQEGSLGLARAAEKFDPKKGFKFSTYASWW 121 Query: 109 IKAAM 113 I+ A+ Sbjct: 122 IQQAV 126 >gi|167834949|ref|ZP_02461832.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis MSMB43] Length = 301 Score = 75.5 bits (184), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 119/237 (50%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA + GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 60 AATARMAEANLRLVLSIARKHASRGLDLADLLQEGNLGLLRAIEKFEYRRGFKFSTYATW 119 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + +RR++ I + + ++ Sbjct: 120 WIRQAISRAIADRARTIRVPVHVGDE-----VRRVRKVADRIERRSGARASLAELSAATG 174 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + +M SLNA + + D+ +++ D + D L + ++ Sbjct: 175 LPVERLRAMLMLPREPRSLNAPLGNDDQ--AEFGDLV---EDASTPSLFDALAHGQMCDV 229 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E ++++ VSRE+VR+IE RA + ++ Sbjct: 230 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAAQTGVSREQVRRIEKRALQTLR 285 >gi|325479184|gb|EGC82281.1| sigma-70, region 4 [Anaerococcus prevotii ACS-065-V-Col13] Length = 343 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 123/246 (50%), Gaps = 19/246 (7%) Query: 45 GDLSAAHRLVTSHLRLV-VKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGFRL 101 G+ +A LV + LV + + +R +G L + ++V G +G+++A +KFD G++ Sbjct: 103 GNQNALAALVEKNQGLVRSRASYFFRSHGNDLDLEDLVQSGMLGMIRAAEKFDLSLGYKF 162 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 TY+ WI A+++ I + ++I + L +LK L+A + E++ Sbjct: 163 TTYAYKWIDKAIRKAINKEGHTIRIPAGK-----YLKLNKLKQILKA--NPEASDEELYR 215 Query: 162 IAKKLNVSE---SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I + + + ++ +N SLN ++S D + D + + + +++E Sbjct: 216 ILENEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMVGDESTPVDMLILE- 274 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 K+ N L +++ L RE++I R +N P TLE + +++SRER+RQIE +A Sbjct: 275 ---KDMENFLLKALDQLTDREKQIIIYRYGLDNEKPKTLEEIGKIYDLSRERIRQIENQA 331 Query: 277 FKKVQE 282 K++E Sbjct: 332 LGKLKE 337 >gi|167916992|ref|ZP_02504083.1| RNA polymerase sigma factor [Burkholderia pseudomallei BCC215] Length = 482 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAIADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|126453822|ref|YP_001064420.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] gi|167736534|ref|ZP_02409308.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 14] gi|217424965|ref|ZP_03456461.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|242317344|ref|ZP_04816360.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] gi|254188239|ref|ZP_04894751.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|254295684|ref|ZP_04963141.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|126227464|gb|ABN91004.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] gi|157805995|gb|EDO83165.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|157935919|gb|EDO91589.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|217391985|gb|EEC32011.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|242140583|gb|EES26985.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] Length = 482 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAIADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|134284106|ref|ZP_01770800.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|167900733|ref|ZP_02487938.1| RNA polymerase sigma factor [Burkholderia pseudomallei NCTC 13177] gi|167908960|ref|ZP_02496051.1| RNA polymerase sigma factor [Burkholderia pseudomallei 112] gi|226194652|ref|ZP_03790247.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] gi|134244558|gb|EBA44662.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|225933353|gb|EEH29345.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] Length = 482 Score = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAIADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|167717486|ref|ZP_02400722.1| RNA polymerase sigma factor [Burkholderia pseudomallei DM98] Length = 294 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/237 (23%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 53 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 112 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ + +++ + RR++ I + + +++ Sbjct: 113 WIRQAISRAVADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 167 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 168 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 222 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 223 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 278 >gi|221212018|ref|ZP_03584996.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans CGD1] gi|221168103|gb|EEE00572.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans CGD1] Length = 625 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 114/241 (47%), Gaps = 28/241 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A+ ++D RGFR +TY+ WWI+ + Sbjct: 392 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWWIRQS 451 Query: 113 MQEYILRSWSLVKIGT-TANQ----KRLFFNLRRLKGHLQAITDNNLKPE--QVVAIAKK 165 + + +++ T T + RL R+ G A T + L + + V ++ Sbjct: 452 ITHALADLGRTIRVPTHTVDAINKLARLAREHRQRAG--AAATPDELAAQMGEPVDKVRE 509 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 L E +S++ +A D + + D ++ + + + RR Sbjct: 510 LMAIVKEPVSVDLPIAPDGDMTFVDVVPDASTPSPE---------------DAADAAQRR 554 Query: 226 NMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + ++ L PRE I R E +L ++ +S ERVRQIEA A +++ Sbjct: 555 AAIAAAIDRLPPREALIVRLRYGLHAGEG-CSLRDIGRRLNLSAERVRQIEASALARLRA 613 Query: 283 S 283 S Sbjct: 614 S 614 >gi|229118995|ref|ZP_04248338.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-3] gi|228664438|gb|EEL19936.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-3] Length = 294 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 71/273 (26%), Positives = 130/273 (47%), Gaps = 13/273 (4%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISE 77 I EI +L KQE L +RY+ HG+ L ++ LV+ IA Y+ + + Sbjct: 11 IKEIGNYKVLSKQESLKLFQRYK-HGEKDLRDYLFHVNVGLVLSIARKYKNKHPDIEFDD 69 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLF 136 +V EGN G+++A++ F+P G+ +TY+ WWI+ +M I + S KI NQ Sbjct: 70 LVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIQKSMLGIICKKKSGPFKIPNYVNQ---- 125 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 FNL+ ++ + + N P V + K+L+V+ VI N ++ I++ +++ Sbjct: 126 FNLKYVELEDKYLQMYNRTP-TVEEVVKELDVTSETVIRHNVYYKRATTMTLDIDTINED 184 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENPVTL 255 + + YD + ++ E + VLNP+++ + L + V L Sbjct: 185 IGMSKPF--YDDNSAIPLINEIVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYL 242 Query: 256 -ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + ++ ++ ERV QI+ A KK+++ K Sbjct: 243 HKEIAKALMITTERVSQIKEEAIKKLKKCDYKD 275 >gi|167950928|ref|ZP_02538002.1| RNA polymerase sigma factor RpoS [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 216 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/223 (28%), Positives = 115/223 (51%), Gaps = 24/223 (10%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 + + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ Sbjct: 1 MALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-V 59 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 K + LR + Q++ D+ E++ + K IS R+ G LN + S Sbjct: 60 KEINVYLRAARQLAQSL-DHEPTSEEIADLLDK-------PISEVKRMLG---LNERVTS 108 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN-----MLTRSMSVLNPRERRIFEAR- 246 D + D + D E+V ++ N +N L + LN ++R + E R Sbjct: 109 VDTPFGKDADKPLLDTIPDERV---QDPTVNIQNDGLNTNLDTWLLKLNDKQREVVERRF 165 Query: 247 --RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 EN TLE +++E V+RERVRQI+ A +++++ +++ Sbjct: 166 GLHGYENS-TLEQVANELGVTRERVRQIQMDALRRLRDILERD 207 >gi|33862400|ref|NP_893960.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33640513|emb|CAE20302.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 335 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 104/225 (46%), Gaps = 9/225 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V+++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 100 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A+ + + Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQEMGRTPTVSELAEFVEL 214 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + CR SL + D+ + ++ +E + K L Sbjct: 215 PEEEVKDLMCRARQPMSLEMKVGDGDETELLELLAGEEELPSEK---VEVDCMKGDLRTL 271 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + L R R+ E P+ L + ++SR+RVR +E Sbjct: 272 LEKLPELQGRVLRMRYGIDGGE-PMNLTGIGRILDISRDRVRNLE 315 >gi|227485585|ref|ZP_03915901.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] gi|227236451|gb|EEI86466.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] Length = 340 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/222 (25%), Positives = 114/222 (51%), Gaps = 18/222 (8%) Query: 68 YRGYG--LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 +R +G L + ++V G +G+++A +KFD G++ TY+ WI A+++ I + ++ Sbjct: 124 FRSHGNDLDLEDLVQSGMLGMIRAAEKFDLTLGYKFTTYAYKWIDKAIRKAINKEGHTIR 183 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE---SEVISMNCRLAG 182 I + L +LK L+A + E++ I + +++ ++ +N Sbjct: 184 IPAGK-----YLKLNKLKQILKA--NPEASDEEIYRILENEGINKKQADDLFLINRNQVN 236 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SLN ++S D + D + + + +++EK+ N L +++ L RE++I Sbjct: 237 STSLNINLDSEDSTGDELMDMVGDESTPVDMLILEKD----MENFLMQALDQLTDREKQI 292 Query: 243 FEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R +N P TLE + + +++SRER+RQIE +A K+++ Sbjct: 293 IIYRYGLDNEKPKTLEQIGAIYDLSRERIRQIENQALGKLKD 334 >gi|291529642|emb|CBK95228.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium rectale M104/1] Length = 340 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 77/296 (26%), Positives = 141/296 (47%), Gaps = 47/296 (15%) Query: 16 LSRYIHEIRKI-PMLEKQEEYV---LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG- 70 LS Y++E+ K P E++E+ V L++ E + + ++RLVV +A Y Sbjct: 44 LSMYMYEMSKWQPFTEEEEKQVFKELSETESEDKKKQLKDEIFSRNIRLVVYVAKRYYKN 103 Query: 71 --YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 + PI +++ E ++GL++A+ ++D G++ +TY+ WWI A I L++ Sbjct: 104 LKHMEPI-DLIDEASLGLLKAIDRYDYTTGYKFSTYAYWWINQACTRSIANDNDLIRQPV 162 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV-------------IS 175 ++ +++ + DNN V IAK+LNVSE +V IS Sbjct: 163 HIHE--FIIKVKKAQRKWGQTHDNNAP---VDYIAKELNVSEEKVRNILIIIDCQSNYIS 217 Query: 176 MNCRLA------GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 ++C ++ GD + ++ N D+ + + + +IE + N + Sbjct: 218 LDCTMSKGSEEPGDTEVGEIVLDPKGNV----DFEKVEVNQFQNRIIEILSKANNKTSAK 273 Query: 230 RSMSV------LNPRERRI-FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + SV ++ +RR F+ R++ TLE ++ + VSRER+RQIEA+A K Sbjct: 274 SNRSVEQTKRMIDVIKRRFGFDNCRIE----TLEEIAQSYGVSRERIRQIEAQALK 325 >gi|40353301|gb|AAR84414.1| essential primary sigma 70 factor [Frankia sp. ORS020607] gi|40353303|gb|AAR84415.1| essential primary sigma 70 factor [Frankia sp. CcI3] gi|40353305|gb|AAR84416.1| essential primary sigma 70 factor [Frankia sp. CeD] Length = 217 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 84/157 (53%), Gaps = 15/157 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 32 AKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 91 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 92 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKV 151 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSD 194 I L VS+ E +S+ + +E L I D Sbjct: 152 REI---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCD 184 >gi|255312659|gb|ACU01739.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 32/61 (52%), Positives = 46/61 (75%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +++ EGN+GL++AV+KFD ERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDLERGFRFSTYATWWIRQTIERAI 60 Query: 118 L 118 + Sbjct: 61 M 61 >gi|33863339|ref|NP_894899.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33640788|emb|CAE21243.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 320 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 41/146 (28%), Positives = 75/146 (51%), Gaps = 5/146 (3%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V+++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A+ + + Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITE-----MLNKLKKGQRELSQEMGRTPTVSELAEFVEL 199 Query: 169 SESEVISMNCRLAGDESLNALINSSD 194 E EV + CR SL + D Sbjct: 200 PEEEVKDLMCRARQPMSLEMKVGDGD 225 >gi|227501074|ref|ZP_03931123.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] gi|227216847|gb|EEI82245.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] Length = 344 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 123/246 (50%), Gaps = 19/246 (7%) Query: 45 GDLSAAHRLVTSHLRLV-VKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGFRL 101 G+ +A LV + LV + + +R +G L + ++V G +G+++A +KFD G++ Sbjct: 104 GNQNALAALVEKNQGLVRSRASYFFRSHGNDLDLEDLVQSGMLGMIRAAEKFDLSLGYKF 163 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 TY+ WI A+++ I + ++I + L +LK L+A + E++ Sbjct: 164 TTYAYKWIDKAIRKAINKEGHTIRIPAGK-----YLKLNKLKQILKA--NPEASDEELYR 216 Query: 162 IAKKLNVSE---SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I + + + ++ +N SLN ++S D + D + + + +++E Sbjct: 217 ILENEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMVGDESTPVDMLILE- 275 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARA 276 K+ N L +++ L RE++I R +N P TLE + +++SRER+RQIE +A Sbjct: 276 ---KDMENFLLKALDQLTDREKQIIIYRYGLDNEKPKTLEEIGKIYDLSRERIRQIENQA 332 Query: 277 FKKVQE 282 K++E Sbjct: 333 LGKLKE 338 >gi|40353311|gb|AAR84419.1| essential primary sigma 70 factor [Frankia sp. ACN14a] Length = 214 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 84/157 (53%), Gaps = 15/157 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 29 AKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 88 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + + +L P++V Sbjct: 89 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTPDKV 148 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSD 194 I L VS+ E +S+ + +E L I D Sbjct: 149 REI---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCD 181 >gi|328883104|emb|CCA56343.1| RNA polymerase principal sigma factor HrdD [Streptomyces venezuelae ATCC 10712] Length = 333 Score = 75.1 bits (183), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 117/231 (50%), Gaps = 20/231 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 101 FIKSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFSTYATWWIRQA 160 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ ++ +PE IA +L+ Sbjct: 161 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGREPEP-AEIAAELDTKPER 215 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQ---VLIEKEERKNRRNM 227 V+ + SLN ++ D+ +Q+ D L+ D EQ L+ EE + + Sbjct: 216 VVDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIDK 272 Query: 228 LT-RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L R+ S++ R R E R + TL + E ++RER+RQIE A Sbjct: 273 LDHRTASII--RMRYGIEDGRER----TLTEVGKEHGLTRERIRQIEKHAL 317 >gi|17158751|ref|NP_478262.1| transcription initiation factor sigma [Nostoc sp. PCC 7120] gi|464687|sp|Q03065|RPSB_ANASP RecName: Full=RNA polymerase sigma-B factor gi|424021|pir||B47017 probable transcription initiation factor sigma SigB - Anabaena sp gi|142112|gb|AAA22046.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] gi|17134700|dbj|BAB77258.1| transcription initiation factor sigma [Nostoc sp. PCC 7120] Length = 332 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 111/235 (47%), Gaps = 21/235 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ L +++ EG +GL + V+KFDP G++ +TY+ WW Sbjct: 97 AKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGYKFSTYAYWW 156 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I + +++ K L ++K + ++ V IA+ LN+ Sbjct: 157 IRQGITRAIAQQSRTIRLPIHMADK-----LNKIKCVQRELSQKLGYIAGVTEIAQALNL 211 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S++ + SL+ I + +Q QD L DG ER R +L Sbjct: 212 EPSQIREYLQLVRQPVSLDMRIGF--EQDTQLQDLL--KDDGM------SPERYAERELL 261 Query: 229 TRS----MSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + ++ L P+++ + R +TL +S +SRERVRQ+E +A Sbjct: 262 YQDIHNLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQVEKQAL 316 >gi|229100411|ref|ZP_04231282.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-29] gi|229107324|ref|ZP_04237193.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-28] gi|228676119|gb|EEL31095.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-28] gi|228683031|gb|EEL37038.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-29] Length = 323 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 71/273 (26%), Positives = 130/273 (47%), Gaps = 13/273 (4%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISE 77 I EI +L KQE L +RY+ HG+ L ++ LV+ IA Y+ + + Sbjct: 40 IKEIGNYKVLSKQESLKLFQRYK-HGEKDLRDYLFHVNVGLVLSIARKYKNKHPDIEFDD 98 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLF 136 +V EGN G+++A++ F+P G+ +TY+ WWI+ +M I + S KI NQ Sbjct: 99 LVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIQKSMLGIICKKKSGPFKIPNYVNQ---- 154 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 FNL+ ++ + + N P V + K+L+V+ VI N ++ I++ +++ Sbjct: 155 FNLKYVELEDKYLQMYNRTP-TVEEVVKELDVTSETVIRHNVYYKRATTMTLDIDTINED 213 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENPVTL 255 + + YD + ++ E + VLNP+++ + L + V L Sbjct: 214 IGMSKPF--YDDNSAIPLINEIVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYL 271 Query: 256 -ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + ++ ++ ERV QI+ A KK+++ K Sbjct: 272 HKEIAKALMITTERVSQIKEEAIKKLKKCDYKD 304 >gi|166364164|ref|YP_001656437.1| RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] gi|166086537|dbj|BAG01245.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 328 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 65/302 (21%), Positives = 133/302 (44%), Gaps = 56/302 (18%) Query: 19 YIHEIRKIPMLEKQEEYVLAK--------------------------------------- 39 Y+HEI ++P+L ++E + K Sbjct: 23 YLHEIGRVPLLTHEQEIIYGKQVQRMMSLLETKEALSKQLGREPDRLEWADSVNLSENEL 82 Query: 40 -RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 R + GD A +++ ++LRLVV IA Y+ + +++ EG++GL + V+KFDP +G Sbjct: 83 DRALKTGD-RAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKG 141 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 ++ +TY+ WWI+ A+ I + +++ +K ++R + L + P + Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEK--LNKIKRTQRELAQKLGRSATPAE 199 Query: 159 VVAIAKKLNVSE-SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +A+ +L ++ E +SM + ++ + D ++ + L + + + Sbjct: 200 -IALELELEPAQIREYLSM-----ARQPISLDVRVGDNQDTELSELLEDSGVSPDTFITQ 253 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEAR 275 + R++ N+L L P++R + R ++L + +SRERVRQ+E + Sbjct: 254 ELLRQDLANLLAE----LTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQ 309 Query: 276 AF 277 A Sbjct: 310 AL 311 >gi|124026787|ref|YP_001015902.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|123961855|gb|ABM76638.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL1A] Length = 335 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 61/241 (25%), Positives = 114/241 (47%), Gaps = 14/241 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + + +++ + + Sbjct: 160 IRQGITRAIAEKSRSIRLPIHITEM-----LNKLKKGQRELSQELSRTPTLKELSEYVEL 214 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNM 227 E++V + R SL I D + D L + D EQ IE + K Sbjct: 215 PETDVKDLMSRAGQPVSLETKIG--DGEDTILLDLLSNEIDMPSEQ--IESDCMKGDLET 270 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE---ARAFKKVQESI 284 L + L R R+ ++P++L + +SR+RVR +E R +K +S+ Sbjct: 271 LLEQLPELQNRVLRMRYGMD-GDDPMSLTGIGRVLGISRDRVRNLERDGLRGLRKTGDSV 329 Query: 285 Q 285 + Sbjct: 330 E 330 >gi|326773494|ref|ZP_08232777.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] gi|326636724|gb|EGE37627.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] Length = 164 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 44/122 (36%), Positives = 68/122 (55%), Gaps = 27/122 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH------GDLSAAHR--------------- 52 Y+ +I K+ +L ++E LAKR Y EH DL A R Sbjct: 27 YLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEEGNDLPAKLRRELHWVAQDGQRAKN 86 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 87 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQ 146 Query: 112 AM 113 A+ Sbjct: 147 AI 148 >gi|326773500|ref|ZP_08232783.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] gi|326636730|gb|EGE37633.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] Length = 311 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 44/122 (36%), Positives = 68/122 (55%), Gaps = 27/122 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-----YREH------GDLSAAHR--------------- 52 Y+ +I K+ +L ++E LAKR Y EH DL A R Sbjct: 167 YLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEEGNDLPAKLRRELHWVAQDGQRAKN 226 Query: 53 -LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 227 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQ 286 Query: 112 AM 113 A+ Sbjct: 287 AI 288 >gi|48743|emb|CAA37174.1| unnamed protein product [Streptomyces coelicolor A3(2)] Length = 332 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 76/290 (26%), Positives = 134/290 (46%), Gaps = 43/290 (14%) Query: 19 YIHEIRKIPMLEKQEEYVLAKR-------------YREHGDLSAAHRL------------ 53 Y+ EI + P+L+ +E L++ Y E G + L Sbjct: 39 YLDEIARTPLLDAAKEVELSQTIEAGVFARQVLEGYEETGADATREELQALIDESERAKD 98 Query: 54 --VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ Sbjct: 99 VFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQ 158 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ I +++ ++ +RR++ ++ +PE IA +L + Sbjct: 159 AITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGREPEP-AEIAAELGSTPE 213 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLT 229 V + SLN ++ D+ +Q+ D L+ D EQ ++ + +++ Sbjct: 214 RVHDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIG 270 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R L+PR I + R ++ TL + E ++RER+RQIE A Sbjct: 271 R----LDPRTASIIKMRYGIDDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|124022691|ref|YP_001016998.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123962977|gb|ABM77733.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 320 Score = 74.7 bits (182), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 41/146 (28%), Positives = 75/146 (51%), Gaps = 5/146 (3%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V+++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A+ + + Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITE-----MLNKLKKGQRELSQEMGRTPTVSELAEFVEL 199 Query: 169 SESEVISMNCRLAGDESLNALINSSD 194 E EV + CR SL + D Sbjct: 200 PEEEVKDLMCRARQPMSLEMKVGDGD 225 >gi|124021877|ref|YP_001016184.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123962163|gb|ABM76919.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 350 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 104/225 (46%), Gaps = 9/225 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V+++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 115 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 174 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + V +A+ + + Sbjct: 175 IRQGITRAIAEKSRTIRLPIHITEM-----LNKLKKGQRELSQEMGRTPTVSELAEFVEL 229 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV + CR SL + D+ + ++ +E + K L Sbjct: 230 PEEEVKDLMCRARQPMSLEMKVGDGDETELLELLAGEEELPSEK---VEVDCMKGDLRTL 286 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + L R R+ E P+ L + ++SR+RVR +E Sbjct: 287 LEKLPELQGRVLRMRYGIDGGE-PMNLTGIGRILDISRDRVRNLE 330 >gi|53717743|ref|YP_106729.1| RNA polymerase sigma factor [Burkholderia pseudomallei K96243] gi|52208157|emb|CAH34087.1| RNA polymerase sigma factor [Burkholderia pseudomallei K96243] Length = 482 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 57/237 (24%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ I +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAIADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVNASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|302335912|ref|YP_003801119.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Olsenella uli DSM 7084] gi|301319752|gb|ADK68239.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Olsenella uli DSM 7084] Length = 276 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 69/266 (25%), Positives = 121/266 (45%), Gaps = 29/266 (10%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +K+ L +RY+ GD A +LV SHL LV +A ++ G P+ ++V G IGL++A Sbjct: 28 DKERTRELFRRYKVEGDEDAREQLVMSHLNLVRFLASKFKNRGEPLDDLVQVGTIGLIKA 87 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 + +FDPERG T++ I ++ + + WS+ R+ L+ L + Sbjct: 88 IDRFDPERGLEFTTFATPTIMGEIKRHFRDKGWSV----------RVPRRLQELSAKVNQ 137 Query: 149 ITDNNLKPEQVVAIAKKLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 +TD + K L S S E I+ DE L A+ +SS +S + Sbjct: 138 VTDE---------LTKDLQRSPSVEEIAAALDTTVDEVLEAMESSSAYSSVPLEGTGPGA 188 Query: 208 HDGQEQVL------IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D V+ E + R ++ ++ +PRE+ I R ++ +T ++ Sbjct: 189 DDDAPSVIDHYATVDEDLAASDDRMVIEETVRDFSPREQEIIRMRFIE--GLTQVEIARR 246 Query: 262 FEVSRERVRQIEARAFKKVQESIQKQ 287 +S+ +V ++ R +KVQE I + Sbjct: 247 LGISQVQVSRLLRRTLQKVQEKIDPE 272 >gi|76812098|ref|YP_331741.1| RNA polymerase sigma factor [Burkholderia pseudomallei 1710b] gi|254261622|ref|ZP_04952676.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] gi|76581551|gb|ABA51026.1| RNA polymerase sigma factor [Burkholderia pseudomallei 1710b] gi|254220311|gb|EET09695.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] Length = 482 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 56/237 (23%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ + +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAVADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|237810316|ref|YP_002894767.1| RNA polymerase sigma factor [Burkholderia pseudomallei MSHR346] gi|237504080|gb|ACQ96398.1| RNA polymerase sigma factor [Burkholderia pseudomallei MSHR346] Length = 482 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 56/237 (23%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ + +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAVADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|254182275|ref|ZP_04888872.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] gi|184212813|gb|EDU09856.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] Length = 482 Score = 74.7 bits (182), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 56/237 (23%), Positives = 117/237 (49%), Gaps = 14/237 (5%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A R+ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 241 AATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKFSTYATW 300 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 WI+ A+ + +++ + RR++ I + + +++ Sbjct: 301 WIRQAISRAVADRARTIRVPVHVGDE-----ARRVRKAADRIERRSGVSASLAELSEATG 355 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + ++ SLNA + D + +++ D + D L + ++ Sbjct: 356 LPAERLRAVLTLPREPRSLNAPLG--DDDQAEFGDIV---EDTSTPSLFDALAHGQMCDV 410 Query: 228 LTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +E I RR + P + E +++ VSRE+VR+IE RA + ++ Sbjct: 411 VTSLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLR 466 >gi|221195774|ref|ZP_03568827.1| RNA polymerase sigma-F factor [Atopobium rimae ATCC 49626] gi|221184248|gb|EEE16642.1| RNA polymerase sigma-F factor [Atopobium rimae ATCC 49626] Length = 276 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 72/277 (25%), Positives = 123/277 (44%), Gaps = 38/277 (13%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 R P +K L +Y+E D +L+ SHL LV +A ++ G P+ +++ G Sbjct: 21 RGTPAWDKDRTRKLFAQYQETHDSEVRDQLIVSHLNLVRFLASKFKNRGEPLDDLIQVGT 80 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL++A+ +FDP RG TY+ I ++ + + WS+ R+ L+ L Sbjct: 81 IGLIKAIDRFDPSRGLEFTTYATPTIMGEIKRHFRDKGWSV----------RVPRRLQEL 130 Query: 143 KGHLQAITDNNLKPEQ----VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + ITD Q + IAKKL VS EV+ + SS SS Sbjct: 131 SAKVNQITDELTTELQRSPSIEEIAKKLGVSVDEVLEA-------------MESSGAYSS 177 Query: 199 QWQDWLVYDHDGQE------QVLIEKE--ERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + DG E Q + E E + R +L +++ +PRE+ I R ++ Sbjct: 178 VPLEGGGSSVDGDEAPSIIDQYITEDEALAGSDDRIVLEDAIADFSPREQEIIRMRFVE- 236 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +T ++ + +S+ +V ++ R K++QE I + Sbjct: 237 -GLTQVEIAEKLGISQVQVSRLLRRTLKRIQEKIDPE 272 >gi|294629875|ref|ZP_06708435.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] gi|292833208|gb|EFF91557.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] Length = 332 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 107/231 (46%), Gaps = 20/231 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ L L R++ + N + + IA +L + Sbjct: 160 ITRSIADQSRTIRLPV-----HLVEELGRIRRVQREFNRENGRDPEPAEIAAELGSTPER 214 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNML 228 V + SLN ++ D+ +Q+ D L + L+ EE L Sbjct: 215 VADVLDWARDPVSLNMSVD--DEGETQFGDLLEDTSAVSPEQSVMTLLRSEE-------L 265 Query: 229 TRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 + L+ R I + R E+ TL + E ++RER+RQIE A Sbjct: 266 DDLIGRLDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|239981636|ref|ZP_04704160.1| RNA polymerase principal sigma factor hrdD [Streptomyces albus J1074] gi|291453499|ref|ZP_06592889.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|17366575|sp|Q59914|HRDD_STRGR RecName: Full=RNA polymerase principal sigma factor hrdD gi|510454|emb|CAA56305.1| sigma factor [Streptomyces griseus] gi|291356448|gb|EFE83350.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 332 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 83/311 (26%), Positives = 137/311 (44%), Gaps = 56/311 (18%) Query: 7 SIIVNGEIG----LSRYIHEIRKIPMLEKQEEYVLAKRYREHG-------------DLSA 49 S+ GEI + Y+ EI + P+L+ +E L++ E G D + Sbjct: 22 SVRATGEIADRDLVGMYLDEIARTPLLDAAKEVELSQTI-EAGVYAGKILDGEVDSDSAG 80 Query: 50 AHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF 93 A R + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KF Sbjct: 81 ASREELEALVAEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKF 140 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 D +GF+ +TY+ WWI+ A+ I +++ L L R++ + N Sbjct: 141 DYAKGFKFSTYATWWIRQAITRSIADQSRTIRLPV-----HLVEELGRIRRVQREFNREN 195 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--Q 211 + + IA +L+ + V + SLN ++ D+ +Q+ D L+ D Sbjct: 196 GRDPEPAEIAAELSSTPERVTDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSP 252 Query: 212 EQ---VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSR 266 EQ L+ EE L + L+ R I + R E+ TL + + ++R Sbjct: 253 EQSVLTLLRSEE-------LDDLIGQLDDRTASIIKMRYGIEDGRERTLTEVGKQHGLTR 305 Query: 267 ERVRQIEARAF 277 ER+RQIE A Sbjct: 306 ERIRQIEKHAL 316 >gi|307107488|gb|EFN55731.1| hypothetical protein CHLNCDRAFT_35462 [Chlorella variabilis] Length = 267 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 68/247 (27%), Positives = 117/247 (47%), Gaps = 26/247 (10%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA-TYS 105 L A +V ++RLVV IA Y G GL + ++V+EG +GL +AV KFD ++ Y+ Sbjct: 24 LQAREHMVNCNMRLVVSIAKKYVGRGLALQDLVAEGMVGLQRAVDKFDASTRLQVTPAYA 83 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WWI+ ++ I +V++ ++ +RR + QA+ D A+A + Sbjct: 84 HWWIRQSVTRAISDQARVVRLPVHLHEA--MGKVRRAE---QALWDETGLLPAPQAVADR 138 Query: 166 LNVSESEVISMNCRL------AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 ++ S+++++ G +L A + QW + G+E + Sbjct: 139 CGLTHSKLMALYKSFRAPTSRDGVPTLGAGSVDAKAPGEQW-----VEEVGEE----DPA 189 Query: 220 ERKNRRNM---LTRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEA 274 E + R M L + L RE I + R ++ TLE + F V+RER+RQIEA Sbjct: 190 ELAHHRMMKEDLNHVLLTLTERECGIIKMRYGLDDGEEKTLEEVGRAFNVTRERIRQIEA 249 Query: 275 RAFKKVQ 281 +A +K++ Sbjct: 250 KAIRKLR 256 >gi|260653773|dbj|BAI44426.1| DNA-directed RNA polymerase sigma 32 subunit, RpoH subfamily [Monochamus alternatus] Length = 56 Score = 74.3 bits (181), Expect = 2e-11, Method: Composition-based stats. Identities = 32/54 (59%), Positives = 43/54 (79%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 D+S+AH+L+TSHL LV KIAM ++ YGL ++V EGN+GLM VKKF+P+ GF Sbjct: 3 DISSAHKLITSHLNLVXKIAMKFKNYGLLFMDLVMEGNMGLMHPVKKFNPDLGF 56 >gi|219111033|ref|XP_002177268.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217411803|gb|EEC51731.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 324 Score = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/249 (25%), Positives = 126/249 (50%), Gaps = 28/249 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V S++RLVV IA Y G+ + ++V EG++GL +A +KF+P++GF+ +TY+ WW Sbjct: 71 AKQRMVQSNMRLVVSIARKYSNVGVSLQDLVQEGSLGLSRAAEKFEPKKGFKFSTYASWW 130 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITDNNLKPEQVVAIA 163 I+ A+ I +++ + L +R+++ +LQ T+ + E + + Sbjct: 131 IQQAVFRSIAYHSRTIRLPVHVHN--LLNRVRKVRNNLQRELSRTPTNEEMAEELGMTLQ 188 Query: 164 K--------KLNVS-ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 K K ++S E+ N + G ES + L ++ +S+ ++D E+ Sbjct: 189 KYNKMLRLTKRSISLETPKYQSNPKDLGHESHDLLGDTISASSA------LFDESTPEK- 241 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQI 272 + +R L + +L+ ERR+ +R + + T+ ++S+ + S+ VR Sbjct: 242 ---RVDRGIFHEDLHEMLEILDEDERRVICSRYGLSDGLTRTVTAVASQMKQSKAWVRSQ 298 Query: 273 EARAFKKVQ 281 E RA +K++ Sbjct: 299 ECRALRKLR 307 >gi|23978372|dbj|BAC21150.1| principal sigma factor [Synechococcus sp. PCC 7001] Length = 203 Score = 73.9 bits (180), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/216 (26%), Positives = 111/216 (51%), Gaps = 17/216 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S RLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSKFRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A + ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D++ D + EQ + + R++ +L Sbjct: 116 RFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADIENPEQDVAKNLLREDLEGVL--- 168 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 + L+PRER + R ++ TLE + F+V+ Sbjct: 169 -ATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVT 203 >gi|72383045|ref|YP_292400.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL2A] gi|72002895|gb|AAZ58697.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL2A] Length = 335 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 61/241 (25%), Positives = 114/241 (47%), Gaps = 14/241 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+V ++LRLVV +A Y + + +++ EG IGL++ V+KFDP RG++ +TY+ WW Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + I +++ + L +LK + ++ + + +++ + + Sbjct: 160 IRQGITRAIAEKSRSIRLPIHITEM-----LNKLKKGQRELSQELSRTPTLKELSEYVEL 214 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNM 227 E++V + R SL I D + D L + D EQ IE + K Sbjct: 215 PETDVKDLMSRAGQPVSLETKIG--DGEDTILLDLLSNEIDMPSEQ--IESDCMKGDLET 270 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE---ARAFKKVQESI 284 L + L R R+ ++P++L + +SR+RVR +E R +K +S+ Sbjct: 271 LLEQLPELQNRVLRMRYGID-GDDPMSLTGIGRVLGISRDRVRNLERDGLRGLRKTGDSV 329 Query: 285 Q 285 + Sbjct: 330 E 330 >gi|67078088|ref|YP_245708.1| RNA polymerase sigma factor (sigma-A) (sigma-43) [Bacillus cereus E33L] gi|66970394|gb|AAY60370.1| RNA polymerase sigma factor (sigma-A) (sigma-43) [Bacillus cereus E33L] Length = 323 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 75/296 (25%), Positives = 126/296 (42%), Gaps = 59/296 (19%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISE 77 I EI +L KQE L +RY+ HG+ L ++ LV+ IA Y+ + + Sbjct: 40 IKEIGNYQVLSKQESLNLFQRYK-HGEKDLRDYLFHVNVGLVLSIARKYKNKHPDIEFDD 98 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLF 136 +V EGN G+++A++ F+P+ G+ +TY+ WWIK M I + S KI NQ Sbjct: 99 LVQEGNEGMLRAMEDFNPDLGYCFSTYAFWWIKKRMLGIICKKRSGPFKIPNYVNQ---- 154 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC------------------ 178 FNL+ ++ + + N +P V + K+L+V+ VI N Sbjct: 155 FNLKYVELEDKYLQMYN-RPPSVEEVVKELDVTSEIVIRHNVYYKRVTTMTLDIDTINED 213 Query: 179 -----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 D+S IN ++ WL++D Sbjct: 214 IGISNSFYDDKSAIPSINEMVIEDLNYEIWLIFD-------------------------E 248 Query: 234 VLNPRERRIFE-ARRLQENPVTL-ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 VLNP+++ + L + V L + ++ ++ ERV QI+ A KK+++ K Sbjct: 249 VLNPKQKMVLNLCFGLLDGKVYLHKEIAKALMITTERVSQIKEEAIKKLKKCDYKD 304 >gi|24215303|ref|NP_712784.1| RNA polymerase sigma factor WhiG [Leptospira interrogans serovar Lai str. 56601] gi|45657258|ref|YP_001344.1| RNA polymerase sigma factor WhiG [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] gi|24196402|gb|AAN49802.1| RNA polymerase sigma factor WhiG [Leptospira interrogans serovar Lai str. 56601] gi|45600496|gb|AAS69981.1| RNA polymerase sigma-28 factor [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] Length = 266 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 78/267 (29%), Positives = 131/267 (49%), Gaps = 29/267 (10%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGL 86 +Q+E L K YRE D LV + LV +A G G+P ++VS G GL Sbjct: 10 QQDETELWKSYRETKDQDIRSYLVEKYSPLVKHVA-GRIAIGMPQNVEFDDLVSYGVFGL 68 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS--WSLVKIGTTANQKRLFFNLRRLKG 144 + A++KFDPER + TY+M I+ ++ + LRS W I A Q L ++ G Sbjct: 69 LDAIEKFDPERLIKFKTYAMTRIRGSIFDE-LRSIDWIPRSIRQKAKQ------LEQIIG 121 Query: 145 HLQAITDNNLKPEQV--VAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSS-Q 199 L+ N + +QV AIAK+L +S E S+ +++G SLN + D+N Sbjct: 122 MLE-----NKEGQQVDDDAIAKELGISMEEYNSLLTKISGTSLVSLNDIWFLGDENDEVS 176 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 + + L + +IEKEE K N++ ++ L +E+++ ++ +TL+ + Sbjct: 177 FMETLESPMNMNPDTIIEKEEIK---NVIVEAIKTLPEKEKKVIVLYYYED--LTLKEIG 231 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 EV+ R+ Q+ RA +++ + K Sbjct: 232 EVLEVTESRISQLHTRAVSRLRSKLGK 258 >gi|157826499|ref|YP_001495563.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] gi|157801803|gb|ABV78526.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] Length = 514 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 32/80 (40%), Positives = 50/80 (62%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L A ++ ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ Sbjct: 386 LQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 445 Query: 107 WWIKAAMQEYILRSWSLVKI 126 WWI+ A+ I ++I Sbjct: 446 WWIRQAITRAIADQARTIRI 465 >gi|153311|gb|AAA26765.1| principal sigma-like factor [Streptomyces aureofaciens] gi|450079|prf||1920369C RNA polymerase:SUBUNIT=sigma Length = 325 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 65/229 (28%), Positives = 114/229 (49%), Gaps = 16/229 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV + Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 93 FIRSNLRLVVAVVRRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFSTYATWWIRQA 152 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ +N PE IA +L+ +E Sbjct: 153 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--RENGRDPEH-AEIAAELDSTEKR 207 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLTR 230 V + SLN ++ D+ +Q+ D L+ D EQ ++ + ++L + Sbjct: 208 VGDVLDWARDPVSLNMSVD--DEGDTQFGD-LLEDTSAISPEQSVLSLLRSEELEDLLGK 264 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L+ R I + R E+ TL + + ++RER+RQIE A Sbjct: 265 ----LDQRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHAL 309 >gi|291448259|ref|ZP_06587649.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Streptomyces roseosporus NRRL 15998] gi|291351206|gb|EFE78110.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Streptomyces roseosporus NRRL 15998] Length = 360 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 40/122 (32%), Positives = 67/122 (54%), Gaps = 28/122 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 222 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 280 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 281 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 340 Query: 112 AM 113 A+ Sbjct: 341 AI 342 >gi|260906263|ref|ZP_05914585.1| RNA polymerase, sigma 32 subunit, RpoH [Brevibacterium linens BL2] Length = 903 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 82/295 (27%), Positives = 128/295 (43%), Gaps = 64/295 (21%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKR-----YREH--------------------GDLSAA 50 L Y+ +I + P+L EE +AKR Y H D +AA Sbjct: 579 LGVYLKQIGQYPLLSAAEEVAVAKRIEAGMYATHVLSLGQYQTRRERRALEWVKADGAAA 638 Query: 51 HR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +VTS+LRLVV IA + L + +++ EGN+GL++AV+KFD +G + +TY+ WWI Sbjct: 639 YEEMVTSNLRLVVSIAKRFNRSKLDLLDLIQEGNLGLVRAVQKFDYTKGNKFSTYATWWI 698 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRL----------FFNLRRLKGHLQAITDNNLKPEQV 159 + + IG TA RL F+N R A ++ K EQ Sbjct: 699 RQGIDR---------GIGDTAKTIRLPIHLFEKASEFWNCMRDDESRAACDHDHSKVEQA 749 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + + VS + + ESL + + D V+ D E +++ E Sbjct: 750 L---RMQPVSLEGYLELQWDGHYAESLMSF-------DDRIADPDVF-TDNPETKIVDGE 798 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQ 271 + +++ L RE I RR E P TL+ + + F V+RER+RQ Sbjct: 799 LLETVNSVVDS----LPAREAEIIR-RRFGWNGEPPQTLDAIGNRFAVTRERIRQ 848 >gi|167561013|ref|ZP_02353929.1| RNA polymerase sigma factor [Burkholderia oklahomensis EO147] Length = 476 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 61/246 (24%), Positives = 126/246 (51%), Gaps = 32/246 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 235 AATGKMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIQKFEYRRGFKFSTYATW 294 Query: 108 WIKAAMQEYIL-RSWSL---VKIGTTANQKRLFFN-LRRLKGHLQAITD----NNLKPEQ 158 WI+ A+ + R+ ++ V +G A + R + +++ G ++ + L E+ Sbjct: 295 WIRQAISRAVADRARTIRLPVHVGDQARRVRKIADRIKQRSGMRASLAELSEATELSTER 354 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + A+ L + E S+N L D + +++ D + D L + Sbjct: 355 LRAV---LELPR-EPRSLNTPLG------------DDDQAEFGDLV---EDASTPSLFDA 395 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEAR 275 R+++ + ++ +E I RR + P + E ++++ VSRE++R+IE R Sbjct: 396 LAGAQMRDVVASLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAAQSGVSREQIRRIEKR 454 Query: 276 AFKKVQ 281 A + ++ Sbjct: 455 ALQTLR 460 >gi|167568274|ref|ZP_02361148.1| RNA polymerase sigma factor [Burkholderia oklahomensis C6786] Length = 483 Score = 73.9 bits (180), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 61/246 (24%), Positives = 126/246 (51%), Gaps = 32/246 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++ ++LRLV+ IA Y GL +++++ EGN+GL++A++KF+ RGF+ +TY+ W Sbjct: 242 AATGKMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIQKFEYRRGFKFSTYATW 301 Query: 108 WIKAAMQEYIL-RSWSL---VKIGTTANQKRLFFN-LRRLKGHLQAITD----NNLKPEQ 158 WI+ A+ + R+ ++ V +G A + R + +++ G ++ + L E+ Sbjct: 302 WIRQAISRAVADRARTIRLPVHVGDQARRVRKIADRIKQRSGMRASLAELSEATELSTER 361 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + A+ L + E S+N L D + +++ D + D L + Sbjct: 362 LRAV---LELPR-EPRSLNTPLG------------DDDQAEFGDLV---EDASTPSLFDA 402 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEAR 275 R+++ + ++ +E I RR + P + E ++++ VSRE++R+IE R Sbjct: 403 LAGAQMRDVVASLLKTMSAQEADILR-RRFGIGGDEPWSYEQIAAQSGVSREQIRRIEKR 461 Query: 276 AFKKVQ 281 A + ++ Sbjct: 462 ALQTLR 467 >gi|330955107|gb|EGH55367.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae Cit 7] Length = 216 Score = 73.6 bits (179), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 61/220 (27%), Positives = 102/220 (46%), Gaps = 28/220 (12%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + Sbjct: 1 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVH 58 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQV--------VAIAKKLNVSESEVISMNCRLAGD 183 L R+ + PE++ I K L +++ E ISM + D Sbjct: 59 MIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAK-EPISMETPIGDD 117 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 E S D++ D Q I+ ++ + +S L RE ++ Sbjct: 118 E------------DSHLGDFI---EDSTMQSPIDVATVESLKEATREVLSGLTAREAKVL 162 Query: 244 EARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R + TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 163 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 202 >gi|189348175|ref|YP_001941371.1| RNA polymerase sigma 28 subunit [Burkholderia multivorans ATCC 17616] gi|189338313|dbj|BAG47381.1| RNA polymerase sigma 28 subunit [Burkholderia multivorans ATCC 17616] Length = 612 Score = 73.6 bits (179), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 109/239 (45%), Gaps = 24/239 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A+ ++D RGFR +TY+ WWI+ + Sbjct: 379 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWWIRQS 438 Query: 113 MQEYILRSWSLVKIGT-TANQ----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 + + +++ T T + RL R+ G + + + V + L Sbjct: 439 ITHALADLGRTIRVPTHTVDAINKLARLAREHRQRAGATATPAELAAQMGEPVDKVRDLM 498 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E +S + +A D + + D ++ + + + RR Sbjct: 499 AIVKEPVSADLPIAPDGDMTFVDVVPDASTPSPE---------------DAADAAQRRAA 543 Query: 228 LTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ L PRE I R E +L ++ +S ERVRQIEA A +++ S Sbjct: 544 IAAAIDRLPPREALIVRLRYGLHAGEG-CSLRDIGRRLNLSAERVRQIEASALARLRAS 601 >gi|11133042|sp|Q60012|HRDD_STRVF RecName: Full=RNA polymerase principal sigma factor hrdD gi|1407711|gb|AAB03580.1| sigma factor [Streptomyces viridifaciens] Length = 332 Score = 73.6 bits (179), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 113/231 (48%), Gaps = 20/231 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ + +P +V A +L + Sbjct: 160 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFNREHGRDPEPAEVAA---ELGSTPER 214 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQ---VLIEKEERKNRRNM 227 VI + SLN ++ D +Q+ D L+ D EQ L+ EE + Sbjct: 215 VIDVLDWARDPVSLNMAVD--DAGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 228 LT-RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L R+ S++ R I + R TL + E ++RER+RQIE A Sbjct: 272 LDQRTASIIKMR-YGIDDGRER-----TLTEVGKEHGLTRERIRQIEKHAL 316 >gi|302555769|ref|ZP_07308111.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302473387|gb|EFL36480.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 339 Score = 73.6 bits (179), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 75/301 (24%), Positives = 140/301 (46%), Gaps = 46/301 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYR----------------------EHGDLSAAHR- 52 L +Y+ +I P+L ++E LA+R G+L R Sbjct: 39 LGQYLAQIGATPLLTAEDEVRLARRMEAGVRALEELDRSDADDDGLAPGRRGELEETARD 98 Query: 53 -------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +V ++LRLVV +A + GLP+ +V+ EGN+GL++AV+KFD +GF+ +TY+ Sbjct: 99 GQRAKDHMVRANLRLVVSMARRHAHRGLPLLDVIQEGNLGLIRAVEKFDHTKGFKFSTYA 158 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WWI+ +++ + V++ ++ + +++ LQ D +P V +A++ Sbjct: 159 TWWIRQSIERGLAAHARTVRLPMQVVEQ--LQKIAKVERRLQ--LDLGREP-SVAEVARE 213 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERKN 223 ++E + + R G ++++ D + D L+ D +VL E E Sbjct: 214 SGLAEDRIDWL--RRVGRQAVSLDTPVDDTGETVVGD-LIPD----TEVLQAPEVAEYTA 266 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L ++ L PRE I R L + T + ++ ++RERVRQ+E + +++ Sbjct: 267 LAEELREAVGTLGPREAMILSLRYGLHDGHTRTRDEVARRVGLTRERVRQLEKASLARLR 326 Query: 282 E 282 E Sbjct: 327 E 327 >gi|284030454|ref|YP_003380385.1| putative RNA polymerase, sigma 70 family subunit [Kribbella flavida DSM 17836] gi|283809747|gb|ADB31586.1| putative RNA polymerase, sigma 70 family subunit [Kribbella flavida DSM 17836] Length = 301 Score = 73.6 bits (179), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 34/79 (43%), Positives = 53/79 (67%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ +LRLVV +A Y G GL + +++ EGNIGLM+AV++FD + G R +TY++WWI+ Sbjct: 82 RMIEGNLRLVVSLAKRYTGKGLSLLDLIQEGNIGLMRAVERFDYKLGHRFSTYAIWWIRQ 141 Query: 112 AMQEYILRSWSLVKIGTTA 130 A+ I LV++ A Sbjct: 142 ALGRAISDRSRLVRMPAQA 160 >gi|302543058|ref|ZP_07295400.1| RNA polymerase principal sigma factor HrdD [Streptomyces hygroscopicus ATCC 53653] gi|302460676|gb|EFL23769.1| RNA polymerase principal sigma factor HrdD [Streptomyces himastatinicus ATCC 53653] Length = 333 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 120/230 (52%), Gaps = 18/230 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 101 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYTKGFKFSTYATWWIRQA 160 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ ++ +PE + IA++L S E Sbjct: 161 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGREPEH-MEIAEELG-STPE 214 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLT 229 +S A D SLN ++ D+ +Q+ D L+ D EQ ++ + +++ Sbjct: 215 RVSDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVMTLLRSEELEDLIG 271 Query: 230 RSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAF 277 R L+ R I +AR ++ TL + + ++RER+RQIE A Sbjct: 272 R----LDDRTASIIKARYGIDDGRERTLTEVGKQHGLTRERIRQIEKHAL 317 >gi|297200336|ref|ZP_06917733.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] gi|197709451|gb|EDY53485.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] Length = 332 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 113/229 (49%), Gaps = 16/229 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ + +P + IA +L + Sbjct: 160 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFNREHGRDPEPAE---IAAELGSNAER 214 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLTR 230 V+ + SLN ++ D +Q+ D L+ D EQ ++ + +++ R Sbjct: 215 VVDVLDWARDPVSLNMSVD--DDGDTQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L+ R I + R E+ TL + E ++RER+RQIE A Sbjct: 272 ----LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|125585746|gb|EAZ26410.1| hypothetical protein OsJ_10293 [Oryza sativa Japonica Group] Length = 497 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 32/87 (36%), Positives = 57/87 (65%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R + +S + +V S++RLV+ IA + G G+ S+++ EG GL++ +KFD +GF Sbjct: 247 RKRLNYGISCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGF 306 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 R +TYS WWIK A+++ +L ++++ Sbjct: 307 RFSTYSHWWIKQAIRKSVLEQTQIIRL 333 >gi|23978337|dbj|BAC21138.1| principal sigma factor [Pseudanabaena sp. PCC 7367] Length = 203 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 58/216 (26%), Positives = 111/216 (51%), Gaps = 17/216 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D++ D + + + + R++ N+L Sbjct: 116 RFIAKSAQLP--ISLETPIGKEE--DSRLGDFIESDGETPDDQVAKNLLREDLENVL--- 168 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 L+PRER + + R ++ TLE + F V+ Sbjct: 169 -GTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|159137617|gb|ABW88899.1| HrdB [Streptomyces cacaoi subsp. asoensis] Length = 133 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 40/122 (32%), Positives = 67/122 (54%), Gaps = 28/122 (22%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 2 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKN 60 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 61 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 120 Query: 112 AM 113 A+ Sbjct: 121 AI 122 >gi|161522996|ref|YP_001585925.1| RpoD family RNA polymerase sigma factor [Burkholderia multivorans ATCC 17616] gi|160346549|gb|ABX19633.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans ATCC 17616] Length = 625 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 109/239 (45%), Gaps = 24/239 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L ++LRLVV IA Y GLP ++++ EGNIGL++A+ ++D RGFR +TY+ WWI+ + Sbjct: 392 LFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWWIRQS 451 Query: 113 MQEYILRSWSLVKIGT-TANQ----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 + + +++ T T + RL R+ G + + + V + L Sbjct: 452 ITHALADLGRTIRVPTHTVDAINKLARLAREHRQRAGATATPAELAAQMGEPVDKVRDLM 511 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E +S + +A D + + D ++ + + + RR Sbjct: 512 AIVKEPVSADLPIAPDGDMTFVDVVPDASTPSPE---------------DAADAAQRRAA 556 Query: 228 LTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ L PRE I R E +L ++ +S ERVRQIEA A +++ S Sbjct: 557 IAAAIDRLPPREALIVRLRYGLHAGEG-CSLRDIGRRLNLSAERVRQIEASALARLRAS 614 >gi|297159879|gb|ADI09591.1| RNA polymerase principal sigma factor hrdD [Streptomyces bingchenggensis BCW-1] Length = 333 Score = 73.2 bits (178), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 119/230 (51%), Gaps = 18/230 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 101 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYTKGFKFSTYATWWIRQA 160 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ ++ +PE IA +L S +E Sbjct: 161 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGREPEH-SEIAAELG-STTE 214 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLT 229 +S A D SLN ++ D+ +Q+ D L+ D EQ ++ + +++ Sbjct: 215 RVSDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVMTLLRSEELEDLIG 271 Query: 230 RSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAF 277 R L+ R I +AR ++ TL + + ++RER+RQIE A Sbjct: 272 R----LDDRTASIIKARYGIDDGRERTLTEVGKQHGLTRERIRQIEKHAL 317 >gi|313810026|gb|EFS47747.1| sigma-70 region 2 [Propionibacterium acnes HL083PA1] Length = 464 Score = 73.2 bits (178), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 43/137 (31%), Positives = 71/137 (51%), Gaps = 31/137 (22%) Query: 7 SIIVNGEIG--LSRYIHEIRKIPMLEKQEEYVLAKRYR---------------------- 42 +++V G + Y+ +I K+ +L EE LAKR Sbjct: 203 TVMVAGATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAGLFAGEQLADPDAKIREKDRE 262 Query: 43 ------EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 E G ++ H L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD Sbjct: 263 DYEWIAEDGKVAKNH-LLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321 Query: 97 RGFRLATYSMWWIKAAM 113 +G++ +TY+ WWIK A+ Sbjct: 322 KGYKFSTYATWWIKQAI 338 >gi|284052567|ref|ZP_06382777.1| RNA polymerase sigma factor SigC [Arthrospira platensis str. Paraca] Length = 232 Score = 73.2 bits (178), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 29/64 (45%), Positives = 46/64 (71%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP RG+R +TYS Sbjct: 168 IQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYSY 227 Query: 107 WWIK 110 WWI+ Sbjct: 228 WWIR 231 >gi|302560146|ref|ZP_07312488.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] gi|302477764|gb|EFL40857.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] Length = 332 Score = 73.2 bits (178), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 113/229 (49%), Gaps = 16/229 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ +P +V A +L + Sbjct: 160 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFNREHGREPEPAEVAA---ELGSTPER 214 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLTR 230 V+ + SLN ++ D+ +Q+ D L+ D EQ ++ + +++ R Sbjct: 215 VVDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L+ R I + R E+ TL + E ++RER+RQIE A Sbjct: 272 ----LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|224088962|ref|XP_002308586.1| predicted protein [Populus trichocarpa] gi|222854562|gb|EEE92109.1| predicted protein [Populus trichocarpa] Length = 559 Score = 73.2 bits (178), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 58/232 (25%), Positives = 120/232 (51%), Gaps = 12/232 (5%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ + LV+ IA YRG G+ + +++ GN+GL+Q ++FDP RG+R +TY +WI+ + Sbjct: 325 LIKNTHSLVLYIARNYRGMGIAMEDLIQAGNLGLLQGAERFDPTRGYRFSTYVQYWIRKS 384 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + + R ++I ++ ++ +++ +A+++++ + +AK +S ++ Sbjct: 385 MLKIVERHARGIQIPYALSR-----SINKIQKARKALSNSHGRYPDDWEVAKFTGLSLAK 439 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + S L SL+ I + + + D Q E R++ R + + Sbjct: 440 IESAQKCLRVVASLDQKI-----GEGHYAKYSEFIPDMSIQNPEEAVMRQHMREEIYDLL 494 Query: 233 SVLNPRERRIFEAR-RLQEN-PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L+ RE+++ R ++N P +L + F VS+ERVR+IE + K+++ Sbjct: 495 RGLDSREKQVMVLRYGFKDNQPKSLAEIGRLFRVSKERVRKIEKKIMIKLRD 546 >gi|40353307|gb|AAR84417.1| essential primary sigma 70 factor [Frankia sp. ARgP5ag] Length = 217 Score = 73.2 bits (178), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 83/157 (52%), Gaps = 15/157 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +LV ++LRLVV IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WW Sbjct: 32 AKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 91 Query: 109 IKAAMQEYILRSWSLVKIGT----TAN-----QKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I ++I T N Q++L +L R + +L P++V Sbjct: 92 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEVIAKEMDLTPDKV 151 Query: 160 VAIAKKLNVSESEVISMNCRLAGDES--LNALINSSD 194 I L VS+ E +S+ + +E L I D Sbjct: 152 REI---LKVSQ-EPVSLETPIGEEEDSHLGDFIEDCD 184 >gi|2398853|dbj|BAA22215.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana] Length = 571 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 113/234 (48%), Gaps = 15/234 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV S LV+ +A YRG G+ +++ G +G++Q ++FD RG++ +TY +WI+ + Sbjct: 336 LVKSTRSLVLFLARNYRGMGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKS 395 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + R V I ++ + R H+Q LK + A +++ Sbjct: 396 MSTMVSRHARGVHIPSS---------IIRTINHIQK-ARKTLKTSHGIKYAADEEIAKLT 445 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 S+ A ++ L ++ S DK +L + D + E R++ R + Sbjct: 446 GHSVKKIRAANQCLK-VVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSARRDIHD 504 Query: 231 SMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L PRE+++ R LQ+ P +LE + F+VS+E +R+IE RA K+++ Sbjct: 505 LLEGLEPREKQVMVLRYGLQDYRPKSLEEIGKLFKVSKEWIRKIERRAMAKLRD 558 >gi|1173127|sp|P43344|RPOD_SERMA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 Length = 215 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 58/222 (26%), Positives = 105/222 (47%), Gaps = 28/222 (12%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + Sbjct: 5 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETI 62 Query: 137 FNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNA 188 L R+ + PE++ I K L +++ E ISM + DE Sbjct: 63 NKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAK-EPISMETPIGDDE---- 117 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 S D++ D ++ ++ ++ R+ ++ L RE ++ R Sbjct: 118 --------DSHLGDFI---EDTTLELPLDSATSESLRSATHDVLAGLTAREXKVLRMRFG 166 Query: 249 QE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 167 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 208 >gi|320010254|gb|ADW05104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces flavogriseus ATCC 33331] Length = 333 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 46/141 (32%), Positives = 70/141 (49%), Gaps = 34/141 (24%) Query: 10 VNGEIG----LSRYIHEIRKIPMLEKQEEYVLAKRYREHG-------------DLSAAHR 52 V GEI + Y+ EI + P+L+ +E L++ E G D A R Sbjct: 26 VGGEIADRDLVGMYLDEIARTPLLDAAKEVELSQTI-EAGVFAQQILDGVVESDAGGAKR 84 Query: 53 ----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD Sbjct: 85 EELEALVAESERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYA 144 Query: 97 RGFRLATYSMWWIKAAMQEYI 117 +GF+ +TY+ WWI+ A+ I Sbjct: 145 KGFKFSTYATWWIRQAITRSI 165 >gi|254384440|ref|ZP_04999781.1| hypothetical protein SSAG_04083 [Streptomyces sp. Mg1] gi|194343326|gb|EDX24292.1| hypothetical protein SSAG_04083 [Streptomyces sp. Mg1] Length = 1094 Score = 73.2 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 61/226 (26%), Positives = 114/226 (50%), Gaps = 20/226 (8%) Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA+ + G GL +++ G +GL++A KFDP +G++ +TY+ WWI+ +M + ++ Sbjct: 276 IALRHAGQGLDHEDLLQHGALGLIRAAVKFDPVKGYKFSTYATWWIRQSMSRAVADEGAV 335 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAG 182 ++I +++ +R++ + + V VA+A L+V E I R Sbjct: 336 IRIPVHFHEQ-----IRKVAAAERRLQSEGRPWSAVHVAVACDLSVQRVEEIRRVSRRT- 389 Query: 183 DESLNALINSSDKNSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +SL+ +I + D + D E + +E+ K+ ++LTR + R+ Sbjct: 390 -DSLDRVIG----DGVHLGDLVALDRPLPSAEHLAMEEMGHKHLLSLLTR----FDARDA 440 Query: 241 RIFEARRLQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RI R + + TL++L EF V+RER+RQ+E +AF +E + Sbjct: 441 RILLRRTGLDGGDRSTLDDLGKEFGVTRERIRQVEVKAFAAFREML 486 >gi|239930706|ref|ZP_04687659.1| RNA polymerase principal sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291439071|ref|ZP_06578461.1| sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291341966|gb|EFE68922.1| sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 332 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 113/229 (49%), Gaps = 16/229 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ + +P +V A +L + Sbjct: 160 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFNREHGRDPEPAEVAA---ELGSTPER 214 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLTR 230 V + SLN ++ D+ +Q+ D L+ D EQ ++ + +++ R Sbjct: 215 VTDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L+ R I + R E+ TL + E ++RER+RQIE A Sbjct: 272 ----LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|213616352|ref|ZP_03372178.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 508 Score = 72.8 bits (177), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 437 IRQAITRSIADQARTIRI 454 >gi|302552062|ref|ZP_07304404.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302469680|gb|EFL32773.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 332 Score = 72.8 bits (177), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 113/229 (49%), Gaps = 16/229 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ + +P + IA +L + Sbjct: 160 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFNREHGRDPEPTE---IAAELGSTPER 214 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLTR 230 V + SLN ++ D+ +Q+ D L+ D EQ ++ + +++ R Sbjct: 215 VTDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L+ R I + R E+ TL + E ++RER+RQIE A Sbjct: 272 ----LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|82949200|dbj|BAE53364.1| sigma factor [Streptomyces sp. AJ9463] Length = 195 Score = 72.8 bits (177), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 50/185 (27%), Positives = 93/185 (50%), Gaps = 33/185 (17%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLS---------------------------AAH 51 Y+ +I K+P+L ++E LAKR E G + A + Sbjct: 2 YLKQIGKVPLLNAEQEVELAKRI-EAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKN 60 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ Sbjct: 61 HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQ 120 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 A+ + ++I + + L R++ + PE+ +AK+L+++ Sbjct: 121 AITRAMADQARTIRI--PVHMVEVINKLARVQRQMLQDLGREPTPEE---LAKELDMTPE 175 Query: 172 EVISM 176 +VI + Sbjct: 176 KVIEV 180 >gi|318066969|emb|CBY89099.1| RNA polymerase sigma70 factor [Halomonas salina] Length = 366 Score = 72.8 bits (177), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 31/65 (47%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V +HLRLV+ IA Y GLP ++ EG+IGLM+AV KF+ RG++ +TY+ WW Sbjct: 301 AKKEMVEAHLRLVISIAQKYPHRGLPFLDLFQEGHIGLMKAVDKFEYRRGYKFSTYATWW 360 Query: 109 IKAAM 113 I+ A+ Sbjct: 361 IRQAI 365 >gi|270487764|ref|ZP_06204838.1| sigma-70, region 4 [Yersinia pestis KIM D27] gi|270336268|gb|EFA47045.1| sigma-70, region 4 [Yersinia pestis KIM D27] Length = 215 Score = 72.8 bits (177), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 111/223 (49%), Gaps = 30/223 (13%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ 132 +++ EGNIGLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I T N+ Sbjct: 5 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 64 Query: 133 -----KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 +++ + R + + + + L PE I K L +++ E ISM + DE Sbjct: 65 LNRISRQMLQEMGR-EPTPEELAERMLMPED--KIRKVLKIAK-EPISMETPIGDDE--- 117 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 S D++ D ++ ++ ++ R+ ++ L RE ++ R Sbjct: 118 ---------DSHLGDFI---EDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRF 165 Query: 248 LQE--NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 166 GIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 208 >gi|153006912|ref|YP_001381237.1| RNA polymerase sigma-32 subunit RpoH [Anaeromyxobacter sp. Fw109-5] gi|152030485|gb|ABS28253.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. Fw109-5] Length = 238 Score = 72.8 bits (177), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 42/110 (38%), Positives = 65/110 (59%), Gaps = 1/110 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ R L ++ E LA R R GD A LV +L LVV +A L + Sbjct: 8 LAPYLEAARGRKPLTREAERALALRAR-RGDARAKDELVRHNLALVVMVARKQSRGALRL 66 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 E+V EG +GL++A++KFDP G R +TY++WWI+A + +Y+ ++ S V+ Sbjct: 67 EELVQEGMLGLLRAIEKFDPNAGTRFSTYAVWWIRAYVWKYLKQARSSVR 116 >gi|329941264|ref|ZP_08290543.1| RNA polymerase principal sigma factor HrdD [Streptomyces griseoaurantiacus M045] gi|329299795|gb|EGG43694.1| RNA polymerase principal sigma factor HrdD [Streptomyces griseoaurantiacus M045] Length = 332 Score = 72.8 bits (177), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 67/230 (29%), Positives = 117/230 (50%), Gaps = 18/230 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ + +P + IA +L S +E Sbjct: 160 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFNREHGRDPEPAE---IAAELG-SNAE 213 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLT 229 ++ A D SLN ++ D+ +Q+ D L+ D EQ ++ + +++ Sbjct: 214 RVTDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIG 270 Query: 230 RSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 R L+ R I + R E+ TL + E ++RER+RQIE A Sbjct: 271 R----LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|115452175|ref|NP_001049688.1| Os03g0271100 [Oryza sativa Japonica Group] gi|29893614|gb|AAP06868.1| unknown protein [Oryza sativa Japonica Group] gi|32351880|dbj|BAC78529.1| plastid sigma factor 2B [Oryza sativa Japonica Group] gi|108707414|gb|ABF95209.1| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica Group] gi|113548159|dbj|BAF11602.1| Os03g0271100 [Oryza sativa Japonica Group] gi|215704451|dbj|BAG93885.1| unnamed protein product [Oryza sativa Japonica Group] gi|215765869|dbj|BAG87566.1| unnamed protein product [Oryza sativa Japonica Group] Length = 540 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 30/80 (37%), Positives = 54/80 (67%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 +S + +V S++RLV+ IA + G G+ S+++ EG GL++ +KFD +GFR +TYS Sbjct: 297 ISCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGFRFSTYSH 356 Query: 107 WWIKAAMQEYILRSWSLVKI 126 WWIK A+++ +L ++++ Sbjct: 357 WWIKQAIRKSVLEQTQIIRL 376 >gi|55274903|gb|AAV49253.1| RNA polymerase subunit sigma-38 [Escherichia albertii] Length = 192 Score = 72.4 bits (176), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 29/57 (50%), Positives = 43/57 (75%) Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 VKIA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 VKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 57 >gi|114765238|ref|ZP_01444370.1| RNA polymerase sigma factor protein (sigma-70) [Pelagibaca bermudensis HTCC2601] gi|114542373|gb|EAU45401.1| RNA polymerase sigma factor protein (sigma-70) [Roseovarius sp. HTCC2601] Length = 249 Score = 72.4 bits (176), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 56/266 (21%), Positives = 127/266 (47%), Gaps = 32/266 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 +S H + P+L ++E +++ GD +A L+ SH R A + + + Sbjct: 2 MSMSYHSAMREPLLSFEQERAAISGWQDRGDRAALEVLLRSHARQAWSHAARFTDNPVHL 61 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++ +EG +GL++A FD + R ATY+ WW++ A+ + R +++ I + R Sbjct: 62 EDLAAEGVMGLLRAADSFDRAQDVRFATYAAWWVRNAVSSALSRIKAVIDIPS-----RT 116 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 + L + ++D ++ +V +A + ++ + + AG + L++S Sbjct: 117 Y-----LDAQMGKLSDEDVF---IVQLATRGTLA----LDTHQEDAGRDPAQLLVSS--- 161 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + D +E ++ + R R ++ +++ + P E + RRL P TL Sbjct: 162 -----------EPDPEEHASLQSQRRMLLR-LIDDALARMEPEEVAVIRRRRLAPEPETL 209 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 +++++ ++++R+RQ+E RA +++ Sbjct: 210 ADIAADLGITQDRLRQVERRAMMRLR 235 >gi|23978350|dbj|BAC21142.1| principal sigma factor [Xenococcus sp. PCC 7307] Length = 203 Score = 72.4 bits (176), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 58/216 (26%), Positives = 110/216 (50%), Gaps = 17/216 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQERGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D++ D + E + + R++ ++L Sbjct: 116 RFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDQVSKSLLREDLESVL--- 168 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 L+PRER + R ++ TLE + F V+ Sbjct: 169 -DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|295837882|ref|ZP_06824815.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] gi|197699594|gb|EDY46527.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] Length = 274 Score = 72.4 bits (176), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 121/244 (49%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EHG + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + Sbjct: 46 EHGRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFP 103 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + + I Sbjct: 104 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSAAEDLTTAHGRSPTTAEI 158 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L ++E EV++ C AG +++ ++Q D L + D G E ++ E Sbjct: 159 AERLRIAEDEVLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 211 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R N +T +S+E VS+ V ++ AR+F + Sbjct: 212 HRD----LVRHLLVQLPEREQRILLLRYY--NNLTQSQISAELGVSQMHVSRLLARSFAR 265 Query: 280 VQES 283 ++ + Sbjct: 266 LRSA 269 >gi|125543279|gb|EAY89418.1| hypothetical protein OsI_10924 [Oryza sativa Indica Group] Length = 540 Score = 72.4 bits (176), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 32/87 (36%), Positives = 57/87 (65%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R R + +S + +V S++RLV+ IA + G G+ S+++ EG GL++ +KFD +GF Sbjct: 290 RKRLNYGISCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGF 349 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 R +TYS WWIK A+++ +L ++++ Sbjct: 350 RFSTYSHWWIKQAIRKSVLEQTQIIRL 376 >gi|29830237|ref|NP_824871.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607348|dbj|BAC71406.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 331 Score = 72.4 bits (176), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 116/231 (50%), Gaps = 20/231 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 99 FIKSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 158 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ ++ +PE IA +L+ + + Sbjct: 159 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGREPEP-AEIAAELDSNPAR 213 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQ---VLIEKEERKNRRNM 227 V + SLN ++ D+ +Q+ D L+ D EQ L+ EE + Sbjct: 214 VTDVLDWARDPVSLNMHVD--DEGETQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIGR 270 Query: 228 LT-RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L R+ S++ R I + R TL + E ++RER+RQIE A Sbjct: 271 LDQRTASIIKMR-YGIDDGRER-----TLTEVGKEHGLTRERIRQIEKHAL 315 >gi|213418760|ref|ZP_03351826.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 162 Score = 72.4 bits (176), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 41 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 100 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 101 IRQAITRSIADQARTIRI 118 >gi|213026208|ref|ZP_03340655.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 445 Score = 72.4 bits (176), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 287 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 346 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 347 IRQAITRSIADQARTIRI 364 >gi|257784260|ref|YP_003179477.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Atopobium parvulum DSM 20469] gi|257472767|gb|ACV50886.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Atopobium parvulum DSM 20469] Length = 284 Score = 72.4 bits (176), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 66/277 (23%), Positives = 127/277 (45%), Gaps = 38/277 (13%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 + IP +K L +Y+E D +L+ SHL LV +A ++ G P+ +++ G Sbjct: 29 KGIPAWDKDRTRQLFAQYKETKDSEVRDQLIVSHLNLVRFLASKFKNRGEPLDDLIQVGT 88 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL++A+ +F+P+RG TY+ I ++ + + WS+ R+ L+ L Sbjct: 89 IGLIKAIDRFEPDRGLEFTTYATPTIMGEIKRHFRDKGWSV----------RVPRRLQEL 138 Query: 143 KGHLQAITDNNLKPEQ----VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + +TD+ K Q + IA++L+ + E++ + SS SS Sbjct: 139 SSKINQVTDDLTKELQRSPSIEEIAQRLDTNVEEILEA-------------MESSSAYSS 185 Query: 199 QWQDWLVYDHDGQE------QVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 + DG E Q + E E+ + R +L ++ +PRE+ I R ++ Sbjct: 186 VPLEGGGSGADGDETPSIIDQYVTEDEDLAGSDDRIVLDEAIRDFSPREQEIIRMRFVE- 244 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +T ++ + +S+ +V ++ R K++QE I + Sbjct: 245 -GLTQVEIAEKLNISQVQVSRLLRRTLKRIQEKIDPE 280 >gi|291445451|ref|ZP_06584841.1| sigma factor [Streptomyces roseosporus NRRL 15998] gi|291348398|gb|EFE75302.1| sigma factor [Streptomyces roseosporus NRRL 15998] Length = 333 Score = 72.4 bits (176), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 46/141 (32%), Positives = 70/141 (49%), Gaps = 34/141 (24%) Query: 10 VNGEIG----LSRYIHEIRKIPMLEKQEEYVLAKRYREHG-------------DLSAAHR 52 V GEI + Y+ EI + P+L+ +E L++ E G D A R Sbjct: 26 VGGEIADRDLVGMYLDEIARTPLLDAAKEVDLSQTI-EAGVYAQQILDGEVESDAGDAKR 84 Query: 53 ----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD Sbjct: 85 EELEALVADGERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYA 144 Query: 97 RGFRLATYSMWWIKAAMQEYI 117 +GF+ +TY+ WWI+ A+ I Sbjct: 145 KGFKFSTYATWWIRQAITRSI 165 >gi|290959686|ref|YP_003490868.1| sigma factor HrdD [Streptomyces scabiei 87.22] gi|260649212|emb|CBG72326.1| sigma factor HrdD [Streptomyces scabiei 87.22] Length = 332 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 112/229 (48%), Gaps = 16/229 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 100 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 159 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ + +P + IA +L + Sbjct: 160 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFNREHGRDPEPAE---IAAELGSNADR 214 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLTR 230 V + SLN ++ D +Q+ D L+ D EQ ++ + +++ R Sbjct: 215 VTDVLDWARDPVSLNMSVD--DDGDTQFGD-LLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 L+ R I + R E+ TL + E ++RER+RQIE A Sbjct: 272 ----LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHAL 316 >gi|26665384|dbj|BAC44903.1| principal sigma factor [Gloeobacter violaceus PCC 8105] Length = 203 Score = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 61/220 (27%), Positives = 110/220 (50%), Gaps = 25/220 (11%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA+ Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIALKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQELGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D+ + DG E E K +N+L Sbjct: 116 RFIAKSAQLPI--SLETPIGKEE--DSRLGDF--SEADG------ETPEDKVAKNLLRED 163 Query: 232 ----MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 ++ L+PRER + R ++ TLE + F V+ Sbjct: 164 LEAVLNTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVT 203 >gi|330862244|emb|CBX72405.1| RNA polymerase sigma factor rpoD [Yersinia enterocolitica W22703] Length = 553 Score = 72.0 bits (175), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 417 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 476 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 477 IRQAITRSIADQARTIRI 494 >gi|294155544|ref|YP_003559928.1| DNA-directed RNA polymerase, sigma-70 factor [Mycoplasma crocodyli MP145] gi|291599870|gb|ADE19366.1| DNA-directed RNA polymerase, sigma-70 factor [Mycoplasma crocodyli MP145] Length = 490 Score = 72.0 bits (175), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 34/88 (38%), Positives = 57/88 (64%), Gaps = 2/88 (2%) Query: 28 MLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L+ EE LAK + G A +L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 218 LLKPDEERRLAKLMEKGGFRGKRARDKLIMRNLRLVINNAKKYKNRGLTFIDLISEGNAG 277 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++AV+K++ E+GF+ +TY+ WWI+ A+ Sbjct: 278 ILKAVQKYNVEKGFKFSTYATWWIRQAI 305 >gi|23978360|dbj|BAC21145.1| principal sigma factor [Pleurocapsa sp. PCC 7314] Length = 203 Score = 72.0 bits (175), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 58/216 (26%), Positives = 110/216 (50%), Gaps = 17/216 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQERGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D++ D + E + + R++ ++L Sbjct: 116 RFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDQVSKSLLREDLESVL--- 168 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 L+PRER + R ++ TLE + F V+ Sbjct: 169 -DTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|307324239|ref|ZP_07603447.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] gi|306889970|gb|EFN20948.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] Length = 334 Score = 72.0 bits (175), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 118/230 (51%), Gaps = 18/230 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 102 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYTKGFKFSTYATWWIRQA 161 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ ++ +PE IA +L S E Sbjct: 162 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGREPEH-AEIAVELG-STME 215 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLT 229 +S A D SLN ++ D+ +Q+ D L+ D EQ ++ + +++ Sbjct: 216 RVSDVLDWARDPVSLNMSVD--DEGETQFGD-LLEDTSAVSPEQSVMTLLRSEELEDLIG 272 Query: 230 RSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAF 277 R L+ R I +AR ++ TL + + ++RER+RQIE A Sbjct: 273 R----LDDRTASIIKARYGIDDGRERTLTEVGKQHGLTRERIRQIEKHAL 318 >gi|270668763|ref|ZP_06222551.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae HK1212] gi|270316653|gb|EFA28454.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae HK1212] Length = 151 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 45 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 104 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 105 IRQAITRSIADQARTIRI 122 >gi|254386169|ref|ZP_05001481.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] gi|194345026|gb|EDX25992.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] Length = 325 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 73/312 (23%), Positives = 132/312 (42%), Gaps = 64/312 (20%) Query: 10 VNGEIG----LSRYIHEIRKIPMLEKQEEY--------------VLAKRYREHGDLSAAH 51 V GEI + Y+ EI + P+L+ +E +L G+ A Sbjct: 18 VGGEIADRDLVGMYLDEIARTPLLDAAKEVELSQIIEAGVYARQILDGEAEREGEAPARE 77 Query: 52 RL--------------VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 L + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD + Sbjct: 78 ELEALAAEGERAKEVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAK 137 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 GF+ +TY+ WWI+ A+ I +++ ++ +RR++ ++ PE Sbjct: 138 GFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGRDPE 193 Query: 158 QVVAIAKKLNVSESEV------------ISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 IA +L+ + V ++M+ GD L+ + S + + Sbjct: 194 H-TEIAAELDTTAKRVGDVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAISPEQSVLSL 252 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 + E +L + ++R +++ + + RER TL + + ++ Sbjct: 253 LRSEELEDLLGKLDQRTA--SIIKMRYGIDDGRER-------------TLTEVGKQHGLT 297 Query: 266 RERVRQIEARAF 277 RER+RQIE A Sbjct: 298 RERIRQIEKHAL 309 >gi|45128589|gb|AAS55058.1| RpoD [Vibrio parahaemolyticus] Length = 492 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 434 IRQAITRSIADQARTIRI 451 >gi|182438069|ref|YP_001825788.1| RNA polymerase principal sigma factor hrdD [Streptomyces griseus subsp. griseus NBRC 13350] gi|326778714|ref|ZP_08237979.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] gi|178466585|dbj|BAG21105.1| RNA polymerase principal sigma factor hrdD [Streptomyces griseus subsp. griseus NBRC 13350] gi|326659047|gb|EGE43893.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] Length = 333 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 45/140 (32%), Positives = 69/140 (49%), Gaps = 32/140 (22%) Query: 10 VNGEIG----LSRYIHEIRKIPMLEKQEEYVL------------------------AKRY 41 V GEI + Y+ EI + P+L+ +E L AKR Sbjct: 26 VGGEIADRDLVGMYLDEIARTPLLDAAKEVDLSQTIEAGVFAQQILDGEVESTTGDAKRE 85 Query: 42 REHGDLSAAHR----LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 ++ R + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD + Sbjct: 86 ELEALVAEGERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYAK 145 Query: 98 GFRLATYSMWWIKAAMQEYI 117 GF+ +TY+ WWI+ A+ I Sbjct: 146 GFKFSTYATWWIRQAITRSI 165 >gi|318066991|emb|CBY89110.1| RNA polymerase sigma70 factor [Modicisalibacter tunisiensis] Length = 373 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 31/65 (47%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 308 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 367 Query: 109 IKAAM 113 I+ AM Sbjct: 368 IRQAM 372 >gi|326319203|ref|YP_004236875.1| RpoD subfamily RNA polymerase sigma-70 subunit [Acidovorax avenae subsp. avenae ATCC 19860] gi|323376039|gb|ADX48308.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidovorax avenae subsp. avenae ATCC 19860] Length = 878 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 61/244 (25%), Positives = 120/244 (49%), Gaps = 29/244 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A R+ ++L+L A Y G + ++ EGN+GL++AV +++ RGFR +TY+ WW Sbjct: 521 ARDRMTAANLKLAFFHARKYLYSGETLDDLAQEGNVGLLKAVDRYNWRRGFRFSTYATWW 580 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ + Y+ +++ +K R+ + + D + + +A+++ + Sbjct: 581 VRQQISRYVADKARTIRMPVHIYEKAQ--RAERIAQRFEMLAD---RAPSLDELAERMEM 635 Query: 169 SESEVISMNCRLAG-----DES-LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++ ++ R+A DES ++ LI+ +++ WL D E + Sbjct: 636 PRHKLAAL-LRIAPEPSRIDESPVDELISLDARDAY----WLPDPADAVETHQV------ 684 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQ-----ENPVTLENLSSEFEVSRERVRQIEARAF 277 R L R +S L+ R+R+ RL+ +TL+ + F V+RER+RQIEA+A Sbjct: 685 --RAALDRYISSLSTRDRKEEHVLRLRYGIGVHEALTLDEVGQRFGVTRERIRQIEAKAI 742 Query: 278 KKVQ 281 +K++ Sbjct: 743 RKLK 746 >gi|116328490|ref|YP_798210.1| RNA polymerase sigma factor WhiG [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116331220|ref|YP_800938.1| RNA polymerase sigma factor WhiG [Leptospira borgpetersenii serovar Hardjo-bovis JB197] gi|116121234|gb|ABJ79277.1| RNA polymerase sigma subunit [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116124909|gb|ABJ76180.1| RNA polymerase sigma subunit [Leptospira borgpetersenii serovar Hardjo-bovis JB197] Length = 266 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 76/267 (28%), Positives = 131/267 (49%), Gaps = 29/267 (10%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGL 86 +Q+E L K YR+ D LV + LV +A G G+P ++VS G GL Sbjct: 10 QQDETELWKSYRDTKDQDIRSYLVEKYSPLVKHVA-GRIAIGMPQNVEFDDLVSYGVFGL 68 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS--WSLVKIGTTANQKRLFFNLRRLKG 144 + A++KFDP+R + TY+M I+ ++ + LRS W I A Q L ++ G Sbjct: 69 LDAIEKFDPDRLIKFKTYAMTRIRGSIFDE-LRSIDWIPRSIRQKAKQ------LEQIIG 121 Query: 145 HLQAITDNNLKPEQV--VAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSS-Q 199 L+ N + +QV AIAK+L +S E S+ +++G SLN + D+N Sbjct: 122 MLE-----NKEGQQVDDDAIAKELGISMEEYNSLLTKISGTSLVSLNDIWFLGDENDEVS 176 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 + + L + +IEKEE K N++ ++ L +E+++ ++ +TL+ + Sbjct: 177 FMETLESPMNMNPDTIIEKEEIK---NVIVEAIKTLPEKEKKVIVLYYYED--LTLKEIG 231 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 EV+ R+ Q+ RA +++ + K Sbjct: 232 EVLEVTESRISQLHTRAVSRLRSKLGK 258 >gi|15828925|ref|NP_326285.1| RNA polymerase sigma factor [Mycoplasma pulmonis UAB CTIP] gi|14089868|emb|CAC13627.1| DNA-DIRECTED RNA POLYMERASE SIGMA FACTOR (SIGMA-A) [Mycoplasma pulmonis] Length = 461 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 27/65 (41%), Positives = 46/65 (70%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ +LRLV+ A Y+ GL +++SEGN G+++AV+KFD +GF+ +TY+ WW Sbjct: 214 AKDKLINRNLRLVINNAKKYKNRGLSFIDLISEGNAGIIKAVQKFDESKGFKFSTYATWW 273 Query: 109 IKAAM 113 I+ ++ Sbjct: 274 IRQSI 278 >gi|6682871|dbj|BAA88922.1| sigma factor [Nicotiana tabacum] Length = 502 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 65/259 (25%), Positives = 126/259 (48%), Gaps = 44/259 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +++++ G IGL++ ++KFD RGF+++TY WW Sbjct: 259 AREKLAMSNVRLVMSIAQRYDTNGTEMADLIQGGLIGLLRGIEKFDHSRGFKISTYVYWW 318 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ +++ ++K + +N + P + IA+ LN+ Sbjct: 319 IRQGVSRALVENSRTLRLPIHLHERLSLIRNAKIK-----LKENGITP-SIEKIAECLNM 372 Query: 169 SE----------SEVISMN----CRLAG--DESLNALINSSDKNSSQWQ---DWLVYDHD 209 S+ S+V S++ L G E+L++ I + + W +W++ D Sbjct: 373 SQKKVRNATEASSKVFSLDREAFPSLNGLPGETLHSYIADNRLENIPWHGVDEWMLKDE- 431 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRER 268 N+++ S L RER I L +T E++S +SRER Sbjct: 432 --------------VNNLIS---STLREREREIVRLYYGLDNECLTWEDISRRIGLSRER 474 Query: 269 VRQIEARAFKKVQESIQKQ 287 VRQ+ A +K++ + +K+ Sbjct: 475 VRQVGLVALEKLKHAARKR 493 >gi|330946209|gb|EGH47399.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 230 Score = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 77 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 136 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 137 IRQAITRSIADQARTIRI 154 >gi|157833814|pdb|1SIG|A Chain A, Crystal Structure Of A Sigma70 Subunit Fragment From Escherichia Coli Rna Polymerase Length = 339 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 31/69 (44%), Positives = 46/69 (66%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 266 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 325 Query: 109 IKAAMQEYI 117 I+ A+ I Sbjct: 326 IRQAITRSI 334 >gi|17158744|ref|NP_478255.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] gi|17134693|dbj|BAB77251.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] Length = 323 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 28/65 (43%), Positives = 46/65 (70%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ L + +++ EG++GL + V+KFDP RG++ +TY+ WW Sbjct: 87 AKQKMMVANLRLVVAIAKKYQRRNLELMDLIQEGSLGLERGVEKFDPTRGYKFSTYAYWW 146 Query: 109 IKAAM 113 I AM Sbjct: 147 ISQAM 151 >gi|326566650|gb|EGE16791.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 12P80B1] Length = 585 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 387 AKKDMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 446 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 447 IRQAITRSIADQARTIRI 464 >gi|289805026|ref|ZP_06535655.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 196 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 31/69 (44%), Positives = 46/69 (66%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 95 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 154 Query: 109 IKAAMQEYI 117 I+ A+ I Sbjct: 155 IRQAITRSI 163 >gi|45128597|gb|AAS55059.1| RpoD [Vibrio parahaemolyticus] Length = 492 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 434 IRQAITRSIADQARTIRI 451 >gi|255553456|ref|XP_002517769.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223543041|gb|EEF44576.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 389 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 29/62 (46%), Positives = 46/62 (74%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+ ++ RLV+ IA YRG GL + +++ EG+IGL++ ++FDP+RG +L+TY WWIK Sbjct: 179 RITGNYRRLVLSIANRYRGKGLSLQDLIQEGSIGLLRGAERFDPKRGNKLSTYVYWWIKE 238 Query: 112 AM 113 A+ Sbjct: 239 AI 240 >gi|319777141|ref|YP_004136792.1| putative RNA polymerase sigma factor [Mycoplasma fermentans M64] gi|238810060|dbj|BAH69850.1| hypothetical protein [Mycoplasma fermentans PG18] gi|318038216|gb|ADV34415.1| Putative RNA polymerase sigma factor [Mycoplasma fermentans M64] Length = 489 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 67/267 (25%), Positives = 130/267 (48%), Gaps = 57/267 (21%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ +LRLV+ A Y+ GL +++SEGN G+++AV K++ +GF+ +TY+ WW Sbjct: 242 ARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSGIVKAVSKYNVSKGFKFSTYATWW 301 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITD--------NNLK 155 I+ A+ + +++ + + +++ LQ TD N Sbjct: 302 IRQAITRAVADQARTIRV--PVHMVETINKITKIERELQQELGYEPTDEMIAERYGNGYD 359 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV-------YDH 208 E+V I +K+N+ + IS++ ++ +N S + D++ D+ Sbjct: 360 AEKVRYI-RKINI---DPISLDKQIGK------------ENDSSFSDFVKDESVVNPVDY 403 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR----LQEN----PV-TLENLS 259 QE+++ + ++L +S+ + RI +R + EN P+ +LE L+ Sbjct: 404 ASQEELV------ETLNSILEKSL----DDDERILICKRFGVGVDENGNKYPIHSLEKLA 453 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 E VS+ER+RQIE + +K++ S +K Sbjct: 454 EERNVSKERIRQIENKILRKLKSSTRK 480 >gi|318056947|ref|ZP_07975670.1| RNA polymerase principal sigma factor [Streptomyces sp. SA3_actG] gi|318078687|ref|ZP_07986019.1| RNA polymerase principal sigma factor [Streptomyces sp. SA3_actF] Length = 307 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 46/65 (70%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 75 FIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 134 Query: 113 MQEYI 117 + I Sbjct: 135 ITRSI 139 >gi|134293382|ref|YP_001117118.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia vietnamiensis G4] gi|134136539|gb|ABO57653.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia vietnamiensis G4] Length = 518 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 118/244 (48%), Gaps = 27/244 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLV+ IA Y G+ + ++V +G +GLM+A++KF+ RGF+ +TY+ WWI+ A Sbjct: 285 MLEANLRLVLSIARKYVNRGVDLPDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWWIRQA 344 Query: 113 MQEYIL-RSWSL---VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK--KL 166 + + RS ++ V +G +Q+ LR + H + T L + +A K L Sbjct: 345 VARAVADRSRTIRVPVHVGDQ-SQRVQRHALRFRQRHGRRATPAELAADTGLAEDKLRAL 403 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +E +S++ L E+ L++ + +S E+ R Sbjct: 404 LALPAEPLSLDTPLPDAET--GLVDLIEDQTSASP--------------FERLANTRMRE 447 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 ++ + + P E + RR P T + ++ + +SRERVRQIE RA ++ + Sbjct: 448 CVSSLLRSVTPTEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATLRTA 506 Query: 284 IQKQ 287 Q + Sbjct: 507 AQAE 510 >gi|308189916|ref|YP_003922847.1| RNA polymerase sigma factor [Mycoplasma fermentans JER] gi|307624658|gb|ADN68963.1| RNA polymerase sigma factor [Mycoplasma fermentans JER] Length = 489 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 67/267 (25%), Positives = 130/267 (48%), Gaps = 57/267 (21%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ +LRLV+ A Y+ GL +++SEGN G+++AV K++ +GF+ +TY+ WW Sbjct: 242 ARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSGIVKAVSKYNVSKGFKFSTYATWW 301 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-----AITD--------NNLK 155 I+ A+ + +++ + + +++ LQ TD N Sbjct: 302 IRQAITRAVADQARTIRV--PVHMVETINKITKIERELQQELGYEPTDEMIAERYGNGYD 359 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV-------YDH 208 E+V I +K+N+ + IS++ ++ +N S + D++ D+ Sbjct: 360 AEKVRYI-RKINI---DPISLDKQIGK------------ENDSSFSDFVKDESVVNPVDY 403 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR----LQEN----PV-TLENLS 259 QE+++ + ++L +S+ + RI +R + EN P+ +LE L+ Sbjct: 404 ASQEELV------ETLNSILEKSL----DDDERILICKRFGVGVDENGNKYPIHSLEKLA 453 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 E VS+ER+RQIE + +K++ S +K Sbjct: 454 EERNVSKERIRQIENKILRKLKSSTRK 480 >gi|302519838|ref|ZP_07272180.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] gi|302428733|gb|EFL00549.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] Length = 341 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 46/65 (70%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 109 FIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 168 Query: 113 MQEYI 117 + I Sbjct: 169 ITRSI 173 >gi|295838256|ref|ZP_06825189.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] gi|197698235|gb|EDY45168.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] Length = 341 Score = 71.6 bits (174), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 46/65 (70%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 109 FIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWWIRQA 168 Query: 113 MQEYI 117 + I Sbjct: 169 ITRSI 173 >gi|311742672|ref|ZP_07716481.1| RNA polymerase principal sigma factor SigB [Aeromicrobium marinum DSM 15272] gi|311314300|gb|EFQ84208.1| RNA polymerase principal sigma factor SigB [Aeromicrobium marinum DSM 15272] Length = 320 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 71/259 (27%), Positives = 112/259 (43%), Gaps = 60/259 (23%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLVV IA Y +P+ ++V EGN GL++AV+KFD +GF+ +TY+ WW Sbjct: 87 ALQEFIQANLRLVVSIARKYGRSAMPMLDLVQEGNTGLIRAVEKFDYVKGFKFSTYATWW 146 Query: 109 IKAAMQEYILRSWSLVKIG---------TTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++ A+ I + +V++ TA ++ NL R G+ PE Sbjct: 147 VRQAITRGIAQQARVVRLPVHVVEELNQVTAARR----NLERTLGY---------DPEP- 192 Query: 160 VAIAKKLNVSESEVI----------SMNCRL--AGDESLNALI---NSSDKNSSQWQDWL 204 I+ +L + VI S++ + GD SL LI + +SS D Sbjct: 193 AEISAELGMDVDRVIDLLSWGRDHVSLDTPVDEDGDTSLGDLIARETAPGPDSSMMSD-- 250 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 R M+ + + L RE I AR L L ++ Sbjct: 251 ------------------ATRGMIAQLIDHLGEREADIVRARYGLLDGRQQKLADIGKRH 292 Query: 263 EVSRERVRQIEARAFKKVQ 281 +S ERVRQ+E A K++ Sbjct: 293 GISAERVRQLEREALAKLR 311 >gi|330946768|gb|EGH47674.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 184 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 32/78 (41%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 81 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 140 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 141 IRQAITRSIADQARTIRI 158 >gi|239942002|ref|ZP_04693939.1| RNA polymerase principal sigma factor hrdD [Streptomyces roseosporus NRRL 15998] gi|239988467|ref|ZP_04709131.1| RNA polymerase principal sigma factor hrdD [Streptomyces roseosporus NRRL 11379] Length = 308 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 113/231 (48%), Gaps = 20/231 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 76 FIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFSTYATWWIRQA 135 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ ++ PE IA +L+ S +E Sbjct: 136 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGRDPEH-AEIAAELD-SNAE 189 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN---RRNML 228 + A D SLN ++ D +Q+ D L ++ + E+ R L Sbjct: 190 RVGNVLDWARDPVSLNMSVD--DDGDTQFGDLL------EDTSAVSPEQSVMTLLRSEEL 241 Query: 229 TRSMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAF 277 + L+ R I + R E+ TL + + ++RER+RQIE A Sbjct: 242 EDLIGKLDNRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHAL 292 >gi|23978340|dbj|BAC21139.1| principal sigma factor [Stanieria cyanosphaera str. PCC 7437] Length = 203 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/216 (26%), Positives = 109/216 (50%), Gaps = 17/216 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D++ D + E + + R++ N+L Sbjct: 116 RFIAKSAQLPI--SLETPIGKEE--DSRLGDFIEADGETPEDQVSKSLLREDLENVL--- 168 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 L+P ER + R ++ TLE + F V+ Sbjct: 169 -DTLSPSERDVLRLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|282865528|ref|ZP_06274579.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] gi|282559572|gb|EFB65123.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] Length = 333 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 114/231 (49%), Gaps = 20/231 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + S+LRLVV +A Y GLP+ +++ EGN GL++AV+KFD +GF+ +TY+ WWI+ A Sbjct: 101 FIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFSTYATWWIRQA 160 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +++ ++ +RR++ ++ PE IA +L S +E Sbjct: 161 ITRSIADQSRTIRLPVHLVEE--LGRIRRVQREFN--REHGRDPEH-AEIAAELG-SNTE 214 Query: 173 VISMNCRLAGDE-SLNALINSSDKNSSQWQDWL----VYDHDGQEQVLIEKEERKNRRNM 227 + A D SLN ++ D +Q+ D L + L+ EE ++ Sbjct: 215 RVGNVLDWARDPVSLNMSVD--DDGDTQFGDLLEDTSAVSPEQSVMTLLRSEELEDLIGK 272 Query: 228 L-TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L R+ S++ R R E R + TL + + ++RER+RQIE A Sbjct: 273 LDNRTASII--RMRYGIEDGRER----TLTEVGKQHGLTRERIRQIEKHAL 317 >gi|288553151|ref|YP_003425086.1| sporulation sigma factor SigE [Bacillus pseudofirmus OF4] gi|288544311|gb|ADC48194.1| sporulation sigma factor SigE [Bacillus pseudofirmus OF4] Length = 237 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 71/267 (26%), Positives = 116/267 (43%), Gaps = 69/267 (25%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL K+ GD + L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 35 PPLSKEEEAVLLKKL-PTGDKAVRSMLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 94 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN-------------------------- 127 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWL 204 N + SEV + DE LN W + L Sbjct: 128 --------------------NKTRSEV-------SFDEPLNI----------DWDGNELL 150 Query: 205 VYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSE 261 + D G E+ +I + E K R +L +++ LN RE++I E R E T ++++ Sbjct: 151 LSDVLGTEEDIITRGIEEKVDRKLLVKALHTLNEREKQIMELRFGLAGEEEKTQKDVADM 210 Query: 262 FEVSRERVRQIEARAFKKVQESIQKQV 288 +S+ + ++E R K++Q+ K V Sbjct: 211 LGISQSYISRLEKRIIKRLQKEFNKMV 237 >gi|207723156|ref|YP_002253555.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum MolK2] gi|206588350|emb|CAQ35313.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum MolK2] Length = 229 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 60/206 (29%), Positives = 101/206 (49%), Gaps = 20/206 (9%) Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ- 147 A++KFDPERGFR +TY+ WWI+ +++ I+ V++ + R + R K HL+ Sbjct: 29 AIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRL--PVHVIRELNQVLRAKRHLEK 86 Query: 148 -AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN-SSQWQDWLV 205 I + E + + K +V+S+N E +L D + + D+L Sbjct: 87 SGIDGRDASIEDIAHLLGKTTEEVQDVLSLN------EHTTSLDTPFDLDPGTSLLDFLS 140 Query: 206 YDHDGQ-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN---PVTLENLSSE 261 +H +Q + +E + ++ L R L+ + R + E RR N P TLE L++E Sbjct: 141 DEHGASPDQEVAHRELSQLMKSWLAR----LSDKHRYVVE-RRFGLNHIEPATLEELAAE 195 Query: 262 FEVSRERVRQIEARAFKKVQESIQKQ 287 ++RERVRQI+ A K++ Q Sbjct: 196 MGLTRERVRQIQQEALVKLKRHFASQ 221 >gi|148377531|ref|YP_001256407.1| RNA polymerase sigma factor [Mycoplasma agalactiae PG2] gi|148291577|emb|CAL58963.1| DNA directed RNA polymerase sigma factor(Sigma A) [Mycoplasma agalactiae PG2] Length = 509 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 32/88 (36%), Positives = 57/88 (64%), Gaps = 2/88 (2%) Query: 28 MLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L+ +EE+ LA + G A +L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 239 LLQPEEEFELATEMDKGGFKGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSG 298 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++AV+K++ +GF+ +TY+ WWI+ A+ Sbjct: 299 IIKAVQKYNVNKGFKFSTYATWWIRQAI 326 >gi|23978369|dbj|BAC21149.1| principal sigma factor [Pseudanabaena sp. PCC 7403] Length = 203 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 57/216 (26%), Positives = 110/216 (50%), Gaps = 17/216 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D++ D + + + + R++ ++L Sbjct: 116 RFIAKSAQLP--ISLETPIGKEE--DSRLGDFIESDGETPDDQVAKSLLREDLESVL--- 168 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 L+PRER + R ++ TLE + F V+ Sbjct: 169 -GTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|313678638|ref|YP_004056378.1| RNA polymerase sigma factor [Mycoplasma bovis PG45] gi|312950821|gb|ADR25416.1| RNA polymerase sigma factor [Mycoplasma bovis PG45] Length = 509 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 32/88 (36%), Positives = 57/88 (64%), Gaps = 2/88 (2%) Query: 28 MLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L+ +EE+ LA + G A +L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 239 LLQPEEEFELATEMDKGGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSG 298 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++AV+K++ +GF+ +TY+ WWI+ A+ Sbjct: 299 IIKAVQKYNVNKGFKFSTYATWWIRQAI 326 >gi|207743818|ref|YP_002260210.1| rna polymerase sigma d (sigma-70) factor (partial sequence c terminus) protein [Ralstonia solanacearum IPO1609] gi|206595218|emb|CAQ62145.1| rna polymerase sigma d (sigma-70) factor (partial sequence c terminus) protein [Ralstonia solanacearum IPO1609] Length = 684 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 31/78 (39%), Positives = 48/78 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 577 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 636 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 637 IRQAITRSIADQARTIRI 654 >gi|207723755|ref|YP_002254153.1| rna polymerase sigma d (sigma-70) factor protein [Ralstonia solanacearum MolK2] gi|206588959|emb|CAQ35921.1| rna polymerase sigma d (sigma-70) factor protein [Ralstonia solanacearum MolK2] Length = 773 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 31/78 (39%), Positives = 48/78 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 577 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 636 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 637 IRQAITRSIADQARTIRI 654 >gi|22135904|gb|AAM91534.1| sigma factor SigC [Arabidopsis thaliana] Length = 291 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 15/234 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV S LV+ +A YRG G+ +++ G +G++Q ++FD RG++ +TY +WI+ + Sbjct: 56 LVKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKS 115 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + R V I ++ + R H+Q LK + A +++ Sbjct: 116 MSTMVSRHARGVHIPSS---------IIRTINHIQK-ARKTLKTSHGIKYAADEEIAKLT 165 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 S+ A ++ L ++ S DK +L + D + E R++ R + Sbjct: 166 GHSVKKIRAANQCLK-VVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSARRDIHD 224 Query: 231 SMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L PRE+++ R LQ+ P +LE + +VS+E +R+IE RA K+++ Sbjct: 225 LLEGLEPREKQVMVLRYGLQDYRPKSLEEIGKLLKVSKEWIRKIERRAMAKLRD 278 >gi|330984347|gb|EGH82450.1| putative alternative sigma factor RpoH [Pseudomonas syringae pv. lachrymans str. M301315] Length = 263 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 59/262 (22%), Positives = 125/262 (47%), Gaps = 20/262 (7%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 +IP +++ + + + ++ G A VT+ L +V +A+ G + ++ +G + Sbjct: 18 QIPSIQEMDNNI--RIFKSTGCRKAHDACVTALLPMVYGLAVANAGRA-EVDDMFQQGAL 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 +M A++KFDP+ + +++ ++ A+ + L+++ T K + RR+ Sbjct: 75 AVMDALRKFDPDDELNILSWTKLYVSRAINSLCVFGTKLIRVPDT---KTIRLCYRRMGL 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD---ESLNALINSSDKNSSQWQ 201 L+ D + + +A +L VS + ++A D +++ D+ WQ Sbjct: 132 FLK---DGPINEARSKILANELGVSLEDF-----KIARDLYSSCYEPVLSCGDE---PWQ 180 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 + + E+ +I ++E + ++ R M+VLNP+E + R LQE PV L + + Sbjct: 181 GHDIKTSETLEEAIIVEDEAAHVTRVVGRLMTVLNPKEAEVIRLRCLQEEPVQLRLVGEQ 240 Query: 262 FEVSRERVRQIEARAFKKVQES 283 S ER RQ+E A K++++ Sbjct: 241 LGFSTERARQVENIAKDKMRKA 262 >gi|291320189|ref|YP_003515450.1| DNA directed RNA polymerase sigma factor [Mycoplasma agalactiae] gi|290752521|emb|CBH40493.1| DNA directed RNA polymerase sigma factor(Sigma A) [Mycoplasma agalactiae] Length = 509 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 32/88 (36%), Positives = 57/88 (64%), Gaps = 2/88 (2%) Query: 28 MLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L+ +EE+ LA + G A +L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 239 LLQPEEEFELATEMDKGGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSG 298 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++AV+K++ +GF+ +TY+ WWI+ A+ Sbjct: 299 IIKAVQKYNVNKGFKFSTYATWWIRQAI 326 >gi|289751356|ref|ZP_06510734.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T92] gi|289691943|gb|EFD59372.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T92] Length = 470 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 45/141 (31%), Positives = 75/141 (53%), Gaps = 31/141 (21%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 216 RKDAELTASADS-VRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 274 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++AV+K Sbjct: 275 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 334 Query: 93 FDPERGFRLATYSMWWIKAAM 113 FD +G++ +TY+ WWI+ A+ Sbjct: 335 FDYTKGYKFSTYATWWIRQAI 355 >gi|254253854|ref|ZP_04947171.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] gi|124898499|gb|EAY70342.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] Length = 547 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 56/232 (24%), Positives = 109/232 (46%), Gaps = 15/232 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLV+ IA Y G+ + ++V +G +GLM+A++KF+ RGF+ +TY+ WWI+ A Sbjct: 314 MLEANLRLVLSIARKYMNRGVDLPDLVQDGCVGLMRAIEKFEYRRGFKFSTYATWWIRQA 373 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + +++ + + ++R + T P + +A + + E + Sbjct: 374 VARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAE---LAAETGLDEDK 428 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + ++ A SL+ + +D D + D E+ R +T + Sbjct: 429 LRAILALPAEPVSLDTPLPDTDTG---LVDTI---EDQASASPFERLADARMRECVTSLL 482 Query: 233 SVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + P E + RR P T + ++ + +SRERVRQIE RA ++ Sbjct: 483 RSVTPTEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALAALR 533 >gi|193216688|ref|YP_001999930.1| RNA polymerase sigma factor [Mycoplasma arthritidis 158L3-1] gi|193002011|gb|ACF07226.1| RNA polymerase sigma-70 factor [Mycoplasma arthritidis 158L3-1] Length = 513 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 66/253 (26%), Positives = 121/253 (47%), Gaps = 39/253 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV +LRLV+ A Y+ GL +++SEGN G+M+AV K+D ++GF+ +TY+ WW Sbjct: 260 ARDMLVKRNLRLVINNAKRYKNRGLSFIDLISEGNSGIMKAVSKYDYKKGFKFSTYATWW 319 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + A+Q R R+ H+ + LK E+ + Sbjct: 320 IRQAITRAV------------ADQARTI----RVPVHMVETINKILKIERELQQEFGYPP 363 Query: 169 SESEVISMNCRLAGDESLNAL-----IN----SSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 ++ E+ + GD + + IN S DKN + ++ D E V+ + Sbjct: 364 TDEEIAK---KFGGDFTAEKVRYIRKINIDPISLDKNIGKEENSSFSDFVKDESVISPND 420 Query: 220 -ERKNRRNMLTRSM--SVLNPRERRIFEARR-LQENPV-------TLENLSSEFEVSRER 268 + ++ M S L+P ++ + R + ++P TL+ L+ E +S+E+ Sbjct: 421 FASQQELAVILNEMINSSLDPEDQALIRKRYGVGQDPSGVPYRPHTLDELAKELNISKEK 480 Query: 269 VRQIEARAFKKVQ 281 VR++EA+ +K++ Sbjct: 481 VRKLEAKILRKLK 493 >gi|47459124|ref|YP_015986.1| RNA polymerase sigma factor [Mycoplasma mobile 163K] gi|47458453|gb|AAT27775.1| DNA-directed RNA polymerase sigma factor [Mycoplasma mobile 163K] Length = 488 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 34/103 (33%), Positives = 61/103 (59%), Gaps = 4/103 (3%) Query: 28 MLEKQEEYVLAKRYREHGD----LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +L+K+EE +K+ E + A + L+ +LRLV+ A Y+ GL +++SEGN Sbjct: 214 VLDKEEEIKYSKQIEEDRNGRKGKKAFNALIHHNLRLVINNAKKYKNRGLSFIDLISEGN 273 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GL++A K+D RGF+ +TY+ WW++ A+ + +V++ Sbjct: 274 AGLIKAATKYDYRRGFKFSTYATWWVRQAITRAVADQARIVRV 316 >gi|26665386|dbj|BAC44904.1| principal sigma factor [Fischerella major NIES-592] Length = 203 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/217 (28%), Positives = 110/217 (50%), Gaps = 19/217 (8%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTR 230 I + +L SL I + S+ D++ + DG+ E + KN R L + Sbjct: 116 RFIVKSAQLPI--SLETPIGKEE--DSRLGDFI--ESDGETP---EDQVSKNLLREDLEK 166 Query: 231 SMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 + L+PRER + R ++ TLE + F V+ Sbjct: 167 VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|302520386|ref|ZP_07272728.1| RNA polymerase sigma-G factor [Streptomyces sp. SPB78] gi|318060770|ref|ZP_07979493.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actG] gi|318078699|ref|ZP_07986031.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] gi|333025873|ref|ZP_08453937.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] gi|302429281|gb|EFL01097.1| RNA polymerase sigma-G factor [Streptomyces sp. SPB78] gi|332745725|gb|EGJ76166.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] Length = 274 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 120/244 (49%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EHG + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 46 EHGRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 103 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + + I Sbjct: 104 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSAAEDLTTAHGRSPTTAEI 158 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L + E EV++ C AG +++ ++Q D L + D G E ++ E Sbjct: 159 AERLRIGEDEVLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 211 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R N +T +S+E VS+ V ++ AR+F + Sbjct: 212 HRD----LVRHLLVQLPEREQRILLLRYY--NNLTQSQISAELGVSQMHVSRLLARSFAR 265 Query: 280 VQES 283 ++ + Sbjct: 266 LRSA 269 >gi|89068737|ref|ZP_01156123.1| sigma32-like factor [Oceanicola granulosus HTCC2516] gi|89045700|gb|EAR51762.1| sigma32-like factor [Oceanicola granulosus HTCC2516] Length = 241 Score = 70.9 bits (172), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 68/263 (25%), Positives = 116/263 (44%), Gaps = 39/263 (14%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 E K P+L +E ++++ GD ++ L+ SH R A + I ++V+E Sbjct: 7 EALKEPLLGLDQERQAIEKWQGEGDRASLELLLRSHARQAYAQATRWTDNPSYIEDLVAE 66 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G I LM+A ++FD R R +TY+ WW++ AM E R +++ + A RR Sbjct: 67 GMIALMRAAERFDLTREVRFSTYAAWWLRTAMAEAYGRISAVIDVPVKA-----LAEARR 121 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +A+ N VVA+ SE + M+ RLA E Sbjct: 122 AG---EALAQRN-----VVALDGGARASEED--DMSDRLACPEPT--------------- 156 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 E +I R +L +++ L+ ER I R+L + P ++ L++E Sbjct: 157 ---------PEDRIIRDSSRDAAARLLHAALASLSETERTILARRKLSDRPAPVDALAAE 207 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S R+RQIE RA ++++ + Sbjct: 208 LSMSPTRLRQIETRAMGRLRQRL 230 >gi|318066901|emb|CBY89065.1| RNA polymerase sigma70 factor [Carnimonas nigrificans] Length = 371 Score = 70.9 bits (172), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 306 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 365 Query: 109 IKAAM 113 I+ A+ Sbjct: 366 IRQAI 370 >gi|15232364|ref|NP_190960.1| SIGC (RNA POLYMERASE SIGMA-SUBUNIT C); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|2353175|gb|AAB69386.1| sigma factor 3 [Arabidopsis thaliana] gi|2463554|dbj|BAA22530.1| SigC [Arabidopsis thaliana] gi|5478585|dbj|BAA82450.1| sigma factor SigC [Arabidopsis thaliana] gi|7630012|emb|CAB88354.1| sigma factor SigC [Arabidopsis thaliana] gi|133778870|gb|ABO38775.1| At3g53920 [Arabidopsis thaliana] gi|332645638|gb|AEE79159.1| RNApolymerase sigma-subunit C [Arabidopsis thaliana] Length = 571 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 15/234 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV S LV+ +A YRG G+ +++ G +G++Q ++FD RG++ +TY +WI+ + Sbjct: 336 LVKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKS 395 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + R V I ++ + R H+Q LK + A +++ Sbjct: 396 MSTMVSRHARGVHIPSS---------IIRTINHIQK-ARKTLKTSHGIKYAADEEIAKLT 445 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 S+ A ++ L ++ S DK +L + D + E R++ R + Sbjct: 446 GHSVKKIRAANQCLK-VVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSARRDIHD 504 Query: 231 SMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L PRE+++ R LQ+ P +LE + +VS+E +R+IE RA K+++ Sbjct: 505 LLEGLEPREKQVMVLRYGLQDYRPKSLEEIGKLLKVSKEWIRKIERRAMAKLRD 558 >gi|307776476|pdb|3LES|A Chain A, 2f5 Epitope Scaffold Es2 gi|307776477|pdb|3LES|B Chain B, 2f5 Epitope Scaffold Es2 gi|307776478|pdb|3LEV|A Chain A, Hiv-1 Antibody 2f5 In Complex With Epitope Scaffold Es2 Length = 179 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 32/70 (45%), Positives = 48/70 (68%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +RGF +TY+ W Sbjct: 105 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRGFAFSTYATW 164 Query: 108 WIKAAMQEYI 117 WI+ A+ I Sbjct: 165 WIRQAINRAI 174 >gi|254253609|ref|ZP_04946926.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] gi|124898254|gb|EAY70097.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] Length = 773 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 31/78 (39%), Positives = 48/78 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 565 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 624 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 625 IRQAITRSIADQARTIRI 642 >gi|75812393|ref|YP_320012.1| sigma-70 [Anabaena variabilis ATCC 29413] gi|75705149|gb|ABA24823.1| Sigma-70 [Anabaena variabilis ATCC 29413] Length = 314 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 42/154 (27%), Positives = 73/154 (47%), Gaps = 39/154 (25%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYRE---------------HGDLS--------------- 48 Y+ EI K PML ++E LA++ ++ H L+ Sbjct: 11 YLREISKYPMLTPEQEITLARQVKQMTVVQQHKQVLEEQLHQQLNIQQLAADMGKSETEV 70 Query: 49 ---------AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA YR L ++V EG+IGL +AV++FDP RG+ Sbjct: 71 FQILRLGQKAKEKMIAANLRLVVAIAKKYRWSQLEFLDLVQEGSIGLQKAVERFDPNRGY 130 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +T + WWI+ + + I + ++ + N + Sbjct: 131 KFSTCAYWWIRQEITKAIANKSTTIRTPSHMNDR 164 >gi|318066953|emb|CBY89091.1| RNA polymerase sigma70 factor [Halomonas koreensis] Length = 365 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 300 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 359 Query: 109 IKAAM 113 I+ A+ Sbjct: 360 IRQAI 364 >gi|318066923|emb|CBY89076.1| RNA polymerase sigma70 factor [Halomonas anticariensis] Length = 371 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 306 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 365 Query: 109 IKAAM 113 I+ A+ Sbjct: 366 IRQAI 370 >gi|282863441|ref|ZP_06272500.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282561776|gb|EFB67319.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 285 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 115/234 (49%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + T++M + Sbjct: 65 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFPTFAMPTVVGE 124 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L +SE E Sbjct: 125 IKRYFRDNVRTVHV-----PRRLHELWVQVTGATEDLTTAHGRSPTTAEIAQRLKISEEE 179 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 180 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 228 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R N +T +S+E VS+ V ++ AR+F +++ + Sbjct: 229 HLLVQLPEREQRILLLRYY--NNLTQSQISAELGVSQMHVSRLLARSFARLRSA 280 >gi|318066973|emb|CBY89101.1| RNA polymerase sigma70 factor [Halomonas taeanensis] Length = 366 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 301 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 360 Query: 109 IKAAM 113 I+ A+ Sbjct: 361 IRQAI 365 >gi|318066945|emb|CBY89087.1| RNA polymerase sigma70 factor [Halomonas halocynthiae] Length = 368 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|318066993|emb|CBY89111.1| RNA polymerase sigma70 factor [Salinicola halophilus] Length = 368 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|321309572|ref|YP_004191901.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] gi|319801416|emb|CBY92062.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] Length = 461 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/78 (38%), Positives = 49/78 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S+LRLV +A Y YG P+ ++V EG GLM+AV+KF+ G + +TY+ WW Sbjct: 175 AIKQLTISNLRLVQSVAKKYLNYGFPMEDLVQEGFFGLMKAVQKFNYNLGNKFSTYATWW 234 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I + ++++ Sbjct: 235 IRQAIVRSIAEKYRVIRV 252 >gi|318066957|emb|CBY89093.1| RNA polymerase sigma70 factor [Halomonas maura] Length = 365 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 300 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 359 Query: 109 IKAAM 113 I+ A+ Sbjct: 360 IRQAI 364 >gi|323345486|ref|ZP_08085709.1| RNA polymerase sigma-43 factor [Prevotella oralis ATCC 33269] gi|323093600|gb|EFZ36178.1| RNA polymerase sigma-43 factor [Prevotella oralis ATCC 33269] Length = 238 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 38/112 (33%), Positives = 67/112 (59%), Gaps = 1/112 (0%) Query: 11 NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G+ + Y+ EI +L EE LA++ ++GD +A RL ++L+ VV IA Y+ Sbjct: 4 TGKSSMKLYLDEIGGESLLTSLEEMKLAEKI-QNGDEAALERLTKANLKFVVFIAKQYQH 62 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 G+ + ++VSEGNIGL+ A KK+ P + R A ++ +I+ +++ +LR + Sbjct: 63 QGVDMEDLVSEGNIGLLYAAKKYTPSKEKRFAPFAAPFIRKQIEQLLLRQGA 114 >gi|318066989|emb|CBY89109.1| RNA polymerase sigma70 factor [Kushneria marisflavi] Length = 373 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 308 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 367 Query: 109 IKAAM 113 I+ A+ Sbjct: 368 IRQAI 372 >gi|318066981|emb|CBY89105.1| RNA polymerase sigma70 factor [Halotalea alkalilenta] Length = 370 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 305 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 364 Query: 109 IKAAM 113 I+ A+ Sbjct: 365 IRQAI 369 >gi|7363220|emb|CAB83107.1| sigma factor 3 [Sinapis alba] Length = 567 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 15/234 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV S LV+ +A YRG G+ +++ G +G++Q ++FD RG++ +TY +WI+ + Sbjct: 332 LVKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVRYWIRKS 391 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + R V I A+ R +++ + LK Q + +S+ Sbjct: 392 MSTMVSRHARGVHI--PASIIRTMSQIQKAR--------KTLKTSQGIKYPADEEISKLT 441 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 S+ A ++ L ++ S DK +L + D + E R++ R + Sbjct: 442 GYSLKKIRAANQCLK-VVGSIDKKVGDCFTTRFLEFTPDPTMESPEEAVMRQSARGEVHN 500 Query: 231 SMSVLNPRERRIFEARR-LQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L PRE+++ R LQ+ +P +LE + VS+E +R+IE RA K+++ Sbjct: 501 LLEGLEPREKQVMVLRYGLQDYSPKSLEEIGKILRVSKEGIRKIERRAMAKLRD 554 >gi|318066943|emb|CBY89086.1| RNA polymerase sigma70 factor [Halomonas halmophila] Length = 367 Score = 70.1 bits (170), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|318066921|emb|CBY89075.1| RNA polymerase sigma70 factor [Halomonas almeriensis] Length = 366 Score = 70.1 bits (170), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 301 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 360 Query: 109 IKAAM 113 I+ A+ Sbjct: 361 IRQAI 365 >gi|225454599|ref|XP_002264964.1| PREDICTED: hypothetical protein isoform 2 [Vitis vinifera] Length = 496 Score = 70.1 bits (170), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/251 (25%), Positives = 122/251 (48%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G ++++V G IGL++ ++KFD +GF+++TY WW Sbjct: 253 AREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 312 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN--------NLKPEQV- 159 I+ + ++ + +++ + +++ +++ + IT + N+ ++V Sbjct: 313 IRQGVSRALVENSRTLRLPSHLHERLSLIRNAKIRLEEKGITPSIDRIAECLNMSQKKVR 372 Query: 160 ---VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 AI+K ++ S+N L G E+L++ I ++ W H E L Sbjct: 373 NATEAISKVFSLDREAFPSLNG-LPG-ETLHSYIADVRLENNPW-------HGVDEWAL- 422 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQIEAR 275 K+ N L + L RER I L +T E++S +SRERVRQ+ Sbjct: 423 -----KDEVNKLIN--TTLGERERDIIRLYYGLDNECLTWEDISKRIGLSRERVRQVGLV 475 Query: 276 AFKKVQESIQK 286 A +K++ + +K Sbjct: 476 ALEKLKNAARK 486 >gi|318066975|emb|CBY89102.1| RNA polymerase sigma70 factor [Halomonas variabilis] Length = 368 Score = 70.1 bits (170), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|225454597|ref|XP_002264928.1| PREDICTED: hypothetical protein isoform 1 [Vitis vinifera] Length = 507 Score = 70.1 bits (170), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/251 (25%), Positives = 122/251 (48%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G ++++V G IGL++ ++KFD +GF+++TY WW Sbjct: 264 AREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 323 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN--------NLKPEQV- 159 I+ + ++ + +++ + +++ +++ + IT + N+ ++V Sbjct: 324 IRQGVSRALVENSRTLRLPSHLHERLSLIRNAKIRLEEKGITPSIDRIAECLNMSQKKVR 383 Query: 160 ---VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 AI+K ++ S+N L G E+L++ I ++ W H E L Sbjct: 384 NATEAISKVFSLDREAFPSLNG-LPG-ETLHSYIADVRLENNPW-------HGVDEWAL- 433 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEA-RRLQENPVTLENLSSEFEVSRERVRQIEAR 275 K+ N L + L RER I L +T E++S +SRERVRQ+ Sbjct: 434 -----KDEVNKLIN--TTLGERERDIIRLYYGLDNECLTWEDISKRIGLSRERVRQVGLV 486 Query: 276 AFKKVQESIQK 286 A +K++ + +K Sbjct: 487 ALEKLKNAARK 497 >gi|318066987|emb|CBY89108.1| RNA polymerase sigma70 factor [Kushneria indalinina] Length = 372 Score = 70.1 bits (170), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 307 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 366 Query: 109 IKAAM 113 I+ A+ Sbjct: 367 IRQAI 371 >gi|318066961|emb|CBY89095.1| RNA polymerase sigma70 factor [Halomonas muralis] Length = 367 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|318066977|emb|CBY89103.1| RNA polymerase sigma70 factor [Halomonas ventosae] Length = 366 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 301 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 360 Query: 109 IKAAM 113 I+ A+ Sbjct: 361 IRQAI 365 >gi|318066955|emb|CBY89092.1| RNA polymerase sigma70 factor [Halomonas magadiensis] Length = 370 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 305 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 364 Query: 109 IKAAM 113 I+ A+ Sbjct: 365 IRQAI 369 >gi|318066931|emb|CBY89080.1| RNA polymerase sigma70 factor [Halomonas campaniensis] Length = 368 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|23978365|dbj|BAC21147.1| principal sigma factor [Leptolyngbya sp. PCC 7375] Length = 203 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 58/216 (26%), Positives = 108/216 (50%), Gaps = 17/216 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-NLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPV-----HLYETISRIKKTTKLLSQELGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 I+ + +L SL I + S+ D++ D + E + + R++ +L Sbjct: 116 RFIAKSAQLP--ISLETPIGKEE--DSRLGDFIESDGETPEDEVSKSLLREDLEGVL--- 168 Query: 232 MSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 S L+P ER + R ++ TLE + F V+ Sbjct: 169 -STLSPSERDVLRLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|318066929|emb|CBY89079.1| RNA polymerase sigma70 factor [Halomonas boliviensis] Length = 368 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|318066995|emb|CBY89112.1| RNA polymerase sigma70 factor [Salinicola salarius] Length = 368 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|318066951|emb|CBY89090.1| RNA polymerase sigma70 factor [Halomonas hydrothermalis] Length = 370 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 305 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 364 Query: 109 IKAAM 113 I+ A+ Sbjct: 365 IRQAI 369 >gi|318066937|emb|CBY89083.1| RNA polymerase sigma70 factor [Halomonas desiderata] Length = 375 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 310 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 369 Query: 109 IKAAM 113 I+ A+ Sbjct: 370 IRQAI 374 >gi|318066967|emb|CBY89098.1| RNA polymerase sigma70 factor [Halomonas pantelleriensis] Length = 363 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 298 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 357 Query: 109 IKAAM 113 I+ A+ Sbjct: 358 IRQAI 362 >gi|318066963|emb|CBY89096.1| RNA polymerase sigma70 factor [Halomonas neptunia] Length = 368 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|318066935|emb|CBY89082.1| RNA polymerase sigma70 factor [Halomonas cupida] Length = 365 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 300 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 359 Query: 109 IKAAM 113 I+ A+ Sbjct: 360 IRQAI 364 >gi|318066939|emb|CBY89084.1| RNA polymerase sigma70 factor [Halomonas elongata] Length = 367 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|318066971|emb|CBY89100.1| RNA polymerase sigma70 factor [Halomonas sulfidaeris] Length = 368 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 303 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 362 Query: 109 IKAAM 113 I+ A+ Sbjct: 363 IRQAI 367 >gi|229051333|ref|ZP_04194847.1| RNA polymerase sigma-43 factor [Bacillus cereus AH676] gi|229125362|ref|ZP_04254451.1| RNA polymerase sigma-43 factor [Bacillus cereus 95/8201] gi|228658091|gb|EEL13842.1| RNA polymerase sigma-43 factor [Bacillus cereus 95/8201] gi|228722026|gb|EEL73457.1| RNA polymerase sigma-43 factor [Bacillus cereus AH676] Length = 325 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 72/276 (26%), Positives = 127/276 (46%), Gaps = 37/276 (13%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISEVVSEGNIG 85 +L K+E L KRY+ HG+ L + LV+ IA Y+ + ++V EGN G Sbjct: 50 VLSKEESLHLFKRYK-HGEKDLRDYLFHVNEGLVLSIARNYKNKHPDIEFDDLVQEGNEG 108 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLFFNLRRLKG 144 +++A++ F+P+ G+ +TY+ WWI+ +M I + S KI T NQ FNL+ ++ Sbjct: 109 MLRAMEDFNPDLGYCFSTYAFWWIQKSMLGIIRKKKSGPFKIPTHVNQ----FNLKYVEL 164 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS------------ 192 + + N P V + K+LNV+ VI ++ I++ Sbjct: 165 EDKYLQRYNRTP-SVEEVVKELNVTRETVIRHKVYYKRATTMTLDIDTINEDVGISTPFF 223 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQEN 251 DK++ + ++ + E LI E VLNP+++ + L + Sbjct: 224 DDKSAIPSTNEMIIEDLNYEIWLIFDE--------------VLNPKQKMVLNLCFGLLDG 269 Query: 252 PVTL-ENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 V L + ++ ++ ERV QI+ A KK+++ K Sbjct: 270 KVYLHKEIAKALMITTERVSQIKDEAIKKLKKCQHK 305 >gi|318066979|emb|CBY89104.1| RNA polymerase sigma70 factor [Halomonas venusta] Length = 370 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 305 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 364 Query: 109 IKAAM 113 I+ A+ Sbjct: 365 IRQAI 369 >gi|318066941|emb|CBY89085.1| RNA polymerase sigma70 factor [Halomonas eurihalina] Length = 367 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|239942801|ref|ZP_04694738.1| RNA polymerase sigma factor, sigma F [Streptomyces roseosporus NRRL 15998] gi|239989260|ref|ZP_04709924.1| RNA polymerase sigma factor, sigma F [Streptomyces roseosporus NRRL 11379] gi|291446270|ref|ZP_06585660.1| sigma F [Streptomyces roseosporus NRRL 15998] gi|291349217|gb|EFE76121.1| sigma F [Streptomyces roseosporus NRRL 15998] Length = 285 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 119/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + Sbjct: 57 EHRRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFP 114 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ G + +T + + I Sbjct: 115 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVTGATEDLTTAHGRSPTTAEI 169 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L +SE EV++ C AG +++ ++Q D L + D G E + E Sbjct: 170 AERLKISEDEVLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVE 222 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F + Sbjct: 223 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFAR 276 Query: 280 VQES 283 ++ + Sbjct: 277 LRSA 280 >gi|9621765|gb|AAF89531.1|AF160964_1 RNA polymerase sigma factor [Peanut witches'-broom phytoplasma] Length = 458 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 70/263 (26%), Positives = 123/263 (46%), Gaps = 40/263 (15%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 YV +Y H + S+LR+VV IA G +++ EGN+GLM+ V KFD Sbjct: 206 YVFNNQYSSHYGIKQL-----SNLRIVVSIAKKQSERGQYFLDLIHEGNMGLMKTVDKFD 260 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN- 153 +GF+ +TY+ WWI+ A+ + A+Q R R H+ I + N Sbjct: 261 YTKGFKFSTYATWWIRQAITRAV------------ADQSRTI----RCPVHVSDILNKNF 304 Query: 154 -LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 K + +A+K +E+ I+ + E+ +I K + +++ + Sbjct: 305 AFKSKLTQDLARKARKAENHEIA---KAMNIETKKLMIYKWLKRNDFFRNIYSWWRWFFF 361 Query: 213 QVLIEKEER---------KNRRNMLTRSM-SVLNPRERRIFEARR--LQ-ENPV-TLENL 258 + ++ R +N + L S+ L PRE+ + + R L+ +N V TLE + Sbjct: 362 RWFYKRSLRYFASWLYVTRNFKKTLEESLEEALTPREQLVLKMRYGILEGDNRVHTLEEV 421 Query: 259 SSEFEVSRERVRQIEARAFKKVQ 281 ++ V+RER+RQIE +A +K++ Sbjct: 422 GAKLGVTRERIRQIETKALRKLR 444 >gi|318066965|emb|CBY89097.1| RNA polymerase sigma70 factor [Halomonas pacifica] Length = 362 Score = 70.1 bits (170), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 297 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 356 Query: 109 IKAAM 113 I+ A+ Sbjct: 357 IRQAI 361 >gi|67921071|ref|ZP_00514590.1| Sigma-70 region 2:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67857188|gb|EAM52428.1| Sigma-70 region 2:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 250 Score = 69.7 bits (169), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 27/67 (40%), Positives = 47/67 (70%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 + A ++ ++LRLVV +A Y+ GL + +++ EG +GL +AV+KFDP +G+R +TY+ Sbjct: 177 IKAKDEIIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPVKGYRFSTYAY 236 Query: 107 WWIKAAM 113 WWI+ + Sbjct: 237 WWIRQGI 243 >gi|321309570|ref|YP_004191899.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] gi|319801414|emb|CBY92060.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] Length = 524 Score = 69.7 bits (169), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 38/101 (37%), Positives = 62/101 (61%), Gaps = 3/101 (2%) Query: 28 MLEKQEEYVLAKRYREHGDLS--AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 ML +EE LAK ++ DL A +L+TS+LRLV+ IA Y G + ++V EG G Sbjct: 213 MLTAEEERKLAK-LMDNPDLRPFAVKQLMTSNLRLVISIAKKYLNRGFSLGDLVQEGVFG 271 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 LM++++KFD + G + +TY+ WWI+ ++ I +++I Sbjct: 272 LMKSIQKFDYKFGNKFSTYATWWIRQSITRAIADQARIIRI 312 >gi|318066947|emb|CBY89088.1| RNA polymerase sigma70 factor [Halomonas halodenitrificans] Length = 360 Score = 69.7 bits (169), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 295 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 354 Query: 109 IKAAM 113 I+ A+ Sbjct: 355 IRQAI 359 >gi|318066983|emb|CBY89106.1| RNA polymerase sigma70 factor [Kushneria aurantia] Length = 370 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 305 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 364 Query: 109 IKAAM 113 I+ A+ Sbjct: 365 IRQAI 369 >gi|318066925|emb|CBY89077.1| RNA polymerase sigma70 factor [Halomonas aquamarina] gi|318066927|emb|CBY89078.1| RNA polymerase sigma70 factor [Halomonas axialensis] gi|318066959|emb|CBY89094.1| RNA polymerase sigma70 factor [Halomonas meridiana] Length = 370 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 305 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 364 Query: 109 IKAAM 113 I+ A+ Sbjct: 365 IRQAI 369 >gi|320009625|gb|ADW04475.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 285 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 115/234 (49%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + T++M + Sbjct: 65 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFPTFAMPTVVGE 124 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L +SE E Sbjct: 125 IKRYFRDNVRTVHV-----PRRLHELWVQVTGATEDLTTAHGRSPTTGEIAERLKISEDE 179 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 180 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 228 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R N +T +S+E VS+ V ++ AR+F +++ + Sbjct: 229 HLLVQLPEREQRILLLRYY--NNLTQSQISAELGVSQMHVSRLLARSFARLRSA 280 >gi|318066903|emb|CBY89066.1| RNA polymerase sigma70 factor [Chromohalobacter beijerinckii] Length = 367 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|119717204|ref|YP_924169.1| sigma-70 region 3 domain-containing protein [Nocardioides sp. JS614] gi|119537865|gb|ABL82482.1| sigma-70 region 3 domain protein [Nocardioides sp. JS614] Length = 319 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 117/235 (49%), Gaps = 12/235 (5%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +T++LRLVV IA Y +P+ +++ EGN GL++AV+KFD +G++ +TY+ WW Sbjct: 86 AVDTFITANLRLVVSIARKYGRAQMPMLDLIQEGNTGLIRAVEKFDYTKGYKFSTYATWW 145 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ A+ I + +V++ + L ++ G + + + + IA++L + Sbjct: 146 VRQAITRGIAQQARVVRLPV-----HVVEELNQVGGARRTLERKLGREPEPREIAEELGM 200 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 V+ + SL++ ++ D ++S G + I+ E R +R N L Sbjct: 201 EVDRVLDLMAWGREHVSLDSPVD-EDGDTSLGDLMAQETAPGPDLNFIDVESR-DRLNSL 258 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L+ R I +R + L ++ ++ +S ERVRQ+E A +K++ Sbjct: 259 ---VGKLDDRAADIIRSRYGLVDGRQHKLADIGAKHGISAERVRQLEREALQKLR 310 >gi|318066915|emb|CBY89072.1| RNA polymerase sigma70 factor [Chromohalobacter sarecensis] Length = 369 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 304 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 363 Query: 109 IKAAM 113 I+ A+ Sbjct: 364 IRQAI 368 >gi|318066919|emb|CBY89074.1| RNA polymerase sigma70 factor [Halomonas alimentaria] Length = 362 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 297 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 356 Query: 109 IKAAM 113 I+ A+ Sbjct: 357 IRQAI 361 >gi|45128577|gb|AAS55057.1| RpoD [Vibrio parahaemolyticus] Length = 492 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 31/78 (39%), Positives = 48/78 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y G +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGXQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 433 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I ++I Sbjct: 434 IRQAITRSIADQARTIRI 451 >gi|297737220|emb|CBI26421.3| unnamed protein product [Vitis vinifera] Length = 555 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 65/251 (25%), Positives = 122/251 (48%), Gaps = 30/251 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G ++++V G IGL++ ++KFD +GF+++TY WW Sbjct: 312 AREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 371 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN--------NLKPEQV- 159 I+ + ++ + +++ + +++ +++ + IT + N+ ++V Sbjct: 372 IRQGVSRALVENSRTLRLPSHLHERLSLIRNAKIRLEEKGITPSIDRIAECLNMSQKKVR 431 Query: 160 ---VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 AI+K ++ S+N L G E+L++ I ++ W H E L Sbjct: 432 NATEAISKVFSLDREAFPSLNG-LPG-ETLHSYIADVRLENNPW-------HGVDEWAL- 481 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEAR 275 K+ N L + L RER I L +T E++S +SRERVRQ+ Sbjct: 482 -----KDEVNKLIN--TTLGERERDIIRLYYGLDNECLTWEDISKRIGLSRERVRQVGLV 534 Query: 276 AFKKVQESIQK 286 A +K++ + +K Sbjct: 535 ALEKLKNAARK 545 >gi|170077819|ref|YP_001734457.1| sigma-70 factor [Synechococcus sp. PCC 7002] gi|169885488|gb|ACA99201.1| sigma-70 factor [Synechococcus sp. PCC 7002] Length = 328 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 114/240 (47%), Gaps = 31/240 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA Y+ L +++ EG++GL + V+KFDP +G++ +TY+ WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNLEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKI---------GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I + +++ Q++L +L R + L+P Q Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRQLAQDLGRAATIAEIAEALELEPAQ- 210 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I + VS IS++ R+ GD L++ + + + + Y+ Q+ Sbjct: 211 --IREYFRVSRHP-ISLDVRV-GDNQDTELMDLLEDSGESPDNNVTYELLKQD------- 259 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENP-VTLENLSSEFEVSRERVRQIEARAF 277 L ++ L P+++ + R L + ++L + +SRERVRQ+E +A Sbjct: 260 --------LRDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRERVRQLERQAL 311 >gi|318066905|emb|CBY89067.1| RNA polymerase sigma70 factor [Chromohalobacter canadensis] Length = 367 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|318066909|emb|CBY89069.1| RNA polymerase sigma70 factor [Chromohalobacter marismortui] Length = 367 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|318066933|emb|CBY89081.1| RNA polymerase sigma70 factor [Halomonas campisalis] Length = 367 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|294856621|gb|ADF45248.1| RNA polymerase sigma S factor [Escherichia sp. B827] gi|294856623|gb|ADF45249.1| RNA polymerase sigma S factor [Escherichia sp. E1492] gi|294856625|gb|ADF45250.1| RNA polymerase sigma S factor [Escherichia sp. E807] gi|294856627|gb|ADF45251.1| RNA polymerase sigma S factor [Escherichia sp. H442] gi|294856629|gb|ADF45252.1| RNA polymerase sigma S factor [Escherichia sp. M863] gi|294856631|gb|ADF45253.1| RNA polymerase sigma S factor [Escherichia sp. TW10509] gi|294856633|gb|ADF45254.1| RNA polymerase sigma S factor [Escherichia sp. TW11930] gi|294856635|gb|ADF45255.1| RNA polymerase sigma S factor [Escherichia sp. TW11966] gi|294856639|gb|ADF45257.1| RNA polymerase sigma S factor [Escherichia sp. TW09231] gi|294856641|gb|ADF45258.1| RNA polymerase sigma S factor [Escherichia sp. TW09276] gi|294856643|gb|ADF45259.1| RNA polymerase sigma S factor [Escherichia sp. TW09254] gi|294856645|gb|ADF45260.1| RNA polymerase sigma S factor [Escherichia sp. TW09266] gi|294856647|gb|ADF45261.1| RNA polymerase sigma S factor [Escherichia sp. TA04] gi|294856649|gb|ADF45262.1| RNA polymerase sigma S factor [Escherichia sp. B685] gi|294856651|gb|ADF45263.1| RNA polymerase sigma S factor [Escherichia sp. TW14182] gi|294856653|gb|ADF45264.1| RNA polymerase sigma S factor [Escherichia albertii TW11588] gi|294856655|gb|ADF45265.1| RNA polymerase sigma S factor [Escherichia sp. H605] gi|294856657|gb|ADF45266.1| RNA polymerase sigma S factor [Escherichia sp. B49] gi|294856659|gb|ADF45267.1| RNA polymerase sigma S factor [Escherichia sp. TW09308] gi|294856661|gb|ADF45268.1| RNA polymerase sigma S factor [Escherichia sp. B1225] gi|294856663|gb|ADF45269.1| RNA polymerase sigma S factor [Escherichia sp. B646] gi|294856665|gb|ADF45270.1| RNA polymerase sigma S factor [Escherichia sp. E1118] gi|294856667|gb|ADF45271.1| RNA polymerase sigma S factor [Escherichia sp. E1195] gi|294856669|gb|ADF45272.1| RNA polymerase sigma S factor [Escherichia sp. E1196] gi|294856671|gb|ADF45273.1| RNA polymerase sigma S factor [Escherichia sp. E471] gi|294856673|gb|ADF45274.1| RNA polymerase sigma S factor [Escherichia sp. E472] gi|294856675|gb|ADF45275.1| RNA polymerase sigma S factor [Escherichia sp. E620] gi|294856677|gb|ADF45276.1| RNA polymerase sigma S factor [Escherichia sp. M1108] gi|294856679|gb|ADF45277.1| RNA polymerase sigma S factor [Escherichia sp. TA290] gi|294856681|gb|ADF45278.1| RNA polymerase sigma S factor [Escherichia sp. TW14263] gi|294856683|gb|ADF45279.1| RNA polymerase sigma S factor [Escherichia sp. TW14264] gi|294856685|gb|ADF45280.1| RNA polymerase sigma S factor [Escherichia sp. TW14265] gi|294856687|gb|ADF45281.1| RNA polymerase sigma S factor [Escherichia sp. TW14266] gi|294856689|gb|ADF45282.1| RNA polymerase sigma S factor [Escherichia sp. TW14267] gi|294856691|gb|ADF45283.1| RNA polymerase sigma S factor [Escherichia sp. RL325/96] gi|294856693|gb|ADF45284.1| RNA polymerase sigma S factor [Escherichia sp. Z205] gi|294856695|gb|ADF45285.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856697|gb|ADF45286.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856699|gb|ADF45287.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856701|gb|ADF45288.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856703|gb|ADF45289.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856705|gb|ADF45290.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856707|gb|ADF45291.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856709|gb|ADF45292.1| RNA polymerase sigma S factor [Escherichia coli] gi|294856711|gb|ADF45293.1| RNA polymerase sigma S factor [Escherichia coli] gi|294856713|gb|ADF45294.1| RNA polymerase sigma S factor [Escherichia fergusonii] gi|294856715|gb|ADF45295.1| RNA polymerase sigma S factor [Escherichia fergusonii] gi|294856717|gb|ADF45296.1| RNA polymerase sigma S factor [Escherichia fergusonii] Length = 157 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 27/63 (42%), Positives = 44/63 (69%) Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRT 60 Query: 124 VKI 126 +++ Sbjct: 61 IRL 63 >gi|318066911|emb|CBY89070.1| RNA polymerase sigma70 factor [Chromohalobacter nigrandesensis] Length = 367 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|318066907|emb|CBY89068.1| RNA polymerase sigma70 factor [Chromohalobacter israelensis] gi|318066913|emb|CBY89071.1| RNA polymerase sigma70 factor [Chromohalobacter salexigens] Length = 367 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 302 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 361 Query: 109 IKAAM 113 I+ A+ Sbjct: 362 IRQAI 366 >gi|294856637|gb|ADF45256.1| RNA polymerase sigma S factor [Escherichia sp. B1147] Length = 157 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 27/63 (42%), Positives = 44/63 (69%) Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 IARRYGNRGLALLDLIKEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRT 60 Query: 124 VKI 126 +++ Sbjct: 61 IRL 63 >gi|318066917|emb|CBY89073.1| RNA polymerase sigma70 factor [Cobetia marina] gi|318066949|emb|CBY89089.1| RNA polymerase sigma70 factor [Halomonas halodurans] Length = 364 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 45/65 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 299 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 358 Query: 109 IKAAM 113 I+ A+ Sbjct: 359 IRQAI 363 >gi|318041016|ref|ZP_07972972.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CB0101] Length = 323 Score = 69.7 bits (169), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 56/235 (23%), Positives = 113/235 (48%), Gaps = 23/235 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A+ ++VT++LRLVV +A L + +++ EG +GL++AV++FDP RG++ +TY+ WW Sbjct: 88 ASEQMVTANLRLVVSLARRISHRRLDLDDLIQEGTLGLIRAVQRFDPSRGYKFSTYATWW 147 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT--DNNLKPEQVVAIAKKL 166 I+ M + + +++ A+ + LRR + L+ + + NL+ K L Sbjct: 148 IREGMGRALQQQSRTIRL--PAHMQDRLQRLRRCQMELRQMLGREPNLEELAEATELKPL 205 Query: 167 NVSES-----EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 ++ E+ E +S++ ++ L L+++ + D L H + V + E Sbjct: 206 DIREALFRAQEPLSLDSGHGPEDDLR-LLDTLRCGAQLPSDQLTAAHLQTDLVALLDELP 264 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + +L + P P+ L ++ + +SR++ R +E RA Sbjct: 265 EKEAELLRLRYGIDQP-------------APMNLSAVARQMGLSRDQARGMERRA 306 >gi|26665382|dbj|BAC44902.1| principal sigma factor [Anabaena planctonica TAC421] Length = 203 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 29/64 (45%), Positives = 45/64 (70%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYI 117 I Sbjct: 61 TRAI 64 >gi|291522675|emb|CBK80968.1| RNA polymerase, sigma subunit, RpsG/SigG [Coprococcus catus GD/7] Length = 259 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 65/264 (24%), Positives = 128/264 (48%), Gaps = 31/264 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L++ E+ +L KR + H DL A R + +LRLV+ + + G ++++ G I Sbjct: 15 KLPLLKEDEKEMLMKRIKSH-DLRARERFINGNLRLVLSVIQRFSGTNENVNDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD +G R +TY++ I ++ + LR S +++ + + + Sbjct: 74 GLIKAIDNFDLTQGVRFSTYAVPMIVGEIRRF-LRDNSAIRVSRSLRDTA----YKAIYA 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 IT NN +P V+ IA++ + + +++ +L+A+ S Sbjct: 129 REALITRNNREP-TVMEIAEETGIPKEDIVF---------ALDAI------QSPMSLYEP 172 Query: 205 VYDHDGQEQVLIEK-EERKNRRN------MLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 VY G ++++ +RKN N L +M L+ RE RI + R E +E Sbjct: 173 VYTDGGDALCIMDQVSDRKNGENSWVENLALNDAMKRLSHRENRIIKM-RFYEGKTQME- 230 Query: 258 LSSEFEVSRERVRQIEARAFKKVQ 281 ++ E +S+ ++ +IE A + ++ Sbjct: 231 VADELAISQAQISRIEKSALQNMR 254 >gi|167949416|ref|ZP_02536490.1| RNA polymerase sigma factor RpoD [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 134 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 31/69 (44%), Positives = 46/69 (66%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 11 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 70 Query: 109 IKAAMQEYI 117 I+ A+ I Sbjct: 71 IRQAITRSI 79 >gi|284050754|ref|ZP_06380964.1| RNA polymerase sigma factor [Arthrospira platensis str. Paraca] Length = 159 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 35/131 (26%), Positives = 64/131 (48%), Gaps = 39/131 (29%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDL------------------------------- 47 Y+HEI ++P+L ++EE + K+ ++ +L Sbjct: 28 YLHEIGRVPLLTREEEIIYGKKVQQMMNLLEVRDELTKELDRDPTPEEWSAKAGLSESEM 87 Query: 48 --------SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 A +++ ++LRLVV IA Y+ + +++ EG +GL + V+KFDP RG+ Sbjct: 88 TDIINRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGY 147 Query: 100 RLATYSMWWIK 110 + +TY+ WWI+ Sbjct: 148 KFSTYAYWWIR 158 >gi|121534953|ref|ZP_01666772.1| sigma-70 region 2 domain protein [Thermosinus carboxydivorans Nor1] gi|121306552|gb|EAX47475.1| sigma-70 region 2 domain protein [Thermosinus carboxydivorans Nor1] Length = 215 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 36/104 (34%), Positives = 61/104 (58%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 ++Y+ E++KI +LE EE L + ++ G L RL+ + LV K AM +R + + Sbjct: 3 FAQYLDELKKIRLLEPAEEAALWRGFKVDGCLDCRRRLIEHYQPLVFKEAMRWRAHEGVV 62 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 +++ EG +GL++AV+ FDPERG + Y+ I+ M Y+ R Sbjct: 63 MDLIQEGTVGLIEAVENFDPERGVAFSLYAPHRIRGRMLTYLER 106 >gi|32453269|gb|AAP82767.1| sigma 70 [Hydrogenothermus marinus] Length = 369 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 29/62 (46%), Positives = 43/62 (69%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ W Sbjct: 307 AAKREMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 366 Query: 108 WI 109 WI Sbjct: 367 WI 368 >gi|329936108|ref|ZP_08285907.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329304426|gb|EGG48305.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 310 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 110/235 (46%), Gaps = 19/235 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A YR G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 89 RLVRMHLPLVEHLARRYRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 148 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + + W+ V++ + RL L ++ + + V +A+KL +SE Sbjct: 149 EIKRHFRDKGWA-VRVPRRLQELRLA-----LTTATAELSQQHGRSPTVHELAEKLAISE 202 Query: 171 SEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV L G ES NA S D + V D G ++ +E E + +L Sbjct: 203 EEV------LEGLESANAYSTLSLDVPDTDDDAPAVADRLGADEAALESVEYRASLRLL- 255 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR K++E + Sbjct: 256 --LEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAKLRERL 306 >gi|168986243|dbj|BAG11803.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986245|dbj|BAG11804.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986247|dbj|BAG11805.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986249|dbj|BAG11806.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986251|dbj|BAG11807.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986253|dbj|BAG11808.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986255|dbj|BAG11809.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986259|dbj|BAG11811.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H6] gi|168986261|dbj|BAG11812.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H6] gi|258642983|gb|ACV86055.1| RNA polymerase sigma factor [Shigella flexneri] Length = 177 Score = 69.3 bits (168), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 27/55 (49%), Positives = 41/55 (74%) Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 IA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 55 >gi|148656381|ref|YP_001276586.1| RNA polymerase, sigma 32 subunit, RpoH [Roseiflexus sp. RS-1] gi|148568491|gb|ABQ90636.1| RNA polymerase, sigma 32 subunit, RpoH [Roseiflexus sp. RS-1] Length = 398 Score = 69.3 bits (168), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 117/234 (50%), Gaps = 18/234 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L+ +LRLV KIA Y Y L +++ EG IGL++A+++FD RL+TY+++WI+ Sbjct: 162 LMRCNLRLVAKIATRYMPYARHLTFDDLLQEGRIGLLKAIERFDQNCRGRLSTYAVYWIR 221 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++Q + +V++ + L RL+ + + + +A L VS Sbjct: 222 QSIQRALADQDRMVRLPV-----HIVEQLHRLRKTCEQFRCIHGREPGDAELANALGVSL 276 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNML 228 ++V S+ R+A + +D N+ + L+ D +G + + E++ +L Sbjct: 277 AKVRSL-WRVAQHHTSIDRPVGADTNT--FLGELIADDREEGPDFIC----EQQLLHAVL 329 Query: 229 TRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L+ RER I E R + TLE + F ++RER+RQIE +A K++ Sbjct: 330 REVLGHLSSRERDILERRYGLIDGQTHTLEEIGQIFGLTRERIRQIERKALKRL 383 >gi|296506459|ref|YP_003667693.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis BMB171] gi|296327046|gb|ADH09973.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis BMB171] Length = 323 Score = 69.3 bits (168), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 72/267 (26%), Positives = 128/267 (47%), Gaps = 19/267 (7%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISEVVSEGNIG 85 +L K+E L KRY+ HG+ L + LV+ IA Y+ + ++V EGN G Sbjct: 48 VLSKEESLHLFKRYK-HGEKDLRDYLFHVNEGLVLSIARNYKNKHPDIEFDDLVQEGNEG 106 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLFFNLRRLKG 144 +++A++ F+P+ G+ +TY+ WWI+ +M I + S KI T NQ FNL+ ++ Sbjct: 107 MLRAMEDFNPDLGYCFSTYAFWWIQKSMLGIIRKKKSGPFKIPTHVNQ----FNLKYVEL 162 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN---SSQWQ 201 + + N P V + K+LNV+ VI ++ I++ +++ S+ + Sbjct: 163 EDKYLQRYNRTP-SVEEVVKELNVTRETVIRHKVYYKRATTMTLDIDTINEDVGISTPFF 221 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE-ARRLQENPVTL-ENLS 259 D E ++ E N L VLNP+++ + L + V L + ++ Sbjct: 222 DDRSAIPSTNEMII----EDLNYEIWLIFD-EVLNPKQKMVLNLCFGLLDGKVYLHKEIA 276 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 ++ ERV QI+ A KK+++ K Sbjct: 277 KALMITTERVSQIKDEAIKKLKKCQHK 303 >gi|126215762|gb|ABN81001.1| putative RNA polymerase sigma-B factor [Rhodococcus opacus] Length = 194 Score = 69.3 bits (168), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 59/213 (27%), Positives = 104/213 (48%), Gaps = 32/213 (15%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 +P+ +++ EGN+GL++A++KFD +GF+ +TY+ WWI+ A+ + +++ + Sbjct: 1 MPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVE 60 Query: 133 KRLFFNLRRLKGHLQ-----AITDNNLKPEQVVA---IAKKLNVSESEVISMNCRLAGDE 184 + L R+K L TD+ L E + IA L+ S V S++ + DE Sbjct: 61 Q--VNKLARIKRELHQQLGREATDDELAEESGIPAHKIADLLDHSRDPV-SLDMPVGNDE 117 Query: 185 --SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 L I S+ S+ E +I + R++L + L+ RE+++ Sbjct: 118 EAPLGDFIEDSEATSA-------------ENAVIAGLLHSDVRSVL----ATLDEREQQV 160 Query: 243 FEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 R ++ P TL+ + F +SRERVRQIE Sbjct: 161 IRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIE 193 >gi|20151056|pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment Containing Regions 1.2 To 3.1 gi|20151057|pdb|1KU2|B Chain B, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment Containing Regions 1.2 To 3.1 Length = 241 Score = 69.3 bits (168), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 32/79 (40%), Positives = 51/79 (64%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ ++LRLVV IA Y G GL +++ EGN GL++AV+KF+ +R F+ +TY+ W Sbjct: 106 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATW 165 Query: 108 WIKAAMQEYILRSWSLVKI 126 WI+ A+ I ++I Sbjct: 166 WIRQAINRAIADQARTIRI 184 >gi|328955594|ref|YP_004372927.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Coriobacterium glomerans PW2] gi|328455918|gb|AEB07112.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Coriobacterium glomerans PW2] Length = 262 Score = 68.9 bits (167), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 66/269 (24%), Positives = 130/269 (48%), Gaps = 27/269 (10%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +K++ + L +RY+E GD A +LV SH+ LV +A ++ G P+ +++ G +GL++A Sbjct: 13 DKEKTHELFRRYKEDGDDDAREKLVMSHMNLVRFLANKFKNRGEPLDDLMQVGYLGLLKA 72 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 + +F+P RG TY+ I ++ + + WS+ R+ L+ L + Sbjct: 73 IDRFEPARGLEFTTYATPTILGEIKRHFRDKGWSV----------RVPRRLQELSAKVNQ 122 Query: 149 ITD---NNL-KPEQVVAIAKKLNVSESEVI-SMNCRLA-GDESLNALINSSDKNSSQWQD 202 TD L + +V IA+ L+ + EV+ +M A L +S + ++ D Sbjct: 123 ATDLLTTELQRSPKVEEIAEYLDATVDEVLEAMESSSAYSSVPLEGTGSSENDDAPSIID 182 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 D + VL ++R ++ ++ +PRER + R L+ +T ++ + Sbjct: 183 RYAID----DNVLSFTDDRL----IIEDALESFSPREREVVNLRFLK--GMTQIEIAEQL 232 Query: 263 EVSRERVRQIEARAFKKVQESIQKQVELS 291 +S+ +V ++ R KK+Q+ I + +S Sbjct: 233 GISQVQVSRLLRRTLKKIQDRIDPEGVMS 261 >gi|290956130|ref|YP_003487312.1| sigma factor [Streptomyces scabiei 87.22] gi|260645656|emb|CBG68747.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 1033 Score = 68.9 bits (167), Expect = 8e-10, Method: Composition-based stats. Identities = 64/249 (25%), Positives = 117/249 (46%), Gaps = 22/249 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV + RLV + GL ++V G +GLM+A +KFDP +G++ +TY+ WW++ + Sbjct: 254 LVLHNQRLVHSLIRSCLDQGLEYEDLVQHGVLGLMRAARKFDPAKGYKFSTYATWWVRQS 313 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + I +L+++ +++ +R++ +A+ +P V +A + +++ Sbjct: 314 VSRAIADEGALIRVPVHMHEQ-----MRKVAAAERALAAQG-RPAGNVDVAVQCDMTLDR 367 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 V + +SL+ +I + D G+ Q L E ++ M Sbjct: 368 VEEIRKLTRRTDSLDRIIGDGAT---------LGDFVGKRQALPSVENDVLHVLLMEDVM 418 Query: 233 SVL---NPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 V+ + R RI RRL E P TL+ L EF V+RER+RQ+E +A + + ++ Sbjct: 419 GVVGTFSERSARIL-VRRLGLDGEEPSTLDELGREFGVTRERIRQLEGKARSEFRCRLRA 477 Query: 287 QVELSSSPP 295 LS P Sbjct: 478 AGLLSGHGP 486 >gi|55274905|gb|AAV49254.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 182 Score = 68.9 bits (167), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 27/55 (49%), Positives = 41/55 (74%) Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 IA Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 55 >gi|78062752|ref|YP_372660.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. 383] gi|77970637|gb|ABB12016.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. 383] Length = 511 Score = 68.9 bits (167), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 114/230 (49%), Gaps = 19/230 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ + ++V +G++GLM+A++KF+ RGF+ +TY+ WW Sbjct: 274 ATRAMLEANLRLVLSIARKYMNRGVDLPDLVQDGSLGLMRAIEKFEYRRGFKFSTYATWW 333 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + + ++R + T P + +A + + Sbjct: 334 IRQAITRAVADRARTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAE---LAAETGL 388 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN 226 E ++ ++ A SL+A + +D + L+ D L + R+ R+ Sbjct: 389 DEDKLRAVLALPAEPVSLDAPLPDADTGLVE----LIEDQASASPFEQLADTRMRECVRS 444 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIE 273 +L RS++ P E + RR P T + ++ + +SRERVRQIE Sbjct: 445 LL-RSVT---PAEADVLR-RRFGLGGTEPDTYDAIAQDAGMSRERVRQIE 489 >gi|239982221|ref|ZP_04704745.1| RNA polymerase sigma factor, sigH [Streptomyces albus J1074] Length = 287 Score = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 109/235 (46%), Gaps = 19/235 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 66 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVVG 125 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + + W+ V++ + RL L ++ + + V +A+KL +SE Sbjct: 126 EIKRHFRDKGWA-VRVPRRLQELRL-----SLTSATAELSQRHGRSPTVHELAEKLGISE 179 Query: 171 SEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV L G ES NA S D + + V D G E +E E R L Sbjct: 180 EEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLK 230 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 231 PLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 283 >gi|172063054|ref|YP_001810705.1| RpoD family RNA polymerase sigma factor [Burkholderia ambifaria MC40-6] gi|171995571|gb|ACB66489.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria MC40-6] Length = 520 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 55/238 (23%), Positives = 112/238 (47%), Gaps = 15/238 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLV+ IA Y G+ + ++V +G +GLM+A++KF+ RGF+ +TY+ WWI+ A Sbjct: 287 MLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWWIRQA 346 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + +++ + + ++R + T P + +A + + E + Sbjct: 347 VARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAE---LAAETGLPEGK 401 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + ++ A SL+ + ++ L+ D E+ R +T + Sbjct: 402 LRAVLALPAEPLSLDTPLPDAETGLVD----LIEDQASASP--FERLADTRMRECVTSLL 455 Query: 233 SVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + P E + RR P T + ++ + +SRERVRQIE RA ++ + + + Sbjct: 456 RSVTPAEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATLRTAAEAE 512 >gi|289770379|ref|ZP_06529757.1| transcription initiation factor sigma F [Streptomyces lividans TK24] gi|289700578|gb|EFD68007.1| transcription initiation factor sigma F [Streptomyces lividans TK24] Length = 287 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 68/250 (27%), Positives = 121/250 (48%), Gaps = 23/250 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 LA EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPE Sbjct: 53 LAPGTPEHDRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPE 110 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 RG + T++M + ++ Y + V + +RL ++ + +T + Sbjct: 111 RGVQFPTFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRS 165 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQV 214 IA++L ++E EV+S C AG +++ ++Q D L + D G E Sbjct: 166 PTTAEIAERLRITEEEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDP 218 Query: 215 LIEKEERKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 ++ E ++ L R + V P RE+RI R +T +S+E VS+ V ++ Sbjct: 219 ALDGVEHRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLL 272 Query: 274 ARAFKKVQES 283 AR+F++++ + Sbjct: 273 ARSFQRLRSA 282 >gi|224146103|ref|XP_002325882.1| predicted protein [Populus trichocarpa] gi|222862757|gb|EEF00264.1| predicted protein [Populus trichocarpa] Length = 509 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 68/253 (26%), Positives = 122/253 (48%), Gaps = 32/253 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G ++++V G IGL++ ++KFD +GF+++TY WW Sbjct: 266 AREKLAMSNVRLVMSIAQKYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 325 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ +++ +++ + +T + + IA+ LN+ Sbjct: 326 IRQGVSRALVDNSRTLRLPNHLHERLGLIRNAKIRLEEKGVTPS------IDRIAESLNM 379 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSD-----KNSSQWQDWLVYDHDGQEQVL 215 S+ +E IS L + SLN L + N + W H E L Sbjct: 380 SQRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADNRPENNPW----HGVDEWAL 435 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEA 274 KEE N L S L RE+ I L + +T E++S +SRERVRQ+ Sbjct: 436 --KEE----VNKLID--STLQEREKEIIRLYHGLDQECLTWEDISKRMGLSRERVRQVGL 487 Query: 275 RAFKKVQESIQKQ 287 A +K++ + +K+ Sbjct: 488 VALEKLKHAARKR 500 >gi|21222438|ref|NP_628217.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|585925|sp|P37971|RPOF_STRCO RecName: Full=RNA polymerase sigma-F factor gi|153455|gb|AAA93052.1| sigma factor [Streptomyces coelicolor A3(2)] gi|13122128|emb|CAC32306.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] Length = 287 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 68/250 (27%), Positives = 121/250 (48%), Gaps = 23/250 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 LA EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPE Sbjct: 53 LAPGTPEHDRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPE 110 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 RG + T++M + ++ Y + V + +RL ++ + +T + Sbjct: 111 RGVQFPTFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRS 165 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQV 214 IA++L ++E EV+S C AG +++ ++Q D L + D G E Sbjct: 166 PTTAEIAERLRITEEEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDP 218 Query: 215 LIEKEERKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 ++ E ++ L R + V P RE+RI R +T +S+E VS+ V ++ Sbjct: 219 ALDGVEHRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLL 272 Query: 274 ARAFKKVQES 283 AR+F++++ + Sbjct: 273 ARSFQRLRSA 282 >gi|256786488|ref|ZP_05524919.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 291 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 68/250 (27%), Positives = 121/250 (48%), Gaps = 23/250 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 LA EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPE Sbjct: 57 LAPGTPEHDRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPE 114 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 RG + T++M + ++ Y + V + +RL ++ + +T + Sbjct: 115 RGVQFPTFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRS 169 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQV 214 IA++L ++E EV+S C AG +++ ++Q D L + D G E Sbjct: 170 PTTAEIAERLRITEEEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDP 222 Query: 215 LIEKEERKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 ++ E ++ L R + V P RE+RI R +T +S+E VS+ V ++ Sbjct: 223 ALDGVEHRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLL 276 Query: 274 ARAFKKVQES 283 AR+F++++ + Sbjct: 277 ARSFQRLRSA 286 >gi|318066985|emb|CBY89107.1| RNA polymerase sigma70 factor [Kushneria avicenniae] Length = 373 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 44/65 (67%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V + LRLV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ WW Sbjct: 308 AKKEMVEAILRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 367 Query: 109 IKAAM 113 I+ A+ Sbjct: 368 IRQAI 372 >gi|23978293|dbj|BAC21127.1| principal sigma factor [Arthrospira platensis] Length = 203 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 60/217 (27%), Positives = 109/217 (50%), Gaps = 19/217 (8%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+LRLVV IA Y GL +++ EG++GL++A +K D E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKLDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSES 171 I +++ L+ + R+K + ++ + KP E+ +A ++ + + Sbjct: 61 TRAIADQSRTIRLPVL-----LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 115 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTR 230 I+ + +L SL I + S+ D++ + DG+ E + KN R L Sbjct: 116 RFIAKSAQLPI--SLETPIGKEE--DSRLGDFI--ESDGETP---EDQVSKNLLREDLES 166 Query: 231 SMSVLNPRERRIFEARRLQENP--VTLENLSSEFEVS 265 + L+PRER + R ++ TLE + F V+ Sbjct: 167 VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|9368549|emb|CAB98133.1| unnamed protein product [Mycoplasma genitalium] Length = 100 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 31/69 (44%), Positives = 48/69 (69%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LVTS+LRLVV IA + GL ++++ EGN+GL++A+ KF+ G + +TY+ WW Sbjct: 23 AINQLVTSNLRLVVSIAKKHLERGLDFNDLIQEGNLGLLKAISKFNWSLGNKFSTYATWW 82 Query: 109 IKAAMQEYI 117 IK A+ I Sbjct: 83 IKQAITRAI 91 >gi|119474993|ref|ZP_01615346.1| RNA polymerase sigma-70 factor family protein [marine gamma proteobacterium HTCC2143] gi|119451196|gb|EAW32429.1| RNA polymerase sigma-70 factor family protein [marine gamma proteobacterium HTCC2143] Length = 491 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 112/239 (46%), Gaps = 27/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V +LRLV IA Y LP+ E++ EG GL++AV+KF P G R +TY+ WI+A Sbjct: 253 MVNHNLRLVYHIAKRYNSGTLPMLELIQEGVFGLVRAVEKFQPASGNRFSTYAYLWIEAK 312 Query: 113 MQEYILRSWSLVKIGTTANQK----RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 ++ + SLV++ ++ Q R R G + + K + A + L Sbjct: 313 VRLTHEKLNSLVRLPSSNFQDVIKLRRSMEQSRSTGERFSTRNVAAKLDMTQAHVELLLR 372 Query: 169 SESEVISMNCRLAG---DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 ++S+ +S++ + G D SL+ + S LV + D Q QV Sbjct: 373 TKSQPLSLDQPVGGEDNDLSLSGTLQLEQPPVSS----LVLNSDMQRQV----------- 417 Query: 226 NMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 T +S L RE I + R + P++ E++ +SRERVRQIE A ++E Sbjct: 418 ---TELLSELTSREAYILQHRFGLGDMEPMSRESIGKNIGLSRERVRQIEKAALISLKE 473 >gi|148645064|gb|ABR01057.1| RpoD [uncultured Geobacter sp.] Length = 102 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 30/60 (50%), Positives = 42/60 (70%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVV IA Y GL +++ EGNIGLM+AV KF+ +RG++ +TY+ WWI+ A+ I Sbjct: 1 LRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAI 60 >gi|171322339|ref|ZP_02911166.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171092333|gb|EDT37699.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 234 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 55/239 (23%), Positives = 113/239 (47%), Gaps = 29/239 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLV+ IA Y G+ + ++V +G +GLM+A++KF+ RGF+ +TY+ WWI+ A Sbjct: 1 MLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWWIRQA 60 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA-------KK 165 + + +++ + + ++R + T P +++A + Sbjct: 61 VARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAELIAETGLPEGKLRA 118 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 + +E +S++ L E+ L++ + +S ++H ++ R Sbjct: 119 VLALPAEPLSLDTPLPDAET--GLVDLIEDQASASP----FEHLADTRM----------R 162 Query: 226 NMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + + P E + RR P T + ++ + +SRERVRQIE RA ++ Sbjct: 163 ECVTSLLRSVTPAEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATLR 220 >gi|89094249|ref|ZP_01167191.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] gi|89081504|gb|EAR60734.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] Length = 411 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 119/245 (48%), Gaps = 30/245 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L+ +LRLV +A+ ++ G+ + +++ EGNIGL++A +F+ G+R +TY+ W I+ Sbjct: 178 KLIEKNLRLVYVVALRFKSSGVSLDDLIQEGNIGLLKAADRFNFVHGYRFSTYAFWCIQN 237 Query: 112 AMQEYILRSWSLV--------KIGTTANQKRLFFN-LRRLKGHLQAITDNNLKPEQVVAI 162 ++ + +++ + K+ + F N R G + +++ PE A+ Sbjct: 238 VLKTALQKNYHTISRPSYLQEKLSVIKRESVRFLNQYGRYPGTTE-LSELTSIPE---AM 293 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE-ER 221 +K+ +E +S++ ++ S + +D V + EKE + Sbjct: 294 LEKIKSFPAEPLSLSQPVS--------------RSQEGEDLTVESTLEDNAMAAEKETDI 339 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKK 279 +R ML R LN RE ++ + R + TLE +S + VS ERVRQ++ A +K Sbjct: 340 ALKRRMLERMSLRLNEREYKVLKMRFGIDCHTEHTLEEISHQLNVSVERVRQLQKIALEK 399 Query: 280 VQESI 284 +Q + Sbjct: 400 LQTTF 404 >gi|86148201|ref|ZP_01066499.1| RNA polymerase sigma factor [Vibrio sp. MED222] gi|85834048|gb|EAQ52208.1| RNA polymerase sigma factor [Vibrio sp. MED222] Length = 83 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 33/68 (48%), Positives = 42/68 (61%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L YI PML EE LA+R G++ AA L+ SHLR VV +A GY GYGLP+ Sbjct: 16 LDSYIRSANSYPMLTPDEERGLAERLHYKGEIDAAKGLILSHLRFVVHVARGYSGYGLPM 75 Query: 76 SEVVSEGN 83 +++V EGN Sbjct: 76 ADLVQEGN 83 >gi|257063114|ref|YP_003142786.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] gi|256790767|gb|ACV21437.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] Length = 269 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 42/140 (30%), Positives = 64/140 (45%), Gaps = 33/140 (23%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYR-------------------------------EHGDL 47 Y+ EI + P+L+ QEE L + R GD Sbjct: 49 YLLEIDRFPLLDSQEEADLVAKIRAGAEAADQLRQASQDGVVLDDAEARRLARIQSDGD- 107 Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A +LV + LRLV +IA Y G+ ++V EGN+GL++A ++FDP G + Y+ W Sbjct: 108 AAKEQLVGASLRLVARIAKRYIFRGVSFMDLVHEGNMGLIRAAERFDPASGAAFSVYASW 167 Query: 108 WIKAAMQEYILRS-WSLVKI 126 WI+AA+ R W + Sbjct: 168 WIRAAISRATGRGRWGCFPL 187 >gi|206563110|ref|YP_002233873.1| RNA polymerase sigma factor [Burkholderia cenocepacia J2315] gi|198039150|emb|CAR55114.1| RNA polymerase sigma factor [Burkholderia cenocepacia J2315] Length = 508 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 113/230 (49%), Gaps = 19/230 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +S++V +G +GLM+A++KF+ RGF+ +TY+ WW Sbjct: 271 ATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWW 330 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + + ++R + T P + +A + + Sbjct: 331 IRQAIARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAE---LAAETGL 385 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN 226 +E ++ ++ A SL+ + +D + L+ D L + R R+ Sbjct: 386 AEDKLRAVLALPAEPVSLDTPLPDADTGLVE----LIEDQASASPFEQLADTRMRDCVRS 441 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIE 273 +L RS++ P E + RR P T + ++ + +SRERVRQIE Sbjct: 442 LL-RSVT---PTEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIE 486 >gi|94499982|ref|ZP_01306517.1| RNA polymerase sigma-A factor [Oceanobacter sp. RED65] gi|94427840|gb|EAT12815.1| RNA polymerase sigma-A factor [Oceanobacter sp. RED65] Length = 368 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 35/116 (30%), Positives = 70/116 (60%), Gaps = 8/116 (6%) Query: 18 RYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 ++IHE++ L KQ + VL +RY ++ + +LV ++LRL + +A Y G G+ + E Sbjct: 115 QHIHELKG--RLYKQAQ-VLKRRYEDYRN-----QLVQANLRLAMHVARQYTGKGMELEE 166 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 ++ EG +GL++ ++++ +G+R TY+ WWI+ A++ + +V+I T + Sbjct: 167 LIQEGTLGLIKGAERYNINKGYRFTTYAYWWIQQAIKGALSEKRGIVRIPTNVTDR 222 >gi|302559792|ref|ZP_07312134.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] gi|302477410|gb|EFL40503.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] Length = 298 Score = 68.2 bits (165), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 119/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + Sbjct: 70 EHARVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFP 127 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + I Sbjct: 128 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRSPSTAEI 182 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L +SE EV+S C AG +++ ++Q D + + D G E ++ E Sbjct: 183 AERLRISEDEVLS--CIEAGRS-----YHATSLEAAQEGDGMPGLLDRLGYEDPALDGVE 235 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F++ Sbjct: 236 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFQR 289 Query: 280 VQES 283 ++ + Sbjct: 290 LRSA 293 >gi|167630135|ref|YP_001680634.1| RNA polymerase sigma-e factor [Heliobacterium modesticaldum Ice1] gi|167592875|gb|ABZ84623.1| RNA polymerase sigma-e factor [Heliobacterium modesticaldum Ice1] Length = 235 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 38/94 (40%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EEY L ++ E GDL+ L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 33 PPLSNDEEYRLLEQL-EQGDLTVKSILIERNLRLVVYIARKFENTGVGIEDLVSIGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFDPLKKIKLATYASRCIENEILMYLRRN 125 >gi|107026582|ref|YP_624093.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia AU 1054] gi|116692228|ref|YP_837761.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia HI2424] gi|105895956|gb|ABF79120.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia AU 1054] gi|116650228|gb|ABK10868.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia HI2424] Length = 514 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 113/230 (49%), Gaps = 19/230 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +S++V +G +GLM+A++KF+ RGF+ +TY+ WW Sbjct: 277 ATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWW 336 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + + ++R + T P + +A + + Sbjct: 337 IRQAIARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAE---LAAETGL 391 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN 226 +E ++ ++ A SL+ + +D + L+ D L + R R+ Sbjct: 392 AEDKLRAVLALPAEPVSLDTPLPDADTGLVE----LIEDQASASPFEQLADTRMRDCVRS 447 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIE 273 +L RS++ P E + RR P T + ++ + +SRERVRQIE Sbjct: 448 LL-RSVT---PTEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIE 492 >gi|149183912|ref|ZP_01862300.1| sporulation sigma factor SigE [Bacillus sp. SG-1] gi|148848376|gb|EDL62638.1| sporulation sigma factor SigE [Bacillus sp. SG-1] Length = 239 Score = 68.2 bits (165), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 38/94 (40%), Positives = 59/94 (62%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL K+ +GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKEEEAVLLKKL-PNGDKTARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|182437344|ref|YP_001825063.1| RNA polymerase sigma factor, sigma F [Streptomyces griseus subsp. griseus NBRC 13350] gi|326777954|ref|ZP_08237219.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178465860|dbj|BAG20380.1| RNA polymerase sigma factor, sigma F [Streptomyces griseus subsp. griseus NBRC 13350] gi|326658287|gb|EGE43133.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 292 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 114/234 (48%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + T++M + Sbjct: 72 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTFAMPTVVGE 131 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L +SE E Sbjct: 132 IKRYFRDNVRTVHV-----PRRLHELWVQVTGATEDLTTAHGRSPTTAEIAERLKISEDE 186 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 187 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 235 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R +T +S+E VS+ V ++ AR+F +++ + Sbjct: 236 HLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFARLRSA 287 >gi|229113622|ref|ZP_04243069.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-15] gi|228669818|gb|EEL25214.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-15] gi|324323938|gb|ADY24981.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar finitimus YBT-020] Length = 323 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 69/292 (23%), Positives = 126/292 (43%), Gaps = 59/292 (20%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISE 77 I I +L K+E L KRY+ HG+ L + LV+ +A Y+ + + Sbjct: 40 IRGIGNYKVLSKEESLHLFKRYK-HGEKDLRDYLFHVNEGLVLSVARNYKNKHPDIEFDD 98 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLF 136 +V EGN G+++A++ F+P+ G+ +TY+ WWI+ +M I + S KI T NQ Sbjct: 99 LVQEGNEGMLRAMEDFNPDLGYCFSTYAFWWIQKSMLGIIRKKKSGPFKIPTHVNQ---- 154 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 FNL+ ++ + + N P V + K+LNV+ VI ++ I++ +++ Sbjct: 155 FNLKYVELEDKYLQRYNRTP-SVEEVVKELNVTRETVIRHKVYYKRATTMTLDIDTINED 213 Query: 197 SS-----------------------QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 ++ WL++D Sbjct: 214 VGISNPFFDDRSAIPSTNEMIIEDLNYEIWLIFD-------------------------E 248 Query: 234 VLNPRERRIFE-ARRLQENPVTL-ENLSSEFEVSRERVRQIEARAFKKVQES 283 VLNP+++ + L + V L + ++ ++ ERV QI+ A KK+++ Sbjct: 249 VLNPKQKMVLNLCFGLLDGKVYLHKEIAKALMITTERVSQIKDEAIKKLKKC 300 >gi|23978335|dbj|BAC21137.1| principal sigma factor [Phormidium sp. IAM M-99] Length = 203 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 28/64 (43%), Positives = 44/64 (68%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V S+ RLVV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ Sbjct: 1 VQSNFRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 114 QEYI 117 I Sbjct: 61 TRAI 64 >gi|221212711|ref|ZP_03585688.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD1] gi|221167810|gb|EEE00280.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD1] Length = 522 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 111/230 (48%), Gaps = 19/230 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +S++V +G IGLM+A++KF+ RGF+ +TY+ WW Sbjct: 285 ATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCIGLMRAIEKFEYRRGFKFSTYATWW 344 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + +RR + T P + +A + + Sbjct: 345 IRQAIARAVADRARTIRVPVHVGDQ--HQRVRRQALRFRQRTGRQPTPAE---LAAETGL 399 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN 226 +E ++ ++ A SL+ + +D L+ D L R+ R+ Sbjct: 400 AEDKLRAILALPAEPVSLDTPLPDADTGLVD----LIEDETSASPFEQLAGTRMRECVRS 455 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIE 273 +L RS++ P E + RR P T + ++ + +SRERVRQIE Sbjct: 456 LL-RSVT---PTEADVLR-RRFGLGGTEPDTYDAIAKDAGMSRERVRQIE 500 >gi|297200782|ref|ZP_06918179.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] gi|197712352|gb|EDY56386.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] Length = 285 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 119/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + A L+ ++L LV A +R P+ +V+ G IGL+ A+ +FDP+RG + Sbjct: 57 EHNRVRTA--LIEANLPLVRYAAARFRSRNEPMEDVIQVGTIGLINAIDRFDPDRGVQFP 114 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ G + +T + I Sbjct: 115 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAFGRTPTTAEI 169 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L ++E EV+S C AG +++ ++Q D L + D G E ++ E Sbjct: 170 AQRLRITEDEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 222 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F++ Sbjct: 223 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFQR 276 Query: 280 VQES 283 ++ + Sbjct: 277 LRSA 280 >gi|161521004|ref|YP_001584431.1| RpoD family RNA polymerase sigma factor [Burkholderia multivorans ATCC 17616] gi|189352818|ref|YP_001948445.1| RNA polymerase sigma 38 subunit [Burkholderia multivorans ATCC 17616] gi|160345054|gb|ABX18139.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans ATCC 17616] gi|189336840|dbj|BAG45909.1| RNA polymerase sigma 38 subunit [Burkholderia multivorans ATCC 17616] Length = 525 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 111/230 (48%), Gaps = 19/230 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +S++V +G IGLM+A++KF+ RGF+ +TY+ WW Sbjct: 288 ATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCIGLMRAIEKFEYRRGFKFSTYATWW 347 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + +RR + T P + +A + + Sbjct: 348 IRQAIARAVADRARTIRVPVHVGDQ--HQRVRRQALRFRQRTGRQPTPAE---LAAETGL 402 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN 226 +E ++ ++ A SL+ + +D L+ D L R+ R+ Sbjct: 403 AEDKLRAILALPAEPVSLDTPLPDADTGLVD----LIEDETSASPFEQLAGTRMRECVRS 458 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIE 273 +L RS++ P E + RR P T + ++ + +SRERVRQIE Sbjct: 459 LL-RSVT---PTEADVLR-RRFGLGGTEPDTYDAIAKDAGMSRERVRQIE 503 >gi|294673112|ref|YP_003573728.1| sigma factor [Prevotella ruminicola 23] gi|294471705|gb|ADE81094.1| putative sigma factor [Prevotella ruminicola 23] Length = 238 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 34/95 (35%), Positives = 61/95 (64%), Gaps = 2/95 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L ++ IR + L++++E LA+R + GD A +++ S+L+LVV IA YR + + Sbjct: 14 LESFMARIRGVKALDEEQEVYLAQRIK-AGDTKAEEQMIKSNLKLVVSIANSYRPM-MSM 71 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +++ GNIGL++AV++F+PE G+R Y+ I+ Sbjct: 72 EDLIQNGNIGLIKAVREFNPELGYRFVFYASMMIR 106 >gi|115358293|ref|YP_775431.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria AMMD] gi|115283581|gb|ABI89097.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria AMMD] Length = 516 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 55/245 (22%), Positives = 113/245 (46%), Gaps = 29/245 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLV+ IA Y G+ + ++V +G +GLM+A++KF+ RGF+ +TY+ WWI+ A Sbjct: 283 MLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWWIRQA 342 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA-------KK 165 + + +++ + + ++R + T P ++ A + + Sbjct: 343 VARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAELAAESGLPEGKLRA 400 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 + +E +S++ L E+ L++ + +S E+ R Sbjct: 401 VLALPAEPLSLDTPLPDAET--GLVDLIEDQASASP--------------FERLADTRMR 444 Query: 226 NMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +T + + P E + RR P T + ++ + +SRERVRQIE RA ++ Sbjct: 445 ECVTSLLRSVTPAEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATLRT 503 Query: 283 SIQKQ 287 + + + Sbjct: 504 AAEAE 508 >gi|221196694|ref|ZP_03569741.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2M] gi|221203363|ref|ZP_03576382.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2] gi|221177297|gb|EEE09725.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2] gi|221183248|gb|EEE15648.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2M] Length = 524 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 111/230 (48%), Gaps = 19/230 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +S++V +G IGLM+A++KF+ RGF+ +TY+ WW Sbjct: 287 ATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCIGLMRAIEKFEYRRGFKFSTYATWW 346 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + +RR + T P + +A + + Sbjct: 347 IRQAIARAVADRARTIRVPVHVGDQ--HQRVRRQALRFRQRTGRQPTPAE---LAAETGL 401 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN 226 +E ++ ++ A SL+ + +D L+ D L R+ R+ Sbjct: 402 AEDKLRAILALPAEPVSLDTPLPDADTGLVD----LIEDETSASPFEQLAGARMRECVRS 457 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIE 273 +L RS++ P E + RR P T + ++ + +SRERVRQIE Sbjct: 458 LL-RSVT---PAEADVLR-RRFGLGGTEPDTYDAIAKDAGMSRERVRQIE 502 >gi|149921691|ref|ZP_01910139.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149817429|gb|EDM76901.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 384 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 119/245 (48%), Gaps = 27/245 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++LRLVV +A LP+ +++ EGNIGL++A+++FD +GFR +TY+ WWI+ + Sbjct: 154 FAKANLRLVVSLARRLSNGRLPLQDLIQEGNIGLLKAIERFDHRKGFRFSTYASWWIRHS 213 Query: 113 MQEYILRSWSLVKIGT---TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + I V++ +QK + R++ +A E+ IA ++ V Sbjct: 214 ISRAIYNKGRQVRLPVHVYDVHQK-----ITRVRRRYEAQIGREPTHEE---IANEIGVP 265 Query: 170 ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE---KEERKNRR 225 ++V + L SL+A ++ +D S D L ++QV + E Sbjct: 266 LAKVEKIAAIELGPIVSLDAPLSRNDDRSG--VDLL------EDQVSPGPGFELELGELE 317 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPV---TLENLSSEFEVSRERVRQIEARAFKKVQE 282 L ++S L P E I RR + V TL + + +SRER+RQ++ RA +++E Sbjct: 318 EGLEDALSALRPMEADILR-RRYGLDGVEKETLREIGERYALSRERIRQLQERAVSRMRE 376 Query: 283 SIQKQ 287 ++ Sbjct: 377 EFARR 381 >gi|332982149|ref|YP_004463590.1| RNA polymerase sigma-29 subunit SigE [Mahella australiensis 50-1 BON] gi|332699827|gb|AEE96768.1| RNA polymerase, sigma 29 subunit, SigE [Mahella australiensis 50-1 BON] Length = 239 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 1/106 (0%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + KR + GD S L+ +LRLVV IA + G+P+ +++S G IGL Sbjct: 36 PPLSADEEQDIMKRLSD-GDESVKSILIERNLRLVVYIARRFENTGIPVEDLISIGTIGL 94 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 ++AV FDP++ +LATY+ I+ + Y+ R+ K + ++ Sbjct: 95 IKAVNTFDPDKKIKLATYASRCIENEILMYLRRNCRFNKTEVSIDE 140 >gi|308069873|ref|YP_003871478.1| RNA polymerase sigma-35 factor precursor [Paenibacillus polymyxa E681] gi|305859152|gb|ADM70940.1| RNA polymerase sigma-35 factor precursor [Paenibacillus polymyxa E681] Length = 246 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +EEY+L K GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 45 PLTRDEEEYLLGKL--SSGDAAVRSMLIERNLRLVVYIARKFENTGINIEDLVSIGAIGL 102 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 103 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 136 >gi|55274907|gb|AAV49255.1| RNA polymerase subunit sigma-38 [Escherichia albertii] Length = 189 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 25/51 (49%), Positives = 39/51 (76%) Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 Y GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 4 YGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 54 >gi|317129289|ref|YP_004095571.1| RNA polymerase, sigma 28 subunit, SigE [Bacillus cellulosilyticus DSM 2522] gi|315474237|gb|ADU30840.1| RNA polymerase, sigma 28 subunit, SigE [Bacillus cellulosilyticus DSM 2522] Length = 238 Score = 67.4 bits (163), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L K+ GD S L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 36 PPLSKEEEAYLLKKL-PSGDDSVRSVLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 94 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV FDPE+ +LATY+ I+ + Y LRR Sbjct: 95 IKAVSTFDPEKKIKLATYASRCIENEILMY----------------------LRR----- 127 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 +N ++ E ++ DE LN D N D L Sbjct: 128 ----NNKIRSE----------------------VSFDEPLNI---DWDGNELLLSDVLGT 158 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 + D ++ + E K R +L +++ LN RE++I E R + T ++++ + Sbjct: 159 EED----IITKGIEDKVDRKLLVKALEALNDREKQIMELRFGLAGDEEKTQKDVADMLGI 214 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++Q+ K + Sbjct: 215 SQSYISRLEKRIIKRLQKEFNKML 238 >gi|170700559|ref|ZP_02891561.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] gi|170134549|gb|EDT02875.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] Length = 519 Score = 67.4 bits (163), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 55/245 (22%), Positives = 113/245 (46%), Gaps = 29/245 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ ++LRLV+ IA Y G+ + ++V +G +GLM+A++KF+ RGF+ +TY+ WWI+ A Sbjct: 286 MLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWWIRQA 345 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA-------KK 165 + + +++ + + ++R + T P ++ A + + Sbjct: 346 VARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAELAAESGLPEGKLRA 403 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 + +E +S++ L E+ L++ + +S E+ R Sbjct: 404 VLALPAEPLSLDTPLPDAET--GLVDLIEDQASASP--------------FERLADTRMR 447 Query: 226 NMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +T + + P E + RR P T + ++ + +SRERVRQIE RA ++ Sbjct: 448 ECVTSLLRSVTPAEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATLRT 506 Query: 283 SIQKQ 287 + + + Sbjct: 507 AAEAE 511 >gi|323704529|ref|ZP_08116107.1| RNA polymerase, sigma 32 subunit, RpoH [Thermoanaerobacterium xylanolyticum LX-11] gi|323535991|gb|EGB25764.1| RNA polymerase, sigma 32 subunit, RpoH [Thermoanaerobacterium xylanolyticum LX-11] Length = 339 Score = 67.4 bits (163), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 62/248 (25%), Positives = 121/248 (48%), Gaps = 19/248 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAM-GYRGYGLPISE--VVSEGNIGLMQAVKKFDPERGF 99 + G+ A LV + +LV+ A ++ Y L I E +V G GL++A ++FD +R Sbjct: 88 QQGNKWALEALVDRNKKLVMSRAYKCFKRYKLNIDEDDLVQYGYFGLIKAAERFDIKRET 147 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + TY+ WWI A++ I ++++ F + ++ L D L E + Sbjct: 148 KFVTYATWWIDQAIKRSICDYGFIIRLPV-----HYFDEINKVLNILSIHFD--LSKEAI 200 Query: 160 VAIAKKLNVSES---EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVL 215 + I ++ +S+ +++ + + +SLN +N +S ++ D +V D + Sbjct: 201 IKILEENGISKDKYDDIMFVIENVLSIDSLNKYVNPNSGDGDTELLDLIV---DKTNPTV 257 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTLENLSSEFEVSRERVRQIE 273 E+ + K + + + L RE+ + R + + +TLE + EF ++RER+RQIE Sbjct: 258 EEEIDLKLLKETINNILDTLKSREKEVIRMRFGLDGGDEMTLERIGKEFNITRERIRQIE 317 Query: 274 ARAFKKVQ 281 +A KK++ Sbjct: 318 EKAIKKLR 325 >gi|228931462|ref|ZP_04094387.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|229188107|ref|ZP_04315191.1| RNA polymerase sigma-43 factor [Bacillus cereus BGSC 6E1] gi|228595348|gb|EEK53084.1| RNA polymerase sigma-43 factor [Bacillus cereus BGSC 6E1] gi|228828268|gb|EEM73978.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] Length = 323 Score = 67.4 bits (163), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 75/296 (25%), Positives = 129/296 (43%), Gaps = 59/296 (19%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISE 77 I EI +L KQE L +RY+ HG+ L ++ LV+ IA Y+ + + Sbjct: 40 IKEIGNYQVLSKQESLNLFQRYK-HGEKDLRDYLFHVNVGLVLSIARKYKNKHPDIEFDD 98 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS-LVKIGTTANQKRLF 136 +V EGN G+++A++ F+P G+ +TY+ WI+ M I + S KI NQ Sbjct: 99 LVQEGNEGMLRAMEDFNPALGYCFSTYAFCWIQKRMLGIICKKRSGPFKIPNYVNQ---- 154 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC--RLAGDESLN------- 187 FNL+ ++ + + N +P V + K L+V+ VI N + A +L+ Sbjct: 155 FNLKYVELEDKYLQMYN-RPPSVEEVVKDLDVTSEIVIRHNVYYKRATTMTLDIDTINED 213 Query: 188 -ALINSSDKNSS-------------QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 + NSS + S ++ WL++D Sbjct: 214 IGISNSSHDDKSAIPSINEMVIEDLNYEIWLIFD-------------------------E 248 Query: 234 VLNPRERRIFE-ARRLQENPVTL-ENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 VLNP+++ + L + V L + ++ ++ ERV QI+ A KK+++ K Sbjct: 249 VLNPKQKMVLNLCFGLLDGKVYLHKEIAKALMITTERVSQIKEEAIKKLKKCDYKD 304 >gi|310642979|ref|YP_003947737.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309247929|gb|ADO57496.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 246 Score = 67.4 bits (163), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +EEY+L K GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 45 PLTRDEEEYLLGKL--SSGDAAVRSMLIERNLRLVVYIARKFENTGINIEDLVSIGAIGL 102 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 103 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 136 >gi|255566078|ref|XP_002524027.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223536754|gb|EEF38395.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 508 Score = 67.4 bits (163), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 64/259 (24%), Positives = 123/259 (47%), Gaps = 44/259 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G ++++V G IGL++ ++KFD +GFR++TY WW Sbjct: 265 AREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 324 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ +++ +++ + +T + + IA+ LN+ Sbjct: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKIRLEEKGVTPS------IDRIAESLNI 378 Query: 169 SE----------SEVISMN----CRLAG--DESLNALINSSDKNSSQWQ---DWLVYDHD 209 S+ S+V S++ L G E+ ++ I + ++ W DW + D Sbjct: 379 SQKKVRNATEAVSKVFSLDREAFPSLNGLPGETHHSYIADNCLENNPWHGVDDWALKDE- 437 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRER 268 N+ LT L RE+ I L +T E++S +SRER Sbjct: 438 ------------VNKLINLT-----LQEREQEIIRLYYGLDNESLTWEDISKRIGLSRER 480 Query: 269 VRQIEARAFKKVQESIQKQ 287 VRQ+ A +K++ + +K+ Sbjct: 481 VRQVGLVALEKLKHAARKK 499 >gi|321309571|ref|YP_004191900.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] gi|319801415|emb|CBY92061.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] Length = 424 Score = 67.4 bits (163), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 30/65 (46%), Positives = 40/65 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A RL +LRLV A Y YG P+ ++V EG GL++A+ KFD G R +TY+ WW Sbjct: 136 AVKRLTIFNLRLVWSSARKYLNYGFPMEDLVQEGIFGLVKAIHKFDCAFGNRFSTYATWW 195 Query: 109 IKAAM 113 I+ AM Sbjct: 196 IRQAM 200 >gi|291454068|ref|ZP_06593458.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|291357017|gb|EFE83919.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 365 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 144 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVVG 203 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL L ++ + + V +A+KL +SE Sbjct: 204 EIKRHFRDKGWAVRVPRRLQELRL-----SLTSATAELSQRHGRSPTVHELAEKLGISEE 258 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 259 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 309 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 310 LLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 361 >gi|291438641|ref|ZP_06578031.1| transcription initiation factor sigma F [Streptomyces ghanaensis ATCC 14672] gi|291341536|gb|EFE68492.1| transcription initiation factor sigma F [Streptomyces ghanaensis ATCC 14672] Length = 303 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 120/244 (49%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 75 EHTRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 132 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ G + +T + I Sbjct: 133 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAFGRSPSTAEI 187 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L ++E +V+S C AG +++ ++Q D + + D G E ++ E Sbjct: 188 AERLRITEEDVLS--CIEAGRS-----YHATSLEAAQEGDGMPGLLDRLGYEDPALDGVE 240 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F++ Sbjct: 241 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFQR 294 Query: 280 VQES 283 ++ + Sbjct: 295 LRSA 298 >gi|170735771|ref|YP_001777031.1| RpoD family RNA polymerase sigma factor [Burkholderia cenocepacia MC0-3] gi|169817959|gb|ACA92541.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia cenocepacia MC0-3] Length = 511 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 112/230 (48%), Gaps = 19/230 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++ ++LRLV+ IA Y G+ +S++V +G +GLM+A++KF+ RGF+ +TY+ WW Sbjct: 274 ATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWW 333 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + +++ + + ++R + T P + +A + + Sbjct: 334 IRQAIARAVADRSRTIRVPVHVGDQ--YQRVQRHALRFRQRTGRRATPAE---LAAETGL 388 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRN 226 E ++ ++ A SL+ + +D + L+ D L + R+ R Sbjct: 389 DEGKLRAVLALPAEPVSLDTPLPDADTGLVE----LIEDQASASPFEQLADTRMRECVRA 444 Query: 227 MLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIE 273 +L RS++ P E + RR P T + ++ + +SRERVRQIE Sbjct: 445 LL-RSVT---PTEADVLR-RRFGLGGAEPDTYDAIAQDAGMSRERVRQIE 489 >gi|585927|sp|P37970|RPOF_STRAU RecName: Full=RNA polymerase sigma-F factor gi|153450|gb|AAA93050.1| minor sigma-like factor [Streptomyces aureofaciens] Length = 297 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 67/245 (27%), Positives = 119/245 (48%), Gaps = 23/245 (9%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 REH + A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + Sbjct: 68 REHERVRGA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQF 125 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 T++M + ++ Y + V + +RL ++ + +T + + Sbjct: 126 PTFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNAATEDLTTLHGRTPTTPE 180 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKE 219 IA++L +SE EV+S C AG +++ ++Q D + + D G E + Sbjct: 181 IAERLRISEDEVLS--CIEAGRS-----YHATSLEAAQEGDGMPGLLDRLGYEDPELAGV 233 Query: 220 ERKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E ++ L R + V P RE+RI R N +T +S+E VS+ V ++ AR+F Sbjct: 234 EHRD----LVRHLLVQLPEREQRILLLRYY--NNLTQSQISAELGVSQMHVSRLLARSFA 287 Query: 279 KVQES 283 +++ + Sbjct: 288 RLRSA 292 >gi|239930293|ref|ZP_04687246.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 305 Score = 67.4 bits (163), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 120/244 (49%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 77 EHTRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 134 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ G + +T + I Sbjct: 135 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAFGRSPSTAEI 189 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L ++E +V+S C AG +++ ++Q D + + D G E ++ E Sbjct: 190 AERLRITEEDVLS--CIEAGRS-----YHATSLEAAQEGDGMPGLLDRLGYEDPALDGVE 242 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F++ Sbjct: 243 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFQR 296 Query: 280 VQES 283 ++ + Sbjct: 297 LRSA 300 >gi|326332710|ref|ZP_08198972.1| RNA polymerase principal sigma factor SigB [Nocardioidaceae bacterium Broad-1] gi|325949491|gb|EGD41569.1| RNA polymerase principal sigma factor SigB [Nocardioidaceae bacterium Broad-1] Length = 315 Score = 67.0 bits (162), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 28/78 (35%), Positives = 51/78 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + ++LRLVV IA Y +P+ +++ EGN GL++AV+KFD +G++ +TY+ WW Sbjct: 82 ATREFINANLRLVVSIARKYGRAQMPMLDLIQEGNTGLIRAVEKFDYTKGYKFSTYATWW 141 Query: 109 IKAAMQEYILRSWSLVKI 126 ++ A+ I + +V++ Sbjct: 142 VRQAITRGIAQQARVVRL 159 >gi|1769588|gb|AAB95226.1| sigma factor [Synechococcus sp. PCC 7002] Length = 328 Score = 67.0 bits (162), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 113/240 (47%), Gaps = 31/240 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +++ ++LRLVV IA + L +++ EG++GL + V+KFDP +G++ +TY+ WW Sbjct: 92 AKRKMIEANLRLVVAIARNIKKRNLEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 109 IKAAMQEYILRSWSLVKI---------GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 I+ A+ I + +++ Q++L +L R + L+P Q Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRQLAQDLGRAATIAEIAEALELEPAQ- 210 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I + VS IS++ R+ GD L++ + + + + Y+ Q+ Sbjct: 211 --IREYFRVSRHP-ISLDVRV-GDNQDTELMDLLEDSGESPDNNVTYELLKQD------- 259 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEAR-RLQENP-VTLENLSSEFEVSRERVRQIEARAF 277 L ++ L P+++ + R L + ++L + +SRERVRQ+E +A Sbjct: 260 --------LRDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRERVRQLERQAL 311 >gi|21104382|dbj|BAB93461.1| unnamed protein product [Roseateles depolymerans] Length = 47 Score = 67.0 bits (162), Expect = 3e-09, Method: Composition-based stats. Identities = 28/46 (60%), Positives = 37/46 (80%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 LVV IA Y G GLP+S+++ EGN+GLM A+ KF+PERGFR +TY+ Sbjct: 1 LVVSIAKNYLGRGLPMSDLIEEGNLGLMHAIGKFEPERGFRFSTYA 46 >gi|313799121|gb|ADR82155.1| RNA polymerase sigma factor [Mycoplasma sp. 1220] gi|313799126|gb|ADR82156.1| RNA polymerase sigma factor [Mycoplasma anatis] gi|313799129|gb|ADR82157.1| RNA polymerase sigma factor [Mycoplasma anatis] Length = 183 Score = 67.0 bits (162), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 32/88 (36%), Positives = 54/88 (61%), Gaps = 2/88 (2%) Query: 28 MLEKQEEYVLAKRYREHG--DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +L EE LAK G A +L+ +LRLV+ A Y+ GL +++SEGN G Sbjct: 9 LLSADEEVELAKTMNLGGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNAG 68 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++A +K++ ++GF+ +TY+ WWI+ A+ Sbjct: 69 ILKAAQKYNVDKGFKFSTYATWWIRQAI 96 >gi|3077738|dbj|BAA25787.1| SigB [Cyanidium caldarium] Length = 424 Score = 67.0 bits (162), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 60/272 (22%), Positives = 116/272 (42%), Gaps = 44/272 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYR---------------GYGLP--------------ISEVV 79 A RLV S+LRLV+ IA Y+ G +P + +++ Sbjct: 143 ARERLVASNLRLVLAIANRYKLRAVVCSAWKSRSKGGMDMPSHEKVRLQRQHNIFLGDLI 202 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 EG +GL++A +KFDP +GF+ +TY+ WWI+ A+Q + +++ + + Sbjct: 203 QEGALGLIRAAEKFDPSKGFKFSTYATWWIRQAIQRCVSEHSRTIRLPNHVTES--LRQI 260 Query: 140 RRLKGHLQAITDNNLKPEQVVAIA-------KKLNVSESEVISMNCRLAGDESLNALINS 192 R++ LQ + E+V KK+ E +++ + ++L S Sbjct: 261 YRMRARLQHVLKRPPTDEEVAEACNMTLKRLKKITQHAWETQTLSLEGPPNSEAHSLYKS 320 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQ 249 + ++ + + +E+ + + R++ +ER I R Sbjct: 321 QQGEAPLSIGSIIEATEETPEEALERNCMREDVECVLRTLPF---QEREILRLRYGISDD 377 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P + E LS+ F++ +R IE+RA +K++ Sbjct: 378 ERPHSTEELSARFQLPVHTIRLIESRALRKLR 409 >gi|297193426|ref|ZP_06910824.1| RNA polymerase sigma-F factor [Streptomyces pristinaespiralis ATCC 25486] gi|197723191|gb|EDY67099.1| RNA polymerase sigma-F factor [Streptomyces pristinaespiralis ATCC 25486] Length = 282 Score = 67.0 bits (162), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 117/244 (47%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + AA L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 54 EHSRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 111 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ G + +T + + I Sbjct: 112 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAHGRSPTTAEI 166 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L + E EV++ C AG +++ ++Q D + + D G E + E Sbjct: 167 AERLKIGEDEVLA--CIEAGRS-----YHATSLEAAQEGDGMPGLLDRLGYEDPALAGVE 219 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S E VS+ V ++ AR+F + Sbjct: 220 HRD----LVRHLLVQLPEREQRILMLRYYSN--LTQSQISQELGVSQMHVSRLLARSFAR 273 Query: 280 VQES 283 ++ + Sbjct: 274 LRSA 277 >gi|318041750|ref|ZP_07973706.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 279 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 34/88 (38%), Positives = 52/88 (59%), Gaps = 5/88 (5%) Query: 53 LVTSHLRLVVKIAMGY-----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 ++ +LRLVV IA Y R L S+++ G IGL++AV+KFDP G+ +TY+ W Sbjct: 55 MIKENLRLVVCIAKPYHARIQRSSALEFSDLLQAGTIGLIRAVEKFDPALGYSFSTYASW 114 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRL 135 WI+ A++ I S S +++ Q RL Sbjct: 115 WIRQAIRREIEASESSIRLSARQQQMRL 142 >gi|297820128|ref|XP_002877947.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297323785|gb|EFH54206.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Length = 568 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 57/233 (24%), Positives = 119/233 (51%), Gaps = 13/233 (5%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S LV+ +A YRG G+ +++ G +G++Q ++FD RG++ +TY +WI+ + Sbjct: 333 LLKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKS 392 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + R V I ++ R +++ + L+ T + +K I+K ++S + Sbjct: 393 MSMMVSRHARGVHIPSSI--IRTINQIQKARKTLK--TSHGIKYPADEDISKLTSLSVKK 448 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLV-YDHDGQEQVLIEKEERKNRRNMLTRS 231 + + N L S+ + D S+++ ++ + E+ ++ + R++ ++L Sbjct: 449 IRAANQCLKVVGSIEKKVG--DCFSTKFLEFTPDTTMESPEEAVMRQSARRDIHDLL--- 503 Query: 232 MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L PRE+++ R +N P +LE + VS+E +R+IE RA K+++ Sbjct: 504 -EGLEPREKQVMVLRYGLQNYRPKSLEEIGKLLRVSKEWIRKIERRAMAKLRD 555 >gi|164690667|dbj|BAF98617.1| putative DNA helicase [Streptomyces argenteolus] Length = 1064 Score = 66.6 bits (161), Expect = 4e-09, Method: Composition-based stats. Identities = 65/262 (24%), Positives = 112/262 (42%), Gaps = 52/262 (19%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++RLV Y G G+ ++V G +G+M+A +KFDP G R +TY+ WWI+ A Sbjct: 156 LVLHNIRLVHAAVAPYLGQGVDREDLVQHGVLGVMRAAEKFDPRAGTRFSTYATWWIRQA 215 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNL-------RRLKGHLQAITDNNLKPEQVVAIAKK 165 + + S ++I L + R L+ Q + P V +A + Sbjct: 216 VSRAVADEGSTIRIPAHVRDVVLKVAVACRRSRERGLRPRPQDLAAELDLPPDTVNLALR 275 Query: 166 LN------------VSESEV-ISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQ 211 ++ V +E+ IS+ + G +E+L A QW DWL+ Sbjct: 276 VSRPADSLDRVADGVRPAELAISLRDAIPGPEETLRAAF------GRQWVDWLL------ 323 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 E + + RRN + + P TL+++ + V+RER+RQ Sbjct: 324 EPLPARNADIVRRRNGVIKG-------------------EPQTLKDIGVLYGVTRERIRQ 364 Query: 272 IEARAFKKVQESIQKQVELSSS 293 E RA +++ + V++ +S Sbjct: 365 NEKRALAVLRDRLGAPVKVPAS 386 >gi|224553606|gb|ACN55041.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 38/47 (80%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 47 >gi|224553592|gb|ACN55034.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 38/47 (80%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 47 >gi|297616993|ref|YP_003702152.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297144830|gb|ADI01587.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 241 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 70/262 (26%), Positives = 113/262 (43%), Gaps = 63/262 (24%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +EE L +R E GD L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PPLSSEEESTLLQRL-EQGDNGVKSTLIEHNLRLVVYIAKKFENTGINIEDLVSIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+P + +LATY+ I+ + Y LRR Sbjct: 98 IKAVNTFEPRKNIKLATYASRCIENEILMY----------------------LRR----- 130 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 NLK V++ + LNV D N D L Sbjct: 131 ------NLKTRAEVSLDEPLNV-----------------------DWDGNELLLSDVLGT 161 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEV 264 D D + + E+ E+K +L++++ L PRE+RI + R E+ T + ++ + Sbjct: 162 DGDMIYKTIEEEVEKK----LLSQAILRLPPREKRIIQLRFGLEDGYEKTQKEVADILGI 217 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ + ++E R K+++ I+K Sbjct: 218 SQSYISRLEKRILKRLRREIRK 239 >gi|30024622|dbj|BAC75679.1| sigma F [Streptomyces griseus] Length = 293 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 114/234 (48%), Gaps = 20/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + T++M + Sbjct: 72 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTFAMPTVVGE 131 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + + + + RL ++ G + +T + + IA++L +SE E Sbjct: 132 IKRYFRDNCA----HPSTSPDRLHELWVQVTGATEDLTTAHGRSPTTAEIAERLKISEDE 187 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 188 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 236 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R +T +S+E VS+ V ++ AR+F +++ + Sbjct: 237 HLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFARLRSA 288 >gi|332196178|gb|AEE34299.1| sigma factor A [Arabidopsis thaliana] Length = 498 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 37/125 (29%), Positives = 71/125 (56%), Gaps = 6/125 (4%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA Y G +S++V G IGL++ ++KFD +GFR++TY WW Sbjct: 259 AREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWW 318 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ T +++ +L+ + IT + + IA+ LN+ Sbjct: 319 IRQGVSRALVDNSRTLRLPTHLHERLGLIRNAKLRLQEKGITPS------IDRIAESLNM 372 Query: 169 SESEV 173 S+ +V Sbjct: 373 SQKKV 377 >gi|224553536|gb|ACN55006.1| RNA polymerase sigma factor [Escherichia coli] gi|224553538|gb|ACN55007.1| RNA polymerase sigma factor [Escherichia coli] gi|224553540|gb|ACN55008.1| RNA polymerase sigma factor [Escherichia coli] gi|224553542|gb|ACN55009.1| RNA polymerase sigma factor [Escherichia coli] gi|224553546|gb|ACN55011.1| RNA polymerase sigma factor [Escherichia coli] gi|224553548|gb|ACN55012.1| RNA polymerase sigma factor [Escherichia coli] gi|224553550|gb|ACN55013.1| RNA polymerase sigma factor [Escherichia coli] gi|224553552|gb|ACN55014.1| RNA polymerase sigma factor [Escherichia coli] gi|224553554|gb|ACN55015.1| RNA polymerase sigma factor [Escherichia coli] gi|224553556|gb|ACN55016.1| RNA polymerase sigma factor [Escherichia coli] gi|224553558|gb|ACN55017.1| RNA polymerase sigma factor [Escherichia coli] gi|224553560|gb|ACN55018.1| RNA polymerase sigma factor [Escherichia coli] gi|224553562|gb|ACN55019.1| RNA polymerase sigma factor [Escherichia coli] gi|224553564|gb|ACN55020.1| RNA polymerase sigma factor [Escherichia coli] gi|224553566|gb|ACN55021.1| RNA polymerase sigma factor [Escherichia coli] gi|224553568|gb|ACN55022.1| RNA polymerase sigma factor [Escherichia coli] gi|224553570|gb|ACN55023.1| RNA polymerase sigma factor [Escherichia coli] gi|224553572|gb|ACN55024.1| RNA polymerase sigma factor [Escherichia coli] gi|224553574|gb|ACN55025.1| RNA polymerase sigma factor [Escherichia coli] gi|224553576|gb|ACN55026.1| RNA polymerase sigma factor [Escherichia coli] gi|224553578|gb|ACN55027.1| RNA polymerase sigma factor [Escherichia coli] gi|224553580|gb|ACN55028.1| RNA polymerase sigma factor [Escherichia coli] gi|224553582|gb|ACN55029.1| RNA polymerase sigma factor [Escherichia coli] gi|224553584|gb|ACN55030.1| RNA polymerase sigma factor [Escherichia coli] gi|224553586|gb|ACN55031.1| RNA polymerase sigma factor [Escherichia coli] gi|224553588|gb|ACN55032.1| RNA polymerase sigma factor [Escherichia coli] gi|224553594|gb|ACN55035.1| RNA polymerase sigma factor [Escherichia coli] gi|224553596|gb|ACN55036.1| RNA polymerase sigma factor [Escherichia coli] gi|224553598|gb|ACN55037.1| RNA polymerase sigma factor [Escherichia coli] gi|224553600|gb|ACN55038.1| RNA polymerase sigma factor [Escherichia coli] gi|224553602|gb|ACN55039.1| RNA polymerase sigma factor [Escherichia coli] gi|224553604|gb|ACN55040.1| RNA polymerase sigma factor [Escherichia coli] gi|224553608|gb|ACN55042.1| RNA polymerase sigma factor [Escherichia coli] gi|224553610|gb|ACN55043.1| RNA polymerase sigma factor [Escherichia coli ETEC H10407] gi|224553612|gb|ACN55044.1| RNA polymerase sigma factor [Escherichia coli] gi|224553614|gb|ACN55045.1| RNA polymerase sigma factor [Escherichia coli] gi|224553616|gb|ACN55046.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 38/47 (80%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ ++ I+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIM 47 >gi|29829555|ref|NP_824189.1| RNA polymerase sigma factor, sigH [Streptomyces avermitilis MA-4680] gi|29606663|dbj|BAC70724.1| putative RNA polymerase sigma factor, sigH [Streptomyces avermitilis MA-4680] Length = 391 Score = 66.6 bits (161), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 107/235 (45%), Gaps = 17/235 (7%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +RLV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 169 NRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVV 228 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + V++ + RL + ++ + + V +A+KL +SE Sbjct: 229 GEIKRHFRDKGWAVRVPRRLQELRLALTTATAE-----LSQQHGRSPTVHELAEKLAISE 283 Query: 171 SEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV L G ES NA S D + + V D G E +E E R L Sbjct: 284 EEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLK 334 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 335 PLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 387 >gi|26665380|dbj|BAC44901.1| principal sigma factor [Chlorogloeopsis fritschii PCC 6912] Length = 198 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 57/212 (26%), Positives = 107/212 (50%), Gaps = 19/212 (8%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 +VV IA Y GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I Sbjct: 1 MVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIAD 60 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMN 177 +++ L+ + R+K + ++ + KP E+ +A ++ + + I+ + Sbjct: 61 QSRTIRLPV-----HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKS 115 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLN 236 +L SL I + S+ D++ + DG+ E + KN R L + + L+ Sbjct: 116 AQLPI--SLETPIGKEE--DSRLGDFI--ESDGETP---EDQVSKNLLREDLEKVLDSLS 166 Query: 237 PRERRIFEARRLQENP--VTLENLSSEFEVSR 266 PRER + R ++ TLE + F V+R Sbjct: 167 PRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 198 >gi|256371428|ref|YP_003109252.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Acidimicrobium ferrooxidans DSM 10331] gi|256008012|gb|ACU53579.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Acidimicrobium ferrooxidans DSM 10331] Length = 254 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 63/244 (25%), Positives = 113/244 (46%), Gaps = 20/244 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFD 94 +R++ GDL A +RL+ H +V+ GLP S ++ S G GL+ A++KF+ Sbjct: 12 RRFKHDGDLEARNRLL-EHYASLVRFVASRVAVGLPASVDPNDLASYGTFGLIDALEKFE 70 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 PERG + TY++ IK A+ + LR+ V A K + L+ L Sbjct: 71 PERGIKFETYAITRIKGAIIDE-LRAIDWVPRSVRAKAKSVEQAYAALEARLH------- 122 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 +P +A +L +SE E++++ +++ G L+ ++ S ++ + D Sbjct: 123 RPPTDAEVASELGMSEDELLAIYSKISFLGLVGLDEVVMSGERGEGMTLGDTLADRRQSA 182 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 E++E RR ML S++ L RE+ + + TL + V+ R+ QI Sbjct: 183 GGAFEEQE---RRRMLADSINQLADREKTVLVLYYYE--GFTLAEIGRILGVTESRICQI 237 Query: 273 EARA 276 ++A Sbjct: 238 HSKA 241 >gi|27884311|dbj|BAC55891.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus] Length = 318 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 97 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 156 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL + ++ + + V +A++L +SE Sbjct: 157 EIKRHFRDKGWAVRVPRRLQELRLSLTTATAE-----LSQQHGRSPTVHELAERLGISEE 211 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 212 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 262 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 263 LLEALPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRERL 314 >gi|322384113|ref|ZP_08057831.1| sporulation sigma factor SigE-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151193|gb|EFX44502.1| sporulation sigma factor SigE-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 233 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 57/94 (60%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EEY+L K GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 32 PLTREEEEYLLGKL--PSGDAAIRAMLIERNLRLVVYIARKFENTGINIEDLVSIGAIGL 89 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 90 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 123 >gi|11993459|gb|AAG42748.1|AF299295_2 RNA polymerase sigma factor [Zymomonas mobilis] Length = 763 Score = 66.2 bits (160), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 54/199 (27%), Positives = 98/199 (49%), Gaps = 12/199 (6%) Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R Sbjct: 471 GLMKAVGKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLVRTSR 528 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + PE+ +A++L++ +V + ++A E ++ D+ S D++ Sbjct: 529 QILHEIGREPTPEE---LAERLSMPLEKVRKV-MKIA-KEPISLETPIGDEEDSHLGDFI 583 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEF 262 D + ++ + N + +TR ++ L PRE R+ R TLE + +F Sbjct: 584 ---EDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQF 640 Query: 263 EVSRERVRQIEARAFKKVQ 281 V+RER+RQIEA+A +K++ Sbjct: 641 SVTRERIRQIEAKALRKLK 659 >gi|239980907|ref|ZP_04703431.1| RNA polymerase sigma factor, sigma F [Streptomyces albus J1074] gi|291452769|ref|ZP_06592159.1| transcription initiation factor sigma F [Streptomyces albus J1074] gi|291355718|gb|EFE82620.1| transcription initiation factor sigma F [Streptomyces albus J1074] Length = 294 Score = 66.2 bits (160), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 119/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + +A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 66 EHARVRSA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 123 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + + I Sbjct: 124 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVTSATEDLTTAHGRSPTTAEI 178 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L +SE EV++ C AG +++ ++Q D L + D G E ++ E Sbjct: 179 AERLRISEDEVLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 231 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F + Sbjct: 232 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFAR 285 Query: 280 VQES 283 ++ + Sbjct: 286 LRSA 289 >gi|254384657|ref|ZP_04999996.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] gi|194343541|gb|EDX24507.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] Length = 334 Score = 66.2 bits (160), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 113 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 172 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL L ++ + + V +A++L +SE Sbjct: 173 EIKRHFRDKGWAVRVPRRLQELRL-----SLTTATAELSQQHGRSPTVHELAERLGISEE 227 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 228 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 278 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 279 LLEGLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 330 >gi|300689719|ref|YP_003750714.1| RNA polymerase sigma factor [Ralstonia solanacearum PSI07] gi|299076779|emb|CBM09897.1| putative RNA polymerase sigma factor [Ralstonia solanacearum PSI07] Length = 907 Score = 66.2 bits (160), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 70/265 (26%), Positives = 118/265 (44%), Gaps = 38/265 (14%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 RYR+H ++ ++LRLV+ IA GL + +++ EGN+GL++AV +FD RGF Sbjct: 548 RYRDH--------MMQANLRLVMDIARHRMHSGLRVEDLIQEGNLGLLKAVDRFDWRRGF 599 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 R +T ++WWIK + I TA + RL ++ Q I+ + E Sbjct: 600 RFSTMAIWWIKQQIGRGIF---------DTALEIRLPVHIH------QKISRGRRETESF 644 Query: 160 VAI-AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + K ++SE I C + D+ A S+ S + + Y + + Sbjct: 645 EHVRGKPASLSERATI---CNMTLDKFELAARALSEPLSIEGAQQVGYFKSEESDEPFAR 701 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-----FEVSRERVRQIE 273 + ++ ++ L ++ + RL+ LE L+ E V+RERVRQIE Sbjct: 702 MSEDDDARLVEEVLTKLKTKDAEVL---RLRFGIGVLEALTLEQIGEILGVTRERVRQIE 758 Query: 274 ARAFKKVQESIQKQV---ELSSSPP 295 A A +K+ ++ L PP Sbjct: 759 AAAMQKLSSPFSREALMKALGRVPP 783 >gi|168986257|dbj|BAG11810.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H6] Length = 177 Score = 66.2 bits (160), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 26/55 (47%), Positives = 40/55 (72%) Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 IA Y GL + +++ EGN+GL++AV+KFDPERGF +TY+ WWI+ ++ I+ Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFLFSTYATWWIRQTIERAIM 55 >gi|260893401|ref|YP_003239498.1| RNA polymerase, sigma 28 subunit, SigE [Ammonifex degensii KC4] gi|260865542|gb|ACX52648.1| RNA polymerase, sigma 28 subunit, SigE [Ammonifex degensii KC4] Length = 242 Score = 66.2 bits (160), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 39/93 (41%), Positives = 58/93 (62%), Gaps = 1/93 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L+ +EE L KR E GD S + LV +LRLVV IA Y G+ + ++VS G+IGL Sbjct: 38 PPLDAEEEAHLLKRL-EAGDQSVRNTLVERNLRLVVYIARKYESTGINLEDLVSIGSIGL 96 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 ++AV F+P+R +LATY+ I+ + ++ R Sbjct: 97 IKAVNTFNPQRKVKLATYASRCIENEILMFLRR 129 >gi|229086469|ref|ZP_04218641.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-44] gi|228696786|gb|EEL49599.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-44] Length = 239 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 70/264 (26%), Positives = 115/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEVLLNKLPK-GDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 129 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R E T ++++ + Sbjct: 160 DED----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGEEEKTQKDVADMLGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|229031536|ref|ZP_04187536.1| RNA polymerase sigma-35 factor [Bacillus cereus AH1271] gi|229075661|ref|ZP_04208643.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock4-18] gi|229098375|ref|ZP_04229320.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-29] gi|229104467|ref|ZP_04235134.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-28] gi|229117401|ref|ZP_04246777.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock1-3] gi|229162840|ref|ZP_04290797.1| RNA polymerase sigma-35 factor [Bacillus cereus R309803] gi|229174571|ref|ZP_04302101.1| RNA polymerase sigma-35 factor [Bacillus cereus MM3] gi|228608876|gb|EEK66168.1| RNA polymerase sigma-35 factor [Bacillus cereus MM3] gi|228620722|gb|EEK77591.1| RNA polymerase sigma-35 factor [Bacillus cereus R309803] gi|228666011|gb|EEL21477.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock1-3] gi|228678909|gb|EEL33119.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-28] gi|228684992|gb|EEL38925.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-29] gi|228707437|gb|EEL59628.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock4-18] gi|228729825|gb|EEL80805.1| RNA polymerase sigma-35 factor [Bacillus cereus AH1271] Length = 239 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 70/264 (26%), Positives = 115/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEVLLNKLPK-GDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 129 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R E T ++++ + Sbjct: 160 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGEEEKTQKDVADMLGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|325973333|ref|YP_004250397.1| RNA polymerase sigma factor rpoD [Mycoplasma suis str. Illinois] gi|325989768|ref|YP_004249467.1| RNA polymerase sigma factor [Mycoplasma suis KI3806] gi|323574853|emb|CBZ40513.1| RNA polymerase sigma factor [Mycoplasma suis] gi|323651935|gb|ADX98017.1| RNA polymerase sigma factor rpoD [Mycoplasma suis str. Illinois] Length = 530 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 28/78 (35%), Positives = 48/78 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+TS+LRLV+ +A Y G + +++ EG GL +A+ KFD + G + +TY+ WW Sbjct: 236 AEKQLMTSNLRLVISVAKKYLNCGFNLGDLIQEGVFGLRKAITKFDYKFGNKFSTYATWW 295 Query: 109 IKAAMQEYILRSWSLVKI 126 I+ A+ I +++I Sbjct: 296 IRQAITRSIADQSKIIRI 313 >gi|218289914|ref|ZP_03494104.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] gi|218240054|gb|EED07240.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] Length = 259 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 70/275 (25%), Positives = 127/275 (46%), Gaps = 45/275 (16%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L + L ++ R GDLSA +LV +LRLV+ + + G + ++ G I Sbjct: 15 QLPVLTNAQMRELFEQLRA-GDLSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + R +TY++ I ++ Y I S SL I A Q R Sbjct: 74 GLMKAIDNFDLNQNVRFSTYAVPMIVGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 129 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + NL+ +V IA ++N+ + EV+ +L+A+ + S Sbjct: 130 --------DMLASKNLREPSIVEIANEMNLPKEEVVF---------ALDAIQDP----VS 168 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRN--------MLTRSMSVLNPRERRIFEARRLQE 250 ++ +Y HDG + + + + R L +M L+ RE++I A+R E Sbjct: 169 MFEP--IY-HDGGDPIYVMDQIHDEREKDSAWVEGIALREAMRKLSDREKKIL-AKRFYE 224 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +E ++ E +S+ +V ++E A ++ + IQ Sbjct: 225 GKTQME-VADEIGISQAQVSRLEKAAIHRMYKHIQ 258 >gi|330375231|gb|AEC12842.1| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens] Length = 200 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 58/202 (28%), Positives = 101/202 (50%), Gaps = 16/202 (7%) Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV+KFDPERGFR +TY+ WWI+ ++ I+ +++ K L LR + Q Sbjct: 1 AVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVYLRAARELTQK 59 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYD 207 + D+ PE++ + +K ++ +N R++ D SL SDK D L D Sbjct: 60 L-DHEPSPEEIANLLEKPVAEVKRMLGLNERVSSVDVSLGP---DSDKT---LLDTLTDD 112 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEV 264 L++ ++ + + +S L ++R + R R E+ TLE++ E + Sbjct: 113 RPTDPCELLQDDDLSQS---IDQWLSELTEKQREVVVRRFGLRGHESS-TLEDVGLEIGL 168 Query: 265 SRERVRQIEARAFKKVQESIQK 286 +RERVRQI+ K+++E ++K Sbjct: 169 TRERVRQIQVEGLKRLREILEK 190 >gi|297158638|gb|ADI08350.1| RNA polymerase sigma factor, sigma F [Streptomyces bingchenggensis BCW-1] Length = 277 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 118/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EHG + A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + Sbjct: 49 EHGRVRDA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFP 106 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ G + +T + + I Sbjct: 107 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTVLHGRSPTTAEI 161 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L + E EV++ C AG +++ ++Q D L + D G E + E Sbjct: 162 AERLGLGEDEVLA--CIEAGRS-----YHATSLEAAQEGDGLPGLVDRLGYEDPALAGVE 214 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ +R+F + Sbjct: 215 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLSRSFAR 268 Query: 280 VQES 283 ++ + Sbjct: 269 LRSA 272 >gi|302392455|ref|YP_003828275.1| RNA polymerase, sigma subunit, RpoX/SigF [Acetohalobium arabaticum DSM 5501] gi|302204532|gb|ADL13210.1| RNA polymerase, sigma subunit, RpoX/SigF [Acetohalobium arabaticum DSM 5501] Length = 253 Score = 66.2 bits (160), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 62/240 (25%), Positives = 118/240 (49%), Gaps = 16/240 (6%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +LV +++LV+K+A + E+ G+IGL++A+++FD ER + +TY Sbjct: 29 GDQKAKDKLVNHNVKLVLKVAHRFANKNYDYEELFQIGSIGLLKAIERFDLERDVKFSTY 88 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR VK+ + KR + +K L A + N +P + IA+ Sbjct: 89 AVPLIIGEIKRF-LRDDDAVKVSRSL--KRRAHRINEVKESLTA--ELNREP-TIQEIAE 142 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 ++ V + E+++ + S+ + + ++ NS + D L + QEQ + Sbjct: 143 EMEVDKEEIVNALEAVREPTSIYSPVYENEGNSIELVDQLAASSENQEQEI--------D 194 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L RER I + R E T + ++ VS+ +V ++E + KV+E + Sbjct: 195 RLALREVIDELKTRERLILKLRFFDEK--TQQEVADRIGVSQVQVSRLERKIIDKVREEL 252 >gi|225175485|ref|ZP_03729479.1| RNA polymerase, sigma 28 subunit, SigE [Dethiobacter alkaliphilus AHT 1] gi|225168814|gb|EEG77614.1| RNA polymerase, sigma 28 subunit, SigE [Dethiobacter alkaliphilus AHT 1] Length = 243 Score = 65.9 bits (159), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 71/262 (27%), Positives = 117/262 (44%), Gaps = 63/262 (24%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L + EE L ++ + GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 41 PPLSQDEEGFLLEKLK-TGDYAVKAVLIERNLRLVVYIARKFENTGILIDDLVSIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV FDP + +LATY+ I+ N+ +F LRR Sbjct: 100 IKAVNTFDPHKNIKLATYASKCIE--------------------NEILMF--LRR----- 132 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 +N +K E ++ DE LN D N D L Sbjct: 133 ----NNKVKAE----------------------VSFDEPLNV---DWDGNELLLSDVLGT 163 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 ++D ++I+ E + R +L ++ LN RE+RI E R L + T + ++ + Sbjct: 164 END----LVIKGIEAEVERKLLYNAIEKLNRREKRIMELRFGLLGQEEKTQKEVAVMLGI 219 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ + ++E R K++Q+ I+K Sbjct: 220 SQSYISRLEKRIIKRLQKEIRK 241 >gi|188589224|ref|YP_001920224.1| RNA polymerase sigma-D factor [Clostridium botulinum E3 str. Alaska E43] gi|251778902|ref|ZP_04821822.1| RNA polymerase sigma-D factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188499505|gb|ACD52641.1| RNA polymerase sigma-D factor [Clostridium botulinum E3 str. Alaska E43] gi|243083217|gb|EES49107.1| RNA polymerase sigma-D factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 242 Score = 65.9 bits (159), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 65/252 (25%), Positives = 119/252 (47%), Gaps = 43/252 (17%) Query: 52 RLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 ++V ++ LV IA +G Y + ++VS G IGLM A+ KF+P++G + ++Y+ Sbjct: 12 QIVKEYIPLVKYIASRIMIGKNKY-MEYEDLVSYGIIGLMDAISKFNPDKGMKFSSYASI 70 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 IK A+ + I ++ + K L R ++++ + L+ ++ IA+ L Sbjct: 71 RIKGAIIDQIRKNRPITKGAMDK--------LNRYNSAIESLQNKLLREPNILEIAQYLE 122 Query: 168 VSESEV---------ISM----NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 +S EV ISM N + DE +N L DKNS + L Sbjct: 123 LSLQEVSQIENYINHISMVSLENIIFSDDEEVNLLGIIEDKNSPSPEGEL---------- 172 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 E K + +L+ ++ +L +E+ I ++ +TL+ + S VS RV Q+ A Sbjct: 173 -----EEKEQLEVLSDAIKLLKEKEQLILNLYYYEK--LTLKEIGSILSVSESRVCQLHA 225 Query: 275 RAFKKVQESIQK 286 R+ ++E+++K Sbjct: 226 RSISNLREAMKK 237 >gi|315646039|ref|ZP_07899160.1| sporulation sigma factor SigE [Paenibacillus vortex V453] gi|315278800|gb|EFU42114.1| sporulation sigma factor SigE [Paenibacillus vortex V453] Length = 240 Score = 65.9 bits (159), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++EE++L K GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PLTKEEEEFLLKKL--PSGDAATRAMLIERNLRLVVYIARKFENTGINIEDLVSIGAIGL 96 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 97 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 130 >gi|253573548|ref|ZP_04850891.1| RNA polymerase sigma factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251847076|gb|EES75081.1| RNA polymerase sigma factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 262 Score = 65.9 bits (159), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 68/259 (26%), Positives = 129/259 (49%), Gaps = 20/259 (7%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKK 92 L +R++EHGDL A +L+ +L +V ++ G GLP + ++ S G +GL+ AV+K Sbjct: 14 LWERWKEHGDLEAKKQLIEKYLPIVDYVS-GRLAVGLPKNVSKDDLASNGVMGLIDAVEK 72 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITD 151 FD +RG + TY+ W ++ A+ + LR V K++ + L + +L+++TD Sbjct: 73 FDYKRGLQFETYASWRVRGAILDG-LRQGDWVPRSVREKAKKIEEGYQHLEQQYLRSVTD 131 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + + LNVSE E SM +A +L +L + + S+ + L+ D + Sbjct: 132 AEM--------SSYLNVSEKEFQSMLQEVAV-MTLCSLEDPIREEESETRLTLLVDEKAK 182 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E R L + + L +ER + L ++L ++ +S R+ Q Sbjct: 183 NPDYKVRE--FYLRESLAKGIEKLTEKERTVVSL--LYYEDLSLSEIAEVMSLSPSRISQ 238 Query: 272 IEARAFKKVQESIQKQVEL 290 + ++A +++ S++KQ +L Sbjct: 239 LHSKAILRLRGSLEKQRDL 257 >gi|302536824|ref|ZP_07289166.1| RNA polymerase sigma-F factor [Streptomyces sp. C] gi|302445719|gb|EFL17535.1| RNA polymerase sigma-F factor [Streptomyces sp. C] Length = 332 Score = 65.9 bits (159), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 111 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 170 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL L ++ + + V +A++L +SE Sbjct: 171 EIKRHFRDKGWAVRVPRRLQELRL-----SLTTATAELSQQHGRSPTVHELAERLGISEE 225 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 226 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 276 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 277 LLEGLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 328 >gi|302552549|ref|ZP_07304891.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] gi|302470167|gb|EFL33260.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] Length = 289 Score = 65.9 bits (159), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 119/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 61 EHDRVRGA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 118 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + + I Sbjct: 119 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTSFGRTPTTAEI 173 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L ++E EV+S C AG +++ ++Q D L + D G E ++ E Sbjct: 174 AERLRITEDEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 226 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F++ Sbjct: 227 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFQR 280 Query: 280 VQES 283 ++ + Sbjct: 281 LRSA 284 >gi|261405673|ref|YP_003241914.1| sporulation sigma factor SigE [Paenibacillus sp. Y412MC10] gi|329922715|ref|ZP_08278267.1| RNA polymerase sigma-E factor [Paenibacillus sp. HGF5] gi|261282136|gb|ACX64107.1| RNA polymerase, sigma 28 subunit, SigE [Paenibacillus sp. Y412MC10] gi|328942057|gb|EGG38340.1| RNA polymerase sigma-E factor [Paenibacillus sp. HGF5] Length = 240 Score = 65.9 bits (159), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++EE++L K GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PLTKEEEEFLLKKL--PTGDAATRAMLIERNLRLVVYIARKFENTGINIEDLVSIGAIGL 96 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 97 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 130 >gi|239990645|ref|ZP_04711309.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] Length = 309 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 88 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 147 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL L ++ + + V +A++L +SE Sbjct: 148 EIKRHFRDKGWAVRVPRRLQELRL-----SLTTATAELSQQHGRSPTVHELAERLGISEE 202 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 203 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 253 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 254 LLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRERL 305 >gi|5732893|gb|AAD49326.1|AF162936_2 RNA polymerase alternative sigma factor [Streptomyces coelicolor A3(2)] Length = 354 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 110/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 133 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 192 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + + +A+K Sbjct: 193 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEK 241 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L++SE EV L G ES NA S D + + V D G E +E E Sbjct: 242 LSISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 292 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 293 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 350 >gi|239944189|ref|ZP_04696126.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] Length = 284 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 63 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 122 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL L ++ + + V +A++L +SE Sbjct: 123 EIKRHFRDKGWAVRVPRRLQELRL-----SLTTATAELSQQHGRSPTVHELAERLGISEE 177 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 178 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 228 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 229 LLEDLPPREKRILLLRFF--GNMTQSQIAQEVGISQMHVSRLLARTLAQLRERL 280 >gi|256785278|ref|ZP_05523709.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 354 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 110/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 133 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 192 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + + +A+K Sbjct: 193 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEK 241 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L++SE EV L G ES NA S D + + V D G E +E E Sbjct: 242 LSISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 292 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 293 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 350 >gi|162139704|ref|YP_878335.2| sporulation sigma factor SigE [Clostridium novyi NT] Length = 235 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + R GD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKEEEENLVNKIR-AGDDSVRTILIERNLRLVVYIARKFENSGILVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 125 >gi|291447660|ref|ZP_06587050.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|291350607|gb|EFE77511.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] Length = 318 Score = 65.5 bits (158), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 97 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 156 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL L ++ + + V +A++L +SE Sbjct: 157 EIKRHFRDKGWAVRVPRRLQELRL-----SLTTATAELSQQHGRSPTVHELAERLGISEE 211 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 212 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 262 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 263 LLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRERL 314 >gi|289769170|ref|ZP_06528548.1| SigH protein [Streptomyces lividans TK24] gi|289699369|gb|EFD66798.1| SigH protein [Streptomyces lividans TK24] Length = 361 Score = 65.5 bits (158), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 65/239 (27%), Positives = 107/239 (44%), Gaps = 27/239 (11%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 140 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 199 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKKL 166 ++ + V++ + RL L +L G + + +A+KL Sbjct: 200 EIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEKL 249 Query: 167 NVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 ++SE EV L G ES NA S D + + V D G E +E E R Sbjct: 250 SISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YR 300 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 301 ESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 357 >gi|302558487|ref|ZP_07310829.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] gi|302476105|gb|EFL39198.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] Length = 281 Score = 65.5 bits (158), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 109/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 60 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 119 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + V +A+K Sbjct: 120 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHG----------RSPTVHELAEK 168 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L +SE EV L G ES NA S D + + V D G E +E E Sbjct: 169 LAISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 219 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 220 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 277 >gi|320008631|gb|ADW03481.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 320 Score = 65.5 bits (158), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 109/235 (46%), Gaps = 19/235 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 99 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 158 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + + W+ V++ + RL + ++ + + V +A++L +SE Sbjct: 159 EIKRHFRDKGWA-VRVPRRLQELRLSLTTATAE-----LSQQHGRSPTVHELAERLGISE 212 Query: 171 SEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV L G ES NA S D + + V D G E +E E R L Sbjct: 213 EEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLK 263 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 264 PLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRERL 316 >gi|118134194|gb|ABK61238.1| RNA polymerase sigma-E factor [Clostridium novyi NT] Length = 230 Score = 65.5 bits (158), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + R GD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 28 PPLSKEEEENLVNKIR-AGDDSVRTILIERNLRLVVYIARKFENSGILVEDLISVGTIGL 86 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 87 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 120 >gi|251797867|ref|YP_003012598.1| sporulation sigma factor SigE [Paenibacillus sp. JDR-2] gi|247545493|gb|ACT02512.1| RNA polymerase, sigma 28 subunit, SigE [Paenibacillus sp. JDR-2] Length = 240 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 57/94 (60%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EEY+L K GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PLTREEEEYLLDKL--PSGDTAIRAMLIERNLRLVVYIARKFENTGIHIEDLVSIGAIGL 96 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 97 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 130 >gi|220931758|ref|YP_002508666.1| sporulation sigma factor SigE [Halothermothrix orenii H 168] gi|219993068|gb|ACL69671.1| sporulation sigma factor SigE [Halothermothrix orenii H 168] Length = 245 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 39/91 (42%), Positives = 54/91 (59%), Gaps = 1/91 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE+ EE L KR E GD S L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 42 PPLEEDEEDYLLKRLSE-GDNSVRQLLIKHNLRLVVYIARKFSNTGIDIEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++AVK FD + +LATY+ I+ + Y+ Sbjct: 101 IKAVKTFDVNKNIKLATYASRCIENEILMYL 131 >gi|294501014|ref|YP_003564714.1| RNA polymerase sigma-E factor [Bacillus megaterium QM B1551] gi|295706363|ref|YP_003599438.1| RNA polymerase sigma-E factor [Bacillus megaterium DSM 319] gi|294350951|gb|ADE71280.1| RNA polymerase sigma-E factor [Bacillus megaterium QM B1551] gi|294804022|gb|ADF41088.1| RNA polymerase sigma-E factor [Bacillus megaterium DSM 319] Length = 239 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 38/94 (40%), Positives = 57/94 (60%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE VL K+ GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKDEEEVLLKKL-PSGDEAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|168186813|ref|ZP_02621448.1| RNA polymerase sigma-E factor [Clostridium botulinum C str. Eklund] gi|169295137|gb|EDS77270.1| RNA polymerase sigma-E factor [Clostridium botulinum C str. Eklund] Length = 235 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + R GD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKEEEESLVAKIR-AGDDSVRTILIERNLRLVVYIARKFENSGVLVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 125 >gi|21223610|ref|NP_629389.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|5912531|emb|CAB56114.2| SigH protein [Streptomyces coelicolor A3(2)] gi|9968693|emb|CAC05976.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] Length = 361 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 110/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 140 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 199 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + + +A+K Sbjct: 200 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEK 248 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L++SE EV L G ES NA S D + + V D G E +E E Sbjct: 249 LSISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 299 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 300 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 357 >gi|212639647|ref|YP_002316167.1| sporulation sigma factor SigE [Anoxybacillus flavithermus WK1] gi|212561127|gb|ACJ34182.1| DNA-directed RNA polymerase specialized sigma subunit sigE [Anoxybacillus flavithermus WK1] Length = 239 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 58/94 (61%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE +L K+ GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEMLLKKL-PSGDETARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|229542547|ref|ZP_04431607.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Bacillus coagulans 36D1] gi|229326967|gb|EEN92642.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Bacillus coagulans 36D1] Length = 259 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 65/275 (23%), Positives = 141/275 (51%), Gaps = 32/275 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSE 81 K+P ++ + L + ++++GD A LV + +LV +A Y R Y I +V Sbjct: 3 KLPQPDQIDVNQLIQSFQQNGDKEAQEILVAHYQKLVESLARKYSKGRAYQEDIFQV--- 59 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLR 140 G IGL+ A+++FDP G ++++ I ++ ++ ++WS+ +R+ Sbjct: 60 GIIGLLGAIQRFDPNIGKSFESFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGP 113 Query: 141 RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNCR-----LAGDESLNALINSSD 194 R+K ++ +T+ + ++ IA L +SE EV+ +M L+ D S+ + SD Sbjct: 114 RIKSTVEKLTNELQRSPKIAEIAAHLEISEEEVLEAMEMSKSYHALSVDHSIES---DSD 170 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 ++ D + + DG E+V N+R +L + + VL+ RER++ ++ ++ Sbjct: 171 GSTVTLLDMVGSEDDGYEKV--------NQRLVLEKVLHVLSERERQVIHYTYIEN--LS 220 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 ++ + +S+ V +++ RA KK++++I+ +++ Sbjct: 221 QKDTGEKLGISQMHVSRLQRRAIKKLRDAIEGELQ 255 >gi|328883833|emb|CCA57072.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 281 Score = 65.5 bits (158), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + T++M + Sbjct: 61 LIEANLPLVRYAADRFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTFAMPTVVGE 120 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L + E E Sbjct: 121 IKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAHGRSPTTAEIAERLRIGEDE 175 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 176 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 224 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R +T +S E VS+ V ++ AR+F +++ + Sbjct: 225 HLLVQLPEREQRILMLRYYSN--LTQSQISQELGVSQMHVSRLLARSFARLRSA 276 >gi|170691127|ref|ZP_02882293.1| sigma-70 region 3 domain protein [Burkholderia graminis C4D1M] gi|170144376|gb|EDT12538.1| sigma-70 region 3 domain protein [Burkholderia graminis C4D1M] Length = 202 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 50/197 (25%), Positives = 98/197 (49%), Gaps = 12/197 (6%) Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M+AV KF+ RG++ +TY+ WWI+ A+ I ++I + + R+ Sbjct: 1 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKMNRISR-- 56 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 Q + + L+P+ +A+K+ + E ++ + ++A E ++ D + S D++ Sbjct: 57 QILQETGLEPDPAT-LAEKMEMPEDKIRKI-MKIAK-EPISMETPIGDDDDSHLGDFI-- 111 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEV 264 D + + R+++ + L PRE ++ R E TLE + +F+V Sbjct: 112 -EDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDV 170 Query: 265 SRERVRQIEARAFKKVQ 281 +RER+RQIEA+A +K++ Sbjct: 171 TRERIRQIEAKALRKLR 187 >gi|225055401|gb|ACN80687.1| Tsr7 [Streptomyces laurentii] Length = 336 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + T++M + Sbjct: 116 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTFAMPTVVGE 175 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L + E E Sbjct: 176 IKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAHGRSPTTAEIAERLKIGEDE 230 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 231 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 279 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R +T +S E VS+ V ++ AR+F +++ + Sbjct: 280 HLLVQLPEREQRILMLRYYSN--LTQSQISQELGVSQMHVSRLLARSFARLRSA 331 >gi|224124068|ref|XP_002319237.1| predicted protein [Populus trichocarpa] gi|222857613|gb|EEE95160.1| predicted protein [Populus trichocarpa] Length = 499 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 68/252 (26%), Positives = 120/252 (47%), Gaps = 32/252 (12%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L S++RLV+ IA G ++++V G IGL++ ++KFD +GF+++TY WW Sbjct: 256 AREKLAMSNVRLVMSIAQKNDNMGAEMADLVQAGLIGLLRGIEKFDSSKGFKISTYVYWW 315 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + ++ + +++ +++ +++ + +T + + IA+ LN+ Sbjct: 316 IRQGVSRALVENPRTLRLPNHLHERLGLIRNAKIRLEEKGVTPS------IDRIAESLNM 369 Query: 169 SE------SEVISMNCRLAGDE--SLNALINSSD-----KNSSQWQDWLVYDHDGQEQVL 215 S+ +E IS L + SLN L + N + W H E L Sbjct: 370 SQRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADNRLENNPW----HGVDEWAL 425 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEA 274 KEE N L S L RER I L + +T E++S +SRERVRQ+ Sbjct: 426 --KEEV----NKLIDS--ALQEREREIIRLYHGLDKECLTWEDISKRMGLSRERVRQVGL 477 Query: 275 RAFKKVQESIQK 286 A +K++ + +K Sbjct: 478 VALEKLKHAARK 489 >gi|239826532|ref|YP_002949156.1| sporulation sigma factor SigE [Geobacillus sp. WCH70] gi|239806825|gb|ACS23890.1| RNA polymerase, sigma 28 subunit, SigE [Geobacillus sp. WCH70] Length = 239 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 58/94 (61%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE +L K+ GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEMLIKKL-SSGDETARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|333024500|ref|ZP_08452564.1| putative RNA polymerase sigma-F factor [Streptomyces sp. Tu6071] gi|332744352|gb|EGJ74793.1| putative RNA polymerase sigma-F factor [Streptomyces sp. Tu6071] Length = 356 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 110/235 (46%), Gaps = 19/235 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 135 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVVG 194 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + + W+ V++ + RL L ++ + + V +A++L++SE Sbjct: 195 EIKRHFRDKGWA-VRVPRRLQELRL-----SLTSATAELSQQHGRSPTVHELAQRLSISE 248 Query: 171 SEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV L G ES NA S D + + V D G E +E E R L Sbjct: 249 EEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLK 299 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR ++++ + Sbjct: 300 PLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRDKL 352 >gi|224553534|gb|ACN55005.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 37/47 (78%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 GL + +++ EGN+GL++AV+KFDPERGFR +TY+ WWI+ + I+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIGRAIM 47 >gi|229061510|ref|ZP_04198854.1| RNA polymerase sigma-35 factor [Bacillus cereus AH603] gi|229134714|ref|ZP_04263523.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-ST196] gi|229168645|ref|ZP_04296367.1| RNA polymerase sigma-35 factor [Bacillus cereus AH621] gi|228614801|gb|EEK71904.1| RNA polymerase sigma-35 factor [Bacillus cereus AH621] gi|228648760|gb|EEL04786.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-ST196] gi|228717744|gb|EEL69394.1| RNA polymerase sigma-35 factor [Bacillus cereus AH603] Length = 232 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + +GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 30 PPLTKEEEAVLLNKL-PNGDQAARSMLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 88 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 89 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 121 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 122 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 152 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 153 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 208 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 209 SQSYISRLEKRIIKRLRKEFNKMV 232 >gi|302525186|ref|ZP_07277528.1| RNA polymerase sigma-G factor [Streptomyces sp. AA4] gi|302434081|gb|EFL05897.1| RNA polymerase sigma-G factor [Streptomyces sp. AA4] Length = 282 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 67/254 (26%), Positives = 114/254 (44%), Gaps = 19/254 (7%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFD 94 +++ + D ++ RLV H +VK G G GLP + ++V G GL+ A++KFD Sbjct: 40 QQFADKPDQTSRDRLVL-HYAPLVKYVAGRVGTGLPTHVDVGDLVQSGIFGLVDAIEKFD 98 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNN 153 PERG R TY+M I+ A+ + LRS V + K L RL L TD Sbjct: 99 PERGLRFETYAMQRIRGAILDD-LRSQDWVPRAVRSKAKETARALERLGARLHRTPTDAE 157 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 L E +++ + RL +L L+ ++ K++ D L DG Sbjct: 158 LAGEM------GISLDDLRDFYGQLRLTSVVALEDLV-AAGKDAGSLVDTL--PDDGAVD 208 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + ++ NRR L +++ L R++ + + +TL + V+ RV Q+ Sbjct: 209 PVAVLVDQDNRRQ-LAEAIAQLTDRDKIVVSLYYFES--LTLAEIGKVLGVTESRVSQLH 265 Query: 274 ARAFKKVQESIQKQ 287 RA +++ + +Q Sbjct: 266 TRAVMRLRAKLMEQ 279 >gi|255527843|ref|ZP_05394691.1| RNA polymerase, sigma 28 subunit, SigK [Clostridium carboxidivorans P7] gi|296185444|ref|ZP_06853854.1| RNA polymerase sigma-K factor [Clostridium carboxidivorans P7] gi|255508454|gb|EET84846.1| RNA polymerase, sigma 28 subunit, SigK [Clostridium carboxidivorans P7] gi|296050278|gb|EFG89702.1| RNA polymerase sigma-K factor [Clostridium carboxidivorans P7] Length = 233 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 35/83 (42%), Positives = 53/83 (63%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +K+EEY L K+++E GDL A + LV +LRLV I Y G + +++S G +GL Sbjct: 30 PLNDKEEEYYL-KKFKE-GDLLAKNILVERNLRLVAHIVKKYSYPGKEVDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDASKGTRLATYAAKCI 110 >gi|290957490|ref|YP_003488672.1| sigma factor [Streptomyces scabiei 87.22] gi|260647016|emb|CBG70115.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 388 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 167 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 226 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL + ++ + + V +A+KL +SE Sbjct: 227 EIKRHFRDKGWAVRVPRRLQELRLALTTATAE-----LSQQHGRSPTVHELAEKLAISEE 281 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 282 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLKP 332 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 333 LLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 384 >gi|182436064|ref|YP_001823783.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326776688|ref|ZP_08235953.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178464580|dbj|BAG19100.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326657021|gb|EGE41867.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 318 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 97 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 156 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL L ++ + + V +A++L +SE Sbjct: 157 EIKRHFRDKGWAVRVPRRLQELRL-----SLTTATAELSQQHGRSPTVHELAERLGISEE 211 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 212 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 262 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 263 LLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRERL 314 >gi|253682372|ref|ZP_04863169.1| RNA polymerase sigma-E factor [Clostridium botulinum D str. 1873] gi|253562084|gb|EES91536.1| RNA polymerase sigma-E factor [Clostridium botulinum D str. 1873] Length = 235 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + R GD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKEEEENLVAKIR-AGDDSVRTILIERNLRLVVYIARKFENSGVLVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 125 >gi|160943881|ref|ZP_02091111.1| hypothetical protein FAEPRAM212_01381 [Faecalibacterium prausnitzii M21/2] gi|158444557|gb|EDP21561.1| hypothetical protein FAEPRAM212_01381 [Faecalibacterium prausnitzii M21/2] gi|295104730|emb|CBL02274.1| RNA polymerase, sigma 29 subunit, SigE [Faecalibacterium prausnitzii SL3/3] Length = 234 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 53/94 (56%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++E L R GD +A L+T +LRLVV +A Y G+P ++VS G IGL Sbjct: 33 PPLTPEQEKALLDRM-AAGDAAAREELITHNLRLVVYLAKKYENSGVPAEDLVSIGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F P R +LATY+ I + Y+ +S Sbjct: 92 IKAVNTFTPARSIKLATYASRCIGNEILMYLRKS 125 >gi|163941644|ref|YP_001646528.1| sporulation sigma factor SigE [Bacillus weihenstephanensis KBAB4] gi|229013089|ref|ZP_04170254.1| RNA polymerase sigma-35 factor [Bacillus mycoides DSM 2048] gi|163863841|gb|ABY44900.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] gi|228748343|gb|EEL98203.1| RNA polymerase sigma-35 factor [Bacillus mycoides DSM 2048] gi|322510149|gb|ADX05463.1| RNA polymerase sigma-35 factor [Bacillus mycoides] Length = 239 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + +GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEAVLLNKL-PNGDQAARSMLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 129 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 160 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|318060190|ref|ZP_07978913.1| RNA polymerase sigma factor, sigH [Streptomyces sp. SA3_actG] gi|318078835|ref|ZP_07986167.1| RNA polymerase sigma factor, sigH [Streptomyces sp. SA3_actF] Length = 356 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 110/235 (46%), Gaps = 19/235 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 135 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVVG 194 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + + W+ V++ + RL L ++ + + V +A++L++SE Sbjct: 195 EIKRHFRDKGWA-VRVPRRLQELRL-----SLTSATAELSQQHGRSPTVHELAQRLSISE 248 Query: 171 SEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV L G ES NA S D + + V D G E +E E R L Sbjct: 249 EEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLK 299 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR ++++ + Sbjct: 300 PLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRDKL 352 >gi|302391540|ref|YP_003827360.1| RNA polymerase, sigma 29 subunit, SigE [Acetohalobium arabaticum DSM 5501] gi|302203617|gb|ADL12295.1| RNA polymerase, sigma 29 subunit, SigE [Acetohalobium arabaticum DSM 5501] Length = 247 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 72/263 (27%), Positives = 113/263 (42%), Gaps = 65/263 (24%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+L+K + GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 43 PLSNEEESYLLSKL--KEGDKAVRSVLIERNLRLVVYIARKFENTGIDIEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV FD + +LATY+ I+ + Y LRR Sbjct: 101 IKAVNTFDVSKRIKLATYASRCIENEILMY----------------------LRR----- 133 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 NN K ++ + DE LN D N + D L Sbjct: 134 -----NNKKKSEI---------------------SFDEPLNI---DWDGNELKLSDVLGT 164 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR-RLQEN--PVTLENLSSEFE 263 D D Q + E R +L ++M VL RER+I R L E+ +T + ++ Sbjct: 165 DMDLIYQYI----EEDVDRELLLQAMEVLTDRERKIMILRFGLGEDREEMTQKEVADILG 220 Query: 264 VSRERVRQIEARAFKKVQESIQK 286 +S+ + ++E R KK+Q+ I K Sbjct: 221 ISQSYISRLEKRIIKKLQQEISK 243 >gi|221309406|ref|ZP_03591253.1| sporulation sigma factor SigE [Bacillus subtilis subsp. subtilis str. 168] gi|221313731|ref|ZP_03595536.1| sporulation sigma factor SigE [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221318655|ref|ZP_03599949.1| sporulation sigma factor SigE [Bacillus subtilis subsp. subtilis str. JH642] gi|221322928|ref|ZP_03604222.1| sporulation sigma factor SigE [Bacillus subtilis subsp. subtilis str. SMY] gi|255767354|ref|NP_389415.2| sporulation sigma factor SigE [Bacillus subtilis subsp. subtilis str. 168] gi|296331108|ref|ZP_06873582.1| sporulation sigma factor SigE [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674263|ref|YP_003865935.1| sporulation-specific sigma factor sigma-E [Bacillus subtilis subsp. spizizenii str. W23] gi|321315297|ref|YP_004207584.1| sporulation sigma factor SigE [Bacillus subtilis BSn5] gi|133472|sp|P06222|RPSE_BACSU RecName: Full=RNA polymerase sigma-E factor; AltName: Full=P31; AltName: Full=Sigma-29; AltName: Full=Stage II sporulation protein GB; Flags: Precursor gi|40169|emb|CAA25620.1| unnamed protein product [Bacillus subtilis] gi|225184981|emb|CAB13406.2| RNA polymerase sporulation-specific sigma-29 factor (sigma-E) [Bacillus subtilis subsp. subtilis str. 168] gi|291484083|dbj|BAI85158.1| sporulation sigma factor SigE [Bacillus subtilis subsp. natto BEST195] gi|296151752|gb|EFG92627.1| sporulation sigma factor SigE [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305412507|gb|ADM37626.1| sporulation-specific sigma factor sigma-E [Bacillus subtilis subsp. spizizenii str. W23] gi|320021571|gb|ADV96557.1| sporulation sigma factor SigE [Bacillus subtilis BSn5] gi|224259|prf||1012299A spoIIG gene Length = 239 Score = 65.1 bits (157), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 68/264 (25%), Positives = 113/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE VL + +GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKDEEQVLLMKL-PNGDQAARAILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN-------------------------- 129 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N SEV + DE LN D N D L Sbjct: 130 --------------------NKIRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E + +L +++ LN RE++I E R + E T ++++ + Sbjct: 160 DDD----IITKDIEANVDKKLLKKALEQLNEREKQIMELRFGLVGEEEKTQKDVADMMGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|329938754|ref|ZP_08288150.1| SigF-like sigma factor [Streptomyces griseoaurantiacus M045] gi|329302245|gb|EGG46137.1| SigF-like sigma factor [Streptomyces griseoaurantiacus M045] Length = 305 Score = 64.7 bits (156), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 116/244 (47%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + Sbjct: 77 EHDRVRGA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFP 134 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + I Sbjct: 135 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRSPTTAEI 189 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L + E EV+S C AG +++ ++Q D L + D G E ++ E Sbjct: 190 AERLRIGEEEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 242 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F + Sbjct: 243 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFAR 296 Query: 280 VQES 283 ++ + Sbjct: 297 LRSA 300 >gi|56964116|ref|YP_175847.1| sporulation sigma factor SigE [Bacillus clausii KSM-K16] gi|56910359|dbj|BAD64886.1| DNA-directed RNA polymerase sigma-29 factor sigma-E [Bacillus clausii KSM-K16] Length = 237 Score = 64.7 bits (156), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 70/268 (26%), Positives = 117/268 (43%), Gaps = 71/268 (26%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + GD + L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 35 PPLSKEEEAELLGKL-PSGDKAVRSVLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 94 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN-------------------------- 127 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWL 204 N + SEV + DE LN W + L Sbjct: 128 --------------------NKTRSEV-------SFDEPLNI----------DWDGNELL 150 Query: 205 VYDHDGQEQVLIEK--EERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSS 260 + D G E+ +I + EER +RR +L +++ L+ RE++I E R E T ++++ Sbjct: 151 LSDVLGTEEDIITRGIEERVDRR-LLVKALHTLSEREKQIMELRFGLAGEEEKTQKDVAD 209 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQV 288 +S+ + ++E R K++Q+ K V Sbjct: 210 MLGISQSYISRLEKRIIKRLQKEFSKMV 237 >gi|187935068|ref|YP_001885063.1| RNA polymerase sigma-D factor [Clostridium botulinum B str. Eklund 17B] gi|187723221|gb|ACD24442.1| RNA polymerase sigma-D factor [Clostridium botulinum B str. Eklund 17B] Length = 242 Score = 64.7 bits (156), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 68/258 (26%), Positives = 121/258 (46%), Gaps = 43/258 (16%) Query: 46 DLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 D ++V ++ LV IA +G Y + ++VS G IGLM A+ KF+PE+G + Sbjct: 6 DNDVKEQIVKEYIPLVKYIASRIMIGKNKY-MEYEDLVSYGIIGLMDAISKFNPEKGMKF 64 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 ++Y+ IK A+ + I ++ + K L R G ++A+ + L+ ++ Sbjct: 65 SSYASIRIKGAIIDQIRKNRPITKGAMD--------KLNRYNGAIEALQNKLLREPNILE 116 Query: 162 IAKKLNVSESEV---------ISM----NCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 IAK L +S EV ISM N + DE +N L DKNS + Sbjct: 117 IAKYLELSLEEVSQIENYINHISMVSLENIIFSDDEEVNLLGIIEDKNSPSPE------- 169 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 + E K + +L+ ++ +L +E+ I ++ +TL+ + + VS R Sbjct: 170 --------GELEEKEKLEVLSDAIKLLKEKEQLILNLYYYEK--LTLKEIGAILSVSESR 219 Query: 269 VRQIEARAFKKVQESIQK 286 V Q+ AR+ ++E+++K Sbjct: 220 VCQLHARSISNLREAMKK 237 >gi|219124053|ref|XP_002182327.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217406288|gb|EEC46228.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 317 Score = 64.7 bits (156), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 64/254 (25%), Positives = 119/254 (46%), Gaps = 32/254 (12%) Query: 53 LVTSHLRLVVKIAM-----------GYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGF 99 LV ++L LV +A RG G L + +++ EG +GLM+A ++F+PERG+ Sbjct: 67 LVAANLGLVTALAKRQLSTLQTATEAGRGVGTILTLQDLIQEGTLGLMKAAERFEPERGW 126 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA----ITDNNLK 155 R +TY+ WW++ + + + S +++ A+ +++ K QA T ++L Sbjct: 127 RFSTYATWWVRQRILKSVSDSSRTIRL--PAHVHGTLQRIQKAKAWFQAHGEEATLSSLA 184 Query: 156 P--EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 E V + S V+S+ L G + D+N+ D L D E+ Sbjct: 185 QYLELPVEKVRLYTDSSRNVMSLETPLKGRSAFK------DENTRTLGDTLASDEKTPEE 238 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQ 271 + + R + +++T+ VL E+ + R E+ ++E + + VSR+R+R Sbjct: 239 DVEAQALRLDLEHVMTQ---VLTDVEQNVLRRRFGLEDGTCWSVEETARQLGVSRDRIRL 295 Query: 272 IEARAFKKVQESIQ 285 +E RA K++ Q Sbjct: 296 VETRALNKLRHPQQ 309 >gi|294813860|ref|ZP_06772503.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|326442278|ref|ZP_08217012.1| RNA polymerase sigma factor, sigma F [Streptomyces clavuligerus ATCC 27064] gi|294326459|gb|EFG08102.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 335 Score = 64.7 bits (156), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + T++M + Sbjct: 115 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTFAMPTVVGE 174 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L + E E Sbjct: 175 IKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAHGRIPTTAEIAERLRIGEDE 229 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 230 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 278 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R +T +S E VS+ V ++ AR+F +++ + Sbjct: 279 HLLVQLPEREQRILMLRYYSN--LTQSQISQELGVSQMHVSRLLARSFARLRSA 330 >gi|3077740|dbj|BAA25788.1| SigC [Cyanidium caldarium] Length = 424 Score = 64.7 bits (156), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 59/272 (21%), Positives = 116/272 (42%), Gaps = 44/272 (16%) Query: 49 AAHRLVTSHLRLVVKIAMGYR---------------GYGLP--------------ISEVV 79 A RLV S+LRLV+ IA Y+ G +P + +++ Sbjct: 143 ARARLVASNLRLVLAIANRYKSRAVVRSAWKSRSKGGMDMPSHEKVRLQRQHNIFLGDLI 202 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 EG +GL++A +KFDP +GF+ +TY+ WWI+ A+Q + +++ + + Sbjct: 203 QEGALGLIRAAEKFDPSKGFKFSTYATWWIRQAIQRCVSEHSRTIRLPNHVTES--LRQI 260 Query: 140 RRLKGHLQAITDNNLKPEQVVAIA-------KKLNVSESEVISMNCRLAGDESLNALINS 192 R++ LQ + E+V KK+ + +++ + ++L S Sbjct: 261 YRMRARLQHVLKRPPTDEEVAEACNMTLKRLKKITQHAWKTQTLSLEGPPNNEAHSLYKS 320 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQ 249 + ++ + + +E+ + + R++ +ER I R Sbjct: 321 QQGEAPLSIGSIIEATEETPEEALERNCMREDVECVLRTLPF---QEREILRLRYGISDD 377 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 E P + E LS+ F++ +R IE+RA +K++ Sbjct: 378 ERPHSTEELSARFQLPVHTIRLIESRALRKLR 409 >gi|254390382|ref|ZP_05005599.1| RNA polymerase sigma-F factor [Streptomyces clavuligerus ATCC 27064] gi|197704086|gb|EDY49898.1| RNA polymerase sigma-F factor [Streptomyces clavuligerus ATCC 27064] Length = 326 Score = 64.7 bits (156), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + T++M + Sbjct: 106 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTFAMPTVVGE 165 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L + E E Sbjct: 166 IKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTTAHGRIPTTAEIAERLRIGEDE 220 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 221 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALAGVEHRD----LVR 269 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R +T +S E VS+ V ++ AR+F +++ + Sbjct: 270 HLLVQLPEREQRILMLRYYSN--LTQSQISQELGVSQMHVSRLLARSFARLRSA 321 >gi|187932801|ref|YP_001885388.1| sporulation sigma factor SigE [Clostridium botulinum B str. Eklund 17B] gi|187720954|gb|ACD22175.1| RNA polymerase sigma-E factor [Clostridium botulinum B str. Eklund 17B] Length = 235 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L HGD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKDEEETLVNNLM-HGDESIRSTLIERNLRLVVYIARKFENTGVHVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 125 >gi|219123705|ref|XP_002182160.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217406121|gb|EEC46061.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 319 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 117/248 (47%), Gaps = 28/248 (11%) Query: 53 LVTSHLRLVVKIAM-----------GYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGF 99 LV ++L LV +A RG G L + +++ EG +GLM+A ++F+PERG+ Sbjct: 69 LVAANLGLVTALAKRQLSTLQTATEAGRGVGTILTLQDLIQEGTLGLMKAAERFEPERGW 128 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLKP- 156 R +TY+ WW++ + + + S +++ + +R+ + H + T ++L Sbjct: 129 RFSTYATWWVRQRILKSVSDSSRTIRLPAHVHGTLQRIQKAKAWFRAHGEEATLSSLAQY 188 Query: 157 -EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E V + S V+S+ L G + D+N+ D L D E+ + Sbjct: 189 LELPVEKVRLYTDSSRNVMSLETPLKGRSAFK------DENTRTLGDTLASDEKTPEENV 242 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIE 273 + R + +++ + VL E+ + R E+ +LE + + +SR+R+R +E Sbjct: 243 EAQALRLDLEHVM---IKVLTDVEQNVLRRRFGLEDGTSWSLEETAKQLGMSRDRIRLVE 299 Query: 274 ARAFKKVQ 281 ARA K++ Sbjct: 300 ARALNKLR 307 >gi|29830728|ref|NP_825362.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607841|dbj|BAC71897.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 309 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 117/244 (47%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 81 EHSRVRGA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 138 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + I Sbjct: 139 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRSPTTAEI 193 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L ++E EV+S C AG +++ ++Q D L + D G E ++ E Sbjct: 194 AERLRITEEEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 246 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F + Sbjct: 247 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFAR 300 Query: 280 VQES 283 ++ + Sbjct: 301 LRSA 304 >gi|188587460|ref|YP_001919005.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179352147|gb|ACB86417.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 273 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 70/277 (25%), Positives = 135/277 (48%), Gaps = 43/277 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P++ +E L +R E GD A L+ +LRLV+ + ++ G + ++ G + Sbjct: 15 KLPVISSEETQKLFERL-EQGDEQAKQELINGNLRLVLSVINKFKNRGENLDDLFQVGCL 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++AV FDP++G + +TY++ I ++ Y LR S +++ + +L G Sbjct: 74 GLVKAVDNFDPKQGVKFSTYAVPMIMGEIKRY-LRDDSPMRVSRSL----------KLLG 122 Query: 145 HLQAITDNNLKPEQ-----VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ 199 A L+ E+ + +A +LN+S E++ +NSS + S Sbjct: 123 QEAAKAKEKLRKEKPYEPTIEELASELNISREELVEA-------------LNSSSEPLSL 169 Query: 200 WQDWLVYDHDGQEQVLI-----EKEERKNR--RNM-LTRSMSVLNPRERRIFEARRLQEN 251 + VY D + VL+ ++EER NM L +++ L R+R I RR + Sbjct: 170 YDP--VY-SDSTDPVLLVDQIKDEEERLENWVENMTLKEAIAKLPERQRNIVN-RRFFKG 225 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +E +S E +S+ +V ++E A ++++ ++++V Sbjct: 226 QTQVE-VSDELNISQAQVSRLEKSALLQLRKLVKEEV 261 >gi|258645545|ref|ZP_05733014.1| RNA polymerase sigma-F factor [Dialister invisus DSM 15470] gi|260402901|gb|EEW96448.1| RNA polymerase sigma-F factor [Dialister invisus DSM 15470] Length = 205 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 45/159 (28%), Positives = 78/159 (49%), Gaps = 2/159 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 LS YI + K L ++EE L Y+ G+L A +L+ + LV K A Y + Sbjct: 2 LSEYISSLPKEGKLSREEEARLWDAYKNEGELEARQKLIEHYQLLVFKEATKYPVQETVL 61 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ EG +GLM+A +KFD E+G + Y++ I+ M +++ + + + +G +K Sbjct: 62 LDLIQEGTVGLMEAAEKFDIEQGVAFSLYAIHRIRGRMLDFLRKGQNDILMGEEQEEK-- 119 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 F L+ +TD N V +L + E +VI Sbjct: 120 LFTLQVAPDTAFEVTDRNSLHSAVSMAVSRLPMKEQDVI 158 >gi|188587739|ref|YP_001920535.1| sporulation sigma factor SigE [Clostridium botulinum E3 str. Alaska E43] gi|251779018|ref|ZP_04821938.1| RNA polymerase sigma-E factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188498020|gb|ACD51156.1| RNA polymerase sigma-E factor [Clostridium botulinum E3 str. Alaska E43] gi|243083333|gb|EES49223.1| RNA polymerase sigma-E factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 235 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L HGD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKDEEETLVNNLM-HGDESIRSTLIERNLRLVVYIARKFENTGVHVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 125 >gi|329939708|ref|ZP_08289009.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329301278|gb|EGG45173.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 387 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 109/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 166 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 225 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + + +A+K Sbjct: 226 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEK 274 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L +SE EV L G ES NA S D + + V D G E +E E Sbjct: 275 LAISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 325 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 326 RESLKPLLEDLPPREKRILLLRFFAN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 383 >gi|225026956|ref|ZP_03716148.1| hypothetical protein EUBHAL_01212 [Eubacterium hallii DSM 3353] gi|224955721|gb|EEG36930.1| hypothetical protein EUBHAL_01212 [Eubacterium hallii DSM 3353] Length = 275 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 46/159 (28%), Positives = 82/159 (51%), Gaps = 14/159 (8%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ K L ++E V+A++ GD +A + L+ ++L V+IA Y G GL +S++ Sbjct: 109 YLKEMEKANSLSGEQERVIARKLV-SGDDTARNLLIEANLSRAVEIAKEYEGRGLLLSDL 167 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA----AMQEYILRSWSLVKIGTTANQKR 134 + EGNIGLM AV +F+P+ +S I+ ++EY + S VK+ N+ Sbjct: 168 IQEGNIGLMVAVNEFEPDIDKDFHAFSEKMIRKHLEETLEEYNSSTRSAVKMANRVNE-- 225 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 + + + KP + IA+++ ++E EV Sbjct: 226 ----MNDIATAFAKEYEREAKPSE---IAERMGITEEEV 257 >gi|52080135|ref|YP_078926.1| sporulation sigma factor SigE [Bacillus licheniformis ATCC 14580] gi|52785509|ref|YP_091338.1| sporulation sigma factor SigE [Bacillus licheniformis ATCC 14580] gi|319646087|ref|ZP_08000317.1| RNA polymerase sigma-E factor [Bacillus sp. BT1B_CT2] gi|52003346|gb|AAU23288.1| RNA polymerase sporulation-specific sigma-29 factor (sigma-E) [Bacillus licheniformis ATCC 14580] gi|52348011|gb|AAU40645.1| SigE [Bacillus licheniformis ATCC 14580] gi|317391837|gb|EFV72634.1| RNA polymerase sigma-E factor [Bacillus sp. BT1B_CT2] Length = 239 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 57/94 (60%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE VL + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKDEEQVLLHKLPD-GDQAARAILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|228992638|ref|ZP_04152564.1| RNA polymerase sigma-G factor [Bacillus pseudomycoides DSM 12442] gi|228998684|ref|ZP_04158271.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock3-17] gi|229006186|ref|ZP_04163872.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock1-4] gi|228755027|gb|EEM04386.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock1-4] gi|228761152|gb|EEM10111.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock3-17] gi|228766970|gb|EEM15607.1| RNA polymerase sigma-G factor [Bacillus pseudomycoides DSM 12442] Length = 259 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 67/263 (25%), Positives = 124/263 (47%), Gaps = 21/263 (7%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 72 CIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ + SL I + + D Sbjct: 127 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGGDPIFVMD 185 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 L D EQ + E L M LN RE+ I R Q T ++ E Sbjct: 186 QLSDDKQRDEQWVEEL--------ALKEGMKRLNDREKMIIRKRFFQGK--TQMEVAEEI 235 Query: 263 EVSRERVRQIEARAFKKVQESIQ 285 +S+ +V ++E A K++ ++IQ Sbjct: 236 GISQAQVSRLEKSAIKQMNKTIQ 258 >gi|197303735|ref|ZP_03168772.1| hypothetical protein RUMLAC_02464 [Ruminococcus lactaris ATCC 29176] gi|197297255|gb|EDY31818.1| hypothetical protein RUMLAC_02464 [Ruminococcus lactaris ATCC 29176] Length = 265 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 36/91 (39%), Positives = 54/91 (59%), Gaps = 2/91 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E+Y K Y E GDL A H L+ +LRLV I Y+ G + +++S G IGL Sbjct: 66 PLTPDEEKYYFQK-YTE-GDLEAKHILIERNLRLVAHIVRKYQNLGEEMEDLISIGTIGL 123 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++AV FDPE+G RLA Y+ ++ + Y+ Sbjct: 124 IKAVISFDPEKGNRLAAYASRCVENEILMYL 154 >gi|254384106|ref|ZP_04999451.1| RNA polymerase sigma-F factor [Streptomyces sp. Mg1] gi|194342996|gb|EDX23962.1| RNA polymerase sigma-F factor [Streptomyces sp. Mg1] Length = 302 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 114/234 (48%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + T++M + Sbjct: 82 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTFAMPTVVGE 141 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ + +T + + IA++L ++E E Sbjct: 142 IKRYFRDNVRTVHV-----PRRLHELWVQVNAATEDLTTLHGRTPTTPEIAERLRITEEE 196 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V+S C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 197 VLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPELAGVEHRD----LVR 245 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R N +T +S+E VS+ V ++ AR+F +++ + Sbjct: 246 HLLVQLPEREQRILLLRYY--NNLTQSQISAELGVSQMHVSRLLARSFARLRSA 297 >gi|308173494|ref|YP_003920199.1| RNA polymerase sporulation-specific sigma-29 factor sigma-E [Bacillus amyloliquefaciens DSM 7] gi|307606358|emb|CBI42729.1| RNA polymerase sporulation-specific sigma-29 factor (sigma-E) [Bacillus amyloliquefaciens DSM 7] gi|328553576|gb|AEB24068.1| sporulation sigma factor SigE [Bacillus amyloliquefaciens TA208] gi|328911631|gb|AEB63227.1| RNA polymerase sporulation-specific sigma-29 factor (sigma-E) [Bacillus amyloliquefaciens LL3] Length = 239 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 68/264 (25%), Positives = 113/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKEEEQVLLLKL-PSGDQAARAILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN-------------------------- 129 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N SEV + DE LN D N D L Sbjct: 130 --------------------NKIRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E + +L +++ LN RE++I E R + E T ++++ + Sbjct: 160 DDD----IITKDIEANVDKKLLKKALEQLNDREKQIMELRFGLIGEEEKTQKDVADMMGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|295836570|ref|ZP_06823503.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] gi|295826098|gb|EDY44232.2| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] Length = 338 Score = 64.7 bits (156), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 111/241 (46%), Gaps = 29/241 (12%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +RLV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 116 NRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVV 175 Query: 111 AAMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ + + W+ V++ + RL L +L G + + +A+ Sbjct: 176 GEIKRHFRDKGWA-VRVPRRLQELRLSLTSATAELSQLHGRSPTVHE----------LAQ 224 Query: 165 KLNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +L++SE EV L G ES NA S D + + V D G E +E E Sbjct: 225 RLSISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE--- 275 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R L + L PRE+RI R +T ++ E +S+ V ++ AR ++++ Sbjct: 276 YRESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRDK 333 Query: 284 I 284 + Sbjct: 334 L 334 >gi|307328849|ref|ZP_07608019.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306885514|gb|EFN16530.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 277 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 119/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + AA L+ ++L LV A +R P+ +V+ G IGL+ A+ +FDP+RG + Sbjct: 49 EHTRVRAA--LIEANLPLVRYAAARFRSRNEPMEDVIQVGTIGLINAIDRFDPDRGVQFP 106 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ G + +T + + I Sbjct: 107 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTVLHGRSPTTAEI 161 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L +SE EV++ C AG +++ ++Q D L + D G E + E Sbjct: 162 AERLKLSEEEVLA--CIEAGRS-----YHATSLEAAQEGDGLPGLVDRLGYEDPALAGVE 214 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ +R+F + Sbjct: 215 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLSRSFAR 268 Query: 280 VQES 283 ++ + Sbjct: 269 LRSA 272 >gi|323449639|gb|EGB05525.1| hypothetical protein AURANDRAFT_60247 [Aureococcus anophagefferens] Length = 399 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 40/148 (27%), Positives = 75/148 (50%), Gaps = 25/148 (16%) Query: 53 LVTSHLRLVV--------------KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 ++ S++RLVV ++A+ G + ++V+EG +GL +AV +F+P+RG Sbjct: 141 MMLSNMRLVVAMARRMQRSLPQASRLAVDRDGGSYALDDLVAEGTLGLAKAVDRFEPDRG 200 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 FR +TY+ WW++ A+Q I R ++V + Q ++ + Q + D +P Sbjct: 201 FRFSTYATWWVRQAIQRAI-RRRAVVAVPVHVQQL-----AKKCENATQELRDEYGRPPT 254 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESL 186 +A ++ SE + +LAG +L Sbjct: 255 SAELAARVGASEKRL-----KLAGRAAL 277 >gi|294630217|ref|ZP_06708777.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] gi|292833550|gb|EFF91899.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] Length = 314 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 118/244 (48%), Gaps = 23/244 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH + A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+RG + Sbjct: 86 EHARVRGA--LIEANLPLVRYAAGRFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFP 143 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 T++M + ++ Y + V + +RL ++ + +T + I Sbjct: 144 TFAMPTVVGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRSPTTAEI 198 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEE 220 A++L ++E EV+S C AG +++ ++Q D L + D G E ++ E Sbjct: 199 AERLRITEEEVLS--CIEAGRS-----YHATSLEAAQEGDGLPGLLDRLGYEDPALDGVE 251 Query: 221 RKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L R + V P RE+RI R +T +S+E VS+ V ++ AR+F++ Sbjct: 252 HRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLARSFQR 305 Query: 280 VQES 283 ++ + Sbjct: 306 LRSA 309 >gi|229541193|ref|ZP_04430253.1| RNA polymerase, sigma 28 subunit, SigE [Bacillus coagulans 36D1] gi|229325613|gb|EEN91288.1| RNA polymerase, sigma 28 subunit, SigE [Bacillus coagulans 36D1] Length = 239 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 58/94 (61%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE +L K+ GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKEEEEMLLKKL-PAGDKAARSILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|297192165|ref|ZP_06909563.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197720190|gb|EDY64098.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 349 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 108/234 (46%), Gaps = 19/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 129 LVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVVGE 188 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + W+ V++ + RL + ++ + + V +A++L +SE Sbjct: 189 IKRHFRDKGWA-VRVPRRLQELRLSLTTATAE-----LSQQHGRSPTVHELAERLGISEE 242 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 243 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLKP 293 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 294 LLEGLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRERL 345 >gi|302535695|ref|ZP_07288037.1| RNA polymerase sigma-B factor [Streptomyces sp. C] gi|302444590|gb|EFL16406.1| RNA polymerase sigma-B factor [Streptomyces sp. C] Length = 355 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 63/234 (26%), Positives = 114/234 (48%), Gaps = 21/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +VV G IGL+ A+ +FDPERG + T++M + Sbjct: 135 LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQFPTFAMPTVVGE 194 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ + +T + + IA++L +SE E Sbjct: 195 IKRYFRDNVRTVHV-----PRRLHELWVQVNAATEDLTTLHGRTPTTPEIAERLRISEDE 249 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V+S C AG +++ ++Q D + + D G E + E ++ L R Sbjct: 250 VLS--CIEAGRS-----YHATSLEAAQEGDGMPGLLDRLGYEDPELAGVEHRD----LVR 298 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + V P RE+RI R N +T +S+E VS+ V ++ AR+F +++ + Sbjct: 299 HLLVQLPEREQRILLLRYY--NNLTQSQISAELGVSQMHVSRLLARSFARLRSA 350 >gi|220932606|ref|YP_002509514.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Halothermothrix orenii H 168] gi|219993916|gb|ACL70519.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Halothermothrix orenii H 168] Length = 209 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 31/102 (30%), Positives = 62/102 (60%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 ++ Y+ ++ KI +LE +EE L +Y+++ D A RL+TS+ LV KI Y + Sbjct: 2 INDYLKQLGKIKILEAEEEKELWIKYKDYNDTEARQRLITSYQPLVFKIVRQYARDNEVV 61 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++ EG +GL+ A+ +D +RG ++Y++++I+ + Y+ Sbjct: 62 MDLIQEGTLGLIDAIDSYDHKRGKSFSSYALYYIRGRVINYL 103 >gi|75764482|ref|ZP_00743967.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74488029|gb|EAO51760.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 260 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 67/267 (25%), Positives = 128/267 (47%), Gaps = 28/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + ++ + L + L Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRFCAFLGRYAL---INXL 127 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 128 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 177 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 178 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 232 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 233 AEEIGISQAQVSRLEKSAIKQMNKTIQ 259 >gi|75764483|ref|ZP_00743968.1| RNA polymerase sigma-E factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74488030|gb|EAO51761.1| RNA polymerase sigma-E factor [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 224 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 113/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 22 PPLTKEEEEVLLNKL-PKGDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 80 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 81 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 113 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 114 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 144 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 145 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 200 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 201 SQSYISRLEKRIIKRLRKEFNKMV 224 >gi|229157483|ref|ZP_04285560.1| RNA polymerase sigma-35 factor [Bacillus cereus ATCC 4342] gi|228625933|gb|EEK82683.1| RNA polymerase sigma-35 factor [Bacillus cereus ATCC 4342] Length = 223 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 113/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 21 PPLTKEEEEVLLNKL-PKGDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 79 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 80 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 112 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 113 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 143 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 144 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 199 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 200 SQSYISRLEKRIIKRLRKEFNKMV 223 >gi|297588048|ref|ZP_06946692.1| RNA polymerase general stress sigma factor(sigma B) [Finegoldia magna ATCC 53516] gi|297574737|gb|EFH93457.1| RNA polymerase general stress sigma factor(sigma B) [Finegoldia magna ATCC 53516] Length = 258 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 59/254 (23%), Positives = 119/254 (46%), Gaps = 18/254 (7%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +++E D LV +L + +A Y G G+ ++ IGL+ A+ ++DP +G+ Sbjct: 20 KFQETRDKKTRDTLVEKNLYIAEILAKKYTGRGIEYDDLYQVACIGLIYAIDRYDPSKGY 79 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++Y+ I +++Y ++++ + L + K HL K V Sbjct: 80 EFSSYATPTIVGEIKKYFRDKGWVIRVPRRIQE--LNKKVANAKIHLAQTMQ---KSPTV 134 Query: 160 VAIAKKLNVSESEVISM--NCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLI 216 IA L++S EV+ + ++ +SL+ I+ SSD + D + G+E + Sbjct: 135 EDIADYLSISNEEVLEVLEGAKVYAPQSLDQSIDQSSDDRDTNLSDLI-----GEEDKDM 189 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 K E R+++ R M LN E++I R + + ++ E ++S+ V ++E + Sbjct: 190 LKFE---NRDLINRCMEDLNEVEKKILLGRYFDKKTQIV--IAEELDISQMTVSRMEKKI 244 Query: 277 FKKVQESIQKQVEL 290 KK + S+++Q+E Sbjct: 245 LKKFKASLKEQLEF 258 >gi|295696452|ref|YP_003589690.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] gi|295412054|gb|ADG06546.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] Length = 261 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 67/277 (24%), Positives = 126/277 (45%), Gaps = 45/277 (16%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L E L + + GDLSA RL+ +LRLV+ + + G + ++ G I Sbjct: 15 QLPVLTNAEMRKLFAEF-QAGDLSARERLIHGNLRLVLSVIQRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 74 GLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 129 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +T+ L+ + I+++LN+ + +V+ +L+A+ + Sbjct: 130 --------DQLTNERLREPTITEISEQLNLPKEDVVF---------ALDAIQDPVSLFEP 172 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRN--------MLTRSMSVLNPRERRIFEARRLQE 250 + HDG + + + + R +R L +M+ L RE++I A R E Sbjct: 173 IY-------HDGGDPIYVMDQIRDDRNQDVLWVEEIALREAMNKLGQREQKIL-AMRFFE 224 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E ++ E +S+ +V ++E A + +Q+ I+ Q Sbjct: 225 GKTQME-VAEEIGISQAQVSRLEKSAIQHMQKFIKIQ 260 >gi|23098930|ref|NP_692396.1| sporulation sigma factor SigE [Oceanobacillus iheyensis HTE831] gi|22777158|dbj|BAC13431.1| stage II sporulation protein GB (RNA polymerase sporulation-specific sigma E factor) [Oceanobacillus iheyensis HTE831] Length = 239 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 71/270 (26%), Positives = 115/270 (42%), Gaps = 75/270 (27%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L KQEE L R GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKQEEQELLIRL-PKGDKAARAMLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMY----------------------LRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW--- 203 +N LK E ++ DE LN DW Sbjct: 129 ----NNKLKSE----------------------VSFDEPLNI-------------DWDGN 149 Query: 204 --LVYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENL 258 L+ D G E+ +I K E + +L ++ LN RE++I E R + E T +++ Sbjct: 150 ELLLSDVMGTEEDIITKNLESTVDKTLLKSALEKLNAREKQIMELRFGLIGEEEKTQKDV 209 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + +S+ + ++E + +++++ K V Sbjct: 210 ADMLGISQSYISRLEKKIIRRLKKEFNKMV 239 >gi|331269712|ref|YP_004396204.1| FliA/WhiG family RNA polymerase sigma 28 subunit [Clostridium botulinum BKT015925] gi|329126262|gb|AEB76207.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium botulinum BKT015925] Length = 249 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + R GD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 47 PPLSKEEEENLVAKIR-AGDDSVRTILIERNLRLVVYIARKFENSGVLVEDLISVGTIGL 105 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 106 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 139 >gi|258511273|ref|YP_003184707.1| sporulation sigma factor SigE [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257477999|gb|ACV58318.1| RNA polymerase, sigma 28 subunit, SigE [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 249 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 39/97 (40%), Positives = 56/97 (57%), Gaps = 1/97 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L +R GD S L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 47 PPLTKEEEQYLLERL-PSGDPSVRSMLIERNLRLVVYIARKFENTGVNIEDLVSIGTIGL 105 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 ++AV FDP + +LATY+ I+ + Y+ R+ L Sbjct: 106 IKAVNTFDPSKKIKLATYASRCIENEILMYLRRNNKL 142 >gi|328884955|emb|CCA58194.1| RNA polymerase sigma factor [Streptomyces venezuelae ATCC 10712] Length = 344 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 64/235 (27%), Positives = 108/235 (45%), Gaps = 19/235 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 123 QLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVVG 182 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + + W+ V++ + RL L ++ + + V +A++L +SE Sbjct: 183 EIKRHFRDKGWA-VRVPRRLQELRL-----SLTTATAELSQQHGRSPTVHELAERLGISE 236 Query: 171 SEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV L G ES NA S D + + V D G E +E E R L Sbjct: 237 EEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLK 287 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR ++E + Sbjct: 288 PLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLASLREKL 340 >gi|312281919|dbj|BAJ33825.1| unnamed protein product [Thellungiella halophila] Length = 562 Score = 64.3 bits (155), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 57/234 (24%), Positives = 113/234 (48%), Gaps = 15/234 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S LV+ ++ YRG G+ +++ GN+G++Q ++FD RG++ +TY +WI+ + Sbjct: 327 LLKSTRSLVLFLSRNYRGLGIAHEDLIQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 386 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + R V I ++ R +++ + L+ T + +K I+K+ S + Sbjct: 387 MSMMVSRHARGVYIPSSV--IRTMSQIQKARKTLK--TSHGIKYPADEEISKETGYSLKK 442 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQW--QDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 + + N L ++ S DK +L + D + E R++ + Sbjct: 443 IRAANQCL-------KVVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSAWRDVHD 495 Query: 231 SMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L PRE+++ R + P +LE + +VS+E +R+IE RA K+++ Sbjct: 496 LLQGLEPREKQVMVLRYGLQGFRPKSLEEIGKLLKVSKEWIRKIERRAMAKLRD 549 >gi|89099620|ref|ZP_01172495.1| sporulation sigma factor SigE [Bacillus sp. NRRL B-14911] gi|89085773|gb|EAR64899.1| sporulation sigma factor SigE [Bacillus sp. NRRL B-14911] Length = 239 Score = 63.9 bits (154), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 57/94 (60%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKEEEEVLLIKL-PKGDKAARSMLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|311068053|ref|YP_003972976.1| sporulation sigma factor SigE [Bacillus atrophaeus 1942] gi|310868570|gb|ADP32045.1| sporulation sigma factor SigE [Bacillus atrophaeus 1942] Length = 239 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 68/264 (25%), Positives = 112/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKDEEQVLLLKL-PSGDQAARAILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN-------------------------- 129 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N SEV + DE LN D N D L Sbjct: 130 --------------------NKIRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E + +L +++ LN RE++I E R + E T ++++ + Sbjct: 160 DDD----IITKDIEANVDKKLLKKALEQLNDREKQIMELRFGLVGEEEKTQKDVADMMGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|282861039|ref|ZP_06270104.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282563697|gb|EFB69234.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 323 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 105/234 (44%), Gaps = 17/234 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 102 RLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 161 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + RL + ++ + V +A++L +SE Sbjct: 162 EIKRHFRDKGWAVRVPRRLQELRLSLTTATAE-----LSQQYGRSPTVHELAERLGISEE 216 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 217 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGSEDEALEGVE---YRESLKP 267 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 268 LLEGLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRERL 319 >gi|55274889|gb|AAV49247.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 180 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 30/61 (49%), Positives = 41/61 (67%), Gaps = 8/61 (13%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLVVKIA Y GL + +GL++AV+KFDPERGFR +TY+ WWI+ ++ I Sbjct: 1 LRLVVKIARRYGNRGLAL--------LGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 52 Query: 118 L 118 + Sbjct: 53 M 53 >gi|253576138|ref|ZP_04853470.1| RNA polymerase sigma-E factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251844481|gb|EES72497.1| RNA polymerase sigma-E factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 240 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 57/94 (60%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EEY+L + GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PLTREEEEYLLQRL--PSGDSAIRAMLIERNLRLVVYIARKFENTGINIEDLVSIGAIGL 96 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 97 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 130 >gi|290959143|ref|YP_003490325.1| SigF-like sigma factor [Streptomyces scabiei 87.22] gi|260648669|emb|CBG71782.1| SigF-like sigma factor [Streptomyces scabiei 87.22] Length = 287 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 65/250 (26%), Positives = 119/250 (47%), Gaps = 23/250 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 LA EH + A L+ ++L LV A +R P+ +VV G IGL+ A+ +FDP+ Sbjct: 53 LAPGTPEHNRVRGA--LIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPD 110 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 RG + T++M + ++ Y + V + +RL ++ + +T + Sbjct: 111 RGVQFPTFAMPTVIGEIKRYFRDNVRTVHV-----PRRLHELWVQVNSATEDLTTAFGRT 165 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQV 214 IA++L ++E EV+S C AG +++ ++Q D + + D G E Sbjct: 166 PSTAEIAERLRITEEEVLS--CIEAGRS-----YHATSLEAAQEGDGMPGLLDRLGYEDP 218 Query: 215 LIEKEERKNRRNMLTRSMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 ++ E ++ L R + V P RE+RI R +T +S+E VS+ V ++ Sbjct: 219 ELDGVEHRD----LVRHLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLL 272 Query: 274 ARAFKKVQES 283 AR+F +++ + Sbjct: 273 ARSFARLRSA 282 >gi|229019107|ref|ZP_04175942.1| RNA polymerase sigma-35 factor [Bacillus cereus AH1273] gi|229025351|ref|ZP_04181769.1| RNA polymerase sigma-35 factor [Bacillus cereus AH1272] gi|228735936|gb|EEL86513.1| RNA polymerase sigma-35 factor [Bacillus cereus AH1272] gi|228742207|gb|EEL92372.1| RNA polymerase sigma-35 factor [Bacillus cereus AH1273] Length = 232 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 30 PPLTKEEEEVLLNKLPK-GDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 88 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 89 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 121 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 122 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 152 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 153 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 208 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 209 SQSYISRLEKRIIKRLRKEFNKMV 232 >gi|299535876|ref|ZP_07049196.1| RNA polymerase sigma-35 factor precursor [Lysinibacillus fusiformis ZC1] gi|298728628|gb|EFI69183.1| RNA polymerase sigma-35 factor precursor [Lysinibacillus fusiformis ZC1] Length = 206 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 61/265 (23%), Positives = 117/265 (44%), Gaps = 64/265 (24%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ ++E V+A +GDL A L+ +LRLVV IA + G PI +++S G+IG Sbjct: 3 VPLSREEEVTVIASFM--NGDLRARDTLIERNLRLVVYIARRFDNTGTPIEDLISIGSIG 60 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A++ F+ ++ +LATY+ I+ + + LR S R+KG Sbjct: 61 LIKAIETFNTDKNIKLATYASRCIENEILMH-LRKTS------------------RMKGE 101 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + DE LN+ +D N D L Sbjct: 102 VSL----------------------------------DEPLNS---DADGNELLLSDIL- 123 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFE 263 +E ++++ E+K R + ++++L RER I E R V T + ++ Sbjct: 124 ---GTEEHIILDNVEKKIERQHMFHAINLLGARERYIMECRFGLNGKVEMTQKEVADHLG 180 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 +S+ + ++E + + ++E++ + + Sbjct: 181 ISQSYISRLEKKIIQDLRENLNQPI 205 >gi|266620503|ref|ZP_06113438.1| RNA polymerase sigma-F factor [Clostridium hathewayi DSM 13479] gi|288867868|gb|EFD00167.1| RNA polymerase sigma-F factor [Clostridium hathewayi DSM 13479] Length = 237 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 62/241 (25%), Positives = 116/241 (48%), Gaps = 16/241 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A RLVT ++ L+ I + G G ++ G+IGLM+A+ KFD + +T Sbjct: 13 EGDKEARDRLVTENMGLIWSIVRRFTGRGYDPEDLFQIGSIGLMKAIDKFDMSFDVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + LR ++K+ + + R+K +A+ + + IA Sbjct: 73 YAVPMITGEIKRF-LRDDGMIKVSRSIKEMGT-----RVKCVREALGFTLGREPTIEEIA 126 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +L S+ EV + A ESL +N +D+NS D + + QE++L Sbjct: 127 GELGASKEEVAASIEAGAEVESLYRTVNKNDENSILLIDKIEEESSAQEELL-------- 178 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L ++ L+ ++R I RR N T ++S +S+ +V ++E + K+++E Sbjct: 179 NRMVLRELLTGLSDKDREII-IRRYYYNE-TQSQIASHLGISQVQVSRLEKKILKQMREK 236 Query: 284 I 284 + Sbjct: 237 L 237 >gi|332976340|gb|EGK13196.1| DNA-directed RNA polymerase sigma subunit SigG [Desmospora sp. 8437] Length = 259 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 68/266 (25%), Positives = 120/266 (45%), Gaps = 28/266 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L + +E GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRALFRSLQEEGDRSAREKLVNGNLRLVLSVIQRFNNRGENVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 75 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++T + + + I+++LNVS+ EV+ + SL I + Sbjct: 131 --------DSLTYRHSREPTIQEISEELNVSKEEVVFALDAIQDPVSLFEPIYQDGGDPI 182 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D L D + K+ L +M LN RE+ I + R E +E + Sbjct: 183 YVMDQLADDEN--------KDLHWVEEIALREAMGRLNDREKMIL-SMRFFEGKTQME-V 232 Query: 259 SSEFEVSRERVRQIEARAFKKVQESI 284 + E +S+ +V ++E A +++ + I Sbjct: 233 AEEIGISQAQVSRLEKAAIQQMNKYI 258 >gi|154685948|ref|YP_001421109.1| sporulation sigma factor SigE [Bacillus amyloliquefaciens FZB42] gi|154351799|gb|ABS73878.1| SigE [Bacillus amyloliquefaciens FZB42] Length = 239 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 68/264 (25%), Positives = 115/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKEEEQVLLLKL-PSGDQAARAILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMY----------------------LRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 +N ++ E ++ DE LN D N D L Sbjct: 129 ----NNKIRSE----------------------VSFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E + +L +++ LN RE++I E R + E T ++++ + Sbjct: 160 DDD----IITKDIEANVDKKLLKKALEQLNEREKQIMELRFGLVGEEEKTQKDVADMMGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|297202300|ref|ZP_06919697.1| RNA polymerase sigma-F factor [Streptomyces sviceus ATCC 29083] gi|297148082|gb|EDY54214.2| RNA polymerase sigma-F factor [Streptomyces sviceus ATCC 29083] Length = 381 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 110/236 (46%), Gaps = 19/236 (8%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++LV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 159 NQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVV 218 Query: 111 AAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 ++ + + W+ V++ + RL + ++ + + V +A+KL +S Sbjct: 219 GEIKRHFRDKGWA-VRVPRRLQELRLSLTTATAE-----LSQQHGRSPTVHELAEKLAIS 272 Query: 170 ESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E EV L G ES NA S D + + V D G E +E E R L Sbjct: 273 EEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESL 323 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 324 KPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 377 >gi|167465670|ref|ZP_02330759.1| sporulation sigma factor SigE [Paenibacillus larvae subsp. larvae BRL-230010] Length = 196 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 36/88 (40%), Positives = 53/88 (60%), Gaps = 2/88 (2%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 EEY+L K GD + L+ +LRLVV IA + G+ I ++VS G IGL++AV Sbjct: 1 EEYLLGKL--PSGDAAIRAMLIERNLRLVVYIARKFENTGINIEDLVSIGAIGLIKAVNT 58 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRS 120 FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 59 FDPEKKIKLATYASRCIENEILMYLRRN 86 >gi|239623450|ref|ZP_04666481.1| RNA polymerase [Clostridiales bacterium 1_7_47_FAA] gi|239521481|gb|EEQ61347.1| RNA polymerase [Clostridiales bacterium 1_7_47FAA] Length = 246 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 64/262 (24%), Positives = 118/262 (45%), Gaps = 64/262 (24%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE +EE + D A L+ +LRLVV IA + + + +++S G IGL Sbjct: 41 PPLESEEESRMIGLLGGEDDKGARSTLIEHNLRLVVYIAKKFDNTSVGVEDLISIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A+ F P++ +LATY+ I+ + Y+ R+ N+ RL Sbjct: 101 IKAINTFKPDKNIKLATYASRCIENEILMYLRRN----------NKTRL----------- 139 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 V+I + LNV G+E L + I +D++ ++Y Sbjct: 140 ------------EVSIDEPLNVD----------WDGNELLLSDILGTDED-------VIY 170 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN----PVTLENLSSEF 262 HD ++++ +N+L ++S LNPRER+I E R N +T + ++ Sbjct: 171 -HDIEDEI---------EKNLLNNAISRLNPRERKIVELRYGLTNEDGEEMTQKEVADLL 220 Query: 263 EVSRERVRQIEARAFKKVQESI 284 +S+ + ++E + K++++ I Sbjct: 221 GISQSYISRLEKKIMKRLKKEI 242 >gi|229086468|ref|ZP_04218640.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-44] gi|228696785|gb|EEL49598.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-44] Length = 259 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 67/263 (25%), Positives = 124/263 (47%), Gaps = 21/263 (7%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ + SL I + + D Sbjct: 127 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGGDPIFVMD 185 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 L D EQ + E L M LN RE+ I R Q T ++ E Sbjct: 186 QLSDDKQRDEQWVEEL--------ALKEGMKRLNDREKMIIRKRFFQGK--TQMEVAEEI 235 Query: 263 EVSRERVRQIEARAFKKVQESIQ 285 +S+ +V ++E A K++ ++IQ Sbjct: 236 GISQAQVSRLEKSAIKQMNKTIQ 258 >gi|118418349|gb|ABK86768.1| RNA polymerase, sigma 29 subunit, SigE [Bacillus thuringiensis str. Al Hakam] Length = 248 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 113/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 46 PPLTKEEEEVLLNKL-PKGDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 104 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 105 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 137 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 138 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 168 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 169 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 224 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 225 SQSYISRLEKRIIKRLRKEFNKMV 248 >gi|21104384|dbj|BAB93462.1| rpoS like gene [Variovorax sp. WFF52] Length = 47 Score = 63.9 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 26/46 (56%), Positives = 35/46 (76%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 LVV IA Y G+P S+++ EGN+GLM A+ KF+PERGFR +TY+ Sbjct: 1 LVVNIAKAYLNRGVPFSDLIEEGNLGLMHAITKFEPERGFRFSTYA 46 >gi|297580650|ref|ZP_06942576.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC385] gi|297535066|gb|EFH73901.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC385] Length = 477 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 29/69 (42%), Positives = 43/69 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V ++L LV+ IA Y GL +++ EGNIGLM+AV K + RG+ +TY+ WW Sbjct: 404 ANKEMVEANLPLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKSEYRRGYNFSTYATWW 463 Query: 109 IKAAMQEYI 117 I+ A+ I Sbjct: 464 IRQAITRSI 472 >gi|313901496|ref|ZP_07834946.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter subterraneus DSM 13965] gi|313468234|gb|EFR63698.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter subterraneus DSM 13965] Length = 258 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 67/258 (25%), Positives = 118/258 (45%), Gaps = 20/258 (7%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIG 85 ++QE L +RYR D + L+ HL LV +A G LP + +++S G G Sbjct: 7 QRQERAELWRRYRTAADPESWEALIREHLPLVRYLA-GRLVVHLPPQVELDDLISYGIFG 65 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+A+K++DP RG + TY+ I+ AM + LR+ V G + + RRL+ Sbjct: 66 LMEAIKRYDPSRGVKFETYAYTRIRGAMLDG-LRAMDWVPQGLRRRAREVEACYRRLENR 124 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDW 203 L +P + +A +L ++ E + LA SL+ ++ S + + D Sbjct: 125 LG-------RPAEDAEVAAELGLTPDEFGELLKDLARTTVISLDDVLRSESDDPAAVLDR 177 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 L D + + R L ++++VL RER + + +T++ ++ Sbjct: 178 LA---DPGAADPLAAATLADLRQRLAQALAVLPERERLVITLYYYEG--LTVKEIAEVMG 232 Query: 264 VSRERVRQIEARAFKKVQ 281 VS RV Q+ RA +++ Sbjct: 233 VSPSRVSQLHTRAILRLR 250 >gi|34733392|gb|AAP82769.1| sigma 70 [Hydrogenobacter hydrogenophilus] Length = 310 Score = 63.9 bits (154), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 29/61 (47%), Positives = 41/61 (67%), Gaps = 1/61 (1%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +V +LRLVV IA Y GL +++ EGNIGLM+AV K+D +G++ +TY+ WW Sbjct: 251 AKQVMVKCNLRLVVSIA-KYVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWW 309 Query: 109 I 109 I Sbjct: 310 I 310 >gi|323099956|gb|ADX23556.1| RNA polymerase sigma-G factor [Bacillus mycoides] Length = 292 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 128/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 48 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 104 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 105 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 159 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 160 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 209 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 210 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 264 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 265 AEEIGISQAQVSRLEKSAIKQMNKTIQ 291 >gi|167641125|ref|ZP_02399380.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0193] gi|167510905|gb|EDR86296.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0193] Length = 239 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 113/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEVLLNKL-PKGDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 129 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 160 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKKFNKMV 239 >gi|301055395|ref|YP_003793606.1| sporulation sigma factor SigE [Bacillus anthracis CI] gi|300377564|gb|ADK06468.1| sporulation sigma factor SigE [Bacillus cereus biovar anthracis str. CI] Length = 238 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 36 PPLTKEEEEVLLNKLPK-GDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 94 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 95 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 127 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 128 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 158 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 159 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 214 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 215 SQSYISRLEKRIIKRLRKEFNKMV 238 >gi|228973923|ref|ZP_04134498.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980512|ref|ZP_04140822.1| RNA polymerase sigma-G factor [Bacillus thuringiensis Bt407] gi|228779332|gb|EEM27589.1| RNA polymerase sigma-G factor [Bacillus thuringiensis Bt407] gi|228785789|gb|EEM33793.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar thuringiensis str. T01001] Length = 289 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 128/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 45 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 101 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 102 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 156 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 157 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 206 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 207 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 261 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 262 AEEIGISQAQVSRLEKSAIKQMNKTIQ 288 >gi|224553590|gb|ACN55033.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 37/47 (78%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 GL + +++ EGN+GL++AV+KFDPERGF +TY+ WWI+ ++ I+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFCFSTYATWWIRQTIERAIM 47 >gi|299473209|emb|CBN78785.1| RNA polymerase [Ectocarpus siliculosus] Length = 627 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 31/75 (41%), Positives = 51/75 (68%), Gaps = 7/75 (9%) Query: 42 REHGDLSAA-HRLVTSHLRLVVKIA--MGYRGYG----LPISEVVSEGNIGLMQAVKKFD 94 RE G + AA R+++ +LRLVV IA Y+G + + +++ +G GL++AV++FD Sbjct: 227 REIGIMKAARDRMISCNLRLVVHIARRKFYKGASGTLKVSLEDMIQDGTAGLVKAVERFD 286 Query: 95 PERGFRLATYSMWWI 109 PE+GFR +TY+ WW+ Sbjct: 287 PEKGFRFSTYATWWV 301 >gi|260886518|ref|ZP_05897781.1| RNA polymerase sigma-70 factor [Selenomonas sputigena ATCC 35185] gi|330839639|ref|YP_004414219.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Selenomonas sputigena ATCC 35185] gi|260863661|gb|EEX78161.1| RNA polymerase sigma-70 factor [Selenomonas sputigena ATCC 35185] gi|329747403|gb|AEC00760.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Selenomonas sputigena ATCC 35185] Length = 208 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 50/186 (26%), Positives = 85/186 (45%), Gaps = 29/186 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ E+ K+ +L +EE L + ++E G+ +A RL+ S+ LV K A+ +R I Sbjct: 3 LEEYLQELEKVELLAPEEEQSLWQAFKERGERAARQRLIESYQPLVFKTALPWR-MSESI 61 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR---------------- 119 +++ EG +GL++A + FD +RG + +++ I+ M ++ + Sbjct: 62 MDIIQEGTVGLIEAAENFDWKRGVAFSLFAVHRIRGRMLNFLQKEGSRDVTCMDAPRADG 121 Query: 120 --SWSLVKIGT--TANQKRLFFNLRRLKGHLQAITDNN--------LKPEQVVAIAKKLN 167 W L+ T A Q L F R L L + LK E + IA L+ Sbjct: 122 RAPWELLPDTTPSVAEQAELGFMTRELHRALARLPQKERVVLESVYLKSETIPKIADVLD 181 Query: 168 VSESEV 173 VS S + Sbjct: 182 VSASHI 187 >gi|258511274|ref|YP_003184708.1| RNA polymerase, sigma 28 subunit, SigG [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478000|gb|ACV58319.1| RNA polymerase, sigma 28 subunit, SigG [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 259 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 69/275 (25%), Positives = 126/275 (45%), Gaps = 45/275 (16%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L + L ++ R GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 QLPVLTNAQMRELFEQLRA-GDPSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + R +TY++ I ++ Y I S SL I A Q R Sbjct: 74 GLMKAIDNFDLNQNVRFSTYAVPMIVGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 129 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + NL+ +V IA ++N+ + EV+ +L+A+ + S Sbjct: 130 --------DMLASKNLREPSIVEIANEMNLPKEEVVF---------ALDAIQDP----VS 168 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRN--------MLTRSMSVLNPRERRIFEARRLQE 250 ++ +Y HDG + + + + R L +M L+ RE++I A+R E Sbjct: 169 MFEP--IY-HDGGDPIYVMDQIHDEREKDSAWVEGIALREAMRKLSDREKKIL-AKRFYE 224 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +E ++ E +S+ +V ++E A ++ + IQ Sbjct: 225 GKTQME-VADEIGISQAQVSRLEKAAIHRMYKHIQ 258 >gi|51892359|ref|YP_075050.1| sporulation sigma factor SigE [Symbiobacterium thermophilum IAM 14863] gi|51856048|dbj|BAD40206.1| RNA polymerase sigma factor similar to B. subtilis SigE [Symbiobacterium thermophilum IAM 14863] Length = 251 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +EE L +R GD S + L+ +LRLVV IA + G+ + ++VS G IGL Sbjct: 49 PPLTGEEEAALLQRL-TQGDESVKNTLIERNLRLVVYIARKFDNTGIWVEDLVSIGTIGL 107 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AVK FDP + +LATY+ I+ + Y+ R+ Sbjct: 108 IKAVKTFDPSKRIKLATYASKCIENEILMYLRRA 141 >gi|30021993|ref|NP_833624.1| sporulation sigma factor SigE [Bacillus cereus ATCC 14579] gi|30263906|ref|NP_846283.1| sporulation sigma factor SigE [Bacillus anthracis str. Ames] gi|42782997|ref|NP_980244.1| sporulation sigma factor SigE [Bacillus cereus ATCC 10987] gi|47529336|ref|YP_020685.1| sporulation sigma factor SigE [Bacillus anthracis str. 'Ames Ancestor'] gi|49186754|ref|YP_030006.1| sporulation sigma factor SigE [Bacillus anthracis str. Sterne] gi|49478442|ref|YP_037966.1| sporulation sigma factor SigE [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141583|ref|YP_085245.1| sporulation sigma factor SigE [Bacillus cereus E33L] gi|162382776|ref|YP_896275.2| sporulation sigma factor SigE [Bacillus thuringiensis str. Al Hakam] gi|165872323|ref|ZP_02216960.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0488] gi|167636583|ref|ZP_02394877.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0442] gi|170688850|ref|ZP_02880053.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0465] gi|170708793|ref|ZP_02899229.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0389] gi|177654897|ref|ZP_02936614.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0174] gi|190566146|ref|ZP_03019065.1| RNA polymerase sigma-29 factor [Bacillus anthracis Tsiankovskii-I] gi|196035954|ref|ZP_03103356.1| RNA polymerase sigma-29 factor [Bacillus cereus W] gi|196038626|ref|ZP_03105934.1| RNA polymerase sigma-29 factor [Bacillus cereus NVH0597-99] gi|196045866|ref|ZP_03113095.1| RNA polymerase sigma-29 factor [Bacillus cereus 03BB108] gi|206971306|ref|ZP_03232257.1| RNA polymerase sigma-29 factor [Bacillus cereus AH1134] gi|206976716|ref|ZP_03237620.1| RNA polymerase sigma-29 factor [Bacillus cereus H3081.97] gi|217961326|ref|YP_002339894.1| sporulation sigma factor SigE [Bacillus cereus AH187] gi|218234749|ref|YP_002368704.1| sporulation sigma factor SigE [Bacillus cereus B4264] gi|218899058|ref|YP_002447469.1| RNA polymerase sigma-29 factor [Bacillus cereus G9842] gi|218905035|ref|YP_002452869.1| RNA polymerase sigma-29 factor [Bacillus cereus AH820] gi|222097350|ref|YP_002531407.1| sporulation sigma factor sige [Bacillus cereus Q1] gi|225865886|ref|YP_002751264.1| RNA polymerase sigma-29 factor [Bacillus cereus 03BB102] gi|227813186|ref|YP_002813195.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. CDC 684] gi|228902410|ref|ZP_04066564.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis IBL 4222] gi|228909730|ref|ZP_04073553.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis IBL 200] gi|228916542|ref|ZP_04080108.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228922657|ref|ZP_04085957.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228928953|ref|ZP_04091985.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935220|ref|ZP_04098046.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228940993|ref|ZP_04103551.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228947624|ref|ZP_04109914.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228954181|ref|ZP_04116209.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960122|ref|ZP_04121786.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228966858|ref|ZP_04127902.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228973924|ref|ZP_04134499.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980513|ref|ZP_04140823.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis Bt407] gi|228987049|ref|ZP_04147174.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229047589|ref|ZP_04193179.1| RNA polymerase sigma-35 factor [Bacillus cereus AH676] gi|229071404|ref|ZP_04204626.1| RNA polymerase sigma-35 factor [Bacillus cereus F65185] gi|229081157|ref|ZP_04213667.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock4-2] gi|229092951|ref|ZP_04224084.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-42] gi|229111374|ref|ZP_04240927.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock1-15] gi|229123418|ref|ZP_04252622.1| RNA polymerase sigma-35 factor [Bacillus cereus 95/8201] gi|229129182|ref|ZP_04258155.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-Cer4] gi|229140553|ref|ZP_04269108.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-ST26] gi|229146476|ref|ZP_04274847.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-ST24] gi|229152102|ref|ZP_04280297.1| RNA polymerase sigma-35 factor [Bacillus cereus m1550] gi|229180180|ref|ZP_04307524.1| RNA polymerase sigma-35 factor [Bacillus cereus 172560W] gi|229186145|ref|ZP_04313314.1| RNA polymerase sigma-35 factor [Bacillus cereus BGSC 6E1] gi|229192074|ref|ZP_04319043.1| RNA polymerase sigma-35 factor [Bacillus cereus ATCC 10876] gi|229198016|ref|ZP_04324730.1| RNA polymerase sigma-35 factor [Bacillus cereus m1293] gi|229601447|ref|YP_002868140.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0248] gi|254683386|ref|ZP_05147246.1| sporulation sigma factor SigE [Bacillus anthracis str. CNEVA-9066] gi|254721438|ref|ZP_05183227.1| sporulation sigma factor SigE [Bacillus anthracis str. A1055] gi|254735943|ref|ZP_05193649.1| sporulation sigma factor SigE [Bacillus anthracis str. Western North America USA6153] gi|254739808|ref|ZP_05197501.1| sporulation sigma factor SigE [Bacillus anthracis str. Kruger B] gi|254750998|ref|ZP_05203037.1| sporulation sigma factor SigE [Bacillus anthracis str. Vollum] gi|254757944|ref|ZP_05209971.1| sporulation sigma factor SigE [Bacillus anthracis str. Australia 94] gi|296504398|ref|YP_003666098.1| sporulation sigma factor SigE [Bacillus thuringiensis BMB171] gi|49065841|sp|P62177|RP35_BACAN RecName: Full=RNA polymerase sigma-35 factor; Flags: Precursor gi|49065842|sp|P62178|RP35_BACCR RecName: Full=RNA polymerase sigma-35 factor; Flags: Precursor gi|49065843|sp|P62179|RP35_BACTK RecName: Full=RNA polymerase sigma-35 factor; Flags: Precursor gi|40335|emb|CAA40026.1| sigma factor 35 [Bacillus thuringiensis serovar kurstaki] gi|19918914|gb|AAL99378.1| sigma factor 35 [Bacillus thuringiensis serovar israelensis] gi|29897549|gb|AAP10825.1| RNA polymerase sigma-E factor [Bacillus cereus ATCC 14579] gi|30258550|gb|AAP27769.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. Ames] gi|42738924|gb|AAS42852.1| RNA polymerase sigma-29 factor [Bacillus cereus ATCC 10987] gi|47504484|gb|AAT33160.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. 'Ames Ancestor'] gi|49180681|gb|AAT56057.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. Sterne] gi|49329998|gb|AAT60644.1| RNA polymerase sporulation-specific sigma E factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51975052|gb|AAU16602.1| RNA polymerase sporulation-specific sigma E factor [Bacillus cereus E33L] gi|164711999|gb|EDR17539.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0488] gi|165973128|gb|ABY76243.1| sigma factor [Bacillus thuringiensis] gi|167528006|gb|EDR90812.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0442] gi|170126278|gb|EDS95169.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0389] gi|170667205|gb|EDT17965.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0465] gi|172080408|gb|EDT65495.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0174] gi|190563065|gb|EDV17031.1| RNA polymerase sigma-29 factor [Bacillus anthracis Tsiankovskii-I] gi|195991603|gb|EDX55569.1| RNA polymerase sigma-29 factor [Bacillus cereus W] gi|196023306|gb|EDX61984.1| RNA polymerase sigma-29 factor [Bacillus cereus 03BB108] gi|196030349|gb|EDX68948.1| RNA polymerase sigma-29 factor [Bacillus cereus NVH0597-99] gi|206734078|gb|EDZ51249.1| RNA polymerase sigma-29 factor [Bacillus cereus AH1134] gi|206745026|gb|EDZ56429.1| RNA polymerase sigma-29 factor [Bacillus cereus H3081.97] gi|217065302|gb|ACJ79552.1| RNA polymerase sigma-29 factor [Bacillus cereus AH187] gi|218162706|gb|ACK62698.1| RNA polymerase sigma-29 factor [Bacillus cereus B4264] gi|218537297|gb|ACK89695.1| RNA polymerase sigma-29 factor [Bacillus cereus AH820] gi|218544009|gb|ACK96403.1| RNA polymerase sigma-29 factor [Bacillus cereus G9842] gi|221241408|gb|ACM14118.1| RNA polymerase sporulation-specific sigma E factor [Bacillus cereus Q1] gi|225791008|gb|ACO31225.1| RNA polymerase sigma-29 factor [Bacillus cereus 03BB102] gi|227003693|gb|ACP13436.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. CDC 684] gi|228585495|gb|EEK43599.1| RNA polymerase sigma-35 factor [Bacillus cereus m1293] gi|228591400|gb|EEK49250.1| RNA polymerase sigma-35 factor [Bacillus cereus ATCC 10876] gi|228597321|gb|EEK54972.1| RNA polymerase sigma-35 factor [Bacillus cereus BGSC 6E1] gi|228603389|gb|EEK60866.1| RNA polymerase sigma-35 factor [Bacillus cereus 172560W] gi|228631451|gb|EEK88085.1| RNA polymerase sigma-35 factor [Bacillus cereus m1550] gi|228637109|gb|EEK93568.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-ST24] gi|228643114|gb|EEK99390.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-ST26] gi|228654419|gb|EEL10284.1| RNA polymerase sigma-35 factor [Bacillus cereus BDRD-Cer4] gi|228660194|gb|EEL15830.1| RNA polymerase sigma-35 factor [Bacillus cereus 95/8201] gi|228672150|gb|EEL27441.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock1-15] gi|228690455|gb|EEL44239.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock3-42] gi|228702201|gb|EEL54677.1| RNA polymerase sigma-35 factor [Bacillus cereus Rock4-2] gi|228711695|gb|EEL63648.1| RNA polymerase sigma-35 factor [Bacillus cereus F65185] gi|228723836|gb|EEL75191.1| RNA polymerase sigma-35 factor [Bacillus cereus AH676] gi|228772643|gb|EEM21084.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228779333|gb|EEM27590.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis Bt407] gi|228785790|gb|EEM33794.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228792957|gb|EEM40515.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228799638|gb|EEM46591.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228805501|gb|EEM52092.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228812144|gb|EEM58475.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228818672|gb|EEM64739.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228824385|gb|EEM70191.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830760|gb|EEM76365.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228837086|gb|EEM82427.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228843121|gb|EEM88203.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228850019|gb|EEM94850.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis IBL 200] gi|228857154|gb|EEN01660.1| RNA polymerase sigma-35 factor [Bacillus thuringiensis IBL 4222] gi|229265855|gb|ACQ47492.1| RNA polymerase sigma-29 factor [Bacillus anthracis str. A0248] gi|296325450|gb|ADH08378.1| sporulation sigma factor SigE [Bacillus thuringiensis BMB171] gi|308154178|gb|ADA55132.3| sporulation specific sigma factor E [Bacillus thuringiensis serovar aizawai] gi|308154180|gb|ADA55133.2| sporulation specific sigma factor E [Bacillus thuringiensis serovar aizawai] gi|324327803|gb|ADY23063.1| sporulation sigma factor SigE [Bacillus thuringiensis serovar finitimus YBT-020] gi|326941674|gb|AEA17570.1| sporulation sigma factor SigE [Bacillus thuringiensis serovar chinensis CT-43] Length = 239 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEVLLNKLPK-GDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 129 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 160 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|317132580|ref|YP_004091894.1| RNA polymerase, sigma 28 subunit, SigE [Ethanoligenens harbinense YUAN-3] gi|315470559|gb|ADU27163.1| RNA polymerase, sigma 28 subunit, SigE [Ethanoligenens harbinense YUAN-3] Length = 242 Score = 63.5 bits (153), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 35/92 (38%), Positives = 52/92 (56%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 YI+ +P E+ R E G+ A +RL+ +LRLVV IA + G+ + ++ Sbjct: 31 YINGPDTLPAPLGAEDEAACLRGLEAGEKDAKNRLIEHNLRLVVYIAKKFENTGVGVEDL 90 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 VS G IGL++AV F P RG +LATY+ I+ Sbjct: 91 VSIGTIGLIKAVNTFCPSRGIKLATYASRCIE 122 >gi|228992639|ref|ZP_04152565.1| RNA polymerase sigma-35 factor [Bacillus pseudomycoides DSM 12442] gi|228998685|ref|ZP_04158272.1| RNA polymerase sigma-35 factor [Bacillus mycoides Rock3-17] gi|229006188|ref|ZP_04163874.1| RNA polymerase sigma-35 factor [Bacillus mycoides Rock1-4] gi|228755029|gb|EEM04388.1| RNA polymerase sigma-35 factor [Bacillus mycoides Rock1-4] gi|228761153|gb|EEM10112.1| RNA polymerase sigma-35 factor [Bacillus mycoides Rock3-17] gi|228766971|gb|EEM15608.1| RNA polymerase sigma-35 factor [Bacillus pseudomycoides DSM 12442] Length = 239 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 113/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEVLLNKL-PKGDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 129 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 160 DDD----IITKDLEANVDRHLLKKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|323099955|gb|ADX23555.1| RNA polymerase sigma-35 factor [Bacillus mycoides] Length = 239 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEVLLNKLPK-GDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I + + +LRR Sbjct: 96 IKAVNTFNPEKKIKLATYASRCI----------------------ENEILMHLRR----- 128 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + SEV + DE LN D N D L Sbjct: 129 -------------------NNKNRSEV-------SFDEPLNI---DWDGNELLLSDVLGT 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ + E R++L +++ LN RE++I E R T ++++ + Sbjct: 160 DDD----IITKDLEATVDRHLLMKALHQLNDREKQIMELRFGLAGGEEKTQKDVADMLGI 215 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ K V Sbjct: 216 SQSYISRLEKRIIKRLRKEFNKMV 239 >gi|291547959|emb|CBL21067.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Ruminococcus sp. SR1/5] Length = 260 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 114/246 (46%), Gaps = 16/246 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD +A L + L+ +A + G G+ + ++ G+IGL++AV KFD + +T Sbjct: 13 QGDKAARDLLFEENTGLIYSVAKRFLGRGVEMEDLFQIGSIGLLKAVDKFDMSYDVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ Y LR ++K+ + + N R+ +A+T + +A Sbjct: 73 YAVPMIIGEIKRY-LRDDGILKVSRSLKE-----NHYRIYQVREALTRRLEREPTTGEMA 126 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +++ +S E++ A ESL+ I + D L + QE+VL Sbjct: 127 EEMGISIEELVMTMESGAEVESLHKTIYQGEGTEISLMDKLPEKENRQEKVL-------- 178 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R L + L +ERR+ R Q N +E ++ E VS+ +V ++E R + +QES Sbjct: 179 DRIFLEEILGTLEAKERRLIYMRYFQ-NMTQME-IAHELGVSQVQVSRMEKRILRSLQES 236 Query: 284 IQKQVE 289 +K E Sbjct: 237 AEKNKE 242 >gi|229075660|ref|ZP_04208642.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-18] gi|229098374|ref|ZP_04229319.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-29] gi|229117400|ref|ZP_04246776.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-3] gi|228666010|gb|EEL21476.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-3] gi|228684991|gb|EEL38924.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-29] gi|228707436|gb|EEL59627.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-18] Length = 289 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 128/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 45 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 101 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 102 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 156 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 157 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 206 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 207 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 261 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 262 AEEIGISQAQVSRLEKSAIKQMNKTIQ 288 >gi|30021992|ref|NP_833623.1| sporulation sigma factor SigG [Bacillus cereus ATCC 14579] gi|206971353|ref|ZP_03232304.1| RNA polymerase sigma-G factor [Bacillus cereus AH1134] gi|218899057|ref|YP_002447468.1| RNA polymerase sigma-G factor [Bacillus cereus G9842] gi|228902409|ref|ZP_04066563.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 4222] gi|228909729|ref|ZP_04073552.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 200] gi|228922656|ref|ZP_04085956.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228940992|ref|ZP_04103550.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228954180|ref|ZP_04116208.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960121|ref|ZP_04121785.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228966857|ref|ZP_04127901.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar sotto str. T04001] gi|229019106|ref|ZP_04175941.1| RNA polymerase sigma-G factor [Bacillus cereus AH1273] gi|229025350|ref|ZP_04181768.1| RNA polymerase sigma-G factor [Bacillus cereus AH1272] gi|229047588|ref|ZP_04193178.1| RNA polymerase sigma-G factor [Bacillus cereus AH676] gi|229071403|ref|ZP_04204625.1| RNA polymerase sigma-G factor [Bacillus cereus F65185] gi|229081156|ref|ZP_04213666.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-2] gi|229104466|ref|ZP_04235133.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-28] gi|229111373|ref|ZP_04240926.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-15] gi|229129181|ref|ZP_04258154.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-Cer4] gi|229146475|ref|ZP_04274846.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST24] gi|229162839|ref|ZP_04290796.1| RNA polymerase sigma-G factor [Bacillus cereus R309803] gi|229180179|ref|ZP_04307523.1| RNA polymerase sigma-G factor [Bacillus cereus 172560W] gi|229192073|ref|ZP_04319042.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 10876] gi|296504397|ref|YP_003666097.1| sporulation sigma factor SigG [Bacillus thuringiensis BMB171] gi|29897548|gb|AAP10824.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 14579] gi|206734125|gb|EDZ51296.1| RNA polymerase sigma-G factor [Bacillus cereus AH1134] gi|218543268|gb|ACK95662.1| RNA polymerase sigma-G factor [Bacillus cereus G9842] gi|228591399|gb|EEK49249.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 10876] gi|228603388|gb|EEK60865.1| RNA polymerase sigma-G factor [Bacillus cereus 172560W] gi|228620721|gb|EEK77590.1| RNA polymerase sigma-G factor [Bacillus cereus R309803] gi|228637108|gb|EEK93567.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST24] gi|228654418|gb|EEL10283.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-Cer4] gi|228672149|gb|EEL27440.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-15] gi|228678908|gb|EEL33118.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-28] gi|228702200|gb|EEL54676.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-2] gi|228711694|gb|EEL63647.1| RNA polymerase sigma-G factor [Bacillus cereus F65185] gi|228723835|gb|EEL75190.1| RNA polymerase sigma-G factor [Bacillus cereus AH676] gi|228735935|gb|EEL86512.1| RNA polymerase sigma-G factor [Bacillus cereus AH1272] gi|228742206|gb|EEL92371.1| RNA polymerase sigma-G factor [Bacillus cereus AH1273] gi|228792956|gb|EEM40514.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228799637|gb|EEM46590.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228805500|gb|EEM52091.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228818671|gb|EEM64738.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228837085|gb|EEM82426.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228850018|gb|EEM94849.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 200] gi|228857153|gb|EEN01659.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 4222] gi|296325449|gb|ADH08377.1| sporulation sigma factor SigG [Bacillus thuringiensis BMB171] gi|326941673|gb|AEA17569.1| sporulation sigma factor SigG [Bacillus thuringiensis serovar chinensis CT-43] Length = 259 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 128/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 127 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 176 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 177 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 232 AEEIGISQAQVSRLEKSAIKQMNKTIQ 258 >gi|327438872|dbj|BAK15237.1| DNA-directed RNA polymerase [Solibacillus silvestris StLB046] Length = 425 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 71/247 (28%), Positives = 118/247 (47%), Gaps = 40/247 (16%) Query: 53 LVTSHLRLVVKIAMGYRGY---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV ++ +LV KI Y G G +++ G IGL++A +KFD G++ +TY+ WWI Sbjct: 184 LVEANRKLVWKIVKHYSGLATVGFDENDMYQVGFIGLLKAAEKFDVSLGYQFSTYATWWI 243 Query: 110 KAAMQEYILRSWSLVKIGTTANQK---------RLFFNLRRLKGHLQAITDNNLKPEQVV 160 + A+ I +L++I +K L+ L R + I+ +P V+ Sbjct: 244 RQAITRGIADYSTLIRIPVHYREKMNKFIKIENELWNELARPATTFE-ISKEMEEPTNVI 302 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD----GQEQVLI 216 + +S+S + S++ RL GD D+N+S + LV D + +E I Sbjct: 303 E-ELRFYISQSNLDSLD-RLVGD----------DENTSLGE--LVLDDNLKMPDEEYYKI 348 Query: 217 EKEERKNRRNMLTRSM-SVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 E RN + S L RE ++ R +N TLE + + ++RER+RQIE Sbjct: 349 E------LRNTIGEIFQSNLTEREMQVLYYRFGFKNDETKTLEEVGQIYNLTRERIRQIE 402 Query: 274 ARAFKKV 280 A+A +K+ Sbjct: 403 AKALRKL 409 >gi|169827019|ref|YP_001697177.1| RNA polymerase sigma-35 factor [Lysinibacillus sphaericus C3-41] gi|168991507|gb|ACA39047.1| RNA polymerase sigma-35 factor precursor [Lysinibacillus sphaericus C3-41] Length = 204 Score = 63.5 bits (153), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 61/265 (23%), Positives = 117/265 (44%), Gaps = 64/265 (24%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ ++E V+A + GDL A L+ +LRLVV IA + G PI +++S G+IG Sbjct: 1 MPLSREEEVTVIASFMK--GDLRARDTLIERNLRLVVYIARRFDNTGTPIEDLISIGSIG 58 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A++ F+ ++ +LATY+ I+ + + LR S R+KG Sbjct: 59 LIKAIETFNTDKNIKLATYASRCIENEILMH-LRKTS------------------RMKGE 99 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + DE LN+ +D N D L Sbjct: 100 VSL----------------------------------DEPLNS---DADGNELLLSDIL- 121 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFE 263 +E ++++ E+K R + ++++L RER I E R V T + ++ Sbjct: 122 ---GTEEHIILDNVEKKIERQHMFHAINLLGARERYIMECRFGLNGKVEMTQKEVADHLG 178 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 +S+ + ++E + + ++E++ + + Sbjct: 179 ISQSYISRLEKKIIQDLRENLNQPI 203 >gi|308233741|ref|ZP_07664478.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Atopobium vaginae DSM 15829] gi|328943730|ref|ZP_08241195.1| DNA-directed RNA polymerase sigma subunit SigB [Atopobium vaginae DSM 15829] gi|327491699|gb|EGF23473.1| DNA-directed RNA polymerase sigma subunit SigB [Atopobium vaginae DSM 15829] Length = 286 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 60/261 (22%), Positives = 122/261 (46%), Gaps = 23/261 (8%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +KQ+ L KRY+E GD A +LV +HL L +A ++ G + ++V IGL++A Sbjct: 29 DKQKTKELFKRYKETGDEQAREQLVLAHLNLARFLASKFKNRGESLDDLVQVATIGLIKA 88 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 + +FD RG T++ I ++ + + WS+ R+ L+ L + Sbjct: 89 IDRFDISRGLEFTTFATPTIMGEIKRHFRDKGWSV----------RVPRRLQELSAKVTQ 138 Query: 149 ITDNNLKPEQ----VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 ++D + Q V IA+ L VS EV+ S++ + D + + Sbjct: 139 VSDKLTEKLQRSPSVDEIAQALGVSVDEVLEAMESAHAYSSVSLDVPQGDDDDGTQSSTV 198 Query: 205 VYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + + L++++ E + R +L +++ + RE++I R L+ T ++ + + Sbjct: 199 IDKY-----ALVDEDLESSDDRIVLEQAIKDFSEREQQIIRMRFLE--GFTQVEIAQKLQ 251 Query: 264 VSRERVRQIEARAFKKVQESI 284 +S+ +V ++ + +K QE + Sbjct: 252 ISQVQVSRLLRKTLQKFQEKL 272 >gi|169351193|ref|ZP_02868131.1| hypothetical protein CLOSPI_01972 [Clostridium spiroforme DSM 1552] gi|169292255|gb|EDS74388.1| hypothetical protein CLOSPI_01972 [Clostridium spiroforme DSM 1552] Length = 258 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 66/274 (24%), Positives = 125/274 (45%), Gaps = 27/274 (9%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N II+NG HE RK L +E Y L Y++ D +LV +++LV+ + Sbjct: 3 NYQIIING-------YHEPRK--KLTTKETYALIDEYQKTKDERIKEKLVNDNIKLVISM 53 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 + ++ G IGL++A++ F+ + +TY++ I M+ Y LR + Sbjct: 54 TKRFYNRSDGCDDLFQVGMIGLIKAIENFNTSYDLKFSTYAVPLIIGEMKRY-LRDNHQI 112 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLNVSESEVISMNCRLAGD 183 KI + K + + + ++K N + E + +AKKL++ +S ++ Sbjct: 113 KISRSL--KDIAYKILKIKDEYL----NKFQREPTIKELAKKLDIDQSVIVEALLSTNSV 166 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL + +SD NS + D L D + VL + N R L ++ L+ +E + Sbjct: 167 ASLQEEVKNSDGNSLKMIDSL---SDEKAGVL-----KTNERIDLYDALKSLSQKEHDVI 218 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + R + ++ ++ E +S+ +V +IE +A Sbjct: 219 KQRYFE--GLSQSEIAKELFISQAQVSRIEKKAL 250 >gi|160933251|ref|ZP_02080640.1| hypothetical protein CLOLEP_02097 [Clostridium leptum DSM 753] gi|156868325|gb|EDO61697.1| hypothetical protein CLOLEP_02097 [Clostridium leptum DSM 753] Length = 230 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 36/97 (37%), Positives = 58/97 (59%), Gaps = 1/97 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++EE + +R R G+ +A L+T +LRLVV IA + G + +++S G IGL Sbjct: 28 PPLSREEEDEVMERVR-RGEKNAREPLITHNLRLVVYIAKKFDSNGASVEDLISIGTIGL 86 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 ++AV F PER +LATY+ I+ + ++ +S L Sbjct: 87 IKAVNTFCPERNIKLATYASRCIENEILMFLRKSSQL 123 >gi|254389000|ref|ZP_05004231.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294814936|ref|ZP_06773579.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197702718|gb|EDY48530.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294327535|gb|EFG09178.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 358 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 107/240 (44%), Gaps = 27/240 (11%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++LV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 136 NQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVV 195 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + V++ + RL L +L G + + +A++ Sbjct: 196 GEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAER 245 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L +SE EV L G ES NA S D + + V D G E +E E Sbjct: 246 LGISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 296 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR ++++ + Sbjct: 297 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRDKL 354 >gi|290968733|ref|ZP_06560271.1| sigma-70 region 2 [Megasphaera genomosp. type_1 str. 28L] gi|290781386|gb|EFD93976.1| sigma-70 region 2 [Megasphaera genomosp. type_1 str. 28L] Length = 217 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 33/104 (31%), Positives = 61/104 (58%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ E++KI +L ++EE L + Y+E G++ A RL+ + LV K M + I Sbjct: 2 LTSYLEELKKITLLTREEEQTLWRAYKEQGNMQARARLIEQYQPLVFKEVMRLSMHSEWI 61 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + + EG +GL++AV+ F ++G + Y++ I+ + EY+ R Sbjct: 62 PDAIQEGTVGLIEAVEHFRIQQGVAFSLYAVHRIRGEILEYLRR 105 >gi|326443307|ref|ZP_08218041.1| sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 351 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 107/240 (44%), Gaps = 27/240 (11%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++LV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ + Sbjct: 129 NQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTVV 188 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + V++ + RL L +L G + + +A++ Sbjct: 189 GEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAER 238 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L +SE EV L G ES NA S D + + V D G E +E E Sbjct: 239 LGISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 289 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR ++++ + Sbjct: 290 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRDKL 347 >gi|224553544|gb|ACN55010.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 37/47 (78%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 GL + +++ EGN+GL++AV+KFDPERGFR +T + WWI+ ++ I+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTSATWWIRQTIERAIM 47 >gi|15615119|ref|NP_243422.1| sporulation sigma factor SigE [Bacillus halodurans C-125] gi|10175176|dbj|BAB06275.1| RNA polymerase sporulation mother cell-specific (early) sigma-29 factor [Bacillus halodurans C-125] Length = 237 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 68/264 (25%), Positives = 111/264 (42%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L K+ GD + L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 35 PPLSKEEEAHLLKKL-PSGDKAVRSMLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y LRR Sbjct: 94 IKAVNTFNPEKKIKLATYASRCIENEILMY----------------------LRR----- 126 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 +N ++ E ++ DE LN D N D L Sbjct: 127 ----NNKIRSE----------------------VSFDEPLNI---DWDGNELLLSDVLGT 157 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D D ++ E K R +L +++ L RE++I E R T ++++ + Sbjct: 158 DDD----IITRGIEEKVDRKLLMKALHTLTDREKQIMELRFGLAGGEEKTQKDVADLLGI 213 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++Q+ K V Sbjct: 214 SQSYISRLEKRIIKRLQKEFNKMV 237 >gi|163941643|ref|YP_001646527.1| sporulation sigma factor SigG [Bacillus weihenstephanensis KBAB4] gi|229134713|ref|ZP_04263522.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST196] gi|163863840|gb|ABY44899.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] gi|228648759|gb|EEL04785.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST196] gi|322510150|gb|ADX05464.1| RNA polymerase sigma-G factor [Bacillus mycoides] Length = 292 Score = 63.2 bits (152), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 128/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 48 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 104 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 105 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 159 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 160 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 209 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 210 GGDPIFVMDQLKDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 264 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 265 AEEIGISQAQVSRLEKSAIKQMNKTIQ 291 >gi|126649719|ref|ZP_01721955.1| sporulation sigma factor SigE [Bacillus sp. B14905] gi|126593438|gb|EAZ87383.1| sporulation sigma factor SigE [Bacillus sp. B14905] Length = 227 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 61/265 (23%), Positives = 117/265 (44%), Gaps = 64/265 (24%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ ++E V+A + GDL A L+ +LRLVV IA + G PI +++S G+IG Sbjct: 24 VPLSREEEVTVIASFMK--GDLRARDTLIERNLRLVVYIARRFDNTGTPIEDLISIGSIG 81 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A++ F+ ++ +LATY+ I+ + + LR S R+KG Sbjct: 82 LIKAIETFNTDKNIKLATYASRCIENEILMH-LRKTS------------------RMKGE 122 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + DE LN+ +D N D L Sbjct: 123 VSL----------------------------------DEPLNS---DADGNELLLSDIL- 144 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFE 263 +E ++++ E+K R + ++++L RER I E R V T + ++ Sbjct: 145 ---GTEEHIILDNVEKKIERQHMFHAINLLGARERYIMECRFGLNGKVEMTQKEVADHLG 201 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 +S+ + ++E + + ++E++ + + Sbjct: 202 ISQSYISRLEKKIIQDLRENLNQPI 226 >gi|114566372|ref|YP_753526.1| sporulation sigma factor SigE [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337307|gb|ABI68155.1| sporulation sigma factor SigE [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 240 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 37/110 (33%), Positives = 65/110 (59%), Gaps = 7/110 (6%) Query: 16 LSRYIH-----EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 L R+IH E+ P+ E++E ++++ + G +S L+ +LRLVV IA + Sbjct: 23 LPRFIHYIGSTEVLPAPLREQEEMALISQL--DQGIMSVKATLIEHNLRLVVYIAKKFEN 80 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G+ I ++VS G IGL++AV F+P++ +LATY+ I+ + Y+ R+ Sbjct: 81 TGINIEDLVSIGTIGLIKAVNTFEPKKNIKLATYASRCIENEILMYLRRN 130 >gi|183220350|ref|YP_001838346.1| RNA polymerase sigma factor WhiG [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189910466|ref|YP_001962021.1| RNA polymerase sigma factor WhiG [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167775142|gb|ABZ93443.1| RNA polymerase sigma subunit [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167778772|gb|ABZ97070.1| RNA polymerase sigma factor for flagellar operon [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 266 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 76/271 (28%), Positives = 126/271 (46%), Gaps = 32/271 (11%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQ 88 +E L K+YR D LV + LV +A G G+P ++VS G GL+ Sbjct: 12 DETDLWKQYRVKKDAEIRSYLVEKYSPLVKHVA-GRIAIGMPQNVEFEDLVSYGVFGLLD 70 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRS--WSLVKIGTTANQKRLFFNLRRLKGHL 146 A++KFDP R + TY+M I+ ++ + LRS W I A Q L + L Sbjct: 71 AIEKFDPSREIKFKTYAMTRIRGSIFDE-LRSVDWIPRSIRQKAKQ------LENIIAML 123 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSS-QWQDW 203 + + E+ IAK+L VS E S+ +L+G SLN + D+N + + Sbjct: 124 ENKEGKKVDDEE---IAKELGVSMEEYNSLLAKLSGTSLVSLNDIWFLGDENDEVSFMET 180 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 L + +IEKEE K N++ ++ L +E+++ ++ +TL+ + E Sbjct: 181 LESPMNMNPDNIIEKEEIK---NVIVEAIQSLPEKEKKVIVLYYYED--LTLKEIGEVLE 235 Query: 264 VSRERVRQIEARA-------FKKVQESIQKQ 287 V+ R+ Q+ +A KV+ +IQK+ Sbjct: 236 VTESRISQLHTKAVARLRSKLSKVKSAIQKR 266 >gi|294631337|ref|ZP_06709897.1| RNA polymerase sigma factor [Streptomyces sp. e14] gi|292834670|gb|EFF93019.1| RNA polymerase sigma factor [Streptomyces sp. e14] Length = 379 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 109/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 158 QLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 217 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + + +A+K Sbjct: 218 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEK 266 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L +SE EV L G ES NA S D + + V D G E +E E Sbjct: 267 LAISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 317 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 318 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 375 >gi|302554065|ref|ZP_07306407.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] gi|302471683|gb|EFL34776.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] Length = 381 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 110/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 160 QLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 219 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + + +A+K Sbjct: 220 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEK 268 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L++SE EV L G ES NA S D + + V D G E +E E Sbjct: 269 LSISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 319 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 320 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 377 >gi|218197356|gb|EEC79783.1| hypothetical protein OsI_21197 [Oryza sativa Indica Group] Length = 557 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 62/251 (24%), Positives = 113/251 (45%), Gaps = 14/251 (5%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E +L R +E RL+ + LV IA Y G G +++ G +G++ +K Sbjct: 305 DEALLRSRLQE--GYCCRERLLVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEK 362 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD ++G + +TY +WI+ AM + + ++++ R+ +R+++ +AI N Sbjct: 363 FDSQKGCKFSTYVKYWIRKAMLALLAENSGVIQLPA-----RMEGIIRKVREARRAIRYN 417 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 + IA + VS + N RLA S + ++ Q ++ D Sbjct: 418 TGRNPPDAEIAALIGVSVA-----NVRLARKCSRRVVSLYTEIGVGQNAKFVEVTPDTSL 472 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVR 270 + E R R L + L PRE + + R E+ +LE + S + VS+E +R Sbjct: 473 EAPDEAMFRMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLEQIGSIYHVSKEWIR 532 Query: 271 QIEARAFKKVQ 281 +IE A K++ Sbjct: 533 KIEKSAMSKLR 543 >gi|30266005|gb|AAN16080.1| SigB [Listeria seeligeri] gi|30266007|gb|AAN16081.1| SigB [Listeria seeligeri] gi|66968476|gb|AAY59617.1| SigB [Listeria seeligeri] gi|66968478|gb|AAY59618.1| SigB [Listeria seeligeri] gi|66968480|gb|AAY59619.1| SigB [Listeria seeligeri] gi|66968482|gb|AAY59620.1| SigB [Listeria seeligeri] gi|66968484|gb|AAY59621.1| SigB [Listeria seeligeri] gi|66968486|gb|AAY59622.1| SigB [Listeria seeligeri] gi|313634111|gb|EFS00776.1| RNA polymerase sigma-B factor [Listeria seeligeri FSL N1-067] gi|313638716|gb|EFS03817.1| RNA polymerase sigma-B factor [Listeria seeligeri FSL S4-171] Length = 259 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 67/269 (24%), Positives = 131/269 (48%), Gaps = 36/269 (13%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + +LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKKLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-- 261 + DG E+V N+R +L + + VL+ RE++I + +EN S + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQY-------TFIENRSQKET 227 Query: 262 ---FEVSRERVRQIEARAFKKVQESIQKQ 287 ++S+ V +I+ +A KK++E++Q + Sbjct: 228 GELLDISQMHVSRIQRQAIKKLREALQNE 256 >gi|42782996|ref|NP_980243.1| sporulation sigma factor SigG [Bacillus cereus ATCC 10987] gi|49186753|ref|YP_030005.1| sporulation sigma factor SigG [Bacillus anthracis str. Sterne] gi|49478441|ref|YP_037965.1| sporulation sigma factor SigG [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141585|ref|YP_085244.1| sporulation sigma factor SigG [Bacillus cereus E33L] gi|118479123|ref|YP_896274.1| sporulation sigma factor SigG [Bacillus thuringiensis str. Al Hakam] gi|196038711|ref|ZP_03106019.1| RNA polymerase sigma-G factor [Bacillus cereus NVH0597-99] gi|222097349|ref|YP_002531406.1| sporulation sigma factor sigg [Bacillus cereus Q1] gi|228928952|ref|ZP_04091984.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935219|ref|ZP_04098045.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228947623|ref|ZP_04109913.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228987048|ref|ZP_04147173.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229092950|ref|ZP_04224083.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-42] gi|229123417|ref|ZP_04252621.1| RNA polymerase sigma-G factor [Bacillus cereus 95/8201] gi|229186144|ref|ZP_04313313.1| RNA polymerase sigma-G factor [Bacillus cereus BGSC 6E1] gi|254683387|ref|ZP_05147247.1| sporulation sigma factor SigG [Bacillus anthracis str. CNEVA-9066] gi|254739809|ref|ZP_05197502.1| sporulation sigma factor SigG [Bacillus anthracis str. Kruger B] gi|254750999|ref|ZP_05203038.1| sporulation sigma factor SigG [Bacillus anthracis str. Vollum] gi|254757943|ref|ZP_05209970.1| sporulation sigma factor SigG [Bacillus anthracis str. Australia 94] gi|301055394|ref|YP_003793605.1| RNA polymerase sigma-G factor [Bacillus anthracis CI] gi|42738923|gb|AAS42851.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 10987] gi|49180680|gb|AAT56056.1| RNA polymerase sigma-G factor [Bacillus anthracis str. Sterne] gi|49329997|gb|AAT60643.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51975054|gb|AAU16604.1| RNA polymerase sigma-G factor [Bacillus cereus E33L] gi|118418348|gb|ABK86767.1| RNA polymerase, sigma subunit, RpsG/SigG [Bacillus thuringiensis str. Al Hakam] gi|196030434|gb|EDX69033.1| RNA polymerase sigma-G factor [Bacillus cereus NVH0597-99] gi|221241407|gb|ACM14117.1| RNA polymerase sigma-G factor [Bacillus cereus Q1] gi|228597320|gb|EEK54971.1| RNA polymerase sigma-G factor [Bacillus cereus BGSC 6E1] gi|228660193|gb|EEL15829.1| RNA polymerase sigma-G factor [Bacillus cereus 95/8201] gi|228690454|gb|EEL44238.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-42] gi|228772642|gb|EEM21083.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228812143|gb|EEM58474.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228824384|gb|EEM70190.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830759|gb|EEM76364.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|300377563|gb|ADK06467.1| RNA polymerase sigma-G factor [Bacillus cereus biovar anthracis str. CI] gi|324327802|gb|ADY23062.1| sporulation sigma factor SigG [Bacillus thuringiensis serovar finitimus YBT-020] Length = 289 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 127/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 45 KLPVLKNDE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 101 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 102 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 156 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 157 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 206 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 207 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 261 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 262 AEEIGISQAQVSRLEKSAIKQMNKTIQ 288 >gi|302338101|ref|YP_003803307.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635286|gb|ADK80713.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Spirochaeta smaragdinae DSM 11293] Length = 262 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 66/265 (24%), Positives = 127/265 (47%), Gaps = 29/265 (10%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGN 83 +LE++ E L + YR D R + + LV +A G G+P ++V G Sbjct: 5 LLEEKTEAELWELYRNSRDPKIRDRFIEQYSPLVKYVA-GKVAIGMPQNVEFDDLVGFGV 63 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 GL A++KFDPE+ + TY++ I+ A+ + LRS V + + + RL+ Sbjct: 64 FGLFDAIEKFDPEKHVKFKTYAVTRIRGAIYDE-LRSIDWVPRSVRQKAREIEETIHRLE 122 Query: 144 GHL-QAITDNNLKPEQVVAIAK----KLNVSESEVISMN-CRLAGDESLN-ALINSSDKN 196 L +A +D + E +++A L +S + V+S+N GDE+ A+++ + Sbjct: 123 ASLGRAASDKEIADELGISVADFQKLMLKISGTSVLSLNDVWYTGDENDTVAIVDGIESP 182 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 S D ++IEKEE R ++ +++S L +E+++ ++ +TL+ Sbjct: 183 QSLNPD-----------IIIEKEE---IRRVIVQAISELPEKEKKVLVLYYYED--LTLK 226 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 + +V+ RV Q+ +A +++ Sbjct: 227 EIGKVLDVTESRVSQLHTKAIMRLR 251 >gi|152976265|ref|YP_001375782.1| sporulation sigma factor SigE [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025017|gb|ABS22787.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus cytotoxicus NVH 391-98] Length = 239 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 34/79 (43%), Positives = 50/79 (63%), Gaps = 1/79 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE VL + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEVLLNKL-PKGDQAARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYS 105 ++AV F+PE+ +LATY+ Sbjct: 96 IKAVNTFNPEKKIKLATYA 114 >gi|166031695|ref|ZP_02234524.1| hypothetical protein DORFOR_01395 [Dorea formicigenerans ATCC 27755] gi|166028672|gb|EDR47429.1| hypothetical protein DORFOR_01395 [Dorea formicigenerans ATCC 27755] Length = 244 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 70/260 (26%), Positives = 120/260 (46%), Gaps = 35/260 (13%) Query: 34 EYVLAKRYREH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 ++ +A R H GD A RLV + LV I + G+ ++ GNIGL++A+ K Sbjct: 2 DHTIALIQRSHEGDEEARARLVEENAGLVWCIVKRFHNRGVETEDLFQIGNIGLIKAIDK 61 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD + +TY++ I ++ + LR ++K+ + K L + LK LQ N Sbjct: 62 FDLSYDVKFSTYAVPMISGEIKRF-LRDDGMIKVSRSL--KELAYKAYLLKEDLQ----N 114 Query: 153 NLKPEQVVA-IAKKLNVSESEVISMNCRLAGD-ESLNALINSSDKNSSQWQDWLVYDHDG 210 E V ++++L V + E++ M GD ESL+ I Y DG Sbjct: 115 QWGREPTVGELSERLGVEQEELV-MALDAGGDVESLHKPI---------------YQKDG 158 Query: 211 QEQVLIEKEERKNRRN-------MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 QE L++K E K+ + +LT + VLN E+R+ R E T + E Sbjct: 159 QEIRLMDKLEEKSEEHEQVLNHIVLTELLGVLNQDEKRLIYLRYFAEQ--TQSQVGRELG 216 Query: 264 VSRERVRQIEARAFKKVQES 283 +S+ +V ++E + +++ + Sbjct: 217 ISQVQVSRMEKKILGQLKNA 236 >gi|229031535|ref|ZP_04187535.1| RNA polymerase sigma-G factor [Bacillus cereus AH1271] gi|228729824|gb|EEL80804.1| RNA polymerase sigma-G factor [Bacillus cereus AH1271] Length = 289 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 126/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 45 KLPVLKNDE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 101 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR +++ + + L Sbjct: 102 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNDPIRVSRSLRD----IAYKAL 156 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 157 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 206 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 207 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 261 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 262 AEEIGISQAQVSRLEKSAIKQMNKTIQ 288 >gi|143621|gb|AAA22794.1| sporulation protein [Bacillus subtilis] Length = 239 Score = 63.2 bits (152), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE VL + +GD +A L+ LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKDEEQVLLMKL-PNGDQAARAILIERILRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|49328110|gb|AAT58808.1| hypothetical protein [Oryza sativa Japonica Group] Length = 799 Score = 62.8 bits (151), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 62/251 (24%), Positives = 113/251 (45%), Gaps = 14/251 (5%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E +L R +E RL+ + LV IA Y G G +++ G +G++ +K Sbjct: 547 DEALLRSRLQE--GYCCRERLLVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEK 604 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD ++G + +TY +WI+ AM + + ++++ R+ +R+++ +AI N Sbjct: 605 FDSQKGCKFSTYVKYWIRKAMLALLAENSGVIQLPA-----RMEGIIRKVREARRAIRYN 659 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 + IA + VS + N RLA S + ++ Q ++ D Sbjct: 660 TGRNPPDAEIAALIGVSVA-----NVRLARKCSRRVVSLYTEIGVGQNAKFVEVTPDTSL 714 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVR 270 + E R R L + L PRE + + R E+ +LE + S + VS+E +R Sbjct: 715 EAPDEAMFRMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLEQIGSIYHVSKEWIR 774 Query: 271 QIEARAFKKVQ 281 +IE A K++ Sbjct: 775 KIEKSAMSKLR 785 >gi|258514353|ref|YP_003190575.1| sporulation sigma factor SigE [Desulfotomaculum acetoxidans DSM 771] gi|257778058|gb|ACV61952.1| RNA polymerase, sigma 28 subunit, SigE [Desulfotomaculum acetoxidans DSM 771] Length = 241 Score = 62.8 bits (151), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE +L R E GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PPLSIDEESILINRL-ETGDGAVRGVLIERNLRLVVYIARKFENTGISIEDLVSIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY+ I+ + Y+ R+ Sbjct: 98 IKAVNTFDPAKKIKLATYASRCIENEILMYLRRN 131 >gi|161486847|ref|NP_781765.2| sporulation sigma factor SigE [Clostridium tetani E88] Length = 235 Score = 62.8 bits (151), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++EE L ++ +GD S L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 33 PPLTREEEENLVEKLN-YGDESIRSILIERNLRLVVYIARKFENTGIGIEDLVSVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFDPSKKIKLATYASRCIENEILMYLRRN 125 >gi|30263905|ref|NP_846282.1| sporulation sigma factor SigG [Bacillus anthracis str. Ames] gi|47778237|ref|YP_020684.2| sporulation sigma factor SigG [Bacillus anthracis str. 'Ames Ancestor'] gi|165872304|ref|ZP_02216941.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0488] gi|167641114|ref|ZP_02399369.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0193] gi|170688856|ref|ZP_02880059.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0465] gi|170708817|ref|ZP_02899253.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0389] gi|177654919|ref|ZP_02936636.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0174] gi|190565736|ref|ZP_03018655.1| RNA polymerase sigma-G factor [Bacillus anthracis Tsiankovskii-I] gi|196035947|ref|ZP_03103349.1| RNA polymerase sigma-G factor [Bacillus cereus W] gi|196045922|ref|ZP_03113151.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB108] gi|206976720|ref|ZP_03237624.1| RNA polymerase sigma-G factor [Bacillus cereus H3081.97] gi|217961324|ref|YP_002339892.1| sporulation sigma factor SigG [Bacillus cereus AH187] gi|218233406|ref|YP_002368703.1| sporulation sigma factor SigG [Bacillus cereus B4264] gi|218905033|ref|YP_002452867.1| RNA polymerase sigma-G factor [Bacillus cereus AH820] gi|225865885|ref|YP_002751263.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB102] gi|227813187|ref|YP_002813196.1| RNA polymerase sigma-G factor [Bacillus anthracis str. CDC 684] gi|228916541|ref|ZP_04080107.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229140552|ref|ZP_04269107.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST26] gi|229152101|ref|ZP_04280296.1| RNA polymerase sigma-G factor [Bacillus cereus m1550] gi|229157482|ref|ZP_04285559.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 4342] gi|229174570|ref|ZP_04302100.1| RNA polymerase sigma-G factor [Bacillus cereus MM3] gi|229198015|ref|ZP_04324729.1| RNA polymerase sigma-G factor [Bacillus cereus m1293] gi|229602177|ref|YP_002868139.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0248] gi|254721437|ref|ZP_05183226.1| sporulation sigma factor SigG [Bacillus anthracis str. A1055] gi|30258549|gb|AAP27768.1| RNA polymerase sigma-G factor [Bacillus anthracis str. Ames] gi|47551942|gb|AAT33159.2| RNA polymerase sigma-G factor [Bacillus anthracis str. 'Ames Ancestor'] gi|164711980|gb|EDR17520.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0488] gi|167510894|gb|EDR86285.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0193] gi|170126302|gb|EDS95193.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0389] gi|170667211|gb|EDT17971.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0465] gi|172080430|gb|EDT65517.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0174] gi|190562655|gb|EDV16621.1| RNA polymerase sigma-G factor [Bacillus anthracis Tsiankovskii-I] gi|195991596|gb|EDX55562.1| RNA polymerase sigma-G factor [Bacillus cereus W] gi|196023362|gb|EDX62040.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB108] gi|206745030|gb|EDZ56433.1| RNA polymerase sigma-G factor [Bacillus cereus H3081.97] gi|217067470|gb|ACJ81720.1| RNA polymerase sigma-G factor [Bacillus cereus AH187] gi|218161363|gb|ACK61355.1| RNA polymerase sigma-G factor [Bacillus cereus B4264] gi|218537241|gb|ACK89639.1| RNA polymerase sigma-G factor [Bacillus cereus AH820] gi|225788717|gb|ACO28934.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB102] gi|227002358|gb|ACP12101.1| RNA polymerase sigma-G factor [Bacillus anthracis str. CDC 684] gi|228585494|gb|EEK43598.1| RNA polymerase sigma-G factor [Bacillus cereus m1293] gi|228608875|gb|EEK66167.1| RNA polymerase sigma-G factor [Bacillus cereus MM3] gi|228625932|gb|EEK82682.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 4342] gi|228631450|gb|EEK88084.1| RNA polymerase sigma-G factor [Bacillus cereus m1550] gi|228643113|gb|EEK99389.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST26] gi|228843120|gb|EEM88202.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229266585|gb|ACQ48222.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0248] Length = 259 Score = 62.8 bits (151), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 127/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNDE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 127 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 176 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 177 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 232 AEEIGISQAQVSRLEKSAIKQMNKTIQ 258 >gi|307102796|gb|EFN51063.1| hypothetical protein CHLNCDRAFT_33233 [Chlorella variabilis] Length = 288 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 61/259 (23%), Positives = 120/259 (46%), Gaps = 33/259 (12%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 ++RLV+ IA Y G G+ I +++ EG +GL +++ +FD +GF+ +TY+ WWI+ ++ Sbjct: 4 NVRLVINIAKRYVGNGIDIVDLIPEGLVGLSKSLDRFDASKGFKFSTYAHWWIRQSISRA 63 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 + +V++ + + L R+ + ++T+ + IA +++ VI Sbjct: 64 VCDQARVVRLPSHVCE-----TLYRINRAITSMTEQRDEMPSYEEIAAAVDLPVRRVIHY 118 Query: 177 --------NCRLAGDESLNALINSSDKNSS--QWQDWLVYDHDGQEQVLIEKEERKNRRN 226 A D L SS K + +D D D E+ E+ + ++ R Sbjct: 119 LRLSKLPGGAASARDRPTQYLSGSSLKEVTYEALED-CAEDEDPGEEGEEEEAQHESIRQ 177 Query: 227 MLTRSMSVLNPRERRIFEAR-----------------RLQENPVTLENLSSEFEVSRERV 269 M +S L RER I R + ++L ++S + +S+ER+ Sbjct: 178 MTDLLLSTLEKRERNILRLRYGLLGWGPAAGGLSWDDNVDGGSMSLGEVASAYGLSKERI 237 Query: 270 RQIEARAFKKVQESIQKQV 288 RQIE +A + +++ ++Q+ Sbjct: 238 RQIEDKAMRALRKPWRQQL 256 >gi|300783890|ref|YP_003764181.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299793404|gb|ADJ43779.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 282 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 67/254 (26%), Positives = 116/254 (45%), Gaps = 19/254 (7%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFD 94 +++ + D ++ RLV H +VK G G GLP + ++V G GL+ A++KFD Sbjct: 40 QQFADSPDQASRDRLVL-HYAPLVKYVAGRVGTGLPTHIDVGDLVQSGIFGLVDAIEKFD 98 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNN 153 PERG R TY+M I+ A+ + LRS V + K + RL L TD Sbjct: 99 PERGLRFETYAMQRIRGAILDD-LRSQDWVPRAVRSKAKEAERAMERLGARLHRTPTDAE 157 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 L E + + + +L +L L+ ++ K+S D L D D + Sbjct: 158 LAAE------LGIGLDDLRDFYGQLQLTSVVALEDLV-AAGKDSGSLVDTL-PDDDAVDP 209 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 V + ++ NRR L ++++ L R++ + + +TL + V+ RV Q+ Sbjct: 210 VAVLVDQ-DNRRQ-LAQAIAQLTERDKIVVSLYYFES--LTLAEIGKVLGVTESRVSQLH 265 Query: 274 ARAFKKVQESIQKQ 287 RA +++ + +Q Sbjct: 266 TRAVMRLRAKLVEQ 279 >gi|308205773|gb|ADO19206.1| RNA polymerase sigma factor [Nostoc flagelliforme str. Sunitezuoqi] Length = 124 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 29/63 (46%), Positives = 44/63 (69%), Gaps = 1/63 (1%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E G L A H ++T++LRLVV +A YR L +++ EG IGL +AV+KF+P RG++ + Sbjct: 40 EQGQL-AKHLMITANLRLVVAVAKKYRWSNLEFLDLIQEGAIGLQKAVEKFEPNRGYKFS 98 Query: 103 TYS 105 TY+ Sbjct: 99 TYA 101 >gi|229013088|ref|ZP_04170253.1| RNA polymerase sigma-G factor [Bacillus mycoides DSM 2048] gi|229061509|ref|ZP_04198853.1| RNA polymerase sigma-G factor [Bacillus cereus AH603] gi|229168644|ref|ZP_04296366.1| RNA polymerase sigma-G factor [Bacillus cereus AH621] gi|228614800|gb|EEK71903.1| RNA polymerase sigma-G factor [Bacillus cereus AH621] gi|228717743|gb|EEL69393.1| RNA polymerase sigma-G factor [Bacillus cereus AH603] gi|228748342|gb|EEL98202.1| RNA polymerase sigma-G factor [Bacillus mycoides DSM 2048] Length = 259 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 128/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 127 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 176 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 177 GGDPIFVMDQLKDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 232 AEEIGISQAQVSRLEKSAIKQMNKTIQ 258 >gi|147678181|ref|YP_001212396.1| sporulation sigma factor SigE [Pelotomaculum thermopropionicum SI] gi|146274278|dbj|BAF60027.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] Length = 243 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 38/94 (40%), Positives = 53/94 (56%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE L R E GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 41 PPLTTDEESFLISRL-ESGDGAVRSVLIERNLRLVVYIARKFENTGVGIEDLVSIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY+ I+ + Y+ RS Sbjct: 100 IKAVNTFDPAKKIKLATYASRCIENEILMYLRRS 133 >gi|238924140|ref|YP_002937656.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Eubacterium rectale ATCC 33656] gi|238875815|gb|ACR75522.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Eubacterium rectale ATCC 33656] gi|291524873|emb|CBK90460.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Eubacterium rectale DSM 17629] gi|291529014|emb|CBK94600.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Eubacterium rectale M104/1] Length = 255 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 59/224 (26%), Positives = 107/224 (47%), Gaps = 16/224 (7%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +RLV Y G+ + ++VS G GL+ A+ KF+ E+ + TY+ I+ A+ + I Sbjct: 33 VRLVAGRLSMYLGHNVEYDDLVSYGIFGLIDAIDKFNLEKNVKFETYASLRIRGAILDQI 92 Query: 118 LR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 + W I T Q++ R++ ++ I K +AK+L++SE E+ S Sbjct: 93 RKMDW----IPRTVRQRQ-----RKIDEAIKNIELRTGKTANDADLAKELSISEDELCSW 143 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 +L ++ +L + D H Q + ++ +EE K ML +S+ L Sbjct: 144 QSQLKV-TNVVSLDEFDESGPEPVMDAAHNSHYAQPEEIVTQEELK---TMLVKSLDNLT 199 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +ERR+ E ++ +TL+ +S+ EVS RV Q+ + K+ Sbjct: 200 EKERRVIELYYYED--LTLKEISNILEVSESRVSQLHTKGLIKM 241 >gi|258514023|ref|YP_003190245.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfotomaculum acetoxidans DSM 771] gi|257777728|gb|ACV61622.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfotomaculum acetoxidans DSM 771] Length = 249 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 69/254 (27%), Positives = 133/254 (52%), Gaps = 20/254 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPE 96 Y + D A +L+ +L LV ++ G LPI ++ G +GL+++++KF+P Sbjct: 10 YISNRDKKAREKLILMYLPLVKHLS-GRLAVRLPIGISYEDLEGYGVVGLIESIEKFNPA 68 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G T++ I+ A+ + + + L + T QK N R + L+ I +N+ Sbjct: 69 KGVSFETFAYRRIRGAIIDEVRK---LYWVPRTLWQKFQAVNAERER--LRRINGDNVTD 123 Query: 157 EQVVAIAKKLNVSESEV-ISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 EQV A LN+S +E+ + NC SL+ ++ SSD +S + + L+ D + + + Sbjct: 124 EQVAA---SLNISIAELHKTSNCYNQLNMNSLDEVLTSSDGDSVRLGN-LIPDPNSPDPL 179 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 + +E+ + R +L +++ LN ++R + A QE +TL+ + EVS RV Q+ A Sbjct: 180 DVVEEQ--DGRRILAEAVNSLNEKDRLVM-ALYYQER-LTLKEIGQVLEVSESRVCQLHA 235 Query: 275 RAFKKVQESIQKQV 288 RA ++++ I++ + Sbjct: 236 RAMSRLRQKIKEML 249 >gi|88705109|ref|ZP_01102821.1| RNA polymerase sigma factor 70 family protein [Congregibacter litoralis KT71] gi|88700804|gb|EAQ97911.1| RNA polymerase sigma factor 70 family protein [Congregibacter litoralis KT71] Length = 439 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 31/82 (37%), Positives = 50/82 (60%), Gaps = 1/82 (1%) Query: 48 SAAHRLVTSH-LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 S A +T H LRLV IA YRG G+ +++ EG +GL++A +K+D +GFR +TY Sbjct: 196 SDARDTLTMHNLRLVYSIAGRYRGKGVNYLDLIQEGTLGLIRAAEKYDHSKGFRFSTYCF 255 Query: 107 WWIKAAMQEYILRSWSLVKIGT 128 WI A++ ++ + L++ T Sbjct: 256 NWITQAIRRHVGDTGGLIRYPT 277 >gi|28203259|gb|AAO35702.1| RNA polymerase sigma-E factor [Clostridium tetani E88] Length = 261 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 70/264 (26%), Positives = 119/264 (45%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++EE L ++ +GD S L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 59 PPLTREEEENLVEKLN-YGDESIRSILIERNLRLVVYIARKFENTGIGIEDLVSVGTIGL 117 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV FDP + +LATY+ I+ + Y LRR Sbjct: 118 IKAVNTFDPSKKIKLATYASRCIENEILMY----------------------LRR----- 150 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 +N +K E ++ + LNV G+E L + I +D + +VY Sbjct: 151 ----NNKIKSE--ISFYEPLNVDWD----------GNELLLSDILGTDTD-------IVY 187 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEV 264 D+ +E ++KE +L +M LN RE++I R T + ++ + Sbjct: 188 DYIEEE---VDKE-------LLLIAMDKLNNREKQIVNLRFGLGGKTEKTQKEVADMLGI 237 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S+ + ++E R K++++ I K + Sbjct: 238 SQSYISRLEKRIIKRLKKEINKMI 261 >gi|126698352|ref|YP_001087249.1| RNA polymerase sigma-F factor [Clostridium difficile 630] gi|115249789|emb|CAJ67606.1| RNA polymerase sigma-F factor [Clostridium difficile] Length = 254 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 61/268 (22%), Positives = 130/268 (48%), Gaps = 32/268 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P+L +E L ++ ++GD A L++S+L LV + + G ++ G+I Sbjct: 10 KKPLLSHEETLELIEKV-QNGDEEAKEILISSNLGLVRSVVSRFLNIGYDREDLFQLGSI 68 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++++ KFDP+ + +TY++ I ++ Y LR ++K+ + Q + + K Sbjct: 69 GLIKSIYKFDPKFNVKFSTYAVPMILGEIKRY-LRDDGMIKVSRSLKQIAI-----KAKM 122 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +A+T + + +AK ++V + +++ +A + + N ++ + Sbjct: 123 ESEALTKKLGREPSIEELAKAIDVEKEDLV-----MAMEANFNV----------EYLQGV 167 Query: 205 VYDHDGQEQVLIEK-------EERKNRRNMLTRS-MSVLNPRERRIFEARRLQENPVTLE 256 +++ +G LI+K EE K N+L + + L+ RER+I R ++ +T Sbjct: 168 IHEEEGSPICLIDKISMKGESEEEKVVDNILLKDILGRLDKRERQIIVLRYFED--MTQS 225 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 + +S+ +V +IE + K++E I Sbjct: 226 EIGEMLNISQVQVSRIEKKVLSKLKEYI 253 >gi|182418318|ref|ZP_02949613.1| RNA polymerase sigma factor for flagellar operon [Clostridium butyricum 5521] gi|237666658|ref|ZP_04526643.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377700|gb|EDT75244.1| RNA polymerase sigma factor for flagellar operon [Clostridium butyricum 5521] gi|237657857|gb|EEP55412.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium butyricum E4 str. BoNT E BL5262] Length = 243 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 63/257 (24%), Positives = 116/257 (45%), Gaps = 41/257 (15%) Query: 46 DLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++ +++ ++ LV IA M + + ++VS G IGL+ A+ KFD +G + + Sbjct: 7 EVDGKEQIIEEYIPLVKYIASRVMFAKNKYMEYEDLVSYGMIGLIDAINKFDNSKGMKFS 66 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 +Y+ IK AM + + ++ + K G R + L+G L L+ I Sbjct: 67 SYASIRIKGAMIDELRKNRPISK-GAMDKLNRYNKAIEELQGRL-------LREPTTQEI 118 Query: 163 AKKLNVSESEV---------ISM----NCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 + L +S SEV ISM + + DE +N + DKNS +L Sbjct: 119 SNYLGISSSEVAEIENYINYISMVSLESVIFSDDEDVNLMGVIEDKNSPSPHSYL----- 173 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 E K + +LT+++ +L ++R I + +TL+ + EVS RV Sbjct: 174 ----------EDKEKLEILTQAIELLKEKDRMILNLYYYE--GLTLKEIGKILEVSESRV 221 Query: 270 RQIEARAFKKVQESIQK 286 Q+ +R+ + ++E ++K Sbjct: 222 CQLHSRSIRNLRECMKK 238 >gi|125972968|ref|YP_001036878.1| sporulation sigma factor SigE [Clostridium thermocellum ATCC 27405] gi|256004765|ref|ZP_05429740.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium thermocellum DSM 2360] gi|281417179|ref|ZP_06248199.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium thermocellum JW20] gi|125713193|gb|ABN51685.1| RNA polymerase, sigma 29 subunit, SigE [Clostridium thermocellum ATCC 27405] gi|255991215|gb|EEU01322.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium thermocellum DSM 2360] gi|281408581|gb|EFB38839.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium thermocellum JW20] gi|316940796|gb|ADU74830.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium thermocellum DSM 1313] Length = 244 Score = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 54/94 (57%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E Y+L+K E D L+ +LRLVV IA + G+ + ++VS G IGL Sbjct: 42 PLTNDEENYLLSKL--EKRDFGVKSILIERNLRLVVYIARKFENTGVGVEDLVSIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ FDP + +LATY+ I+ + Y+ R+ Sbjct: 100 IKAINTFDPNKNIKLATYASRCIENEILMYLRRN 133 >gi|56419662|ref|YP_146980.1| sporulation sigma factor SigE [Geobacillus kaustophilus HTA426] gi|56379504|dbj|BAD75412.1| DNA-directed RNA polymerase sigma-29 factor precursor (sigma-E) (stage II sporulation protein GB) [Geobacillus kaustophilus HTA426] Length = 239 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L R GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEQLIARL-AAGDDTARSLLIERNLRLVVYIARKFENTGIHIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|303242484|ref|ZP_07328964.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302589952|gb|EFL59720.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 252 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 53/249 (21%), Positives = 120/249 (48%), Gaps = 17/249 (6%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 + + L + ++ + + +V+ +L L I+ + G+ ++ +I L++AV+ Sbjct: 13 DDSHSLFENFKNSQSVEVRNEIVSKYLYLAEIISKKFVNRGIDYEDIYQVASIALIKAVE 72 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 +FDP++G + A+++ + ++ + S+++I +R++ +++ +++T Sbjct: 73 RFDPDKGVKFASFATPTLIGEIKRFFRDKASVIRIP-----RRIYEVYQKVSHARESLTQ 127 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDG 210 +P ++ IAK LN+SE V+ + ES NA + S D+N D +++ G Sbjct: 128 ELSRPPRIDEIAKYLNISEETVMEII------ESNNAHNLQSFDQNVYTDDDLELHETIG 181 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +E EK E R+ L +S+ N E+ + R N T + ++ VS+ V Sbjct: 182 EEDATFEKIE---NRDFLKKSLDKFNDAEKEFIDMRYF--NNRTQKEIAERLGVSQMYVS 236 Query: 271 QIEARAFKK 279 ++E + + Sbjct: 237 RLEKKVLDR 245 >gi|168029696|ref|XP_001767361.1| plastid sigma factor SIG5 [Physcomitrella patens subsp. patens] gi|56603661|dbj|BAD80742.1| plastid sigma factor PpSIG5 [Physcomitrella patens] gi|162681425|gb|EDQ67852.1| plastid sigma factor SIG5 [Physcomitrella patens subsp. patens] Length = 632 Score = 62.8 bits (151), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 29/68 (42%), Positives = 44/68 (64%), Gaps = 2/68 (2%) Query: 48 SAAHRLVTSHLRLVVKIAMGYR--GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +A +L+ +LRLV+ A Y L I ++ EG IGLMQAV KFDP +G+R +TY Sbjct: 393 AARTKLIQRNLRLVLSQAYKYHKDSMSLSIQDLCQEGVIGLMQAVDKFDPGKGYRFSTYG 452 Query: 106 MWWIKAAM 113 ++WI+ ++ Sbjct: 453 IYWIRNSI 460 >gi|254514436|ref|ZP_05126497.1| RNA polymerase sigma factor SigB [gamma proteobacterium NOR5-3] gi|219676679|gb|EED33044.1| RNA polymerase sigma factor SigB [gamma proteobacterium NOR5-3] Length = 432 Score = 62.4 bits (150), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 31/87 (35%), Positives = 52/87 (59%), Gaps = 1/87 (1%) Query: 48 SAAHRLVTSH-LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 S A +T H LRLV IA YRG G+ +++ EG +GL++A +K+D +GFR +TY Sbjct: 189 SDARDTLTMHNLRLVYSIAGRYRGKGVNYLDLIQEGTLGLIRAAEKYDHNKGFRFSTYCF 248 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQK 133 WI A++ ++ + L++ T ++ Sbjct: 249 NWITQAIRRHVGDTGGLIRYPTHVQEQ 275 >gi|295399723|ref|ZP_06809704.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|312111758|ref|YP_003990074.1| RNA polymerase, sigma 28 subunit, SigE [Geobacillus sp. Y4.1MC1] gi|294978126|gb|EFG53723.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|311216859|gb|ADP75463.1| RNA polymerase, sigma 28 subunit, SigE [Geobacillus sp. Y4.1MC1] Length = 239 Score = 62.4 bits (150), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 33/79 (41%), Positives = 51/79 (64%), Gaps = 1/79 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE +L + + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEMLIGKLSD-GDETARSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYS 105 ++AV F+PE+ +LATY+ Sbjct: 96 IKAVNTFNPEKKIKLATYA 114 >gi|78044685|ref|YP_360875.1| sporulation sigma factor SigE [Carboxydothermus hydrogenoformans Z-2901] gi|77996800|gb|ABB15699.1| RNA polymerase sigma-E factor [Carboxydothermus hydrogenoformans Z-2901] Length = 237 Score = 62.4 bits (150), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 36/100 (36%), Positives = 58/100 (58%), Gaps = 2/100 (2%) Query: 21 HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 H+I P+ ++E +L GD +A L+ +LRLVV IA + G+ I ++VS Sbjct: 30 HDILPPPLSSEEENTLLT--LLVQGDAAAKSTLIERNLRLVVYIARKFENTGVNIEDLVS 87 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G IGL++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 88 IGTIGLIKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 127 >gi|296120653|ref|YP_003628431.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] gi|296012993|gb|ADG66232.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] Length = 558 Score = 62.4 bits (150), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 59/232 (25%), Positives = 92/232 (39%), Gaps = 72/232 (31%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S+LRLVV IA + E++S+GN+ L++A++KFD RGF+ +TY+ W I Sbjct: 383 LIRSNLRLVVSIAKKHSHPTANFFEMISDGNMSLIKAIEKFDYTRGFKFSTYASWAI--- 439 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +K ++I N + + E Sbjct: 440 -----------------------------MKNFARSIPAENTR-------LDRFRTGSEE 463 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 V + S D + Q++D +V +R L + Sbjct: 464 VF---------------VQSMDPRTDQFRDEIV---------------NYRQREALMGIL 493 Query: 233 SVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L RER I R + P TLE + V++ER+RQIEARA KK++ Sbjct: 494 GQLELRERDIIMHRYGLETGQQPQTLEQVGHRLGVTKERIRQIEARALKKLK 545 >gi|295837881|ref|ZP_06824814.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] gi|295826719|gb|EDY46528.2| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] Length = 286 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 65 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 124 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +AK L VSE Sbjct: 125 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELAKALGVSED 178 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 179 DVVDGLAVGNAYTA--SSLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 232 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 233 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 283 >gi|302518878|ref|ZP_07271220.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] gi|302427773|gb|EFK99588.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] Length = 201 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 59/211 (27%), Positives = 95/211 (45%), Gaps = 38/211 (18%) Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN--LRRLK 143 L++AV+KFD RGF+ +TY+ WWI+ AM + +++ + N +R + Sbjct: 1 LIRAVEKFDYTRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVE---LINRVVRVQR 57 Query: 144 GHLQAITDNNLKPEQVVAIA----KKLNVSE-----SEVISMNCRLAGDE--SLNALINS 192 G LQ + +P A K V E E +S++ + G++ +L LI Sbjct: 58 GLLQ---ERGHEPSHAEVAALLGLTKERVGEVLRLAQEPVSLHTPVGGEDEVALGDLIED 114 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 D S L+ E VL S L RER++ + R ++ Sbjct: 115 GDAPSPPESAALLLLRRHLEDVL-----------------STLGERERQVVQLRYGLDDG 157 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 P TLE + + F V+RER+RQIEA+ K++ Sbjct: 158 RPRTLEEIGTLFGVTRERIRQIEAKTLAKLR 188 >gi|52080136|ref|YP_078927.1| sporulation sigma factor SigG [Bacillus licheniformis ATCC 14580] gi|52785510|ref|YP_091339.1| sporulation sigma factor SigG [Bacillus licheniformis ATCC 14580] gi|319646086|ref|ZP_08000316.1| RNA polymerase sigma-G factor [Bacillus sp. BT1B_CT2] gi|52003347|gb|AAU23289.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus licheniformis ATCC 14580] gi|52348012|gb|AAU40646.1| SigG [Bacillus licheniformis ATCC 14580] gi|317391836|gb|EFV72633.1| RNA polymerase sigma-G factor [Bacillus sp. BT1B_CT2] Length = 259 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 62/261 (23%), Positives = 121/261 (46%), Gaps = 16/261 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L K+ ++ GD +A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFKQMQDEGDTTAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 75 GLMKSIDNFDLSHNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQV 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I++ + +P IAK+L VS E++ + SL I + + D + Sbjct: 130 RERLISETSREP-TAQEIAKELEVSHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 188 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 189 SDERNKDSQWIEEL--------ALKEGMRRLNEREKMILRKRFFQGK--TQMEVADEIGI 238 Query: 265 SRERVRQIEARAFKKVQESIQ 285 S+ +V ++E A K++ ++I Sbjct: 239 SQAQVSRLEKAAIKQMNKNIH 259 >gi|47570318|ref|ZP_00240965.1| RNA polymerase sigma-G factor [Bacillus cereus G9241] gi|47553027|gb|EAL11431.1| RNA polymerase sigma-G factor [Bacillus cereus G9241] Length = 257 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 126/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 13 KLPVLXNDE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 69 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 70 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 124 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IAK L V+ E++ +L+A+ + + D Sbjct: 125 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIVF---------ALDAIQDPVSLFEPIYND 174 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 175 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 229 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 230 AEEIGISQAQVSRLEKSAIKQMNKTIQ 256 >gi|224009562|ref|XP_002293739.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] gi|220970411|gb|EED88748.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] Length = 316 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 65/251 (25%), Positives = 118/251 (47%), Gaps = 27/251 (10%) Query: 48 SAAHRLVTSHLRLVVKIAMGY--RGY--GLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 SA LV S++ LV + Y + Y G+ I E+V EG++GL++A + FDP +G R +T Sbjct: 64 SAKQELVASNMGLVHAVVKNYSRKAYYRGITIDELVQEGSLGLIRAAELFDPAKGLRFST 123 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WIK + + LV +++++ +R + + D L + IA Sbjct: 124 YATIWIKGVLSNSRVDEMVLV----PQRERQIWNKIREVSKDVDD-EDGRLSTDM---IA 175 Query: 164 KKLNVSESEV-------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 KKL + +S V S+N L+ D + S + + S+ + L+ D G + L Sbjct: 176 KKLGLDKSSVEQNIQRMSSVNNMLSLDYQYASTTRSGETDGSKPFEALMADKSGSDADLA 235 Query: 217 EKEERKNRRNMLTRSMSVLNPRE----RRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 E+ + K +++ + LN RE R ++ E V ++ + ++RE R + Sbjct: 236 ERAQFKA--DLVAGLVRNLNEREIQLIRLMYGMHDGHEYSV--KDSAKIMGINRETARLL 291 Query: 273 EARAFKKVQES 283 KK++E+ Sbjct: 292 HHACLKKLREA 302 >gi|304317194|ref|YP_003852339.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778696|gb|ADL69255.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 241 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E +++AK E GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSTEEEIFLIAKM--ESGDNAAKSMLIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPHKKIKLATYASRCIENEILMYLRRN 131 >gi|239929001|ref|ZP_04685954.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291437340|ref|ZP_06576730.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291340235|gb|EFE67191.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 374 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 109/240 (45%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 153 QLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVG 212 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN-----LRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++ + + W+ V++ + RL L +L G + + +A+K Sbjct: 213 EIKRHFRDKGWA-VRVPRRLQELRLALTTATAELSQLHGRSPTVHE----------LAEK 261 Query: 166 LNVSESEVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 L +SE EV L G ES NA S D + + V D G E +E E Sbjct: 262 LAISEEEV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---Y 312 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R L + L PRE+RI R +T ++ E +S+ V ++ AR +++E + Sbjct: 313 RESLKPLLEDLPPREKRILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLREKL 370 >gi|254974392|ref|ZP_05270864.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-66c26] gi|255091783|ref|ZP_05321261.1| RNA polymerase sigma-F factor [Clostridium difficile CIP 107932] gi|255099887|ref|ZP_05328864.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-63q42] gi|255305776|ref|ZP_05349948.1| RNA polymerase sigma-F factor [Clostridium difficile ATCC 43255] gi|255313518|ref|ZP_05355101.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-76w55] gi|255516203|ref|ZP_05383879.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-97b34] gi|255649300|ref|ZP_05396202.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-37x79] gi|255654820|ref|ZP_05400229.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-23m63] gi|260682470|ref|YP_003213755.1| RNA polymerase sigma-F factor [Clostridium difficile CD196] gi|260686069|ref|YP_003217202.1| RNA polymerase sigma-F factor [Clostridium difficile R20291] gi|296449564|ref|ZP_06891341.1| RNA polymerase sigma-F factor [Clostridium difficile NAP08] gi|296878113|ref|ZP_06902128.1| RNA polymerase sigma-F factor [Clostridium difficile NAP07] gi|306519396|ref|ZP_07405743.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-32g58] gi|260208633|emb|CBA61376.1| RNA polymerase sigma-F factor [Clostridium difficile CD196] gi|260212085|emb|CBE02685.1| RNA polymerase sigma-F factor [Clostridium difficile R20291] gi|296261628|gb|EFH08446.1| RNA polymerase sigma-F factor [Clostridium difficile NAP08] gi|296430866|gb|EFH16698.1| RNA polymerase sigma-F factor [Clostridium difficile NAP07] Length = 254 Score = 62.4 bits (150), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 61/268 (22%), Positives = 130/268 (48%), Gaps = 32/268 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P+L +E L ++ ++GD A L++S+L LV + + G ++ G+I Sbjct: 10 KKPLLSHEETLELIEKV-QNGDEEAKEILISSNLGLVRSVVSRFLNIGYDREDLFQLGSI 68 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++++ KFDP+ + +TY++ I ++ Y LR ++K+ + Q + + K Sbjct: 69 GLIKSIYKFDPKFNVKFSTYAVPMILGEIKRY-LRDDGMIKVSRSLKQIAV-----KAKM 122 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +A+T + + +AK ++V + +++ +A + + N ++ + Sbjct: 123 ESEALTKKLGREPSIEELAKAIDVEKEDLV-----MAMEANFNV----------EYLQGV 167 Query: 205 VYDHDGQEQVLIEK-------EERKNRRNMLTRS-MSVLNPRERRIFEARRLQENPVTLE 256 +++ +G LI+K EE K N+L + + L+ RER+I R ++ +T Sbjct: 168 IHEEEGSPICLIDKISMKGESEEEKVVDNILLKDILGRLDKRERQIIVLRYFED--MTQS 225 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 + +S+ +V +IE + K++E I Sbjct: 226 EIGEMLNISQVQVSRIEKKVLSKLKEYI 253 >gi|257438786|ref|ZP_05614541.1| RNA polymerase sigma-E factor [Faecalibacterium prausnitzii A2-165] gi|257198754|gb|EEU97038.1| RNA polymerase sigma-E factor [Faecalibacterium prausnitzii A2-165] Length = 188 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 31/76 (40%), Positives = 46/76 (60%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A L+T +LRLVV +A Y G+P +++S G IGL++AV F P R +LATY Sbjct: 4 GDAAARDDLITHNLRLVVYLAKKYENSGVPQEDMISIGTIGLIKAVNTFTPARNIKLATY 63 Query: 105 SMWWIKAAMQEYILRS 120 + I + Y+ +S Sbjct: 64 ASRCIGNEILMYLRKS 79 >gi|261419324|ref|YP_003253006.1| sporulation sigma factor SigE [Geobacillus sp. Y412MC61] gi|297530706|ref|YP_003671981.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|319766140|ref|YP_004131641.1| RNA polymerase, sigma 28 subunit, SigE [Geobacillus sp. Y412MC52] gi|261375781|gb|ACX78524.1| RNA polymerase, sigma 28 subunit, SigE [Geobacillus sp. Y412MC61] gi|297253958|gb|ADI27404.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|317111006|gb|ADU93498.1| RNA polymerase, sigma 28 subunit, SigE [Geobacillus sp. Y412MC52] Length = 239 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L R GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTKEEEEQLIARL-AAGDDTARSLLIERNLRLVVYIARKFENTGIHIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|83589703|ref|YP_429712.1| sporulation sigma factor SigE [Moorella thermoacetica ATCC 39073] gi|83572617|gb|ABC19169.1| RNA polymerase, sigma 29 subunit, SigE [Moorella thermoacetica ATCC 39073] Length = 243 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE L R E GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 41 PPLSSDEESDLLLRL-EDGDAAVKKVLIERNLRLVVYIARKFENTGVGIEDLVSIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP++ +LATY+ I+ + Y+ R+ Sbjct: 100 IKAVNTFDPKKRIKLATYASRCIENEILMYLRRN 133 >gi|158312828|ref|YP_001505336.1| FliA/WhiG family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158108233|gb|ABW10430.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Frankia sp. EAN1pec] Length = 376 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 116/241 (48%), Gaps = 30/241 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++V IGL+++V +FDPERG +TY+ I Sbjct: 154 QLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVDRFDPERGVEFSTYATPTIVG 213 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVA-IAKKL 166 ++ + + W++ R+ L+ LK L T +L V+ IA+ L Sbjct: 214 EIKRHFRDKGWAI----------RVPRRLQELKLSLTKATSELSQSLGRSPTVSEIARHL 263 Query: 167 NVSESEVISMNCRLAGDESLNA--LINSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKN 223 +SE EV L G ES NA ++ +S + V D G Q++ L E R++ Sbjct: 264 EMSEEEV------LEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQDESLEGVEYRES 317 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +L + L PRE+RI R +T +++E +S+ V ++ AR +++ Sbjct: 318 LKPLLEK----LPPREKRILLLRFFGN--MTQSQIANELGISQMHVSRLLARTLAQLRRG 371 Query: 284 I 284 + Sbjct: 372 L 372 >gi|311029937|ref|ZP_07708027.1| sporulation sigma factor SigE [Bacillus sp. m3-13] Length = 239 Score = 62.4 bits (150), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 67/265 (25%), Positives = 116/265 (43%), Gaps = 66/265 (24%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E ++L K +GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 38 PLSKEEEAHLLIKL--PNGDQAARSILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN-------------------------- 129 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N SEV + DE LN D N D L Sbjct: 130 --------------------NKVRSEV-------SFDEPLNI---DWDGNELLLSDVL-- 157 Query: 207 DHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFE 263 G E+ +I K+ N R +L +++ LN RE++I E R + T ++++ Sbjct: 158 ---GTEEDIITKDLEANVDRKLLLKALEQLNDREKQIMELRFGLIGGEEKTQKDVADMLG 214 Query: 264 VSRERVRQIEARAFKKVQESIQKQV 288 +S+ + ++E R K++++ K V Sbjct: 215 ISQSYISRLEKRIIKRLRKEFNKMV 239 >gi|23098931|ref|NP_692397.1| sporulation sigma factor SigG [Oceanobacillus iheyensis HTE831] gi|22777159|dbj|BAC13432.1| stage III sporulation protein G (RNA polymerase sporulation-specific sigma G factor) [Oceanobacillus iheyensis HTE831] Length = 260 Score = 62.0 bits (149), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 60/260 (23%), Positives = 122/260 (46%), Gaps = 24/260 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L R +E GD++A LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMKKLFVRMQEDGDITAREELVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD R +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 75 GLMKSIDNFDLSHNVRFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW- 203 L + T P + IAK++++ +++V+ +L+A+ + + D Sbjct: 132 KLISKTSKEPSPAE---IAKEMDIPQTDVVF---------ALDAIQDPVSLFEPIYNDGG 179 Query: 204 ---LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 V D E+ +K+ + L M LN RE+ I R Q T ++ Sbjct: 180 DPIFVMDQISDEK---DKDSSWVDKLSLKEGMHQLNEREKMILNKRFFQGK--TQMEVAD 234 Query: 261 EFEVSRERVRQIEARAFKKV 280 E +S+ +V ++E A ++ Sbjct: 235 EIGISQAQVSRLEKAAISQM 254 >gi|47777365|gb|AAT37999.1| putative RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 882 Score = 62.0 bits (149), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 12/232 (5%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ + LV IA Y G G +++ G +G++ +KFD ++G + +TY +WI+ Sbjct: 647 RLLVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFSTYVKYWIRK 706 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + + ++++ R+ +R+++ +AI N + IA + VS + Sbjct: 707 AMLALLAENSGVIQLPA-----RMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSVA 761 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 N RLA S + ++ Q ++ D + E R R L Sbjct: 762 -----NVRLARKCSRRVVSLYTEIGVGQNAKFVEVTPDTSLEAPDEAMFRMQLRERLLHV 816 Query: 232 MSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE + + R E+ +LE + S + VS+E +R+IE A K++ Sbjct: 817 LDRLPPREGHVLKLRHGLEDGKCRSLEQIGSIYHVSKEWIRKIEKSAMSKLR 868 >gi|313901760|ref|ZP_07835186.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter subterraneus DSM 13965] gi|313467966|gb|EFR63454.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter subterraneus DSM 13965] Length = 261 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 32/93 (34%), Positives = 55/93 (59%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L ++ VL +R RE GD A +LV +LRLV+ + + G P+ ++ G I Sbjct: 19 ELPVLSNEQMRVLFRRMRE-GDEEARQQLVQGNLRLVLSVIQRFNHRGEPVDDLFQVGCI 77 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD E+ R +TY++ I ++ Y+ Sbjct: 78 GLMKAIDNFDLEQNVRFSTYAVPMIIGEIRRYL 110 >gi|222632746|gb|EEE64878.1| hypothetical protein OsJ_19735 [Oryza sativa Japonica Group] Length = 1012 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 12/232 (5%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ + LV IA Y G G +++ G +G++ +KFD ++G + +TY +WI+ Sbjct: 777 RLLVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFSTYVKYWIRK 836 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 AM + + ++++ R+ +R+++ +AI N + IA + VS + Sbjct: 837 AMLALLAENSGVIQLPA-----RMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSVA 891 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 N RLA S + ++ Q ++ D + E R R L Sbjct: 892 -----NVRLARKCSRRVVSLYTEIGVGQNAKFVEVTPDTSLEAPDEAMFRMQLRERLLHV 946 Query: 232 MSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L PRE + + R E+ +LE + S + VS+E +R+IE A K++ Sbjct: 947 LDRLPPREGHVLKLRHGLEDGKCRSLEQIGSIYHVSKEWIRKIEKSAMSKLR 998 >gi|197723819|gb|ACH72689.1| RNA polymerase sigma-37 factor [Listeria marthii] Length = 257 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 129/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|167770714|ref|ZP_02442767.1| hypothetical protein ANACOL_02060 [Anaerotruncus colihominis DSM 17241] gi|167667309|gb|EDS11439.1| hypothetical protein ANACOL_02060 [Anaerotruncus colihominis DSM 17241] Length = 243 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 32/88 (36%), Positives = 54/88 (61%), Gaps = 2/88 (2%) Query: 19 YIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 YI+ +P L ++EE ++ ++ EH D +A L +LRLVV IA + G+ + + Sbjct: 32 YINGPETLPAPLSREEEQIVFRKLEEH-DEAAKETLTVHNLRLVVYIAKKFESTGICVED 90 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYS 105 ++S G IGL++AV F P++ +LATY+ Sbjct: 91 LISIGTIGLIKAVNTFCPQKNIKLATYA 118 >gi|302520387|ref|ZP_07272729.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] gi|302429282|gb|EFL01098.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] Length = 338 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 117 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 176 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +AK L VSE Sbjct: 177 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELAKALGVSED 230 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 231 DVVDGLAVGNAYTA--SSLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 284 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 285 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 335 >gi|319649653|ref|ZP_08003809.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] gi|317398815|gb|EFV79497.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] Length = 239 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 35/94 (37%), Positives = 59/94 (62%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++EE +L K + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 38 PLSKEEEEMLLIKLPK--GDKAARSILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|134298554|ref|YP_001112050.1| sporulation sigma factor SigE [Desulfotomaculum reducens MI-1] gi|134051254|gb|ABO49225.1| RNA polymerase, sigma 29 subunit, SigE [Desulfotomaculum reducens MI-1] Length = 241 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 34/79 (43%), Positives = 48/79 (60%), Gaps = 1/79 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE L +R + GDL + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PPLSIDEEIDLIERLGD-GDLKVKNVLIERNLRLVVYIARKFENTGIGIEDLVSIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYS 105 ++AV FDP + +LATY+ Sbjct: 98 IKAVNTFDPHKKIKLATYA 116 >gi|169823706|ref|YP_001691317.1| RNA polymerase sigma B factor [Finegoldia magna ATCC 29328] gi|302380124|ref|ZP_07268597.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna ACS-171-V-Col3] gi|303234447|ref|ZP_07321085.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna BVS033A4] gi|167830511|dbj|BAG07427.1| RNA polymerase sigma B factor [Finegoldia magna ATCC 29328] gi|302312066|gb|EFK94074.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna ACS-171-V-Col3] gi|302494402|gb|EFL54170.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna BVS033A4] Length = 258 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 57/253 (22%), Positives = 119/253 (47%), Gaps = 16/253 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +++E D LV +L + +A Y G G+ ++ IGL+ A+ ++DP +G+ Sbjct: 20 KFQETRDKKTRDTLVEKNLYIAEILAKKYTGRGIEYDDLYQVACIGLIYAIDRYDPSKGY 79 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++Y+ I +++Y ++++ + L + K HL K V Sbjct: 80 EFSSYATPTIVGEIKKYFRDKGWVIRVPRRIQE--LNKKVATAKVHLSQTMQ---KSPTV 134 Query: 160 VAIAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IA L++S EV+ + ++ +SL+ I+ S+++ L+ G+E + Sbjct: 135 EDIADYLSISNEEVLEVLEGAKVYAPQSLDQSIDQSNEDRETNLSDLI----GEEDKDML 190 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 K E R+++ R M LN ER+I R + + ++ E ++S+ V ++E + Sbjct: 191 KFE---NRDLINRCMQDLNKVERKILLGRYFDKKTQIV--IAEELDISQMTVSRMEKKIL 245 Query: 278 KKVQESIQKQVEL 290 KK + ++++Q+E Sbjct: 246 KKFKAALKEQLEF 258 >gi|297157365|gb|ADI07077.1| putative sigma factor [Streptomyces bingchenggensis BCW-1] Length = 242 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 109/234 (46%), Gaps = 19/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 22 LVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVGE 81 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + W+ V++ + RL L ++ + + V +A++L++SE Sbjct: 82 IKRHFRDKGWA-VRVPRRLQELRL-----SLTTATAELSQRHGRAPTVHELAEQLSISEE 135 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 136 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLKP 186 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE++I R +T ++ E +S+ V ++ AR +++E + Sbjct: 187 LLEDLPPREKKILLLRFF--GNMTQSQIAQEVGISQMHVSRLLARTLAQLRERL 238 >gi|153854402|ref|ZP_01995680.1| hypothetical protein DORLON_01675 [Dorea longicatena DSM 13814] gi|149752928|gb|EDM62859.1| hypothetical protein DORLON_01675 [Dorea longicatena DSM 13814] Length = 230 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 36/84 (42%), Positives = 51/84 (60%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E+Y + K Y E GDL A H L+ +LRLV I Y+ + +++S G IGL Sbjct: 30 PLTAAEEKYYVQK-YTE-GDLEAKHILIERNLRLVAHIVKKYQPPPEEMEDLLSIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 M+AV FDPE+ RLATY+ I+ Sbjct: 88 MKAVVTFDPEKSARLATYAARCIE 111 >gi|111225338|ref|YP_716132.1| SigH putative RNA polymerase sigma factor [Frankia alni ACN14a] gi|111152870|emb|CAJ64617.1| SigH putative RNA polymerase sigma factor [Frankia alni ACN14a] Length = 299 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 115/241 (47%), Gaps = 30/241 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++V IGL+++V +FDPERG +TY+ I Sbjct: 77 QLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVDRFDPERGVEFSTYATPTIVG 136 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNL-KPEQVVAIAKKL 166 ++ + + W++ R+ L+ LK L T L + V IA+ L Sbjct: 137 EIKRHFRDKGWAI----------RVPRRLQELKLSLTKATSELSQTLGRSPTVSEIARHL 186 Query: 167 NVSESEVISMNCRLAGDESLNA--LINSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKN 223 +SE +V L G ES NA ++ +S + V D G Q++ L E R++ Sbjct: 187 QMSEEDV------LEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQDESLEGVEYRES 240 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +L + L PRE+RI R +T +++E +S+ V ++ AR +++ Sbjct: 241 LKPLLEK----LPPREKRILLLRFFGN--MTQSQIATELGISQMHVSRLLARTLAQLRRG 294 Query: 284 I 284 + Sbjct: 295 L 295 >gi|197723817|gb|ACH72688.1| RNA polymerase sigma-37 factor [Listeria marthii] Length = 256 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 67/269 (24%), Positives = 130/269 (48%), Gaps = 36/269 (13%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 11 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 70 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 71 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 124 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 125 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 181 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-- 261 + DG E+V N+R +L + + VL+ RE++I + +EN S + Sbjct: 182 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQY-------TFIENRSQKET 226 Query: 262 ---FEVSRERVRQIEARAFKKVQESIQKQ 287 ++S+ V +I+ +A KK++E++Q + Sbjct: 227 GELLDISQMHVSRIQRQAIKKLREALQNE 255 >gi|261366888|ref|ZP_05979771.1| RNA polymerase sigma-G factor [Subdoligranulum variabile DSM 15176] gi|282571002|gb|EFB76537.1| RNA polymerase sigma-G factor [Subdoligranulum variabile DSM 15176] Length = 260 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/260 (24%), Positives = 122/260 (46%), Gaps = 18/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L + E+ L + R GD A +++ +LRLV+ + + G + ++ G I Sbjct: 15 QLPVLSETEKSALIRAAR-AGDAEARRKMIQGNLRLVLSVVQKFANRGENLDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FDP R +TY + I ++ + LR + V++ + + L ++ R + Sbjct: 74 GLIKAIDHFDPSLQVRFSTYGVPMIVGEIRRF-LRDNNAVRVSRSI--RDLAYHSMRARE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 LQ +N P ++ IA ++ S V + SL + S ++S D L Sbjct: 131 ALQ--KENGRDP-KISEIAARVGASPENVAMALESVVEPASLYEPVYSDGEDSFAIVDQL 187 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 +D G+E + + M ++ L+ RERRI R L T ++ E + Sbjct: 188 -HDATGEESWISDI--------MFRDTVKSLSARERRIIAMRYLGGK--TQMQVAREIGI 236 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A +++E I Sbjct: 237 SQAQVSRLEKGALNRIKEQI 256 >gi|16802936|ref|NP_464421.1| RNA polymerase sigma factor SigB [Listeria monocytogenes EGD-e] gi|47094902|ref|ZP_00232516.1| RNA polymerase sigma-B factor [Listeria monocytogenes str. 1/2a F6854] gi|224499433|ref|ZP_03667782.1| RNA polymerase sigma factor SigB [Listeria monocytogenes Finland 1988] gi|224503136|ref|ZP_03671443.1| RNA polymerase sigma factor SigB [Listeria monocytogenes FSL R2-561] gi|254827839|ref|ZP_05232526.1| SigB [Listeria monocytogenes FSL N3-165] gi|254832139|ref|ZP_05236794.1| RNA polymerase sigma factor SigB [Listeria monocytogenes 10403S] gi|254898932|ref|ZP_05258856.1| RNA polymerase sigma factor SigB [Listeria monocytogenes J0161] gi|254911580|ref|ZP_05261592.1| RNA polymerase sigma-B factor [Listeria monocytogenes J2818] gi|254935906|ref|ZP_05267603.1| RNA polymerase sigma-B factor [Listeria monocytogenes F6900] gi|284801225|ref|YP_003413090.1| RNA polymerase sigma factor SigB [Listeria monocytogenes 08-5578] gi|284994367|ref|YP_003416135.1| RNA polymerase sigma factor SigB [Listeria monocytogenes 08-5923] gi|289434163|ref|YP_003464035.1| RNA polymerase sigma-B factor SigB [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|315281577|ref|ZP_07870178.1| RNA polymerase sigma-B factor [Listeria marthii FSL S4-120] gi|22770508|gb|AAN06629.1|AF497201_1 sigma factor B [Listeria monocytogenes] gi|22770512|gb|AAN06631.1|AF497203_1 sigma factor B [Listeria monocytogenes] gi|22770532|gb|AAN06641.1|AF497213_1 sigma factor B [Listeria monocytogenes] gi|3298587|gb|AAC38791.1| Sigma B [Listeria monocytogenes] gi|16410298|emb|CAC98973.1| RNA polymerase sigma-37 factor (sigma-B) [Listeria monocytogenes EGD-e] gi|47016784|gb|EAL07703.1| RNA polymerase sigma-B factor [Listeria monocytogenes str. 1/2a F6854] gi|66968488|gb|AAY59623.1| SigB [Listeria seeligeri] gi|112363462|gb|ABI16056.1| sigma B [Listeria monocytogenes] gi|153582303|emb|CAO79793.1| sigma factor B [Listeria monocytogenes] gi|153582305|emb|CAO79794.1| sigma factor B [Listeria monocytogenes] gi|223700498|gb|ACN20365.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700502|gb|ACN20368.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700506|gb|ACN20371.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700514|gb|ACN20377.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700518|gb|ACN20380.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700522|gb|ACN20383.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700526|gb|ACN20386.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700530|gb|ACN20389.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700534|gb|ACN20392.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700538|gb|ACN20395.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700542|gb|ACN20398.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700546|gb|ACN20401.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700550|gb|ACN20404.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700554|gb|ACN20407.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700558|gb|ACN20410.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700562|gb|ACN20413.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700566|gb|ACN20416.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700570|gb|ACN20419.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700574|gb|ACN20422.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700578|gb|ACN20425.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700582|gb|ACN20428.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700586|gb|ACN20431.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700590|gb|ACN20434.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700594|gb|ACN20437.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700598|gb|ACN20440.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700602|gb|ACN20443.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700606|gb|ACN20446.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700610|gb|ACN20449.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700614|gb|ACN20452.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700618|gb|ACN20455.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700622|gb|ACN20458.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700626|gb|ACN20461.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700630|gb|ACN20464.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700634|gb|ACN20467.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700638|gb|ACN20470.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700642|gb|ACN20473.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700646|gb|ACN20476.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700650|gb|ACN20479.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700654|gb|ACN20482.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700658|gb|ACN20485.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700662|gb|ACN20488.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700666|gb|ACN20491.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700670|gb|ACN20494.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700674|gb|ACN20497.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700678|gb|ACN20500.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700682|gb|ACN20503.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700686|gb|ACN20506.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700690|gb|ACN20509.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700694|gb|ACN20512.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700698|gb|ACN20515.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700702|gb|ACN20518.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700706|gb|ACN20521.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700710|gb|ACN20524.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700714|gb|ACN20527.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700718|gb|ACN20530.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700722|gb|ACN20533.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700726|gb|ACN20536.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700730|gb|ACN20539.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700734|gb|ACN20542.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700738|gb|ACN20545.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700742|gb|ACN20548.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700746|gb|ACN20551.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700750|gb|ACN20554.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700754|gb|ACN20557.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700758|gb|ACN20560.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700762|gb|ACN20563.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700766|gb|ACN20566.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700770|gb|ACN20569.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700774|gb|ACN20572.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700778|gb|ACN20575.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700782|gb|ACN20578.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700786|gb|ACN20581.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700790|gb|ACN20584.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700794|gb|ACN20587.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700798|gb|ACN20590.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700802|gb|ACN20593.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700806|gb|ACN20596.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700810|gb|ACN20599.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700814|gb|ACN20602.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700818|gb|ACN20605.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700822|gb|ACN20608.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700826|gb|ACN20611.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700830|gb|ACN20614.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700834|gb|ACN20617.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700838|gb|ACN20620.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700842|gb|ACN20623.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700846|gb|ACN20626.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700850|gb|ACN20629.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700854|gb|ACN20632.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700858|gb|ACN20635.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700862|gb|ACN20638.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700866|gb|ACN20641.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700870|gb|ACN20644.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700874|gb|ACN20647.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700878|gb|ACN20650.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700882|gb|ACN20653.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700886|gb|ACN20656.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700890|gb|ACN20659.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700894|gb|ACN20662.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700898|gb|ACN20665.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700902|gb|ACN20668.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700906|gb|ACN20671.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700910|gb|ACN20674.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700914|gb|ACN20677.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700918|gb|ACN20680.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700922|gb|ACN20683.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700926|gb|ACN20686.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700930|gb|ACN20689.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700934|gb|ACN20692.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700938|gb|ACN20695.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700942|gb|ACN20698.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700946|gb|ACN20701.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700950|gb|ACN20704.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700954|gb|ACN20707.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700958|gb|ACN20710.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700962|gb|ACN20713.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700966|gb|ACN20716.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700970|gb|ACN20719.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700974|gb|ACN20722.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700978|gb|ACN20725.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700982|gb|ACN20728.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700986|gb|ACN20731.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700990|gb|ACN20734.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700994|gb|ACN20737.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|223700998|gb|ACN20740.1| RNA polymerase sigma factor SigB [Listeria monocytogenes] gi|258600220|gb|EEW13545.1| SigB [Listeria monocytogenes FSL N3-165] gi|258608494|gb|EEW21102.1| RNA polymerase sigma-B factor [Listeria monocytogenes F6900] gi|284056787|gb|ADB67728.1| RNA polymerase sigma factor SigB [Listeria monocytogenes 08-5578] gi|284059834|gb|ADB70773.1| RNA polymerase sigma factor SigB [Listeria monocytogenes 08-5923] gi|289170407|emb|CBH26947.1| RNA polymerase sigma-B factor SigB [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|293589526|gb|EFF97860.1| RNA polymerase sigma-B factor [Listeria monocytogenes J2818] gi|302034427|gb|ADK92367.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034429|gb|ADK92368.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034431|gb|ADK92369.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034433|gb|ADK92370.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034439|gb|ADK92373.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034441|gb|ADK92374.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034443|gb|ADK92375.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034445|gb|ADK92376.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|313614786|gb|EFR88329.1| RNA polymerase sigma-B factor [Listeria marthii FSL S4-120] Length = 259 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 129/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|46907127|ref|YP_013516.1| RNA polymerase sigma factor SigB [Listeria monocytogenes serotype 4b str. F2365] gi|47092103|ref|ZP_00229896.1| RNA polymerase sigma-B factor [Listeria monocytogenes str. 4b H7858] gi|217965008|ref|YP_002350686.1| RNA polymerase sigma-B factor [Listeria monocytogenes HCC23] gi|226223514|ref|YP_002757621.1| RNA polymerase sigma-37 factor (sigma-B) [Listeria monocytogenes Clip81459] gi|254823836|ref|ZP_05228837.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL J1-194] gi|254852389|ref|ZP_05241737.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL R2-503] gi|254931278|ref|ZP_05264637.1| RNA polymerase sigma B [Listeria monocytogenes HPB2262] gi|254994246|ref|ZP_05276436.1| RNA polymerase sigma factor SigB [Listeria monocytogenes FSL J2-064] gi|255521165|ref|ZP_05388402.1| RNA polymerase sigma factor SigB [Listeria monocytogenes FSL J1-175] gi|290892914|ref|ZP_06555904.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL J2-071] gi|300764104|ref|ZP_07074099.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL N1-017] gi|22770514|gb|AAN06632.1|AF497204_1 sigma factor B [Listeria monocytogenes] gi|22770518|gb|AAN06634.1|AF497206_1 sigma factor B [Listeria monocytogenes] gi|22770520|gb|AAN06635.1|AF497207_1 sigma factor B [Listeria monocytogenes] gi|22770522|gb|AAN06636.1|AF497208_1 sigma factor B [Listeria monocytogenes] gi|22770524|gb|AAN06637.1|AF497209_1 sigma factor B [Listeria monocytogenes] gi|22770526|gb|AAN06638.1|AF497210_1 sigma factor B [Listeria monocytogenes] gi|22770528|gb|AAN06639.1|AF497211_1 sigma factor B [Listeria monocytogenes] gi|22770530|gb|AAN06640.1|AF497212_1 sigma factor B [Listeria monocytogenes] gi|3298584|gb|AAC38789.1| sigma B [Listeria monocytogenes] gi|3298589|gb|AAC38792.1| Sigma B [Listeria monocytogenes] gi|26000673|gb|AAN75465.1| SigB [Listeria monocytogenes] gi|46880394|gb|AAT03693.1| RNA polymerase sigma-B factor [Listeria monocytogenes serotype 4b str. F2365] gi|47019543|gb|EAL10283.1| RNA polymerase sigma-B factor [Listeria monocytogenes str. 4b H7858] gi|112960117|gb|ABI27557.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960121|gb|ABI27560.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960125|gb|ABI27563.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960129|gb|ABI27566.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960133|gb|ABI27569.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960137|gb|ABI27572.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960141|gb|ABI27575.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960145|gb|ABI27578.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960149|gb|ABI27581.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960153|gb|ABI27584.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960157|gb|ABI27587.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960161|gb|ABI27590.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960165|gb|ABI27593.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960169|gb|ABI27596.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960173|gb|ABI27599.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960177|gb|ABI27602.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960181|gb|ABI27605.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960185|gb|ABI27608.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960189|gb|ABI27611.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960193|gb|ABI27614.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960197|gb|ABI27617.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960201|gb|ABI27620.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960205|gb|ABI27623.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960209|gb|ABI27626.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960213|gb|ABI27629.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960217|gb|ABI27632.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960221|gb|ABI27635.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960225|gb|ABI27638.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960229|gb|ABI27641.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960233|gb|ABI27644.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960237|gb|ABI27647.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960241|gb|ABI27650.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960245|gb|ABI27653.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960249|gb|ABI27656.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960253|gb|ABI27659.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960257|gb|ABI27662.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960261|gb|ABI27665.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960265|gb|ABI27668.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960269|gb|ABI27671.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960273|gb|ABI27674.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960277|gb|ABI27677.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960281|gb|ABI27680.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960285|gb|ABI27683.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960289|gb|ABI27686.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960293|gb|ABI27689.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960297|gb|ABI27692.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960301|gb|ABI27695.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960305|gb|ABI27698.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960309|gb|ABI27701.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960313|gb|ABI27704.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960317|gb|ABI27707.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960321|gb|ABI27710.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960325|gb|ABI27713.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960329|gb|ABI27716.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960333|gb|ABI27719.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960337|gb|ABI27722.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960341|gb|ABI27725.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960345|gb|ABI27728.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960349|gb|ABI27731.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960353|gb|ABI27734.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960357|gb|ABI27737.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112960361|gb|ABI27740.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962434|gb|ABI28932.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962439|gb|ABI28936.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962444|gb|ABI28940.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962449|gb|ABI28944.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962454|gb|ABI28948.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962459|gb|ABI28952.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962464|gb|ABI28956.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962469|gb|ABI28960.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962474|gb|ABI28964.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962479|gb|ABI28968.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962484|gb|ABI28972.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962489|gb|ABI28976.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962494|gb|ABI28980.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962499|gb|ABI28984.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962504|gb|ABI28988.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962509|gb|ABI28992.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962514|gb|ABI28996.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962519|gb|ABI29000.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962524|gb|ABI29004.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962529|gb|ABI29008.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962534|gb|ABI29012.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962539|gb|ABI29016.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962544|gb|ABI29020.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962549|gb|ABI29024.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962554|gb|ABI29028.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962559|gb|ABI29032.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962564|gb|ABI29036.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962569|gb|ABI29040.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962574|gb|ABI29044.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962579|gb|ABI29048.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962584|gb|ABI29052.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962589|gb|ABI29056.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962594|gb|ABI29060.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962599|gb|ABI29064.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962604|gb|ABI29068.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962609|gb|ABI29072.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962614|gb|ABI29076.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962619|gb|ABI29080.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962624|gb|ABI29084.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962629|gb|ABI29088.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962634|gb|ABI29092.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962644|gb|ABI29100.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962649|gb|ABI29104.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962654|gb|ABI29108.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962659|gb|ABI29112.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962664|gb|ABI29116.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962669|gb|ABI29120.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962674|gb|ABI29124.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962679|gb|ABI29128.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962684|gb|ABI29132.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962689|gb|ABI29136.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962694|gb|ABI29140.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962699|gb|ABI29144.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962704|gb|ABI29148.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962709|gb|ABI29152.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962714|gb|ABI29156.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962719|gb|ABI29160.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962724|gb|ABI29164.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962729|gb|ABI29168.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962734|gb|ABI29172.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962739|gb|ABI29176.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|112962744|gb|ABI29180.1| RNA polymerase sigma-B factor [Listeria monocytogenes] gi|118084623|gb|ABI16055.2| sigma B [Listeria monocytogenes] gi|118084625|gb|ABI16057.2| sigma B [Listeria monocytogenes] gi|153582301|emb|CAO79792.1| sigma factor B [Listeria monocytogenes] gi|153582307|emb|CAO79795.1| sigma factor B [Listeria monocytogenes] gi|217334278|gb|ACK40072.1| RNA polymerase sigma-B factor [Listeria monocytogenes HCC23] gi|225875976|emb|CAS04680.1| RNA polymerase sigma-37 factor (sigma-B) [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258605695|gb|EEW18303.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL R2-503] gi|290557490|gb|EFD91014.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL J2-071] gi|293582827|gb|EFF94859.1| RNA polymerase sigma B [Listeria monocytogenes HPB2262] gi|293593059|gb|EFG00820.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL J1-194] gi|300515094|gb|EFK42146.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL N1-017] gi|302034435|gb|ADK92371.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|302034437|gb|ADK92372.1| RNA polymerase sigma factor [Listeria monocytogenes] gi|307570432|emb|CAR83611.1| RNA polymerase sigma-B factor [Listeria monocytogenes L99] gi|313609777|gb|EFR85233.1| RNA polymerase sigma-B factor [Listeria monocytogenes FSL F2-208] gi|328467051|gb|EGF38146.1| RNA polymerase sigma factor SigB [Listeria monocytogenes 1816] gi|328475458|gb|EGF46224.1| RNA polymerase sigma factor SigB [Listeria monocytogenes 220] gi|332311302|gb|EGJ24397.1| RNA polymerase sigma-B factor [Listeria monocytogenes str. Scott A] Length = 259 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 67/269 (24%), Positives = 130/269 (48%), Gaps = 36/269 (13%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-- 261 + DG E+V N+R +L + + VL+ RE++I + +EN S + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQF-------TFIENRSQKET 227 Query: 262 ---FEVSRERVRQIEARAFKKVQESIQKQ 287 ++S+ V +I+ +A KK++E++Q + Sbjct: 228 GELLDISQMHVSRIQRQAIKKLREALQNE 256 >gi|318060769|ref|ZP_07979492.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actG] gi|318078700|ref|ZP_07986032.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] gi|333025872|ref|ZP_08453936.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] gi|332745724|gb|EGJ76165.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] Length = 367 Score = 62.0 bits (149), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 146 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 205 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +AK L VSE Sbjct: 206 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELAKALGVSED 259 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 260 DVVDGLAVGNAYTA--SSLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 313 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 314 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 364 >gi|313887713|ref|ZP_07821395.1| putative RNA polymerase sigma-B factor [Peptoniphilus harei ACS-146-V-Sch2b] gi|312846322|gb|EFR33701.1| putative RNA polymerase sigma-B factor [Peptoniphilus harei ACS-146-V-Sch2b] Length = 261 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 56/264 (21%), Positives = 122/264 (46%), Gaps = 17/264 (6%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K+E L K Y E D L+ HL + ++ Y G G+ ++ +IGL+ Sbjct: 13 LTKEERKDLFKEYHETKDQEIRDILIEEHLYIAEILSKKYTGRGIDYDDIYQVASIGLIY 72 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++++DPE+GF ++++ I +++Y + +++ +R+ +++ + Sbjct: 73 AIERYDPEKGFEFSSFATPTIIGEIKKYFRDNGWTIRVP-----RRIQELSKKISNATVS 127 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQDWLVY 206 ++ K + IA+ L+ + EV+ ++ +SL+ S D++ D + Sbjct: 128 LSQKYQKTPTIDEIAEYLDSTPEEVMEAMEASKVYTPQSLDVTYESGDESEVNLSDLI-- 185 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 G E+ +K E + ++M L+ ER I R N T ++ + +S+ Sbjct: 186 ---GVEEAYFDKIE---SNDFFKKAMENLDEVERTILIDRYF--NKKTQVVIAKKLNISQ 237 Query: 267 ERVRQIEARAFKKVQESIQKQVEL 290 V +IE + +K+++ + K +E+ Sbjct: 238 MTVSRIEKKVLEKMRKEVAKTMEV 261 >gi|225175855|ref|ZP_03729848.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Dethiobacter alkaliphilus AHT 1] gi|225168779|gb|EEG77580.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Dethiobacter alkaliphilus AHT 1] Length = 268 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/269 (23%), Positives = 121/269 (44%), Gaps = 29/269 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ L K+ + GD A L+ +LRLV+ + ++ G + ++ G I Sbjct: 15 KLPVLKSARMKELFKKM-QSGDEHARQELINGNLRLVLSVLQRFKNRGENLDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR------SWSLVKIGTTANQKRLFFN 138 GLM+AV F + +TY++ I ++ Y+ S SL + A Q R Sbjct: 74 GLMKAVDNFSLDHNVHFSTYAVPMIIGEIKRYLRDNNAVRVSRSLKMLAHKAQQSR---- 129 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + +T L+ + IA L+++ EV+ + SL+ + + Sbjct: 130 --------EELTRKLLREPTLKEIAADLDITPEEVVFAYQAINDPLSLHDPVFQDTTDPV 181 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D LV D ++ +E L ++M +L+ RERRI E+R + T + Sbjct: 182 FVMD-LVSDQSSSAEIWVED-------ITLRQAMEILSERERRILESRFFEGRTQT--EI 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++E +S+ +V +IE A ++V+ + ++ Sbjct: 232 ANEIGISQAQVSRIEKSALRQVRHHLAEE 260 >gi|188585936|ref|YP_001917481.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350623|gb|ACB84893.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 239 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 35/97 (36%), Positives = 56/97 (57%), Gaps = 1/97 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +EE L ++ + GD L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLTNEEEKDLLEKLK-AGDKKVRSTLIERNLRLVVYIARKFENTGVNIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 ++AV FDP++ +LATY+ I+ + Y+ R+ L Sbjct: 96 IKAVNTFDPQKKIKLATYASKCIENEILMYLRRNNKL 132 >gi|182418945|ref|ZP_02950202.1| RNA polymerase sigma-E factor [Clostridium butyricum 5521] gi|237668989|ref|ZP_04528973.1| RNA polymerase sigma-E factor [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377228|gb|EDT74796.1| RNA polymerase sigma-E factor [Clostridium butyricum 5521] gi|237657337|gb|EEP54893.1| RNA polymerase sigma-E factor [Clostridium butyricum E4 str. BoNT E BL5262] Length = 235 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 35/94 (37%), Positives = 55/94 (58%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L K+ +GD L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKDEEEELLKKLN-NGDEKIRSTLIERNLRLVVYIARKFENTGVYVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 125 >gi|182418995|ref|ZP_02950251.1| RNA polymerase sigma-K factor [Clostridium butyricum 5521] gi|182377278|gb|EDT74846.1| RNA polymerase sigma-K factor [Clostridium butyricum 5521] Length = 232 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 35/96 (36%), Positives = 56/96 (58%), Gaps = 2/96 (2%) Query: 16 LSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L+ YI P+ L+++EE + K+++E GD SA L+ +LRLV I Y Sbjct: 17 LTGYITNNNTFPLPLDEEEEQMYLKKFKE-GDKSAKSILIERNLRLVAHIVKKYSFPNKD 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + E++S G +GL++A+ FD +G RLATY+ I+ Sbjct: 76 VDELISIGTVGLIKAIDSFDSSKGTRLATYASRCIE 111 >gi|313619763|gb|EFR91370.1| RNA polymerase sigma-B factor [Listeria innocua FSL S4-378] Length = 259 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 129/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|3386359|gb|AAC34827.1| RNA polymerase sigma B [Listeria monocytogenes] Length = 266 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 67/269 (24%), Positives = 130/269 (48%), Gaps = 36/269 (13%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 19 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 78 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 79 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 132 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 133 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 189 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-- 261 + DG E+V N+R +L + + VL+ RE++I + +EN S + Sbjct: 190 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQF-------TFIENRSQKET 234 Query: 262 ---FEVSRERVRQIEARAFKKVQESIQKQ 287 ++S+ V +I+ +A KK++E++Q + Sbjct: 235 GELLDISQMHVSRIQRQAIKKLREALQNE 263 >gi|313895463|ref|ZP_07829020.1| Sigma-70 region 2 [Selenomonas sp. oral taxon 137 str. F0430] gi|312976358|gb|EFR41816.1| Sigma-70 region 2 [Selenomonas sp. oral taxon 137 str. F0430] Length = 208 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 32/109 (29%), Positives = 62/109 (56%), Gaps = 3/109 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP- 74 + Y+ ++ + L EE L + Y+E GD A R++ ++ LV + M YR LP Sbjct: 2 FADYVKKLSAVEKLRPDEERALWRAYKEKGDEGARRRIIEAYQPLVFREVMPYRA--LPA 59 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 + + V EG IGL++AV+++DP RG + Y++ ++ + +++ R ++ Sbjct: 60 VMDAVQEGTIGLIEAVERYDPARGVAFSLYAVHRVRGCILDFLRREGTV 108 >gi|307330885|ref|ZP_07610018.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306883426|gb|EFN14479.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 263 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 109/234 (46%), Gaps = 19/234 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 43 LVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVGE 102 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + W+ V++ + RL L ++ + + V +A++L++SE Sbjct: 103 IKRHFRDKGWA-VRVPRRLQELRL-----SLTTATAELSQRHGRAPTVHELAEQLSISEE 156 Query: 172 EVISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV L G ES NA S D + + V D G E +E E R L Sbjct: 157 EV------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLKP 207 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE++I R +T ++ E +S+ V ++ AR ++++ + Sbjct: 208 LLEDLPPREKKILLLRFF--GNMTQSQIAQEVGISQMHVSRLLARTLAQLRDKL 259 >gi|296133648|ref|YP_003640895.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola sp. JR] gi|296032226|gb|ADG82994.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola potens JR] Length = 242 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 34/94 (36%), Positives = 55/94 (58%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E Y+++K GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 41 PLSNAEENYLISKL--ATGDAAVRSVLIERNLRLVVYIARKFENTGVGIEDLVSIGTIGL 98 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY+ I+ + Y+ R+ Sbjct: 99 IKAVNTFDPAKKIKLATYASRCIENEILMYLRRN 132 >gi|320529893|ref|ZP_08030970.1| sigma-70 region 2 [Selenomonas artemidis F0399] gi|320137911|gb|EFW29816.1| sigma-70 region 2 [Selenomonas artemidis F0399] Length = 208 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 32/109 (29%), Positives = 62/109 (56%), Gaps = 3/109 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP- 74 + Y+ ++ + L EE L + Y+E GD A R++ ++ LV + M YR LP Sbjct: 2 FADYVKKLSAVKKLRPDEERALWRAYKEKGDEGARRRIIEAYQPLVFREVMPYRA--LPA 59 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 + + V EG IGL++AV+++DP RG + Y++ ++ + +++ R ++ Sbjct: 60 VMDAVQEGTIGLIEAVERYDPARGVAFSLYAVHRVRGCILDFLRREGTV 108 >gi|255022641|ref|ZP_05294627.1| RNA polymerase sigma factor SigB [Listeria monocytogenes FSL J1-208] gi|22770504|gb|AAN06627.1|AF497199_1 sigma factor B [Listeria monocytogenes] Length = 259 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 129/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|315302306|ref|ZP_07873197.1| RNA polymerase sigma-B factor [Listeria ivanovii FSL F6-596] gi|313629329|gb|EFR97571.1| RNA polymerase sigma-B factor [Listeria ivanovii FSL F6-596] Length = 259 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQEDGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|300814743|ref|ZP_07094991.1| putative RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 836 str. F0141] gi|300511130|gb|EFK38382.1| putative RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 258 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 65/270 (24%), Positives = 127/270 (47%), Gaps = 29/270 (10%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K+E+ L Y + D L+ +L + ++ Y G G+ ++ +IGL+ Sbjct: 10 LTKEEKKELFLEYYKTKDQDLRTILIEEYLYIAEILSKKYIGKGIDYDDIYQVASIGLIY 69 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +V +FDP +G+ ++++ I +++Y + W++ R+ ++ L + Sbjct: 70 SVDRFDPTKGYEFSSFATPTIIGEIKKYFRDKGWTI----------RVPRRIQELSKKI- 118 Query: 148 AITDNNLKPE-----QVVAIAKKLNVSESEVI-SMNC-RLAGDESLNALINSSDKNSSQW 200 I N L E V IA+ LN S E+I SM ++ +SL+ + +S D Sbjct: 119 MIAKNKLSQEYQRTPTVEDIAEFLNASPEEIIESMEASKVYTPQSLDIVYDSGDDKKMSL 178 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 QD + G+++ +K + K + L +SM LN E+ I R N T ++ Sbjct: 179 QDLI-----GEDEKYFDKIDLK---DFLLKSMKNLNEVEKTILIDRYF--NKKTQIVIAK 228 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQVEL 290 + +S+ V +IE + +K+++ I+K +E+ Sbjct: 229 KLNISQMTVSRIEKKVLEKMRKEIKKTMEV 258 >gi|152976264|ref|YP_001375781.1| sporulation sigma factor SigG [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025016|gb|ABS22786.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus cytotoxicus NVH 391-98] Length = 259 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 65/267 (24%), Positives = 127/267 (47%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ E + K +RE G+ SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNDE---MRKLFREMQSGETSAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 72 CIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I +N+ +P + IA+ L+V+ E++ +L+A+ + + D Sbjct: 127 QVREKLIAENSKEP-TAMDIAQVLDVTHEEIVF---------ALDAIQDPVSLFEPIYND 176 Query: 203 W----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D E+ +K+E+ L M LN RE+ I R Q T + Sbjct: 177 GGDPIFVMDQLSDEK---QKDEQWVEELALKEGMKRLNDREKMIIRKRFFQGK--TQMEV 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A K++ ++IQ Sbjct: 232 AEEIGISQAQVSRLEKSAIKQMNKTIQ 258 >gi|238800552|gb|ACR56097.1| RNA polymerase sigma factor SigB [Listeria innocua] Length = 248 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 129/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 1 KEKVYIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 60 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 61 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 114 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 115 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 171 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 172 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 221 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 222 ISQMHVSRIQRQAIKKLREALQNE 245 >gi|254519267|ref|ZP_05131323.1| sporulation sigma factor SigE [Clostridium sp. 7_2_43FAA] gi|226913016|gb|EEH98217.1| sporulation sigma factor SigE [Clostridium sp. 7_2_43FAA] Length = 235 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 30/77 (38%), Positives = 48/77 (62%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 HGD S L+ +LRLVV IA + G+ + +++S G IGL++AV F+PE+ +LAT Sbjct: 49 HGDESIRDILIERNLRLVVYIARKFENTGVCVEDLISVGTIGLIKAVNTFNPEKKIKLAT 108 Query: 104 YSMWWIKAAMQEYILRS 120 Y+ I+ + Y+ R+ Sbjct: 109 YASRCIENEILMYLRRN 125 >gi|3298591|gb|AAC38793.1| Sigma B [Listeria innocua] Length = 259 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 129/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|326790567|ref|YP_004308388.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium lentocellum DSM 5427] gi|326541331|gb|ADZ83190.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium lentocellum DSM 5427] Length = 239 Score = 61.6 bits (148), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 67/247 (27%), Positives = 116/247 (46%), Gaps = 30/247 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A + LV +L LV + + G + ++ G+IGL++++ KFD + + Sbjct: 12 QQGDEIAKNILVQENLGLVWSLVRRFSNRGYDMEDLFQIGSIGLLKSIDKFDLSFNVKFS 71 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ + LR ++K+ + K + +R LK L I + N +P + I Sbjct: 72 TYAVPMIVGEIKRF-LRDDGMIKVSRSL--KETAYKVRILKDEL--IRELNREP-TISEI 125 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-EER 221 A L++ EV+ A ESLNA+I Y DG+ L +K +E Sbjct: 126 AAGLDLQVEEVVEALESNAEIESLNAVI---------------YQGDGKPITLSDKIDEV 170 Query: 222 KNRRNMLTRSMSV------LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 +N L M + L P ER I R ++ T ++S ++S+ +V +IE R Sbjct: 171 PTLQNSLVDKMILTELIERLLPIEREIIHMRYFEDRTQT--EIASALDISQVQVSRIEKR 228 Query: 276 AFKKVQE 282 KK++E Sbjct: 229 ILKKMRE 235 >gi|325288837|ref|YP_004265018.1| RNA polymerase, sigma 29 subunit, SigE [Syntrophobotulus glycolicus DSM 8271] gi|324964238|gb|ADY55017.1| RNA polymerase, sigma 29 subunit, SigE [Syntrophobotulus glycolicus DSM 8271] Length = 250 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 31/77 (40%), Positives = 47/77 (61%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GDLS L+ +LRLVV I+ + G+ I ++VS G IGL++AV FDP + +LAT Sbjct: 64 KGDLSVKGTLIERNLRLVVYISRKFENTGISIEDLVSIGTIGLIKAVNTFDPTKKIKLAT 123 Query: 104 YSMWWIKAAMQEYILRS 120 Y+ I+ + Y+ R+ Sbjct: 124 YASRCIENEILMYLRRN 140 >gi|299538362|ref|ZP_07051645.1| RNA polymerase sigma-F factor [Lysinibacillus fusiformis ZC1] gi|298725949|gb|EFI66541.1| RNA polymerase sigma-F factor [Lysinibacillus fusiformis ZC1] Length = 247 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 58/243 (23%), Positives = 111/243 (45%), Gaps = 26/243 (10%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A R+V + RLV I + G+ + ++ G IGLM++V KFD + + Sbjct: 9 QQGDHEARKRMVEGNTRLVWSIVQRFTTRGVELEDLFQIGCIGLMKSVDKFDLTYDVKFS 68 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK----PEQ 158 TY++ I +Q + LR +VK+ + +R L ++ TD +K P Sbjct: 69 TYAVPMIIGEIQRF-LRDDGMVKVSRS---------IRELNFKIRHATDEFIKKNEHPPT 118 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +A+ L V+ E+++ + L SL+ + S+ +S D Q+ EK Sbjct: 119 IQELAQVLGVTTEEIVTASDALRDPASLHEQLYESEGDSITLMD----------QMKDEK 168 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E+ L ++ L PRE+ I R + T +++ +S+ +V ++E + Sbjct: 169 SEQPFDYIPLKEVLTRLEPREQSIIYLRYFSD--CTQTEIANRLGISQVQVSRLEKKILA 226 Query: 279 KVQ 281 +++ Sbjct: 227 QLK 229 >gi|295696453|ref|YP_003589691.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] gi|295412055|gb|ADG06547.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] Length = 242 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 35/79 (44%), Positives = 49/79 (62%), Gaps = 1/79 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++EE L R E GD S L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 40 PPLTREEEEALLVRLIE-GDESVRSTLIERNLRLVVYIARKFENTGIYIEDLVSIGTIGL 98 Query: 87 MQAVKKFDPERGFRLATYS 105 ++AV FDP++ +LATY+ Sbjct: 99 IKAVNTFDPQKRIKLATYA 117 >gi|323702293|ref|ZP_08113959.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323532783|gb|EGB22656.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 121 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 38/106 (35%), Positives = 60/106 (56%), Gaps = 3/106 (2%) Query: 9 IVNGEIGLSRYI-HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +VNG + L YI + P+ E++E Y L + + GD SA + LV +LRLV I Sbjct: 13 VVNGALALVSYITNNTFPQPLTEEEEAYYLEQLAK--GDESARNVLVERNLRLVAHIVKK 70 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + G + +++S G IGL++A+ F ++G RLATY+ I+ M Sbjct: 71 FDQTGEDVDDLISIGAIGLIKAINTFKTDKGTRLATYAARCIENEM 116 >gi|237668235|ref|ZP_04528219.1| RNA polymerase sigma-K factor (Sigma-27) [Clostridium butyricum E4 str. BoNT E BL5262] gi|237656583|gb|EEP54139.1| RNA polymerase sigma-K factor (Sigma-27) [Clostridium butyricum E4 str. BoNT E BL5262] Length = 146 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 35/96 (36%), Positives = 56/96 (58%), Gaps = 2/96 (2%) Query: 16 LSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L+ YI P+ L+++EE + K+++E GD SA L+ +LRLV I Y Sbjct: 17 LTGYITNNNTFPLPLDEEEEQMYLKKFKE-GDKSAKSILIERNLRLVAHIVKKYSFPNKD 75 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + E++S G +GL++A+ FD +G RLATY+ I+ Sbjct: 76 VDELISIGTVGLIKAIDSFDSSKGTRLATYASRCIE 111 >gi|292670483|ref|ZP_06603909.1| DNA-directed RNA polymerase sigma subunit RpoH [Selenomonas noxia ATCC 43541] gi|292647893|gb|EFF65865.1| DNA-directed RNA polymerase sigma subunit RpoH [Selenomonas noxia ATCC 43541] Length = 205 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 31/95 (32%), Positives = 58/95 (61%), Gaps = 1/95 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE+ L + Y+E GD SA R++ ++ LV + M YR + + + V EG IGL++ Sbjct: 10 LTPEEEHALWRAYKEEGDESARRRIIEAYQPLVFREVMPYRTMPV-VMDAVQEGTIGLIE 68 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 AV+++DP RG + Y++ ++ + +++ R S+ Sbjct: 69 AVERYDPTRGVAFSLYAVHRVRGRILDFLRREGSV 103 >gi|282881777|ref|ZP_06290435.1| RNA polymerase sigma-B factor [Peptoniphilus lacrimalis 315-B] gi|281298387|gb|EFA90825.1| RNA polymerase sigma-B factor [Peptoniphilus lacrimalis 315-B] Length = 261 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 65/270 (24%), Positives = 127/270 (47%), Gaps = 29/270 (10%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K+E+ L Y + D L+ +L + ++ Y G G+ ++ +IGL+ Sbjct: 13 LTKEEKKELFLEYYKTKDQDLRTILIEEYLYIAEILSKKYIGKGIDYDDIYQVASIGLIY 72 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +V +FDP +G+ ++++ I +++Y + W++ R+ ++ L + Sbjct: 73 SVDRFDPTKGYEFSSFATPTIIGEIKKYFRDKGWTI----------RVPRRIQELSKKI- 121 Query: 148 AITDNNLKPE-----QVVAIAKKLNVSESEVI-SMNC-RLAGDESLNALINSSDKNSSQW 200 I N L E V IA+ LN S E+I SM ++ +SL+ + +S D Sbjct: 122 MIAKNKLSQEYQRTPTVEDIAEFLNASPEEIIESMEASKVYTPQSLDIVYDSGDDKKMSL 181 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 QD + G+++ +K + K + L +SM LN E+ I R N T ++ Sbjct: 182 QDLI-----GEDEKYFDKIDLK---DFLLKSMKNLNEIEKTILIDRYF--NKKTQIVIAK 231 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQVEL 290 + +S+ V +IE + +K+++ I+K +E+ Sbjct: 232 KLNISQMTVSRIEKKVLEKMRKEIKKTMEV 261 >gi|225018358|ref|ZP_03707550.1| hypothetical protein CLOSTMETH_02302 [Clostridium methylpentosum DSM 5476] gi|224948875|gb|EEG30084.1| hypothetical protein CLOSTMETH_02302 [Clostridium methylpentosum DSM 5476] Length = 245 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 32/79 (40%), Positives = 49/79 (62%), Gaps = 1/79 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE V+ ++ E D A +L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 42 PPLTKDEERVVFQKLSEK-DPWARDQLIVHNLRLVVYIAKKFESTGIGVEDLISIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYS 105 ++AV F PE+ +LATY+ Sbjct: 101 IKAVNTFSPEKNIKLATYA 119 >gi|30266009|gb|AAN16082.1| SigB [Listeria ivanovii] gi|30266011|gb|AAN16083.1| SigB [Listeria ivanovii] Length = 259 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 66/265 (24%), Positives = 127/265 (47%), Gaps = 36/265 (13%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 16 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 75 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 76 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 129 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 130 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 186 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-----F 262 DG E+V N+R +L + + VL+ RE++I + +EN S + Sbjct: 187 DDGFERV--------NQRMLLEKVLPVLDEREQKILQY-------TFIENRSQKETGELL 231 Query: 263 EVSRERVRQIEARAFKKVQESIQKQ 287 ++S+ V +I+ +A KK++E++Q + Sbjct: 232 DISQMHVSRIQRQAIKKLREALQNE 256 >gi|255525678|ref|ZP_05392611.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium carboxidivorans P7] gi|296185436|ref|ZP_06853846.1| RNA polymerase sigma-G factor [Clostridium carboxidivorans P7] gi|255510664|gb|EET86971.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium carboxidivorans P7] gi|296050270|gb|EFG89694.1| RNA polymerase sigma-G factor [Clostridium carboxidivorans P7] Length = 257 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 67/281 (23%), Positives = 134/281 (47%), Gaps = 59/281 (20%) Query: 25 KIPMLEKQE--EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+++E E +L+ R +GD+S + + S+LRLV+ + + G + ++ G Sbjct: 15 KLPVLKEKEMKELLLSMR---NGDVSCREKFIKSNLRLVLSVIQRFNNRGENVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGL++++ FD + + +TY++ I ++ Y LR + +++ + R L Sbjct: 72 CIGLIKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYRAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I++NN +P V IAK+L V EV+ +L+A+ QD Sbjct: 127 QVRDRLISENNKEP-TVSQIAKELKVPREEVVF---------ALDAI-----------QD 165 Query: 203 WL-----VYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRER-----RIF 243 + +Y HDG + + + + N +NM + +M LN RE+ R F Sbjct: 166 PVSLFEPIY-HDGGDAIYVMDQISDN-KNMDDSWLENIAIKEAMKKLNDREKLILNLRFF 223 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + R E ++ E +S+ +V ++E A + +++ + Sbjct: 224 DGRTQME-------VADEIGISQAQVSRLEKTALRHMRKYV 257 >gi|302876403|ref|YP_003845036.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|307687066|ref|ZP_07629512.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|302579260|gb|ADL53272.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] Length = 427 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 63/241 (26%), Positives = 113/241 (46%), Gaps = 18/241 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYG---LPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A LV ++ +LV +IA+ Y+ + S++ G +GLM+A +KFD +G + +TY+ Sbjct: 181 ALDNLVNANKKLVWEIALRYKQFSTVSFDNSDMYQAGVLGLMKAAEKFDISKGNQFSTYA 240 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 WW++ ++ I + ++I +K + + + N + +A Sbjct: 241 TWWVRQSITRSIADYSTTIRIPVHMREK-----IIKYVSTENKFWNENGRVASKEELANL 295 Query: 166 LNVSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD-HDGQEQVLIEKEERK 222 L +S EV + + +A SL+ I + + S +++ D H E+ EE + Sbjct: 296 LGISSEEVNYLQVYQDVANLTSLDIPIGADE--GSFLGEFIPDDKHRSPEK---SAEEGE 350 Query: 223 NRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +R + L P+E RI R + TLE + V+RER+RQIEA+A K+ Sbjct: 351 LKRELKEICEGRLTPKETRILNFRFGFIDGRTHTLEEIGHVENVTRERIRQIEAKAISKL 410 Query: 281 Q 281 Q Sbjct: 411 Q 411 >gi|257055039|ref|YP_003132871.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Saccharomonospora viridis DSM 43017] gi|256584911|gb|ACU96044.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Saccharomonospora viridis DSM 43017] Length = 295 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 59/238 (24%), Positives = 107/238 (44%), Gaps = 24/238 (10%) Query: 57 HLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H +VK G G GLP +++++ G GL+ A++KFDPERG R TY+M I+ A Sbjct: 66 HYAPLVKYVAGRVGTGLPTHIDVADLIQSGIFGLVDAIEKFDPERGLRFETYAMQRIRGA 125 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + LRS V + + + RL L+ + +A +L ++ E Sbjct: 126 ILDD-LRSQDWVPRAVRSRAREIERAHERLGARLRRTPTD-------AEVAAELGITLRE 177 Query: 173 VISM--NCRLAGDESLNALINSS-DKNSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRN 226 + + RL +L+ L+ +S D + DG VL++++ R+ Sbjct: 178 LRDLYGQLRLTSVLALDDLMGASKDNGNGTGSPADTLPDDGAVDPAAVLVDQDNRRQ--- 234 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +++ LN R+R + + +TL + V+ RV Q+ RA +++ + Sbjct: 235 -LAEAIAQLNERDRIVVSLYYFEN--LTLAEIGKVLGVTESRVSQLHTRAVLRLRAKL 289 >gi|20808064|ref|NP_623235.1| sporulation sigma factor SigE [Thermoanaerobacter tengcongensis MB4] gi|20516645|gb|AAM24839.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 241 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 57/94 (60%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+++K E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSVEEESYLISKM--EKGDNEAKSILIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPRKKIKLATYASRCIENEILMYLRRN 131 >gi|323706112|ref|ZP_08117681.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323534556|gb|EGB24338.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 241 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 32/94 (34%), Positives = 57/94 (60%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E +++AK E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSAEEEMFLIAKM--ESGDNEAKSMLIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++++ F+P + +LATY+ I+ + Y+ R+ Sbjct: 98 IKSINTFNPRKKIKLATYASRCIENEILMYLRRN 131 >gi|254478789|ref|ZP_05092157.1| RNA polymerase sigma-E factor [Carboxydibrachium pacificum DSM 12653] gi|214035301|gb|EEB76007.1| RNA polymerase sigma-E factor [Carboxydibrachium pacificum DSM 12653] Length = 244 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 57/94 (60%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+++K E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 43 PLSVEEESYLISKM--EKGDNEAKSILIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 101 IKAINTFNPRKKIKLATYASRCIENEILMYLRRN 134 >gi|255026033|ref|ZP_05298019.1| RNA polymerase sigma factor SigB [Listeria monocytogenes FSL J2-003] Length = 259 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 129/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAXKKLREALQNE 256 >gi|253580606|ref|ZP_04857870.1| RNA polymerase [Ruminococcus sp. 5_1_39B_FAA] gi|251847977|gb|EES75943.1| RNA polymerase [Ruminococcus sp. 5_1_39BFAA] Length = 237 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 62/245 (25%), Positives = 118/245 (48%), Gaps = 22/245 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A + + LV +A + G + + ++V G+IGL++A+ +FD + + Sbjct: 12 QQGDKEARDTVFKENAGLVYSMAKRFAGRSVEMEDIVQIGSIGLLKAIDRFDISYDVKFS 71 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV--- 159 TY++ I ++ Y LR ++K+ + N R+ +A+ + L E + Sbjct: 72 TYAVPMIIGEIRRY-LRDDGMLKVSRNLKE-----NCARIYSAREAL-EKELGREPILEE 124 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 VA A +L+V E V+SM A ESL+ +I D N D L +GQ+ L Sbjct: 125 VAKATELSVDEV-VMSMESG-AEVESLHKIIYQGDGNDISLMDRLQEKENGQDAAL---- 178 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R L + L+ RER++ R ++ +T +++E +S+ +V ++E R K+ Sbjct: 179 ----NRIFLDEILKKLDARERQLIGMRYFKD--MTQTEIAAEMGISQVQVSRMEKRILKE 232 Query: 280 VQESI 284 +++ + Sbjct: 233 LKKQV 237 >gi|16799967|ref|NP_470235.1| RNA polymerase sigma factor SigB [Listeria innocua Clip11262] gi|16413344|emb|CAC96126.1| RNA polymerase sigma-37 factor (sigma-B) [Listeria innocua Clip11262] gi|30266013|gb|AAN16084.1| SigB [Listeria monocytogenes] Length = 259 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQEDGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|332755592|gb|EGJ85955.1| RNA polymerase sigma factor rpoS domain protein [Shigella flexneri 2747-71] Length = 133 Score = 61.2 bits (147), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 32/74 (43%), Positives = 50/74 (67%), Gaps = 1/74 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKK 92 + EGN+GL++AV+K Sbjct: 120 IEEGNLGLIRAVEK 133 >gi|302385959|ref|YP_003821781.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] gi|302196587|gb|ADL04158.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] Length = 240 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 62/241 (25%), Positives = 119/241 (49%), Gaps = 16/241 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD +A +LVT + LV I + G G ++ G+IGLM+A+ KFD + +T Sbjct: 16 EGDKAARDQLVTDNFGLVWSIVRRFTGRGYEAEDLFQIGSIGLMKAIDKFDLSYEVKFST 75 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + LR ++K+ + K + ++ ++ L I +P V IA Sbjct: 76 YAVPMITGEIKRF-LRDDGMIKVSRSI--KEMGLKVKNVREEL--IYRLGREP-TVEEIA 129 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++ S+ EV + A ESL +N +D+NS D + + QE++L Sbjct: 130 GEIGASKEEVAASIEAGAEVESLYRSVNKNDENSILLIDKIEEESSAQEELL-------- 181 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L ++ L+ ++R I RR N T ++++ +S+ +V ++E + K+++E Sbjct: 182 NRMVLRELLTALSDKDREII-IRRYYYNE-TQSQIAAKLGISQVQVSRLEKKILKQMREK 239 Query: 284 I 284 + Sbjct: 240 L 240 >gi|253580726|ref|ZP_04857990.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251848097|gb|EES76063.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 209 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 34/91 (37%), Positives = 54/91 (59%), Gaps = 2/91 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ QE+Y L K Y+E GD A + L+ +LRLV + Y+G G +++S G IGL Sbjct: 7 PLSISQEKYYLQK-YQE-GDSQAKNILIEHNLRLVAHVVKKYQGTGEDTDDLISIGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++AV F+P++ RL+TY+ I+ + Y Sbjct: 65 IKAVTTFNPQKASRLSTYAARCIENELLMYF 95 >gi|148380490|ref|YP_001255031.1| RNA polymerase sigma-E factor [Clostridium botulinum A str. ATCC 3502] gi|153932419|ref|YP_001384713.1| sporulation sigma factor SigE [Clostridium botulinum A str. ATCC 19397] gi|153937804|ref|YP_001388234.1| sporulation sigma factor SigE [Clostridium botulinum A str. Hall] gi|153940530|ref|YP_001391830.1| sporulation sigma factor SigE [Clostridium botulinum F str. Langeland] gi|168180581|ref|ZP_02615245.1| RNA polymerase sigma-E factor [Clostridium botulinum NCTC 2916] gi|170756639|ref|YP_001782077.1| sporulation sigma factor SigE [Clostridium botulinum B1 str. Okra] gi|187778871|ref|ZP_02995344.1| hypothetical protein CLOSPO_02466 [Clostridium sporogenes ATCC 15579] gi|226949888|ref|YP_002804979.1| RNA polymerase sigma-E factor [Clostridium botulinum A2 str. Kyoto] gi|148289974|emb|CAL84087.1| RNA polymerase sigma-E factor [Clostridium botulinum A str. ATCC 3502] gi|152928463|gb|ABS33963.1| RNA polymerase sigma-E factor [Clostridium botulinum A str. ATCC 19397] gi|152933718|gb|ABS39217.1| RNA polymerase sigma-E factor [Clostridium botulinum A str. Hall] gi|152936426|gb|ABS41924.1| RNA polymerase sigma-E factor [Clostridium botulinum F str. Langeland] gi|169121851|gb|ACA45687.1| RNA polymerase sigma-E factor [Clostridium botulinum B1 str. Okra] gi|182668430|gb|EDT80409.1| RNA polymerase sigma-E factor [Clostridium botulinum NCTC 2916] gi|187772496|gb|EDU36298.1| hypothetical protein CLOSPO_02466 [Clostridium sporogenes ATCC 15579] gi|226843077|gb|ACO85743.1| RNA polymerase sigma-E factor [Clostridium botulinum A2 str. Kyoto] gi|295319856|gb|ADG00234.1| RNA polymerase sigma-E factor [Clostridium botulinum F str. 230613] gi|322806803|emb|CBZ04372.1| RNA polymerase sporulation specific sigma factor SigE [Clostridium botulinum H04402 065] Length = 235 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 47/165 (28%), Positives = 80/165 (48%), Gaps = 10/165 (6%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE +R +GD L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 33 PPLSKEEEEYFVQRLI-NGDEKVRSVLIERNLRLVVYIARKFENTGICIEDLVSVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS---------WSLVKIGTTANQKRLFF 137 ++AV F P++ +LATY+ I+ + Y+ R+ + + I N+ L Sbjct: 92 IKAVNTFKPDKKIKLATYASRCIENEILMYLRRNSKVKAEISFYEPLNIDWDGNELLLSD 151 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 L + + ++ + + ++ KKLN E E++ + L G Sbjct: 152 ILGTDNDEVYNLIEDEVDKQLLLLAMKKLNEREKEIVRLRFGLNG 196 >gi|300854412|ref|YP_003779396.1| putative RNA polymerase sigma-K factor [Clostridium ljungdahlii DSM 13528] gi|300434527|gb|ADK14294.1| predicted RNA polymerase sigma-K factor precursor [Clostridium ljungdahlii DSM 13528] Length = 233 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 34/84 (40%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++EEY L K E GDL A LV +LRLV I Y + E++S G +GL Sbjct: 30 PLSDEEEEYYLKKL--EQGDLLAKSILVERNLRLVAHIVKKYSYPSKEVDELISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ FD +G RLATY+ I+ Sbjct: 88 IKAIDSFDMSKGTRLATYAAKCIE 111 >gi|293375845|ref|ZP_06622113.1| putative RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325844994|ref|ZP_08168319.1| RNA polymerase sigma factor RpoD family protein [Turicibacter sp. HGF1] gi|292645524|gb|EFF63566.1| putative RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325488967|gb|EGC91357.1| RNA polymerase sigma factor RpoD family protein [Turicibacter sp. HGF1] Length = 331 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 65/262 (24%), Positives = 121/262 (46%), Gaps = 30/262 (11%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY---GLPISEVVSEGNIGLMQAVKKFDP 95 K+YR D +A L+ ++ LV KI Y + L ++ S G GLM+A++KFD Sbjct: 69 KKYRLENDETALEWLIFNNTNLVHKIIGRYTKFYHHKLDYDDLFSVGLEGLMKAIEKFDF 128 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +TY+ +W+K A+ I ++I +F ++ ++ + Q D + Sbjct: 129 TFDNNFSTYATYWVKQAVTRTIADEGFTIRIPV-----HMFESINQVMRYEQK-ADQEDE 182 Query: 156 PEQVVAIAKKLNV---SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 P V + +L + V + + SLN ++ D++ ++ QD + + Sbjct: 183 PVDVDNLCGELKIPIEKYEAVKRVQTYMLKPTSLNGFVSKEDED-TELQDLI----SNEN 237 Query: 213 QVLIEKEER-----------KNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLS 259 ++L+E R ++ + + + + LNPRE+ + R E TLE + Sbjct: 238 EMLVEGMSRIYDNPEKQAMDEDLKAYMDKMILSLNPREQFVIIHRFGLNGEEKKTLEEIG 297 Query: 260 SEFEVSRERVRQIEARAFKKVQ 281 V+RER+RQIEA+A +K++ Sbjct: 298 EIEGVTRERIRQIEAKAMRKLR 319 >gi|168182610|ref|ZP_02617274.1| RNA polymerase sigma-E factor [Clostridium botulinum Bf] gi|170759960|ref|YP_001787849.1| sporulation sigma factor SigE [Clostridium botulinum A3 str. Loch Maree] gi|237795972|ref|YP_002863524.1| sporulation sigma factor SigE [Clostridium botulinum Ba4 str. 657] gi|169406949|gb|ACA55360.1| RNA polymerase sigma-E factor [Clostridium botulinum A3 str. Loch Maree] gi|182674165|gb|EDT86126.1| RNA polymerase sigma-E factor [Clostridium botulinum Bf] gi|229261167|gb|ACQ52200.1| RNA polymerase sigma-E factor [Clostridium botulinum Ba4 str. 657] Length = 235 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 47/165 (28%), Positives = 80/165 (48%), Gaps = 10/165 (6%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE +R +GD L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 33 PPLSKEEEEYFVQRLI-NGDEKVRSVLIERNLRLVVYIARKFENTGICIEDLVSVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS---------WSLVKIGTTANQKRLFF 137 ++AV F P++ +LATY+ I+ + Y+ R+ + + I N+ L Sbjct: 92 IKAVNTFKPDKKIKLATYASRCIENEILMYLRRNSKVKAEISFYEPLNIDWDGNELLLSD 151 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 L + + ++ + + ++ KKLN E E++ + L G Sbjct: 152 ILGTDNDEVYNLIEDEVDKQLLLLAMKKLNEREKEIVRLRFGLNG 196 >gi|302544115|ref|ZP_07296457.1| RNA polymerase sigma-F factor [Streptomyces hygroscopicus ATCC 53653] gi|302461733|gb|EFL24826.1| RNA polymerase sigma-F factor [Streptomyces himastatinicus ATCC 53653] Length = 284 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 62/243 (25%), Positives = 117/243 (48%), Gaps = 23/243 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++L LV A +R P+ +V+ G IGL+ A+ +FDP RG + T++M + Sbjct: 62 LIEANLPLVRYAAARFRSRNEPMEDVIQVGTIGLINAIDRFDPGRGVQFPTFAMPTVVGE 121 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + V + +RL ++ G + +T + + IA++L + E E Sbjct: 122 IKRYFRDNVRTVHV-----PRRLHELWVQVNGATEDLTVLHGRSPTTAEIAERLGLGEDE 176 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQVLIEKEERKNRRNMLTR 230 V++ C AG +++ ++Q D L + D G E + E ++ L R Sbjct: 177 VLA--CIEAGRS-----YHATSLEAAQEGDGLPGLVDRLGYEDPALAGVEHRD----LVR 225 Query: 231 SMSVLNP-RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + V P RE+RI R +T +S+E VS+ V ++ +R+F +++ + ++E Sbjct: 226 HLLVQLPEREQRILLLRYYSN--LTQSQISAELGVSQMHVSRLLSRSFARLRSA--NRIE 281 Query: 290 LSS 292 SS Sbjct: 282 PSS 284 >gi|22770516|gb|AAN06633.1|AF497205_1 sigma factor B [Listeria monocytogenes] Length = 259 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK+ E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLLEALQNE 256 >gi|297544885|ref|YP_003677187.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842660|gb|ADH61176.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 241 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+++K E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSMEEETYLVSKM--EKGDNEAKTVLIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P++ +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPKKKIKLATYASRCIENEILMYLRRN 131 >gi|167628452|ref|YP_001678951.1| RNA polymerase sigma-f factor, putative [Heliobacterium modesticaldum Ice1] gi|167591192|gb|ABZ82940.1| RNA polymerase sigma-f factor, putative [Heliobacterium modesticaldum Ice1] Length = 264 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 73/279 (26%), Positives = 132/279 (47%), Gaps = 39/279 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L +EE R + GD A RL+ +LRLV + ++ G + ++ G I Sbjct: 12 RFPLL-GEEETTRLLRLAKDGDGDARERLIQCNLRLVFNLVQRFQHRGYELEDLFQIGVI 70 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ KFD R +TY++ I ++ + LR S VK+ + + K + + R++ Sbjct: 71 GLIKAIDKFDLSYNVRFSTYAVPMIVGEIRRF-LRDDSPVKV--SRSYKEIAQRIHRVRQ 127 Query: 145 HLQAITDNNLKPEQVVA-IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 L + +L E V IA +N+ +V+ E+L A+ + + + +QD Sbjct: 128 EL----NGSLGREPTVQEIAGAMNMPVEDVV---------EALEAVQLPTSIHETLYQD- 173 Query: 204 LVYDHDGQEQVLIEK------EERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLE 256 DG L+++ EE ++ L +S L RER I E R Q+ T Sbjct: 174 -----DGDPIFLLDQLASVGTEESAWFDHLALKDVLSRLAAREREILEMRFFQDKTQT-- 226 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPP 295 +++ +S+ ++ +IE A KK+++ LS +PP Sbjct: 227 EVATLVGLSQVQISRIERAALKKIRDM------LSQTPP 259 >gi|289746505|ref|ZP_06505883.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis 02_1987] gi|289687033|gb|EFD54521.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis 02_1987] Length = 216 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 49/206 (23%), Positives = 98/206 (47%), Gaps = 12/206 (5%) Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 G ++V+KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ Sbjct: 15 GADRSVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQR 72 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ Sbjct: 73 ELLQDLGREPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI 127 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEF 262 D + V ++ ++ L + L+ RE + R P TL+ + + Sbjct: 128 ---EDSEAVVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVY 184 Query: 263 EVSRERVRQIEARAFKKVQESIQKQV 288 V+RER+RQIE++ K++ + QV Sbjct: 185 GVTRERIRQIESKTMSKLRHPSRSQV 210 >gi|289578665|ref|YP_003477292.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|289528378|gb|ADD02730.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] Length = 241 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+++K E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSVEEETYLVSKM--EKGDNEAKTVLIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P++ +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPKKKIKLATYASRCIENEILMYLRRN 131 >gi|255030138|ref|ZP_05302089.1| RNA polymerase sigma factor SigB [Listeria monocytogenes LO28] Length = 245 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 63/260 (24%), Positives = 126/260 (48%), Gaps = 26/260 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLDISQM 222 Query: 268 RVRQIEARAFKKVQESIQKQ 287 V +I+ +A KK++E++Q + Sbjct: 223 HVSRIQRQAIKKLREALQNE 242 >gi|289642895|ref|ZP_06475030.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia symbiont of Datisca glomerata] gi|289507278|gb|EFD28242.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia symbiont of Datisca glomerata] Length = 332 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 113/241 (46%), Gaps = 30/241 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++ IGL+++V +FDPERG +TY+ I Sbjct: 110 QLVRMHLPLVEYLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEFSTYATPTIVG 169 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNL-KPEQVVAIAKKL 166 ++ + + W++ R+ L+ LK L T L + V IA L Sbjct: 170 EIKRHFRDKGWAI----------RVPRRLQELKLSLTKATSELSQTLGRSPTVSEIAAHL 219 Query: 167 NVSESEVISMNCRLAGDESLNA--LINSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKN 223 +SE EV L G ES NA ++ +S + V D G Q++ L E R++ Sbjct: 220 QMSEEEV------LEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQDESLEGVEYRES 273 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +L + L PRE+RI R +T +++E +S+ V ++ AR +++ Sbjct: 274 LKPLLEK----LPPREKRILLLRFFGN--MTQSQIATELGISQMHVSRLLARTLAQLRRG 327 Query: 284 I 284 + Sbjct: 328 L 328 >gi|126650128|ref|ZP_01722361.1| sporulation sigma factor SigF [Bacillus sp. B14905] gi|126593300|gb|EAZ87262.1| sporulation sigma factor SigF [Bacillus sp. B14905] Length = 263 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 62/261 (23%), Positives = 117/261 (44%), Gaps = 37/261 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A R+V + RLV I + G+ + ++ G IGLM++V KFD + + Sbjct: 25 QKGDHEARKRMVEGNTRLVWSIVQRFTTRGVELEDLFQIGCIGLMKSVDKFDLSYDVKFS 84 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK----PEQ 158 TY++ I +Q + LR +VK+ + +R L ++ TD +K P Sbjct: 85 TYAVPMIIGEIQRF-LRDDGMVKVSRS---------IRELNFKIRHATDEFIKKNEHPPT 134 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +A+ L V+ E+++ + L SL+ + S+ +S D Q+ EK Sbjct: 135 IQELAQVLGVTTEEIVTASDALRDPASLHEQLYESEGDSITLMD----------QMKDEK 184 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E+ L ++ L PRE+ I R + T +++ +S+ +V ++E + Sbjct: 185 SEQPFDYIPLKEVLTRLEPREQSIIYLRYFSD--CTQTEIANRLGISQVQVSRLEKKILA 242 Query: 279 KV-----------QESIQKQV 288 ++ QE+I+K + Sbjct: 243 QLKSWMATSATVEQEAIKKDI 263 >gi|194014382|ref|ZP_03052999.1| RNA polymerase sigma-E factor [Bacillus pumilus ATCC 7061] gi|194013408|gb|EDW22973.1| RNA polymerase sigma-E factor [Bacillus pumilus ATCC 7061] Length = 239 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 55/94 (58%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKDEEQELLVKL-PKGDQTARAILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|300854418|ref|YP_003779402.1| RNA polymerase sigma-E factor [Clostridium ljungdahlii DSM 13528] gi|300434533|gb|ADK14300.1| RNA polymerase sigma-E factor precursor [Clostridium ljungdahlii DSM 13528] Length = 241 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 34/94 (36%), Positives = 56/94 (59%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +K+EE ++ K GD L+ +LRLVV IA + G+ + ++VS G IGL Sbjct: 40 PLSKKEEEDLVLKLV--SGDEKVRSTLIERNLRLVVYIARKFENTGVNVEDLVSVGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 98 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 131 >gi|157692207|ref|YP_001486669.1| sporulation sigma factor SigE [Bacillus pumilus SAFR-032] gi|157680965|gb|ABV62109.1| DNA-directed RNA polymerase sigma subunit SigE [Bacillus pumilus SAFR-032] Length = 239 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 36/94 (38%), Positives = 55/94 (58%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L + GD +A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 37 PPLSKDEEQELLVKL-PKGDQTARAILIERNLRLVVYIARKFENTGINIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 129 >gi|313115572|ref|ZP_07801031.1| RNA polymerase sigma-E factor [Faecalibacterium cf. prausnitzii KLE1255] gi|310622087|gb|EFQ05583.1| RNA polymerase sigma-E factor [Faecalibacterium cf. prausnitzii KLE1255] Length = 234 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 62/220 (28%), Positives = 96/220 (43%), Gaps = 61/220 (27%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L ++E VL R D +A L+T +LRLVV +A Y G+P +++S G IGL Sbjct: 33 PPLTPEQEKVLLSRMAAG-DAAARDDLITHNLRLVVYLAKKYESSGVPAEDMISIGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++AV F PER +LATY+ I + Y+ +S +N++ Sbjct: 92 IKAVNTFTPERSIKLATYASRCIGNEILMYLRKS---------SNRR------------- 129 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 Q +I + LNV G+E L + I SD+N Sbjct: 130 -----------QEASIDEPLNVDGD----------GNELLLSDILGSDENQ--------- 159 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + ++ E+ R +L R++ L+PRER+I E R Sbjct: 160 --------ISQRLEQDAERAVLRRAVDSLSPRERQIMELR 191 >gi|150019061|ref|YP_001311315.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium beijerinckii NCIMB 8052] gi|149905526|gb|ABR36359.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium beijerinckii NCIMB 8052] Length = 242 Score = 60.8 bits (146), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 65/258 (25%), Positives = 115/258 (44%), Gaps = 43/258 (16%) Query: 46 DLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 D+ +++ ++ LV IA G Y + ++VS G +GLM A+ KFD +G + Sbjct: 6 DVDGKEQIIQEYIPLVKYIASRVMFGKNKY-MEYEDLVSYGMVGLMDALNKFDDTKGMKF 64 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 ++Y+ IK AM + + R+ + K G + + L+ L N+ Sbjct: 65 SSYASIRIKGAMIDELRRNRPISK-GAMDKLNKYNKAVDTLQLELLREPTND-------E 116 Query: 162 IAKKLNVSESEV---------ISM----NCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 IAK L +S SEV ISM N + DE +N + DKNS +L Sbjct: 117 IAKYLGISMSEVAEIENYINYISMVSLENVIFSDDEDVNLIGIIEDKNSPSPDAYL---- 172 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 + K + +LT+++ +L ++R + + +TL+ + + VS R Sbjct: 173 -----------QDKEQLEILTKAIDLLKEKDRIVLNLYYYE--GLTLKEIGTVLSVSESR 219 Query: 269 VRQIEARAFKKVQESIQK 286 V Q+ +RA ++E ++K Sbjct: 220 VCQLHSRAISSLRECMRK 237 >gi|22770506|gb|AAN06628.1|AF497200_1 sigma factor B [Listeria monocytogenes] Length = 259 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK+ E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLLEALQNE 256 >gi|125972969|ref|YP_001036879.1| sporulation sigma factor SigG [Clostridium thermocellum ATCC 27405] gi|256004766|ref|ZP_05429741.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium thermocellum DSM 2360] gi|281417180|ref|ZP_06248200.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium thermocellum JW20] gi|125713194|gb|ABN51686.1| RNA polymerase, sigma subunit, RpsG/SigG [Clostridium thermocellum ATCC 27405] gi|255991216|gb|EEU01323.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium thermocellum DSM 2360] gi|281408582|gb|EFB38840.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium thermocellum JW20] gi|316940795|gb|ADU74829.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium thermocellum DSM 1313] Length = 257 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 67/277 (24%), Positives = 129/277 (46%), Gaps = 51/277 (18%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +++ L +R + GD SA + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNEQKKELFERMHK-GDTSAREEFIKGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK- 143 GL++A+ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 74 GLIKAIDNFDVTQNVKFSTYAVPMIIGEIRRY-LRDNNAIRVSRS---------LRDIAY 123 Query: 144 GHLQA---ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 LQA +T+ N K + IAK+L + + EV+ +L+A+ + S + Sbjct: 124 KALQAKEKLTNQNSKEPTIEEIAKELGLPKEEVVF---------ALDAIQDPISLFESVY 174 Query: 201 QDWLVYDHDGQEQVLIE---KEERKNRRN-----MLTRSMSVLNPRER-----RIFEARR 247 HDG + + + K+E+ N N L+ +M LN RE+ R F+ R Sbjct: 175 -------HDGGDAIYVMDQVKDEKNNDENWLEGIALSEAMRKLNDREKLILNLRFFDGRT 227 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E ++ E +S+ +V ++E A +++ I Sbjct: 228 QME-------VAEEIGISQAQVSRLEKTALMHMRKYI 257 >gi|30266015|gb|AAN16085.1| SigB [Listeria welshimeri] Length = 259 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE+ I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQMILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|239826533|ref|YP_002949157.1| sporulation sigma factor SigG [Geobacillus sp. WCH70] gi|239806826|gb|ACS23891.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. WCH70] Length = 259 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 65/261 (24%), Positives = 121/261 (46%), Gaps = 17/261 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L KR E GDL A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRELFKRMHE-GDLEAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + T E+ IAK L + EV+ + SL I + + D L Sbjct: 131 KLMSETAKEPSAEE---IAKVLGIPHEEVVFALDAIQDPVSLFEPIYNDGGDPIYVMDQL 187 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 188 SDERNRDSQWIEEI--------ALKEGMRRLNEREKMIIRKRFFQGK--TQMEVAEEIGI 237 Query: 265 SRERVRQIEARAFKKVQESIQ 285 S+ +V ++E A +++ ++IQ Sbjct: 238 SQAQVSRLEKAAIRQMNKNIQ 258 >gi|167040624|ref|YP_001663609.1| sporulation sigma factor SigE [Thermoanaerobacter sp. X514] gi|300914665|ref|ZP_07131981.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307724101|ref|YP_003903852.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter sp. X513] gi|166854864|gb|ABY93273.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter sp. X514] gi|300889600|gb|EFK84746.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307581162|gb|ADN54561.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X513] Length = 241 Score = 60.8 bits (146), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+++K E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSVEEEMYLISKM--EKGDNEAKTVLIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P++ +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPKKKIKLATYASRCIENEILMYLRRN 131 >gi|332799103|ref|YP_004460602.1| RNA polymerase sigma-28 subunit SigE [Tepidanaerobacter sp. Re1] gi|332696838|gb|AEE91295.1| RNA polymerase, sigma 28 subunit, SigE [Tepidanaerobacter sp. Re1] Length = 239 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 32/94 (34%), Positives = 54/94 (57%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E + L K + GD + L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 38 PLTSDEEVFYLKKL--QMGDQTVKTVLIERNLRLVVYIARKFENTGICIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ FDP + +LATY+ I+ + Y+ R+ Sbjct: 96 IKAINTFDPNKKIKLATYASKCIENEILMYLRRN 129 >gi|116872297|ref|YP_849078.1| RNA polymerase sigma factor SigB [Listeria welshimeri serovar 6b str. SLCC5334] gi|55535652|gb|AAV52891.1| SigB [Listeria welshimeri] gi|116741175|emb|CAK20295.1| RNA polymerase sigma-37 (sigma-B) [Listeria welshimeri serovar 6b str. SLCC5334] Length = 259 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 64/264 (24%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE+ I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQMILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|317121977|ref|YP_004101980.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter marianensis DSM 12885] gi|315591957|gb|ADU51253.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter marianensis DSM 12885] Length = 250 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 26/62 (41%), Positives = 40/62 (64%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A RLV H+ LV +A + G+G + ++V G IGL+QA+ FDP RG++ +TY Sbjct: 12 GDAEARERLVALHMPLVRHVARRFAGFGHEMDDLVQAGTIGLLQAIDGFDPARGYQFSTY 71 Query: 105 SM 106 ++ Sbjct: 72 AV 73 >gi|229541192|ref|ZP_04430252.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus coagulans 36D1] gi|229325612|gb|EEN91287.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus coagulans 36D1] Length = 258 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 64/261 (24%), Positives = 123/261 (47%), Gaps = 17/261 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L K+ GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRDLLKKMH-AGDASAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + R +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLNQNVRFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + T E+ IA++L+V +++ + SL I + + D Sbjct: 131 KLMSATSKEPTTEE---IARELDVPHEDIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQ- 186 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D ++ IE+ L M LN RE+ I R Q T ++ E + Sbjct: 187 VSDEKNKDSQWIEE-------IALQEGMRRLNEREKMIIRKRFFQGK--TQMEVAEEIGI 237 Query: 265 SRERVRQIEARAFKKVQESIQ 285 S+ +V ++E A K++ ++IQ Sbjct: 238 SQAQVSRLEKAAIKQMNKNIQ 258 >gi|329938753|ref|ZP_08288149.1| SigH-like stress response sigma factor [Streptomyces griseoaurantiacus M045] gi|329302244|gb|EGG46136.1| SigH-like stress response sigma factor [Streptomyces griseoaurantiacus M045] Length = 291 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FDP+RG T++M + Sbjct: 70 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDPDRGVEFPTFAMPTVVGE 129 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 130 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVAELAVVLGVSEE 183 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 184 DVVDGLAVGNAYTAS--SLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 237 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 238 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 288 >gi|87306557|ref|ZP_01088704.1| sigma-70 factor [Blastopirellula marina DSM 3645] gi|87290736|gb|EAQ82623.1| sigma-70 factor [Blastopirellula marina DSM 3645] Length = 556 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 39/124 (31%), Positives = 63/124 (50%), Gaps = 29/124 (23%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRY----------REHGDLSAA-------------- 50 GL Y+ + + P+L +++EY L +++ RE + S A Sbjct: 313 GLPSYLASLYEAPLLTREQEYHLFRKFNYLKHHAAKLRESVETSKAKASVMDEIERLYEA 372 Query: 51 -----HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +++V S+LRLVV IA + G E+VS+GN+ L++AV+KFD RG + +TY Sbjct: 373 AVEVKNQIVQSNLRLVVSIAKRHLGAADEFFELVSDGNMSLIRAVEKFDYSRGNKFSTYC 432 Query: 106 MWWI 109 W I Sbjct: 433 SWAI 436 >gi|312111757|ref|YP_003990073.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y4.1MC1] gi|311216858|gb|ADP75462.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y4.1MC1] Length = 271 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 70/267 (26%), Positives = 115/267 (43%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L KR E GDL A +LV +LRLV+ + + G + ++ G I Sbjct: 27 KLPVLKNEEMRELFKRMHE-GDLEAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 85 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+++ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 86 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 141 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +L G K IA L + EV+ + SL I + + Sbjct: 142 -EKLMGEAA-------KEPTTEEIANVLGIPHEEVVFALDAIQDPVSLFEPIYNDGGDPI 193 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D L + +G Q + E L + LN RE+ I R Q T + Sbjct: 194 YVMDQLSDERNGDSQWIEEI--------ALKEGLCRLNEREKMIIRKRFFQGK--TQMEV 243 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A +++ ++IQ Sbjct: 244 AEEIGISQAQVSRLEKAAIRQMNKNIQ 270 >gi|317121713|ref|YP_004101716.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter marianensis DSM 12885] gi|315591693|gb|ADU50989.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter marianensis DSM 12885] Length = 261 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 31/93 (33%), Positives = 55/93 (59%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L ++ VL +R R+ GD A +LV +LRLV+ + + G P+ ++ G I Sbjct: 19 ELPVLTNEQMRVLFRRMRQ-GDEEARQQLVQGNLRLVLSVIQRFNHRGEPVDDLFQVGCI 77 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD E+ R +TY++ I ++ Y+ Sbjct: 78 GLMKAIDNFDLEQNVRFSTYAVPMIIGEIRRYL 110 >gi|270659580|ref|ZP_06222335.1| RNA polymerase sigma-32 factor [Haemophilus influenzae HK1212] gi|270316998|gb|EFA28670.1| RNA polymerase sigma-32 factor [Haemophilus influenzae HK1212] Length = 147 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 44/151 (29%), Positives = 81/151 (53%), Gaps = 8/151 (5%) Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 FFNLR+ K L +N +V +A +L VS+ +VI M R++G + + + + D Sbjct: 1 FFNLRKTKQRLGWFNEN-----EVDMVANELGVSKEDVIEMESRMSGAD-VGFDLPTDDA 54 Query: 196 NSSQWQDWL-VYDHDGQEQVLIEKEERKNRRN-MLTRSMSVLNPRERRIFEARRLQENPV 253 + + L + D +E E +++ L ++ L+ R + I +AR L +N Sbjct: 55 ETETYSPALYLEDKSSNFAAELENENFESQATEQLGAALQSLDARSQDIIKARWLDDNKA 114 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 115 TLHDLAAKYNVSAERIRQLETNALKKLKSAV 145 >gi|332976341|gb|EGK13197.1| DNA-directed RNA polymerase sigma subunit SigE [Desmospora sp. 8437] Length = 240 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 31/79 (39%), Positives = 49/79 (62%), Gaps = 2/79 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EE++L + GD + L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PLTREEEEHLLIRL--PSGDAAVRAMLIERNLRLVVYIARKFENTGINIEDLVSIGTIGL 96 Query: 87 MQAVKKFDPERGFRLATYS 105 ++AV FDP + +LATY+ Sbjct: 97 IKAVNTFDPSKKIKLATYA 115 >gi|138894663|ref|YP_001125116.1| sporulation sigma factor SigG [Geobacillus thermodenitrificans NG80-2] gi|134266176|gb|ABO66371.1| Sporulation-specific sigma factor [Geobacillus thermodenitrificans NG80-2] Length = 264 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 71/267 (26%), Positives = 117/267 (43%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L +R E GDL A +LV +LRLV+ + + G + ++ G I Sbjct: 20 KLPVLKNEEMRELFQRMHE-GDLEAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 78 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+++ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 79 GLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 134 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 RL G K IAK+L V+ EV+ + SL I + + Sbjct: 135 -ERLMGE-------TAKEPSTEEIAKELGVAHEEVVLALDAIQDPVSLFEPIYNDGGDPI 186 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D L + + Q + E L + LN RE+ I R Q T + Sbjct: 187 YVMDQLSDERNRDSQWIEEI--------ALKEGLRRLNEREKMIIRKRFFQGK--TQMEV 236 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A +++ ++IQ Sbjct: 237 AEEIGISQAQVSRLEKAAIRQMNKNIQ 263 >gi|256379908|ref|YP_003103568.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Actinosynnema mirum DSM 43827] gi|255924211|gb|ACU39722.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Actinosynnema mirum DSM 43827] Length = 272 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 63/242 (26%), Positives = 111/242 (45%), Gaps = 22/242 (9%) Query: 57 HLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H +VK G G GLP +++++ G GL+ A++KF+PERG + TY+M I+ A Sbjct: 43 HYAPLVKYVAGRVGTGLPAHVDVADLIQSGIFGLVDAIEKFEPERGLKFETYAMQRIRGA 102 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNNLKPEQVVAIAKKLNVSES 171 + + LRS V + + + L RL G LQ TD L E K+ + E Sbjct: 103 ILDD-LRSQDWVPRSVRSRARDVERALERLGGRLQRTPTDRELAAE------LKIGLGEL 155 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWL--VYDHDGQEQV--LIEKEERKNRRNM 227 + +L +L+ LI + S + D ++ V L++++ R+ Sbjct: 156 RELYAQFQLTSVVALDELIAAGRAAGSAGSSLAESLPDEGAEDPVASLVDQDSRRQ---- 211 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L +++ L R+R + + +TL + V+ RV Q+ RA +++ I +Q Sbjct: 212 LADAIAQLAERDRVVVTLYYFEN--LTLAEIGKVLGVTESRVCQLHTRAVLRLRTKINEQ 269 Query: 288 VE 289 +E Sbjct: 270 LE 271 >gi|167037236|ref|YP_001664814.1| sporulation sigma factor SigE [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|307266545|ref|ZP_07548078.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307267688|ref|ZP_07549142.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|320115655|ref|YP_004185814.1| RNA polymerase sigma-E factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|326392136|ref|ZP_08213613.1| RNA polymerase, sigma 28 subunit, SigE [Thermoanaerobacter ethanolicus JW 200] gi|166856070|gb|ABY94478.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|306917290|gb|EFN47610.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|306918464|gb|EFN48705.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|319928746|gb|ADV79431.1| RNA polymerase sigma-E factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|325991823|gb|EGD50338.1| RNA polymerase, sigma 28 subunit, SigE [Thermoanaerobacter ethanolicus JW 200] Length = 241 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+++K E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSVEEEIYLISKM--EKGDNEAKTVLIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P++ +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPKKKIKLATYASRCIENEILMYLRRN 131 >gi|160880600|ref|YP_001559568.1| sporulation sigma factor SigG [Clostridium phytofermentans ISDg] gi|160429266|gb|ABX42829.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium phytofermentans ISDg] Length = 260 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 59/254 (23%), Positives = 120/254 (47%), Gaps = 17/254 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E+ L +R ++ GD A + +LRLV+ I + + ++ G I Sbjct: 15 KLPLLKGEEKDALFERIKQ-GDKEARELYIKGNLRLVLSIIQRFSNSNENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD +G + +TY++ I ++ Y LR + +++ + + + Sbjct: 74 GLMKAIDNFDITQGVKFSTYAVPMIIGEIRRY-LRDNNAIRVSRSLRDTA----YKAIYA 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + N+ +P V IA ++ +S+ ++++ + SL + S ++ D Sbjct: 129 KEMLLKKNDKEP-TVCEIANEVGISQEDIVAALDAIQSPVSLYEPVYSEGGDTLYIMDQ- 186 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D +E+ +E+ L +M+ L+PRE I R Q T ++ E ++ Sbjct: 187 VSDKKNKEENWVEEIS-------LKEAMARLSPRENNIINLRFFQGK--TQMEVAEEIQI 237 Query: 265 SRERVRQIEARAFK 278 S+ +V ++E A K Sbjct: 238 SQAQVSRLEKNALK 251 >gi|313901762|ref|ZP_07835188.1| RNA polymerase, sigma 29 subunit, SigE [Thermaerobacter subterraneus DSM 13965] gi|313467968|gb|EFR63456.1| RNA polymerase, sigma 29 subunit, SigE [Thermaerobacter subterraneus DSM 13965] Length = 244 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 59/239 (24%), Positives = 104/239 (43%), Gaps = 63/239 (26%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ +LRLVV IA + G+PI ++VS G IGL++AV FDP + +LATY+ Sbjct: 64 HTLIERNLRLVVYIARKFDNTGIPIEDLVSIGTIGLIKAVNTFDPSKRIKLATYA----- 118 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 + + + +LRR + V++ + LNV Sbjct: 119 -----------------SKCIENEILMHLRRTS-----------RTRYEVSLDEPLNVDW 150 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 G+E L+ +I ++D + V+ E K R++L Sbjct: 151 E----------GNELLLSDVIPATDGD-----------------VIYRDLEAKVDRHLLH 183 Query: 230 RSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R+++ L PRER I E R + + T + ++ +S+ + ++E R +++ I+K Sbjct: 184 RALARLTPRERLIMELRFGLVDGIERTQKQVADHLGISQSYISRLEKRIINRLRREIRK 242 >gi|134102478|ref|YP_001108139.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133915101|emb|CAM05214.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 311 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 108/235 (45%), Gaps = 16/235 (6%) Query: 57 HLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H +VK G G GLP +S+++ G GL+ A++KF+PERG + TY+M I+ A Sbjct: 88 HYAPLVKYVAGRVGTGLPSHVEVSDLIQSGIFGLVDAIEKFEPERGLKFETYAMQRIRGA 147 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + LR+ V + + + L RL+ LQ + E++ +L+V E Sbjct: 148 ILDD-LRAQDWVPRSVRSRARDVERALERLEAKLQRTASDAELAEEL-----ELSVDELR 201 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + ++ +L+ LI + SS + D E + +R +RR L ++ Sbjct: 202 ELFAQLQMTSVVALDDLIGAGQTTSSLAE---TLPDDRAEDPVATLVDRDSRRQ-LAEAV 257 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L+ R+R + + +TL + V+ RV Q+ RA +++ + +Q Sbjct: 258 ERLSDRDRIVVTLYYFEN--LTLAEIGKVLGVTESRVCQLHTRAVLRLRTKLTEQ 310 >gi|119715356|ref|YP_922321.1| FliA/WhiG family RNA polymerase sigma factor [Nocardioides sp. JS614] gi|119536017|gb|ABL80634.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nocardioides sp. JS614] Length = 244 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 34/81 (41%), Positives = 49/81 (60%), Gaps = 5/81 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKK 92 L +R+++ GD A RLV H +VK G GLP + ++VS+G IGL+ A+ K Sbjct: 12 LWERFKQDGDREARDRLVV-HYSPLVKFVAGRVRSGLPPAVEHADLVSDGVIGLLDALDK 70 Query: 93 FDPERGFRLATYSMWWIKAAM 113 FDPERG + TY++ I+ AM Sbjct: 71 FDPERGLQFQTYAVSRIRGAM 91 >gi|291004131|ref|ZP_06562104.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 328 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 108/235 (45%), Gaps = 16/235 (6%) Query: 57 HLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H +VK G G GLP +S+++ G GL+ A++KF+PERG + TY+M I+ A Sbjct: 105 HYAPLVKYVAGRVGTGLPSHVEVSDLIQSGIFGLVDAIEKFEPERGLKFETYAMQRIRGA 164 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + LR+ V + + + L RL+ LQ + E++ +L+V E Sbjct: 165 ILDD-LRAQDWVPRSVRSRARDVERALERLEAKLQRTASDAELAEEL-----ELSVDELR 218 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + ++ +L+ LI + SS + D E + +R +RR L ++ Sbjct: 219 ELFAQLQMTSVVALDDLIGAGQTTSSLAE---TLPDDRAEDPVATLVDRDSRRQ-LAEAV 274 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L+ R+R + + +TL + V+ RV Q+ RA +++ + +Q Sbjct: 275 ERLSDRDRIVVTLYYFEN--LTLAEIGKVLGVTESRVCQLHTRAVLRLRTKLTEQ 327 >gi|160939297|ref|ZP_02086648.1| hypothetical protein CLOBOL_04191 [Clostridium bolteae ATCC BAA-613] gi|158438260|gb|EDP16020.1| hypothetical protein CLOBOL_04191 [Clostridium bolteae ATCC BAA-613] Length = 240 Score = 60.5 bits (145), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 62/241 (25%), Positives = 114/241 (47%), Gaps = 16/241 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD +A +LV ++ L+ I + G G + ++ G+IGL++A+ KFD + +T Sbjct: 16 EGDKAARDQLVMDNVGLIWSIVRRFSGRGYEMEDLFQIGSIGLIKAIDKFDTGFDVKFST 75 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + LR ++K+ + K L +R + + +T + + IA Sbjct: 76 YAVPMITGEIKRF-LRDDGMIKVSRSI--KELGVKVRAAR---EEMTYALGREPTIEEIA 129 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +L S EV + A ESL +S D+NS+ D L D++ E +L Sbjct: 130 GRLGTSREEVAASLEAAAEVESLYRPADSGDENSTYLMDRLAQDNNDHEDLL-------- 181 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L M L +R I RR N T ++ E +S+ +V ++E R K++++ Sbjct: 182 NRMVLKDLMEGLEEEQREII-LRRYFYNE-TQTQIAGELGISQVQVSRLEKRILKEMRKK 239 Query: 284 I 284 + Sbjct: 240 L 240 >gi|317121712|ref|YP_004101715.1| RNA polymerase, sigma 29 subunit, SigE [Thermaerobacter marianensis DSM 12885] gi|315591692|gb|ADU50988.1| RNA polymerase, sigma 29 subunit, SigE [Thermaerobacter marianensis DSM 12885] Length = 245 Score = 60.1 bits (144), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 59/239 (24%), Positives = 105/239 (43%), Gaps = 63/239 (26%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H L+ +LRLVV IA + G+PI ++VS G IGL++AV FDP + +LATY+ Sbjct: 65 HTLIERNLRLVVYIARKFDNTGIPIEDLVSIGTIGLIKAVNTFDPSKRIKLATYA----- 119 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 + + + +LRR + V++ + LNV Sbjct: 120 -----------------SKCIENEILMHLRRTS-----------RTRYEVSLDEPLNVDW 151 Query: 171 SEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 G+E L+ +I ++D + V+ E K R++L Sbjct: 152 E----------GNELLLSDVIPATDGD-----------------VIYRDLEAKVDRHLLY 184 Query: 230 RSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R+++ L+PRER I E R + + T + ++ +S+ + ++E R +++ I+K Sbjct: 185 RALARLSPRERLIMELRFGLVDGIERTQKQVADRLGISQSYISRLEKRIINRLRREIRK 243 >gi|56419663|ref|YP_146981.1| sporulation sigma factor SigG [Geobacillus kaustophilus HTA426] gi|261419325|ref|YP_003253007.1| sporulation sigma factor SigG [Geobacillus sp. Y412MC61] gi|297530705|ref|YP_003671980.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|319766141|ref|YP_004131642.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y412MC52] gi|56379505|dbj|BAD75413.1| DNA-directed RNA polymerase sporulation-specific sigma factor (sigma-G) [Geobacillus kaustophilus HTA426] gi|261375782|gb|ACX78525.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y412MC61] gi|297253957|gb|ADI27403.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|317111007|gb|ADU93499.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y412MC52] Length = 259 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 64/261 (24%), Positives = 123/261 (47%), Gaps = 17/261 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L +R E GDL A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRELFRRMHE-GDLEAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + T E+ IAK+L V+ EV+ + SL I + + D L Sbjct: 131 RLMSETAKEPSTEE---IAKELGVAHEEVVFALDAIQDPVSLFEPIYNDGGDPIYVMDQL 187 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L + LN RE+ I R Q T ++ E + Sbjct: 188 SDERNRDSQWIEEI--------ALKEGLRRLNEREKMIIRKRFFQGK--TQMEVAEEIGI 237 Query: 265 SRERVRQIEARAFKKVQESIQ 285 S+ +V ++E A +++ ++IQ Sbjct: 238 SQAQVSRLEKAAIRQMNKNIQ 258 >gi|288917890|ref|ZP_06412250.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EUN1f] gi|288350679|gb|EFC84896.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EUN1f] Length = 392 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 116/241 (48%), Gaps = 30/241 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++V IGL+++V +FDPERG +TY+ I Sbjct: 170 QLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVDRFDPERGVEFSTYATPTIVG 229 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVA-IAKKL 166 ++ + + W++ R+ L+ LK L T +L V+ IA+ L Sbjct: 230 EIKRHFRDKGWAI----------RVPRRLQELKLSLTKATSELSQSLGRSPTVSEIARHL 279 Query: 167 NVSESEVISMNCRLAGDESLNA--LINSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKN 223 ++E EV L G ES NA ++ +S + V D G Q++ L E R++ Sbjct: 280 EMTEEEV------LEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQDESLEGVEYRES 333 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +L + L PRE+RI R +T +++E +S+ V ++ AR +++ Sbjct: 334 LKPLLEK----LPPREKRILLLRFFGN--MTQSQIANELGISQMHVSRLLARTLAQLRRG 387 Query: 284 I 284 + Sbjct: 388 L 388 >gi|196247722|ref|ZP_03146424.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|196212506|gb|EDY07263.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 259 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 71/267 (26%), Positives = 117/267 (43%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L +R E GDL A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRELFQRMHE-GDLEAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+++ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 74 GLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 129 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 RL G K IAK+L V+ EV+ + SL I + + Sbjct: 130 -ERLMGE-------TAKEPSTEEIAKELGVAHEEVVLALDAIQDPVSLFEPIYNDGGDPI 181 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D L + + Q + E L + LN RE+ I R Q T + Sbjct: 182 YVMDQLSDERNRDSQWIEEI--------ALKEGLRRLNEREKMIIRKRFFQGK--TQMEV 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A +++ ++IQ Sbjct: 232 AEEIGISQAQVSRLEKAAIRQMNKNIQ 258 >gi|256751991|ref|ZP_05492860.1| RNA polymerase, sigma 28 subunit, SigE [Thermoanaerobacter ethanolicus CCSD1] gi|256749101|gb|EEU62136.1| RNA polymerase, sigma 28 subunit, SigE [Thermoanaerobacter ethanolicus CCSD1] Length = 236 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 58/94 (61%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y+++K E GD A L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 40 PLSVEEEMYLISKM--EKGDNEAKTVLIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P++ +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPKKKIKLATYASRCIENEILMYLRRN 131 >gi|119715950|ref|YP_922915.1| sigma-70 region 2 domain-containing protein [Nocardioides sp. JS614] gi|119536611|gb|ABL81228.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nocardioides sp. JS614] Length = 270 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 60/242 (24%), Positives = 109/242 (45%), Gaps = 30/242 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV A +R G P+ ++V G IGL+++V +FD +RG +TY+ I Sbjct: 49 LVHLHLPLVEHCARRFRNRGEPLEDLVQVGTIGLIKSVDRFDADRGVEFSTYATPTIIGE 108 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ Y + W+ I + L + L + P + +A + + Sbjct: 109 IKRYFRDKGWA---IRVPRRLQELRMQISTASAELTQSLGRSPTPRE---LAGAIGCTVE 162 Query: 172 EVISMNCRLAGDESLNA-------LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 E++ G ES NA + D N++ D + D +G E V I R++ Sbjct: 163 EIVE------GIESSNAYSTLSLDATDDGDDNTASMLDAIGVDDEGLEHVEI----RESL 212 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L R L PRE++I R + +T ++ E VS+ V ++ R ++++ S+ Sbjct: 213 KPLLDR----LEPREKKILLLRFFKN--MTQSQIAEEIGVSQMHVSRLLNRTLEQLRVSL 266 Query: 285 QK 286 ++ Sbjct: 267 EE 268 >gi|291544789|emb|CBL17898.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus sp. 18P13] Length = 257 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 65/274 (23%), Positives = 122/274 (44%), Gaps = 45/274 (16%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L++ E+ L + + G A +L+ +LRLV+ + + G G I ++ G I Sbjct: 15 KLTVLKESEKIELLREIQRTGSKEARDKLINGNLRLVLSVIQRFAGRGEDIDDLFQIGVI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + R +TY + I ++ + LR ++ +K+ + + L + + K Sbjct: 75 GLIKAINNFDLSKEVRFSTYCVPMISGELRRF-LRDYNHIKVSRSL--RDLAYKAMQAKE 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI----SMNCRL---------AGDESLNALIN 191 L A K + IAK+++ S+V+ S+ + AGD +L L Sbjct: 132 QLTA---EQQKEPTMDEIAKRIDAKRSDVVLALESVTDPVSLYEPVYSDAGD-TLYVLDQ 187 Query: 192 SSDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 SD+NS W D + L ++ L PRE+RI R Q Sbjct: 188 ISDQNSVDSWLDEIA----------------------LRDAIKALQPREKRILYLRFFQG 225 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A +++ + Sbjct: 226 K--TQVEVAQEIGISQAQVSRLEKGALNQIKGDV 257 >gi|58699689|ref|ZP_00374359.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] gi|58533795|gb|EAL58124.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] Length = 256 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 33/74 (44%), Positives = 50/74 (67%), Gaps = 2/74 (2%) Query: 32 QEEYVLAKRYREHG-DLS-AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 QE L KR ++H ++S A ++ ++LRLVV IA Y GL + +++ EGNIGLM+A Sbjct: 118 QEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKA 177 Query: 90 VKKFDPERGFRLAT 103 V KFD +RG++ +T Sbjct: 178 VDKFDYKRGYKFST 191 >gi|302810520|ref|XP_002986951.1| hypothetical protein SELMODRAFT_43614 [Selaginella moellendorffii] gi|300145356|gb|EFJ12033.1| hypothetical protein SELMODRAFT_43614 [Selaginella moellendorffii] Length = 326 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 60/245 (24%), Positives = 116/245 (47%), Gaps = 29/245 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +A ++++ +LRLV A Y L + ++ EG GLM AV KFDP++G+R +TY+ Sbjct: 87 AARNKMIKHNLRLVAHQARKYFKEELSLSLLDLCQEGVPGLMSAVDKFDPKKGYRFSTYA 146 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++W+K ++ R +V++ +++ ++R + L D E+V+ K Sbjct: 147 VYWVKNSILRAQTRLGHIVRVPYNVAAQKM--TIQRKRAQLSLELDREPTHEEVITELKM 204 Query: 166 LNVSESEVI-------SMNCR--LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + EV+ S+N R + G+E +++ I+ D+N +Q+ + G + VL Sbjct: 205 DSRRYFEVLRTGAPRRSLNARSKVTGEELIHS-ISDPDENEAQYYNAGAQLRLGMDDVL- 262 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + K + +++ R L+ + R F + +SRE VR+ E R Sbjct: 263 --DSLKPKESLIIRQRYGLDGKGERSF------------TEIGRNLNLSREMVRKYEIRG 308 Query: 277 FKKVQ 281 K++ Sbjct: 309 MMKLK 313 >gi|308068681|ref|YP_003870286.1| RNA polymerase sigma-D factor (Sigma-28) [Paenibacillus polymyxa E681] gi|305857960|gb|ADM69748.1| RNA polymerase sigma-D factor (Sigma-28) [Paenibacillus polymyxa E681] Length = 262 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 65/274 (23%), Positives = 127/274 (46%), Gaps = 50/274 (18%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKK 92 L ++++EHGD A +L+ +L +V ++ G GLP + ++ S G +GL+ A++K Sbjct: 14 LWEQWKEHGDKEAKKQLIEKYLHIVEYVS-GRLAVGLPKNVSKDDLASNGVMGLIDALEK 72 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG-HLQAITD 151 FD ERG + TY+ W ++ A+ + LR V K++ + L+ +L+ ++D Sbjct: 73 FDYERGLQFETYASWRVRGAILDG-LRQGDWVPRSVREKAKKIEDAYQHLEQRYLRTVSD 131 Query: 152 NNLKPEQVVAIAKKLNVSESE------------VISMNCRLAGDES---LNALINSSDKN 196 + + L+VSE E ++S+ + +ES L+ L++ KN Sbjct: 132 EEM--------SHYLDVSEKEFQNMIQEVAVMSIVSLEDPIREEESETRLSLLVDEKAKN 183 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 DH E L R+ L + + L +ER + L ++L Sbjct: 184 P---------DHKVNEFTL---------RDALAQGIDKLTEKERIVVSL--LYYEDLSLS 223 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 ++ +S R+ Q+ ++A +++ ++ KQ +L Sbjct: 224 EIAEVMSLSPSRISQLHSKAILRLRATLDKQRDL 257 >gi|239930292|ref|ZP_04687245.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291438640|ref|ZP_06578030.1| sigma L factor [Streptomyces ghanaensis ATCC 14672] gi|291341535|gb|EFE68491.1| sigma L factor [Streptomyces ghanaensis ATCC 14672] Length = 300 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 79 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 138 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 139 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELSQKLDRS---PTVTELATALGVSEE 192 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 193 DVVDGLAVGNAYTA--SSLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 246 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 247 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 297 >gi|2224777|emb|CAA80617.1| putative pro-sigma factor E [Clostridium acetobutylicum ATCC 824] Length = 235 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 35/94 (37%), Positives = 53/94 (56%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L + +GD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKDEEDDLVNKLV-NGDESIRSILIERNLRLVVYIARKFENTGVGVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY I+ + Y+ R+ Sbjct: 92 IKAVNTFDPTKKIKLATYGSRCIENEILMYLRRN 125 >gi|112962639|gb|ABI29096.1| RNA polymerase sigma-B factor [Listeria monocytogenes] Length = 258 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 62/263 (23%), Positives = 127/263 (48%), Gaps = 25/263 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNC-----RLAGDESLNALINSSDKNSSQWQDWL 204 T Q+ IA + V+E + +M L+ D S+ A SD ++ D + Sbjct: 126 TRELQSSPQISDIADFIGVTEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVV 182 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 DG E+V N+R +L + + VL+ RE++I + ++ + + ++ Sbjct: 183 GGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDI 232 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 S+ V +I+ +A KK++E++Q + Sbjct: 233 SQMHVSRIQRQAIKKLREALQNE 255 >gi|15894972|ref|NP_348321.1| sporulation sigma factor SigE [Clostridium acetobutylicum ATCC 824] gi|585930|sp|P33657|RPSE_CLOAB RecName: Full=RNA polymerase sigma-E factor gi|15024659|gb|AAK79661.1|AE007679_7 DNA-dependent RNA polymerase sigma subunit [Clostridium acetobutylicum ATCC 824] gi|460971|gb|AAC43309.1| putative sigma factor E [Clostridium acetobutylicum ATCC 824] gi|325509109|gb|ADZ20745.1| sporulation sigma factor SigE [Clostridium acetobutylicum EA 2018] Length = 235 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 35/94 (37%), Positives = 53/94 (56%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L + +GD S L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKDEEDDLVNKLV-NGDESIRSILIERNLRLVVYIARKFENTGVGVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY I+ + Y+ R+ Sbjct: 92 IKAVNTFDPTKKIKLATYGSRCIENEILMYLRRN 125 >gi|304438393|ref|ZP_07398334.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304368759|gb|EFM22443.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 208 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 31/105 (29%), Positives = 64/105 (60%), Gaps = 3/105 (2%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 S Y+ ++ + L +EE L + Y+E+GD++A R++ ++ LV + YR LP Sbjct: 2 FSAYMKKLSAVQKLAPEEERALWRAYKENGDMAARRRIIEAYQPLVFREVYPYRA--LPA 59 Query: 76 S-EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + + V EG IGL++AV+++DP+ G + Y++ ++ +++++ R Sbjct: 60 AMDAVQEGTIGLIEAVERYDPDYGAAFSLYAVHRVRGRVRDFLRR 104 >gi|255525679|ref|ZP_05392612.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium carboxidivorans P7] gi|296185437|ref|ZP_06853847.1| RNA polymerase sigma-E factor [Clostridium carboxidivorans P7] gi|255510665|gb|EET86972.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium carboxidivorans P7] gi|296050271|gb|EFG89695.1| RNA polymerase sigma-E factor [Clostridium carboxidivorans P7] Length = 235 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 46/165 (27%), Positives = 81/165 (49%), Gaps = 10/165 (6%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + + G+ L+ +LRLVV IA + G+ + ++VS G IGL Sbjct: 33 PPLSKKEEDDLVSKL-DGGEEKVRSTLIERNLRLVVYIARKFENTGVNVEDLVSVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS---------WSLVKIGTTANQKRLFF 137 ++AV FDP + +LATY+ I+ + Y+ R+ + + I N+ L Sbjct: 92 IKAVNTFDPSKKIKLATYASRCIENEILMYLRRNSKVKAEISFYEPLNIDWDGNELLLSD 151 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 L + + ++ + + ++ KKLN E E++++ L G Sbjct: 152 ILGTDNDVVYNLIEDEVDKQLLMVAMKKLNDREKEIVNLRFGLNG 196 >gi|255658878|ref|ZP_05404287.1| sigma 70 family protein [Mitsuokella multacida DSM 20544] gi|260848826|gb|EEX68833.1| sigma 70 family protein [Mitsuokella multacida DSM 20544] Length = 208 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 46/185 (24%), Positives = 86/185 (46%), Gaps = 28/185 (15%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L+ Y+ E+RK+ L+ +EE L ++E GD A RL+ S+ LV K A + + Sbjct: 3 LADYLKELRKVKTLDLEEEQALWAAFKERGDEGARQRLIESYQPLVFKQAAPFAQLDCAL 62 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW-------------- 121 +++ EG +GL++A +++D RG + +++ I+ M +++ R Sbjct: 63 -DLIQEGTVGLIEAAERYDHTRGVAFSLFAVHRIRGRMMDFLRREGQVDVACMEENLEGG 121 Query: 122 ----SLVKIGTTANQK--------RLFFNLRRLKGHLQAITDN-NLKPEQVVAIAKKLNV 168 +LV G + ++ RL + RL +A+ + L E +A L+V Sbjct: 122 NLKENLVDTGASVPEQAESHELAHRLHQAMARLPDKERAVLEGMYLSSEDAAGMADALHV 181 Query: 169 SESEV 173 S S + Sbjct: 182 SASHI 186 >gi|219112653|ref|XP_002178078.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217410963|gb|EEC50892.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 358 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 27/72 (37%), Positives = 50/72 (69%), Gaps = 4/72 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRLA 102 L A ++LVTS+LR+V + Y GL +++ EG I L++A +KF+P+RG++ + Sbjct: 98 LEAKNQLVTSNLRMVQSVVNTYIRNGLTAQYNAGDMMQEGIIALIRAAEKFEPDRGWKFS 157 Query: 103 TYSMWWIKAAMQ 114 TY+M+W++A+++ Sbjct: 158 TYAMYWVRASVK 169 >gi|225389924|ref|ZP_03759648.1| hypothetical protein CLOSTASPAR_03674 [Clostridium asparagiforme DSM 15981] gi|225044004|gb|EEG54250.1| hypothetical protein CLOSTASPAR_03674 [Clostridium asparagiforme DSM 15981] Length = 223 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 63/260 (24%), Positives = 114/260 (43%), Gaps = 64/260 (24%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 LE +EE + D A L+ +LRLVV IA + + + +++S G IGL++ Sbjct: 20 LEPEEESRMIGMLSGEEDQKARAALIEHNLRLVVYIAKKFDNTSVGVEDLISIGTIGLIK 79 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A+ F P++ +LATY+ I + + LRR Sbjct: 80 AINTFKPDKNIKLATYASRCI----------------------ENEILMYLRR------- 110 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 N K V+I + LNV G+E L + I +D++ ++Y H Sbjct: 111 ----NNKTRMEVSIDEPLNVD----------WDGNELLLSDILGTDED-------VIY-H 148 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN----PVTLENLSSEFEV 264 D ++++ +N+L ++S LNPRER+I E R N +T + ++ + Sbjct: 149 DIEDEI---------EKNLLNNAISRLNPRERKIVELRYGLTNEDGEEMTQKEVADLLGI 199 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ + ++E + K++++ I Sbjct: 200 SQSYISRLEKKIMKRLRKEI 219 >gi|154484272|ref|ZP_02026720.1| hypothetical protein EUBVEN_01984 [Eubacterium ventriosum ATCC 27560] gi|149734749|gb|EDM50666.1| hypothetical protein EUBVEN_01984 [Eubacterium ventriosum ATCC 27560] Length = 304 Score = 60.1 bits (144), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 29/75 (38%), Positives = 45/75 (60%), Gaps = 1/75 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ +P L K EE L + GD S + ++V ++L LV KIA +RG G+ ++ Sbjct: 104 YMEEMEALPNLSKDEEADLIDKLL-AGDTSVSSKIVEANLSLVAKIAESHRGKGVNFGDL 162 Query: 79 VSEGNIGLMQAVKKF 93 + EGN+GLM AV + Sbjct: 163 IQEGNVGLMLAVSDY 177 >gi|88799025|ref|ZP_01114606.1| RNA polymerase sigma factor [Reinekea sp. MED297] gi|88778252|gb|EAR09446.1| RNA polymerase sigma factor [Reinekea sp. MED297] Length = 339 Score = 59.7 bits (143), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 61/247 (24%), Positives = 112/247 (45%), Gaps = 23/247 (9%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 LS L+ S++RLV K+A + GL + ++ EG GL++A+++F ++ R +TY+ Sbjct: 106 LSVREFLIASNIRLVFKVAHRHTERGLSLLDLAQEGQFGLVRALERFRCDKELRFSTYAT 165 Query: 107 WWIKAAMQEYILRSWSLVKIGTT-----ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 WI ++ I + V I T A R ++ +G ++T+ Q Sbjct: 166 HWITQYIRLAIKKQTRTVPIPTNVQDDLARTNRALARAQQQQGRPVSVTEFARLSNQSTD 225 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 A+ L + V S++ RL+ D ++AL D L D E + ER Sbjct: 226 AAEHLMSLNAPVQSLDERLSDDSEVSAL------------DLLDSDLARPES----EHER 269 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + + + ++ L RE++I R ++ + +SRERVRQ+E +A Sbjct: 270 SDNQERVQALLAHLTSREQQILAMRYGIGMGAEYGYREIADQLNLSRERVRQLEKQALGF 329 Query: 280 VQESIQK 286 ++ ++K Sbjct: 330 LRAQMEK 336 >gi|29830729|ref|NP_825363.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607842|dbj|BAC71898.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 307 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 86 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 145 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 146 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVAELAAVLGVSEE 199 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 200 DVVDGLAVGNAYTAS--SLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 253 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 254 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 304 >gi|295399724|ref|ZP_06809705.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|294978127|gb|EFG53724.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] Length = 271 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 70/267 (26%), Positives = 114/267 (42%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L KR E GDL A +LV +LRLV+ + + G + ++ G I Sbjct: 27 KLPVLKNEEMRELFKRMHE-GDLEAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 85 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+++ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 86 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 141 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +L G K IA L + EV+ + SL I + + Sbjct: 142 -EKLMGEAA-------KEPTTEEIANVLGIPHEEVVFALDAIQDPVSLFEPIYNDGGDPI 193 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D L + G Q + E L + LN RE+ I R Q T + Sbjct: 194 YVMDQLSDERSGDNQWIEEI--------ALKEGLCRLNEREKMIIRKRFFQGK--TQMEV 243 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A +++ ++IQ Sbjct: 244 AEEIGISQAQVSRLEKAAIRQMNKNIQ 270 >gi|302552550|ref|ZP_07304892.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] gi|302470168|gb|EFL33261.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] Length = 301 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 80 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 139 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 140 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVTELASVLGVSEE 193 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 194 DVVDGLAVGNAYTAS--SLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 247 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 248 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 298 >gi|163816725|ref|ZP_02208088.1| hypothetical protein COPEUT_02915 [Coprococcus eutactus ATCC 27759] gi|158447982|gb|EDP24977.1| hypothetical protein COPEUT_02915 [Coprococcus eutactus ATCC 27759] Length = 224 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 31/87 (35%), Positives = 53/87 (60%), Gaps = 1/87 (1%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + GD++A RL+T ++ LVV +A Y G G + +++ G IGL++AV +FD E Sbjct: 9 RLAKEGDITARDRLITENMGLVVSVAKRYIGRGQELEDLIQIGLIGLIKAVDRFDLEYDV 68 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 +TYS+ I+ ++ + LR LV++ Sbjct: 69 MFSTYSVPLIQGEIRRF-LRDDGLVRV 94 >gi|299472548|emb|CBN77333.1| RNA polymerase sigma factor SigD [Ectocarpus siliculosus] Length = 825 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 40/131 (30%), Positives = 67/131 (51%), Gaps = 9/131 (6%) Query: 49 AAHRLVTSHLRLV---VKIAMGYRGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 A LV +L LV VK +G YG ++ + +GL++AV+KFDPE+GF ATY Sbjct: 110 AKQELVLDNLNLVDIIVKNYVGTFAYGRFTEKDLTQDATVGLIRAVEKFDPEKGFFFATY 169 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA-ITDNNLKPEQVVAIA 163 WW++ + E + +V+I +A + ++R++ L+ + KPE +A+ Sbjct: 170 GRWWVRKYLHEGVQNHNRMVRIPNSAAYR--IAKVKRVRDELEGELGRAPTKPE--IALE 225 Query: 164 KKLNVSESEVI 174 L V + E Sbjct: 226 TDLTVQQVEAC 236 >gi|302874723|ref|YP_003843356.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium cellulovorans 743B] gi|307690664|ref|ZP_07633110.1| sporulation sigma factor SigE [Clostridium cellulovorans 743B] gi|302577580|gb|ADL51592.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium cellulovorans 743B] Length = 235 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 34/94 (36%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L + G + L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLTKEEEEELVGKL-STGKEAVRSVLIERNLRLVVYIARKFENTGVGVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDPE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFDPEKKIKLATYASRCIENEILMYLRRN 125 >gi|150016004|ref|YP_001308258.1| sporulation sigma factor SigE [Clostridium beijerinckii NCIMB 8052] gi|149902469|gb|ABR33302.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium beijerinckii NCIMB 8052] Length = 235 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 34/94 (36%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L + GD + L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 33 PPLSKDEEEDLVNKLN-GGDENIRSTLIERNLRLVVYIARKFENTGVYVEDLISVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 125 >gi|169831583|ref|YP_001717565.1| sporulation sigma factor SigE [Candidatus Desulforudis audaxviator MP104C] gi|169638427|gb|ACA59933.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Desulforudis audaxviator MP104C] Length = 241 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 37/94 (39%), Positives = 52/94 (55%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE L R E GD L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 39 PPLTVDEETGLISRL-EAGDHGVRSTLIERNLRLVVYIARKFESTGVGIEDMVSIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY+ I+ + Y+ R+ Sbjct: 98 IKAVNTFDPRKRIKLATYASRCIENEILMYLRRN 131 >gi|239980906|ref|ZP_04703430.1| RNA polymerase sigma factor, sigma L [Streptomyces albus J1074] gi|291452768|ref|ZP_06592158.1| sigma L [Streptomyces albus J1074] gi|291355717|gb|EFE82619.1| sigma L [Streptomyces albus J1074] Length = 340 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 119 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVIGE 178 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 179 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELAHALGVSEE 232 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 233 DVVDGLAVGNAYTA--SSLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 286 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 287 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 337 >gi|22770510|gb|AAN06630.1|AF497202_1 sigma factor B [Listeria monocytogenes] Length = 259 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 63/264 (23%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 XRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|323701301|ref|ZP_08112976.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323533903|gb|EGB23767.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 243 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 37/96 (38%), Positives = 55/96 (57%), Gaps = 3/96 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 P L EE L R E GD+ + + L+ +LRLVV IA + G+ I ++VS G I Sbjct: 39 PPLTSDEENDLIGRLGE-GDIDGSIKSVLIERNLRLVVYIARKFENTGVGIEDLVSIGTI 97 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 GL++AV FDP + +LATY+ I+ + Y+ R+ Sbjct: 98 GLIKAVNTFDPNKKIKLATYASRCIENEILMYLRRN 133 >gi|153953966|ref|YP_001394731.1| sporulation sigma factor SigE [Clostridium kluyveri DSM 555] gi|219854580|ref|YP_002471702.1| hypothetical protein CKR_1237 [Clostridium kluyveri NBRC 12016] gi|146346847|gb|EDK33383.1| SigE2 [Clostridium kluyveri DSM 555] gi|219568304|dbj|BAH06288.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 235 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 35/94 (37%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE L R G+ L+ +LRLVV IA + G+ + ++VS G IGL Sbjct: 33 PPLSKKEEEDLVSRL-VSGNEKVRATLIERNLRLVVYIARKFENTGVNVEDLVSVGTIGL 91 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 92 IKAVNTFNPEKKIKLATYASRCIENEILMYLRRN 125 >gi|25991939|gb|AAN76997.1|AF481773_1 putative sigma 70 transcription factor [Frankia sp. ACoN24d] Length = 185 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 54/188 (28%), Positives = 84/188 (44%), Gaps = 32/188 (17%) Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT- 128 G G+ + ++V EGN+GL++ VKKFD +G++ +TY+ WWI+ A+ + ++I Sbjct: 2 GRGMTLLDLVQEGNLGLIRPVKKFDYAKGYKFSTYATWWIRQAIGRALADQGRTIRIPVX 61 Query: 129 --------TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 T Q++L L R + + ++ EQVV +L + +S+ + Sbjct: 62 VVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQVV----ELRRYAQDTVSLETSV 117 Query: 181 A--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 GD L I SD S D Y G Q IE N+L LNPR Sbjct: 118 GDDGDSVLGDFIEDSDATSP--ADAASY---GAMQDEIE--------NVL----GGLNPR 160 Query: 239 ERRIFEAR 246 ER + R Sbjct: 161 EREVMRLR 168 >gi|302389525|ref|YP_003825346.1| RNA polymerase, sigma 29 subunit, SigE [Thermosediminibacter oceani DSM 16646] gi|302200153|gb|ADL07723.1| RNA polymerase, sigma 29 subunit, SigE [Thermosediminibacter oceani DSM 16646] Length = 239 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +EE +L + + GD + L+ +LRLVV IA + G I +++S G IGL Sbjct: 37 PPLSSEEEAMLLDKL-QMGDNGVRNVLIERNLRLVVYIARKFENTGAGIEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ FDP + +LATY+ I+ + Y+ R+ Sbjct: 96 IKAINTFDPHKKIKLATYASRCIENEILMYLRRN 129 >gi|121535239|ref|ZP_01667053.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] gi|121306124|gb|EAX47052.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] Length = 234 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 35/94 (37%), Positives = 52/94 (55%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE L R + GD + + +LRLVV IA + G+ I ++VS G IGL Sbjct: 31 PPLTSDEEVFLLSRL-QKGDKAVKSIFIERNLRLVVYIARKFENTGVGIEDLVSIGTIGL 89 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV FDP + +LATY+ I+ + Y+ R+ Sbjct: 90 IKAVNTFDPIKRIKLATYASRCIENEILMYLRRN 123 >gi|312194695|ref|YP_004014756.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EuI1c] gi|311226031|gb|ADP78886.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EuI1c] Length = 393 Score = 59.7 bits (143), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 62/204 (30%), Positives = 93/204 (45%), Gaps = 36/204 (17%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++V IGL+++V +FDPERG +TY+ I Sbjct: 171 QLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVDRFDPERGVEFSTYATPTIVG 230 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVA-IAKKL 166 ++ + + W++ R+ L+ LK L T L VA IA L Sbjct: 231 EIKRHFRDKGWAI----------RVPRRLQELKLSLTKATSELSQKLGRSPTVAEIAAHL 280 Query: 167 NVSESEVISMNCRLAGDESLNA-------LINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 ++E EV L G ES NA +S D S D L Q++ L E Sbjct: 281 EMTEEEV------LEGLESANAYSAVSLDAPDSGDDESPAVADTLGV----QDESLEGVE 330 Query: 220 ERKNRRNMLTRSMSVLNPRERRIF 243 R++ + +L + L PRE+RI Sbjct: 331 YRESLKPLLEK----LPPREKRIL 350 >gi|308173495|ref|YP_003920200.1| RNA polymerase sporulation-specific sigma factor sigma-G [Bacillus amyloliquefaciens DSM 7] gi|307606359|emb|CBI42730.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus amyloliquefaciens DSM 7] gi|328553575|gb|AEB24067.1| sporulation sigma factor SigG [Bacillus amyloliquefaciens TA208] gi|328911632|gb|AEB63228.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus amyloliquefaciens LL3] Length = 260 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 62/262 (23%), Positives = 121/262 (46%), Gaps = 16/262 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L K+ ++ GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFKQLQDEGDDSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 75 GLMKSIDNFDLSHNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + T E+ IAK L V E++ + SL I + + D + Sbjct: 132 RLISETSREPTAEE---IAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 188 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 189 SDERNKDTQWIEEL--------ALKEGMRRLNEREKMILRKRFFQGK--TQMEVAEEIGI 238 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ +V ++E A K++ ++I + Sbjct: 239 SQAQVSRLEKAAIKQMNKNIHQ 260 >gi|303232785|ref|ZP_07319470.1| putative RNA polymerase sigma-B factor [Atopobium vaginae PB189-T1-4] gi|302481271|gb|EFL44346.1| putative RNA polymerase sigma-B factor [Atopobium vaginae PB189-T1-4] Length = 287 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 42/150 (28%), Positives = 75/150 (50%), Gaps = 15/150 (10%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +KQ L +++ HGD A ++LV +HL L +A ++ G + +++ IGL++A Sbjct: 40 DKQRTRELFIKFKRHGDEEARNQLVLNHLNLARFLASKFKNRGESLDDLIQVATIGLIKA 99 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 + +FD +RG T++ I ++ + RSWS+ R+ L+ L + Sbjct: 100 IDRFDIDRGLEFTTFATPTILGEIKRHFRDRSWSV----------RVPRRLQELSSKVSQ 149 Query: 149 ITDNNLKPEQ----VVAIAKKLNVSESEVI 174 TD + Q V IA++L+VS EV+ Sbjct: 150 ATDMLTEKLQHSPSVEEIARELDVSVDEVL 179 >gi|290959142|ref|YP_003490324.1| SigH-like stress response sigma factor [Streptomyces scabiei 87.22] gi|260648668|emb|CBG71781.1| SigH-like stress response sigma factor [Streptomyces scabiei 87.22] Length = 306 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 85 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 144 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 145 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVTELAAVLGVSEE 198 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 199 DVVDGLAVGNAYTAS--SLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 252 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 253 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 303 >gi|224002653|ref|XP_002290998.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220972774|gb|EED91105.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 345 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 26/72 (36%), Positives = 50/72 (69%), Gaps = 4/72 (5%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + A ++LV S+LR+V ++ Y GL +++ +G + L++A +K++PERGFR + Sbjct: 83 IEAKNQLVASNLRMVQRVVNLYIRNGLGSEYNAGDLMQDGTMALIRAAEKYEPERGFRFS 142 Query: 103 TYSMWWIKAAMQ 114 TY+M+WI++A++ Sbjct: 143 TYAMYWIRSAVK 154 >gi|32474462|ref|NP_867456.1| sigma-70 factor [Rhodopirellula baltica SH 1] gi|32445000|emb|CAD75002.1| sigma-70 factor [Rhodopirellula baltica SH 1] Length = 557 Score = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 65/249 (26%), Positives = 109/249 (43%), Gaps = 75/249 (30%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +++V ++LRLVV IA + ++S+GN+ L++AV+KFD RG + +TY+ Sbjct: 378 NKIVQANLRLVVSIAKRHVASAEDFFSLISDGNMSLIRAVEKFDYSRGNKFSTYA----- 432 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 SW+++K N R N + + +A D Q Sbjct: 433 ---------SWAIMK-----NFARTIPNEFKHRDRFRATPDEMFVAHQ------------ 466 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 DE L+ + +E V ++ R+ L R Sbjct: 467 ------------DERLDPYL--------------------EETVQLQ------RQRELAR 488 Query: 231 SMSVLNPRERRIFEAR-RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK- 286 + L+ RE++I AR LQ P+TL+ + E V++ERVRQ+EARA K++++ + Sbjct: 489 ILDRLDEREQKIITARFGLQRGVEPLTLKEVGEEMGVTKERVRQLEARALSKLRDAARDA 548 Query: 287 --QVELSSS 293 VEL +S Sbjct: 549 KIDVELGAS 557 >gi|327539462|gb|EGF26077.1| sigma-70 factor [Rhodopirellula baltica WH47] Length = 557 Score = 59.3 bits (142), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 65/248 (26%), Positives = 108/248 (43%), Gaps = 75/248 (30%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++V ++LRLVV IA + ++S+GN+ L++AV+KFD RG + +TY+ Sbjct: 379 KIVQANLRLVVSIAKRHVASAEDFFSLISDGNMSLIRAVEKFDYSRGNKFSTYA------ 432 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 SW+++K N R N + + +A D Q Sbjct: 433 --------SWAIMK-----NFARTIPNEFKHRDRFRATPDEMFVAHQ------------- 466 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 DE L+ + +E V ++ R+ L R Sbjct: 467 -----------DERLDPYL--------------------EETVQLQ------RQRELARI 489 Query: 232 MSVLNPRERRIFEAR-RLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK-- 286 + L+ RE++I AR LQ P+TL+ + E V++ERVRQ+EARA K++++ + Sbjct: 490 LDRLDEREQKIITARFGLQRGVEPLTLKEVGEEMGVTKERVRQLEARALSKLRDAARDAK 549 Query: 287 -QVELSSS 293 VEL +S Sbjct: 550 IDVELGAS 557 >gi|323490578|ref|ZP_08095784.1| RNA polymerase sigma-B factor [Planococcus donghaensis MPA1U2] gi|323395844|gb|EGA88684.1| RNA polymerase sigma-B factor [Planococcus donghaensis MPA1U2] Length = 260 Score = 59.3 bits (142), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 59/249 (23%), Positives = 129/249 (51%), Gaps = 22/249 (8%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLMQAVKKFDPER 97 Y++ D A LV ++ RLV IA Y + Y I++V G +GL+ A++++DP Sbjct: 22 YQKTEDEEAQTNLVLNYKRLVESIARKYSNGKSYHEDIAQV---GMLGLLGAIRRYDPSY 78 Query: 98 GFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 G +++ I ++ ++ ++W++ +R+ R+K ++ +T + Sbjct: 79 GRSFEAFAVPTIIGEIKRFLRDKTWAI------HVPRRIKELGPRIKATVEVLTTELQRS 132 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVL 215 QV IA+ L+V E +++ + +S AL ++ S + S ++D GQE Sbjct: 133 PQVWEIAEYLDVEEDDILEA---MEMGKSYQALSMDHSLEADSDGSTITLFDVVGQED-- 187 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + E+ ++R ++ +M+VL+ RE++I + +++ ++ + + +S+ V +++ + Sbjct: 188 -DGYEKADQRMLVAEAMNVLSEREKQIIQFTYIEQ--LSQKEAGDKLGISQMHVSRLQRK 244 Query: 276 AFKKVQESI 284 A KK+QE+I Sbjct: 245 AIKKLQEAI 253 >gi|302670750|ref|YP_003830710.1| flagellar biosynthesis sigma factor FliA [Butyrivibrio proteoclasticus B316] gi|302395223|gb|ADL34128.1| flagellar biosynthesis sigma factor FliA [Butyrivibrio proteoclasticus B316] Length = 257 Score = 59.3 bits (142), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 115/246 (46%), Gaps = 33/246 (13%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK+ G Y G+ + ++V G GL+ A+ KFD + + TY+ I+ A+ + Sbjct: 32 LVKLVAGRLSMYLGFNVEYDDLVGYGIFGLIDAIDKFDLMKDVKFETYASLRIRGAILDQ 91 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 I R + QK++ +R ++ GH+ TD IA K+ +SE E Sbjct: 92 I-RKMDWIPRTIRQRQKKIEAAIREIERDGGHVA--TD--------AEIAAKMQISEDEY 140 Query: 174 ISM--NCRLAGDESLNALINSS---DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + ++ G SLN ++ ++S+ V + IEKEE K ML Sbjct: 141 ANWQNQMKVTGVVSLNEFMDQGADIPEDSNNRSSGFVKPEEA-----IEKEELK---KML 192 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +S+ L +E+++ +E +TL+ +S EVS RV Q+ +A +K++E + + Sbjct: 193 AQSLESLTDKEKKVILLYYYEE--LTLKEISQVLEVSESRVSQLHTKALQKMREKLGDYL 250 Query: 289 ELSSSP 294 + ++P Sbjct: 251 GILTNP 256 >gi|302871563|ref|YP_003840199.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574422|gb|ADL42213.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 240 Score = 59.3 bits (142), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 113/243 (46%), Gaps = 24/243 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +L+ S+L LV + + G+ + ++ G IGL++AV +FDP R + Sbjct: 14 KNGDKVARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSFNVRFS 73 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG--TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY++ I ++ Y LR +K+ NQ + +++L+ Q ++DN +P + Sbjct: 74 TYAVPMIIGEIKRY-LRDDGRIKVSRKIKENQSK----IKKLRN--QFVSDNGREP-TIS 125 Query: 161 AIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I++ +S E+ + C A E SL+ +IN + D + D ++L Sbjct: 126 EISQLTGLSSEEI--LLCMDASSEVASLSEVINQEEGKPITLMDLASDEEDYSTKLL--- 180 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L RER I R + T ++ + +S+ V +IE RA + Sbjct: 181 -----DLMALKEGLKKLKGRERYIIFMRYFKNK--TQSEIAKQLNISQVHVSRIEKRALE 233 Query: 279 KVQ 281 +++ Sbjct: 234 RIK 236 >gi|298715063|emb|CBJ27770.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Ectocarpus siliculosus] Length = 737 Score = 59.3 bits (142), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 27/69 (39%), Positives = 44/69 (63%), Gaps = 5/69 (7%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYR----GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + A +LV +L LVV +A Y+ G + ++ EG IGL++A +++DP +GFR Sbjct: 477 MEARQKLVVCNLALVVSLANKYKRSHFDCGC-LQTLIQEGTIGLIRAAERYDPSKGFRFT 535 Query: 103 TYSMWWIKA 111 TY++WWI+A Sbjct: 536 TYAIWWIEA 544 >gi|2529271|gb|AAB81191.1| sigma factor [Lysinibacillus sphaericus] Length = 263 Score = 59.3 bits (142), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 58/239 (24%), Positives = 110/239 (46%), Gaps = 18/239 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A R+V + RLV I + G+ + ++ G IGLM++V KFD + + Sbjct: 25 QQGDHEARKRMVEGNTRLVWSIVQRFTTRGVELEDLFQIGCIGLMKSVDKFDLSYDVKFS 84 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR +VK+ + + L F +R I N +P + + Sbjct: 85 TYAVPMIIGEIQRF-LRDDGMVKVSRSI--RELNFKIRHATDEF--IKRNEHRP-TIQEL 138 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A+ L V+ E+++ + L SL+ + S+ +S D Q+ EK E+ Sbjct: 139 AQVLGVTTEEIVTASDALRDPASLHEQLYESEGDSITLMD----------QMKDEKSEQP 188 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L ++ L PRE+ I R + T +++ +S+ +V ++E + +++ Sbjct: 189 FDYIPLKEVLTRLEPREQSIIYLRYFSD--CTQTEIANRLGISQVQVSRLEKKILAQLK 245 >gi|302792318|ref|XP_002977925.1| hypothetical protein SELMODRAFT_53596 [Selaginella moellendorffii] gi|300154628|gb|EFJ21263.1| hypothetical protein SELMODRAFT_53596 [Selaginella moellendorffii] Length = 326 Score = 59.3 bits (142), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 60/245 (24%), Positives = 116/245 (47%), Gaps = 29/245 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +A ++++ +LRLV A Y L + ++ EG GLM AV KFDP++G+R +TY+ Sbjct: 87 AARNKMIKHNLRLVAHQARKYFKEELSLSLLDLCQEGVPGLMSAVDKFDPKKGYRFSTYA 146 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 ++W+K ++ R +V++ +++ ++R + L D E+V+ K Sbjct: 147 VYWVKNSILRAQTRLGHIVRVPYNVAAQKM--TIQRKRAQLSLELDREPTHEEVITELKM 204 Query: 166 LNVSESEVI-------SMNCR--LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 + EV+ S+N R + G+E +++ I+ D+N +Q+ + G + VL Sbjct: 205 DSRRYFEVLRTGAPRRSLNARSKVTGEELIHS-ISDPDENEAQYFNAGAQLRLGMDDVL- 262 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + K + +++ R L+ + R F + +SRE VR+ E R Sbjct: 263 --DSLKPKESLIIRQRYGLDGKGERSF------------TEIGRNLNLSREMVRKYEIRG 308 Query: 277 FKKVQ 281 K++ Sbjct: 309 MMKLK 313 >gi|225462725|ref|XP_002268709.1| PREDICTED: hypothetical protein [Vitis vinifera] gi|302143685|emb|CBI22546.3| unnamed protein product [Vitis vinifera] Length = 518 Score = 59.3 bits (142), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 46/169 (27%), Positives = 85/169 (50%), Gaps = 18/169 (10%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKK 92 V +R+ E G +A ++L+ +LRLV+ + Y G ++ G GL+ A+ + Sbjct: 268 VQVRRHMEVGQ-AARNKLIKHNLRLVLFVINKYFQEFANGPKFQDLCQAGVKGLITAIDR 326 Query: 93 FDPERGFRLATYSMWWIK-AAMQEYILRSWSLVKIGTTA-------NQKRLFFNLRRLKG 144 F+P+R FRL+TY ++WI+ A M+ L S++ V G + + L F L+RL Sbjct: 327 FEPKRSFRLSTYGLFWIRHAIMRSMTLSSFTRVSFGLESVRVEIQRAKLELLFKLQRLPT 386 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALIN 191 + I + PE+ + + + V+S++ R A +E +N + + Sbjct: 387 EEEIIEKVGISPERYHEVMR----ASKSVLSLHARHATTQEEYINGITD 431 >gi|23978331|dbj|BAC21136.1| principal sigma factor [Synechococcus leopoliensis] Length = 188 Score = 59.3 bits (142), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 53/199 (26%), Positives = 100/199 (50%), Gaps = 19/199 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLP--ISLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRL 248 I + S+ D++ + DG+ E E KN R L +S L+PRER + R Sbjct: 117 IGKEE--DSRLGDFI--EADGETP---EDEVAKNLLREDLEGVLSTLSPRERDVLRLRYG 169 Query: 249 QENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 170 LDDGRMKTLEEIGQLFNVT 188 >gi|83589704|ref|YP_429713.1| sporulation sigma factor SigG [Moorella thermoacetica ATCC 39073] gi|83572618|gb|ABC19170.1| RNA polymerase, sigma subunit, RpsG/SigG [Moorella thermoacetica ATCC 39073] Length = 272 Score = 59.3 bits (142), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 66/272 (24%), Positives = 133/272 (48%), Gaps = 41/272 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ E L ++ + G+ A +L+T +LRLV+ + + G + ++ G I Sbjct: 30 KLPLLKSDEIRQLFQQM-QAGETGAREKLITGNLRLVLSVIQRFTNRGEHVDDLFQVGCI 88 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 89 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRS---------LRDVAY 138 Query: 145 HLQAITD---NNLKPEQVVA-IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 I D N L E +A +A++L++ + EVI +L+A+ + S + Sbjct: 139 KALQIRDTLVNKLAREPSLAEVAQQLDLPQEEVIF---------ALDAI----QEPVSLF 185 Query: 201 QDWLVYDHDGQEQVLIEKE--ERKNRRN------MLTRSMSVLNPRERRIFEARRLQENP 252 + +Y HDG + + + + + KN+ + + +M+ LNPRER I R + Sbjct: 186 EP--IY-HDGGDPIFVMDQIGDEKNQDSSWLENIAIKEAMNKLNPRERLILSLRFFEGK- 241 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A + +++ I Sbjct: 242 -TQMEVADEIGISQAQVSRLEKAALQHMRKYI 272 >gi|297616583|ref|YP_003701742.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297144420|gb|ADI01177.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 235 Score = 59.3 bits (142), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 35/102 (34%), Positives = 57/102 (55%), Gaps = 1/102 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 + G + L Y++ + L ++EE + ++ RE GD A H L+ +LRLV + + Sbjct: 13 LTKGMLMLFSYLNNLVFPHPLSEEEERIYLEKTRE-GDEEAKHILIEHNLRLVAHVIKKF 71 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 G G +++S G IGL++A+ FD RG RLATY+ I+ Sbjct: 72 EGTGEDTEDLISIGTIGLIKAINTFDYARGTRLATYAARCIE 113 >gi|327438482|dbj|BAK14847.1| DNA-directed RNA polymerase specialized sigma subunit [Solibacillus silvestris StLB046] Length = 261 Score = 59.3 bits (142), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 59/246 (23%), Positives = 119/246 (48%), Gaps = 16/246 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+ G + LV + +LV IA Y ++V G +GL+ A+++FDP G Sbjct: 22 YQASGCEESQTNLVLHYQQLVESIARKYSHGKSYYDDIVQVGMLGLLGAIRRFDPSFGRS 81 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++W + +R+ R+K ++A+T + + + Sbjct: 82 FEAFAVPTIVGEIKRFLRDKTWDV------HVPRRIKELGPRIKAAVEALTTSLQRSPSI 135 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA L V + +V+ + S AL ++ S ++ S ++D G+E Sbjct: 136 TEIATYLEVQDEDVLEA---MEMGRSYQALSMDHSIESDSDGSTVTLFDVVGREDT---G 189 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E NRR ++ +M+VLN RER+I + L++ ++ + +S+ V +I+ +A K Sbjct: 190 YEVTNRRMIVADAMNVLNERERQIIQLTYLEQ--LSQKEAGERLGISQMHVSRIQRKAIK 247 Query: 279 KVQESI 284 K+Q++I Sbjct: 248 KLQDAI 253 >gi|160935680|ref|ZP_02083055.1| hypothetical protein CLOBOL_00570 [Clostridium bolteae ATCC BAA-613] gi|158441424|gb|EDP19134.1| hypothetical protein CLOBOL_00570 [Clostridium bolteae ATCC BAA-613] Length = 246 Score = 59.3 bits (142), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 66/275 (24%), Positives = 122/275 (44%), Gaps = 65/275 (23%) Query: 15 GLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 G YI +P LE +EE + D A L+ +LRLVV IA + + Sbjct: 28 GEVHYIGGADILPAPLETEEEGRMISLLGSEDDKEARAALIEHNLRLVVYIAKKFDNTSV 87 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 + +++S G IGL++A+ F P++ +LATY+ I+ + Y+ R+ N+ Sbjct: 88 GVEDLISIGTIGLIKAINTFKPDKNIKLATYASRCIENEILMYLRRN----------NKT 137 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 RL V+I + LNV G+E L + I + Sbjct: 138 RL-----------------------EVSIDEPLNVD----------WDGNELLLSDILGT 164 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D++ ++Y HD ++++ +++L ++S LNPRER+I E R N Sbjct: 165 DED-------VIY-HDIEDEI---------EKSLLNNAISRLNPRERKIVELRYGLTNED 207 Query: 252 --PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +T + ++ +S+ + ++E + K++++ I Sbjct: 208 GEEMTQKEVADLLGISQSYISRLEKKIMKRLKKEI 242 >gi|23978319|dbj|BAC21133.1| principal sigma factor [Microcystis wesenbergii] Length = 188 Score = 58.9 bits (141), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 99/198 (50%), Gaps = 17/198 (8%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I + S+ D++ D + E + + R++ N+L L+PRER + R Sbjct: 117 IGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLENVL----DTLSPRERDVLRLRYGL 170 Query: 250 ENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 171 DDGRMKTLEEIGQIFNVT 188 >gi|302542626|ref|ZP_07294968.1| putative RNA polymerase sigma factor [Streptomyces hygroscopicus ATCC 53653] gi|302460244|gb|EFL23337.1| putative RNA polymerase sigma factor [Streptomyces himastatinicus ATCC 53653] Length = 351 Score = 58.9 bits (141), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 59/233 (25%), Positives = 104/233 (44%), Gaps = 17/233 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G P+ ++ IGL+++V +FDP+RG +TY+ + Sbjct: 131 LVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTVVGE 190 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ + V++ + RL + ++ + + V +A+ L +SE E Sbjct: 191 IKRHFRDKGWAVRVPRRLQELRLSLTTATAE-----LSQRHGRAPTVHELAEHLAISEEE 245 Query: 173 VISMNCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 V L G ES NA S D + + V D G E +E E R L Sbjct: 246 V------LEGLESANAYSTLSLDVPDTDDESPAVADTLGAEDEALEGVE---YRESLKPL 296 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PRE++I R +T ++ E +S+ V ++ AR ++++ + Sbjct: 297 LEDLPPREKKILLLRFFGN--MTQSQIAQEVGISQMHVSRLLARTLAQLRDRL 347 >gi|325662152|ref|ZP_08150770.1| hypothetical protein HMPREF0490_01508 [Lachnospiraceae bacterium 4_1_37FAA] gi|325471601|gb|EGC74821.1| hypothetical protein HMPREF0490_01508 [Lachnospiraceae bacterium 4_1_37FAA] Length = 211 Score = 58.9 bits (141), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 33/84 (39%), Positives = 51/84 (60%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E+Y + K Y E GDL A H L+ +LRLV I Y+ +++S G +GL Sbjct: 10 PLTSAEEQYYMQK-YTE-GDLEAKHILIEHNLRLVAHIVKKYQRPEEDNEDLISIGTVGL 67 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++AV F+PE+G RL+TY+ I+ Sbjct: 68 IKAVITFNPEKGNRLSTYAARCIE 91 >gi|153953795|ref|YP_001394560.1| RNA polymerase sigma factor [Clostridium kluyveri DSM 555] gi|219854411|ref|YP_002471533.1| hypothetical protein CKR_1068 [Clostridium kluyveri NBRC 12016] gi|146346676|gb|EDK33212.1| RNA polymerase sigma factor [Clostridium kluyveri DSM 555] gi|219568135|dbj|BAH06119.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 241 Score = 58.9 bits (141), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 66/247 (26%), Positives = 113/247 (45%), Gaps = 21/247 (8%) Query: 46 DLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 +L+ LV +L LV IA +G Y + ++VS G +GLM A+ KFD +RG + Sbjct: 6 ELNIKEELVKKYLPLVKYIASRVIIGKTKY-IEYEDLVSYGTLGLMDAINKFDKDRGMKF 64 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 +TY+ IK +M + + R+ + K G R + L+G L + V Sbjct: 65 STYASIRIKGSMIDELRRNSPISK-GAMDKLNRYNAAVEYLQGELG-------REPNSVE 116 Query: 162 IAKKLNVSESEVISMN--CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IA KL +S E++ + SL L+ S + N E+ L EKE Sbjct: 117 IASKLGISLKEMMEIENYINYISMVSLEDLVFSDEDNIPIMGTIEDTKSPSPERNLEEKE 176 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + K L +++ +LN ++ + +E +TL+ + VS RV Q+ +RA Sbjct: 177 KLK----YLAKALELLNEKDNLVLTLYYYEE--LTLKEIGHILNVSESRVCQLHSRAIVH 230 Query: 280 VQESIQK 286 +++++ K Sbjct: 231 LRKAMAK 237 >gi|294630218|ref|ZP_06708778.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] gi|292833551|gb|EFF91900.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] Length = 302 Score = 58.9 bits (141), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 81 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 140 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 141 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVAELAAVLGVSEE 194 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 195 DVVDGLAVGNAYTAS--SLDSPAPEDDGGEGSLADRLGYEDSALEGV----EYRESLKPL 248 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R ++++ + Sbjct: 249 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLRDGL 299 >gi|219125233|ref|XP_002182890.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217405684|gb|EEC45626.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 312 Score = 58.9 bits (141), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 5/70 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRG-----YGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 A H LVT++L LV + G G+ E++ EG++GL++A + FDPERG R +T Sbjct: 60 AKHDLVTANLGLVHAVVNQQYGSLKTHTGITKEELIQEGSLGLLRAAELFDPERGLRFST 119 Query: 104 YSMWWIKAAM 113 Y++ WIK + Sbjct: 120 YAVVWIKGVL 129 >gi|26249146|ref|NP_755186.1| hypothetical protein c3307 [Escherichia coli CFT073] gi|26109553|gb|AAN81756.1|AE016765_158 Putative conserved protein [Escherichia coli CFT073] Length = 144 Score = 58.9 bits (141), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 31/73 (42%), Positives = 49/73 (67%), Gaps = 1/73 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 73 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 131 Query: 79 VSEGNIGLMQAVK 91 + EGN+GL++AV+ Sbjct: 132 IEEGNLGLIRAVE 144 >gi|16078597|ref|NP_389416.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. 168] gi|221309407|ref|ZP_03591254.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. 168] gi|221313732|ref|ZP_03595537.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221318656|ref|ZP_03599950.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. JH642] gi|221322929|ref|ZP_03604223.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. SMY] gi|321315298|ref|YP_004207585.1| sporulation sigma factor SigG [Bacillus subtilis BSn5] gi|133475|sp|P19940|RPSG_BACSU RecName: Full=RNA polymerase sigma-G factor; AltName: Full=Stage III sporulation protein G gi|143430|gb|AAA22703.1| sporulation-specific sigma factor [Bacillus subtilis] gi|580764|emb|CAA40771.1| sigma-G factor [Bacillus subtilis subsp. subtilis str. 168] gi|2633906|emb|CAB13407.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus subtilis subsp. subtilis str. 168] gi|320021572|gb|ADV96558.1| sporulation sigma factor SigG [Bacillus subtilis BSn5] Length = 260 Score = 58.9 bits (141), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 61/262 (23%), Positives = 120/262 (45%), Gaps = 16/262 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L ++ ++ GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFRQLQDEGDDSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 75 GLMKSIDNFDLSHNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQV 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I++ + +P IAK L V E++ + SL I + + D + Sbjct: 130 RERLISETSKEP-TAEDIAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 188 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 189 SDERNTDSQWIEEL--------ALKEGMRRLNDREKMILRKRFFQGK--TQMEVAEEIGI 238 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ +V ++E A K++ ++I + Sbjct: 239 SQAQVSRLEKAAIKQMNKNIHQ 260 >gi|212639646|ref|YP_002316166.1| sporulation sigma factor SigG [Anoxybacillus flavithermus WK1] gi|212561126|gb|ACJ34181.1| DNA-directed RNA polymerase specialized sigma subunit sigG [Anoxybacillus flavithermus WK1] Length = 259 Score = 58.9 bits (141), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 65/273 (23%), Positives = 129/273 (47%), Gaps = 41/273 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L K EE R + GD+SA +L+T +LRLV+ + + G + ++ G I Sbjct: 15 KLPVL-KNEEMRELFRQMQAGDISAREKLITGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + + T E+ IAK L+V E++ +L+A+ QD + Sbjct: 131 KMMSETAKEPTAEE---IAKILDVPHEEIVF---------ALDAI-----------QDPV 167 Query: 205 -----VYDHDGQEQVLIEK-EERKNRRN------MLTRSMSVLNPRERRIFEARRLQENP 252 +Y+ G ++++ + KNR L + LN RE+ I R Q Sbjct: 168 SLFEPIYNDGGDPIYVMDQLSDEKNRDTNWIEEIALKEGLRRLNEREKMIIRKRFFQGK- 226 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T ++ E +S+ +V ++E A K++ ++IQ Sbjct: 227 -TQMEVAEEIGISQAQVSRLEKAAIKQMNKNIQ 258 >gi|331090616|ref|ZP_08339467.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 2_1_46FAA] gi|330401056|gb|EGG80651.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 2_1_46FAA] Length = 246 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 30/92 (32%), Positives = 53/92 (57%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 LE +EE + ++ D A L+ +LRLVV IA + G+ + +++S G IGL++ Sbjct: 43 LETEEETAVIEKLGTETDDVAKKTLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIK 102 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 103 AINTFNPMKNIKLATYASRCIENEILMYLRRN 134 >gi|226313414|ref|YP_002773308.1| sporulation sigma factor SigE [Brevibacillus brevis NBRC 100599] gi|226096362|dbj|BAH44804.1| RNA polymerase sigma-E factor precursor [Brevibacillus brevis NBRC 100599] Length = 240 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 30/76 (39%), Positives = 47/76 (61%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD + L+ +LRLVV IA + G+ I ++VS G IGL++AV FDP++ +LATY Sbjct: 55 GDPAVRGMLIERNLRLVVYIARKFENTGINIEDLVSIGTIGLIKAVNTFDPDKNIKLATY 114 Query: 105 SMWWIKAAMQEYILRS 120 + I+ + Y+ R+ Sbjct: 115 ASRCIENEILMYLRRN 130 >gi|320009626|gb|ADW04476.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 288 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 67 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 126 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +AK L VSE Sbjct: 127 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELAKALGVSEE 180 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 181 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDAALEGV----EYRESLKPL 234 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 235 LAK----LAPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLTQLREGL 285 >gi|23978363|dbj|BAC21146.1| principal sigma factor [Pleurocapsa sp. PCC 7327] Length = 188 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 99/198 (50%), Gaps = 17/198 (8%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKILSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I + S+ D++ D + E + + R++ N+L L+PRER + R Sbjct: 117 IGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLENVL----DTLSPRERDVLRLRYGL 170 Query: 250 ENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 171 DDGRMKTLEEIGQIFNVT 188 >gi|51892950|ref|YP_075641.1| sporulation sigma factor SigF [Symbiobacterium thermophilum IAM 14863] gi|51856639|dbj|BAD40797.1| RNA polymerase sigma factor similar to B. subtilis sporulation-specific sigma-F [Symbiobacterium thermophilum IAM 14863] Length = 255 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 58/237 (24%), Positives = 110/237 (46%), Gaps = 15/237 (6%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A RLV +LRLV + + G ++ G IGL++A+ +FD R +TY Sbjct: 27 GDKEARDRLVEGNLRLVRSLVSRFSASGADPEDLFQIGCIGLLKAIDRFDLNYDVRFSTY 86 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR +++ + Q L RR++ L A + + V +A Sbjct: 87 AVPLIMGEIRRH-LRDDGPMRVSRSLKQ--LAQQARRVRERLAAQMERD---PTVAEVAA 140 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L VS EV++ + S++ ++ D + D L D +E V ++ Sbjct: 141 ELGVSPEEVVAALDGVRPPTSIHQTVHEGDGDPIYLLDQLAADDGQREGVWLD------- 193 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L ++ L+ RER + R ++ T ++S S+ +V ++E RA ++++ Sbjct: 194 RVALREGLNQLDERERTVILLRFFRDK--TQTEVASILGCSQVQVSRLERRALERIR 248 >gi|303238906|ref|ZP_07325437.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302593539|gb|EFL63256.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 257 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 65/277 (23%), Positives = 128/277 (46%), Gaps = 51/277 (18%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L ++ VL +R + GD SA + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNDQKKVLFERMHK-GDTSAREEFIKGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK- 143 GL++A+ FD + + +TY++ I ++ Y+ + S+ R+ +LR + Sbjct: 74 GLIKAIDNFDVSQNVKFSTYAVPMIIGEIRRYLRDNNSI----------RVSRSLRDIAY 123 Query: 144 GHLQA---ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 LQA +T+ N K V I+K+L + + +++ +L+A+ + S + Sbjct: 124 KALQAKERLTNKNSKEPTVDDISKELGIPKEDIVF---------ALDAIQDPISLFESVY 174 Query: 201 QDWLVYDHDGQEQVLIE---KEERKNRRN-----MLTRSMSVLNPRER-----RIFEARR 247 HDG + + + K+E+ + N L +M LN RE+ R F+ R Sbjct: 175 -------HDGGDAIYVMDQVKDEKNHDENWLEGIALNEAMRKLNDREKLILNLRFFDGRT 227 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E ++ E +S+ +V ++E A +++ I Sbjct: 228 QME-------VAEEIGISQAQVSRLEKTALMHMRKYI 257 >gi|304404017|ref|ZP_07385679.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304346995|gb|EFM12827.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 240 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 31/76 (40%), Positives = 47/76 (61%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD + L+ +LRLVV IA + G+ I ++VS G IGL++AV FDPE+ +LATY Sbjct: 55 GDTAIRAMLIERNLRLVVYIARKFENTGIHIEDLVSIGAIGLIKAVNTFDPEKKIKLATY 114 Query: 105 SMWWIKAAMQEYILRS 120 + I+ + Y+ R+ Sbjct: 115 ASRCIENEILMYLRRN 130 >gi|296331109|ref|ZP_06873583.1| sporulation sigma factor SigG [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674264|ref|YP_003865936.1| sporulation-specific sigma factor sigma-G [Bacillus subtilis subsp. spizizenii str. W23] gi|296151753|gb|EFG92628.1| sporulation sigma factor SigG [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305412508|gb|ADM37627.1| sporulation-specific sigma factor sigma-G [Bacillus subtilis subsp. spizizenii str. W23] Length = 260 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 61/262 (23%), Positives = 120/262 (45%), Gaps = 16/262 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L ++ ++ GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFRQLQDEGDDSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 75 GLMKSIDNFDLSHNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQV 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I++ + +P IAK L V E++ + SL I + + D + Sbjct: 130 RERLISETSKEP-TAEDIAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 188 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 189 SDERNKDSQWIEEL--------ALKEGMRRLNDREKMILRKRFFQGK--TQMEVAEEIGI 238 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ +V ++E A K++ ++I + Sbjct: 239 SQAQVSRLEKAAIKQMNKNIHQ 260 >gi|282863440|ref|ZP_06272499.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282561775|gb|EFB67318.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 288 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 67 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 126 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +AK L VSE Sbjct: 127 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQKLDRS---PTVPELAKALGVSEE 180 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 181 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDAALEGV----EYRESLKPL 234 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 235 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLTQLREGL 285 >gi|266626024|ref|ZP_06118959.1| RNA polymerase sigma-E factor [Clostridium hathewayi DSM 13479] gi|288862073|gb|EFC94371.1| RNA polymerase sigma-E factor [Clostridium hathewayi DSM 13479] Length = 246 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 66/267 (24%), Positives = 113/267 (42%), Gaps = 65/267 (24%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +I P+ + E V+A E D SA L+ +LRLVV IA + + + +++S Sbjct: 37 DILPAPLDNESEARVIAMLGGED-DQSAKSELIEHNLRLVVYIAKKFDNTSVGVEDLISI 95 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G IGL++A+ F+P + +LATY+ I+ + Y LRR Sbjct: 96 GTIGLIKAINTFNPGKNIKLATYASRCIENEILMY----------------------LRR 133 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 N K + V+I + LNV D N Sbjct: 134 -----------NNKTKMEVSIDEPLNV-----------------------DWDGNELLLS 159 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR----RLQENPVTLEN 257 D L D D V+ + E + RN+L ++S L+PRER+I E R + +T + Sbjct: 160 DILGTDED----VIYKDLETEVERNLLNSAISRLSPRERKIVELRFGLSDEEGEEMTQKE 215 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESI 284 ++ +S+ + ++E + K++++ I Sbjct: 216 VADLLGISQSYISRLEKKIMKRLKKEI 242 >gi|167770711|ref|ZP_02442764.1| hypothetical protein ANACOL_02057 [Anaerotruncus colihominis DSM 17241] gi|167667306|gb|EDS11436.1| hypothetical protein ANACOL_02057 [Anaerotruncus colihominis DSM 17241] Length = 263 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 64/273 (23%), Positives = 124/273 (45%), Gaps = 44/273 (16%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L+++E+ L K+ R+ GD A ++ +LRLV+ + + G + ++ G I Sbjct: 22 KLTVLKEKEKIELLKKIRQ-GDQKARQEMINGNLRLVLSVVQKFTNRGENLDDLFQVGCI 80 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FDP + R +TY + I ++ + LR + V++ + + L + + K Sbjct: 81 GLIKAIDNFDPNQNVRFSTYGVPMIIGEIRRH-LRDNNSVRVSRSL--RDLAYKAMQAK- 136 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA------------GDESLNALINS 192 +A+ + N K V IAK++ + +V+ + G +++ + Sbjct: 137 --EALINRNSKEPTVEEIAKEMGAKKEDVVLALEAIVEPMSLYDPVYSDGGDTIYVMDQI 194 Query: 193 SDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 DKNS S W D +V+ +E KN L RE++I R Sbjct: 195 GDKNSESDWMDEIVF-----------REAMKN-----------LGDREKQILSLRFF--G 230 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A V++ I Sbjct: 231 GKTQMEVAKEIGISQAQVSRLEKGALDWVKKHI 263 >gi|78043932|ref|YP_360874.1| sporulation sigma factor SigG [Carboxydothermus hydrogenoformans Z-2901] gi|77996047|gb|ABB14946.1| RNA polymerase sigma-G factor [Carboxydothermus hydrogenoformans Z-2901] Length = 257 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 65/265 (24%), Positives = 123/265 (46%), Gaps = 41/265 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L QE L + +E GD+ A +L++ +LRLV+ I + G + ++ G I Sbjct: 15 KLPVLTNQEMKKLFLKVKE-GDMEARQKLISGNLRLVLSIIQRFTNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD E+ + +TY++ I ++ Y LR + +++ + LR + Sbjct: 74 GLIKAIDNFDLEQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRS---------LRDVAY 123 Query: 145 HLQAITDNNL----KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 + DN + + V IA++L V + EV+ +L+A+ + + Sbjct: 124 KALQVRDNLVGRFSREPTVSEIAQELKVPQEEVVF---------ALDAIQDPVSLFEPIY 174 Query: 201 QDWLVYDHDGQEQVLIE---KEERKNRRN-----MLTRSMSVLNPRERRIFEARRLQENP 252 Q DG + + + K+E+ N L ++ LN RER I + R E Sbjct: 175 Q-------DGGDPIFVMDQIKDEKNTDHNWLQGIALKEALERLNERERLILKL-RFYEGK 226 Query: 253 VTLENLSSEFEVSRERVRQIEARAF 277 +E ++ E +S+ +V ++E A Sbjct: 227 TQME-VAEEIGISQAQVSRLEKAAL 250 >gi|326204637|ref|ZP_08194493.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium papyrosolvens DSM 2782] gi|325985204|gb|EGD46044.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium papyrosolvens DSM 2782] Length = 243 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E Y+L K E D L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 42 PLTLDEETYLLNKL--EQSDYGVKSILIERNLRLVVYIARKFENTGVGVEDLISIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 100 IKAINTFNPSKNIKLATYASRCIENEILMYLRRN 133 >gi|167757711|ref|ZP_02429838.1| hypothetical protein CLOSCI_00041 [Clostridium scindens ATCC 35704] gi|167664593|gb|EDS08723.1| hypothetical protein CLOSCI_00041 [Clostridium scindens ATCC 35704] Length = 208 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 32/84 (38%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E Y + K Y E GDL A H L+ +LRLV I Y+ + +++S G IGL Sbjct: 10 PLTAAEERYYMQK-YTE-GDLEAKHILIERNLRLVAHIVKKYQSFEEDTEDLLSIGTIGL 67 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++AV F+P++ RL TY+ I+ Sbjct: 68 IKAVVTFNPDKCVRLGTYAARCIE 91 >gi|291561536|emb|CBL40335.1| RNA polymerase, sigma subunit, RpsG/SigG [butyrate-producing bacterium SS3/4] Length = 258 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 58/264 (21%), Positives = 123/264 (46%), Gaps = 31/264 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L +R ++GD A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPLLTNEEKTDLFRRI-QNGDTDARETYIKGNLRLVLSVIQRFSGSSENLDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + L + Sbjct: 74 GLIKAIDNFDLSQNVKFSTYAVPMILGEVRRY-LRDNNSIRV-----SRSLRDTAYKALS 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + +T NL+ ++ IA ++ +S+ E+ +++ S ++ Sbjct: 128 ARELLTKRNLREPTIMEIADEVGISKEEI-------------TYAMDAIQSPVSLYEP-- 172 Query: 205 VYDHDGQEQVLIEK-EERKNRRN------MLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 VY G ++++ ++KNR L+ +M L RERRI + R + T Sbjct: 173 VYTDGGDPLCVMDQISDKKNREENWVEQLSLSEAMKRLPARERRIIDMRFFEGKTQT--E 230 Query: 258 LSSEFEVSRERVRQIEARAFKKVQ 281 ++ E +S+ +V ++E A K ++ Sbjct: 231 VAGEVGISQAQVSRLEKNALKAMK 254 >gi|154685949|ref|YP_001421110.1| sporulation sigma factor SigG [Bacillus amyloliquefaciens FZB42] gi|154351800|gb|ABS73879.1| SigG [Bacillus amyloliquefaciens FZB42] Length = 260 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 61/262 (23%), Positives = 121/262 (46%), Gaps = 16/262 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L ++ ++ GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFRQLQDEGDDSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 75 GLMKSIDNFDLSHNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + T E+ IAK L V E++ + SL I + + D + Sbjct: 132 RLISETSREPTAEE---IAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 188 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 189 SDERNKDTQWIEEL--------ALKEGMRRLNEREKMILRKRFFQGK--TQMEVAEEIGI 238 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ +V ++E A K++ ++I + Sbjct: 239 SQAQVSRLEKAAIKQMNKNIHQ 260 >gi|154503852|ref|ZP_02040912.1| hypothetical protein RUMGNA_01678 [Ruminococcus gnavus ATCC 29149] gi|153795451|gb|EDN77871.1| hypothetical protein RUMGNA_01678 [Ruminococcus gnavus ATCC 29149] Length = 246 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 53/94 (56%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE + E + +R D A L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 41 PPLETERETEVIRRLGSEYDQEAKKMLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 101 IKAINTFNPTKKIKLATYASRCIENEILMYLRRN 134 >gi|283798349|ref|ZP_06347502.1| RNA polymerase sigma-E factor [Clostridium sp. M62/1] gi|291073934|gb|EFE11298.1| RNA polymerase sigma-E factor [Clostridium sp. M62/1] gi|295092808|emb|CBK78915.1| RNA polymerase, sigma 29 subunit, SigE [Clostridium cf. saccharolyticum K10] Length = 246 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 69/269 (25%), Positives = 114/269 (42%), Gaps = 65/269 (24%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +I P+ K+E VL + E D A RL+ +LRLVV IA + + + +++S Sbjct: 37 DILPAPLDSKEEAEVLGELGTEK-DREAKSRLIEHNLRLVVYIAKKFDNTSVGVEDLISI 95 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G IGL++A+ F+ + +LATY+ I+ + Y LRR Sbjct: 96 GTIGLIKAINTFNTGKNIKLATYASRCIENEILMY----------------------LRR 133 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 N K + V+I + LNV D N Sbjct: 134 -----------NNKTKLEVSIDEPLNV-----------------------DWDGNELLLS 159 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QEN--PVTLEN 257 D L D D V+ E + RN+L ++S LNPRE++I E R EN +T + Sbjct: 160 DILGTDED----VIYRDLEDEIERNLLNTAISRLNPREKKIVELRFGLNSENGEEMTQKE 215 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ +S+ + ++E + K++++ I K Sbjct: 216 VADLLGISQSYISRLEKKIMKRLKKEIVK 244 >gi|220929479|ref|YP_002506388.1| sporulation sigma factor SigE [Clostridium cellulolyticum H10] gi|219999807|gb|ACL76408.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium cellulolyticum H10] Length = 243 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E Y+L K E D L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 42 PLTLDEETYLLNKL--EQSDYGVKSILIERNLRLVVYIARKFENTGVGVEDLISIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 100 IKAINTFNPSKNIKLATYASRCIENEILMYLRRN 133 >gi|312793875|ref|YP_004026798.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|312181015|gb|ADQ41185.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 240 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 112/243 (46%), Gaps = 24/243 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +L+ S+L LV + + G+ + ++ G IGL++AV +FDP R + Sbjct: 14 KNGDKLARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSFNVRFS 73 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG--TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY++ I ++ Y LR +K+ NQ + +++L+ Q ++ N +P + Sbjct: 74 TYAVPMIIGEIKRY-LRDDGKIKVSRKIKENQSK----IKKLRN--QFVSSNGREP-TIS 125 Query: 161 AIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I++ +S E++ C A E SLN ++N + D + D ++L Sbjct: 126 EISQLTGLSSDEILL--CMDATSEVASLNDVVNQEEGKPITLMDIASDEEDYSTKLL--- 180 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L RER I R + T ++ E +S+ V +IE RA + Sbjct: 181 -----DLMALKEGLKKLKGRERYIIFMRYFKNK--TQSEIAKELNISQVHVSRIEKRALE 233 Query: 279 KVQ 281 +++ Sbjct: 234 RIK 236 >gi|169834796|ref|YP_001715634.1| RNA polymerase sigma-E factor [Clostridium botulinum A3 str. Loch Maree] gi|169408903|gb|ACA57313.1| RNA polymerase sigma-E factor [Clostridium botulinum A3 str. Loch Maree] Length = 296 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 51/242 (21%), Positives = 113/242 (46%), Gaps = 39/242 (16%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + L+ + L+ K+A Y+ + + ++ +G +G ++AV KFD + + +TY+ +WI+ Sbjct: 88 NSLIEKNQNLIFKVANKYKNKNIELQDLTQQGFLGFLKAVDKFDESKKVKFSTYAYYWIE 147 Query: 111 AAMQEYI-LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 A + + + I ++ + R+LKG+ I + PE V + N S Sbjct: 148 AEISSFFNFNVDGSLSISSS-------YQHRKLKGYENGILSEDELPELVKNHIQLKNNS 200 Query: 170 ESEVISMNCRLAGDESLNA---LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 IS++ + G E+ N+ L+ +D N + + +V Sbjct: 201 ----ISVDSIVHGKENENSADYLLGKTDINYNNIESKIV--------------------- 235 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + ++S L+ +E+ I +R + E ++++ EF+VS + ++ + A K++ +I+K Sbjct: 236 -MKNALSGLSEKEKSIIISRIIYEKK--YKDIAKEFKVSYQYIQYLYKNAIGKLKRTIKK 292 Query: 287 QV 288 + Sbjct: 293 DI 294 >gi|30266017|gb|AAN16086.1| SigB [Listeria welshimeri] Length = 259 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 63/264 (23%), Positives = 128/264 (48%), Gaps = 26/264 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+G+ A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGNQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE+ I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQMILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQ 287 +S+ V +I+ +A KK++E++Q + Sbjct: 233 ISQMHVSRIQRQAIKKLREALQNE 256 >gi|23978358|dbj|BAC21144.1| principal sigma factor [Nodularia sp. PCC 73104] Length = 188 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 52/199 (26%), Positives = 100/199 (50%), Gaps = 19/199 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G+R +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYRFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRL 248 I + S+ D++ + DG+ E + KN R L + + L+PRER + R Sbjct: 117 IGKEE--DSRLGDFI--ESDGETP---EDQVSKNLLREDLEKVLDSLSPRERDVLRLRYG 169 Query: 249 QENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 170 LDDGRMKTLEEIGQIFNVT 188 >gi|311068054|ref|YP_003972977.1| sporulation sigma factor SigG [Bacillus atrophaeus 1942] gi|310868571|gb|ADP32046.1| sporulation sigma factor SigG [Bacillus atrophaeus 1942] Length = 260 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 61/262 (23%), Positives = 120/262 (45%), Gaps = 16/262 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L ++ ++ GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFRQLQDEGDDSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 75 GLMKSIDNFDLSHNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQV 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I++ + +P IAK L V E++ + SL I + + D + Sbjct: 130 RERLISETSKEP-TAEDIAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 188 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 189 SDERNKDTQWIEEL--------ALKEGMRRLNDREKMILRKRFFQGK--TQMEVAEEIGI 238 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ +V ++E A K++ ++I + Sbjct: 239 SQAQVSRLEKAAIKQMNKNIHQ 260 >gi|158320682|ref|YP_001513189.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus oremlandii OhILAs] gi|158140881|gb|ABW19193.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus oremlandii OhILAs] Length = 176 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 36/96 (37%), Positives = 51/96 (53%), Gaps = 2/96 (2%) Query: 16 LSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L YI P L +EE + +RY E GD A + LV +LRLV I Y G Sbjct: 18 LVSYISSTTSFPQPLTAEEESMYLERY-EQGDEEARNILVERNLRLVAHIVKKYSNIGRD 76 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + +++S G IGL++ + FD +G RLATY+ I+ Sbjct: 77 MDDLISIGTIGLIKGITTFDRSKGTRLATYAARCIE 112 >gi|86742435|ref|YP_482835.1| sigma 28 subunit [Frankia sp. CcI3] gi|86569297|gb|ABD13106.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Frankia sp. CcI3] Length = 338 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 114/241 (47%), Gaps = 30/241 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV HL LV +A +R G P+ ++V IGL+++V +FDPERG +TY+ I Sbjct: 116 QLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVDRFDPERGVEFSTYATPTIVG 175 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT---DNNLKPEQVVA-IAKKL 166 ++ + + W++ R+ L+ LK L T L V+ IA+ L Sbjct: 176 EIKRHFRDKGWAI----------RVPRRLQELKLSLTKATSELSQTLGRSPTVSEIARHL 225 Query: 167 NVSESEVISMNCRLAGDESLNA--LINSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKN 223 +SE +V L G ES NA ++ +S + V D G Q++ L E R++ Sbjct: 226 QMSEDDV------LEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQDESLEGVEYRES 279 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +L + L RE+RI R +T +++E +S+ V ++ AR +++ Sbjct: 280 LKPLLEK----LPAREKRILLLRFFGN--MTQSQIATELGISQMHVSRLLARTLAQLRRG 333 Query: 284 I 284 + Sbjct: 334 L 334 >gi|303238907|ref|ZP_07325438.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302593540|gb|EFL63257.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 244 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E Y+L K E D L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 42 PLSNDEESYLLNKL--EKNDYGVKTILIERNLRLVVYIARKFENTGVGVEDLISIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 100 IKAINTFNPSKNIKLATYASRCIENEILMYLRRN 133 >gi|325662349|ref|ZP_08150958.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 4_1_37FAA] gi|331086152|ref|ZP_08335234.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 9_1_43BFAA] gi|325471351|gb|EGC74574.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 4_1_37FAA] gi|330406311|gb|EGG85825.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 9_1_43BFAA] Length = 247 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 37/112 (33%), Positives = 60/112 (53%), Gaps = 6/112 (5%) Query: 14 IGLSRYIH-----EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 IG R IH E+ P LE +EE + K + A L+ +LRLVV IA + Sbjct: 24 IGTRREIHYIGGSEVLPAP-LEMEEESAVIKELATEYNEKAKKVLIEHNLRLVVYIAKKF 82 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G+ + +++S G IGL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 83 DNTGIGVEDLISIGTIGLIKAINTFNPTKKIKLATYASRCIENEILMYLRRN 134 >gi|239989259|ref|ZP_04709923.1| RNA polymerase sigma factor, sigma L [Streptomyces roseosporus NRRL 11379] Length = 288 Score = 58.2 bits (139), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 67 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 126 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A+ L VSE Sbjct: 127 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELARALGVSEE 180 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +VI N A SL++ D D L Y+ E V E R++ + + Sbjct: 181 DVIDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 234 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 235 LAK----LAPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 285 >gi|150015999|ref|YP_001308253.1| sporulation sigma factor SigK [Clostridium beijerinckii NCIMB 8052] gi|149902464|gb|ABR33297.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium beijerinckii NCIMB 8052] Length = 232 Score = 58.2 bits (139), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 35/105 (33%), Positives = 60/105 (57%), Gaps = 3/105 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 + +I+N + L+ Y+ P+ L++ EE + K+++E GD +A L+ +LRLV I Sbjct: 8 IDLILNS-LFLTGYVTNNNTFPLPLDETEEQMYLKKFKE-GDKNAKSILIERNLRLVAHI 65 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y + E++S G +GL++A+ FD +G RLATY+ I Sbjct: 66 VKKYSFPNKDVDELISIGTVGLIKAIDSFDAGKGTRLATYASRCI 110 >gi|153953960|ref|YP_001394725.1| sporulation sigma factor SigK [Clostridium kluyveri DSM 555] gi|219854574|ref|YP_002471696.1| hypothetical protein CKR_1231 [Clostridium kluyveri NBRC 12016] gi|146346841|gb|EDK33377.1| SigE1 [Clostridium kluyveri DSM 555] gi|219568298|dbj|BAH06282.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 233 Score = 58.2 bits (139), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 32/83 (38%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E Y L R + GDL A LV +LRLV I Y G + +++S G +GL Sbjct: 30 PLNDEEERYYL--RKLKEGDLLAKSILVERNLRLVAHIVKKYSYPGKDVDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDSCKGTRLATYAAKCI 110 >gi|138894662|ref|YP_001125115.1| sporulation sigma factor SigE [Geobacillus thermodenitrificans NG80-2] gi|196247723|ref|ZP_03146425.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|134266175|gb|ABO66370.1| RNA polymerase sigma-E factor [Geobacillus thermodenitrificans NG80-2] gi|196212507|gb|EDY07264.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 239 Score = 58.2 bits (139), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 30/76 (39%), Positives = 48/76 (63%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A L+ +LRLVV IA + G+ I +++S G IGL++AV F+PE+ +LATY Sbjct: 54 GDKTARSLLIERNLRLVVYIARKFENTGIHIEDLISIGTIGLIKAVNTFNPEKKIKLATY 113 Query: 105 SMWWIKAAMQEYILRS 120 + I+ + Y+ R+ Sbjct: 114 ASRCIENEILMYLRRN 129 >gi|225568655|ref|ZP_03777680.1| hypothetical protein CLOHYLEM_04733 [Clostridium hylemonae DSM 15053] gi|225162583|gb|EEG75202.1| hypothetical protein CLOHYLEM_04733 [Clostridium hylemonae DSM 15053] Length = 246 Score = 58.2 bits (139), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 34/99 (34%), Positives = 55/99 (55%), Gaps = 1/99 (1%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 EI P LE +EE + D A L+ +LRLVV IA + G+ + +++S Sbjct: 37 EILPAP-LEAEEESAVINDLGSEYDEKAKKVLIEHNLRLVVYIAKKFDNTGVGVEDLISI 95 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G IGL++A+ F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 96 GTIGLIKAINTFNPEKNIKLATYASRCIENEILMYLRRN 134 >gi|2660755|gb|AAC29510.1| sigma-B general stress transcription factor [Bacillus licheniformis] Length = 265 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 64/267 (23%), Positives = 128/267 (47%), Gaps = 26/267 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K L K E L K+Y++ D A LV ++ LV +A Y ++ G + Sbjct: 8 KTTKLTKTEVDTLIKKYQDSQDEDAQLTLVQTYKNLVETLAKKYSKGKSFHEDLCQVGML 67 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLK 143 GL+ A+K++DP+ G +++ I ++ ++ ++WS+ +R+ R+K Sbjct: 68 GLLGAIKRYDPDVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRIK 121 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNS 197 + +T+ + +V IA+ L+V+E EV+ +M L+ D S+ A +D ++ Sbjct: 122 MAVDHLTNETQRSPKVDEIAEFLDVTEEEVLETMEMGKSYQALSVDHSIEA---DADGST 178 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 D + +G E+V N++ ML + VL+ RE++I E +Q + + Sbjct: 179 VTILDIVGSQEEGYEKV--------NQKLMLESVLHVLSDREKQIIELTYIQNK--SQKE 228 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 229 TGDMLGISQMHVSRLQRKAVKKLREAL 255 >gi|332653441|ref|ZP_08419186.1| RNA polymerase sigma-E factor [Ruminococcaceae bacterium D16] gi|332518587|gb|EGJ48190.1| RNA polymerase sigma-E factor [Ruminococcaceae bacterium D16] Length = 239 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 37/105 (35%), Positives = 59/105 (56%), Gaps = 2/105 (1%) Query: 19 YIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 YI +P L ++EE L +R + GD A L+ +LRLVV IA + G+ I + Sbjct: 28 YIGGSDTLPTPLSREEEGELMERL-QQGDQRARQTLIEHNLRLVVYIARRFENTGINIED 86 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 ++S G IGL++AV + P R +LATY+ I+ + Y+ ++ S Sbjct: 87 LISIGTIGLIKAVGTYQPARSIKLATYASRCIENEILMYLRKTSS 131 >gi|21222437|ref|NP_628216.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|256786489|ref|ZP_05524920.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289770380|ref|ZP_06529758.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|13122198|emb|CAC32374.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289700579|gb|EFD68008.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 318 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 97 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 156 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 157 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVGELAAVLGVSEE 210 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 211 DVVDGLAVGNAYTA--SSLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 264 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRERRI R +T + E +S+ V ++ R +++E + Sbjct: 265 LAK----LPPRERRIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLSQLREGL 315 >gi|325265256|ref|ZP_08131981.1| RNA polymerase sigma-G factor [Clostridium sp. D5] gi|324029435|gb|EGB90725.1| RNA polymerase sigma-G factor [Clostridium sp. D5] Length = 259 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 65/263 (24%), Positives = 122/263 (46%), Gaps = 35/263 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R + GD A + +LRLV+ + + ++ G + Sbjct: 15 KLPLLKEEEKEALFTRIK-AGDEEAREEYIKGNLRLVLSVIKRFSNSNENADDLFQIGCV 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRR 141 GLM+AV FDP R + +TY++ I ++ Y LR + +++ + K ++ Sbjct: 74 GLMKAVDHFDPNRLVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDTAYKAIYAKEGY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL------AGDESLNALINSSDK 195 +K HL+ T + E + I+K+ V + I M L G ++L + SDK Sbjct: 133 MKKHLKEPTVQEIAEE--IGISKEDIVFALDAIQMPMSLHEPVYSDGGDTLYVMDQVSDK 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + ++W+ E++ +E +M LN RER I R E + Sbjct: 191 KNKE-ENWV-------EELSLEA------------AMERLNERERYII-TLRFFEGKTQM 229 Query: 256 ENLSSEFEVSRERVRQIEARAFK 278 E ++ E ++S+ +V ++E A K Sbjct: 230 E-VAEEIKISQAQVSRLEKNALK 251 >gi|197723821|gb|ACH72690.1| RNA polymerase sigma-37 factor [Listeria marthii] Length = 238 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/256 (24%), Positives = 123/256 (48%), Gaps = 26/256 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLDISQM 222 Query: 268 RVRQIEARAFKKVQES 283 V +I+ +A KK++E+ Sbjct: 223 HVSRIQRQAIKKLREA 238 >gi|167628365|ref|YP_001678864.1| RNA polymerase sigma-k factor, putative [Heliobacterium modesticaldum Ice1] gi|167591105|gb|ABZ82853.1| RNA polymerase sigma-k factor, putative [Heliobacterium modesticaldum Ice1] Length = 233 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 31/84 (36%), Positives = 51/84 (60%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ + +E Y LA R +E GD A ++L+ +LRLV + + G G +++S G IGL Sbjct: 32 PLSDTEEAYCLA-RLKE-GDEQARNKLIEHNLRLVAHLVKKFDGTGENNDDLISIGTIGL 89 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ FD +G +LATY+ I+ Sbjct: 90 IKAINTFDASKGTKLATYAARCIE 113 >gi|238924602|ref|YP_002938118.1| sporulation sigma factor SigE [Eubacterium rectale ATCC 33656] gi|238876277|gb|ACR75984.1| sporulation sigma factor SigE [Eubacterium rectale ATCC 33656] Length = 244 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 58/242 (23%), Positives = 106/242 (43%), Gaps = 64/242 (26%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L+ +LRLVV +A + G+ + +++S G IGL++ + F+PE+ +LATY+ Sbjct: 61 AKKQLIEHNLRLVVYLAKKFENTGVCVEDLISIGTIGLIKGINTFNPEKKIKLATYASRC 120 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ + Y LRR +N +K E Sbjct: 121 IENEILMY----------------------LRR---------NNRVKLE----------- 138 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 ++ DE LN D N D L D D V+ + E + ++L Sbjct: 139 -----------VSFDEPLNT---DWDGNELLLSDILGTDED----VIYKDLETEVEISLL 180 Query: 229 TRSMSVLNPRERRIFEAR----RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++M LN RER+I E R R++ +T + ++ +S+ + ++E + +++++ I Sbjct: 181 KKAMLSLNERERQIIELRFGVNRVENKELTQKEVADILGISQSYISRLEKKIMERLKKEI 240 Query: 285 QK 286 QK Sbjct: 241 QK 242 >gi|15895412|ref|NP_348761.1| sigma factor of SigD/WhiG family [Clostridium acetobutylicum ATCC 824] gi|15025135|gb|AAK80101.1|AE007715_6 Sigma factor of SigD/WhiG family [Clostridium acetobutylicum ATCC 824] gi|325509558|gb|ADZ21194.1| Sigma factor of SigD/WhiG family [Clostridium acetobutylicum EA 2018] Length = 241 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/212 (29%), Positives = 95/212 (44%), Gaps = 16/212 (7%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 ++V G IGLM A+KKFD +G + +TYS IK AM + LR S + G R Sbjct: 40 DLVGYGMIGLMDALKKFDQSKGMKFSTYSSIRIKGAMIDE-LRKNSPISKGAMDKLNRYN 98 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSD 194 + RL+ L +P + + IA L V EV I SL LI S D Sbjct: 99 LVVERLEKELSR------EPTE-LEIASGLGVGRKEVGEIEGYINYISVVSLEDLIFSED 151 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 + E+ L EKEE + L + + +LN ++R + + +T Sbjct: 152 DDMPLIGTIEDEKSPSPEKALEEKEEIE----YLAKGIELLNEKDRMVLSLYYYE--GLT 205 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L+ + + VS RV Q+ RA +++S++K Sbjct: 206 LKKIGNILNVSESRVCQLHTRAIMHLRKSLKK 237 >gi|291446269|ref|ZP_06585659.1| sigma L [Streptomyces roseosporus NRRL 15998] gi|291349216|gb|EFE76120.1| sigma L [Streptomyces roseosporus NRRL 15998] Length = 307 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 86 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 145 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A+ L VSE Sbjct: 146 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELARALGVSEE 199 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 200 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 253 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 254 LAK----LAPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 304 >gi|257470879|ref|ZP_05634969.1| RNA polymerase sigma factor [Fusobacterium ulcerans ATCC 49185] gi|317065081|ref|ZP_07929566.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] gi|313690757|gb|EFS27592.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] Length = 284 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 34/119 (28%), Positives = 57/119 (47%), Gaps = 9/119 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ + ++ ++E K RE + +++ +L V IA Y G+ +V Sbjct: 61 YLEELSNMEVISDEDENNYLKDLRE----ADKEKVIVKNLNEVASIAFNYVKNGIAYMDV 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 V EG +GL++AV FDP+R YS +WI + YI K+ N+ + FF Sbjct: 117 VQEGTVGLIKAVDYFDPDRNGDFKNYSKYWIAREIVLYIEN-----KVADIRNEFKNFF 170 >gi|256396809|ref|YP_003118373.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] gi|256363035|gb|ACU76532.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] Length = 353 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 61/237 (25%), Positives = 110/237 (46%), Gaps = 30/237 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G P+ ++ IGL+++V +FD ERG +TY+ + Sbjct: 132 LVQMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDTERGVEFSTYATPTVIGE 191 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + W+ V++ + RL L ++ N + V +A+ L +SE Sbjct: 192 IKRHFRDKGWA-VRVPRRLQELRL-----SLTSATSELSQRNRRSPTVAELAEYLKISEE 245 Query: 172 EVISMNCRLAGDESLNA-------LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV L G ES NA + D++S D L + + E V E R++ Sbjct: 246 EV------LEGLESANAYSTLSLDVSEGGDEDSPAVADSLGSEDEALEGV----EYRESL 295 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +L + L PRE++I R +T ++ E +S+ V ++ AR ++++ Sbjct: 296 KPLLEQ----LPPREKKILLLRFFGN--MTQSQIAEEIGISQMHVSRLLARTLEQLR 346 >gi|311898315|dbj|BAJ30723.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 360 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 112/240 (46%), Gaps = 29/240 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +LV H+ LV +A +R G P+ ++ IGL+++V +FD ERG +TY+ I Sbjct: 139 QLVRMHIPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDHERGVEFSTYATPTIVG 198 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + + W+ V++ + RL L ++ + + V +A+ L +SE Sbjct: 199 EIKRHFRDKGWA-VRVPRRLQELRL-----SLTTATSELSQRHGRSPTVHELAEHLGISE 252 Query: 171 SEVISMNCRLAGDESLNAL------INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +V L G ES NA + SD S D L + E V E R++ Sbjct: 253 EDV------LEGLESANAYSTLSLDVPDSDDESPAVADTLGATDEALEGV----EYRESL 302 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L + L PRE++I R + +T +++E +S+ V ++ AR +++E + Sbjct: 303 KPLLAQ----LPPREQKILVLRFFRN--MTQSQIAAEVGISQMHVSRLLARTLAQLREKL 356 >gi|1396060|dbj|BAA13043.1| part of principal sigma factor homolog [Synechocystis sp.] Length = 186 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 99/198 (50%), Gaps = 17/198 (8%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 2 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 58 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 59 --HLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTIEKLRFIAKSAQLPI--SLETP 114 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I + S+ D++ D + E + + R++ N+L L+PRER + R Sbjct: 115 IGKEE--DSRLGDFIEADGETPEDEVSKNLLREDLENVL----DTLSPRERDVLRLRYGL 168 Query: 250 ENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 169 DDGRMKTLEEIGQIFNVT 186 >gi|289829788|ref|ZP_06547303.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] Length = 158 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 30/75 (40%), Positives = 48/75 (64%), Gaps = 1/75 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL + ++ Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLALLDL 119 Query: 79 VSEGNIGLMQAVKKF 93 + EGN+GL++A + Sbjct: 120 IEEGNLGLIRASRSL 134 >gi|299143454|ref|ZP_07036534.1| RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298517939|gb|EFI41678.1| RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 260 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 65/262 (24%), Positives = 121/262 (46%), Gaps = 20/262 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L+K E L + Y+ + D L+ HL + ++ Y G G+ ++ +IGL+ Sbjct: 13 LDKSERKELFEAYKLNKDPEIRDILIEEHLYIAEILSKKYSGRGIDYDDIFQVASIGLIY 72 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSL-VKIGTTANQKRLFFNLRRLKGHL 146 A+ ++D E+G+ ++++ I +++Y + W++ V K++ +L L Sbjct: 73 AIDRYDFEKGYEFSSFATPTIIGEIKKYFRDKGWTIRVPRRIQELSKKINNAKTQLTQEL 132 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQDWL 204 Q I V IA L + EVI ++ +SL+ + D N + L Sbjct: 133 QRIP-------TVEDIADYLETTPEEVIEAMEASKVYTPQSLDV---TYDTNGDDKELNL 182 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D G+ + EK E K + L R+MS LN ER I R ++ T ++ + ++ Sbjct: 183 A-DLVGENEKYFEKIEMK---DFLERAMSELNDMERTILIERYFEKK--TQVAIAEKLDI 236 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ + +IE + KK++E I+K Sbjct: 237 SQMTISRIEKKVLKKMREEIKK 258 >gi|284033085|ref|YP_003383016.1| B/F/G subfamily RNA polymerase sigma-28 subunit [Kribbella flavida DSM 17836] gi|283812378|gb|ADB34217.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Kribbella flavida DSM 17836] Length = 264 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 110/240 (45%), Gaps = 24/240 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV+ H+ LV +A +R G P ++V IGL++A+ +FD +RG +TY+ I Sbjct: 44 LVSLHMPLVEHLARRFRNRGEPYDDLVQVATIGLIKAIDRFDSDRGVEFSTYATPTILGE 103 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ Y + W+ +++ + RL L +T + V ++ +L +S+ Sbjct: 104 IKRYFRDKGWA-IRVPRRLQELRL-----SLTAATAELTQELGRAPTVAELSTRLGLSQD 157 Query: 172 EVISMNCRLAGDESLNAL----INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 VI G ES NA +++ D+N + V D G E +E E R Sbjct: 158 LVIE------GLESANAYNTLSLDAPDQNEADAT--TVLDGLGGEDEALESVE---FRES 206 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L ++ L RE+RI R + +T ++ E +S+ V ++ AR +++ + K+ Sbjct: 207 LKPLLAQLETREKRILTLRFFR--GMTQSQIAEEIGISQMHVSRLLARTLTELRAGLLKE 264 >gi|226313413|ref|YP_002773307.1| sporulation sigma factor SigG [Brevibacillus brevis NBRC 100599] gi|226096361|dbj|BAH44803.1| RNA polymerase sigma-G factor [Brevibacillus brevis NBRC 100599] Length = 259 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/267 (23%), Positives = 131/267 (49%), Gaps = 29/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E L +R + G+L+A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNKEMRDLFERL-QSGELAAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRD 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW- 203 +L T+ + + ++ I+++LNV++ +V+ +L+A+ + +QD Sbjct: 131 NL---TNKHSREPTIIEISQELNVAKEDVVF---------ALDAIQDPVSLFEPIYQDGG 178 Query: 204 -LVYDHDGQEQVLIEKEERKN----RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 +Y D I E+ K+ L M L RE+ I + R E +E + Sbjct: 179 DPIYVMDQ-----ISDEKNKDVTWVEEIALREGMQRLGDREKMIL-SMRFYEGKTQME-V 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 + E +S+ +V ++E A +Q+ +Q Sbjct: 232 AEEIGISQAQVSRLEKAAIAHMQKHVQ 258 >gi|83590339|ref|YP_430348.1| sigma 28 (flagella/sporulation) [Moorella thermoacetica ATCC 39073] gi|83573253|gb|ABC19805.1| RNA polymerase, sigma subunit, RpoX/SigF [Moorella thermoacetica ATCC 39073] Length = 270 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 59/263 (22%), Positives = 120/263 (45%), Gaps = 17/263 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L + E L +R + GD A RL+ +L+LV + + + ++ G I Sbjct: 10 RFPLLSEAETDELLRRAK-AGDKEARERLINCNLKLVFNLVQRFEKRNYELEDLFQIGTI 68 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ KFD R +TY++ I ++ + LR S VK+ + + N R Sbjct: 69 GLIKAIDKFDLSYKVRFSTYAVPMILGEIRRF-LRDDSAVKVSRSLKETAFKVNRTR--- 124 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + + + + IA+ L++S E+I+ + S++ + D + D L Sbjct: 125 --EELAKKFGREPAIGEIAEALDLSREEIIAALEAVQMPSSIHDTVYQDDGDPIYVLDQL 182 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 DG+E ++K L + L + RR+ R Q+ T +++ + Sbjct: 183 A-SEDGEEPEWLDK-------IALKEVLRQLPEKHRRVLVLRFFQDK--TQAEVAARMGL 232 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 S+ ++ +IE +A ++++E +Q + Sbjct: 233 SQVQISRIERQALQRIRELLQAE 255 >gi|215404668|ref|ZP_03416849.1| RNA polymerase sigma factor [Mycobacterium tuberculosis 02_1987] gi|298526173|ref|ZP_07013582.1| hypothetical protein TBAG_01589 [Mycobacterium tuberculosis 94_M4241A] gi|298495967|gb|EFI31261.1| hypothetical protein TBAG_01589 [Mycobacterium tuberculosis 94_M4241A] Length = 197 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 47/201 (23%), Positives = 95/201 (47%), Gaps = 12/201 (5%) Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 ++KFD +G++ +TY+ WWI+ A+ + ++I + + L R++ L Sbjct: 1 MEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRI--PVHMVEVINKLGRIQRELLQD 58 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 PE+ +AK+++++ +V+ + SL+ I D+ SQ D++ D Sbjct: 59 LGREPTPEE---LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---ED 110 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRE 267 + V ++ ++ L + L+ RE + R P TL+ + + V+RE Sbjct: 111 SEAVVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRE 170 Query: 268 RVRQIEARAFKKVQESIQKQV 288 R+RQIE++ K++ + QV Sbjct: 171 RIRQIESKTMSKLRHPSRSQV 191 >gi|295109522|emb|CBL23475.1| RNA polymerase, sigma 29 subunit, SigE [Ruminococcus obeum A2-162] Length = 243 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 32/94 (34%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+E YV++K E + A L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 39 PLEPKREAYVISKLKTEQ-EQEARSLLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPVKNIKLATYASRCIENEILMYLRRN 131 >gi|291532045|emb|CBK97630.1| RNA polymerase sigma factor, FliA/WhiG family/RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum 70/3] Length = 251 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 45/151 (29%), Positives = 74/151 (49%), Gaps = 15/151 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKK 92 L ++YR GD++ + +V ++ LV IA+ Y GY ++++EG I LM A+ Sbjct: 12 LLEKYRLTGDMNVRNEIVLMYMDLVKMIAVSMRNIYTGYA-ESDDIINEGVIALMAAIDG 70 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 FDPE+ + TY+ IK A+ +Y LR V K+L N RL L + TD Sbjct: 71 FDPEKNVKFETYAGIRIKGAVIDY-LRKLDRVPRTLRKLSKQLDDNFARLNSELCRTPTD 129 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 L A+ +N++ +++ + AG Sbjct: 130 EEL--------AESMNMTTAQLSKLMANTAG 152 >gi|239942800|ref|ZP_04694737.1| RNA polymerase sigma factor, sigma L [Streptomyces roseosporus NRRL 15998] Length = 288 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 67 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 126 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A+ L VSE Sbjct: 127 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELARALGVSEE 180 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 181 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 234 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 235 LAK----LAPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 285 >gi|125975381|ref|YP_001039291.1| RNA polymerase, sigma 28 subunit [Clostridium thermocellum ATCC 27405] gi|281419342|ref|ZP_06250357.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium thermocellum JW20] gi|125715606|gb|ABN54098.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Clostridium thermocellum ATCC 27405] gi|281406962|gb|EFB37225.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium thermocellum JW20] gi|316939496|gb|ADU73530.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium thermocellum DSM 1313] Length = 252 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 50/251 (19%), Positives = 121/251 (48%), Gaps = 17/251 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y+E + +++V+ +L L +A + G+ ++ +I L++AV++FDP+ Sbjct: 18 LFREYKETKSVEVRNKIVSKYLYLSDILAKKFLNRGIDYEDIYQVASIALIKAVERFDPD 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G + +++ I ++ Y S+++I +R++ +++ +++T +P Sbjct: 78 KGVKFISFATPTIIGEIKRYFRDKGSVIRIP-----RRIYEVYQKINHARESLTQELKRP 132 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVL 215 ++ +A+ LN+SE V+ + ES NA I S +N + +++ G + Sbjct: 133 PRIDELARHLNISEESVVEII------ESYNAYNIQSFSQNVYANDELELHEVIGDQDST 186 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 E+ E R+ L +S+ + E+ R T ++++ + VS+ + ++E + Sbjct: 187 FERIE---NRDFLEKSLDKFSDVEKEFISMRYFDNK--TQKDIAQKMGVSQMYISRLERK 241 Query: 276 AFKKVQESIQK 286 +K + + K Sbjct: 242 VLEKFRRMLAK 252 >gi|297158639|gb|ADI08351.1| RNA polymerase sigma factor, sigma L [Streptomyces bingchenggensis BCW-1] Length = 276 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 55 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 114 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 115 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELSQKLD---RSPTVTELATALGVSEE 168 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 169 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDSALEGV----EYRESLKPL 222 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 223 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 273 >gi|291545019|emb|CBL18128.1| RNA polymerase sigma factor, sigma-70 family [Ruminococcus sp. 18P13] Length = 220 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 39/122 (31%), Positives = 65/122 (53%), Gaps = 6/122 (4%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +L LV A +RG G+ ++ S G IGLM+AV FD ERG R +TY++ I ++ Sbjct: 13 NLGLVHLCANRFRGRGVEYDDLYSAGCIGLMKAVNAFDTERGVRFSTYAVPVILGEIKR- 71 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 + R VK+ + + K L + RL+ L+ + K V +A+++ V E+E++ Sbjct: 72 LFRDGGTVKV--SRSMKELSMRVVRLRDELRM---QSGKEPTVQQLAREMGVEEAEIVQA 126 Query: 177 NC 178 C Sbjct: 127 LC 128 >gi|254519266|ref|ZP_05131322.1| sporulation sigma factor SigG [Clostridium sp. 7_2_43FAA] gi|226913015|gb|EEH98216.1| sporulation sigma factor SigG [Clostridium sp. 7_2_43FAA] Length = 259 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 66/273 (24%), Positives = 130/273 (47%), Gaps = 43/273 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L + R+ GD A + +LRLV+ + + G + ++ G I Sbjct: 17 KLPILKEKEKRELLLKMRD-GDKGARETFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCI 75 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + + + ++ Sbjct: 76 GLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSL--RDIAYKALLVRD 132 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L I +NN +P V IAK+LN+ EV+ +L+A+ QD + Sbjct: 133 RL--IKENNKEP-TVSQIAKELNLPREEVVF---------ALDAI-----------QDPV 169 Query: 205 -----VYDHDGQEQVLIEKE--ERKNRRN------MLTRSMSVLNPRERRIFEARRLQEN 251 +Y HDG + + + + + KN + +M LN RE+ I R N Sbjct: 170 SLFEPIY-HDGGDAIYVMDQISDSKNSDESWLENISIKEAMKKLNDREKLILTLRFF--N 226 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A K +++ + Sbjct: 227 GRTQMEVADEIGISQAQVSRLEKTALKHMRKYV 259 >gi|157692208|ref|YP_001486670.1| sporulation sigma factor SigG [Bacillus pumilus SAFR-032] gi|194014766|ref|ZP_03053383.1| RNA polymerase sigma-G factor [Bacillus pumilus ATCC 7061] gi|157680966|gb|ABV62110.1| DNA-directed RNA polymerase sigma subunit SigG [Bacillus pumilus SAFR-032] gi|194013792|gb|EDW23357.1| RNA polymerase sigma-G factor [Bacillus pumilus ATCC 7061] Length = 259 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 61/260 (23%), Positives = 118/260 (45%), Gaps = 16/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ E L ++ ++ GD +A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNDEMRKLFRQLQDEGDDTAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD R +TY++ I ++ Y LR + +++ + + L+ Sbjct: 75 GLMKSIDNFDLSHNVRFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQV 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I++ + +P IAK L V E++ + SL I + + D + Sbjct: 130 RERLISETSKEP-TAEDIAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 188 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + + Q + E L M LN RE+ I R Q T ++ E + Sbjct: 189 SDERNKDTQWVEEL--------ALKEGMRRLNDREKMILRKRFFQGK--TQMEVAEEIGI 238 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A K++ ++I Sbjct: 239 SQAQVSRLEKAAIKQMNKNI 258 >gi|325106726|ref|YP_004267794.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] gi|324966994|gb|ADY57772.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] Length = 332 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 26/65 (40%), Positives = 42/65 (64%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++LRLVV +A + L E+ S+G I LM AV+KFD +RG+R +TY+ + I + Sbjct: 156 LIRANLRLVVSVARKFVTPQLTFDELFSDGVIALMNAVEKFDYDRGYRFSTYAYYSISRS 215 Query: 113 MQEYI 117 + +I Sbjct: 216 LYRFI 220 >gi|197302589|ref|ZP_03167644.1| hypothetical protein RUMLAC_01318 [Ruminococcus lactaris ATCC 29176] gi|197298487|gb|EDY33032.1| hypothetical protein RUMLAC_01318 [Ruminococcus lactaris ATCC 29176] Length = 248 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 53/94 (56%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE ++E + R D A L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 43 PPLENEKEEEVIGRLGTEDDQEAKKLLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGL 102 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 103 IKAINTFNPTKKIKLATYASRCIENEILMYLRRN 136 >gi|254973932|ref|ZP_05270404.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-66c26] gi|255091318|ref|ZP_05320796.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile CIP 107932] gi|255312976|ref|ZP_05354559.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-76w55] gi|255515735|ref|ZP_05383411.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-97b34] gi|255648829|ref|ZP_05395731.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-37x79] gi|260682047|ref|YP_003213332.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile CD196] gi|260685645|ref|YP_003216778.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile R20291] gi|306518943|ref|ZP_07405290.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-32g58] gi|260208210|emb|CBA60565.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile CD196] gi|260211661|emb|CBE01928.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile R20291] Length = 233 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 68/237 (28%), Positives = 117/237 (49%), Gaps = 19/237 (8%) Query: 53 LVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L+ ++ LV IA + G G ++V+ G IGL+ A+ KFD E+G + ++YS IK Sbjct: 6 LIKENMPLVKSIARKFFIPGKGFEYQDLVNSGVIGLIDAINKFDAEKGAKFSSYSYIKIK 65 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +A+ + I + K T K +N R+ LQ+ L+ IAK+LNVSE Sbjct: 66 SAILDEIRNQSPISKHNLTKVNK---YN--RVVEKLQSKL---LREPTSYEIAKELNVSE 117 Query: 171 SEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E+ I N + SLN +I D N + QD + D +E+ E + + +L Sbjct: 118 KELHDIESNIDMLNIVSLNYVI-FEDTNET-VQDVI---SDREEEAPENIIEEEEKLEIL 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++++S LN RE+ I ++ + L+ + VS RV Q+ ++ + ++ I+ Sbjct: 173 SKAISNLNEREKLILSLYYYED--LNLKEIGKVLGVSESRVSQLHRKSIRNLRNKIK 227 >gi|266624907|ref|ZP_06117842.1| RNA polymerase sigma-G factor [Clostridium hathewayi DSM 13479] gi|288863210|gb|EFC95508.1| RNA polymerase sigma-G factor [Clostridium hathewayi DSM 13479] Length = 258 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/264 (23%), Positives = 118/264 (44%), Gaps = 31/264 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L KR + GD+ A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPLLNNEEKEALFKRILD-GDMEAREEYIKGNLRLVLSVIQRFSGSNENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GL++A+ FD + R +TY++ I ++ Y LR + +++ + K ++ Sbjct: 74 GLIKAIDNFDITQNVRFSTYAVPMILGEVRRY-LRDNNSIRVSRSLRDTAYKAIYAKENL 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K NLK ++ IA ++ VS+ ++ +L+A+ N + Sbjct: 133 MK--------KNLKEPTIMEIADEIGVSKEDITY---------ALDAIQNPVSLYEPVYS 175 Query: 202 D----WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 D V D ++ L EE L +M L RER I + R + T Sbjct: 176 DGGDPLFVMDQISDKKNL---EENWVEDISLNEAMKRLPERERHIIDMRFFEGKTQT--E 230 Query: 258 LSSEFEVSRERVRQIEARAFKKVQ 281 ++ E +S+ +V ++E A K ++ Sbjct: 231 VAEEIHISQAQVSRLEKNALKSMK 254 >gi|323486720|ref|ZP_08092041.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323692141|ref|ZP_08106384.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323400101|gb|EGA92478.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323503715|gb|EGB19534.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 246 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 65/269 (24%), Positives = 116/269 (43%), Gaps = 65/269 (24%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 +I P+ K+E VL + E D A +L+ +LRLVV IA + + + +++S Sbjct: 37 DILPAPLGSKEEAEVLKELGTER-DAQAKSKLIEHNLRLVVYIAKKFDNTSVGVEDLISI 95 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G+IGL++A+ F+ ++ +LATY+ I+ + Y LRR Sbjct: 96 GSIGLIKAINTFNIDKNIKLATYASRCIENEILMY----------------------LRR 133 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 N K + V+I + LNV D N Sbjct: 134 -----------NNKTKMEVSIDEPLNV-----------------------DWDGNELLLS 159 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR----RLQENPVTLEN 257 D L D D V+ E + +++L ++S LNPRE++I E R E+ +T + Sbjct: 160 DILGTDED----VIYRDLEDEIEKSLLNTAISRLNPREQKIVELRFGLGTENEDEMTQKE 215 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ +S+ + ++E + K++++ I K Sbjct: 216 VADLLGISQSYISRLEKKIMKRLKKEIVK 244 >gi|238916673|ref|YP_002930190.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] gi|238872033|gb|ACR71743.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] Length = 250 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 35/118 (29%), Positives = 61/118 (51%), Gaps = 4/118 (3%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 KN ++ G++ YI +P L EE + D A H L+ +LRLVV Sbjct: 24 KNFCLLKQGDV---HYIGGTDILPAPLGASEEQDAIEALGTASDAEAKHTLIEHNLRLVV 80 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 IA + G+ + +++S G IGL++A+ +D ++ +LATY+ I+ + Y+ R+ Sbjct: 81 YIAKKFDNTGVGVEDLISIGTIGLIKAINSYDKDKNIKLATYASRCIENEILMYLRRN 138 >gi|182437345|ref|YP_001825064.1| RNA polymerase sigma factor, sigma L [Streptomyces griseus subsp. griseus NBRC 13350] gi|326777955|ref|ZP_08237220.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178465861|dbj|BAG20381.1| RNA polymerase sigma factor, sigma L [Streptomyces griseus subsp. griseus NBRC 13350] gi|326658288|gb|EGE43134.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 288 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 106/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 67 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 126 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A+ L VSE Sbjct: 127 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELARALGVSEE 180 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 181 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDAALEGV----EYRESLKPL 234 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 235 LAK----LAPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 285 >gi|331696957|ref|YP_004333196.1| SigB/F/G subfamily RNA polymerase sigma-28 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951646|gb|AEA25343.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Pseudonocardia dioxanivorans CB1190] Length = 288 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 1/73 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT HL +V IA + G G P+ ++ G +GL+ AV +FDP RG +Y++ I Sbjct: 69 RLVTGHLPVVRHIARRFAGRGEPVDDLEQAGTVGLINAVDRFDPARGVDFLSYAVPTITG 128 Query: 112 AMQEYIL-RSWSL 123 ++ + R+WS+ Sbjct: 129 EVRRHFRDRTWSM 141 >gi|310641572|ref|YP_003946330.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309246522|gb|ADO56089.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 262 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 64/274 (23%), Positives = 124/274 (45%), Gaps = 50/274 (18%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKK 92 L ++++E+GD A +L+ +L +V ++ G GLP + ++ S G +GL+ A++K Sbjct: 14 LWEQWKEYGDKEAKKQLIEKYLHIVEYVS-GRLAVGLPKNVSKDDLASNGVMGLIDALEK 72 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG-HLQAITD 151 FD ERG + TY+ W ++ A+ + LR V K++ + L+ +L+ ++D Sbjct: 73 FDYERGLQFETYASWRVRGAILDG-LRQGDWVPRSVREKAKKIEDAYQHLEQRYLRTVSD 131 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLA---------------GDESLNALINSSDKN 196 + + L+VSE E SM +A + L+ L++ KN Sbjct: 132 EEM--------SHYLDVSEKEFQSMIQEVAVMSIVSLEDPIREEESETRLSLLVDEKAKN 183 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 DH E L R+ L + + L +ER + L ++L Sbjct: 184 P---------DHKVNEFTL---------RDALAQGIDKLTEKERIVVSL--LYYEDLSLS 223 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 ++ +S R+ Q+ ++A +++ ++ KQ +L Sbjct: 224 EIAEVMSLSPSRISQLHSKAILRLRATLDKQRDL 257 >gi|229587526|ref|YP_002860564.1| putative DNA-directed RNA polymerase specialized sigma subunit [Clostridium botulinum Ba4 str. 657] gi|229260255|gb|ACQ51292.1| putative DNA-directed RNA polymerase specialized sigma subunit [Clostridium botulinum Ba4 str. 657] Length = 296 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 47/242 (19%), Positives = 116/242 (47%), Gaps = 39/242 (16%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + L+ + L+ K+A Y+ + + ++ +G +G ++AV KFD + + +TY+ +WI+ Sbjct: 88 NSLIEKNENLIFKVANKYKNKNIELQDLTQQGFLGFLKAVDKFDESKKVKFSTYAYYWIE 147 Query: 111 AAMQEYI-LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 A + + + I ++ + R+LKG+ I L +++ + K Sbjct: 148 AEISSFFNFNVDGSLSISSS-------YQHRKLKGYENGI----LSEDELPKLVKNHIQL 196 Query: 170 ESEVISMNCRLAGDESLNA---LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ IS++ + G E+ N+ L+ +D N + + +V Sbjct: 197 KNNSISVDSIVHGKENENSADYLLGKTDINYNNIESKIV--------------------- 235 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + ++S L+ +E+ I +R + E ++++ EF+VS + ++ + A +K++++++K Sbjct: 236 -MENALSGLSDKEKNIIISRIIYEKK--YKDIAKEFKVSYQYIQYLYNNAIEKLRQTVKK 292 Query: 287 QV 288 + Sbjct: 293 DI 294 >gi|167750707|ref|ZP_02422834.1| hypothetical protein EUBSIR_01685 [Eubacterium siraeum DSM 15702] gi|167656386|gb|EDS00516.1| hypothetical protein EUBSIR_01685 [Eubacterium siraeum DSM 15702] Length = 251 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 45/151 (29%), Positives = 74/151 (49%), Gaps = 15/151 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKK 92 L ++YR GD++ + +V ++ LV IA+ Y GY ++++EG I LM A+ Sbjct: 12 LLEKYRLTGDMNVRNEIVLMYMDLVKMIAVSMRNIYTGYA-ESDDIINEGVIALMAAIDG 70 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 FDPE+ + TY+ IK A+ +Y LR V K+L N RL L + TD Sbjct: 71 FDPEKNVKFETYAGIRIKGAVIDY-LRKLDRVPRTLRKLSKQLDDNFARLNSELCRTPTD 129 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 L A+ +N++ +++ + AG Sbjct: 130 EEL--------AESMNMTTAQLSKLMANTAG 152 >gi|223986354|ref|ZP_03636363.1| hypothetical protein HOLDEFILI_03674 [Holdemania filiformis DSM 12042] gi|223961703|gb|EEF66206.1| hypothetical protein HOLDEFILI_03674 [Holdemania filiformis DSM 12042] Length = 257 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/255 (24%), Positives = 120/255 (47%), Gaps = 21/255 (8%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ Q+ L + ++ GDLSA +L+ +L+LV+ I + + ++ G IG Sbjct: 16 LPVLKSQQMTELFIQLQD-GDLSAKEKLINGNLKLVLSIVQRFAHRTENMDDLFQIGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD R +TY++ I ++ Y LR ++++ + + K L + + + K Sbjct: 75 LIKAIDNFDLSHEVRFSTYAVPMIIGEIKRY-LRDNQMIRV--SRHLKDLAYKVLKEK-- 129 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 +A N + + +A+ + V E ++ L S+ I + D ++ D + Sbjct: 130 -EAFIHANQREPSLAELAEIMGVKEKDIAESLESLQSVVSIFEPIYNDDGDTLYLLDQIK 188 Query: 206 YDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 DHD G+ LI L SM L+ +E +I R Q T ++SE Sbjct: 189 DDHDEIGKLSSLI----------ALKESMKHLSDKEAQIINKRYYQGQTQT--EIASELG 236 Query: 264 VSRERVRQIEARAFK 278 +S+ +V ++E A + Sbjct: 237 ISQAQVSRLEKSALQ 251 >gi|291558216|emb|CBL35333.1| RNA polymerase sigma factor, FliA/WhiG family/RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum V10Sc8a] Length = 251 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 45/151 (29%), Positives = 74/151 (49%), Gaps = 15/151 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKK 92 L ++YR GD++ + +V ++ LV IA+ Y GY ++++EG I LM A+ Sbjct: 12 LLEKYRLTGDMNVRNEIVLMYMDLVKMIAVSMRNIYTGYA-ESDDIINEGVIALMAAIDG 70 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 FDPE+ + TY+ IK A+ +Y LR V K+L N RL L + TD Sbjct: 71 FDPEKNVKFETYAGIRIKGAVIDY-LRKLDRVPRTLRKLSKQLDDNFARLNSELCRTPTD 129 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 L A+ +N++ +++ + AG Sbjct: 130 EEL--------AESMNMTTAQLSKLMANTAG 152 >gi|302559791|ref|ZP_07312133.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] gi|302477409|gb|EFL40502.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] Length = 301 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 79 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 138 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 139 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVPELAAVLGVSEE 192 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 193 DVVDGLAVGNAYTA--SSLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 246 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 247 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 297 >gi|168186818|ref|ZP_02621453.1| RNA polymerase sigma-K factor [Clostridium botulinum C str. Eklund] gi|169295229|gb|EDS77362.1| RNA polymerase sigma-K factor [Clostridium botulinum C str. Eklund] Length = 235 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 35/103 (33%), Positives = 59/103 (57%), Gaps = 4/103 (3%) Query: 9 IVNGEIGLSRYIHEIRKIP--MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 +++G L+ Y+ P + EK+E+Y L ++++E GD A L+ +LRLV I Sbjct: 10 MIDGMTFLTAYVSNGTSFPQPLNEKEEKYYL-QQFKE-GDALAKGILIERNLRLVAHIVK 67 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y I +++S G +GL++A+ FD ++G RLATY+ I Sbjct: 68 KYSYPNKDIDDLISIGTVGLIKAIDSFDVDKGTRLATYAARCI 110 >gi|153812463|ref|ZP_01965131.1| hypothetical protein RUMOBE_02862 [Ruminococcus obeum ATCC 29174] gi|149831388|gb|EDM86476.1| hypothetical protein RUMOBE_02862 [Ruminococcus obeum ATCC 29174] Length = 243 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 56/94 (59%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+E YV++ R + + A L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 39 PLEPKREAYVIS-RLKTDQEQEARSLLIEHNLRLVVYIARKFDNTGVGVEDLISIGTIGL 97 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 98 IKAINTFNPVKNIKLATYASRCIENEILMYLRRN 131 >gi|302386724|ref|YP_003822546.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] gi|302197352|gb|ADL04923.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] Length = 246 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 57/223 (25%), Positives = 92/223 (41%), Gaps = 66/223 (29%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L+ ++E + D A L+ +LRLVV IA + + + +++S G IGL Sbjct: 41 PPLDNEKEAQIIALLGSDDDQRAKSELIEHNLRLVVYIAKKFDNTSVGVEDLISIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A+ F+P + +LATY+ I+ + Y LRR Sbjct: 101 IKAINTFNPNKNIKLATYASRCIENEILMY----------------------LRR----- 133 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWL 204 N K + V+I + LNV W + L Sbjct: 134 ------NNKTKMEVSIDEPLNVD------------------------------WDGNELL 157 Query: 205 VYDHDGQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEAR 246 + D G E+ +I K+ E + RN+L ++S L+PRER+I E R Sbjct: 158 LSDILGTEEDVIYKDLETEVERNLLNTAISRLSPRERKIVELR 200 >gi|168214239|ref|ZP_02639864.1| RNA polymerase sigma-E factor [Clostridium perfringens CPE str. F4969] gi|170714290|gb|EDT26472.1| RNA polymerase sigma-E factor [Clostridium perfringens CPE str. F4969] Length = 235 Score = 57.4 bits (137), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 33/92 (35%), Positives = 55/92 (59%), Gaps = 1/92 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K+EE L + E+ D + L+ +LRLVV IA + G+ + +++S G IGL++ Sbjct: 35 LSKEEEEELVNKLGEN-DEAIRSILIERNLRLVVYIARKFENTGVGVEDLISVGTIGLIK 93 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 94 AVNTFNPEKKIKLATYASRCIENEILMYLRRN 125 >gi|312135430|ref|YP_004002768.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311775481|gb|ADQ04968.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 240 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 59/243 (24%), Positives = 112/243 (46%), Gaps = 24/243 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +L+ S+L LV + + G+ + ++ G IGL++AV +FDP R + Sbjct: 14 KNGDKVARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSFNVRFS 73 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG--TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY++ I ++ Y LR +K+ NQ + +++L+ Q ++ N +P + Sbjct: 74 TYAVPMIIGEIKRY-LRDDGRIKVSRKIKENQGK----IKKLRN--QFVSSNGREP-TIS 125 Query: 161 AIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I++ +S E+ + C A E SLN ++N + D + D ++L Sbjct: 126 EISQLTGLSSDEI--LLCLDASSEVASLNEVVNQEEGKPITLMDIASDEEDYSTKLL--- 180 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L RER I R + T ++ + +S+ V +IE RA + Sbjct: 181 -----DLMALKEGLKKLKGRERYIIFMRYFKNK--TQSEIAKQLNISQVHVSRIEKRALE 233 Query: 279 KVQ 281 +++ Sbjct: 234 RIK 236 >gi|119514602|gb|ABL76113.1| SigB [Listeria monocytogenes] gi|119514606|gb|ABL76115.1| SigB [Listeria monocytogenes] gi|119514608|gb|ABL76116.1| SigB [Listeria monocytogenes] gi|119514610|gb|ABL76117.1| SigB [Listeria monocytogenes] gi|119514614|gb|ABL76119.1| SigB [Listeria monocytogenes] gi|119514618|gb|ABL76121.1| SigB [Listeria monocytogenes 690] gi|119514626|gb|ABL76125.1| SigB [Listeria monocytogenes] gi|119514630|gb|ABL76127.1| SigB [Listeria monocytogenes] gi|119514632|gb|ABL76128.1| SigB [Listeria monocytogenes] Length = 249 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 62/257 (24%), Positives = 123/257 (47%), Gaps = 26/257 (10%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKV 280 +S+ V +I+ +A KK+ Sbjct: 233 ISQMHVSRIQRQAIKKL 249 >gi|161353798|ref|YP_519128.2| sporulation sigma factor SigE [Desulfitobacterium hafniense Y51] gi|219670065|ref|YP_002460500.1| sporulation sigma factor SigE [Desulfitobacterium hafniense DCB-2] gi|219540325|gb|ACL22064.1| RNA polymerase, sigma 28 subunit, SigE [Desulfitobacterium hafniense DCB-2] Length = 249 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 27/60 (45%), Positives = 40/60 (66%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D+S L+ +LRLVV IA + G+ I ++VS G IGL++AV FDP++ +LATY+ Sbjct: 65 DVSVRDVLIERNLRLVVYIARKFENTGVGIEDLVSIGTIGLIKAVNTFDPQKKIKLATYA 124 >gi|167755749|ref|ZP_02427876.1| hypothetical protein CLORAM_01264 [Clostridium ramosum DSM 1402] gi|167704688|gb|EDS19267.1| hypothetical protein CLORAM_01264 [Clostridium ramosum DSM 1402] Length = 258 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 66/273 (24%), Positives = 124/273 (45%), Gaps = 25/273 (9%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N +I+NG E +K L E Y L Y+ + + RLV + +LV+ + Sbjct: 3 NYQVIING-------YQEPKK--RLTTDETYKLIDEYQATKNEAIKDRLVNDNTKLVLSM 53 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A + G + ++ G IGL++A++ F+ G + +TY++ I M+ Y LR + Sbjct: 54 ARRFYGREDSMDDLFQVGMIGLIKAIENFNTSFGLKFSTYAVPLIIGEMKRY-LRDNHQI 112 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 KI + + L + + ++K IT N +P + +A +L V S VI Sbjct: 113 KISRSI--RDLAYKVLKVKDSY--ITKLNREP-TINELANELEVEPSAVIEALLSTNSVS 167 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL + + D N+ + D + D + ++ R N L ++ LN +E R+ + Sbjct: 168 SLQEEVKNDDGNNLKMIDSITDD-----KTVV---SRTNETIDLYDALKSLNQKEHRVIK 219 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 R + ++ ++ E +S+ +V +IE +A Sbjct: 220 QRYFE--GLSQSEIAKELFISQAQVSRIERKAL 250 >gi|52784380|ref|YP_090209.1| RNA polymerase sigma factor SigB [Bacillus licheniformis ATCC 14580] gi|52346882|gb|AAU39516.1| SigB [Bacillus licheniformis ATCC 14580] Length = 264 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 68/283 (24%), Positives = 133/283 (46%), Gaps = 32/283 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K L K E L K+Y+E+ D A LV ++ LV +A Y ++ G + Sbjct: 7 KTTKLTKTEVDTLIKKYQENQDEDAQLTLVQTYKNLVETLAKKYSKGKSFHEDLCQVGML 66 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLK 143 GL+ A+K++DP+ G +++ I ++ ++ ++WS+ +R+ R+K Sbjct: 67 GLLGAIKRYDPDVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRIK 120 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNS 197 + +T + +V IA+ L+V+E EV+ +M L+ D S+ A +D ++ Sbjct: 121 MAVDHLTTETQRSPRVDEIAEFLDVTEEEVLETMEMGKSYQALSVDHSIEA---DADGST 177 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 D + +G E+V N++ ML + VL+ RE++I E +Q + + Sbjct: 178 VTILDIVGSQEEGYEKV--------NQKLMLESVLHVLSDREKQIIELTYIQNK--SQKE 227 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 +S+ V +++ +A K+++E+ L+ P + KP Sbjct: 228 TGEMLGISQMHVSRLQRKAVKRLREA------LAEDPYMELKP 264 >gi|18310744|ref|NP_562678.1| sporulation sigma factor SigE [Clostridium perfringens str. 13] gi|110798939|ref|YP_696448.1| sporulation sigma factor SigE [Clostridium perfringens ATCC 13124] gi|110801836|ref|YP_699048.1| sporulation sigma factor SigE [Clostridium perfringens SM101] gi|168207289|ref|ZP_02633294.1| RNA polymerase sigma-E factor [Clostridium perfringens E str. JGS1987] gi|168210605|ref|ZP_02636230.1| RNA polymerase sigma-E factor [Clostridium perfringens B str. ATCC 3626] gi|168217049|ref|ZP_02642674.1| RNA polymerase sigma-E factor [Clostridium perfringens NCTC 8239] gi|169342673|ref|ZP_02863714.1| RNA polymerase sigma-E factor [Clostridium perfringens C str. JGS1495] gi|182625822|ref|ZP_02953588.1| RNA polymerase sigma-E factor [Clostridium perfringens D str. JGS1721] gi|18145425|dbj|BAB81468.1| probable transcription initiation factor sigma E [Clostridium perfringens str. 13] gi|110673586|gb|ABG82573.1| RNA polymerase sigma-E factor [Clostridium perfringens ATCC 13124] gi|110682337|gb|ABG85707.1| RNA polymerase sigma-E factor [Clostridium perfringens SM101] gi|169299179|gb|EDS81249.1| RNA polymerase sigma-E factor [Clostridium perfringens C str. JGS1495] gi|170661363|gb|EDT14046.1| RNA polymerase sigma-E factor [Clostridium perfringens E str. JGS1987] gi|170711254|gb|EDT23436.1| RNA polymerase sigma-E factor [Clostridium perfringens B str. ATCC 3626] gi|177908856|gb|EDT71348.1| RNA polymerase sigma-E factor [Clostridium perfringens D str. JGS1721] gi|182380960|gb|EDT78439.1| RNA polymerase sigma-E factor [Clostridium perfringens NCTC 8239] Length = 235 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 33/92 (35%), Positives = 55/92 (59%), Gaps = 1/92 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K+EE L + E+ D + L+ +LRLVV IA + G+ + +++S G IGL++ Sbjct: 35 LSKEEEEELVNKLGEN-DEAIRSILIERNLRLVVYIARKFENTGVGVEDLISVGTIGLIK 93 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 94 AVNTFNPEKKIKLATYASRCIENEILMYLRRN 125 >gi|331091330|ref|ZP_08340170.1| hypothetical protein HMPREF9477_00813 [Lachnospiraceae bacterium 2_1_46FAA] gi|330404491|gb|EGG84035.1| hypothetical protein HMPREF9477_00813 [Lachnospiraceae bacterium 2_1_46FAA] Length = 206 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 35/84 (41%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E Y L K Y E GDL A H L+ +LRLV I Y+ +++S G IGL Sbjct: 7 PLTASEERYYLQK-YTE-GDLEAKHILIERNLRLVAHIVKKYQHLDEDPEDLLSIGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++AV F+ E+G RLATY+ I+ Sbjct: 65 IKAVSTFNLEKGNRLATYAARCIE 88 >gi|293401521|ref|ZP_06645664.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305159|gb|EFE46405.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 259 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 63/259 (24%), Positives = 127/259 (49%), Gaps = 31/259 (11%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 + +L +E L K+Y + GD A L+ +L+LV+ I + + ++ G IG Sbjct: 16 LKVLSNEEMKELFKKY-QSGDEQAKEDLIQGNLKLVLSIVQRFSNRCENMDDLFQVGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++++ FD + R +TY++ I ++ Y LR ++++ + + K L + + RLK Sbjct: 75 LVKSIDNFDLKHEVRFSTYAVPMIMGEIKRY-LRDNQVIRV--SRHLKDLAYKVFRLKE- 130 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + I ++ +P + +A++L V E +V+ L +S+ ++ V Sbjct: 131 -EYIHEHQKEP-TIHWLAEQLQVKEKDVVDA---LDSTQSVVSIFEP------------V 173 Query: 206 YDHDGQEQVLI-----EKEERKNRRNMLT--RSMSVLNPRERRIFEARRLQENPVTLENL 258 Y+ DG E L+ +K+E + N +T +SM L +E+ I + R Q+ T + Sbjct: 174 YNTDGDELYLLDQIKDDKDEIERLSNYMTLKKSMRNLKGKEKDIIQKRYYQDKTQT--EI 231 Query: 259 SSEFEVSRERVRQIEARAF 277 ++E +S+ +V ++E A Sbjct: 232 ANELGISQAQVSRLEKNAI 250 >gi|23978307|dbj|BAC21130.1| principal sigma factor [Calothrix brevissima] Length = 188 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 46/178 (25%), Positives = 91/178 (51%), Gaps = 17/178 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLSV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLP--ISLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEAR 246 I + S+ D++ + DG+ E + KN R L + + L+PRER + R Sbjct: 117 IGKEE--DSRLGDFI--ESDGETP---EDQVSKNLLREDLEKVLDSLSPRERDVLRLR 167 >gi|52079008|ref|YP_077799.1| RNA polymerase sigma factor SigB [Bacillus licheniformis ATCC 14580] gi|319648688|ref|ZP_08002899.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] gi|52002219|gb|AAU22161.1| RNA polymerase sigma-37 factor (sigma-B) [Bacillus licheniformis ATCC 14580] gi|317389107|gb|EFV69923.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] Length = 263 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 68/283 (24%), Positives = 133/283 (46%), Gaps = 32/283 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K L K E L K+Y+E+ D A LV ++ LV +A Y ++ G + Sbjct: 6 KTTKLTKTEVDTLIKKYQENQDEDAQLTLVQTYKNLVETLAKKYSKGKSFHEDLCQVGML 65 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLK 143 GL+ A+K++DP+ G +++ I ++ ++ ++WS+ +R+ R+K Sbjct: 66 GLLGAIKRYDPDVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRIK 119 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNS 197 + +T + +V IA+ L+V+E EV+ +M L+ D S+ A +D ++ Sbjct: 120 MAVDHLTTETQRSPRVDEIAEFLDVTEEEVLETMEMGKSYQALSVDHSIEA---DADGST 176 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 D + +G E+V N++ ML + VL+ RE++I E +Q + + Sbjct: 177 VTILDIVGSQEEGYEKV--------NQKLMLESVLHVLSDREKQIIELTYIQNK--SQKE 226 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 +S+ V +++ +A K+++E+ L+ P + KP Sbjct: 227 TGEMLGISQMHVSRLQRKAVKRLREA------LAEDPYMELKP 263 >gi|89335089|dbj|BAE84684.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 238 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 27/60 (45%), Positives = 40/60 (66%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D+S L+ +LRLVV IA + G+ I ++VS G IGL++AV FDP++ +LATY+ Sbjct: 54 DVSVRDVLIERNLRLVVYIARKFENTGVGIEDLVSIGTIGLIKAVNTFDPQKKIKLATYA 113 >gi|260589594|ref|ZP_05855507.1| RNA polymerase sigma-E factor [Blautia hansenii DSM 20583] gi|260540162|gb|EEX20731.1| RNA polymerase sigma-E factor [Blautia hansenii DSM 20583] Length = 252 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 40/130 (30%), Positives = 61/130 (46%), Gaps = 14/130 (10%) Query: 5 NMSIIVNGEIGLS-------------RYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAA 50 NM I V G + S YI +P L QEE + G A Sbjct: 11 NMDICVGGNVKFSGFKGVFLPKKNELHYIGGAEVLPAPLTAQEEGEMLDALAGEGKEEAR 70 Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L+ +LRLVV IA + G+ + +++S G IGL++A+ FDP + +LATY+ I+ Sbjct: 71 ACLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFDPVKKIKLATYASRCIE 130 Query: 111 AAMQEYILRS 120 + Y+ R+ Sbjct: 131 NEILMYLRRN 140 >gi|311897124|dbj|BAJ29532.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 301 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 58/231 (25%), Positives = 110/231 (47%), Gaps = 19/231 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++ LV A+ +R P+ +VV G IGL+ A+ +FDP+RG + TY++ I Sbjct: 81 LIEINIPLVRYAAIRFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQFPTYALPTILGE 140 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ Y + + T +RL ++ G ++ +T + + +V IA L + E + Sbjct: 141 IKRYFRDN-----VRTMHVPRRLQELWVQVSGAMEELTVAHGRAPKVPEIAANLRIPEED 195 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V + C AG A + ++ ++ D L Y ++ L + E R R++L + Sbjct: 196 VRA--CLDAGRAYNAASLEAAQEHEGGLALLDRLGY----EDSALTDVEHRDMVRHLLVQ 249 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L RERRI R +T +S+E +S+ V ++ +R +++ Sbjct: 250 ----LPERERRIIMLRFFAN--LTQSQISTELGMSQMHVSRLLSRILSRLR 294 >gi|26665390|dbj|BAC44906.1| principal sigma factor [Scytonema sp. IAM M-262] Length = 188 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 48/198 (24%), Positives = 99/198 (50%), Gaps = 17/198 (8%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I + S+ D++ D + E + + R++ L + + L+PRER + R Sbjct: 117 IGKEE--DSRLGDFIESDSETPEDQVSKNLLRED----LEKVLDSLSPRERDVLRLRYGL 170 Query: 250 ENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 171 DDGRMKTLEEIGQIFNVT 188 >gi|239623681|ref|ZP_04666712.1| RNA polymerase [Clostridiales bacterium 1_7_47_FAA] gi|239521712|gb|EEQ61578.1| RNA polymerase [Clostridiales bacterium 1_7_47FAA] Length = 239 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 60/238 (25%), Positives = 113/238 (47%), Gaps = 16/238 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD +A +LV ++ L+ I + G G + ++ G+IGL++A+ KFD + +T Sbjct: 13 EGDKAARDQLVMDNVGLIWSIVRRFSGRGYEMEDLFQIGSIGLIKAIDKFDTGFEVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + LR ++K+ + K L F +R + + +T + + + IA Sbjct: 73 YAVPMITGEIKRF-LRDDGMIKVSRSI--KELGFKVRAAR---EEMTYSLGREPTIEEIA 126 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +L+ S EV + A ESL + D N+ D L +++ E++L Sbjct: 127 ARLDTSREEVAASMEAGAEVESLYRPTGNGDDNTMFLMDRLEEENNDHEELL-------- 178 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L M L +R I RR N T ++ E +S+ +V ++E R K+++ Sbjct: 179 NRMVLKELMEDLGEEQREII-VRRYFYNQ-TQTQIAKELGISQVQVSRLEKRILKEMR 234 >gi|331027965|ref|YP_004421515.1| RNA polymerase sigma factor [Synechococcus phage S-CBS2] gi|294805578|gb|ADF42417.1| RNA polymerase sigma factor [Synechococcus phage S-CBS2] Length = 261 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 28/95 (29%), Positives = 51/95 (53%), Gaps = 8/95 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGL--------PISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +L +LRLV K Y G +++ EG GL +A KFDPERG+ AT Sbjct: 46 KLCQHNLRLVAKFTRAYMKGGTRKLTWGGDETMDLLQEGYFGLRRAANKFDPERGYTFAT 105 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 Y+ W++ A+ +Y + SL+++ ++ ++ +++ Sbjct: 106 YANAWVRQALGKYHVDKLSLIRVPESSAREIFYYD 140 >gi|311029938|ref|ZP_07708028.1| sporulation sigma factor SigG [Bacillus sp. m3-13] Length = 259 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 64/275 (23%), Positives = 130/275 (47%), Gaps = 45/275 (16%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G+LSA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNEE---MRKLFREMQGGELSAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + ++ Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQV 128 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + L + T E+ IAK L V E++ +L+A+ QD Sbjct: 129 RERLMSETSREPTAEE---IAKVLEVPHEEIVF---------ALDAI-----------QD 165 Query: 203 WL-----VYDHDGQEQVLIEKEERKNRRNM-------LTRSMSVLNPRERRIFEARRLQE 250 + +Y+ G ++++ + +++ L M LN RE+ I R Q Sbjct: 166 PVSLFEPIYNDGGDPIYVLDQISDEKNKDIQWIEEIALKEGMRRLNDREKLILRKRFFQG 225 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T ++ E +S+ +V ++E A K++ ++IQ Sbjct: 226 K--TQMEVADEIGISQAQVSRLEKAAIKQMNKNIQ 258 >gi|119514598|gb|ABL76111.1| SigB [Listeria monocytogenes] gi|119514600|gb|ABL76112.1| SigB [Listeria monocytogenes] gi|119514604|gb|ABL76114.1| SigB [Listeria monocytogenes] gi|119514612|gb|ABL76118.1| SigB [Listeria monocytogenes] gi|119514616|gb|ABL76120.1| SigB [Listeria monocytogenes] gi|119514620|gb|ABL76122.1| SigB [Listeria monocytogenes] gi|119514622|gb|ABL76123.1| SigB [Listeria monocytogenes] gi|119514624|gb|ABL76124.1| SigB [Listeria monocytogenes] gi|119514628|gb|ABL76126.1| SigB [Listeria monocytogenes] gi|119514634|gb|ABL76129.1| SigB [Listeria monocytogenes] gi|119514636|gb|ABL76130.1| SigB [Listeria monocytogenes] gi|119514638|gb|ABL76131.1| SigB [Listeria monocytogenes] Length = 249 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 62/257 (24%), Positives = 123/257 (47%), Gaps = 26/257 (10%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKV 280 +S+ V +I+ +A KK+ Sbjct: 233 ISQMHVSRIQRQAIKKL 249 >gi|313901877|ref|ZP_07835297.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter subterraneus DSM 13965] gi|313467870|gb|EFR63364.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter subterraneus DSM 13965] Length = 251 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 24/63 (38%), Positives = 39/63 (61%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A RLV H+ LV +A + +G + +++ G IGL+QA+ FDP RG++ +T Sbjct: 11 QGDGEARERLVALHMPLVRHVARRFASFGHDLDDLIQAGTIGLLQAIDGFDPSRGYQFST 70 Query: 104 YSM 106 Y++ Sbjct: 71 YAV 73 >gi|229827370|ref|ZP_04453439.1| hypothetical protein GCWU000182_02758 [Abiotrophia defectiva ATCC 49176] gi|229788308|gb|EEP24422.1| hypothetical protein GCWU000182_02758 [Abiotrophia defectiva ATCC 49176] Length = 268 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 68/254 (26%), Positives = 117/254 (46%), Gaps = 35/254 (13%) Query: 51 HRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 +L+ + LV KI G Y GY + ++V G GL+ A+ KFD +G + TY+ Sbjct: 31 EKLIIEYANLV-KIIAGRMSIYLGYNVEYDDLVGYGIFGLIDAIDKFDHVKGVKFETYAS 89 Query: 107 WWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 IK A+ + I + W I T Q++ ++L+ +AI + + IA + Sbjct: 90 LRIKGAILDQIRKMDW----IPRTMRQRQ-----KKLEAAERAIEEKYGRMATDEEIAAE 140 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---------QEQVLI 216 L +S E S ++ S++ +I S D Q D LV D G Q + + Sbjct: 141 LGISVDEYGSWQSQV----SMSGII-SLDDYLEQGSD-LVADKSGSKLGISGFEQPEEAV 194 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 EKEE K L ++ L +E+++ +E +TL+ +S VS RV Q+ +A Sbjct: 195 EKEELKES---LAVAIEGLTEKEQKVIALYYYEE--LTLKEISRVLSVSESRVSQLHTKA 249 Query: 277 FKKVQESIQKQVEL 290 K++E + +++ Sbjct: 250 LTKLKEKLGDYIDI 263 >gi|325289982|ref|YP_004266163.1| RNA polymerase, sigma subunit, RpoX/SigF [Syntrophobotulus glycolicus DSM 8271] gi|324965383|gb|ADY56162.1| RNA polymerase, sigma subunit, RpoX/SigF [Syntrophobotulus glycolicus DSM 8271] Length = 257 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 45/178 (25%), Positives = 90/178 (50%), Gaps = 16/178 (8%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L++QE L + + GD A +L+ +L+L+ + + G + ++ G I Sbjct: 12 RFPLLKEQEMTELLHK-AQAGDHDAREQLINCNLKLIFNLIQRFTHRGYELEDLFQIGTI 70 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ KFD G + +TY++ I ++ + LR +K+ + K L + + R + Sbjct: 71 GLIKAIDKFDFSYGVKFSTYAVPMIIGEIRRF-LRDDHPIKVPRSY--KELVYKIHRSRE 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 L + N +P V IA+ LNV E+++ +L+A+ + + N + +QD Sbjct: 128 KLS--LELNREP-TVNEIAQDLNVGSEEIVT---------ALDAVQSPTSINDTLYQD 173 >gi|317502438|ref|ZP_07960602.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|331090300|ref|ZP_08339184.1| hypothetical protein HMPREF1025_02767 [Lachnospiraceae bacterium 3_1_46FAA] gi|316896176|gb|EFV18283.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|330401435|gb|EGG81020.1| hypothetical protein HMPREF1025_02767 [Lachnospiraceae bacterium 3_1_46FAA] Length = 206 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 35/94 (37%), Positives = 56/94 (59%), Gaps = 3/94 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E+Y + ++Y E GDL A H L+ +LRLV + Y+ +++S G IGL Sbjct: 7 PLTPSEEKYYI-RKYTE-GDLEAKHILIERNLRLVAHVIKKYQNSEEDPEDLISIGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+P++G RLA Y+ I+ + Y LRS Sbjct: 65 IKAVVTFNPDKGNRLAAYASRCIENEILMY-LRS 97 >gi|226327187|ref|ZP_03802705.1| hypothetical protein PROPEN_01052 [Proteus penneri ATCC 35198] gi|225204405|gb|EEG86759.1| hypothetical protein PROPEN_01052 [Proteus penneri ATCC 35198] Length = 201 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 54/213 (25%), Positives = 102/213 (47%), Gaps = 30/213 (14%) Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TANQ-----KRLFF 137 M+AV KF+ RG++ +TY+ WWI+ A+ I ++I T N+ +++ Sbjct: 1 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQ 60 Query: 138 NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 + R + + + + L PE I K L +++ E ISM + DE Sbjct: 61 EMGR-EPSPEELAERMLMPED--KIRKVLKIAK-EPISMETPIGDDED------------ 104 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVTL 255 S D++ D ++ ++ ++ R+ ++ L RE ++ R + TL Sbjct: 105 SHLGDFI---EDTTLELPLDSATSESLRSATHEVLAGLTLREAKVLRMRFGIDMNTDHTL 161 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 162 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 194 >gi|23978298|dbj|BAC21128.1| principal sigma factor [Anabaena variabilis] gi|23978312|dbj|BAC21131.1| principal sigma factor [Nostoc linckia] gi|23978323|dbj|BAC21134.1| principal sigma factor [Anabaena variabilis] gi|23978327|dbj|BAC21135.1| principal sigma factor [Anabaenopsis circularis] gi|23978343|dbj|BAC21140.1| principal sigma factor [Chlorogloeopsis sp. PCC 6718] gi|23978354|dbj|BAC21143.1| principal sigma factor [Fischerella muscicola] gi|23978367|dbj|BAC21148.1| principal sigma factor [Chroococcidiopsis sp. PCC 7431] gi|26665388|dbj|BAC44905.1| principal sigma factor [Tolypothrix sp. IAM M-259] gi|26665392|dbj|BAC44907.1| principal sigma factor [Fischerella sp. IAM M-263] gi|26665394|dbj|BAC44908.1| principal sigma factor [Hapalosiphon sp. IAM M-264] gi|26665396|dbj|BAC44909.1| principal sigms factor [Hapalosiphon delicatulus IAM M-266] gi|26665398|dbj|BAC44910.1| principal sigma factor [Nostoc entophytum IAM M-267] Length = 188 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 51/199 (25%), Positives = 100/199 (50%), Gaps = 19/199 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRL 248 I + S+ D++ + DG+ E + KN R L + + L+PRER + R Sbjct: 117 IGKEE--DSRLGDFI--ESDGETP---EDQVSKNLLREDLEKVLDSLSPRERDVLRLRYG 169 Query: 249 QENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 170 LDDGRMKTLEEIGQIFNVT 188 >gi|317122054|ref|YP_004102057.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Thermaerobacter marianensis DSM 12885] gi|315592034|gb|ADU51330.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Thermaerobacter marianensis DSM 12885] Length = 251 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 37/102 (36%), Positives = 54/102 (52%), Gaps = 2/102 (1%) Query: 10 VNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 V G + L Y+ R P L +EE +R R HGD A L+ +LRLV IA + Sbjct: 14 VRGLLYLVGYLQTGRSFPQPLTPEEEAHYLERMR-HGDERARDVLIERNLRLVAHIAKKF 72 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 G +++S G +GL++ V +DP +G RLATY+ I+ Sbjct: 73 DETGEDPEDLISIGTVGLIKGVDTYDPSKGTRLATYAARCIE 114 >gi|149177082|ref|ZP_01855690.1| sigma-70 factor [Planctomyces maris DSM 8797] gi|148844147|gb|EDL58502.1| sigma-70 factor [Planctomyces maris DSM 8797] Length = 556 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 59/236 (25%), Positives = 104/236 (44%), Gaps = 72/236 (30%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ S+LRLVV IA + G E+VS+GN+ L++A++KFD +G + +TY+ Sbjct: 381 LIRSNLRLVVSIAKRHIRPGGNFFEMVSDGNMSLIRAIEKFDYTKGNKFSTYA------- 433 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 SW++ +K + ++I +E Sbjct: 434 -------SWAI------------------MKNYARSIP--------------------AE 448 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 ++ G+E L S+D+ SQ+++ L+ Q+Q + + + Sbjct: 449 YKVLDRFRTGNEEL--FFQSTDERESQYREELI----NQKQHAV-----------IMSIL 491 Query: 233 SVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+ RE+ I R + P TLE + F V++ER+RQ+E+RA KK++ Q Sbjct: 492 DQLDGREKDILIYRYGLNARNEPQTLEQVGDRFGVTKERIRQLESRALKKLRRITQ 547 >gi|312794377|ref|YP_004027300.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|312876651|ref|ZP_07736632.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311796604|gb|EFR12952.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|312181517|gb|ADQ41687.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 256 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 40/180 (22%), Positives = 87/180 (48%), Gaps = 19/180 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y++ D+ + LV HL + IA + G+ ++ I L+ AV++F+P Sbjct: 18 LFEEYQKTKDIKLRNELVNKHLYIAEIIAKKFVNRGIDYEDLYQVACIALINAVERFEPN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G+R +++ I ++ Y S++++ +R++ ++K + ++ +P Sbjct: 78 KGYRFTSFATPTIMGEIKRYFRDRASIIRLP-----RRIYETSAKIKLATEILSTKLKRP 132 Query: 157 EQVVAIAKKLNVSESEVI------------SMNCRLAGDE--SLNALINSSDKNSSQWQD 202 +V IA+ LN+S EV+ S++ + DE +L ++ SD+N Q ++ Sbjct: 133 PKVEEIAQHLNMSTEEVLEVMEASSSYLPQSLDQTMYEDEEMTLGDVLGKSDENILQVEN 192 >gi|147678403|ref|YP_001212618.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] gi|146274500|dbj|BAF60249.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] Length = 256 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 69/261 (26%), Positives = 126/261 (48%), Gaps = 20/261 (7%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKK 92 L + YR D H +V S+L LV +A G LP ++ S G +GL++AV+K Sbjct: 7 LWREYRRSRDEKLKHEIVMSYLPLVKYLA-GRLAVKLPACIGQEDLESFGILGLLEAVEK 65 Query: 93 FDPERGFRLATYSMWWIKAA-MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 ++P+ G Y+ I+ A + E+ +W I T QK +L + LQ Sbjct: 66 YNPDYGVSFKAYAYNRIRGAIIDEFRKLNW----IPRTMWQK--IQSLNNTRERLQGEAG 119 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + E +A A +++ E ++ + SL+ + +D +W D ++ D + Sbjct: 120 ETVTSE-TLAGAMGISLPELHKLAWHASRLSLSSLDETVALADGELVRWGD-MIQDPESP 177 Query: 212 EQV-LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 + + +IEKEE R +L +++ L P + R+ + QE +TL+ + + EVS RV Sbjct: 178 DPLDIIEKEE---GRRLLVQAIEEL-PEKDRLVLSLYYQEG-LTLKEIGAVMEVSESRVC 232 Query: 271 QIEARAFKKVQESIQKQVELS 291 Q+ RA ++++ +++ LS Sbjct: 233 QLHTRAINRLRKKLEQASGLS 253 >gi|268611133|ref|ZP_06144860.1| sporulation sigma factor SigE [Ruminococcus flavefaciens FD-1] Length = 232 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 34/94 (36%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +QEE + + E D +A L+ +LRLVV IA + G+ I ++VS G IGL Sbjct: 30 PPLTRQEEAEVFMKL-EANDPAARKYLIEHNLRLVVYIAKKFESSGVGIEDLVSIGTIGL 88 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F P + +LATY+ I+ + ++ +S Sbjct: 89 IKAVNTFCPTKNIKLATYASRCIENEILMFLRKS 122 >gi|225028516|ref|ZP_03717708.1| hypothetical protein EUBHAL_02795 [Eubacterium hallii DSM 3353] gi|224954159|gb|EEG35368.1| hypothetical protein EUBHAL_02795 [Eubacterium hallii DSM 3353] Length = 209 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 41/111 (36%), Positives = 61/111 (54%), Gaps = 9/111 (8%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K P+ ++E Y L K YR+ GD A +L+ +LRLV I Y + +++S G I Sbjct: 5 KKPLKAEEERYYL-KMYRD-GDEKAKEKLIEHNLRLVAHIVKKYNSPDRDLDDLISIGTI 62 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVK-IGT 128 GL++AV FD +G RL TY+ I+ + ++ ILR SL + IGT Sbjct: 63 GLIKAVNTFDLNKGGRLVTYAARCIENELLMMIRQEKKILREVSLYEPIGT 113 >gi|160880601|ref|YP_001559569.1| sporulation sigma factor SigE [Clostridium phytofermentans ISDg] gi|160429267|gb|ABX42830.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium phytofermentans ISDg] Length = 246 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 27/75 (36%), Positives = 47/75 (62%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D+ A LV +LRLVV IA + G+ + +++S G IGL++A+ F+P++ +LATY+ Sbjct: 60 DVEAKSLLVEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFNPDKNIKLATYA 119 Query: 106 MWWIKAAMQEYILRS 120 I+ + Y+ R+ Sbjct: 120 SRCIENEILMYLRRN 134 >gi|28210768|ref|NP_781712.1| RNA polymerase sigma factor [Clostridium tetani E88] gi|28203206|gb|AAO35649.1| RNA polymerase sigma factor [Clostridium tetani E88] Length = 182 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 36/101 (35%), Positives = 52/101 (51%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I+ I L+ Y+ P K EE + E GD+SA L+ +LRLV I Y Sbjct: 40 ILGSNILLTAYVTGNNSFPKPLKAEEEKYYLKQLEKGDISAKGVLIERNLRLVAHIVKKY 99 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 G + +++S G IGL++A+ F +RG RLATY+ I Sbjct: 100 SFPGKDMDDLISIGTIGLIKAIDSFKIDRGTRLATYAAKCI 140 >gi|225574676|ref|ZP_03783286.1| hypothetical protein RUMHYD_02753 [Blautia hydrogenotrophica DSM 10507] gi|225038103|gb|EEG48349.1| hypothetical protein RUMHYD_02753 [Blautia hydrogenotrophica DSM 10507] Length = 239 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 63/261 (24%), Positives = 123/261 (47%), Gaps = 35/261 (13%) Query: 34 EYVLAKRYREH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 E+ LA R H GD A + ++ L+ I ++ G+ + ++ G+IGL++AV K Sbjct: 4 EHTLALIARAHQGDKEARDTIFEENIGLIWSIVKRFQNRGVELEDLFQIGSIGLLKAVDK 63 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAIT 150 FD + +TY++ I ++ + LR ++K+ + + + + +L+ L Sbjct: 64 FDLSYDVKFSTYAVPMISGEIKRF-LRDDGMIKVSRSLKEVCYKAYLAREKLEKELG--- 119 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + Q+ +A ++ + + E++ +A D N I S K +Y +G Sbjct: 120 ----RDPQIAEMAGEIGIPQEELM-----MALDS--NVEIESLQKT--------IYQGEG 160 Query: 211 QEQVLIEK-EERKNR------RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + LI+K EE+KNR R +L + L ERR+ R QE T ++ E Sbjct: 161 NDIRLIDKLEEKKNRQEESLNRILLEEILGQLTVSERRLIYMRYFQERTQT--EIARELG 218 Query: 264 VSRERVRQIEARAFKKVQESI 284 VS+ +V ++E + K++++ + Sbjct: 219 VSQVQVSRMEKKILKRLRDKM 239 >gi|149917001|ref|ZP_01905502.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Plesiocystis pacifica SIR-1] gi|149822279|gb|EDM81670.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Plesiocystis pacifica SIR-1] Length = 411 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 69/282 (24%), Positives = 123/282 (43%), Gaps = 60/282 (21%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L+ RL LRLV+ + YR + + + + G +GL +A+ +F+PERG++ +TY+ Sbjct: 159 LATRRRLFADSLRLVISLVHRYRKH-MDFATGMLRGALGLDKAIDRFEPERGWQFSTYAT 217 Query: 107 WWIK-------------------AAMQE---YILRS--WSLVKIGTTA----NQKRLFFN 138 WWI+ AA Q ++++ WS + T NQ F+ Sbjct: 218 WWIRQNITRSSMDFATALRVPVHAAEQTTRFWMVQQELWSQTGVRPTDEEVLNQANFKFS 277 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + RL + + +L + A+ + +S++ S+ L G+ + + + D ++ Sbjct: 278 IERLGDYRRHARTAHLTRRDQLGAAEA--ILDSDIPSL---LEGNPASGWVRAAIDHATA 332 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 Q D KE + R R ++ + RRI ++Q N TL L Sbjct: 333 QVDD---------------KEHSRPSRG---RWHAIFS---RRIL-GDQIQNN--TLREL 368 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 EF+++RER+RQ EA+ + + + E PPL P Sbjct: 369 GEEFDITRERIRQNEAKLIDFLARRLFRGQE--HLPPLAWGP 408 >gi|117927772|ref|YP_872323.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] gi|117648235|gb|ABK52337.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Acidothermus cellulolyticus 11B] Length = 287 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 110/240 (45%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +HL LV +A +R G P ++V IGL++A+ +FD ERG +TY+ I Sbjct: 66 LVQTHLPLVEYLARRFRNRGEPHDDLVQVATIGLIKAIDRFDVERGVEFSTYATPTIVGE 125 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD----NNLKPEQVVAIAKKLN 167 ++ Y R W++ R+ L+ LK L T + V +A L Sbjct: 126 IKRYFRDRGWAI----------RVPRRLQELKMSLAKATSELSQQYGRAPTVSELADHLG 175 Query: 168 VSESEVISMNCRLAGDESLNA--LINSSDKNSSQWQDWLVYDHDGQ-EQVLIEKEERKNR 224 +SE E+ L G ES NA I+ + V D G ++ L E R++ Sbjct: 176 MSEDEI------LEGLESANAYSTISLDTPETDDADALAVADTLGNIDEALEGVEYRESL 229 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L + L PRE+RI R + +T +++E +S+ V ++ AR +++E + Sbjct: 230 KPLLEK----LPPREKRILLLRFFRN--MTQSQIAAELGISQMHVSRLLARTLARLREGL 283 >gi|325262838|ref|ZP_08129574.1| RNA polymerase sigma-K factor [Clostridium sp. D5] gi|324031932|gb|EGB93211.1| RNA polymerase sigma-K factor [Clostridium sp. D5] Length = 212 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 32/91 (35%), Positives = 53/91 (58%), Gaps = 2/91 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E+Y + K Y E GDL A H L+ +LRLV + Y+ +++S G IGL Sbjct: 14 PLTPSEEKYYMQK-YTE-GDLQAKHVLIERNLRLVAHVIKKYQYLDEDPEDLISIGTIGL 71 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++AV F+P++G RLA Y+ ++ + Y+ Sbjct: 72 IKAVVTFNPDKGNRLAAYASKCVENEILMYL 102 >gi|119476594|ref|ZP_01616904.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] gi|119449850|gb|EAW31086.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] Length = 194 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 52/197 (26%), Positives = 95/197 (48%), Gaps = 16/197 (8%) Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 PERGFR +TY+ WWI+ ++ I+ +++ K L LR + Q + D+ Sbjct: 1 PERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHV-VKELNVYLRAARELTQKL-DHEP 58 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 PE++ + + ++ +N R+A D L A SDK+ D + H Sbjct: 59 TPEEIAELLDRPVADVKRMLRLNERVASVDTPLGA---DSDKS---LLDTIPDTHVSDPA 112 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVR 270 +++ ++ K ++ + L ++R + ARR TLE + E ++RERVR Sbjct: 113 EMLQDDDMKAS---ISEWIGELTEKQREVV-ARRFGLRGYETSTLEEVGREIGLTRERVR 168 Query: 271 QIEARAFKKVQESIQKQ 287 QI+ A K++++ ++KQ Sbjct: 169 QIQVEALKRLRDILEKQ 185 >gi|23978347|dbj|BAC21141.1| principal sigma factor [Oscillatoria sp. PCC 7112] Length = 188 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 48/198 (24%), Positives = 99/198 (50%), Gaps = 17/198 (8%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I + S+ D++ D + E + + R++ ++L L+PRER + R Sbjct: 117 IGKEE--DSRLGDFIESDGETPEDQVSKNLLREDLESVL----DTLSPRERDVLRLRYGL 170 Query: 250 ENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 171 DDGRMKTLEEIGQIFNVT 188 >gi|261405674|ref|YP_003241915.1| sporulation sigma factor SigG [Paenibacillus sp. Y412MC10] gi|315646040|ref|ZP_07899161.1| sporulation sigma factor SigG [Paenibacillus vortex V453] gi|329922674|ref|ZP_08278226.1| RNA polymerase sigma-G factor [Paenibacillus sp. HGF5] gi|261282137|gb|ACX64108.1| RNA polymerase, sigma 28 subunit, SigG [Paenibacillus sp. Y412MC10] gi|315278801|gb|EFU42115.1| sporulation sigma factor SigG [Paenibacillus vortex V453] gi|328942016|gb|EGG38299.1| RNA polymerase sigma-G factor [Paenibacillus sp. HGF5] Length = 260 Score = 57.0 bits (136), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 62/274 (22%), Positives = 131/274 (47%), Gaps = 42/274 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L +++ + SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNVEMRELFHNLQQNNERSAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 75 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRD 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L T+ N + + I++ LNV + +V+ +L+A+ QD + Sbjct: 132 QL---TNANSREPTIFEISEALNVPKEDVVF---------ALDAI-----------QDPV 168 Query: 205 -----VYDHDGQEQVLIEKE--ERKNR------RNMLTRSMSVLNPRERRIFEARRLQEN 251 +Y HDG + + + + + KN+ L +M L RE+ I + R E Sbjct: 169 SLFEPIY-HDGGDPIYVMDQISDDKNKDVSWIEEIALREAMHKLGQREKMIL-SMRFYEG 226 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +E ++ E +S+ +V ++E A K++Q+ ++ Sbjct: 227 KTQME-VADEIGISQAQVSRLEKSAIKQMQKHVK 259 >gi|23978302|dbj|BAC21129.1| principal sigma factor [Oscillatoria agardhii] Length = 188 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 48/198 (24%), Positives = 99/198 (50%), Gaps = 17/198 (8%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +KF+ E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKFEHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I + S+ D++ D + E + + R++ N+L L+PRER + R Sbjct: 117 IGKEE--DSRLGDFIESDGETPEDQVSKNLLREDLENVL----DTLSPRERDVLRLRYGL 170 Query: 250 ENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 171 DDGRMKTLEEIGQIFNVT 188 >gi|297200783|ref|ZP_06918180.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] gi|197712353|gb|EDY56387.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] Length = 297 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 76 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 135 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 136 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQKLDRS---PTVAELASVLGVSEE 189 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 190 DVVDGLAVGNAYTAS--SLDSPAPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 243 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 244 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 294 >gi|110802253|ref|YP_699047.1| sporulation sigma factor SigG [Clostridium perfringens SM101] gi|110682754|gb|ABG86124.1| RNA polymerase sigma-G factor [Clostridium perfringens SM101] Length = 257 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 59/266 (22%), Positives = 129/266 (48%), Gaps = 29/266 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E L + ++GD SA + + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKEKEMKELLLQM-QNGDTSAREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + ++ Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNTIRVSRSL--RDIAYKALLVRD 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + +NN +P V IAK+L + +V+ +L+A+ ++ + + Sbjct: 131 KL--VNENNKEP-TVSQIAKELKIPREDVVF---------ALDAI-----QDPVSLFEPI 173 Query: 205 VYDHDGQEQVLIEKEERKNRRN------MLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 YD V+ + + KN+ + + +M LN RE+ I R N T + Sbjct: 174 YYDGGDAIYVMDQISDSKNQDDSWLENIAIKEAMKKLNDREKLILNLRFF--NGRTQMEV 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESI 284 + E +S+ +V ++E A K +++ + Sbjct: 232 ADEIGISQAQVSRLEKIALKHMRKYV 257 >gi|51894120|ref|YP_076811.1| RNA polymerase sigma factor related to flagellar biosynthesis [Symbiobacterium thermophilum IAM 14863] gi|51857809|dbj|BAD41967.1| RNA polymerase sigma factor related to flagellar biosynthesis [Symbiobacterium thermophilum IAM 14863] Length = 253 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 62/254 (24%), Positives = 118/254 (46%), Gaps = 17/254 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKK 92 L +R+R+ D +A LV +L LV +A G G+P +V G GL++A+ + Sbjct: 6 LWQRWRQSHDTAARDALVQHYLWLVRYVA-GRLMVGMPDHVDQGDVEGHGCFGLLEAIAR 64 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 +DP+RG R T+++ WI+ A E L + +R L R++ L A+ Sbjct: 65 YDPDRGVRFETFAIPWIRGACLE------GLRAMQWAPALRRRVRQLERVRDELMAVLGR 118 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 + +A ++V E+E SL+ + D ++ D V D + + Sbjct: 119 EPSAAE-LAEQMGISVEEAERRLQEAGTLAVLSLDEALAFDDGETTALAD-RVADEEAVD 176 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 L + +R RR +L R+++ L +E+ + A QE + E +S +S+ R+ Q+ Sbjct: 177 PEL--ESQRAERREVLARAIASLTEQEQLVI-ALIYQEGLIAKE-VSEILGLSQARISQV 232 Query: 273 EARAFKKVQESIQK 286 ++A +++ + + Sbjct: 233 HSKAILRLRGKLSR 246 >gi|225574871|ref|ZP_03783481.1| hypothetical protein RUMHYD_02949 [Blautia hydrogenotrophica DSM 10507] gi|225037945|gb|EEG48191.1| hypothetical protein RUMHYD_02949 [Blautia hydrogenotrophica DSM 10507] Length = 230 Score = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 31/83 (37%), Positives = 51/83 (61%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y L K+++E GDL A L+ +LRLV + Y+G + +++S G IGL Sbjct: 29 PLTVEEERYYL-KKFQE-GDLKAKDILIERNLRLVAHVVKKYQGLEEDLDDLISIGTIGL 86 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++AV FD ++ RL+TY+ I Sbjct: 87 IKAVSTFDSKKSNRLSTYAARCI 109 >gi|117928753|ref|YP_873304.1| RNA polymerase sigma factor WhiG [Acidothermus cellulolyticus 11B] gi|117649216|gb|ABK53318.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Acidothermus cellulolyticus 11B] Length = 289 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 62/260 (23%), Positives = 120/260 (46%), Gaps = 26/260 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 +R++E GD RL+ H +VK G G GLP +++VS G GL+ A++KFD Sbjct: 44 RRFKETGDPELRERLIL-HYSPLVKYVAGRVGVGLPPNIEQADLVSYGIFGLIDAIEKFD 102 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +R + TY++ IK A+ + LR+ + + + + R ++ A+ Sbjct: 103 LDRAIKFETYAINRIKGAIIDE-LRAIDWIP-------RSVRYKAREVEKAYAALEHKLH 154 Query: 155 KPEQVVAIAKKLNVSESEV------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + +A +L +S E+ +S +A DE LN + D+ S D L Sbjct: 155 RTPTEAEVAAELGISLDELHAIFSQVSFVNVIALDELLNVGGDRGDRLS--LVDTL---E 209 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D + + +E E + + +L+R+++ L RE+ + + +TL + V+ R Sbjct: 210 DTKAEDPVEAFETEETKYLLSRAINALPEREKIVITLYYYE--GLTLAEIGQVLGVTESR 267 Query: 269 VRQIEARAFKKVQESIQKQV 288 + Q+ +A +++ + +Q Sbjct: 268 ICQMHTKAVLQLRAKLAEQT 287 >gi|251797866|ref|YP_003012597.1| sporulation sigma factor SigG [Paenibacillus sp. JDR-2] gi|247545492|gb|ACT02511.1| RNA polymerase, sigma 28 subunit, SigG [Paenibacillus sp. JDR-2] Length = 260 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 66/280 (23%), Positives = 126/280 (45%), Gaps = 54/280 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L + + +A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNAEMRELFTALQTQNEWAAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 75 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++T+ N + + I++ LNV + +V+ +L+A+ Sbjct: 131 --------DSLTNQNSREPTIFEISEALNVPKEDVVF---------ALDAI--------- 164 Query: 199 QWQDWL-----VYDHDGQEQVLIEKE--ERKNR------RNMLTRSMSVLNPRERRIFEA 245 QD + +Y HDG + + + + + KN+ L +M LN RE+ I + Sbjct: 165 --QDPVSLFEPIY-HDGGDPIYVMDQISDDKNKDVSWIEEIALREAMHKLNDREKMIL-S 220 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R E +E ++ E +S+ +V ++E A +++Q+ ++ Sbjct: 221 MRFFEGKTQME-VADEIGISQAQVSRLEKSAIQQMQKHVK 259 >gi|85706634|ref|ZP_01037726.1| RNA polymerase sigma subunit [Roseovarius sp. 217] gi|85668692|gb|EAQ23561.1| RNA polymerase sigma subunit [Roseovarius sp. 217] Length = 830 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 57/236 (24%), Positives = 106/236 (44%), Gaps = 27/236 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA L+ HL V + A G +V +GL ++ ++FDPERG+R Y+ + Sbjct: 498 SATEHLIREHLPYVRRFASRNVEEGEEPEDVFQVAFMGLQRSTRRFDPERGYRFLIYATY 557 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAK 164 W++ A+ + + ++I N+K +L L RL + A++D +L A+ Sbjct: 558 WMRQAIMRWRADEGAAIRIPVHRNEKVTKLDRALDRLDVRVGGAVSDLDL--------AE 609 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + EV C I + + DW D+ E ++ ++ Sbjct: 610 ELEWAIDEVRQFRC-----------IPRKAEYPASLDDW---DNLLPEPSEVDVLDQAET 655 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFK 278 ++T +++ L R+ + R ++ +TLE + + V+RER+RQIEA+ Sbjct: 656 ERIVTEALADLPERQADVIRMRFGIGHDSEMTLEEIGQIYGVTRERIRQIEAKGLD 711 >gi|297617167|ref|YP_003702326.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297145004|gb|ADI01761.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 258 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 64/258 (24%), Positives = 121/258 (46%), Gaps = 26/258 (10%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAM----GYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 RY++ GD+ A L+ + LV IA + + + E++S G GL+ AV +FDP Sbjct: 12 RYKDEGDIEARDELILHYAGLVKYIAARLFPNLSSHQVELDELISYGIEGLIDAVHRFDP 71 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNL 154 +R + TY++ IK A+ + LR+ + + K L L+ L +A TD + Sbjct: 72 KRKVKFETYALARIKGAIIDG-LRAMDWIPVSLRHKAKELEKAYCLLEHRLGRAATDEEM 130 Query: 155 KPEQVVAIAKKLN----VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 E ++I + N V+ + +I + + GDE DKN ++ D Sbjct: 131 ACELGMSIPEFQNLLKEVNLATIIYLEDLIPGDE--------GDKNKRIAD--VIKDERA 180 Query: 211 QEQV-LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 ++ + LIE EE K +L ++++L +ER + + +TL+ + +S R+ Sbjct: 181 EDGLELIEFEESK---RLLAEAIALLPEKERTVVTLYYYE--GLTLKEIGEVLGLSESRI 235 Query: 270 RQIEARAFKKVQESIQKQ 287 Q+ +A +++ + K+ Sbjct: 236 SQLHTKAILRLRGRLGKK 253 >gi|328883832|emb|CCA57071.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 303 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 82 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 141 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 142 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQKLDRS---PTVTELAAVLGVSEE 195 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 196 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 249 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 250 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 300 >gi|302874716|ref|YP_003843349.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium cellulovorans 743B] gi|307690671|ref|ZP_07633117.1| sporulation sigma factor SigK [Clostridium cellulovorans 743B] gi|302577573|gb|ADL51585.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium cellulovorans 743B] Length = 233 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 41/106 (38%), Positives = 61/106 (57%), Gaps = 5/106 (4%) Query: 6 MSIIVNGEIGLSRYIHEIRKIP--MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 M++IVN + LS YI P + E++E+Y L K + GDL + LV +LRLV Sbjct: 7 MNLIVNMTM-LSGYISNGNSFPKPLEEEEEKYHLQKL--KEGDLLSKSILVERNLRLVAH 63 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 I Y G G E++S G +GL++A+ F+ ++G RLATY+ I Sbjct: 64 IVKKYSGVGKDSDELISIGTVGLIKAIDSFNVDKGTRLATYAARCI 109 >gi|89099505|ref|ZP_01172381.1| sigma factor B [Bacillus sp. NRRL B-14911] gi|89085891|gb|EAR65016.1| sigma factor B [Bacillus sp. NRRL B-14911] Length = 264 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 70/264 (26%), Positives = 130/264 (49%), Gaps = 32/264 (12%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLM 87 K+E L K Y+E+ D A LV ++ LV IA Y R Y I++V G IGL+ Sbjct: 12 KEEINELIKAYQENQDEEAQEILVRNYKALVETIARKYSKGRSYHEDIAQV---GIIGLL 68 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHL 146 A++++D G +++ I ++ ++ ++WS+ +R+ ++K + Sbjct: 69 GAIRRYDETFGKSFEAFAVPTIIGEIKRFLRDKTWSV------HVPRRIKELGPKIKTTV 122 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQW 200 + +T + +V IA ++ VSE EV+ +M L+ D S+ A SD + Sbjct: 123 EELTTQLHRSPRVDEIADEIGVSEEEVLEAMEMGKSYQALSVDHSIEA---DSDGGTVTL 179 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D + +G E+V N+R +L R + VL RE++I + L+ ++ ++ Sbjct: 180 LDIVGNVDEGFEKV--------NQRMVLERVLHVLTDREKQIIQYTYLEN--MSQKDAGD 229 Query: 261 EFEVSRERVRQIEARAFKKVQESI 284 + +S+ V +++ RA KK+QE+I Sbjct: 230 KLGISQMHVSRLQRRAIKKLQEAI 253 >gi|308069872|ref|YP_003871477.1| RNA polymerase sigma-G factor (stage III sporulation protein G) [Paenibacillus polymyxa E681] gi|305859151|gb|ADM70939.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Paenibacillus polymyxa E681] Length = 260 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 65/280 (23%), Positives = 125/280 (44%), Gaps = 54/280 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L +++ + SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNAEMRELFTSLQQNNERSAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 75 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++T+ N + + I++ LNV + +V+ +L+A+ Sbjct: 131 --------DSLTNLNSREPTIFEISEALNVPKEDVVF---------ALDAI--------- 164 Query: 199 QWQDWL-----VYDHDGQEQVLIEKEERKNRRN--------MLTRSMSVLNPRERRIFEA 245 QD + +Y HDG + + + + +R L +M L RE+ I + Sbjct: 165 --QDPVSLFEPIY-HDGGDPIYVMDQISDDRNKDVSWIEEIALREAMHRLGQREKMIL-S 220 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R E +E ++ E +S+ +V ++E A +++Q+ ++ Sbjct: 221 MRFYEGKTQME-VADEIGISQAQVSRLEKSAIQQMQKHVK 259 >gi|197723815|gb|ACH72687.1| RNA polymerase sigma-37 factor [Listeria marthii] Length = 242 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 62/257 (24%), Positives = 123/257 (47%), Gaps = 26/257 (10%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 5 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 64 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 65 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 118 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 119 TRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 175 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + DG E+V N+R +L + + VL+ RE++I + ++ + + + Sbjct: 176 VGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLD 225 Query: 264 VSRERVRQIEARAFKKV 280 +S+ V +I+ +A KK+ Sbjct: 226 ISQMHVSRIQRQAIKKL 242 >gi|307328850|ref|ZP_07608020.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306885515|gb|EFN16531.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 276 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 55 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 114 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 115 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELSQRLDRS---PTVPELATALGVSEE 168 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 169 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDSALEGV----EYRESLKPL 222 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 223 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 273 >gi|158320420|ref|YP_001512927.1| sporulation sigma factor SigE [Alkaliphilus oremlandii OhILAs] gi|158140619|gb|ABW18931.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus oremlandii OhILAs] Length = 244 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 3/95 (3%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 P L EE +L + + D S L+ +LRLVV IA + G+ I +++S G IG Sbjct: 42 PPLSNDEENLLISKLK--SDESTVRTILIERNLRLVVYIARKFENTGIGIEDLISIGTIG 99 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 L++AV F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 100 LIKAVNTFNPEKNIKLATYASRCIENEILMYLRRN 134 >gi|158320421|ref|YP_001512928.1| sporulation sigma factor SigG [Alkaliphilus oremlandii OhILAs] gi|158140620|gb|ABW18932.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus oremlandii OhILAs] Length = 257 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 66/266 (24%), Positives = 124/266 (46%), Gaps = 29/266 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L+ + VL R + GD SA + +LRLV+ + + G + ++ G I Sbjct: 15 ELPVLKNSQMRVLFDRIHK-GDNSAREEFIQGNLRLVLSVIQRFNNRGEHVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD R +TY++ I ++ Y LR + +++ + + L+ Sbjct: 74 GLIKAIDNFDLSHNVRFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDTA----YKALQV 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD-- 202 Q I N+ +P + IA++LN+ +V+ +L+A+ + +QD Sbjct: 129 REQLINKNSKEP-TIAQIAEELNLPREDVVF---------ALDAIQDPVSLFEPIYQDSG 178 Query: 203 --WLVYDHDGQEQVLIEKEERKNRRN--MLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 V D QV EK E + + L +M LN RE+ I + R E +E + Sbjct: 179 DAIFVMD-----QVCDEKSEDECWIDGIALREAMRKLNSREKHIL-SLRFFEGRTQME-V 231 Query: 259 SSEFEVSRERVRQIEARAFKKVQESI 284 + E +S+ +V ++E A K +++ I Sbjct: 232 ADEIGISQAQVSRLEKTALKHMRKYI 257 >gi|258511987|ref|YP_003185421.1| RNA polymerase, sigma 28 subunit, SigK [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478713|gb|ACV59032.1| RNA polymerase, sigma 28 subunit, SigK [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 239 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 27/73 (36%), Positives = 46/73 (63%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +RL+ +LRLV +A Y G + +++S G IGL++AV+ + P++G +LATY Sbjct: 46 GDADARNRLIEHNLRLVAHLAKKYESSGEEMDDLISIGTIGLIKAVESYRPDKGTKLATY 105 Query: 105 SMWWIKAAMQEYI 117 + I+ + Y+ Sbjct: 106 AARCIENEILMYL 118 >gi|225175484|ref|ZP_03729478.1| RNA polymerase, sigma 28 subunit, SigG [Dethiobacter alkaliphilus AHT 1] gi|225168813|gb|EEG77613.1| RNA polymerase, sigma 28 subunit, SigG [Dethiobacter alkaliphilus AHT 1] Length = 277 Score = 56.6 bits (135), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 65/273 (23%), Positives = 129/273 (47%), Gaps = 41/273 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ E L R RE GD SA +LV +LRLV+ + + G + ++ G I Sbjct: 34 KLPVLKNDEMRRLFARLRE-GDESAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 92 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 93 GLIKAIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRS---------LRDIAY 142 Query: 145 HLQAITD---NNLKPEQVVA-IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 + + D N E ++ IAK+LN+ +++ +L+A+ + S + Sbjct: 143 KVLQVRDSLANRFAREPTISEIAKELNLKREDIVF---------ALDAI----QEPVSLF 189 Query: 201 QDWLVYDHDGQEQVLIEKE--ERKNRRN------MLTRSMSVLNPRERRIFEARRLQENP 252 + +Y HDG + + + + + KN N + ++ LN RE+ I R + Sbjct: 190 EP--IY-HDGGDPIFVMDQISDDKNHDNKWLEVLAINEALHKLNEREKLILTLRFYRGK- 245 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T ++ E +S+ +V ++E A +++ +Q Sbjct: 246 -TQMEVADEIGISQAQVSRLEKAALSHLRKHVQ 277 >gi|302389526|ref|YP_003825347.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermosediminibacter oceani DSM 16646] gi|302200154|gb|ADL07724.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermosediminibacter oceani DSM 16646] Length = 257 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 67/273 (24%), Positives = 127/273 (46%), Gaps = 47/273 (17%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + L R ++ GD A +L+ +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLSNSKMKELFLRVKQ-GDKEAREKLIHGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 74 GLMKAIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 129 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++ + N + + IAK++N+ E++ +L+A+ + S Sbjct: 130 --------DSLVNKNSREPSIEEIAKEMNIPSEEIVM---------ALDAI----QEPIS 168 Query: 199 QWQDWLVYDHDGQEQVLIEK---EERKNRRNMLTRSMSV------LNPRERRIFEARRLQ 249 ++ +Y HDG + + + +++ N N L RS+S+ LN RE+ I R Sbjct: 169 LFEP--IY-HDGGDPIFVMDQISDDKNNDENWL-RSISIKEAMQKLNEREKLILTLRFF- 223 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 E +E ++ E +S+ +V ++E A K +++ Sbjct: 224 EGKTQME-VAQEIGISQAQVSRLEKAALKHLKK 255 >gi|319654668|ref|ZP_08008747.1| sigma factor B [Bacillus sp. 2_A_57_CT2] gi|317393584|gb|EFV74343.1| sigma factor B [Bacillus sp. 2_A_57_CT2] Length = 264 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 69/268 (25%), Positives = 127/268 (47%), Gaps = 32/268 (11%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLM 87 K+E L K Y+ H D A + LV + LV IA Y R Y I +V G IGL+ Sbjct: 12 KEETNALIKAYQLHQDEDAQNTLVLQYQNLVEAIARKYSKGRSYHEDIVQV---GIIGLL 68 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHL 146 A++++D G +++ I ++ ++ ++WS+ +R+ ++K + Sbjct: 69 GAIRRYDESFGKTFEAFAVPTIIGEIKRFLRDKTWSV------HVPRRIKELGPKIKATV 122 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQW 200 + +T + +V IA L VSE EV+ +M L+ D S+ A SD + Sbjct: 123 EELTTELHRSPRVDEIADVLGVSEEEVLEAMEMGKSYQALSVDHSIEA---DSDGGTVTL 179 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D + + +G E+V N+ +L + + VL+ RE+ I + L+ ++ + Sbjct: 180 LDIVGNEDEGYEKV--------NQMLVLDKVLHVLSEREKLIIQYTYLEN--MSQKEAGD 229 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQV 288 + +S+ V +++ RA KK+QE+I + Sbjct: 230 KLGISQMHVSRLQRRAIKKLQEAIHSET 257 >gi|110799379|ref|YP_696447.1| sporulation sigma factor SigG [Clostridium perfringens ATCC 13124] gi|168207288|ref|ZP_02633293.1| RNA polymerase sigma-G factor [Clostridium perfringens E str. JGS1987] gi|168210606|ref|ZP_02636231.1| RNA polymerase sigma-G factor [Clostridium perfringens B str. ATCC 3626] gi|168214238|ref|ZP_02639863.1| RNA polymerase sigma-G factor [Clostridium perfringens CPE str. F4969] gi|168217048|ref|ZP_02642673.1| RNA polymerase sigma-G factor [Clostridium perfringens NCTC 8239] gi|169342669|ref|ZP_02863710.1| RNA polymerase sigma-G factor [Clostridium perfringens C str. JGS1495] gi|182625828|ref|ZP_02953594.1| RNA polymerase sigma-G factor [Clostridium perfringens D str. JGS1721] gi|110674026|gb|ABG83013.1| RNA polymerase sigma-G factor [Clostridium perfringens ATCC 13124] gi|169299175|gb|EDS81245.1| RNA polymerase sigma-G factor [Clostridium perfringens C str. JGS1495] gi|170661342|gb|EDT14025.1| RNA polymerase sigma-G factor [Clostridium perfringens E str. JGS1987] gi|170711289|gb|EDT23471.1| RNA polymerase sigma-G factor [Clostridium perfringens B str. ATCC 3626] gi|170714329|gb|EDT26511.1| RNA polymerase sigma-G factor [Clostridium perfringens CPE str. F4969] gi|177908862|gb|EDT71354.1| RNA polymerase sigma-G factor [Clostridium perfringens D str. JGS1721] gi|182380954|gb|EDT78433.1| RNA polymerase sigma-G factor [Clostridium perfringens NCTC 8239] Length = 257 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 62/273 (22%), Positives = 132/273 (48%), Gaps = 43/273 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E L + ++GD SA + + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKEKEMKELLLQM-QNGDTSAREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + ++ Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNTIRVSRSL--RDIAYKALLVRD 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + +NN +P V IAK+L + +V+ +L+A+ QD + Sbjct: 131 KL--VNENNKEP-TVSQIAKELKIPREDVVF---------ALDAI-----------QDPV 167 Query: 205 -----VYDHDGQEQVLIEKE--ERKNRRN------MLTRSMSVLNPRERRIFEARRLQEN 251 +Y HDG + + + + + KN+ + + +M LN RE+ I R N Sbjct: 168 SLFEPIY-HDGGDAIYVMDQISDSKNQDDSWLENIAIKEAMKKLNDREKLILNLRFF--N 224 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A K +++ + Sbjct: 225 GRTQMEVADEIGISQAQVSRLEKIALKHMRKYV 257 >gi|158320823|ref|YP_001513330.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus oremlandii OhILAs] gi|158141022|gb|ABW19334.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus oremlandii OhILAs] Length = 256 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 54/244 (22%), Positives = 113/244 (46%), Gaps = 15/244 (6%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + G++ A LV +L LV + + G ++ G IGL++A+KKFD R + Sbjct: 27 QSGNMEAQEILVNHNLGLVRSVIRRFANRGYEREDLFQLGCIGLIKAIKKFDTSFDVRFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ + LR ++K+ + Q R+K + + N + + I Sbjct: 87 TYAVPMIIGEIKRF-LRDDGIIKVSRSLKQ-----TAARVKMTKEKLQKENGREPTLQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A + ++ E++ A E L +I+ D + D + + ++ +I+ Sbjct: 141 ADDMGATKEEIVMALDSSASPEYLYDVIHQDDGSPIHLIDKISENDTLEDSEVID----- 195 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R +L ++S L PRER+I R ++ T ++ +S+ +V +IE + + +++ Sbjct: 196 --RIVLQEAISKLEPRERQIIFLRYFKDQTQT--QIAQVLGISQVQVSRIEKKVLQNMKD 251 Query: 283 SIQK 286 ++K Sbjct: 252 IMKK 255 >gi|320101986|ref|YP_004177577.1| RNA polymerase sigma-32 subunit RpoH [Isosphaera pallida ATCC 43644] gi|319749268|gb|ADV61028.1| RNA polymerase, sigma 32 subunit, RpoH [Isosphaera pallida ATCC 43644] Length = 565 Score = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 35/124 (28%), Positives = 65/124 (52%), Gaps = 29/124 (23%) Query: 15 GLSRYIHEIRKIPMLEKQEEY----------VLAKRYREHGD------------------ 46 GL Y+ + ++P+L +++E LA++ R+ D Sbjct: 325 GLPPYLASLYEVPLLSREQETHLFRKMNFLKYLAQKLRDQVDPARARAGDLDQIEALQEE 384 Query: 47 -LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 L+ +++++++LRLVV IA + G ++VS+GN+ L++AV+KFD RG + +TY+ Sbjct: 385 ALAVKNQIISANLRLVVSIAKRHVGPSNNFFDLVSDGNMSLIRAVEKFDFARGNKFSTYA 444 Query: 106 MWWI 109 W I Sbjct: 445 SWAI 448 Score = 40.0 bits (92), Expect = 0.41, Method: Compositional matrix adjust. Identities = 29/76 (38%), Positives = 46/76 (60%), Gaps = 5/76 (6%) Query: 217 EKEERKNRRNM---LTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQ 271 E E+ N+R M + +S L PRE++I +R +TLE L E +++ERVRQ Sbjct: 484 EHEQESNQRRMREGVNGMLSKLEPREQKIIVSRFGINGAKEMTLEQLGKELGITKERVRQ 543 Query: 272 IEARAFKKVQESIQKQ 287 IEARA +K+++ Q++ Sbjct: 544 IEARAQQKLRKIAQEE 559 >gi|256005472|ref|ZP_05430434.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium thermocellum DSM 2360] gi|255990527|gb|EEU00647.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium thermocellum DSM 2360] Length = 252 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 50/251 (19%), Positives = 121/251 (48%), Gaps = 17/251 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y+E + +++V+ +L L +A + G+ ++ +I L++AV++FDP+ Sbjct: 18 LFREYKETKSVEVRNKIVSKYLYLSDILAKKFLNRGIDYEDIYQVVSIALIKAVERFDPD 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G + +++ I ++ Y S+++I +R++ +++ +++T +P Sbjct: 78 KGVKFISFATPTIIGEIKRYFRDKGSVIRIP-----RRIYEVYQKINHARESLTQELKRP 132 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVL 215 ++ +A+ LN+SE V+ + ES NA I S +N + +++ G + Sbjct: 133 PRIDELARHLNISEESVVEII------ESYNAYNIQSFSQNVYANDELELHEVIGDQDST 186 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 E+ E R+ L +S+ + E+ R T ++++ + VS+ + ++E + Sbjct: 187 FERIE---NRDFLEKSLDKFSDVEKEFISMRYFDNK--TQKDIAQKMGVSQMYISRLERK 241 Query: 276 AFKKVQESIQK 286 +K + + K Sbjct: 242 VLEKFRRMLAK 252 >gi|297193425|ref|ZP_06910823.1| sigma L [Streptomyces pristinaespiralis ATCC 25486] gi|197723192|gb|EDY67100.1| sigma L [Streptomyces pristinaespiralis ATCC 25486] Length = 304 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 83 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 142 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 143 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQKLDRS---PTVPELAAVLGVSEE 196 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 197 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDSALEGV----EYRESLKPL 250 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 251 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 301 >gi|326390169|ref|ZP_08211730.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacter ethanolicus JW 200] gi|325993817|gb|EGD52248.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacter ethanolicus JW 200] Length = 231 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 30/80 (37%), Positives = 48/80 (60%), Gaps = 3/80 (3%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E++++Y+ A R +GD A + L+ +LRLV + Y G G I +++S G IGL++A Sbjct: 35 EEEKKYLEAYR---NGDEEARNILIERNLRLVAHVVKKYSGTGKDIDDLISIGTIGLIKA 91 Query: 90 VKKFDPERGFRLATYSMWWI 109 + FD +G LATY+ I Sbjct: 92 ISTFDSSKGTHLATYAARCI 111 >gi|167040197|ref|YP_001663182.1| FliA/WhiG family RNA polymerase sigma factor [Thermoanaerobacter sp. X514] gi|300914281|ref|ZP_07131597.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter sp. X561] gi|307265137|ref|ZP_07546696.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter wiegelii Rt8.B1] gi|307724483|ref|YP_003904234.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter sp. X513] gi|326391064|ref|ZP_08212611.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus JW 200] gi|166854437|gb|ABY92846.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter sp. X514] gi|300889216|gb|EFK84362.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter sp. X561] gi|306919759|gb|EFN49974.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter wiegelii Rt8.B1] gi|307581544|gb|ADN54943.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X513] gi|325992849|gb|EGD51294.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus JW 200] Length = 246 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 61/259 (23%), Positives = 122/259 (47%), Gaps = 20/259 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 EK +E + R + D + +L+ + L+ I + G + ++ G IG ++ Sbjct: 6 FEKSDENLELIRAAQKNDKESLEKLILENSGLIWSIVKKFSNRGYELEDLYQIGCIGFVK 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++KFD +L+TY++ I ++ + LR L+K+ + + L +++ Sbjct: 66 AIQKFDESYNVKLSTYAVPIIMGEIKRF-LRDDGLIKVSRSLKE------LSTKAFYVKE 118 Query: 149 ITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 I N L E + IA++LNVS E+ A ESL D + D L+ + Sbjct: 119 ILSNELNREPTINEIAERLNVSPEEIAMAFESAATAESL------YDNATHDEDDRLLIE 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 +E EKE + + L ++ L PRE++I R ++ +T ++S +S+ Sbjct: 173 MVSEE----EKEVDIDDKLALQMVINKLKPREKQIIFLRYFKD--MTQMEVASVLGISQV 226 Query: 268 RVRQIEARAFKKVQESIQK 286 +V +IE + +K+++ +++ Sbjct: 227 QVSRIEKKVLQKLRKELEE 245 >gi|23098085|ref|NP_691551.1| RNA polymerase sigma factor SigB [Oceanobacillus iheyensis HTE831] gi|22776310|dbj|BAC12586.1| RNA polymerase general stress sigma factor (sigma B) [Oceanobacillus iheyensis HTE831] Length = 263 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 62/243 (25%), Positives = 114/243 (46%), Gaps = 26/243 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++V + LV IA Y ++V G IGL+ AV+++DP G ++++ I Sbjct: 34 KIVLKYQDLVGSIARKYSKNSAIHEDLVQVGMIGLLAAVRRYDPTYGKSFESFAIPTIIG 93 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ +I ++WS + K L +R KG + TDN P V IAK + SE Sbjct: 94 EIKRFIRDKTWS---VHVPRRIKELGPKIR--KGVDELTTDNQKSP-TVAEIAKYIGTSE 147 Query: 171 SEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ +M L+ D + A SD ++ D + DG + V + Sbjct: 148 EEVLETMEMGQSYKALSVDRKIEA---DSDGSTVAILDLVGNSEDGYDNV--------EQ 196 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R ML + + +L+ RE++I E + ++ + +S+ V +++ R+ +K++E+I Sbjct: 197 RMMLEKILPILSEREQQILECTYFKN--MSQKETGELLGISQMHVSRLQRRSLRKLREAI 254 Query: 285 QKQ 287 Q + Sbjct: 255 QSE 257 >gi|166031221|ref|ZP_02234050.1| hypothetical protein DORFOR_00908 [Dorea formicigenerans ATCC 27755] gi|166029068|gb|EDR47825.1| hypothetical protein DORFOR_00908 [Dorea formicigenerans ATCC 27755] Length = 227 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 33/85 (38%), Positives = 50/85 (58%), Gaps = 2/85 (2%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ +E+Y L K Y E GDL+A H L+ +LRLV I Y+ +++S G IG Sbjct: 28 LPLTASEEQYYLQK-YIE-GDLNAKHILIEHNLRLVAHIVKKYQANVEEAEDLLSIGTIG 85 Query: 86 LMQAVKKFDPERGFRLATYSMWWIK 110 L++AV F+P + RL TY+ I+ Sbjct: 86 LIKAVVTFNPGKNVRLGTYAARCIE 110 >gi|312877562|ref|ZP_07737521.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311795637|gb|EFR12007.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 240 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 59/243 (24%), Positives = 111/243 (45%), Gaps = 24/243 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +L+ S+L LV + + G+ + ++ G IGL++AV +F P R + Sbjct: 14 KNGDKLARQQLIESNLALVWSVVKKFAAKGVELDDLFQIGCIGLIKAVDRFAPSFNLRFS 73 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG--TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY++ I ++ Y LR +K+ NQ + +++L+ Q ++ N +P + Sbjct: 74 TYAVPMIIGEIKRY-LRDDGKIKVSRKIKENQSK----IKKLRN--QFVSSNGREP-TIS 125 Query: 161 AIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I++ +S E++ C A E SLN ++N + D + D ++L Sbjct: 126 EISQLTGLSSDEILL--CMDASSEVASLNEVVNQEEGKPITLMDIASDEEDYSTKLL--- 180 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L + L RER I R + T ++ E +S+ V +IE RA + Sbjct: 181 -----DLMALKEGLKKLKGRERYIIFMRYFKNK--TQSEIAKELNISQVHVSRIEKRALE 233 Query: 279 KVQ 281 +++ Sbjct: 234 RIK 236 >gi|291543210|emb|CBL16319.1| RNA polymerase, sigma 29 subunit, SigE [Ruminococcus sp. 18P13] Length = 232 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 31/79 (39%), Positives = 44/79 (55%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+ E R SA L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 30 PPLSKEAEAEAFARLGTGDAESARQTLIVHNLRLVVYIAKKFESTGIGIEDLISIGTIGL 89 Query: 87 MQAVKKFDPERGFRLATYS 105 ++AV F PE+ +LATY+ Sbjct: 90 IKAVNTFCPEKNIKLATYA 108 >gi|218132856|ref|ZP_03461660.1| hypothetical protein BACPEC_00717 [Bacteroides pectinophilus ATCC 43243] gi|217991729|gb|EEC57733.1| hypothetical protein BACPEC_00717 [Bacteroides pectinophilus ATCC 43243] Length = 205 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 31/81 (38%), Positives = 46/81 (56%), Gaps = 1/81 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE + K+ RE GDL A ++L+ ++RLV I Y +++S G IGL++ Sbjct: 15 LSSEEEKIYLKKCRE-GDLEARNKLIEKNMRLVAHIVKKYACADRDTEDLLSVGTIGLIK 73 Query: 89 AVKKFDPERGFRLATYSMWWI 109 AV FD + RLATY+ I Sbjct: 74 AVNTFDMNKSIRLATYAAKCI 94 >gi|93007303|gb|ABE97152.1| Sigma-70 [Pasteuria ramosa] Length = 241 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 28/68 (41%), Positives = 44/68 (64%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLVV IA + G+ I ++VS G IGL++AV FDPE+ +LATY+ I+ Sbjct: 64 LIERNLRLVVYIARKFENTGIHIEDLVSTGTIGLIKAVNTFDPEKKIKLATYASRCIENE 123 Query: 113 MQEYILRS 120 + ++ R+ Sbjct: 124 ILMFLRRN 131 >gi|302544114|ref|ZP_07296456.1| RNA polymerase sigma-F factor [Streptomyces hygroscopicus ATCC 53653] gi|302461732|gb|EFL24825.1| RNA polymerase sigma-F factor [Streptomyces himastatinicus ATCC 53653] Length = 293 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 61/237 (25%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 72 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 131 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 132 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQTLD---RSPTVTELATALGVSEE 185 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ + D L Y+ E V E R++ + + Sbjct: 186 DVVDGLAVGNAYTA--SSLDSPSPEDEGGEGSLADRLGYEDSALEGV----EYRESLKPL 239 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 240 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 290 >gi|28211312|ref|NP_782256.1| RNA polymerase sigma factor for flagellar operon fliA [Clostridium tetani E88] gi|28203752|gb|AAO36193.1| RNA polymerase sigma factor for flagellar operon fliA [Clostridium tetani E88] Length = 242 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 62/240 (25%), Positives = 114/240 (47%), Gaps = 21/240 (8%) Query: 53 LVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 LV ++ LV IA +G Y + ++V G +GLM A++KFDP +G + +TY+ Sbjct: 13 LVKKYIPLVKYIASRVIIGKTKY-IDYDDLVGYGMLGLMDAMQKFDPSKGMKFSTYASIR 71 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ +M + + R + I +A K L R ++ + N K ++ +AK+L++ Sbjct: 72 IRGSMIDELRR---ISPISKSAMDK-----LNRYNEAVEKLQMKNFKEPKLEEVAKELDM 123 Query: 169 SESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 S EV I SL I S +++ S + + E++L EKE Sbjct: 124 SLKEVAQIENYINYISIVSLEDFIFSDEEDMSLMATVVDKNSPSPEKILEEKE----LIE 179 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ++++ L R+R + + +TL+ + +VS RV Q+ +RA ++ ++K Sbjct: 180 YLEKAINKLKERDRIVLSLYYYER--LTLKEIGKVLDVSESRVCQLHSRAIVHLRSELKK 237 >gi|18310743|ref|NP_562677.1| sporulation sigma factor SigG [Clostridium perfringens str. 13] gi|18145424|dbj|BAB81467.1| probable transcription initiation factor sigma G [Clostridium perfringens str. 13] Length = 270 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 62/273 (22%), Positives = 132/273 (48%), Gaps = 43/273 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E L + ++GD SA + + +LRLV+ + + G + ++ G I Sbjct: 28 KLPVLKEKEMKELLLQM-QNGDTSAREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCI 86 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + ++ Sbjct: 87 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNTIRVSRSL--RDIAYKALLVRD 143 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + +NN +P V IAK+L + +V+ +L+A+ QD + Sbjct: 144 KL--VNENNKEP-TVSQIAKELKIPREDVVF---------ALDAI-----------QDPV 180 Query: 205 -----VYDHDGQEQVLIEKE--ERKNRRN------MLTRSMSVLNPRERRIFEARRLQEN 251 +Y HDG + + + + + KN+ + + +M LN RE+ I R N Sbjct: 181 SLFEPIY-HDGGDAIYVMDQISDSKNQDDSWLENIAIKEAMKKLNDREKLILNLRFF--N 237 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A K +++ + Sbjct: 238 GRTQMEVADEIGISQAQVSRLEKIALKHMRKYV 270 >gi|294501013|ref|YP_003564713.1| RNA polymerase sigma-G factor [Bacillus megaterium QM B1551] gi|295706362|ref|YP_003599437.1| RNA polymerase sigma-G factor [Bacillus megaterium DSM 319] gi|294350950|gb|ADE71279.1| RNA polymerase sigma-G factor [Bacillus megaterium QM B1551] gi|294804021|gb|ADF41087.1| RNA polymerase sigma-G factor [Bacillus megaterium DSM 319] Length = 259 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 63/261 (24%), Positives = 123/261 (47%), Gaps = 17/261 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L K+ + GD +A +LV+ +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFKQM-QAGDGTAREKLVSGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + T E+ I+K L V E++ + SL I + + D L Sbjct: 131 RLMSETSKEPTAEE---ISKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQL 187 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D ++ IE+ L M LN RE+ I R Q T ++ E + Sbjct: 188 -SDERNRDSTWIEE-------IALQEGMRRLNEREKLILRKRFFQGK--TQMEVAEEIGI 237 Query: 265 SRERVRQIEARAFKKVQESIQ 285 S+ +V ++E A K++ ++IQ Sbjct: 238 SQAQVSRLEKAAIKQMNKNIQ 258 >gi|218669755|gb|ACL00354.1| Bcp26 [Bacillus phage Bcp1] Length = 256 Score = 56.2 bits (134), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 53/185 (28%), Positives = 88/185 (47%), Gaps = 18/185 (9%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 +L K+E Y L +R + G+ A LV + RLV + ++ G IGL+ Sbjct: 16 VLTKEETYELIER-SQAGEEEATESLVEHNARLVTYVVRRKNNPYHEYDDLFQLGMIGLI 74 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK----IGTTANQKRLFFNLRRLK 143 A+ KFD +G + +TY++ WI A + Y+ S++K IG N+ +LK Sbjct: 75 TAIAKFDTSKGLQFSTYAVRWIDAEIGNYLKNRTSILKVPREIGAIVNKILAV----KLK 130 Query: 144 GHLQAITDNNLKPE--QVVAIAKKLNVSESEVISMNCRLA--GDESLNALINSSDKNSSQ 199 AI LK + Q+ + L + +EVIS++ + D+SL++++ D N Sbjct: 131 NEEPAIIMEKLKLDASQLDNVTIALEIIHNEVISLDKQTGEEKDDSLSSIV-GQDVN--- 186 Query: 200 WQDWL 204 QDW Sbjct: 187 -QDWF 190 >gi|160915288|ref|ZP_02077501.1| hypothetical protein EUBDOL_01297 [Eubacterium dolichum DSM 3991] gi|158433087|gb|EDP11376.1| hypothetical protein EUBDOL_01297 [Eubacterium dolichum DSM 3991] Length = 239 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 74/284 (26%), Positives = 115/284 (40%), Gaps = 70/284 (24%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEE--YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 I++ +G Y+H L+K+ E Y+ A G+ +A +L+ +LRLV I Sbjct: 10 ILSNALGYVGYVHNNTFAQPLDKESETKYIAA---LAKGNQTARDKLIEHNLRLVAHIVK 66 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 Y +++S G IGL++AV F PE+G +L TY+ I+ + Y Sbjct: 67 KYDFKKEATEDLISIGTIGLIKAVDSFKPEKGHKLTTYASKCIENEILMY---------- 116 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 LR K + Q NVS +E I+ + D S Sbjct: 117 ------------LRSSKNYFQ-------------------NVSLNEPIATD----KDGSE 141 Query: 187 NALIN--SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LI+ +S ++S D LV D+ I K L + M VL+ RE I Sbjct: 142 IMLIDAIASPCDTSIIDDMLVADN-------IVK---------LKQYMHVLDARELEIIT 185 Query: 245 AR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R + T ++ + +SR V +IE RAF K+ +K Sbjct: 186 KRFGLFGQKEATQREIAKQLHISRSYVSRIEKRAFMKLYREFKK 229 >gi|167759902|ref|ZP_02432029.1| hypothetical protein CLOSCI_02266 [Clostridium scindens ATCC 35704] gi|167662521|gb|EDS06651.1| hypothetical protein CLOSCI_02266 [Clostridium scindens ATCC 35704] Length = 237 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 60/241 (24%), Positives = 111/241 (46%), Gaps = 18/241 (7%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A RLV + LV I + G+ ++ GNIGL++A+ KFD + +TY Sbjct: 14 GDEEARARLVEENAGLVWCIVKRFYNRGVEAEDLFQVGNIGLLKAIDKFDMSYDVKFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR ++K+ + K L + + LQ + + + IA+ Sbjct: 74 AVPMISGEIKRF-LRDDGMIKVSRSL--KELAYKAYLCQERLQ---EQWGRDPTITEIAE 127 Query: 165 KLNVSESEVISMNCRLAGD-ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 LNV E E ++M +GD ESL+ I + + D L G++++L Sbjct: 128 SLNV-EREELTMALDASGDIESLHKPIYQKEGQEIRLMDKLPEKEGGEDKIL-------- 178 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +L + ++ L+ ER++ R T + E +S+ +V ++E + K ++E Sbjct: 179 NHMLLQQLLNYLDKDERQLIYLRYFANQTQT--QVGRELGISQVQVSRMEKKILKNLRER 236 Query: 284 I 284 I Sbjct: 237 I 237 >gi|330468593|ref|YP_004406336.1| RNA polymerase sigma-70 factor [Verrucosispora maris AB-18-032] gi|328811564|gb|AEB45736.1| RNA polymerase sigma-70 factor [Verrucosispora maris AB-18-032] Length = 292 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 64/249 (25%), Positives = 117/249 (46%), Gaps = 27/249 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L ++A YRG G P+ ++ +GL+ AV ++DPERG A ++ + Sbjct: 46 LVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERGSFTAYAAITIVGEI 105 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + R+W V + +RL + + A+T + V ++K+L+ E E Sbjct: 106 KRHFRDRTWG-VHV-----PRRLRDLILEVGQATAALTSELSRAPTVAELSKRLDTPEEE 159 Query: 173 VISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-EERKNRRNMLT 229 +++ AG SLNA + ++S+++ D + G+ + +E ++R +L Sbjct: 160 ILAALESAAGYSPASLNAPVGG--ESSAEFGDLV-----GESDIALESVDDRVTVSGLLH 212 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 R L RERRI A R N E +++ F +S+ V ++ +RA + +Q Sbjct: 213 R----LPWRERRIL-AMRFYGNQTQAE-IAARFGISQMHVSRLLSRALTWL-----RQAM 261 Query: 290 LSSSPPLLQ 298 L+ +PP Q Sbjct: 262 LADAPPPWQ 270 >gi|327441149|dbj|BAK17514.1| DNA-directed RNA polymerase specialized sigma subunit [Solibacillus silvestris StLB046] Length = 236 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 53/203 (26%), Positives = 85/203 (41%), Gaps = 60/203 (29%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GDL A L+ +LRLVV IA + PI +++S G+IGL++A++ F+ ++ +LAT Sbjct: 49 NGDLHARDMLIERNLRLVVYIARRFDNTSTPIEDLISIGSIGLIKAIETFNLDKNIKLAT 108 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ I+ + + LR S R+KG Sbjct: 109 YASRCIENEILMH-LRKTS------------------RMKG------------------- 130 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++ DE LNA +D N D L +E ++ ERK Sbjct: 131 ---------------EVSFDEPLNA---DADGNELLLSDIL----GTEEHIITLDVERKI 168 Query: 224 RRNMLTRSMSVLNPRERRIFEAR 246 R + +++ L PRE+ I E R Sbjct: 169 ERQHMFNAINQLTPREKYIMECR 191 >gi|317132579|ref|YP_004091893.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] gi|315470558|gb|ADU27162.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] Length = 256 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 56/260 (21%), Positives = 125/260 (48%), Gaps = 24/260 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L + ++ L KR ++ GDL+A L++ +LRLV+ + + G + ++ G I Sbjct: 15 KLKVLTESQKTALLKRVKQ-GDLAAREELISGNLRLVLSVIQRFTNRGENLDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + R +TY++ I ++ Y LR + +++ + + + + + K Sbjct: 74 GLMKSIDNFDISQNVRFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKAMQCKE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + N + + +AK++++ + E++ + SL + S ++ D + Sbjct: 131 RLM---NANQREPTIEEMAKEMDMPKEEIVMALESVVEPVSLYEPVYSDGGDTIYVMDQI 187 Query: 205 ---VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D D +++ L ++ L+ RE+RI R + + T ++SE Sbjct: 188 GDKTVDSDWLDEI------------TLKEAVGALSEREKRILYLRFFEGH--TQMEVASE 233 Query: 262 FEVSRERVRQIEARAFKKVQ 281 +S+ +V ++E A K++ Sbjct: 234 IGISQAQVSRLEKGALSKIK 253 >gi|284043529|ref|YP_003393869.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] gi|283947750|gb|ADB50494.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] Length = 261 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 28/88 (31%), Positives = 50/88 (56%), Gaps = 1/88 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L +RYRE GD R + S + LV K+A Y P+ ++V +GL++A+ +FDP+ Sbjct: 29 LIRRYRETGDPRCRTRAIESFMPLVHKLARRYHPGPEPLDDLVQVACVGLVKAIDRFDPD 88 Query: 97 RGFRLATYSMWWIKAAMQEYIL-RSWSL 123 G R A++++ I ++ + +WS+ Sbjct: 89 AGPRFASFAIPTITGELRRHFRDTTWSV 116 >gi|312876365|ref|ZP_07736350.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311796859|gb|EFR13203.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 255 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 51/205 (24%), Positives = 100/205 (48%), Gaps = 8/205 (3%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E+ L KR +E GD A + +LRLV+ + + G + ++ G IG Sbjct: 14 LPVLSHEEKLELLKRMKE-GDKEARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD + + +TY++ I ++ Y LR + ++I + K + ++K Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSMRISRSL--KDTAYKALKIK-- 127 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + NN K + IAK+L++++ E++ + SL + D + + + Sbjct: 128 -EKYISNNQKEPTLEEIAKELSITKEELVFTLDSIQEPISLYEPV-FQDSTDTMYVVEKL 185 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTR 230 YDH E V +E+ K+ + LT+ Sbjct: 186 YDHKSSENVWLEEISLKDALSRLTK 210 >gi|310642978|ref|YP_003947736.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309247928|gb|ADO57495.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 260 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 65/280 (23%), Positives = 125/280 (44%), Gaps = 54/280 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L +++ + SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNAEMRELFTSLQQNNERSAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 75 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++T+ N + + I++ LNV + +V+ +L+A+ Sbjct: 131 --------DSLTNLNSREPTIFEISEVLNVPKEDVVF---------ALDAI--------- 164 Query: 199 QWQDWL-----VYDHDGQEQVLIEKEERKNRRN--------MLTRSMSVLNPRERRIFEA 245 QD + +Y HDG + + + + +R L +M L RE+ I + Sbjct: 165 --QDPVSLFEPIY-HDGGDPIYVMDQISDDRNKDVSWIEEIALREAMHRLGQREKMIL-S 220 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R E +E ++ E +S+ +V ++E A +++Q+ ++ Sbjct: 221 MRFYEGKTQME-VADEIGISQAQVSRLEKSAIQQMQKHVK 259 >gi|119384818|ref|YP_915874.1| RNA polymerase, sigma 32 subunit, RpoH [Paracoccus denitrificans PD1222] gi|119374585|gb|ABL70178.1| RNA polymerase, sigma 32 subunit, RpoH [Paracoccus denitrificans PD1222] Length = 728 Score = 56.2 bits (134), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 60/248 (24%), Positives = 112/248 (45%), Gaps = 33/248 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA L+ HL V + A G +V +GL ++ ++FDPERG+R Y+ + Sbjct: 498 SATEHLIREHLPYVRRFASRNVEEGEDPEDVFQVAFMGLQRSTRRFDPERGYRFLIYATY 557 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAK 164 W++ A+ + + ++I N+K +L L RL + A++D + +AK Sbjct: 558 WMRQAITRWRSDEGAAIRIPVHRNEKITKLDRALERLDVRVGGAVSD--------LELAK 609 Query: 165 KLNVSESEVI---SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +L + EV S+ ESL+ W D L E ++ + Sbjct: 610 ELEWTIDEVTQFRSIPREAEYPESLD-----------DWDDLL------PEPSGVDVFDE 652 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++T +++ L R+ + R +++ +TLE + + V+RER+RQIEA+ + Sbjct: 653 AETERIVTDALADLPERQADVIRMRFGIGRDSDMTLEEIGQIYGVTRERIRQIEAKGLDR 712 Query: 280 VQESIQKQ 287 + +K+ Sbjct: 713 LSHPGRKR 720 >gi|218289913|ref|ZP_03494103.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] gi|218240053|gb|EED07239.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] Length = 179 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 29/71 (40%), Positives = 44/71 (61%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLVV IA + G+ I ++VS G IGL++AV FDP + +LATY+ I+ Sbjct: 2 LIERNLRLVVYIARKFENTGVNIEDLVSIGTIGLIKAVNTFDPSKKIKLATYASRCIENE 61 Query: 113 MQEYILRSWSL 123 + Y+ R+ L Sbjct: 62 ILMYLRRNNKL 72 >gi|291531057|emb|CBK96642.1| RNA polymerase, sigma 29 subunit, SigE [Eubacterium siraeum 70/3] Length = 239 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 3/95 (3%) Query: 27 PMLEKQEEY-VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 P L K+EE LAK + + A L+ +LRLVV IA + G+ I +++S G IG Sbjct: 36 PPLSKEEEAKTLAKLNTDFEN--ARETLIVHNLRLVVYIAKKFESTGIGIEDLISIGTIG 93 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 L++AV F E+ +LATY+ I+ + Y+ ++ Sbjct: 94 LIKAVNTFSVEKNIKLATYASRCIENEILMYLRKT 128 >gi|168333394|ref|ZP_02691674.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family protein [Epulopiscium sp. 'N.t. morphotype B'] Length = 249 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 117/243 (48%), Gaps = 18/243 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD+SA LV +L LV + + G + ++ G+IGL+++++KFD + + Sbjct: 21 QGGDISAKELLVEQNLGLVWSLVKRFTNRGYDLDDLFQVGSIGLLKSIEKFDLKYPVAFS 80 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ + LR L+K+ + K L R +K Q N +P + I Sbjct: 81 TYAVPMIVGEIKRF-LRDDGLIKVSRSL--KDLASKARNVKEDFQ--RQENREP-TLKEI 134 Query: 163 AKKLNVSESEV-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 + LNV E+ +S+ + ESLNA++N + + + + D Q+ + Sbjct: 135 SDILNVPCEEIAVSLEANMEV-ESLNAVVNPNSSATITLAEKIDQSPDEQKNIF------ 187 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + L+ ER+I R ++ +T +++ VS+ ++ +IE R +K++ Sbjct: 188 --ENIYLKEIIKTLSSVERQIVNYRYFED--LTQLEIANRLGVSQVQISRIEKRVLEKLR 243 Query: 282 ESI 284 +SI Sbjct: 244 QSI 246 >gi|229076790|ref|ZP_04209702.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-18] gi|228706352|gb|EEL58613.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-18] Length = 252 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 37/124 (29%), Positives = 69/124 (55%), Gaps = 8/124 (6%) Query: 57 HLRLVVKIAMGYRGYG--LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQ 114 ++ LV+ IA Y+ + ++V EGN G+++A++ FDP+ G+ +TY+ WIK +M Sbjct: 5 NIGLVLSIARKYKKKHPEIEFDDLVQEGNEGMLRAIEDFDPDLGYCFSTYAYCWIKKSML 64 Query: 115 EYILRSWS-LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 +I + S KI NQ FN++ ++ + + +N P V + K+L+V+ +V Sbjct: 65 GFICKKKSGPFKIPNYVNQ----FNVKYVEIEDKYLQMHNRIP-TVEEVVKELDVTREKV 119 Query: 174 ISMN 177 + N Sbjct: 120 VRHN 123 >gi|118442872|ref|YP_878340.1| sporulation sigma factor SigK [Clostridium novyi NT] gi|118133328|gb|ABK60372.1| DNA-dependent RNA polymerase sigma subunit [Clostridium novyi NT] Length = 225 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 30/83 (36%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ EK+E+Y L + + GD A L+ +LRLV I Y + +++S G +GL Sbjct: 21 PLNEKEEKYYLQQF--KQGDALAKGILIERNLRLVAHIVKKYSYPNKDVDDLISIGTVGL 78 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD ++G RLATY+ I Sbjct: 79 IKAIDSFDVDKGTRLATYAARCI 101 >gi|15615117|ref|NP_243420.1| sporulation sigma factor SigG [Bacillus halodurans C-125] gi|10175174|dbj|BAB06273.1| RNA polymerase sporulation forespore-specific (late) sigma-G factor [Bacillus halodurans C-125] Length = 261 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 63/261 (24%), Positives = 119/261 (45%), Gaps = 15/261 (5%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ QE L R + GD SA LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNQEMRELFARL-QSGDTSARETLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRD 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L +P V IAK+L V + +V+ + SL I + + D + Sbjct: 131 QLMGEKQREKEP-TVQEIAKELGVPKEDVVFALDAIQDPVSLFEPIYNDGGDPIYVMDQI 189 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D + Q + E L +M LN RE+ I R Q T ++ E + Sbjct: 190 SDDRNKDVQWVDEI--------ALKEAMVRLNDREKLILNMRFYQGK--TQMEVAEEIGI 239 Query: 265 SRERVRQIEARAFKKVQESIQ 285 S+ +V ++E A +++ + Q Sbjct: 240 SQAQVSRLEKAAIQQMSKHAQ 260 >gi|167749813|ref|ZP_02421940.1| hypothetical protein EUBSIR_00781 [Eubacterium siraeum DSM 15702] gi|167657125|gb|EDS01255.1| hypothetical protein EUBSIR_00781 [Eubacterium siraeum DSM 15702] gi|291557474|emb|CBL34591.1| RNA polymerase, sigma 29 subunit, SigE [Eubacterium siraeum V10Sc8a] Length = 239 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 3/95 (3%) Query: 27 PMLEKQEEY-VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 P L K+EE LAK + + A L+ +LRLVV IA + G+ I +++S G IG Sbjct: 36 PPLSKEEEAKTLAKLNTDFEN--ARETLIVHNLRLVVYIAKKFESTGIGIEDLISIGTIG 93 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 L++AV F E+ +LATY+ I+ + Y+ ++ Sbjct: 94 LIKAVNTFSVEKNIKLATYASRCIENEILMYLRKT 128 >gi|161898923|gb|ABX80451.1| SigB [Listeria monocytogenes] Length = 236 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 120/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLDISQM 222 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 223 HVSRIQRQAIKKL 235 >gi|161898845|gb|ABX80412.1| SigB [Listeria monocytogenes] gi|161898851|gb|ABX80415.1| SigB [Listeria monocytogenes] gi|161898853|gb|ABX80416.1| SigB [Listeria monocytogenes] gi|161898861|gb|ABX80420.1| SigB [Listeria monocytogenes] gi|161898863|gb|ABX80421.1| SigB [Listeria monocytogenes] gi|161898867|gb|ABX80423.1| SigB [Listeria monocytogenes] gi|161898869|gb|ABX80424.1| SigB [Listeria monocytogenes] gi|161898873|gb|ABX80426.1| SigB [Listeria monocytogenes] gi|161898875|gb|ABX80427.1| SigB [Listeria monocytogenes] gi|161898877|gb|ABX80428.1| SigB [Listeria monocytogenes] gi|161898879|gb|ABX80429.1| SigB [Listeria monocytogenes] gi|161898887|gb|ABX80433.1| SigB [Listeria monocytogenes] gi|161898891|gb|ABX80435.1| SigB [Listeria monocytogenes] gi|161898901|gb|ABX80440.1| SigB [Listeria monocytogenes] gi|161898911|gb|ABX80445.1| SigB [Listeria monocytogenes] gi|161898919|gb|ABX80449.1| SigB [Listeria monocytogenes] gi|161898925|gb|ABX80452.1| SigB [Listeria monocytogenes] gi|161898927|gb|ABX80453.1| SigB [Listeria monocytogenes] gi|161898929|gb|ABX80454.1| SigB [Listeria monocytogenes] gi|161898935|gb|ABX80457.1| SigB [Listeria monocytogenes] gi|161898941|gb|ABX80460.1| SigB [Listeria monocytogenes] gi|161898943|gb|ABX80461.1| SigB [Listeria monocytogenes] Length = 237 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 120/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 223 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 224 HVSRIQRQAIKKL 236 >gi|291531212|emb|CBK96797.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium siraeum 70/3] Length = 255 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 38/150 (25%), Positives = 79/150 (52%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L++ E+ L ++ R GD +A +L+ +LRLV+ + + G G ++ G I Sbjct: 20 KLKVLKESEKTELLRQMR-SGDPTAREKLINGNLRLVLSVIQRFSGRGENPDDLFQVGCI 78 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ F + R +TY++ I ++ Y+ S S I + + + L + + + Sbjct: 79 GLMKAIDNFSTDFNVRFSTYAVPMIMGELRRYLRDSGS---IRVSRSMRDLAYKAMQAR- 134 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + +T++N K + IAK+++ +V+ Sbjct: 135 --EKLTNDNSKEPTIEQIAKEIDAKREDVV 162 >gi|297529299|ref|YP_003670574.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|297252551|gb|ADI25997.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] Length = 245 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 50/161 (31%), Positives = 77/161 (47%), Gaps = 19/161 (11%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EE LA + GD A +RL+ +LRLV I + G + +++S G IGL Sbjct: 38 PLSAQEEEKYLALMAK--GDEQARNRLIEHNLRLVAHIVKKFENTGEEVEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK----------IGTTANQKRLF 136 ++A++ + P +G +LATY+ I+ E ++ SL K IG + Sbjct: 96 IKAIESYSPGKGTKLATYAARCIE---NEILMHLRSLKKTRKDVSLHEPIGQDKEGNEIS 152 Query: 137 FNLRRLKGHLQAITDN---NLKPEQVVAIAKKLNVSESEVI 174 L LK Q I D N++ EQV L+ E EVI Sbjct: 153 L-LDILKAEGQDIVDEIHLNMELEQVKQYISVLDEREKEVI 192 >gi|326442277|ref|ZP_08217011.1| RNA polymerase sigma factor, sigma L [Streptomyces clavuligerus ATCC 27064] Length = 292 Score = 55.8 bits (133), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 71 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 130 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 131 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQRLDRS---PTVPELAAVLGVSEE 184 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 EV+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 185 EVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 238 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R ++++ + Sbjct: 239 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLRDGL 289 >gi|225389231|ref|ZP_03758955.1| hypothetical protein CLOSTASPAR_02977 [Clostridium asparagiforme DSM 15981] gi|225044710|gb|EEG54956.1| hypothetical protein CLOSTASPAR_02977 [Clostridium asparagiforme DSM 15981] Length = 239 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 61/241 (25%), Positives = 111/241 (46%), Gaps = 17/241 (7%) Query: 42 REH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 R H GD +A +LV ++ L+ I + G G + ++ G+IGLM+A+ KFD + Sbjct: 10 RAHEGDKTARDQLVMDNVGLIWSIVRRFAGRGYEMEDLFQIGSIGLMKAIDKFDTTFEVK 69 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY++ I ++ + LR ++K+ + + L ++K + +T + + Sbjct: 70 FSTYAVPMITGEIKRF-LRDDGMIKVSRSIKELGL-----KVKCAREEMTYELGREPTIE 123 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 IA + VS EV + A ESL + SD N D L +++ E ++ Sbjct: 124 EIAGSVGVSREEVAASMEAGAEVESLYRPVGGSDDNQLCLMDRLEEENNEHEALI----- 178 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R +L +S L ER I RR N T ++ + +S+ +V ++E R K + Sbjct: 179 ---NRMVLKELLSSLEEGEREII-VRRYFHNQ-TQTQIAQDLGISQVQVSRLEKRILKAM 233 Query: 281 Q 281 + Sbjct: 234 R 234 >gi|307265198|ref|ZP_07546757.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|306919820|gb|EFN50035.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] Length = 230 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 29/75 (38%), Positives = 43/75 (57%), Gaps = 3/75 (4%) Query: 38 AKRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 K+Y E +GD A + L+ +LRLV + Y G G I +++S G IGL++A+ FD Sbjct: 36 GKKYLEAYRNGDEEARNILIERNLRLVAHVVKKYSGTGKDIDDLISIGTIGLIKAISTFD 95 Query: 95 PERGFRLATYSMWWI 109 +G LATY+ I Sbjct: 96 SSKGTHLATYAARCI 110 >gi|161898889|gb|ABX80434.1| SigB [Listeria monocytogenes] gi|161898893|gb|ABX80436.1| SigB [Listeria monocytogenes] gi|161898909|gb|ABX80444.1| SigB [Listeria monocytogenes] Length = 236 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 120/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 222 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 223 HVSRIQRQAIKKL 235 >gi|138896107|ref|YP_001126560.1| sporulation sigma factor SigK [Geobacillus thermodenitrificans NG80-2] gi|196249000|ref|ZP_03147700.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|134267620|gb|ABO67815.1| RNA polymerase sigma-K factor [Geobacillus thermodenitrificans NG80-2] gi|196211876|gb|EDY06635.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 237 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 50/161 (31%), Positives = 76/161 (47%), Gaps = 19/161 (11%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+EE L + GD A +RL+ +LRLV I + G + +++S G IGL Sbjct: 30 PLSPKEEEKYLELMAK--GDEQARNRLIEHNLRLVAHIVKKFENTGEEVEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK----------IGTTANQKRLF 136 ++A++ + P +G +LATY+ I+ E ++ SL K IG + Sbjct: 88 IKAIESYSPNKGTKLATYAARCIE---NEILMHLRSLKKTRKDVSLHEPIGQDKEGNEIS 144 Query: 137 FNLRRLKGHLQAITDN---NLKPEQVVAIAKKLNVSESEVI 174 L LK Q I D N++ EQV L+ E EVI Sbjct: 145 L-LDILKSEGQDIVDEIQLNMELEQVKKYISVLDEREKEVI 184 >gi|260438492|ref|ZP_05792308.1| RNA polymerase sigma-E factor [Butyrivibrio crossotus DSM 2876] gi|292809081|gb|EFF68286.1| RNA polymerase sigma-E factor [Butyrivibrio crossotus DSM 2876] Length = 207 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 33/78 (42%), Positives = 47/78 (60%), Gaps = 3/78 (3%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 ++EY+ KRY+ +GD A + L+ +LRLV I Y I E +S G IGL++A+K Sbjct: 13 EQEYL--KRYK-NGDEEAGNVLILRNLRLVAHIVKHYNFDEKDIEEYLSIGTIGLIKAIK 69 Query: 92 KFDPERGFRLATYSMWWI 109 FD +G RLATY+ I Sbjct: 70 TFDCSKGNRLATYASKCI 87 >gi|251797416|ref|YP_003012147.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus sp. JDR-2] gi|247545042|gb|ACT02061.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus sp. JDR-2] Length = 256 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 66/271 (24%), Positives = 118/271 (43%), Gaps = 50/271 (18%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKK 92 L + ++E GDL A RL+ L LV + GLP + ++ S G +GL+ A++K Sbjct: 9 LWRAWKEEGDLEAKKRLIEQFLPLVDYVT-NRMAIGLPKNVLKDDLASNGVMGLIDAIEK 67 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITD 151 FD RG + TY+ W I+ ++ + LR V KR+ + L + +L++++D Sbjct: 68 FDYCRGLQFETYASWRIRGSIIDG-LRQGDWVPRSVREKAKRIEEAYQSLEQKYLRSVSD 126 Query: 152 NNLKPEQVVAIAKKLNVSESEVISM--------NCRL-------AGDESLNALINSSDKN 196 I++ LNVSE E +M C L + L+ LI+ KN Sbjct: 127 --------AEISQYLNVSEKEFTTMLHEIAITTVCSLEDPIREEESETRLSLLIDERAKN 178 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 DH E L ++ L + L +ER + +E ++L Sbjct: 179 P---------DHKAHEFFL---------KDSLISGIEKLTEKERTVISLFYYEE--LSLS 218 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ +S R+ Q+ ++A +++ ++ K Sbjct: 219 EIAEVMSLSPSRISQLHSKAILRLRGALAKH 249 >gi|161898913|gb|ABX80446.1| SigB [Listeria monocytogenes] gi|161898915|gb|ABX80447.1| SigB [Listeria monocytogenes] gi|161898939|gb|ABX80459.1| SigB [Listeria monocytogenes] Length = 237 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 120/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLDISQM 223 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 224 HVSRIQRQAIKKL 236 >gi|297544535|ref|YP_003676837.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842310|gb|ADH60826.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 231 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E +GD A + L+ +LRLV + Y G G I +++S G IGL++A+ FD Sbjct: 38 KKYLEAYKNGDEEARNILIERNLRLVAHVVKKYSGTGKDIDDLISIGTIGLIKAISTFDS 97 Query: 96 ERGFRLATYSMWWI 109 +G LATY+ I Sbjct: 98 SKGTHLATYAARCI 111 >gi|291542628|emb|CBL15738.1| RNA polymerase, sigma 29 subunit, SigE [Ruminococcus bromii L2-63] Length = 233 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 30/97 (30%), Positives = 54/97 (55%), Gaps = 2/97 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E++++ + GD A L+ +LRLVV IA + +++S G IGL Sbjct: 32 PLTREEEQHIMENIAK--GDSKAREPLIVHNLRLVVYIAKKFETPNASAEDLISIGTIGL 89 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 ++AV F PE+ +LATY+ I+ + ++ +S L Sbjct: 90 IKAVNTFSPEKNIKLATYASRCIENEILMFLRKSSQL 126 >gi|149183910|ref|ZP_01862298.1| sporulation sigma factor SigG [Bacillus sp. SG-1] gi|148848374|gb|EDL62636.1| sporulation sigma factor SigG [Bacillus sp. SG-1] Length = 227 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 30/95 (31%), Positives = 55/95 (57%), Gaps = 5/95 (5%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE GD+SA +LV +LRLV+ + + G + ++ G Sbjct: 26 KLPVLKNEE---MRKLFREMQAGDISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 82 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 IGLM+++ FD + R +TY++ I ++ Y+ Sbjct: 83 CIGLMKSIDNFDLGQNVRFSTYAVPMIIGEIRRYL 117 >gi|289578255|ref|YP_003476882.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacter italicus Ab9] gi|289527968|gb|ADD02320.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacter italicus Ab9] Length = 231 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E +GD A + L+ +LRLV + Y G G I +++S G IGL++A+ FD Sbjct: 38 KKYLEAYKNGDEEARNILIERNLRLVAHVVKKYSGTGKDIDDLISIGTIGLIKAISTFDS 97 Query: 96 ERGFRLATYSMWWI 109 +G LATY+ I Sbjct: 98 SKGTHLATYAARCI 111 >gi|218288661|ref|ZP_03492938.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] gi|218241318|gb|EED08493.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] Length = 239 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 27/73 (36%), Positives = 46/73 (63%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +RL+ +LRLV +A Y G + +++S G IGL++AV+ + P++G +LATY Sbjct: 46 GDGDARNRLIEHNLRLVAHLAKKYESSGEEMDDLISIGTIGLIKAVESYRPDKGTKLATY 105 Query: 105 SMWWIKAAMQEYI 117 + I+ + Y+ Sbjct: 106 AARCIENEILMYL 118 >gi|328948495|ref|YP_004365832.1| RNA polymerase, sigma 32 subunit, RpoH [Treponema succinifaciens DSM 2489] gi|328448819|gb|AEB14535.1| RNA polymerase, sigma 32 subunit, RpoH [Treponema succinifaciens DSM 2489] Length = 349 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 55/240 (22%), Positives = 107/240 (44%), Gaps = 24/240 (10%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 G++ A +R+ +LR V++I+ + + E G IGL++A+K FD A+ Sbjct: 117 GNVYAFNRMTEMYLRGVLRISYNFAKENYCDFEEAFQNGTIGLIRAIKNFDVTSPNSFAS 176 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y + + MQ S + +QK F G + PE+ + I Sbjct: 177 YYSLSVLSEMQRKYSVKNSFFDLPVHFSQKTFEF-----LGIISKYLAKGKTPEESIGI- 230 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +S+ + +N +L + D ++ ++++ +D ++ ++ E + Sbjct: 231 ----ISDDFYLEINPKLKM-----YFLPYLDLDAISYENF-AFDIHIEDDIIYE-----S 275 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L + L RER++ E R N +TLE + + VSRER+RQIE +A ++++ Sbjct: 276 LKEQLNEVLHTLPERERKVLEMRFGLNNLKQMTLEEVGKYYNVSRERIRQIEKKALRRLR 335 >gi|291522682|emb|CBK80975.1| RNA polymerase, sigma 29 subunit, SigE [Coprococcus catus GD/7] Length = 245 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 40/119 (33%), Positives = 65/119 (54%), Gaps = 13/119 (10%) Query: 11 NGEIGLSRYIHEIRKIPM-LEKQEE-----YVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 NGEI YI +P+ LE +EE + + REHG + L+ +LRLVV I Sbjct: 23 NGEI---HYISGTDVLPVPLEGEEEKNAIAMLATEAEREHG----RNILIEHNLRLVVYI 75 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 A + G + +++S G IGL++A+ ++P++ +LATY+ I+ + Y+ RS L Sbjct: 76 ARKFDNTGAGMEDLISIGTIGLIKAINSYNPDKNIKLATYASRCIENEILMYLRRSSKL 134 >gi|218673042|ref|ZP_03522711.1| RNA polymerase factor sigma-32 [Rhizobium etli GR56] Length = 88 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 28/61 (45%), Positives = 42/61 (68%) Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 RR L ++ LN RE +I ARRL E+ TLE L ++ +S+ERVRQIE+RA +K++ + Sbjct: 17 RRVWLASALKHLNEREMKIISARRLAEDGATLEELGADLGISKERVRQIESRAMEKLRSA 76 Query: 284 I 284 + Sbjct: 77 L 77 >gi|161898883|gb|ABX80431.1| SigB [Listeria monocytogenes] Length = 235 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 120/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 1 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 60 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 61 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 114 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 115 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 171 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 172 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 221 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 222 HVSRIQRQAIKKL 234 >gi|30024623|dbj|BAC75680.1| sigma L [Streptomyces griseus] Length = 288 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 61/237 (25%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 67 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 126 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V + + L VSE Sbjct: 127 IKRFFRDTSWS-VRVPRRLQELRL--ALTKTSDELAQKLDRS---PTVPELVRALGVSEE 180 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 181 DVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDAALEGV----EYRESLKPL 234 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++E + Sbjct: 235 LAK----LAPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLREGL 285 >gi|312127292|ref|YP_003992166.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311777311|gb|ADQ06797.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 240 Score = 55.8 bits (133), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 57/241 (23%), Positives = 108/241 (44%), Gaps = 20/241 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +L+ S+L LV + + G+ + ++ G IGL++AV +FDP R + Sbjct: 14 KNGDKLARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSFNVRFS 73 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR +K+ +++ N ++K N+ + + I Sbjct: 74 TYAVPMIIGEIKRY-LRDDGKIKVS-----RKIKENQGKIKKLRNQFVSNHGREPTISEI 127 Query: 163 AKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 ++ +S E+ + C A E SL+ +IN + D + D ++L Sbjct: 128 SQLTGLSSDEI--LLCLDASSEVASLSEVINQEEGKPITLMDIASDEEDYSTKLL----- 180 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + L RER I R + T ++ E +S+ V +IE RA +++ Sbjct: 181 ---DLMALKEGLKKLKGRERYIIFMRYFKNK--TQSEIAKELNISQVHVSRIEKRALERI 235 Query: 281 Q 281 + Sbjct: 236 K 236 >gi|56421070|ref|YP_148388.1| sporulation sigma factor SigK [Geobacillus kaustophilus HTA426] gi|56380912|dbj|BAD76820.1| sporulation mother cell-specific RNA polymerase sigma-27 factor precursor (sigma K) (stage IV sporulation protein CB) [Geobacillus kaustophilus HTA426] Length = 237 Score = 55.5 bits (132), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 29/84 (34%), Positives = 50/84 (59%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EE LA + GD A +RL+ +LRLV I + G + +++S G IGL Sbjct: 30 PLSAQEEEKYLALMAK--GDEQARNRLIEHNLRLVAHIVKKFENTGEEVEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ + P +G +LATY+ I+ Sbjct: 88 IKAIESYSPGKGTKLATYAARCIE 111 >gi|254390381|ref|ZP_05005598.1| sigma L [Streptomyces clavuligerus ATCC 27064] gi|294813859|ref|ZP_06772502.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197704085|gb|EDY49897.1| sigma L [Streptomyces clavuligerus ATCC 27064] gi|294326458|gb|EFG08101.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 314 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 93 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 152 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 153 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQRLDRS---PTVPELAAVLGVSEE 206 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 EV+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 207 EVVDGLAVGNAYTA--SSLDSPSPEDDGGEGSLADRLGYEDTALEGV----EYRESLKPL 260 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R ++++ + Sbjct: 261 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLRDGL 311 >gi|148380498|ref|YP_001255039.1| sporulation sigma factor SigK [Clostridium botulinum A str. ATCC 3502] gi|170759231|ref|YP_001787857.1| sporulation sigma factor SigK [Clostridium botulinum A3 str. Loch Maree] gi|226949896|ref|YP_002804987.1| RNA polymerase sigma-K factor [Clostridium botulinum A2 str. Kyoto] gi|237795980|ref|YP_002863532.1| RNA polymerase sigma-K factor [Clostridium botulinum Ba4 str. 657] gi|148289982|emb|CAL84095.1| RNA polymerase sigma-28 factor [Clostridium botulinum A str. ATCC 3502] gi|169406220|gb|ACA54631.1| RNA polymerase sigma-70 factor family [Clostridium botulinum A3 str. Loch Maree] gi|226844119|gb|ACO86785.1| RNA polymerase sigma-K factor [Clostridium botulinum A2 str. Kyoto] gi|229261319|gb|ACQ52352.1| RNA polymerase sigma-K factor [Clostridium botulinum Ba4 str. 657] Length = 234 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L + + GD A LV +LRLV I Y G I +++S G +GL Sbjct: 30 PLSDEEEKYYLDRL--KKGDALAKDILVERNLRLVAHIVKKYSYPGKDIDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDNSKGTRLATYAARCI 110 >gi|312282679|dbj|BAJ34205.1| unnamed protein product [Thellungiella halophila] Length = 511 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 59/253 (23%), Positives = 110/253 (43%), Gaps = 45/253 (17%) Query: 48 SAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +A ++L+ +LRLV+ + Y G ++ G GL+ A+ +F+P+R FRL+TY Sbjct: 272 AARNKLIKHNLRLVLFVMNKYFQDFTNGPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTY 331 Query: 105 SMWWIKAAMQEYILRSWSL------------VKIGTTANQKRLFFNLRRLKGHLQAITDN 152 ++WI+ A I+RS + V++ + L F L RL + + Sbjct: 332 GLFWIRHA----IIRSMTTSNFTRVPFGLESVRVEIYKTKMELLFELGRLPTEDEVVERL 387 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + PE+ + + + V S+N + + +E +N + + D + D+ Sbjct: 388 KISPERYREVLR----AAKPVFSLNSKHSVTQEEFINGITDV---------DGVGADNRR 434 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRER 268 Q +L R L + L P+E + R + TL ++ +SRE Sbjct: 435 QPAIL---------RLALDDVLDSLKPKESLVIRQRYGLDGKGDRTLGEIAGNLNISREM 485 Query: 269 VRQIEARAFKKVQ 281 VR+ E +A K++ Sbjct: 486 VRKHEVKALMKLK 498 >gi|311897125|dbj|BAJ29533.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 296 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 55/199 (27%), Positives = 90/199 (45%), Gaps = 21/199 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV + +R P+ ++V G IGL++A+ +FDP+RG T++M + Sbjct: 75 LIELNLPLVRYASARFRSRNEPMEDIVQVGTIGLIKAIDRFDPDRGVEFPTFAMPTVVGE 134 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L V+E Sbjct: 135 IKRFFRDTSWS-VRVPRRLQELRL--ALTKAGDELSQRLDRS---PTVPELAAYLGVTED 188 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +V+ N A SL++ D D L Y+ E V E R++ + + Sbjct: 189 DVVEGLAVGNAYTA--SSLDSTPAEDDGGDGPLADRLGYEDLALEGV----EYRESLKPL 242 Query: 228 LTRSMSVLNPRERRIFEAR 246 L + L PRERRI R Sbjct: 243 LAK----LPPRERRIIMLR 257 >gi|187778862|ref|ZP_02995335.1| hypothetical protein CLOSPO_02457 [Clostridium sporogenes ATCC 15579] gi|187772487|gb|EDU36289.1| hypothetical protein CLOSPO_02457 [Clostridium sporogenes ATCC 15579] Length = 234 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L + + GD A LV +LRLV I Y G I +++S G +GL Sbjct: 30 PLSDEEEKYYLDRL--KKGDALAKDILVERNLRLVAHIVKKYSYPGKDIDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDNSKGTRLATYAARCI 110 >gi|51893096|ref|YP_075787.1| sporulation sigma factor SigK [Symbiobacterium thermophilum IAM 14863] gi|51856785|dbj|BAD40943.1| RNA polymerase sigma factor similar to B. subtilis SigK [Symbiobacterium thermophilum IAM 14863] Length = 236 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 30/84 (35%), Positives = 50/84 (59%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++E L++ ++GD A L+ +LRLV I + G + +++S G +GL Sbjct: 32 PLSEEEEAKYLSRL--QNGDEEARAVLIERNLRLVAHIVKKFDNTGEDVDDLISIGTVGL 89 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ F PERG RLATY+ I+ Sbjct: 90 IKAIGTFKPERGTRLATYAARCIE 113 >gi|331269717|ref|YP_004396209.1| RNA polymerase sigma-K factor [Clostridium botulinum BKT015925] gi|329126267|gb|AEB76212.1| RNA polymerase sigma-K factor [Clostridium botulinum BKT015925] Length = 226 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 33/102 (32%), Positives = 54/102 (52%), Gaps = 2/102 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +++G L+ Y+ P L + EE K++++ GD A L+ +LRLV I Sbjct: 1 MIDGMTFLTAYVSNGTSFPQPLNEDEERYYLKKFKD-GDTLAKGILIERNLRLVAHIVKK 59 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y I +++S G +GL++A+ FD +G RLATY+ I Sbjct: 60 YSYPNKDIDDLISIGTVGLIKAIDSFDISKGTRLATYAARCI 101 >gi|258511711|ref|YP_003185145.1| sporulation sigma factor SigF [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478437|gb|ACV58756.1| RNA polymerase, sigma 28 subunit, SigF [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 256 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 109/245 (44%), Gaps = 26/245 (10%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A RL+ + RLV + + G G ++ G IGLM+AV KFD + +TY Sbjct: 34 GDAEARERLIVHNQRLVWAVVQRFLGRGYEAEDLFQIGCIGLMKAVDKFDLSYDVKFSTY 93 Query: 105 SMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 ++ I +Q + LR S VK+ TA Q R + RL L +P + Sbjct: 94 AVPMIIGEIQRF-LRDDSTVKVSRSLKETAKQIRHVRD--RLAKEL------GRQP-HIT 143 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 IA+ + + SE++ L S++ + +D + D Q+ E+ E Sbjct: 144 EIAEAMGMEPSEIVFAQEALRAPASIHETVYENDGDPIYLMD----------QIADEETE 193 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 K + L + L RER I R ++ T +++ +S+ +V ++E R +++ Sbjct: 194 GKFDKVELHEIIGRLPERERFIVYMRFFRDK--TQSDVARVLGISQVQVSRLEKRILQQI 251 Query: 281 QESIQ 285 ++ ++ Sbjct: 252 RQELE 256 >gi|168182618|ref|ZP_02617282.1| RNA polymerase sigma factor, sigma-70 family [Clostridium botulinum Bf] gi|182674200|gb|EDT86161.1| RNA polymerase sigma factor, sigma-70 family [Clostridium botulinum Bf] Length = 234 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L + + GD A LV +LRLV I Y G I +++S G +GL Sbjct: 30 PLSDEEEKYYLDRL--KKGDALAKDILVERNLRLVAHIVKKYSYPGKDIDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDNSKGTRLATYAARCI 110 >gi|167037477|ref|YP_001665055.1| sporulation sigma factor SigK [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167040139|ref|YP_001663124.1| sporulation sigma factor SigK [Thermoanaerobacter sp. X514] gi|256752531|ref|ZP_05493387.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacter ethanolicus CCSD1] gi|300914223|ref|ZP_07131539.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307724542|ref|YP_003904293.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter sp. X513] gi|320115891|ref|YP_004186050.1| RNA polymerase sigma-K factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166854379|gb|ABY92788.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter sp. X514] gi|166856311|gb|ABY94719.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256748597|gb|EEU61645.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacter ethanolicus CCSD1] gi|300889158|gb|EFK84304.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307581603|gb|ADN55002.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X513] gi|319928982|gb|ADV79667.1| RNA polymerase sigma-K factor [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 231 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E +GD A + L+ +LRLV + Y G G I +++S G IGL++A+ FD Sbjct: 38 KKYLEAYKNGDEEARNILIERNLRLVAHVVKKYSGTGKDIDDLISIGTIGLIKAISTFDS 97 Query: 96 ERGFRLATYSMWWI 109 +G LATY+ I Sbjct: 98 SKGTHLATYAARCI 111 >gi|319649652|ref|ZP_08003808.1| FliA/WhiG family RNA polymerase [Bacillus sp. 2_A_57_CT2] gi|317398814|gb|EFV79496.1| FliA/WhiG family RNA polymerase [Bacillus sp. 2_A_57_CT2] Length = 236 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 57/241 (23%), Positives = 112/241 (46%), Gaps = 16/241 (6%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD++A +LV +LRLV+ + + G + ++ G IGLM+++ FD + + +TY Sbjct: 11 GDITAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCIGLMKSIDNFDLSQNVKFSTY 70 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ Y LR + +++ + + + + +++ L + T E+ IAK Sbjct: 71 AVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRERLMSKTSREPTAEE---IAK 124 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L+V E++ + SL I + + D L + + Q + E Sbjct: 125 ELDVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQLSDERNKDIQWIEEI------ 178 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L M LN RE+ I R Q T ++ E +S+ +V ++E A K++ ++I Sbjct: 179 --ALKEGMRRLNEREKLILRKRFFQGK--TQMEVAEEIGISQAQVSRLEKAAIKQMNKNI 234 Query: 285 Q 285 Q Sbjct: 235 Q 235 >gi|153938998|ref|YP_001391838.1| sporulation sigma factor SigK [Clostridium botulinum F str. Langeland] gi|168180573|ref|ZP_02615237.1| RNA polymerase sigma-70 factor family [Clostridium botulinum NCTC 2916] gi|152934894|gb|ABS40392.1| RNA polymerase sigma-70 factor family [Clostridium botulinum F str. Langeland] gi|182668432|gb|EDT80411.1| RNA polymerase sigma-70 factor family [Clostridium botulinum NCTC 2916] gi|295319864|gb|ADG00242.1| RNA polymerase sigma-70 factor family [Clostridium botulinum F str. 230613] Length = 234 Score = 55.5 bits (132), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L + + GD A LV +LRLV I Y G I +++S G +GL Sbjct: 30 PLSDEEEKYYLDRL--KKGDALAKDILVERNLRLVAHIVKKYSYPGKDIDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDNSKGTRLATYAARCI 110 >gi|255280674|ref|ZP_05345229.1| RNA polymerase sigma-G factor [Bryantella formatexigens DSM 14469] gi|255268611|gb|EET61816.1| RNA polymerase sigma-G factor [Bryantella formatexigens DSM 14469] Length = 258 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 65/261 (24%), Positives = 125/261 (47%), Gaps = 25/261 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L +R R+ GD+ A + +LRLV+ + + ++ G I Sbjct: 15 KLPVLTNEEKEELFERIRQ-GDMEARELYIKGNLRLVLSVIKRFSASNENADDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GLM+A+ F+ E + +TY++ I ++ Y LR + +++ + K L+ Sbjct: 74 GLMKAIDNFNTEMDVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDTAYKALYTREAY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K HL+ T N L A+++ +S +++ A D ++ + ++ D S+ Sbjct: 133 MKKHLKEPTINEL--------AEEIGISREDIV-----FAMD-AIQSPLSLYDPVYSEGG 178 Query: 202 DWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D L V D ++ KEE L +M L+ RER+I R E +E +++ Sbjct: 179 DTLYVMDQISDKK---NKEENWVESLALQEAMKRLSDRERKIINMRFF-EGKTQME-VAA 233 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 E +S+ +V ++E A K ++ Sbjct: 234 EICISQAQVSRLEKSALKSMR 254 >gi|220931759|ref|YP_002508667.1| sporulation sigma factor SigG [Halothermothrix orenii H 168] gi|219993069|gb|ACL69672.1| sporulation sigma factor SigG [Halothermothrix orenii H 168] Length = 260 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 64/277 (23%), Positives = 135/277 (48%), Gaps = 47/277 (16%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L +E L K+ + GD SA +++ +LRLV+ + + G + ++ G I Sbjct: 14 ELPVLSNEEMRKLFKKM-QQGDWSARQKIINGNLRLVLSVIQRFNNRGENVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + R +TY++ I ++ Y LR + +++ + + + ++K Sbjct: 73 GLIKAIDNFDLSQNVRFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDTAYKALQMKE 129 Query: 145 HLQAITDNNLKPEQ--VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 L+ N K E+ + ++++L + SE+I +L+A+ QD Sbjct: 130 SLK-----NKKSEEPSLKEVSEELGIPRSEIIF---------ALDAI-----------QD 164 Query: 203 WL-----VYDHDGQEQVLI------EKEERKNRRNMLT--RSMSVLNPRERRIFEARRLQ 249 + +Y HDG + + + EK E +N + + L+PRE+ I A R Sbjct: 165 PISLFEPIY-HDGGDPIFVMDQISDEKTEDENWLEGIAVREGLRKLSPREKLIL-AYRFY 222 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E +E +++E +S+ +V ++E A K+++ +++ Sbjct: 223 EGKTQME-VANEIGISQAQVSRLEKAALKRLKRHVKE 258 >gi|37522237|ref|NP_925614.1| RNA polymerase sigma factor SigF [Gloeobacter violaceus PCC 7421] gi|35213237|dbj|BAC90609.1| glr2668 [Gloeobacter violaceus PCC 7421] Length = 254 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 1/83 (1%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFD 94 +L + Y E + + LV +L LV KIA RG P+ ++V G IGLM+AV++FD Sbjct: 13 LLLRAYGESPSTALRNELVCRNLGLVRKIAHQLARGSSEPLEDLVQVGAIGLMRAVERFD 72 Query: 95 PERGFRLATYSMWWIKAAMQEYI 117 P G ++++ I+ AMQ Y+ Sbjct: 73 PSLGHAFSSFATPCIRGAMQHYL 95 >gi|167758775|ref|ZP_02430902.1| hypothetical protein CLOSCI_01117 [Clostridium scindens ATCC 35704] gi|167663515|gb|EDS07645.1| hypothetical protein CLOSCI_01117 [Clostridium scindens ATCC 35704] Length = 247 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 26/72 (36%), Positives = 45/72 (62%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ +LRLVV IA + G+ + +++S G IGL++A+ F+PE+ +LATY+ Sbjct: 64 AKKTLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFNPEKNIKLATYASRC 123 Query: 109 IKAAMQEYILRS 120 I+ + Y+ R+ Sbjct: 124 IENEILMYLRRN 135 >gi|219669461|ref|YP_002459896.1| RNA polymerase, sigma 28 subunit, SigF [Desulfitobacterium hafniense DCB-2] gi|219539721|gb|ACL21460.1| RNA polymerase, sigma 28 subunit, SigF [Desulfitobacterium hafniense DCB-2] Length = 261 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 57/267 (21%), Positives = 125/267 (46%), Gaps = 27/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L +E L R ++GD A RL+ +L+L+ + + G + ++ G I Sbjct: 13 RFPLLSDEEMMDLLHR-AQNGDAEARERLINCNLKLIFNLVQRFSHRGYELEDLFQIGTI 71 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ KFD G + +TY++ I ++ + LR VK+ + K L + + + + Sbjct: 72 GLIKAIDKFDFTYGVKFSTYAVPMIIGEIRRF-LRDDHPVKVPRS--YKELVYKVNKARE 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L A + + IA+ + V +++S +L A+ + + + + +QD Sbjct: 129 SLSATLGRD---PTIGEIAESIGVDREDIVS---------ALEAVQSPTSIHDTLYQD-- 174 Query: 205 VYDHDG---QEQVLIEKEERKN--RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 D D +Q+ +EK+ + L + L RE+R+ R ++ T ++ Sbjct: 175 --DSDPIYILDQLPMEKDLEAGWFEKIALKEVLDKLPEREKRVLMMRFYEDK--TQSEIA 230 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 + +S+ ++ +IE A ++++ + + Sbjct: 231 ALLNLSQVQISRIERAALHRIRQYLHE 257 >gi|312128428|ref|YP_003993302.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311778447|gb|ADQ07933.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 256 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 52/233 (22%), Positives = 111/233 (47%), Gaps = 21/233 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y+ + + LV HL + IA + G G+ ++ I L+ AV++F+P Sbjct: 18 LFEEYQRTKAIELRNELVNKHLYIAEIIAKKFVGRGIDYEDLYQVACIALINAVERFEPN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G++ +++ I ++ Y S++++ +R++ ++K + ++ +P Sbjct: 78 KGYKFTSFATPTIMGEIKRYFRDRASIIRLP-----RRIYETSAKIKLATEVLSTKLKRP 132 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQV 214 +V IA+ LN+S EV+ + + S N L S D+ + ++ + D G+ E + Sbjct: 133 PKVEEIARHLNMSTEEVLEV-----MEASNNYLPQSLDQTMYEDEEMTLGDVLGKSDENI 187 Query: 215 L-IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 L +E E + +++ L+P ER + R +E T + ++ E VS+ Sbjct: 188 LQVENVE------AVKKAIERLSPFEREFVQKRFFEEK--TQKEIAEEMNVSQ 232 >gi|187778769|ref|ZP_02995242.1| hypothetical protein CLOSPO_02364 [Clostridium sporogenes ATCC 15579] gi|187772394|gb|EDU36196.1| hypothetical protein CLOSPO_02364 [Clostridium sporogenes ATCC 15579] Length = 242 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 65/248 (26%), Positives = 115/248 (46%), Gaps = 21/248 (8%) Query: 45 GDLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +L +V ++ LV IA +G Y + ++VS G IGLM A+ KFD +G + Sbjct: 6 NNLYVKEEIVKKYIPLVKYIASRVIIGKTKY-IEYEDLVSYGMIGLMDALNKFDESKGMK 64 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ IK +M + + R+ + K G R + RL+ L K ++ Sbjct: 65 FSTYASIRIKGSMIDELRRNSPISK-GAMDKLNRYNEAIERLQKKLN-------KEPNLI 116 Query: 161 AIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +LN+S EV I SL LI SS+ + + D + +E+ Sbjct: 117 QIADELNISLKEVSEIENYINYISVISLEDLIFSSE-DEVPLIGTIKDDKSPSPEKHVEE 175 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E + + L +++ +LN ++R + +E +TL+ + VS RV Q+ +RA Sbjct: 176 NE---QLDYLAKAIELLNEKDRLVVTLYYYEE--LTLKEIGKILSVSESRVCQLHSRAII 230 Query: 279 KVQESIQK 286 +++++ K Sbjct: 231 HLKKAMTK 238 >gi|307717588|gb|ADN88847.1| RNA polymerase sigma-37 factor [Listeria seeligeri] gi|307717632|gb|ADN88869.1| RNA polymerase sigma-37 factor [Listeria seeligeri] Length = 220 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 104/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + +LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKKLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|295094809|emb|CBK83900.1| RNA polymerase, sigma 29 subunit, SigE [Coprococcus sp. ART55/1] Length = 245 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 34/106 (32%), Positives = 56/106 (52%), Gaps = 1/106 (0%) Query: 19 YIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 YI +P LE EE V+ + SA L+ +LRLVV IA + G+ I + Sbjct: 31 YIGGTEVLPAPLEPHEEAVVINELTNNQSDSAKKMLIERNLRLVVYIAKKFDNTGVGIED 90 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 ++S G IGL++A+ F ++ +LATY+ I+ + ++ R+ L Sbjct: 91 LISIGTIGLIKAINTFKNDKNIKLATYASRCIENEILMFLRRNSKL 136 >gi|161898857|gb|ABX80418.1| SigB [Listeria monocytogenes] Length = 236 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 120/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 222 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 223 HVSRIQRQAIKKL 235 >gi|149183717|ref|ZP_01862127.1| sigma factor B [Bacillus sp. SG-1] gi|148848576|gb|EDL62816.1| sigma factor B [Bacillus sp. SG-1] Length = 265 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 62/257 (24%), Positives = 126/257 (49%), Gaps = 16/257 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K Y+E D A LV + LV+ IA Y ++V G IGL+ A++++D G Sbjct: 20 KAYQEDNDDEAQSNLVLHYENLVISIARKYSKGKSFHEDIVQVGMIGLLGAIRRYDDSFG 79 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 +++ I ++ ++ ++WS+ +R+ ++K ++ +T+ + Sbjct: 80 KTFEAFAIPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKSTVEELTNTLERSP 133 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 +V IA + V+E EV+ + +S AL ++ S + S+ + D G + Sbjct: 134 KVEEIADYIGVTEEEVLEA---MEMGKSYQALSVDHSIEADSEGSTVTLLDIVGN---VD 187 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 E ER N++ +L + + VL+ RER I + L + ++ ++ + +S+ V +++ RA Sbjct: 188 EGYERINQKLVLEKVLHVLSERERLIIQYTYL--DNLSQKDAGEKLGISQMHVSRLQRRA 245 Query: 277 FKKVQESIQKQVELSSS 293 KK++E+I ++ S S Sbjct: 246 IKKLKEAIDAEMRNSES 262 >gi|114566373|ref|YP_753527.1| sporulation sigma factor SigG [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337308|gb|ABI68156.1| RNA polymerase sigma-G factor [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 234 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 58/241 (24%), Positives = 109/241 (45%), Gaps = 16/241 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 G A +L+ ++RLV+ + + G + ++ G IGL++++ FD + R +T Sbjct: 10 QGKTQAREKLIQGNIRLVLSVIQRFTNRGEYVDDLFQVGCIGLIKSIDNFDLSQNVRFST 69 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ Y LR + V++ + + L+ + I DN+ +P V IA Sbjct: 70 YAVPMIIGEIRRY-LRDNNAVRVSRSLRD----IAYKALQVREKLINDNSAEP-TVSQIA 123 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + L+VS EV+ + SL I + + D L + G EQ L E Sbjct: 124 QHLDVSREEVVFALDAIQEPVSLFEPIYNDGGDPILVMDQLSDERSGDEQWLEEIS---- 179 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + +M LN RE+ I R T ++ E +S+ +V ++E A K++++ Sbjct: 180 ----IKEAMKKLNDREKHIVSLRFFAGK--TQMEVAEEIGISQAQVSRLEKAALKQLRKY 233 Query: 284 I 284 + Sbjct: 234 V 234 >gi|331086150|ref|ZP_08335232.1| hypothetical protein HMPREF0987_01535 [Lachnospiraceae bacterium 9_1_43BFAA] gi|330406309|gb|EGG85823.1| hypothetical protein HMPREF0987_01535 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 259 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 59/261 (22%), Positives = 126/261 (48%), Gaps = 23/261 (8%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L + +E GD +A R + +LRLV+ + + + ++ G + Sbjct: 15 KLPLLSNEEKEALFVKIKE-GDEAARERYIKGNLRLVLSVIKRFASSNENVDDLFQIGCV 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRR 141 GLM+A+ F+ + + +TY++ I ++ Y LR + +++ + K ++ Sbjct: 74 GLMKAIDNFNTDLQVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDTAYKAIYAKEGY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K HL+ T V IA+++ +++ ++I + SLN + + ++ Sbjct: 133 MKRHLKEPT--------VEEIAEEIGIAKEDIIFALDAIQAPMSLNEPVYNDSGDALYVM 184 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + D +E+ +E L +M LN RER I + R E +E ++S+ Sbjct: 185 DQ-ISDKKNREEYWVEGLS-------LEAAMERLNERERFIIQLRFF-EGKTQME-VASQ 234 Query: 262 FEVSRERVRQIEARAFKKVQE 282 ++S+ +V ++E A K +++ Sbjct: 235 VKISQAQVSRLEKNALKTMRQ 255 >gi|197302592|ref|ZP_03167647.1| hypothetical protein RUMLAC_01321 [Ruminococcus lactaris ATCC 29176] gi|197298490|gb|EDY33035.1| hypothetical protein RUMLAC_01321 [Ruminococcus lactaris ATCC 29176] Length = 259 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/265 (23%), Positives = 124/265 (46%), Gaps = 31/265 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + E+ L +R + GD A + +LRLV+ + + ++ G + Sbjct: 14 KLPLLREDEKEELFRRI-QKGDEKAREEYIKGNLRLVLSVIKRFDSSSESADDLFQIGCV 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+AV FDPER R +TY++ I ++ Y LR S +++ + + + + +G Sbjct: 73 GLMKAVDNFDPERLVRFSTYAVPMIVGEIRRY-LRDNSSIRVSRSL-RDTAYKAIYAKEG 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +++ +K V IA ++ +++ +V+ +L+A+ + Sbjct: 131 YVR----RYMKEPTVQEIADEIGIAKEDVVF---------ALDAVQTPMSLHEP------ 171 Query: 205 VYDHDGQEQVLIEK-EERKNRRN------MLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 VY+ G ++++ ++KNR L +M LN RER I R + T Sbjct: 172 VYNDGGDALYVMDQVSDKKNREENWVEELSLEAAMERLNERERYIISLRFFEGKTQT--E 229 Query: 258 LSSEFEVSRERVRQIEARAFKKVQE 282 ++ + +S+ +V ++E A K +++ Sbjct: 230 VAGQIGISQAQVSRLEKNALKTMRQ 254 >gi|161898933|gb|ABX80456.1| SigB [Listeria monocytogenes] Length = 236 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 62/253 (24%), Positives = 119/253 (47%), Gaps = 27/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y G E GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKY-SQGKSFHEDSQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 222 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 223 HVSRIQRQAIKKL 235 >gi|261418447|ref|YP_003252129.1| sporulation sigma factor SigK [Geobacillus sp. Y412MC61] gi|319767593|ref|YP_004133094.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y412MC52] gi|261374904|gb|ACX77647.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y412MC61] gi|317112459|gb|ADU94951.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y412MC52] Length = 245 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 29/84 (34%), Positives = 50/84 (59%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EE LA + GD A +RL+ +LRLV I + G + +++S G IGL Sbjct: 38 PLSAQEEEKYLALMAK--GDEQARNRLIEHNLRLVAHIVKKFENTGEEVEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ + P +G +LATY+ I+ Sbjct: 96 IKAIESYSPGKGTKLATYAARCIE 119 >gi|154485093|ref|ZP_02027541.1| hypothetical protein EUBVEN_02816 [Eubacterium ventriosum ATCC 27560] gi|149734046|gb|EDM50165.1| hypothetical protein EUBVEN_02816 [Eubacterium ventriosum ATCC 27560] Length = 258 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/262 (23%), Positives = 125/262 (47%), Gaps = 19/262 (7%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + E+ L K ++ G+ A + + +LRLV+ I + + ++ G I Sbjct: 15 KLPLLTEDEKKELFKEIKK-GNEVAREKYIRGNLRLVLSILQRFSNSNENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++AV FD + +TY++ I ++ Y LR + +++ + K + + K Sbjct: 74 GLIKAVDNFDDTLNVKFSTYAVPMISGELKRY-LRDNAAIRVSRSI--KDIAYKAIYCKE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 ++ T + VV IAK++ V +V+ +++ + ++ D Q D L Sbjct: 131 NIIKTTH---REPTVVEIAKEIGVEPEDVVY------ALDAIQSPVSLYDPVYDQGGDTL 181 Query: 205 -VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 V D ++ KEE+ +L ++ L+ RER+I + R N T ++ E Sbjct: 182 YVMDQISDKK---NKEEKWVENIVLNEALKGLSERERKIIDMRFF--NGKTQMEIADEIG 236 Query: 264 VSRERVRQIEARAFKKVQESIQ 285 +S+ +V ++E A K +++ ++ Sbjct: 237 ISQAQVSRLEKNALKAMKKYME 258 >gi|150389982|ref|YP_001320031.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|149949844|gb|ABR48372.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 258 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 56/255 (21%), Positives = 115/255 (45%), Gaps = 15/255 (5%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 EE + + + GDL A +LV+ +L L+ + + G ++ G+IGL++A++ Sbjct: 17 HEETMTLIQMAQKGDLQAQEKLVSHNLGLIRSVIKRFSNRGYDREDLFQLGSIGLIKAIR 76 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD R +TY++ I ++ + LR ++K+ + Q R+K + + Sbjct: 77 KFDISFNVRFSTYAVPMIIGEIKRF-LRDDGIIKVSRSLKQ-----TASRVKVTKEKLFK 130 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + + IAK L +++ E++ E L +I+ D + D + Sbjct: 131 EFGREPTLHEIAKVLEITKEEIVMALDSNMYPEYLYEVIHQDDGSPIHLIDKISETDSLD 190 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 + +I+K ML + L PRER+I R ++ T ++ +S+ +V + Sbjct: 191 DSEVIDK-------IMLKEVIGRLEPRERQIIILRYFKDKTQT--EIAKVLGISQVQVSR 241 Query: 272 IEARAFKKVQESIQK 286 IE + + +++ + K Sbjct: 242 IEKKVLQTMKDMMSK 256 >gi|315648111|ref|ZP_07901212.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus vortex V453] gi|315276757|gb|EFU40100.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus vortex V453] Length = 262 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/270 (22%), Positives = 123/270 (45%), Gaps = 50/270 (18%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPE 96 ++E GD A +L+ HL +V ++ GLP + ++ S G +GL+ A++KFD + Sbjct: 18 WKEDGDHEAKKKLIEYHLHIVDYVS-SRLAIGLPKNVSKGDLASNGVMGLIDAIEKFDYK 76 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLK 155 RG + TY+ W ++ A+ + LR V KR+ ++L + +L++++D+ + Sbjct: 77 RGLQFETYASWRVRGAILDS-LRQGDWVPRSVREKAKRIETAYQQLEQKYLRSVSDSEM- 134 Query: 156 PEQVVAIAKKLNVSESE------------VISMNCRLAGDES---LNALINSSDKNSSQW 200 + L+V+E E + S+ + +ES ++ L++ KN Sbjct: 135 -------SDYLDVTEKEFRHMLQEVAVMTLTSLEDPIREEESETRMSLLVDEKAKNP--- 184 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 DH E L R L + + L P+ER + L ++L ++ Sbjct: 185 ------DHKVHEFYL---------REALMKGIGKLTPKERTVVSL--LYYEDLSLSEIAE 227 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQVEL 290 +S R+ Q+ ++A +++ ++ K +L Sbjct: 228 VMSLSPSRISQLHSKAILRLRGALDKDRDL 257 >gi|254519270|ref|ZP_05131326.1| sporulation sigma factor SigK [Clostridium sp. 7_2_43FAA] gi|226913019|gb|EEH98220.1| sporulation sigma factor SigK [Clostridium sp. 7_2_43FAA] Length = 231 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 31/84 (36%), Positives = 48/84 (57%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++EE L + ++GD A L+ +LRLV I Y I E++S G +GL Sbjct: 30 PLDEEEEEQYL--KLLKNGDKEAKSILIERNLRLVAHIVKKYNFPNKDIDELISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ FD +G RLATY+ I+ Sbjct: 88 IKAIDSFDASKGTRLATYASRCIE 111 >gi|18310750|ref|NP_562684.1| sporulation sigma factor SigK [Clostridium perfringens str. 13] gi|168214245|ref|ZP_02639870.1| RNA polymerase sigma-70 factor family [Clostridium perfringens CPE str. F4969] gi|169343581|ref|ZP_02864580.1| RNA polymerase sigma-70 factor family [Clostridium perfringens C str. JGS1495] gi|170764185|ref|ZP_02633869.2| RNA polymerase sigma-70 factor family [Clostridium perfringens E str. JGS1987] gi|182420555|ref|ZP_02643878.2| RNA polymerase sigma-70 factor family [Clostridium perfringens NCTC 8239] gi|182625679|ref|ZP_02953448.1| RNA polymerase sigma-70 factor family [Clostridium perfringens D str. JGS1721] gi|18145431|dbj|BAB81474.1| probable transcription initiation factor sigma K [Clostridium perfringens str. 13] gi|169298141|gb|EDS80231.1| RNA polymerase sigma-70 factor family [Clostridium perfringens C str. JGS1495] gi|170660828|gb|EDT13511.1| RNA polymerase sigma-70 factor family [Clostridium perfringens E str. JGS1987] gi|170714308|gb|EDT26490.1| RNA polymerase sigma-70 factor family [Clostridium perfringens CPE str. F4969] gi|177909081|gb|EDT71556.1| RNA polymerase sigma-70 factor family [Clostridium perfringens D str. JGS1721] gi|182379749|gb|EDT77228.1| RNA polymerase sigma-70 factor family [Clostridium perfringens NCTC 8239] Length = 233 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 72/285 (25%), Positives = 118/285 (41%), Gaps = 70/285 (24%) Query: 9 IVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +V +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Sbjct: 10 LVGSKIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKK 68 Query: 68 YRGY---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 Y + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 69 YSSNYQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCID-------------- 114 Query: 125 KIGTTANQKRLFF-NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 N+ +FF N ++ KG V + + V + G+ Sbjct: 115 ------NEILMFFRNTKKTKGE--------------VFLQDPIGVDKE----------GN 144 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-VLNPRERRI 242 E I SSD +S ++E E + L + MS VL+PRE+ I Sbjct: 145 EICLIDILSSDSDS-----------------VLEAVENSLQVKELYKKMSDVLSPREKEI 187 Query: 243 FEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + R L + T ++ +SR V +IE +A KK+ + + Sbjct: 188 IQMRYGLLDGDIKTQREIAGILGISRSYVSRIEKKALKKLNKEFK 232 >gi|295102494|emb|CBL00039.1| RNA polymerase, sigma subunit, RpsG/SigG [Faecalibacterium prausnitzii L2-6] Length = 255 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 67/264 (25%), Positives = 121/264 (45%), Gaps = 30/264 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L +QE+ L R R GD A ++ +LRLV+ + + G + ++ G I Sbjct: 14 ELPILSEQEKRDLLTRAR-AGDKKARQSMIEGNLRLVLSVVQRFSQRGENMDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-----LR-SWSLVKIGTTANQKRLFFN 138 GL++A+ FDP + R +TY + I ++ ++ LR S SL A Q R Sbjct: 73 GLIKAIDNFDPAQQVRFSTYGVPMIIGEIRRFLRDNNALRVSRSLRDTAYRAMQSR---- 128 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 L+ L + V IA+K +S EV + + SL + + ++ Sbjct: 129 -EELEKQLG-------REPTVDEIAQKTGLSRREVSAALESVVEPLSLEEPVYADGGDAV 180 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D V D DG++ + + R+ +++ L PRE+RI E R L+ T + Sbjct: 181 YVIDQ-VRDPDGEDSWISGLQFRQ--------TVAGLTPREKRIMELRYLKGK--TQMEV 229 Query: 259 SSEFEVSRERVRQIEARAFKKVQE 282 + E +S+ +V ++E A ++ + Sbjct: 230 AREIGISQAQVSRLEKAALEQFHQ 253 >gi|294673099|ref|YP_003573715.1| RNA polymerase sigma-70 factor family protein [Prevotella ruminicola 23] gi|294472548|gb|ADE81937.1| RNA polymerase sigma-70 factor family protein [Prevotella ruminicola 23] Length = 240 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 32/108 (29%), Positives = 59/108 (54%), Gaps = 2/108 (1%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 G + Y+ +I L +EE L +R GD +A ++L+ ++LR V+ A+ +P Sbjct: 11 GFNVYLEQIENNQPLTMEEEQELGRRIMA-GDTTARNKLIEANLRFVLTCAIDMATPFVP 69 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 I E+++ GN GL A +++P +Y++ I+ A+ E I R+W+ Sbjct: 70 IEELIAAGNYGLTIAAARYNPSFDNHFCSYAVHHIRRAISEAI-RTWT 116 >gi|313901033|ref|ZP_07834521.1| RNA polymerase sigma-K factor [Clostridium sp. HGF2] gi|312953991|gb|EFR35671.1| RNA polymerase sigma-K factor [Clostridium sp. HGF2] Length = 242 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 65/246 (26%), Positives = 99/246 (40%), Gaps = 65/246 (26%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D A ++L+ +LRLV I Y +++S G IGL++AV F PE+G +L TY+ Sbjct: 44 DEEARNKLIEHNLRLVAHIVKKYDIKKEQTEDLISIGTIGLIKAVDSFKPEKGHKLTTYA 103 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 I+ + Y LR K + Q Sbjct: 104 SKCIENEILMY----------------------LRSSKNYFQ------------------ 123 Query: 166 LNVSESEVISMNCRLAGDESLNALIN--SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 NVS +E I+ + D S LI+ SS ++SS D +V D+ + Sbjct: 124 -NVSLNEPIATD----KDGSEITLIDAISSPEDSSIIDDMIVEDNIAR------------ 166 Query: 224 RRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L R + VL+ RE I R + T ++ + +SR V +IE RAF K+ Sbjct: 167 ----LKRYIHVLDARELEIITKRFGLYGQEEETQREIARQLHISRSYVSRIEKRAFMKIY 222 Query: 282 ESIQKQ 287 QK+ Sbjct: 223 REFQKE 228 >gi|255085668|ref|XP_002505265.1| predicted protein [Micromonas sp. RCC299] gi|226520534|gb|ACO66523.1| predicted protein [Micromonas sp. RCC299] Length = 477 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 24/71 (33%), Positives = 44/71 (61%), Gaps = 5/71 (7%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +S+++ EG GL A KFDP+RG+R +TY+ +WIK A+ + + S +++ N+ Sbjct: 116 LSVSDLMQEGCAGLATAADKFDPQRGYRFSTYAFFWIKKAVIDCVGNSGRTIRLPIHVNE 175 Query: 133 KRLFFNLRRLK 143 N++++K Sbjct: 176 -----NIQKMK 181 >gi|313901043|ref|ZP_07834531.1| RNA polymerase sigma-G factor [Clostridium sp. HGF2] gi|312954001|gb|EFR35681.1| RNA polymerase sigma-G factor [Clostridium sp. HGF2] Length = 259 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 57/242 (23%), Positives = 113/242 (46%), Gaps = 30/242 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD SA L+ +L+LV+ I + + ++ G IGL++++ FD + R + Sbjct: 32 QQGDESAKETLINGNLKLVLSIVQRFSNRCENMDDLFQVGCIGLVKSIDNFDLKHEVRFS 91 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR ++++ + + K L + +LK + + K V + Sbjct: 92 TYAVPMIMGEIKRY-LRDNQVIRV--SRHLKDLAYRAFKLK---EEYVHKHQKEPSVSWL 145 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---- 218 A++L V E +++ L +S+ ++ VY+ DG E L+++ Sbjct: 146 AQQLEVKEKDIVDA---LDSTQSVLSIFEP------------VYNSDGDELFLLDQIKDD 190 Query: 219 ---EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 ER N L RS++ L +E I + R Q+ +T ++ E +S+ +V ++E Sbjct: 191 KDEIERLNNLMALKRSLTRLKGKELDIIQKRYYQD--MTQTEIAGELGISQAQVSRLEKN 248 Query: 276 AF 277 A Sbjct: 249 AI 250 >gi|260892756|ref|YP_003238853.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ammonifex degensii KC4] gi|260864897|gb|ACX52003.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ammonifex degensii KC4] Length = 245 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 109/245 (44%), Gaps = 22/245 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV ++L LV K+ + G G ++ G IGL++A+ +FDP+RG + Sbjct: 20 QEGDPQARELLVRANLGLVGKVVRRFAGQGREGEDLFQIGCIGLLKAIDRFDPQRGTCFS 79 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY++ I ++ + LR ++K+ + + +R+ LK L + V Sbjct: 80 TYAVATILGEIRRF-LRDDGMLKVSRSLKETSRRVIRTRASLKMALG-------REPSVA 131 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 IA+ L ++ EV+ L + + + W+D L EKEE Sbjct: 132 EIAESLGIAVEEVVMALEAGKAPAFLQEPLAGEGEEALCWEDCLSS----------EKEE 181 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L S+ L RER I R T E ++ + +S+ +V ++E A +K+ Sbjct: 182 SWLETLSLRESLRRLPAREREIIWWRFF--AGYTQEEVAKQLGISQAQVSRLERNALQKL 239 Query: 281 QESIQ 285 +E ++ Sbjct: 240 REELE 244 >gi|225574950|ref|ZP_03783560.1| hypothetical protein RUMHYD_03029 [Blautia hydrogenotrophica DSM 10507] gi|225037797|gb|EEG48043.1| hypothetical protein RUMHYD_03029 [Blautia hydrogenotrophica DSM 10507] Length = 225 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 32/94 (34%), Positives = 55/94 (58%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +QEE V+ K E + A L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 21 PLDAQQEEKVIQKLGTEQ-EKEAKALLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGL 79 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 80 IKAINTFNPVKKIKLATYASRCIENEILMYLRRN 113 >gi|328958265|ref|YP_004375651.1| RNA polymerase sigma factor SigD [Carnobacterium sp. 17-4] gi|328674589|gb|AEB30635.1| RNA polymerase sigma factor SigD [Carnobacterium sp. 17-4] Length = 238 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 53/211 (25%), Positives = 108/211 (51%), Gaps = 17/211 (8%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G IGLM A++KFD + Y+ IK ++ + I ++ + + T + ++ R Sbjct: 41 GVIGLMDALEKFDKSKKVPFEGYAYIRIKGSIIDEIRKTAPVSR--TRMGKLNEYY---R 95 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL--AGDESLNALINSSDKNSSQ 199 K L+A ++ I ++L + E + ++ + SL ++ S D NS + Sbjct: 96 AKEKLEATL---MRTPTEKEICEELKIDEKALTKIHETVHNLASISLEKVMFSDDGNSIE 152 Query: 200 WQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D+L H+ G E L++KE R+ +LT+++S L+ RE+ I ++E ++L+ + Sbjct: 153 LIDFLEDKHETGSEDTLLDKE----RQQLLTKNVSKLDKREQTILNLYYVEE--LSLKEI 206 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + F++S RV QI + K++E ++++ + Sbjct: 207 AYIFDISVPRVSQIHGKMILKLKELMRREYD 237 >gi|89895050|ref|YP_518537.1| hypothetical protein DSY2304 [Desulfitobacterium hafniense Y51] gi|89334498|dbj|BAE84093.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 260 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 57/267 (21%), Positives = 125/267 (46%), Gaps = 27/267 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L +E L R ++GD A RL+ +L+L+ + + G + ++ G I Sbjct: 12 RFPLLSDEEMMDLLHR-AQNGDAEARERLINCNLKLIFNLVQRFSHRGYELEDLFQIGTI 70 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ KFD G + +TY++ I ++ + LR VK+ + K L + + + + Sbjct: 71 GLIKAIDKFDFTYGVKFSTYAVPMIIGEIRRF-LRDDHPVKVPRS--YKELVYKVNKARE 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L A + + IA+ + V +++S +L A+ + + + + +QD Sbjct: 128 SLSATLGRD---PTIGEIAESIGVDREDIVS---------ALEAVQSPTSIHDTLYQD-- 173 Query: 205 VYDHDG---QEQVLIEKEERKN--RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 D D +Q+ +EK+ + L + L RE+R+ R ++ T ++ Sbjct: 174 --DSDPIYILDQLPMEKDLEAGWFEKIALKEVLDKLPEREKRVLMMRFYEDK--TQSEIA 229 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 + +S+ ++ +IE A ++++ + + Sbjct: 230 ALLNLSQVQISRIERAALHRIRQYLHE 256 >gi|317970154|ref|ZP_07971544.1| RNA polymerase sigma factor SigF [Synechococcus sp. CB0205] Length = 253 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 66/248 (26%), Positives = 116/248 (46%), Gaps = 31/248 (12%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHR--LVTSHLRLVVKIAM-GYRGYGLPISEVVSEGNIG 85 ++ Q++++L++ + D + AHR +V ++L LV K+A G ++ EG G Sbjct: 3 VQDQQQWLLSRYLK---DPNHAHRNAVVAANLPLVWKVARRESERSGHSFEDLAQEGVRG 59 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYI---LRSWSLVKIGTTANQKRLFFNLRRL 142 L++AV++FDP G+ L+T ++ WI+ AM+ Y+ R +S + Q+ RR Sbjct: 60 LIKAVERFDPSLGYTLSTAAVPWIRGAMRHYLRDRCRVFSGARNVIELLQRGAALQRRRE 119 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVS-----ESEVISMNCRLAGDESLNALINSSDKNS 197 + L + D++L A+ L S E++ + R+A SL+ SD + Sbjct: 120 QQGLSPMNDSSL--------ARALGCSQQRWQEAQALQTCLRVA---SLDQPGGGSDPET 168 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 + GQ L ER R L R + L +RR+ AR LQ+ T ++ Sbjct: 169 PLVEQLSDQQAPGQYGWL----ERCELRRQLWRGLKTLQASQRRLVLARVLQQR--TWQD 222 Query: 258 LSSEFEVS 265 L + +S Sbjct: 223 LGAMAGIS 230 >gi|218133795|ref|ZP_03462599.1| hypothetical protein BACPEC_01684 [Bacteroides pectinophilus ATCC 43243] gi|217991170|gb|EEC57176.1| hypothetical protein BACPEC_01684 [Bacteroides pectinophilus ATCC 43243] Length = 256 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 6/152 (3%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +RLVT ++ L+ I + G G + ++ G+IGL++A+ KFD R +TY Sbjct: 18 GDKEARNRLVTENMGLIWSIVKRFTGRGHELEDLFQIGSIGLIKAIDKFDTSYDVRFSTY 77 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR ++K+ + K + ++R + LQ E IA+ Sbjct: 78 AVPMITGEVKRF-LRDDGMIKVSRSL--KEIVVKVQRAREQLQKEMGEEPSME---MIAR 131 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKN 196 ++V E +++ + ES+ I SD N Sbjct: 132 AIDVPEEDIVMALEAGSEIESIYKTIYQSDGN 163 >gi|210610056|ref|ZP_03288235.1| hypothetical protein CLONEX_00421 [Clostridium nexile DSM 1787] gi|210152667|gb|EEA83673.1| hypothetical protein CLONEX_00421 [Clostridium nexile DSM 1787] Length = 208 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 32/85 (37%), Positives = 49/85 (57%), Gaps = 2/85 (2%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 IP+ +E+Y + K Y E GDL A H L+ +LRLV + Y+ +++S G IG Sbjct: 9 IPLTAAEEQYYIQK-YIE-GDLEAKHILIERNLRLVAHVIKKYQYLDDDPEDLISIGTIG 66 Query: 86 LMQAVKKFDPERGFRLATYSMWWIK 110 L++AV F+P + RL TY+ I+ Sbjct: 67 LIKAVATFNPSKNNRLGTYAARCIE 91 >gi|302535451|ref|ZP_07287793.1| RNA polymerase sigma-E factor [Streptomyces sp. C] gi|302444346|gb|EFL16162.1| RNA polymerase sigma-E factor [Streptomyces sp. C] Length = 288 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 26/74 (35%), Positives = 42/74 (56%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +RG P+ ++V G IGL++A+ +FDPERG T++M I Sbjct: 65 LVELNLSLVKYAARRFRGRSEPMEDIVQVGTIGLIKAINRFDPERGVEFTTFAMPTISGE 124 Query: 113 MQEYILRSWSLVKI 126 ++ + + VK+ Sbjct: 125 IKRFFRDTSWAVKV 138 >gi|167751709|ref|ZP_02423836.1| hypothetical protein EUBSIR_02718 [Eubacterium siraeum DSM 15702] gi|167655517|gb|EDR99646.1| hypothetical protein EUBSIR_02718 [Eubacterium siraeum DSM 15702] gi|291558002|emb|CBL35119.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium siraeum V10Sc8a] Length = 261 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 38/150 (25%), Positives = 79/150 (52%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L++ E+ L ++ R GD +A +L+ +LRLV+ + + G G ++ G I Sbjct: 20 KLKVLKESEKTELLRQMR-SGDPTAREKLINGNLRLVLSVIQRFSGRGENPDDLFQVGCI 78 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ F + R +TY++ I ++ Y+ S S I + + + L + + + Sbjct: 79 GLMKAIDNFSTDFNVRFSTYAVPMIMGELRRYLRDSGS---IRVSRSMRDLAYKAMQAR- 134 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + +T++N K + IAK+++ +V+ Sbjct: 135 --EKLTNDNSKEPTIEQIAKEIDAKREDVV 162 >gi|331269204|ref|YP_004395696.1| FliA/WhiG family RNA polymerase sigma 28 subunit [Clostridium botulinum BKT015925] gi|329125754|gb|AEB75699.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium botulinum BKT015925] Length = 252 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 55/242 (22%), Positives = 112/242 (46%), Gaps = 20/242 (8%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +LV +L LV I+ + G ++ G++GL++A+ FD + +TY Sbjct: 27 GDKKAVDQLVQKNLPLVSAISKKFLNRGYEYEDIFQIGSMGLIKAINNFDSSYNVQFSTY 86 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTA--NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ +I R L+K+ + K+L ++ +L L N +P + + Sbjct: 87 AVPMIMGEIKRFI-RDDGLIKVSRSVKYTAKKLHYDKEKLTKQL------NREP-SIEEL 138 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 +K +S+ E+I + + + L I+ D + D +V D G+ L Sbjct: 139 SKFSGISKEEIIFSSEAINEPKYLYDTIHQDDGSPIYLIDKVVVDDKGEIDEL------- 191 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L ++S L+ R R+I R ++ +T ++ +S+ +V +IE + K ++E Sbjct: 192 -DKIALKEALSKLDQRSRQIIILRYFKD--ITQVKVAKMLGISQVQVSRIEKKVLKSMKE 248 Query: 283 SI 284 + Sbjct: 249 KL 250 >gi|167750689|ref|ZP_02422816.1| hypothetical protein EUBSIR_01667 [Eubacterium siraeum DSM 15702] gi|167656368|gb|EDS00498.1| hypothetical protein EUBSIR_01667 [Eubacterium siraeum DSM 15702] gi|291558233|emb|CBL35350.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum V10Sc8a] Length = 221 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 110/240 (45%), Gaps = 33/240 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +T H LV IA +R G+ E+ S G +GL++A FD RG + +TY++ I Sbjct: 9 FITEHFALVHSIAGRFRNRGIEYDELFSAGCVGLVKAGNNFDESRGLKFSTYAVPVIMGE 68 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +++ + R VK+ + + K L + RL+ L N +P + +A+KL ++ E Sbjct: 69 IKQ-LFRDGGTVKV--SRSLKELSLKICRLRDEL---IKNGEEP-HISVLAEKLGITPEE 121 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 LA SL + SS + D + +G + +E E+ K M R + Sbjct: 122 A-----SLALGASLPPVSLSS------YDDE--ENDEGSFDLPVEPEQPKALDRMALRQL 168 Query: 233 -SVLNPRERRIFEARRLQE--NPVTLENLS-SEFEVSRERVRQIEARAFKKVQESIQKQV 288 S L P +RR+ R +E T E L ++ +VSR KK+ E ++KQ+ Sbjct: 169 VSRLEPLDRRLIILRYSEECTQSRTAEILGMTQVQVSRRE---------KKILEGLRKQL 219 >gi|331083018|ref|ZP_08332137.1| RNA polymerase sigma-35 factor [Lachnospiraceae bacterium 6_1_63FAA] gi|330399755|gb|EGG79416.1| RNA polymerase sigma-35 factor [Lachnospiraceae bacterium 6_1_63FAA] Length = 241 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 39/129 (30%), Positives = 60/129 (46%), Gaps = 14/129 (10%) Query: 6 MSIIVNGEIGLS-------------RYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAH 51 M I V G + S YI +P L QEE + G A Sbjct: 1 MDICVGGNVKFSGFKGVFLPKKNELHYIGGAEVLPAPLTAQEEGEMLDALAGEGKEEARA 60 Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ +LRLVV IA + G+ + +++S G IGL++A+ FDP + +LATY+ I+ Sbjct: 61 CLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFDPVKKIKLATYASRCIEN 120 Query: 112 AMQEYILRS 120 + Y+ R+ Sbjct: 121 EILMYLRRN 129 >gi|323487067|ref|ZP_08092375.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323694575|ref|ZP_08108741.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323399568|gb|EGA91958.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323501343|gb|EGB17239.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 237 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 47/174 (27%), Positives = 83/174 (47%), Gaps = 12/174 (6%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A RLV ++ LV I + G G ++ G+IGL++A+ KFD R +TY Sbjct: 14 GDKAARERLVMDNVGLVWSIVRRFTGRGCETEDLFQIGSIGLIKAIDKFDTSYDVRFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR ++K+ + K L F + ++ L E+ I++ Sbjct: 74 AVPMITGEIKRF-LRDDGMIKVSRSI--KELGFKVSAVRESLSGSLGREPTLEE---ISE 127 Query: 165 KLNVSESEV---ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 L VS+ EV + C++ ESL A S + N+ D + + + E +L Sbjct: 128 ALEVSKEEVAASLEAGCQV---ESLYAPSGSGEDNTLSLIDKVAEEKEENEMLL 178 >gi|161898897|gb|ABX80438.1| SigB [Listeria monocytogenes] Length = 235 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 119/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 1 YIWIAAYQEDGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 60 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 61 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 114 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 115 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 171 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 172 DDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLDISQM 221 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 222 HVSRIQRQAIKKL 234 >gi|330959578|gb|EGH59838.1| putative RNA polymerase sigma factor [Pseudomonas syringae pv. maculicola str. ES4326] Length = 532 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 55/207 (26%), Positives = 96/207 (46%), Gaps = 17/207 (8%) Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 S N+GL +AV +F PE GFR +T ++ WI ++ + S+ +R+ N+ Sbjct: 327 SAANMGLTRAVYRFAPEMGFRFSTIALTWINVSISRDLADQESIRLPEGMHKHRRMIANM 386 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSS 198 R D+ + +A A KL E +V+ AG + S++ +D + + Sbjct: 387 LR---------DHPNVSIKTLAEATKL---EQDVVRDLVHFAGGQRSIDTAFQGTDSSEA 434 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLE 256 L+ D + + E E+ R+ + + VL RE + R + TL Sbjct: 435 DGLHELLADTN--NDFISEIEDDSMRQFVESALGDVLTQREIFVLVNRFGMGDAREKTLA 492 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQES 283 LS E ++S+ERVRQ+E +A K+++S Sbjct: 493 ELSIEMKLSKERVRQLEIQALGKIRDS 519 >gi|312622111|ref|YP_004023724.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312202578|gb|ADQ45905.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 240 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 56/241 (23%), Positives = 109/241 (45%), Gaps = 20/241 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +L+ S+L LV + + G+ + ++ G+IGL++AV +FDP R + Sbjct: 14 KNGDKLARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGSIGLIKAVDRFDPSFNVRFS 73 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR +K+ +++ N ++K N+ + + I Sbjct: 74 TYAVPMIIGEIKRY-LRDDGKIKVS-----RKIKENQGKIKKLRNQFVSNHGREPTISEI 127 Query: 163 AKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 ++ +S E++ C A E SL+ +IN + D + D ++L Sbjct: 128 SQLTGLSNDEILL--CLDASSEVASLSEVINQEEGKPITLMDIASDEEDYSTKLL----- 180 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + L RER I R + T ++ + +S+ V +IE RA +++ Sbjct: 181 ---DLMALKEGLKKLKGRERYIIFMRYFKNK--TQSEIAKQLNISQVHVSRIEKRALERI 235 Query: 281 Q 281 + Sbjct: 236 K 236 >gi|20807766|ref|NP_622937.1| DNA-directed RNA polymerase specialized sigma subunit [Thermoanaerobacter tengcongensis MB4] gi|20516321|gb|AAM24541.1| DNA-directed RNA polymerase specialized sigma subunit [Thermoanaerobacter tengcongensis MB4] Length = 240 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 58/259 (22%), Positives = 126/259 (48%), Gaps = 24/259 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K+EE + + ++ D ++ +L+ + L+ I + G + ++ G IG ++AV Sbjct: 2 KEEENLELIKLAKNNDKASLEKLILENSGLIWSIVKKFANRGYELEDLYQIGCIGFVKAV 61 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 +KFD + +TY++ I ++ + LR L+K+ + + L +++ + Sbjct: 62 QKFDESYNVKFSTYAVPIIMGEIKRF-LRDDGLIKVSRSLKE------LSSKAFYMKEVL 114 Query: 151 DNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 N L E + IA++LNV+ E+ A ESL D S + +D + + Sbjct: 115 SNELNREPTINEIAERLNVTPEEIAMAFESAATAESL------YDSISHEEEDRQLIEMV 168 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSV--LNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 G ++ ++ EE+ LT M + L PRE+++ R ++ +T +++ +S+ Sbjct: 169 GDKEDSVDLEEK------LTLHMIIDKLKPREKQVIFLRYFKD--MTQTEVANILGISQV 220 Query: 268 RVRQIEARAFKKVQESIQK 286 +V +IE + +K+++ ++K Sbjct: 221 QVSRIEKKVLEKIRKELEK 239 >gi|317499143|ref|ZP_07957420.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 5_1_63FAA] gi|316893556|gb|EFV15761.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 5_1_63FAA] Length = 231 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 51/199 (25%), Positives = 82/199 (41%), Gaps = 60/199 (30%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ +LRLVV IA + G+ + +++S G IGL++A+ F+P + +LATY+ Sbjct: 45 TARSMLIERNLRLVVYIAKKFDNTGIGVEDLISIGTIGLIKAINTFNPAKKIKLATYASR 104 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 I+ + Y LRR N K + V+I + LN Sbjct: 105 CIENEILMY----------------------LRR-----------NNKTKMEVSIDEPLN 131 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 V D N D L D D ++ + E + + + Sbjct: 132 V-----------------------DWDGNELLLSDILGTDED----IIYKDLEHEVDKKL 164 Query: 228 LTRSMSVLNPRERRIFEAR 246 LTR+M++L RE+ I E R Sbjct: 165 LTRAMTILTDREKMIIELR 183 >gi|121488787|emb|CAJ18278.1| sigma 70-type sigma factor [Prosthecochloris aestuarii] Length = 165 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 53/178 (29%), Positives = 88/178 (49%), Gaps = 33/178 (18%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA------AMQEYILRSWSLVKIGTTA 130 ++ EGN+GL++A K+FD RGF+ +Y++WWI+ A Q I+R L ++GT Sbjct: 1 DLXXEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSXLQALAEQSRIVR-LPLNRVGTLN 59 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNAL 189 + + L + + D N K +A L++ +S+ ++ ++AG S++A Sbjct: 60 KISKAYSQLEQ-----EYERDPNTK-----ELANVLDM-DSQDVADTLKIAGRHVSVDAP 108 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT----RSMSVLNPRERRIF 243 D N + D V HDGQ K + ++ LT RS+SVL PRE + Sbjct: 109 FAQGDDN--RLLD--VLQHDGQ------KPDYSLTKDSLTLEVERSLSVLAPREADVI 156 >gi|260589068|ref|ZP_05854981.1| RNA polymerase sigma-E factor [Blautia hansenii DSM 20583] gi|331082498|ref|ZP_08331623.1| hypothetical protein HMPREF0992_00547 [Lachnospiraceae bacterium 6_1_63FAA] gi|260540488|gb|EEX21057.1| RNA polymerase sigma-E factor [Blautia hansenii DSM 20583] gi|330400476|gb|EGG80106.1| hypothetical protein HMPREF0992_00547 [Lachnospiraceae bacterium 6_1_63FAA] Length = 208 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 29/83 (34%), Positives = 51/83 (61%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y L + Y++ G+L A + L+ +LRLV I Y+G + +++S G IGL Sbjct: 7 PLTSEEESYYL-QEYKQ-GNLEAKNILIERNLRLVAHIVKKYQGAPEEMDDLISIGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD ++ RL+TY+ I Sbjct: 65 IKAIHTFDAQKASRLSTYAARCI 87 >gi|254478776|ref|ZP_05092144.1| RNA polymerase sigma-G factor [Carboxydibrachium pacificum DSM 12653] gi|214035288|gb|EEB75994.1| RNA polymerase sigma-G factor [Carboxydibrachium pacificum DSM 12653] Length = 258 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 62/262 (23%), Positives = 125/262 (47%), Gaps = 21/262 (8%) Query: 25 KIPMLE--KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ KQ E ++ + +GD A + S+LRLV+ + + G + ++ G Sbjct: 16 KLPVLKPSKQRELLITMK---NGDKKAREEFINSNLRLVLSVIQRFNNRGESVDDLFQVG 72 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGL++A+ FD ++ + +TY++ I ++ Y LR + +++ + + L Sbjct: 73 CIGLIKAIDNFDLDQNVKFSTYAVPMIIGEIRRY-LRDNTPIRVSRSLRD----IAYKAL 127 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + +++N+ +P V IAK+L++ EV+ + SL I ++ D Sbjct: 128 QVRDKLVSENSKEP-TVGEIAKELDLPSEEVVMALDAIQEPVSLFEPIYHDGGDAIYVMD 186 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 V D ++V +EK L ++ LN RE+ I R E +E ++ E Sbjct: 187 Q-VSDDKNVDEVWLEK-------IALKEALEKLNEREKMIL-TMRFFEGKTQME-VAKEI 236 Query: 263 EVSRERVRQIEARAFKKVQESI 284 +S+ +V ++E A +++ I Sbjct: 237 GISQAQVSRLEKAALNHMRKYI 258 >gi|161898931|gb|ABX80455.1| SigB [Listeria monocytogenes] gi|161898937|gb|ABX80458.1| SigB [Listeria monocytogenes] Length = 237 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 119/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQEDGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 223 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 224 HVSRIQRQAIKKL 236 >gi|20808063|ref|NP_623234.1| sporulation sigma factor SigG [Thermoanaerobacter tengcongensis MB4] gi|20516644|gb|AAM24838.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 264 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 61/260 (23%), Positives = 127/260 (48%), Gaps = 17/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ ++ L R + +GD A + S+LRLV+ + + G + ++ G I Sbjct: 22 KLPVLKPSKQRELLIRMK-NGDKKAREEFINSNLRLVLSVIQRFNNRGESVDDLFQVGCI 80 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD ++ + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 81 GLIKAIDNFDLDQNVKFSTYAVPMIIGEIRRY-LRDNTPIRVSRSL--RDIAYKALQVRD 137 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L +++N+ +P V IAK+L++ EV+ + SL I ++ D Sbjct: 138 KL--VSENSKEP-TVGEIAKELDLPSEEVVMALDAIQEPVSLFEPIYHDGGDAIYVMDQ- 193 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D ++V +EK L ++ LN RE+ I R E +E ++ E + Sbjct: 194 VSDDKNVDEVWLEK-------IALKEALEKLNEREKMIL-TMRFFEGKTQME-VAKEIGI 244 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A +++ I Sbjct: 245 SQAQVSRLEKAALNHMRKYI 264 >gi|255305293|ref|ZP_05349465.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile ATCC 43255] Length = 233 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 116/237 (48%), Gaps = 19/237 (8%) Query: 53 LVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L+ ++ LV IA + G G ++V+ G IGL+ A+ KFD E+G + ++YS IK Sbjct: 6 LIKENMPLVKSIARKFFIPGKGFEYQDLVNSGVIGLIDAINKFDTEKGAKFSSYSYIKIK 65 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +A+ + I + K T K +N R+ LQ+ L+ IAK+L VSE Sbjct: 66 SAILDEIRNQSPISKHNLTKVNK---YN--RVVEKLQSKL---LREPTSYEIAKELKVSE 117 Query: 171 SEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E+ I N + SLN +I D N + QD + D +E+ E + + +L Sbjct: 118 KELHDIESNIDMLNIVSLNYVI-FEDTNET-VQDVI---SDREEEAPENIIEEEEKLEIL 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++++S LN RE+ I ++ + L+ + VS RV Q+ ++ + ++ I+ Sbjct: 173 SKAISNLNEREKLILSLYYYED--LNLKEIGKVLGVSESRVSQLHRKSIRNLRNKIK 227 >gi|167767678|ref|ZP_02439731.1| hypothetical protein CLOSS21_02213 [Clostridium sp. SS2/1] gi|167710695|gb|EDS21274.1| hypothetical protein CLOSS21_02213 [Clostridium sp. SS2/1] gi|291560812|emb|CBL39612.1| RNA polymerase, sigma 29 subunit, SigE [butyrate-producing bacterium SSC/2] Length = 240 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 51/199 (25%), Positives = 82/199 (41%), Gaps = 60/199 (30%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A L+ +LRLVV IA + G+ + +++S G IGL++A+ F+P + +LATY+ Sbjct: 54 TARSMLIERNLRLVVYIAKKFDNTGIGVEDLISIGTIGLIKAINTFNPAKKIKLATYASR 113 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 I+ + Y LRR N K + V+I + LN Sbjct: 114 CIENEILMY----------------------LRR-----------NNKTKMEVSIDEPLN 140 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 V D N D L D D ++ + E + + + Sbjct: 141 V-----------------------DWDGNELLLSDILGTDED----IIYKDLEHEVDKKL 173 Query: 228 LTRSMSVLNPRERRIFEAR 246 LTR+M++L RE+ I E R Sbjct: 174 LTRAMTILTDREKMIIELR 192 >gi|126697838|ref|YP_001086735.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile 630] gi|255099435|ref|ZP_05328412.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-63q42] gi|115249275|emb|CAJ67088.1| RNA polymerase sigma-28factor for flagellar operon [Clostridium difficile] Length = 233 Score = 55.1 bits (131), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 116/237 (48%), Gaps = 19/237 (8%) Query: 53 LVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L+ ++ LV IA + G G ++V+ G IGL+ A+ KFD E+G + ++YS IK Sbjct: 6 LIKENMPLVKSIARKFFIPGKGFEYQDLVNSGVIGLIDAINKFDAEKGAKFSSYSYIKIK 65 Query: 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +A+ + I + K T K +N R+ LQ+ L+ IAK+L VSE Sbjct: 66 SAILDEIRNQSPISKHNLTKVNK---YN--RVVEKLQSKL---LREPTSYEIAKELKVSE 117 Query: 171 SEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E+ I N + SLN +I D N + QD + D +E+ E + + +L Sbjct: 118 KELHDIESNIDMLNIVSLNYVI-FEDTNET-VQDVI---SDREEEAPENIIEEEEKLEIL 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++++S LN RE+ I ++ + L+ + VS RV Q+ ++ + ++ I+ Sbjct: 173 SKAISNLNEREKLILSLYYYED--LNLKEIGKVLGVSESRVSQLHRKSIRNLRNKIK 227 >gi|323702540|ref|ZP_08114203.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323532514|gb|EGB22390.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 260 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 68/267 (25%), Positives = 120/267 (44%), Gaps = 35/267 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L +E L K+ + GD A RLV +L+LV + + G + ++ G I Sbjct: 13 RFPLLGDKEMRDLIKKA-QAGDADARERLVNCNLKLVFNLVQRFNNRGYELEDLFQIGCI 71 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ KFD + +TY++ I ++ + LR S VK+ + K + +++ + Sbjct: 72 GLMKAIDKFDLSYDVKFSTYAVPMIVGEIRRF-LRDDSPVKVSRSL--KETAYKIQQTRD 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L A + + IA++L EV+S S+ ++ D + D L Sbjct: 129 RLTARLGRD---PSINEIAQELGCHREEVVSALEAAQTPTSIYETLHQDDGDPIYILDQL 185 Query: 205 VYDHDGQ---------EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 DG +Q+LIE ER +R+ +L R FE + ++ V L Sbjct: 186 SGADDGDSPWLEKLAVKQLLIELPER-DRQILLW-----------RFFEDK--TQSEVAL 231 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQE 282 S+ +VSR +E +A +K++E Sbjct: 232 RLGLSQVQVSR-----LERQALRKLKE 253 >gi|317472443|ref|ZP_07931767.1| RNA polymerase sigma-E factor [Anaerostipes sp. 3_2_56FAA] gi|316900087|gb|EFV22077.1| RNA polymerase sigma-E factor [Anaerostipes sp. 3_2_56FAA] Length = 238 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 32/99 (32%), Positives = 57/99 (57%), Gaps = 1/99 (1%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 EI P+ K+EE ++ K + A +L+ +LRLVV IA + G+ + +++S Sbjct: 27 EILPAPLEAKEEEKMIHKLGTAE-EPEARAKLIERNLRLVVYIAKKFDNTGIGVEDLISI 85 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G IGL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 86 GTIGLIKAINTFNPAKKIKLATYASRCIENEILMYLRRN 124 >gi|323702739|ref|ZP_08114399.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323532256|gb|EGB22135.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 232 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 37/106 (34%), Positives = 55/106 (51%), Gaps = 1/106 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++NG I L Y+ R L +EE L R + GD A LV +LRLV IA + Sbjct: 13 LINGLIFLVSYLSSGRLPDPLSAEEEQELLSRL-QQGDQLARSVLVERNLRLVATIANKH 71 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQ 114 + G+ ++ G IGL++AV F+P R + ATY+ I+ M+ Sbjct: 72 KDRGIDKQDLFQVGVIGLIKAVNTFNPARTNKFATYAGVCIENEMR 117 >gi|307717634|gb|ADN88870.1| RNA polymerase sigma-37 factor [Listeria seeligeri] Length = 220 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 104/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV ++ LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVNYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|291542453|emb|CBL15563.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Ruminococcus bromii L2-63] Length = 231 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 31/84 (36%), Positives = 48/84 (57%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ EKQE L K +GD++A + LV +LRLV I Y G ++VS G IGL Sbjct: 28 PLTEKQERECLEKS--ANGDIAARNMLVEHNLRLVAHIIKKYYGTQSEQDDLVSIGTIGL 85 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ FD + +L++Y+ I+ Sbjct: 86 IKAINTFDMNKNIKLSSYASRCIE 109 >gi|224370767|ref|YP_002604931.1| FliA [Desulfobacterium autotrophicum HRM2] gi|223693484|gb|ACN16767.1| FliA [Desulfobacterium autotrophicum HRM2] Length = 238 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 56/222 (25%), Positives = 104/222 (46%), Gaps = 20/222 (9%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 E+VS G++GL+ AV KFD + L TY+ + IK A+ + LRS + + Sbjct: 28 ELVSAGSLGLIDAVDKFDSGKHVSLKTYAQYRIKGAILDE-LRSMD-------TYSRSMR 79 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSD 194 ++ + ++AI D P +AK L V M + G SL+A I + D Sbjct: 80 KKIQDISRAVKAIEDKKKGPASDNEVAKLLEVPLESYYDMLTDIHGAAILSLDAFIRTGD 139 Query: 195 KNSS---QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++S ++Q + +H + L+++EE K +L R+++ L +E+ + +E Sbjct: 140 NDTSSMTRFQAGIKGEHTPAD--LLDREELK---GVLARAVTTLTEKEQLVVSLYYYEE- 193 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 +TL+ + ++ R+ QI K++ I+ S+S Sbjct: 194 -LTLKEIGEVLTLTESRICQIHTAILIKLKVKIKDYYGSSTS 234 >gi|167745312|ref|ZP_02417439.1| hypothetical protein ANACAC_00003 [Anaerostipes caccae DSM 14662] gi|167655033|gb|EDR99162.1| hypothetical protein ANACAC_00003 [Anaerostipes caccae DSM 14662] Length = 243 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 32/99 (32%), Positives = 57/99 (57%), Gaps = 1/99 (1%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 EI P+ K+EE ++ K + A +L+ +LRLVV IA + G+ + +++S Sbjct: 32 EILPAPLEAKEEEKMIHKLGTAE-EPEARAKLIERNLRLVVYIAKKFDNTGIGVEDLISI 90 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G IGL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 91 GTIGLIKAINTFNPAKKIKLATYASRCIENEILMYLRRN 129 >gi|110799358|ref|YP_696454.1| sporulation sigma factor SigK [Clostridium perfringens ATCC 13124] gi|110674005|gb|ABG82992.1| RNA polymerase sigma-70 factor family [Clostridium perfringens ATCC 13124] Length = 233 Score = 54.7 bits (130), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 71/285 (24%), Positives = 119/285 (41%), Gaps = 70/285 (24%) Query: 9 IVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +V +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Sbjct: 10 LVGSKIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKK 68 Query: 68 YRGY---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 Y + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 69 YSSNYQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCID-------------- 114 Query: 125 KIGTTANQKRLFF-NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 N+ +FF N ++ KG V + + V + G+ Sbjct: 115 ------NEILMFFRNTKKTKGE--------------VFLQDPIGVDKE----------GN 144 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-VLNPRERRI 242 E I SSD +S ++E E + L + MS +L+PRE+ I Sbjct: 145 EICLIDILSSDSDS-----------------VLEAVENSLQVKELYKKMSDILSPREKEI 187 Query: 243 FEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + R L + T +++ +SR V +IE +A KK+ + + Sbjct: 188 IKMRYGLLDGDIKTQREIAAILGISRSYVSRIEKKALKKLNKEFK 232 >gi|297560171|ref|YP_003679145.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296844619|gb|ADH66639.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 313 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 49/197 (24%), Positives = 95/197 (48%), Gaps = 13/197 (6%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V + L+ KIA Y G G P+ ++ +GL++AV+ +DP RG +Y + + Sbjct: 84 RVVVLYQPLINKIARRYGGRGEPLEDLKQTAMVGLVKAVRGYDPARGKPFISYLLPTVTG 143 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + R+ LRR+ G Q + + V +++++ + E+ Sbjct: 144 EIKRHFRDHTWAVRVPRRHQENRV--KLRRVTGEFQQA---HARTPTVHELSEEMGLPEA 198 Query: 172 EVISMNCRLAGDESLNAL-INSSDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLT 229 EV + + ES +L +++ D + S+ Q+ + DH G E + +R R L Sbjct: 199 EVGEL---IQVSESYRSLSLDAPDSSDSEGQEGTRLEDHLGCEDAAL---DRVVERESLK 252 Query: 230 RSMSVLNPRERRIFEAR 246 +++ L RER I R Sbjct: 253 PALARLPAREREILRLR 269 >gi|331085949|ref|ZP_08335032.1| hypothetical protein HMPREF0987_01335 [Lachnospiraceae bacterium 9_1_43BFAA] gi|330406872|gb|EGG86377.1| hypothetical protein HMPREF0987_01335 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 192 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 29/72 (40%), Positives = 45/72 (62%), Gaps = 1/72 (1%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 ++Y E GDL A H L+ +LRLV I Y+ +++S G +GL++AV F+PE+G Sbjct: 2 QKYTE-GDLEAKHILIEHNLRLVAHIVKKYQRPEEDNEDLISIGTVGLIKAVITFNPEKG 60 Query: 99 FRLATYSMWWIK 110 RL+TY+ I+ Sbjct: 61 NRLSTYAARCIE 72 >gi|154498128|ref|ZP_02036506.1| hypothetical protein BACCAP_02109 [Bacteroides capillosus ATCC 29799] gi|150273118|gb|EDN00275.1| hypothetical protein BACCAP_02109 [Bacteroides capillosus ATCC 29799] Length = 240 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 30/79 (37%), Positives = 47/79 (59%), Gaps = 1/79 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K EE L R E G+ + +L+ +LRLVV IA + G+ I +++S G IGL Sbjct: 38 PPLSKGEEAELIARLDE-GEETVKSQLIERNLRLVVYIARRFENTGVGIEDLISIGTIGL 96 Query: 87 MQAVKKFDPERGFRLATYS 105 ++A+ + P + +LATY+ Sbjct: 97 IKAINTYKPAKNIKLATYA 115 >gi|110803132|ref|YP_699053.1| sporulation sigma factor SigK [Clostridium perfringens SM101] gi|6715486|gb|AAF26431.1|AF218835_2 RNA polymerase sigma factor SigK [Clostridium perfringens] gi|110683633|gb|ABG87003.1| RNA polymerase sigma-70 factor family [Clostridium perfringens SM101] Length = 233 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 71/285 (24%), Positives = 118/285 (41%), Gaps = 70/285 (24%) Query: 9 IVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +V +I L+ Y+ P L ++EE + R ++ GD+ A LV +LRLV I Sbjct: 10 LVGSKIFLTGYVTGNSTFPKPLNEKEEKIYLDRLKD-GDVEAKRVLVERNLRLVAHIVKK 68 Query: 68 YRGY---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 Y + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 69 YSSNYQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCID-------------- 114 Query: 125 KIGTTANQKRLFF-NLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 N+ +FF N ++ KG V + + V + G+ Sbjct: 115 ------NEILMFFRNTKKTKGE--------------VFLQDPIGVDKE----------GN 144 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS-VLNPRERRI 242 E I SSD +S ++E E + L + MS +L+PRE+ I Sbjct: 145 EICLIDILSSDSDS-----------------VLEAVENSLQVKELYKKMSDILSPREKEI 187 Query: 243 FEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + R L + T +++ +SR V +IE +A KK+ + + Sbjct: 188 IKMRYGLLDGDIKTQREIAAILGISRSYVSRIEKKALKKLNKEFK 232 >gi|161898855|gb|ABX80417.1| SigB [Listeria monocytogenes] Length = 237 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 119/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVAGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 223 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 224 HVSRIQRQAIKKL 236 >gi|328880278|emb|CCA53517.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 290 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/234 (23%), Positives = 106/234 (45%), Gaps = 15/234 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++ LVV A +R G + ++V G IGL++A+ +FD R AT+++ +I Sbjct: 63 LIEMNMSLVVYAAGRFRARGDEMEDIVQVGMIGLIKAIDRFDLSREVEFATFAVPYIVGE 122 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ + S V + + R+ L ++ + +V +A +++SE + Sbjct: 123 IKRFFRDSTWAVHVPRRLQEARV-----ELAKATDELSSRLGRAPRVAELAPAMDLSEEQ 177 Query: 173 VISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V+ G SL+A + D S+ D + D GQE IE E + L Sbjct: 178 VVEAQVAANGYHSTSLDAAVAGGD---SEDDDAALADLIGQEDPAIELFEDF---HTLAP 231 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PR+R + R ++E +T + VS+ V ++ AR ++++ + Sbjct: 232 LVEALGPRDRLLLHLRFVEE--LTQSEIGERLGVSQMHVSRLLARNIERLRAGM 283 >gi|317121837|ref|YP_004101840.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter marianensis DSM 12885] gi|315591817|gb|ADU51113.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter marianensis DSM 12885] Length = 261 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 64/266 (24%), Positives = 120/266 (45%), Gaps = 34/266 (12%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKK 92 L +RYR D + L+ HL LV +A G LP + +++S G GLM+A+++ Sbjct: 14 LWRRYRTTADPESWEALIREHLPLVRYLA-GRMIIHLPPQVELDDLISYGIFGLMEAIRR 72 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 +DP RG + TY+ I+ AM + LR+ V + + RRL+ L ++ Sbjct: 73 YDPARGVKFETYAYTRIRGAMLDG-LRAMDWVPQTLRRRARDVEACYRRLENRLGRPAND 131 Query: 153 N-------LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + LKPE+ + ++L + + V+S++ + L + SD ++ V Sbjct: 132 DEVAAELGLKPEEFAGLLQEL--ARTTVVSLD---------DVLPSDSDDPAA------V 174 Query: 206 YDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 D D ++ + R L +++ L RER + + +T++ ++ Sbjct: 175 LDRLADPGATDPLQAATLADLRRRLADALAGLPERERLVVSLYYYEG--LTVKEIAEVMG 232 Query: 264 VSRERVRQIEARAFKKVQESIQKQVE 289 VS RV Q+ RA +++ + + E Sbjct: 233 VSPSRVSQLHTRAILRLRARLGAEEE 258 >gi|161898865|gb|ABX80422.1| SigB [Listeria monocytogenes] Length = 237 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 119/253 (47%), Gaps = 26/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVAGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLDISQM 223 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 224 HVSRIQRQAIKKL 236 >gi|146344354|ref|YP_001202210.1| putative RNA polymerase sigma factor [Pseudomonas fluorescens SBW25] gi|146188166|emb|CAM96497.1| putative RNA polymerase sigma factor [Pseudomonas fluorescens SBW25] Length = 533 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 56/207 (27%), Positives = 98/207 (47%), Gaps = 17/207 (8%) Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 S N+GL +AV +F PE GFR +T ++ WI ++ + S+ +R+ N+ Sbjct: 328 SAANMGLTRAVYRFAPEMGFRFSTIALTWINVSISRDLADQESIRLPEGMHKHRRMISNM 387 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSS 198 R + + ++ N+L A A KL E +V+ AG + S++ +D + + Sbjct: 388 LRDQPN---VSINSL------AEATKL---EQDVVRDLVHFAGGQRSIDTAFQGTDSSDA 435 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP--VTLE 256 L+ D + + E E+ R+ + + VL RE + R + TL Sbjct: 436 DGLHELLADTN--NDFMSEIEDDSMRQFVESALGDVLTQREIFVIVNRFGMGDAREKTLA 493 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQES 283 LS E +S+ERVRQ+E +A K+++S Sbjct: 494 ELSVEMNLSKERVRQLEIQALSKIRDS 520 >gi|317471864|ref|ZP_07931199.1| sigma-70 family RNA polymerase sigma factor [Anaerostipes sp. 3_2_56FAA] gi|316900637|gb|EFV22616.1| sigma-70 family RNA polymerase sigma factor [Anaerostipes sp. 3_2_56FAA] Length = 207 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 29/83 (34%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L K GD+ A + LV +LRLV I Y + +++S G IGL Sbjct: 7 PLSQEEEQYYLKKS--RLGDMEARNILVEHNLRLVAHIVKKYNNFDRDKDDLISVGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ ++ E+G RL TY+ I Sbjct: 65 IKAINTYNMEKGHRLVTYASRCI 87 >gi|119632740|gb|ABL84377.1| DNA directed RNA polymerase sigma 42 protein [Streptococcus suis] Length = 75 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 20/41 (48%), Positives = 31/41 (75%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I Sbjct: 1 DLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAI 41 >gi|150387863|ref|YP_001317912.1| RinA family phage transcriptional regulator [Alkaliphilus metalliredigens QYMF] gi|149947725|gb|ABR46253.1| phage transcriptional regulator, RinA family [Alkaliphilus metalliredigens QYMF] Length = 266 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 58/259 (22%), Positives = 124/259 (47%), Gaps = 32/259 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+ + + LV +L + ++ + G+ ++ ++GL+ A+++FD RGF Sbjct: 30 YQENKKVEVRNELVNRYLYIAEILSKKFLNKGIDYEDIYQVASLGLIYAIERFDLSRGFE 89 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++++ I ++++ + WS +++ + N ++ H N + + Sbjct: 90 FSSFATPTIIGEIKKHFRDKGWS-IRVPRRIQELSKKVNTAKMTLH-----QNLQRTPMI 143 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ----VL 215 IA+ LN ++ EV+ E++ A S + + D L YD+DG+++ + Sbjct: 144 KDIAEYLNCTQEEVM---------EAMEA----SQVYTPKSLD-LTYDNDGEDKDIQLID 189 Query: 216 IEKEERKN-----RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 + E+ KN R+ L ++M LN E+++ E R N T N++ E VS+ V Sbjct: 190 LIGEKDKNFDEIENRDFLKKAMRNLNEVEKKVLEDRFF--NSKTQMNVAEELNVSQMTVS 247 Query: 271 QIEARAFKKVQESIQKQVE 289 ++E R +K ++ + K +E Sbjct: 248 RMEKRIIEKFRKELNKSME 266 >gi|291532029|emb|CBK97614.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum 70/3] Length = 221 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 110/240 (45%), Gaps = 33/240 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +T H LV IA +R G+ E+ S G +GL++A FD RG + +TY++ I Sbjct: 9 FITEHFALVHSIAGRFRNRGIEYDELFSAGCVGLVKAGNNFDESRGLKFSTYAVPVIMGE 68 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +++ + R VK+ + + K L + RL+ L N +P + +A+KL ++ E Sbjct: 69 IKQ-LFRDGGTVKV--SRSLKELSLKICRLRDEL---IKNGEEP-HISVLAEKLGITPEE 121 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 LA SL + SS + D + +G + +E E+ K M R + Sbjct: 122 A-----SLALGASLPPVSLSS------YDDE--ENDEGSFDLPVEPEQPKALDRMALRQL 168 Query: 233 -SVLNPRERRIFEARRLQE--NPVTLENLS-SEFEVSRERVRQIEARAFKKVQESIQKQV 288 S L P +RR+ R +E T E L ++ +VSR KK+ E ++KQ+ Sbjct: 169 VSRLEPIDRRLIILRYSEECTQSRTAEILGMTQVQVSRRE---------KKILEGLRKQL 219 >gi|52080862|ref|YP_079653.1| sporulation sigma factor SigF [Bacillus licheniformis ATCC 14580] gi|52786234|ref|YP_092063.1| sporulation sigma factor SigF [Bacillus licheniformis ATCC 14580] gi|319645181|ref|ZP_07999414.1| RNA polymerase sigma-F factor [Bacillus sp. BT1B_CT2] gi|52004073|gb|AAU24015.1| RNA polymerase sporulation-specific sigma factor (sigma-F) [Bacillus licheniformis ATCC 14580] gi|52348736|gb|AAU41370.1| SigF [Bacillus licheniformis ATCC 14580] gi|317392990|gb|EFV73784.1| RNA polymerase sigma-F factor [Bacillus sp. BT1B_CT2] Length = 255 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 58/244 (23%), Positives = 110/244 (45%), Gaps = 28/244 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A L+ ++RLV + + G ++ G IGL+++V KFD R + Sbjct: 27 QNGDQKARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVRFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K L +RR K L + +N + V I Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRAKDEL---SKSNGRIPTVQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A L +S EV+ + S++ VY++DG +Q+ + Sbjct: 141 ADYLEISSEEVVMAQEAVRSPSSIHE---------------TVYENDGDPITLLDQIADQ 185 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 EE+ + L ++ L+ RE+ I R ++ T ++ +S+ +V ++E + Sbjct: 186 SEEKWFDKIALKEAIKDLDEREKLIVYLRYYKDK--TQSEVADRLGISQVQVSRLEKKIL 243 Query: 278 KKVQ 281 K+++ Sbjct: 244 KQIK 247 >gi|238928124|ref|ZP_04659884.1| sigma-70 area 2 domain protein [Selenomonas flueggei ATCC 43531] gi|238884084|gb|EEQ47722.1| sigma-70 area 2 domain protein [Selenomonas flueggei ATCC 43531] Length = 208 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 28/104 (26%), Positives = 58/104 (55%), Gaps = 1/104 (0%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 S Y+ ++ + L +EE L + Y++ GD +A R++ ++ LV + YR + Sbjct: 2 FSTYMKKLSAVKKLTPEEEKKLWRAYKDQGDAAARRRIIEAYQPLVFREVYPYRSLSAAM 61 Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + V EG IGL++AV+++DP G + Y++ ++ + +++ R Sbjct: 62 -DAVQEGTIGLIEAVERYDPHHGAAFSLYAVHRVRGRIHDFLRR 104 >gi|168180934|ref|ZP_02615598.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum NCTC 2916] gi|182668292|gb|EDT80271.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum NCTC 2916] Length = 242 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 66/249 (26%), Positives = 115/249 (46%), Gaps = 23/249 (9%) Query: 45 GDLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +L +V ++ LV IA +G Y + ++VS G IGLM A+ KFD +G + Sbjct: 6 NNLYVKEEIVKKYIPLVKYIASRVIIGKTKY-IEYEDLVSYGMIGLMDALNKFDESKGMK 64 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ IK +M + + R+ + K G R + +L+ L K ++ Sbjct: 65 FSTYASIRIKGSMIDELRRNSPISK-GAMDKLNRYNEAIEKLQKKLN-------KEPNLI 116 Query: 161 AIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +LNVS EV I SL LI SS+ L+ ++ EK Sbjct: 117 QIADELNVSLKEVSEIENYINYISVISLEDLIFSSEDEVP-----LIGTIKDEKSPSPEK 171 Query: 219 EERKNRR-NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +N + + L +++ +LN ++R + +E +TL+ + VS RV Q+ +RA Sbjct: 172 HVEENEQLDYLAKAIELLNEKDRLVVTLYYYEE--LTLKEIGKILNVSESRVCQLHSRAI 229 Query: 278 KKVQESIQK 286 +++++ K Sbjct: 230 IHLKKAMAK 238 >gi|293374267|ref|ZP_06620595.1| RNA polymerase sigma-K factor [Turicibacter sanguinis PC909] gi|292647100|gb|EFF65082.1| RNA polymerase sigma-K factor [Turicibacter sanguinis PC909] Length = 229 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 28/83 (33%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EE+ L +GD +A +L+ +LRLV I Y+ +++S G IGL Sbjct: 29 PLSAEEEEHYLT--LMANGDKNAREKLIEHNLRLVAHIVKKYQNQTDDKEDLISIGTIGL 86 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ F P++G +LATY+ I Sbjct: 87 IKAIDSFSPDKGTKLATYAARCI 109 >gi|145594674|ref|YP_001158971.1| sigma-70 region 2 domain-containing protein [Salinispora tropica CNB-440] gi|145304011|gb|ABP54593.1| sigma-70 region 2 domain protein [Salinispora tropica CNB-440] Length = 284 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 66/248 (26%), Positives = 115/248 (46%), Gaps = 25/248 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L ++A YRG G P+ ++ +GL+ AV ++DPERG A ++ + Sbjct: 46 LVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERGSFTAYAAITIVGEI 105 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + R+W V + +RL + + A+T + V +A++L E E Sbjct: 106 KRHFRDRTWG-VHV-----PRRLRDLILEVGQATAALTSELSRAPTVAELARRLETPEEE 159 Query: 173 VISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 +++ AG SLNA + ++S+++ D LV + D L ++R +L R Sbjct: 160 ILAALESAAGYSPASLNAPVGG--ESSAEFGD-LVGESD---NALESVDDRVTVSGLLHR 213 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 L RERRI A R N E +++ F +S+ V ++ +RA + +Q L Sbjct: 214 ----LPWRERRIL-AMRFYGNQTQAE-IAARFGISQMHVSRLLSRALTWL-----RQAML 262 Query: 291 SSSPPLLQ 298 + +PP Q Sbjct: 263 ADAPPPWQ 270 >gi|302874724|ref|YP_003843357.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium cellulovorans 743B] gi|302577581|gb|ADL51593.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium cellulovorans 743B] Length = 256 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 40/150 (26%), Positives = 79/150 (52%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L++ E L + + GD + + + +LRLV+ + + G ++ G I Sbjct: 14 KLPVLKEHEMRELLDKMKA-GDYISREKFIRGNLRLVLSVIQRFNNRGENADDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + R L+ Sbjct: 73 GLIKALDNFDLTQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYRALQV 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + +T+NN +P V IAK+L+V++ EVI Sbjct: 128 RDKLLTENNKEP-TVYQIAKELDVAKEEVI 156 >gi|167747049|ref|ZP_02419176.1| hypothetical protein ANACAC_01761 [Anaerostipes caccae DSM 14662] gi|167654009|gb|EDR98138.1| hypothetical protein ANACAC_01761 [Anaerostipes caccae DSM 14662] Length = 200 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 29/84 (34%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L K GD+ A + LV +LRLV I Y + +++S G IGL Sbjct: 7 PLSQEEEQYYLKKS--RLGDMEARNILVEHNLRLVAHIVKKYNNFDRDKDDLISVGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ ++ E+G RL TY+ I+ Sbjct: 65 IKAINTYNLEKGHRLVTYASRCIE 88 >gi|317063373|ref|ZP_07927858.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] gi|313689049|gb|EFS25884.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] Length = 54 Score = 54.7 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 19/42 (45%), Positives = 35/42 (83%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 +++SEGN+GL+ A++KFD +GFR +TY++WWIK ++ + ++ Sbjct: 5 DLISEGNLGLIYAIEKFDITKGFRFSTYAVWWIKQSISKAVI 46 >gi|187935615|ref|YP_001885389.1| sporulation sigma factor SigG [Clostridium botulinum B str. Eklund 17B] gi|187723768|gb|ACD24989.1| RNA polymerase sigma-G factor [Clostridium botulinum B str. Eklund 17B] Length = 257 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 41/150 (27%), Positives = 75/150 (50%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+PML K++E + GDLSA + +LRLV+ + + G + ++ G I Sbjct: 15 KLPML-KEKEKKQLLLALKKGDLSARETFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALIV 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + I DNN +P + IAK+L + EV+ Sbjct: 129 RDKFIKDNNKEP-TISQIAKELELPREEVV 157 >gi|161898849|gb|ABX80414.1| SigB [Listeria monocytogenes] Length = 236 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 202 >gi|154500348|ref|ZP_02038386.1| hypothetical protein BACCAP_04015 [Bacteroides capillosus ATCC 29799] gi|150270853|gb|EDM98136.1| hypothetical protein BACCAP_04015 [Bacteroides capillosus ATCC 29799] Length = 256 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 63/269 (23%), Positives = 133/269 (49%), Gaps = 35/269 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L+ +E L KR +E GD +A L+ +LRLV+ + + G + ++ G I Sbjct: 14 KLKVLKNEETVALLKRTKE-GDTAAREELIAGNLRLVLSVIQKFSNRGENVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ F+ + R +TY + I ++ Y LR S +++ + + L+ Sbjct: 73 GLIKAIDNFNTDLDVRFSTYGVPMIVGEIRRY-LRDNSSMRVSRSMRDT----AYKVLQA 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + + ++ +P + IAK L++ +V+ +++A+++ S ++ Sbjct: 128 KEKFMAEHQREP-TMEEIAKMLDLKREDVVF---------AMDAIMDP----VSLYEP-- 171 Query: 205 VYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRERRIFEARRLQENPVTL 255 VY DG + + + ++ K+ +N L ++S L+ RER I + R E + Sbjct: 172 VY-SDGGDAICV-MDQVKDSKNTDESWLEHIALKEAISHLSDRERHIL-SLRFFEGRTQM 228 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESI 284 E +S+E +S+ +V ++E A K+++S+ Sbjct: 229 E-VSAEIGISQAQVSRLEKSAIWKIRKSL 256 >gi|23978316|dbj|BAC21132.1| principal sigma factor [Anabaena cylindrica] Length = 188 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 50/199 (25%), Positives = 99/199 (49%), Gaps = 19/199 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++ EG++GL++A +K D E+G++ +TY+ WWI+ A+ I +++ Sbjct: 4 GLSFQDLIQEGSLGLIRAAEKLDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV--- 60 Query: 132 QKRLFFNLRRLKGHLQAIT-DNNLKP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 L+ + R+K + ++ + KP E+ +A ++ + + I+ + +L SL Sbjct: 61 --HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPI--SLETP 116 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRL 248 I + S+ D++ + DG+ E + KN R L + + L+PRER + R Sbjct: 117 IGKEE--DSRLGDFI--ESDGETP---EDQVSKNLLREDLEKVLDSLSPRERDVLRLRYG 169 Query: 249 QENP--VTLENLSSEFEVS 265 ++ TLE + F V+ Sbjct: 170 LDDGRMKTLEEIGQIFNVT 188 >gi|188588400|ref|YP_001920536.1| sporulation sigma factor SigG [Clostridium botulinum E3 str. Alaska E43] gi|251778549|ref|ZP_04821469.1| RNA polymerase sigma-G factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188498681|gb|ACD51817.1| RNA polymerase sigma-G factor [Clostridium botulinum E3 str. Alaska E43] gi|243082864|gb|EES48754.1| RNA polymerase sigma-G factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 257 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 41/150 (27%), Positives = 75/150 (50%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+PML K++E + GDLSA + +LRLV+ + + G + ++ G I Sbjct: 15 KLPML-KEKEKKQLLLALKKGDLSARETFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALIV 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + I DNN +P + IAK+L + EV+ Sbjct: 129 RDKFIKDNNREP-TISQIAKELELPREEVV 157 >gi|284046869|ref|YP_003397209.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] gi|283951090|gb|ADB53834.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] Length = 276 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/205 (26%), Positives = 93/205 (45%), Gaps = 27/205 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V HL L +A Y G P+ ++V ++GL++AV +FDP RG A+Y++ I Sbjct: 54 MVEQHLGLAHHLARRYSDRGEPLDDLVQVASLGLLKAVDRFDPARGVSFASYAVPTILGE 113 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRR-LKGHL-QAITDNNLKPE---QVVAIAKKL 166 ++ + R W+ I + K + L GH ++ T + L E V A+ + L Sbjct: 114 LRRHFRDRGWA---IHVPRDLKEAALRVESALAGHAGRSPTPSQLGKETGLDVEAVLEAL 170 Query: 167 NVSESE-VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 V+ + +S++ AG N + ++ D L D D + +R R Sbjct: 171 EVAGAHRALSLDA-PAG--------NEEEGTTATLVDRLGRDDD--------ELDRAGDR 213 Query: 226 NMLTRSMSVLNPRERRIFEARRLQE 250 + R SVL PRER I R +++ Sbjct: 214 ATIERLASVLEPREREILRLRFVED 238 >gi|161898871|gb|ABX80425.1| SigB [Listeria monocytogenes] Length = 229 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 63/252 (25%), Positives = 119/252 (47%), Gaps = 36/252 (14%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 1 YQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 60 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 61 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 114 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 115 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 171 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-----FEVSRER 268 V N+R +L + + VL+ RE++I + +EN S + ++S+ Sbjct: 172 V--------NQRMLLEKVLPVLDEREQKILQF-------TFIENRSQKETGELLDISQMH 216 Query: 269 VRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 217 VSRIQRQAIKKL 228 >gi|56963560|ref|YP_175291.1| sporulation sigma factor SigF [Bacillus clausii KSM-K16] gi|56909803|dbj|BAD64330.1| DNA-directed RNA polymerase sigma factor sigma-F [Bacillus clausii KSM-K16] Length = 254 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 63/268 (23%), Positives = 125/268 (46%), Gaps = 34/268 (12%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P+ +KQ + ++AK + GD A +V + RLV + + G ++ G Sbjct: 10 KKKPLSDKQVKELIAKS--QEGDTEARDSIVNHNTRLVWSVVQRFLNRGYEADDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K L +R+ K Sbjct: 68 IGLIKSVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSI--KELSNKIRKAK 124 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQ 201 L T + + IA+ L V+ E++ AGD SL+++ + Sbjct: 125 DEL---TKTLRRAPTINEIAEHLGVTPEEIV-----FAGDANRSLSSIHET--------- 167 Query: 202 DWLVYDHDGQEQVLIEKEERKNR-----RNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 VY++DG L+++ ++ + L ++ L RER I R ++ T Sbjct: 168 ---VYENDGDPITLLDQIADHSQVKWFDKIALKEAICDLGERERLIVYLRYYKDQ--TQS 222 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 ++ +S+ +V ++E + ++++E++ Sbjct: 223 EVAERLGISQVQVSRLEKKILEQMKETM 250 >gi|309775717|ref|ZP_07670714.1| RNA polymerase sigma-K factor [Erysipelotrichaceae bacterium 3_1_53] gi|308916522|gb|EFP62265.1| RNA polymerase sigma-K factor [Erysipelotrichaceae bacterium 3_1_53] Length = 249 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 68/263 (25%), Positives = 106/263 (40%), Gaps = 66/263 (25%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L+K+EE EH D A ++L+ +LRLV I Y +++S G IGL++ Sbjct: 28 LDKEEEARCISLLSEH-DEEARNKLIEHNLRLVAHIVKKYDIKKEQTEDLISIGTIGLIK 86 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 V F PE+G +L TY+ I+ + Y LR K + Q Sbjct: 87 GVDSFKPEKGHKLTTYASKCIENEILMY----------------------LRSSKNYFQ- 123 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN--SSDKNSSQWQDWLVY 206 NVS +E I+ + D S LI+ +S +++S D +V Sbjct: 124 ------------------NVSLNEPIATD----KDGSEITLIDAIASPEDTSIIDDMIVE 161 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEV 264 D+ + L R + VL+ RE I R + T ++ + + Sbjct: 162 DNIAR----------------LKRFIHVLDARELEIITKRFGLYGQEEETQREIARQLHI 205 Query: 265 SRERVRQIEARAFKKVQESIQKQ 287 SR V +IE RAF K+ QK+ Sbjct: 206 SRSYVSRIEKRAFMKIYREFQKE 228 >gi|307717606|gb|ADN88856.1| RNA polymerase sigma-37 factor [Listeria innocua] Length = 220 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 104/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA+ + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIAEFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|161898905|gb|ABX80442.1| SigB [Listeria monocytogenes] Length = 236 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 202 >gi|160878636|ref|YP_001557604.1| FliA/WhiG family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160427302|gb|ABX40865.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium phytofermentans ISDg] Length = 238 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 54/243 (22%), Positives = 108/243 (44%), Gaps = 16/243 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + GD A R+VT ++ LV I + G G ++ G+IGLM+A+ KFD Sbjct: 8 RLSKQGDKVARDRVVTENVGLVWSIVRRFMGRGHEAEDLFQIGSIGLMKAIDKFDLSYDV 67 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY++ I ++ + LR ++K+ + + L R + + N + + Sbjct: 68 KFSTYAVPMITGEIKRF-LRDDGMIKVSRSLKETAGKIRLMR-----ETLESKNGREPTI 121 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 I + L +++ EV+ A ESL I D N+ D + D ++++ Sbjct: 122 EEIGEALELAKEEVVMALESGAEVESLYKTIYQGDGNAIFLIDKIEQTDDASDEMI---- 177 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L M L+ +E+ I R ++ T ++ + +S+ +V ++E + + Sbjct: 178 ----DHMALREVMDSLDEKEKDIIRLRYFKDKTQT--EIAKQLGISQVQVSRLERKILRT 231 Query: 280 VQE 282 ++E Sbjct: 232 MRE 234 >gi|169334413|ref|ZP_02861606.1| hypothetical protein ANASTE_00813 [Anaerofustis stercorihominis DSM 17244] gi|169259130|gb|EDS73096.1| hypothetical protein ANASTE_00813 [Anaerofustis stercorihominis DSM 17244] Length = 250 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 57/249 (22%), Positives = 123/249 (49%), Gaps = 24/249 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD ++ L + L+ I Y Y + ++ G IGL++A+K+F E + + Sbjct: 23 QNGDKNSLEELTVINTPLINSILKRYLSYSISYDDLFQIGAIGLIKAIKRFSFEFNTKFS 82 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+++ I + Y R ++K+G N K ++ + ++ + N ++P + + Sbjct: 83 TYAVYVINGEYKRY-FRDEGIIKVG--RNLKTIYLKTKTIREDY--VKKNGVEP-SIDYL 136 Query: 163 AKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 ++K+ VS +V+ CR ESL+ +N+++ D + ++D E++ +EK + Sbjct: 137 SEKIGVSSEDVLMALEACRQP--ESLSKELNNNENTPILLMDKIKDENDSNEKI-VEKLD 193 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 KN ++ L R+R+I R + T + ++ +S+ +V ++E KK+ Sbjct: 194 LKN-------AIMNLEKRDRQIIVLRYFKNK--TQKEVAEVLGLSQVQVSRLE----KKI 240 Query: 281 QESIQKQVE 289 E+++K E Sbjct: 241 IENMKKTFE 249 >gi|161898859|gb|ABX80419.1| SigB [Listeria monocytogenes] Length = 236 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 62/253 (24%), Positives = 118/253 (46%), Gaps = 27/253 (10%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E GD A + LV + LV IA Y G E GNIGL+ A++++D Sbjct: 3 YIWIAAYQEDGDEDAQYNLVIHYKNLVESIARKY-SQGKSFHEDSQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E+V N+R +L + + VL+ RE++I + ++ + + ++S+ Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQM 222 Query: 268 RVRQIEARAFKKV 280 V +I+ +A KK+ Sbjct: 223 HVSRIQRQAIKKL 235 >gi|295092950|emb|CBK82041.1| DNA-directed RNA polymerase specialized sigma subunit [Coprococcus sp. ART55/1] Length = 128 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 31/99 (31%), Positives = 59/99 (59%), Gaps = 3/99 (3%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +LVT ++ LVV +A Y G G + +++ G IGL++A+ +FD + +L+TY Sbjct: 14 GDRDARDKLVTDNMGLVVSVARRYVGRGQELEDLIQIGLIGLVKAIDRFDMDYEVKLSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 ++ I+ ++ + LR +VK+ + N K +++ R + Sbjct: 74 AVPLIQGEIRRF-LRDDGMVKV--SRNLKTIYYRADRYR 109 >gi|325844829|ref|ZP_08168281.1| RNA polymerase sigma-K factor [Turicibacter sp. HGF1] gi|325489016|gb|EGC91404.1| RNA polymerase sigma-K factor [Turicibacter sp. HGF1] Length = 229 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 28/83 (33%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EE+ L +GD +A +L+ +LRLV I Y+ +++S G IGL Sbjct: 29 PLSPEEEEHYLT--LMANGDKNAREKLIEHNLRLVAHIVKKYQNQTDDKEDLISIGTIGL 86 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ F P++G +LATY+ I Sbjct: 87 IKAIDSFSPDKGTKLATYAARCI 109 >gi|284042121|ref|YP_003392461.1| RNA polymerase, sigma 32 subunit, RpoH [Conexibacter woesei DSM 14684] gi|283946342|gb|ADB49086.1| RNA polymerase, sigma 32 subunit, RpoH [Conexibacter woesei DSM 14684] Length = 300 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 59/241 (24%), Positives = 106/241 (43%), Gaps = 8/241 (3%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGY-GLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 G+ A LV + L+ +A YRG + +E++ G +GL+ A+++FDP R T Sbjct: 63 GETGARDELVDVFMPLIGSVARLYRGVTSVHRAELMQAGVVGLLTALERFDPSRRAPFWT 122 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WW++ AMQ+ + V + R L R++ + T + V +A Sbjct: 123 YASWWVRQAMQQVVAELARPVVM-----SDRGLRELARMRAARRDFTRLHDAGPSSVRLA 177 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 ++ + ++ E+L + SD++ + + G E+ +R Sbjct: 178 AATGLTRERIETLLALELVPETLESEPAWSDEDDLARRSGHPLEDPGAEEAFDRVLDRVE 237 Query: 224 RRNMLTRSMSVLNPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L R + L RER I AR L TL ++ +S ERVRQ+E A +++ Sbjct: 238 CDRLL-RLIGDLRQRERVILHARFGLDGQERTLREVARMVGLSAERVRQLEHEALDELRA 296 Query: 283 S 283 + Sbjct: 297 A 297 >gi|326204636|ref|ZP_08194492.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium papyrosolvens DSM 2782] gi|325985203|gb|EGD46043.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium papyrosolvens DSM 2782] Length = 257 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 62/278 (22%), Positives = 128/278 (46%), Gaps = 53/278 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +++ VL +R + GD SA + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNEQKKVLFERMHK-GDNSARDEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK- 143 GL++A+ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 74 GLIKAIDNFDVSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRS---------LRDIAY 123 Query: 144 GHLQA---ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 LQA +T N K + +A++L + + +++ +L+A+ + S + Sbjct: 124 KALQAKERLTTQNSKEPTIAELAQELQLPKEDIVF---------ALDAIQDPISLFESVY 174 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRER-----RIFEAR 246 HDG + + + ++ + +N+ L +M LN RE+ R FE R Sbjct: 175 -------HDGGDAIYV-MDQVSDDKNIDENWLETISLKEAMRKLNDREKLILNLRFFEGR 226 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E ++ E +S+ +V ++E A +++ I Sbjct: 227 TQME-------VADEIGISQAQVSRLEKTALMHMKKYI 257 >gi|188011585|gb|ACD45089.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011587|gb|ACD45090.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011589|gb|ACD45091.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011591|gb|ACD45092.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011593|gb|ACD45093.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011595|gb|ACD45094.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011597|gb|ACD45095.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011599|gb|ACD45096.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011601|gb|ACD45097.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011603|gb|ACD45098.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011605|gb|ACD45099.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011607|gb|ACD45100.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011609|gb|ACD45101.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011611|gb|ACD45102.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011613|gb|ACD45103.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011615|gb|ACD45104.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011617|gb|ACD45105.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011619|gb|ACD45106.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011621|gb|ACD45107.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011623|gb|ACD45108.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011625|gb|ACD45109.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011627|gb|ACD45110.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011629|gb|ACD45111.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011631|gb|ACD45112.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011633|gb|ACD45113.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011635|gb|ACD45114.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011637|gb|ACD45115.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011639|gb|ACD45116.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011641|gb|ACD45117.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011643|gb|ACD45118.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011645|gb|ACD45119.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011647|gb|ACD45120.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011649|gb|ACD45121.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011651|gb|ACD45122.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011653|gb|ACD45123.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011655|gb|ACD45124.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011657|gb|ACD45125.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011659|gb|ACD45126.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011661|gb|ACD45127.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011663|gb|ACD45128.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011665|gb|ACD45129.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011667|gb|ACD45130.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011669|gb|ACD45131.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011671|gb|ACD45132.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011673|gb|ACD45133.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011675|gb|ACD45134.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011677|gb|ACD45135.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011679|gb|ACD45136.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011681|gb|ACD45137.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011683|gb|ACD45138.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011685|gb|ACD45139.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011687|gb|ACD45140.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011689|gb|ACD45141.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011691|gb|ACD45142.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011693|gb|ACD45143.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011695|gb|ACD45144.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011697|gb|ACD45145.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011699|gb|ACD45146.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011701|gb|ACD45147.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011703|gb|ACD45148.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011705|gb|ACD45149.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011707|gb|ACD45150.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011709|gb|ACD45151.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011711|gb|ACD45152.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011713|gb|ACD45153.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011715|gb|ACD45154.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011717|gb|ACD45155.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011719|gb|ACD45156.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011721|gb|ACD45157.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011723|gb|ACD45158.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011725|gb|ACD45159.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011727|gb|ACD45160.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011729|gb|ACD45161.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011731|gb|ACD45162.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011733|gb|ACD45163.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011735|gb|ACD45164.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011737|gb|ACD45165.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011739|gb|ACD45166.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011741|gb|ACD45167.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011743|gb|ACD45168.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011745|gb|ACD45169.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011747|gb|ACD45170.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011749|gb|ACD45171.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011751|gb|ACD45172.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011753|gb|ACD45173.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011755|gb|ACD45174.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011757|gb|ACD45175.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011763|gb|ACD45178.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011865|gb|ACD45229.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011871|gb|ACD45232.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011873|gb|ACD45233.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011945|gb|ACD45269.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011947|gb|ACD45270.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011949|gb|ACD45271.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|211906951|gb|ACJ11994.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906953|gb|ACJ11995.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906955|gb|ACJ11996.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906957|gb|ACJ11997.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906959|gb|ACJ11998.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906961|gb|ACJ11999.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906963|gb|ACJ12000.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|281324219|gb|ADA60651.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324223|gb|ADA60653.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324225|gb|ADA60654.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324227|gb|ADA60655.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324229|gb|ADA60656.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324231|gb|ADA60657.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324233|gb|ADA60658.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324235|gb|ADA60659.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324237|gb|ADA60660.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324241|gb|ADA60662.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324243|gb|ADA60663.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324245|gb|ADA60664.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324247|gb|ADA60665.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324249|gb|ADA60666.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324251|gb|ADA60667.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324253|gb|ADA60668.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324255|gb|ADA60669.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324257|gb|ADA60670.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324259|gb|ADA60671.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324261|gb|ADA60672.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324263|gb|ADA60673.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324265|gb|ADA60674.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324267|gb|ADA60675.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324269|gb|ADA60676.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324271|gb|ADA60677.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324275|gb|ADA60679.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324277|gb|ADA60680.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324279|gb|ADA60681.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324281|gb|ADA60682.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324283|gb|ADA60683.1| RNA polymerase sigma factor B [Listeria monocytogenes] Length = 222 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 4 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 64 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 117 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 118 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 174 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 175 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 203 >gi|182418893|ref|ZP_02950150.1| RNA polymerase sigma-G factor [Clostridium butyricum 5521] gi|237667291|ref|ZP_04527275.1| RNA polymerase sigma-G factor [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377176|gb|EDT74744.1| RNA polymerase sigma-G factor [Clostridium butyricum 5521] gi|237655639|gb|EEP53195.1| RNA polymerase sigma-G factor [Clostridium butyricum E4 str. BoNT E BL5262] Length = 257 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 62/261 (23%), Positives = 119/261 (45%), Gaps = 19/261 (7%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L + + GD SA + +LRLV+ + + G I ++ G I Sbjct: 15 KLPILKEKEKKQLLLQMK-AGDKSARETFIKGNLRLVLSVIQRFNNRGENIDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALIV 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I DNN +P + IAK+L + EV+ + SL I ++ D + Sbjct: 129 REKFIKDNNKEP-TISQIAKELELPREEVVFALDAIQDPVSLYEPIYHDGGDAIYVMDQI 187 Query: 205 VYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 D E L N+ + +M L+ RE+ I R N T ++ E Sbjct: 188 SDSKDTDENWL---------ENISIKEAMKKLSDREKLILNLRFF--NGRTQMEVADEIG 236 Query: 264 VSRERVRQIEARAFKKVQESI 284 +S+ +V ++E A K +++ + Sbjct: 237 ISQAQVSRLEKTALKHMRKHV 257 >gi|85679193|gb|ABC72013.1| SigB [Listeria monocytogenes] gi|85679197|gb|ABC72015.1| SigB [Listeria monocytogenes] gi|85679199|gb|ABC72016.1| SigB [Listeria monocytogenes] gi|85679201|gb|ABC72017.1| SigB [Listeria monocytogenes] gi|85679203|gb|ABC72018.1| SigB [Listeria monocytogenes] gi|85679207|gb|ABC72020.1| SigB [Listeria monocytogenes] gi|85679209|gb|ABC72021.1| SigB [Listeria monocytogenes] gi|85679215|gb|ABC72024.1| SigB [Listeria monocytogenes] gi|307717584|gb|ADN88845.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|307717618|gb|ADN88862.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|307717628|gb|ADN88867.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] Length = 220 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|161898899|gb|ABX80439.1| SigB [Listeria monocytogenes] Length = 229 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|295695806|ref|YP_003589044.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] gi|295411408|gb|ADG05900.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] Length = 238 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 29/84 (34%), Positives = 48/84 (57%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++EE L + GD A + L+ +LRLV I + G +++S G IGL Sbjct: 30 PLSEEEEEQYLKQMAE--GDERARNLLIEHNLRLVAHIVKKFENTGEDTEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ F P +G +LATY+ I+ Sbjct: 88 IKAIESFQPHKGTKLATYAARCIE 111 >gi|225629823|ref|ZP_03787747.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Muscidifurax uniraptor] gi|225591324|gb|EEH12440.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Muscidifurax uniraptor] Length = 95 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 33/87 (37%), Positives = 50/87 (57%) Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 QD + + QE EE + + +L +++ LN R R IF +R L EN TL+ LS Sbjct: 1 QDMIPCNLVSQEVTYQNHEEEELKETILNNALASLNERARDIFISRYLSENIQTLDELSK 60 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ VSRER+RQ+ +A KV+ IQ + Sbjct: 61 KYCVSRERIRQLAEQAMAKVKPYIQSE 87 >gi|150390631|ref|YP_001320680.1| sporulation sigma factor SigE [Alkaliphilus metalliredigens QYMF] gi|149950493|gb|ABR49021.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 244 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 34/106 (32%), Positives = 60/106 (56%), Gaps = 2/106 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE L + + + + + L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 42 PPLSHDEERFLINKLK-NDESTVRTILIERNLRLVVYIARKFENTGIGVEDLISIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 ++AV F+P++ +LATY+ I+ + Y LR S VK+ + ++ Sbjct: 101 IKAVNTFNPDKNIKLATYASRCIENEILMY-LRRNSKVKMEVSFDE 145 >gi|58699678|ref|ZP_00374352.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] gi|58533807|gb|EAL58132.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] Length = 93 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 31/78 (39%), Positives = 48/78 (61%) Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 QE EE++ + +L +++ LN R R IF +R L EN TL+ LS ++ VSRER+ Sbjct: 8 SQEVTYQNHEEKELKEAILNNALASLNERARDIFISRYLSENIQTLDELSKKYCVSRERI 67 Query: 270 RQIEARAFKKVQESIQKQ 287 RQ+ +A KV++ IQ + Sbjct: 68 RQLAEQAMAKVKQYIQSE 85 >gi|322806877|emb|CBZ04447.1| RNA polymerase sporulation specific sigma factor SigK [Clostridium botulinum H04402 065] Length = 144 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 30/79 (37%), Positives = 47/79 (59%), Gaps = 2/79 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L + + GD A LV +LRLV I Y G I +++S G +GL Sbjct: 30 PLSDEEEKYYLDRL--KKGDALAKDILVERNLRLVAHIVKKYSYPGKDIDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYS 105 ++A+ FD +G RLATY+ Sbjct: 88 IKAIDSFDNSKGTRLATYA 106 >gi|266624394|ref|ZP_06117329.1| RNA polymerase sigma-E factor [Clostridium hathewayi DSM 13479] gi|288863758|gb|EFC96056.1| RNA polymerase sigma-E factor [Clostridium hathewayi DSM 13479] Length = 216 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 30/84 (35%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E L RY+E GD A L+ ++RLV +A Y+ + +++S G IGL Sbjct: 7 PLTAREERECL-DRYQE-GDQEARATLIERNMRLVAHVAKKYQNTDYDMEDLLSVGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++AV F +RG RLATY+ ++ Sbjct: 65 IKAVNTFHTDRGSRLATYAAKCVE 88 >gi|188011759|gb|ACD45176.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011761|gb|ACD45177.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011765|gb|ACD45179.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011767|gb|ACD45180.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011769|gb|ACD45181.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011771|gb|ACD45182.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011773|gb|ACD45183.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011775|gb|ACD45184.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011777|gb|ACD45185.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011779|gb|ACD45186.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011781|gb|ACD45187.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011783|gb|ACD45188.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011785|gb|ACD45189.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011787|gb|ACD45190.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011789|gb|ACD45191.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011791|gb|ACD45192.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011793|gb|ACD45193.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011795|gb|ACD45194.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011797|gb|ACD45195.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011799|gb|ACD45196.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011801|gb|ACD45197.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011803|gb|ACD45198.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011805|gb|ACD45199.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011807|gb|ACD45200.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011809|gb|ACD45201.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011811|gb|ACD45202.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011813|gb|ACD45203.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011815|gb|ACD45204.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011817|gb|ACD45205.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011819|gb|ACD45206.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011821|gb|ACD45207.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011823|gb|ACD45208.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011825|gb|ACD45209.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011827|gb|ACD45210.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011829|gb|ACD45211.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011831|gb|ACD45212.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011833|gb|ACD45213.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011835|gb|ACD45214.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011837|gb|ACD45215.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011839|gb|ACD45216.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011841|gb|ACD45217.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011843|gb|ACD45218.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011845|gb|ACD45219.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011847|gb|ACD45220.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011849|gb|ACD45221.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011851|gb|ACD45222.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011853|gb|ACD45223.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011855|gb|ACD45224.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011857|gb|ACD45225.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011859|gb|ACD45226.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011861|gb|ACD45227.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011863|gb|ACD45228.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011867|gb|ACD45230.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011869|gb|ACD45231.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011875|gb|ACD45234.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011877|gb|ACD45235.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011879|gb|ACD45236.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011881|gb|ACD45237.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011883|gb|ACD45238.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011885|gb|ACD45239.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011887|gb|ACD45240.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011889|gb|ACD45241.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011891|gb|ACD45242.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011893|gb|ACD45243.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011895|gb|ACD45244.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011899|gb|ACD45246.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011903|gb|ACD45248.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011905|gb|ACD45249.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011907|gb|ACD45250.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011909|gb|ACD45251.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011911|gb|ACD45252.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011913|gb|ACD45253.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011917|gb|ACD45255.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011919|gb|ACD45256.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011921|gb|ACD45257.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011923|gb|ACD45258.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011925|gb|ACD45259.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011927|gb|ACD45260.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011929|gb|ACD45261.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011931|gb|ACD45262.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011933|gb|ACD45263.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011935|gb|ACD45264.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011937|gb|ACD45265.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011939|gb|ACD45266.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011941|gb|ACD45267.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011943|gb|ACD45268.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|281324217|gb|ADA60650.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324221|gb|ADA60652.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324239|gb|ADA60661.1| RNA polymerase sigma factor B [Listeria monocytogenes] gi|281324273|gb|ADA60678.1| RNA polymerase sigma factor B [Listeria monocytogenes] Length = 222 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 4 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 64 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 117 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 118 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 174 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 175 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 203 >gi|78043803|ref|YP_360778.1| RNA polymerase sigma-F factor [Carboxydothermus hydrogenoformans Z-2901] gi|77995918|gb|ABB14817.1| RNA polymerase sigma-F factor [Carboxydothermus hydrogenoformans Z-2901] Length = 257 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 61/261 (23%), Positives = 126/261 (48%), Gaps = 25/261 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P L +QE L ++ + GD++A +L+ +L+LV K+ + G + ++ G I Sbjct: 12 RFPRLGEQEIKELIEKA-QKGDVAAREKLINCNLKLVFKVVERFLHRGYEVEDLFQIGTI 70 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ KFD ++ + +TY++ I ++ + LR ++I + + ++ LK Sbjct: 71 GLIKAIDKFDLKQQVKFSTYAVPMIVGEIRRF-LRDDQAIRISRSTKE----LGVKILKE 125 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL---INSSDKNSSQWQ 201 +A+T + + + + L S ++ L +SL +L ++ D + Sbjct: 126 K-EALTVKLGREPTIAELEETLGYSREAIVEA---LEAGQSLASLFETVHQDDGDPIYLL 181 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D + + D +EQ L+E N+ + +S L PRER I R +E T ++ Sbjct: 182 DQIKQEGD-EEQTLLE--------NISIKEVLSKLEPRERYILINRFFKEK--TQMEIAR 230 Query: 261 EFEVSRERVRQIEARAFKKVQ 281 +S+ +V ++E +A K++ Sbjct: 231 TLGISQVQVSRLERQALLKLK 251 >gi|297812573|ref|XP_002874170.1| hypothetical protein ARALYDRAFT_489269 [Arabidopsis lyrata subsp. lyrata] gi|297320007|gb|EFH50429.1| hypothetical protein ARALYDRAFT_489269 [Arabidopsis lyrata subsp. lyrata] Length = 517 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 58/253 (22%), Positives = 111/253 (43%), Gaps = 45/253 (17%) Query: 48 SAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +A ++L+ +LRLV+ + Y G ++ G GL+ A+ +F+P+R FRL+TY Sbjct: 278 AARNKLIKHNLRLVLFVMNKYFHDFTNGPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTY 337 Query: 105 SMWWIKAAMQEYILRSWSL------------VKIGTTANQKRLFFNLRRLKGHLQAITDN 152 ++WI+ A I+RS + V++ + L F L RL + + Sbjct: 338 GLFWIRHA----IIRSMTTSNFTRVPFGLESVRVEIFKTKTELLFELGRLPTEDEVVERL 393 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + PE+ + + + V+S+N + + +E +N + + D + ++ Sbjct: 394 KITPERYREVLR----AAKPVLSLNSKHSVTQEEFINGITDV---------DGVGANNSR 440 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRER 268 Q +L R L + L P+E + R + TL ++ +SRE Sbjct: 441 QPALL---------RLALDDVLDSLKPKESLVIRQRYGLDGKGDRTLGEIAGNLNISREM 491 Query: 269 VRQIEARAFKKVQ 281 VR+ E +A K++ Sbjct: 492 VRKHEVKALMKLK 504 >gi|161898841|gb|ABX80410.1| SigB [Listeria monocytogenes] Length = 234 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVKELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 202 >gi|159037890|ref|YP_001537143.1| anti-sigma-factor antagonist [Salinispora arenicola CNS-205] gi|157916725|gb|ABV98152.1| anti-sigma-factor antagonist [Salinispora arenicola CNS-205] Length = 374 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 64/248 (25%), Positives = 114/248 (45%), Gaps = 25/248 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L ++A YRG G P+ ++ +GL+ AV ++DPERG A ++ + Sbjct: 46 LVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERGSFTAYAAITIVGEI 105 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + R+W V + +RL + + A+T + V +A++L E E Sbjct: 106 KRHFRDRTWG-VHV-----PRRLRDLILEVGQATAALTSELSRAPTVAELARRLETPEEE 159 Query: 173 VISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 +++ AG SLNA + ++S+++ D + + E V ++R +L R Sbjct: 160 ILAALESAAGYSPASLNAPVGG--ESSAEFGDLVGESDNALESV----DDRVTVSGLLHR 213 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 L RERRI A R N E +++ F +S+ V ++ +RA + +Q L Sbjct: 214 ----LPWRERRIL-AMRFYGNQTQAE-IAARFGISQMHVSRLLSRALTWL-----RQAML 262 Query: 291 SSSPPLLQ 298 + +PP Q Sbjct: 263 ADAPPPWQ 270 >gi|188011915|gb|ACD45254.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] Length = 221 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 202 >gi|188011897|gb|ACD45245.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|188011901|gb|ACD45247.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|307717586|gb|ADN88846.1| RNA polymerase sigma-37 factor [Listeria seeligeri] gi|307717610|gb|ADN88858.1| RNA polymerase sigma-37 factor [Listeria seeligeri] gi|307717630|gb|ADN88868.1| RNA polymerase sigma-37 factor [Listeria seeligeri] gi|307717636|gb|ADN88871.1| RNA polymerase sigma-37 factor [Listeria ivanovii subsp. ivanovii] gi|307717638|gb|ADN88872.1| RNA polymerase sigma-37 factor [Listeria ivanovii subsp. londoniensis] gi|307717646|gb|ADN88876.1| RNA polymerase sigma-37 factor [Listeria ivanovii subsp. ivanovii] Length = 220 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|253578603|ref|ZP_04855875.1| sporulation sigma factor SigE [Ruminococcus sp. 5_1_39B_FAA] gi|251850921|gb|EES78879.1| sporulation sigma factor SigE [Ruminococcus sp. 5_1_39BFAA] Length = 238 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 34/120 (28%), Positives = 62/120 (51%), Gaps = 9/120 (7%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MNR + G +++ P+ K+E ++L K + A L+ +LRL Sbjct: 16 MNRSGEVFYIGG--------NDVLPAPLEPKREAFILQKLGTGQEE-EAKSVLIEHNLRL 66 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA + G+ + +++S G IGL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 67 VVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFNPVKNIKLATYASRCIENEILMYLRRN 126 >gi|261407955|ref|YP_003244196.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus sp. Y412MC10] gi|329929288|ref|ZP_08283041.1| RNA polymerase sigma factor, FliA/WhiG family [Paenibacillus sp. HGF5] gi|261284418|gb|ACX66389.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus sp. Y412MC10] gi|328936657|gb|EGG33100.1| RNA polymerase sigma factor, FliA/WhiG family [Paenibacillus sp. HGF5] Length = 262 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 60/270 (22%), Positives = 123/270 (45%), Gaps = 50/270 (18%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPE 96 ++E GD A +L+ HL +V ++ GLP + ++ S G +GL+ A++KFD + Sbjct: 18 WKEDGDHEAKKKLIEYHLHIVDYVS-SRLAIGLPKNVSKGDLASNGVMGLIDAIEKFDYK 76 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-KGHLQAITDNNLK 155 RG + TY+ W ++ A+ + LR V K++ ++L + +L++++D+ + Sbjct: 77 RGLQFETYASWRVRGAILDS-LRQGDWVPRSVREKAKKIETAYQQLEQKYLRSVSDSEM- 134 Query: 156 PEQVVAIAKKLNVSESE------------VISMNCRLAGDES---LNALINSSDKNSSQW 200 + L+V+E E + S+ + +ES ++ L++ KN Sbjct: 135 -------SDYLDVTEKEFRHMLQEVAVMTLTSLEDPIREEESETRMSLLVDEKAKNP--- 184 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 DH E L R L + + L P+ER + L ++L ++ Sbjct: 185 ------DHKVHEFYL---------REALMKGIGKLTPKERTVVSL--LYYEDLSLSEIAE 227 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQVEL 290 +S R+ Q+ ++A +++ ++ K +L Sbjct: 228 VMSLSPSRISQLHSKAILRLRGALDKDRDL 257 >gi|312135825|ref|YP_004003163.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311775876|gb|ADQ05363.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 246 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 61/261 (23%), Positives = 125/261 (47%), Gaps = 21/261 (8%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQ 88 +E +L +++ + D +L+ ++ LV K+ G Y G + ++VS G+IGL+ Sbjct: 2 DEALLWEKFIKTKDQKIKEQLIIKYMPLV-KLVAGRMAIYFGGNVEYDDLVSYGSIGLLD 60 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++KFD ++G + TY+ I+ A+ + + RS + K + ++ + Sbjct: 61 AIEKFDSQKGVKFETYAYTRIRGAIIDCV-RSQDFLPRSIRQKAKEIEKAYIEIEREGRT 119 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 TD +AK+L +S SE+ + +++ + + S + S + + + D Sbjct: 120 PTDYE--------VAKRLGISISELQKLQEKISS--GMIVSLESFLEQSYESKIGGLEDF 169 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 Q + IE EE K N+L + + L ER + +E ++++ ++ +S R Sbjct: 170 VSQPEHFIENEELK---NVLRQQIDNLMENERMVIMLYYYEE--LSIKEIAKILGISESR 224 Query: 269 VRQIEARAFKKVQESIQKQVE 289 V Q+ RA K++ ++QK +E Sbjct: 225 VSQLHTRALLKLRSALQKYLE 245 >gi|310815187|ref|YP_003963151.1| RNA polymerase, sigma 32 subunit, RpoH [Ketogulonicigenium vulgare Y25] gi|308753922|gb|ADO41851.1| RNA polymerase, sigma 32 subunit, RpoH [Ketogulonicigenium vulgare Y25] Length = 809 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 58/245 (23%), Positives = 111/245 (45%), Gaps = 27/245 (11%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA L+ HL V + A G +V +GL ++ ++FDPERG+R Y+ + Sbjct: 579 SATEHLIREHLPYVRRFASRNVDEGEDPEDVFQVAFMGLQRSTRRFDPERGYRFLIYATY 638 Query: 108 WIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAK 164 W++ A+ + + ++I N+K +L L RL + A++D + +A+ Sbjct: 639 WMRQAITRWRADEGAAIRIPVHRNEKITKLDRALERLDVRVGGAVSD--------LELAE 690 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L + EV + + A ++ D + + V+D E++L + Sbjct: 691 ELEWTIDEVKQFRG-IPREAEYPASLDDWDNLLPEPSEADVFDQTETERILAD------- 742 Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +++ L R+ + R +E +TLE + + V+RER+RQIEA+A + Sbjct: 743 ------ALAELPERQADVLRMRFGIGRETDMTLEEVGQIYGVTRERIRQIEAKALDHLSH 796 Query: 283 SIQKQ 287 +K+ Sbjct: 797 PGRKR 801 >gi|238916778|ref|YP_002930295.1| phosphatidylserine decarboxylase [Eubacterium eligens ATCC 27750] gi|238872138|gb|ACR71848.1| phosphatidylserine decarboxylase [Eubacterium eligens ATCC 27750] Length = 252 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 53/225 (23%), Positives = 103/225 (45%), Gaps = 18/225 (8%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK+ G Y GY + ++V G GL+ A+ KFD + + TY+ I+ A+ + Sbjct: 32 LVKLVAGRLNMYLGYNVEYDDLVGYGIFGLIDAIDKFDYGKNVKFETYASLRIRGAILDQ 91 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 I R + QKR+ + +++ I + +A +L +++ E+ Sbjct: 92 I-RKMDWIPRSLRQKQKRIEAAMTKIESETGHIASDE-------ELAAELGITQDELSDW 143 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 ++ +L +L ++ S + + H Q + +EKEE K M+ +++ L Sbjct: 144 QGKMKA-SNLISLDEYTEAGSEVKMESVGNSHFDQPEDAMEKEELK---KMMVKAIDSLT 199 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +ER + +E +TL+ +S EVS RV Q+ +A K++ Sbjct: 200 EKERSVVVLYYYEE--MTLKEISLTLEVSESRVSQLHTKALNKMK 242 >gi|261366886|ref|ZP_05979769.1| RNA polymerase sigma-E factor [Subdoligranulum variabile DSM 15176] gi|282571000|gb|EFB76535.1| RNA polymerase sigma-E factor [Subdoligranulum variabile DSM 15176] Length = 237 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 52/94 (55%), Gaps = 2/94 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +QE+ L G SA L+T +LRLVV IA + I +++S G IGL Sbjct: 36 PLDPQQEQQALEGLSAGKG--SARDLLITHNLRLVVYIAKKFETPSAGIEDMISIGTIGL 93 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++AV F+P + +LATY+ I+ + Y+ +S Sbjct: 94 IKAVNTFEPSKNIKLATYASRCIENEILMYLRKS 127 >gi|254729575|ref|YP_003084257.1| RNAP sigma factor [Cyanophage PSS2] gi|254211727|gb|ACT65675.1| RNAP sigma factor [Cyanophage PSS2] gi|265524923|gb|ACY75815.1| predicted protein [Cyanophage PSS2] Length = 284 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 33/92 (35%), Positives = 49/92 (53%), Gaps = 4/92 (4%) Query: 48 SAAHRLVTSHLRLVVKI-AMGYRGYGLPIS---EVVSEGNIGLMQAVKKFDPERGFRLAT 103 +A R+V +LRLV I Y + + E++ EG IGL A +FDP G+R +T Sbjct: 43 AALQRIVKGNLRLVAAIWKKRYLKRNIAPAHSLEILQEGAIGLNDAAMRFDPSSGYRFST 102 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++ WWI +M+EY S LV+ + K L Sbjct: 103 FASWWIIKSMKEYQRDSERLVRFKGDMHWKAL 134 >gi|260439092|ref|ZP_05792908.1| RNA polymerase sigma-F factor [Butyrivibrio crossotus DSM 2876] gi|292808404|gb|EFF67609.1| RNA polymerase sigma-F factor [Butyrivibrio crossotus DSM 2876] Length = 241 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/214 (25%), Positives = 92/214 (42%), Gaps = 24/214 (11%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A LV ++ LV IA + G + ++VS G IGL++A+ KFD L+TY Sbjct: 14 GNKEARDMLVMHNMGLVYSIAKRFANRGYEMDDIVSIGTIGLIKAIDKFDLNMDVMLSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIA 163 ++ I ++ +I R ++KI + + + + + K +L LK E + I+ Sbjct: 74 AVPMISGEIKRFI-RDDGIIKISRSIKENG--WKINQAKDYLS----QKLKREVTIEEIS 126 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY-----DHDGQEQVLIEK 218 K+ + +++ ES+ I SD N D L DHD Sbjct: 127 KETGICTEDIVVAMEASKDVESIYQTIYQSDGNQIYVVDKLAASAKESDHD--------- 177 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + ML +M++L E+ I E R QE Sbjct: 178 --KIMNHVMLEETMNILEKDEKTIIEMRYFQEKT 209 >gi|288572993|ref|ZP_06391350.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dethiosulfovibrio peptidovorans DSM 11002] gi|288568734|gb|EFC90291.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dethiosulfovibrio peptidovorans DSM 11002] Length = 189 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 27/77 (35%), Positives = 41/77 (53%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD SA L+ ++ LV IA + G +++ EG + L++ + FDP RGFR Sbjct: 19 EDGDPSAREDLILAYRPLVFWIAKKFNVGGDIYPDLIQEGMMALIKGIDSFDPSRGFRFT 78 Query: 103 TYSMWWIKAAMQEYILR 119 TY + I+ M Y+ R Sbjct: 79 TYGYYRIRGQMLNYLQR 95 >gi|211906943|gb|ACJ11990.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906945|gb|ACJ11991.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906947|gb|ACJ11992.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] gi|211906949|gb|ACJ11993.1| RNA polymerase sigma factor sigma B [Listeria monocytogenes] Length = 222 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 4 YIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 64 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 117 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 118 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 174 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 175 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 203 >gi|161898881|gb|ABX80430.1| SigB [Listeria monocytogenes] gi|161898907|gb|ABX80443.1| SigB [Listeria monocytogenes] Length = 233 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 60/247 (24%), Positives = 118/247 (47%), Gaps = 26/247 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 5 YQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 64 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 65 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 118 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 119 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 175 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 V N+R +L + + VL+ RE++I + ++ + + ++S+ V +I+ Sbjct: 176 V--------NQRMLLEKVLPVLDEREQKILQYTFIENR--SQKETGELLDISQMHVSRIQ 225 Query: 274 ARAFKKV 280 +A KK+ Sbjct: 226 RQAIKKL 232 >gi|167636574|ref|ZP_02394868.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Bacillus anthracis str. A0442] gi|167527997|gb|EDR90803.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Bacillus anthracis str. A0442] Length = 211 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 40/152 (26%), Positives = 80/152 (52%), Gaps = 11/152 (7%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNDE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + + I +N+ +P + IAK L V+ E++ Sbjct: 127 QVREKLIAENSKEP-TAMDIAKVLEVTHEEIV 157 >gi|291538695|emb|CBL11806.1| RNA polymerase, sigma subunit, RpsG/SigG [Roseburia intestinalis XB6B4] Length = 259 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 26/93 (27%), Positives = 54/93 (58%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R ++ GD +A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPILKEEEKDALFARIKQ-GDTAARETYIKGNLRLVLSVIKRFSGNHENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++++ FDP G + +TY++ I ++ Y+ Sbjct: 74 GLIKSIDNFDPTIGVKFSTYAVPMIIGEIRRYL 106 >gi|114566068|ref|YP_753222.1| sporulation sigma factor SigK [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337003|gb|ABI67851.1| sigma 28 (flagella/sporulation) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 244 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 33/102 (32%), Positives = 57/102 (55%), Gaps = 3/102 (2%) Query: 9 IVNGEIGLSRYIH-EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I+ G + L Y++ ++ P+ E+ E L + R G A + L+ +LRLV + Sbjct: 13 ILKGSLCLFAYLNNQVFPQPLSEEDERKCLQEMQR--GGEEARNILIEHNLRLVAHVVKK 70 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y G + +++S G IGL++A++ ++ ERG RLATY+ I Sbjct: 71 YESSGEDLEDLISIGTIGLIKAIRTYNFERGVRLATYAARCI 112 >gi|154485092|ref|ZP_02027540.1| hypothetical protein EUBVEN_02815 [Eubacterium ventriosum ATCC 27560] gi|149734045|gb|EDM50164.1| hypothetical protein EUBVEN_02815 [Eubacterium ventriosum ATCC 27560] Length = 244 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 26/79 (32%), Positives = 45/79 (56%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K E+ D A L+ +LRLVV IA + G+ + +++S G IGL++ + F P++ Sbjct: 51 KNLIENNDEEAKSMLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKGINTFKPDKN 110 Query: 99 FRLATYSMWWIKAAMQEYI 117 +LATY+ I+ + Y+ Sbjct: 111 IKLATYASRCIENEILMYL 129 >gi|309778067|ref|ZP_07673006.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 3_1_53] gi|308914161|gb|EFP59962.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 3_1_53] Length = 259 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 56/242 (23%), Positives = 114/242 (47%), Gaps = 30/242 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A L+ +L+LV+ I + + ++ G IGL++++ FD + R + Sbjct: 32 QQGDEQAKETLINGNLKLVLSIVQRFSNRCENMDDLFQVGCIGLVKSIDNFDLKHEVRFS 91 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR ++++ + + K L + +LK + N K + + Sbjct: 92 TYAVPMIMGEIKRY-LRDNQVIRV--SRHLKDLAYRAFKLK---EEYVHKNQKEPTIAWL 145 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI-----E 217 A++L V E +++ L +S+ ++ VY+ DG E L+ + Sbjct: 146 AEQLEVKEKDIVDA---LDSTQSVLSIFEP------------VYNSDGDELFLLDQIKDD 190 Query: 218 KEERKNRRNM--LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 K+E ++ N+ L RS+ L +E I + R Q+ +T ++ E +S+ +V ++E Sbjct: 191 KDEIEHLNNIMALKRSLKRLKGKELDIIQKRYYQD--MTQTEIAGELGISQAQVSRLEKN 248 Query: 276 AF 277 A Sbjct: 249 AI 250 >gi|302389688|ref|YP_003825509.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermosediminibacter oceani DSM 16646] gi|302200316|gb|ADL07886.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermosediminibacter oceani DSM 16646] Length = 245 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 68/257 (26%), Positives = 123/257 (47%), Gaps = 40/257 (15%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y+ GD + RL+ ++ LV IA LP ++VS G IGL+QA++++D Sbjct: 14 YKNTGDSNLKERLIEEYIPLVKHIA-ARLAINLPPCVDYDDLVSAGIIGLLQAIERYDVG 72 Query: 97 RGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +G R T++ I+ AM + + R +W K T + +L L+ ++ + N+K Sbjct: 73 KGVRFETFAYTRIRGAMLDELRRLNWIPQK---TMEKAKL---LQDAYSQMEQELNGNVK 126 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E IA+KLN++ +E+ LA L++ + S +D +G+ Sbjct: 127 DED---IARKLNITIAELHQTYKELAA----TNLVSLEEIFSVAVED------NGEPVSH 173 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRI-----FEARRLQENPVTLENLSSEFEVSRERVR 270 +EKEE K +L ++ L P+E+ + +E L+E V L NLS R+ Sbjct: 174 VEKEEIK---RILGEAIDRLPPKEKLVIALYYYEGLNLKEISVVL-NLSP------ARIS 223 Query: 271 QIEARAFKKVQESIQKQ 287 Q+ +A +++ S+ ++ Sbjct: 224 QLHTKAILRLRGSLSRK 240 >gi|148380599|ref|YP_001255140.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A str. ATCC 3502] gi|153931945|ref|YP_001384886.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A str. ATCC 19397] gi|153937160|ref|YP_001388355.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A str. Hall] gi|168182725|ref|ZP_02617389.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum Bf] gi|170754752|ref|YP_001782258.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum B1 str. Okra] gi|226950054|ref|YP_002805145.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A2 str. Kyoto] gi|237796081|ref|YP_002863633.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum Ba4 str. 657] gi|148290083|emb|CAL84202.1| RNA polymerase sigma factor [Clostridium botulinum A str. ATCC 3502] gi|152927989|gb|ABS33489.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A str. ATCC 19397] gi|152933074|gb|ABS38573.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A str. Hall] gi|169119964|gb|ACA43800.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum B1 str. Okra] gi|182674219|gb|EDT86180.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum Bf] gi|226840945|gb|ACO83611.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A2 str. Kyoto] gi|229261699|gb|ACQ52732.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum Ba4 str. 657] Length = 242 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 65/249 (26%), Positives = 115/249 (46%), Gaps = 23/249 (9%) Query: 45 GDLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +L +V ++ LV IA +G Y + ++VS G IGLM A+ KFD +G + Sbjct: 6 NNLYVKEEIVKKYIPLVKYIASRVIIGKTKY-IEYEDLVSYGMIGLMDALNKFDESKGMK 64 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ IK +M + + R+ + K G R + +L+ L K ++ Sbjct: 65 FSTYASIRIKGSMIDELRRNSPISK-GAMDKLNRYNEAIEKLQKKLN-------KEPNLI 116 Query: 161 AIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +LN+S EV I SL LI SS+ L+ ++ EK Sbjct: 117 QIADELNISLKEVSEIENYINYISVISLEDLIFSSEDEVP-----LIGTIKDEKSPSPEK 171 Query: 219 EERKNRR-NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +N + + L +++ +LN ++R + +E +TL+ + VS RV Q+ +RA Sbjct: 172 HVEENEQLDYLAKAIELLNEKDRLVVTLYYYEE--LTLKEIGKILNVSESRVCQLHSRAI 229 Query: 278 KKVQESIQK 286 +++++ K Sbjct: 230 IHLKKAMAK 238 >gi|134300227|ref|YP_001113723.1| FliA/WhiG family RNA polymerase sigma factor [Desulfotomaculum reducens MI-1] gi|134052927|gb|ABO50898.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Desulfotomaculum reducens MI-1] Length = 251 Score = 54.3 bits (129), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 70/268 (26%), Positives = 122/268 (45%), Gaps = 44/268 (16%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVK 91 +L ++Y D A +++ HL LV +A G LP ++ S G IGLM+A+ Sbjct: 5 LLWEKYITLRDPEARQKIILLHLPLVKHLA-GRVAVKLPSFILREDLESYGVIGLMEALD 63 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLR-RLKGHLQAIT 150 K+DP G +Y+ I+ AM + + R L + NQ L N R RL+ + Sbjct: 64 KYDPAMGHSFDSYAYHRIRGAMLDEVRRQNWLPRTAWQKNQ--LLKNTRERLEREQGEVI 121 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 N + +AK++ + EV LI +++K Q D V HDG Sbjct: 122 TNEV-------LAKEMGIPVEEV-------------RQLIFNANKMYIQSLDEEVAGHDG 161 Query: 211 QEQVLIE-------------KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 + +E EE++++R +L ++ L+ RE+ I A E +TL+ Sbjct: 162 SQMSKLELLEDTNSPDPLSIVEEKESKR-LLAEAIETLSEREKLIL-ALYYSEG-LTLKE 218 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQ 285 + EVS RV Q+ ++ K+++++++ Sbjct: 219 IGQVLEVSESRVCQLHSQVMKRLKKTLE 246 >gi|291536437|emb|CBL09549.1| RNA polymerase, sigma subunit, RpsG/SigG [Roseburia intestinalis M50/1] Length = 259 Score = 53.9 bits (128), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 26/93 (27%), Positives = 54/93 (58%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R ++ GD +A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPILKEEEKDALFARIKQ-GDTAARETYIKGNLRLVLSVIKRFSGNHENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++++ FDP G + +TY++ I ++ Y+ Sbjct: 74 GLIKSIDNFDPTIGVKFSTYAVPMIIGEIRRYL 106 >gi|161898837|gb|ABX80408.1| SigB [Listeria monocytogenes] Length = 236 Score = 53.9 bits (128), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVKELTREL 116 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 117 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 173 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 174 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 202 >gi|293376227|ref|ZP_06622470.1| RNA polymerase sigma-E factor [Turicibacter sanguinis PC909] gi|325845158|ref|ZP_08168467.1| RNA polymerase sigma-E factor [Turicibacter sp. HGF1] gi|292645119|gb|EFF63186.1| RNA polymerase sigma-E factor [Turicibacter sanguinis PC909] gi|325488823|gb|EGC91223.1| RNA polymerase sigma-E factor [Turicibacter sp. HGF1] Length = 236 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 31/93 (33%), Positives = 56/93 (60%), Gaps = 5/93 (5%) Query: 17 SRYIHEIR---KIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 ++Y++ IR +P L K EE+ + R+ + GD A L+ +LRLVV IA + G Sbjct: 20 NKYVNYIRGNETLPEPLSKDEEFNVLTRF-QGGDERARQTLIEHNLRLVVYIAKKFESSG 78 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 + + +++S G +GL++ V+ F ++ +LATY+ Sbjct: 79 VNLEDLISIGTLGLIKGVQTFKMDKNIKLATYA 111 >gi|160880817|ref|YP_001559785.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium phytofermentans ISDg] gi|160429483|gb|ABX43046.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium phytofermentans ISDg] Length = 254 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 56/248 (22%), Positives = 108/248 (43%), Gaps = 59/248 (23%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VKI G Y GY + ++V G GL+ A+ KFD E+G + TY+ I+ A+ + Sbjct: 32 LVKIVAGRLSIYLGYNVEYDDLVGYGTFGLIDAIDKFDCEKGAKFETYASLRIRGAILDQ 91 Query: 117 ILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 I + W I T QK+ K+L+ + ++ + Sbjct: 92 IRKMDW----IPRTLRQKQ-----------------------------KRLDAAYQKLET 118 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDW-----LVYDHDGQEQVLIEKE----------- 219 M R A DE + + + + WQ+ LV + EQ ++ E Sbjct: 119 MYGRQATDEEVAKELEITTEELETWQNQTKISNLVSLDEYMEQGEVKVESIASEDYAQPE 178 Query: 220 ---ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 E++ + ML +++ L +E+++ ++ +TL+ +S+ EVS R+ Q+ +A Sbjct: 179 KVMEKQELKAMLVKALEYLTEKEKKVIVLYYYED--LTLKEISAVLEVSESRISQLHTKA 236 Query: 277 FKKVQESI 284 +K+++ + Sbjct: 237 LQKMRQKL 244 >gi|121534479|ref|ZP_01666302.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] gi|121306972|gb|EAX47891.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] Length = 234 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 29/85 (34%), Positives = 49/85 (57%), Gaps = 2/85 (2%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ EK+E+ L + + GD A + L+ +LRLV I + G + +++S G IG Sbjct: 30 LPLSEKEEQIYLERL--KAGDEKAKNVLIERNLRLVAHIVKKFDNTGEDVDDLISIGTIG 87 Query: 86 LMQAVKKFDPERGFRLATYSMWWIK 110 L++A+ FD + RLATY+ I+ Sbjct: 88 LIKAINTFDQAKKIRLATYAARCIE 112 >gi|85679195|gb|ABC72014.1| SigB [Listeria monocytogenes] gi|85679205|gb|ABC72019.1| SigB [Listeria monocytogenes] gi|85679211|gb|ABC72022.1| SigB [Listeria monocytogenes] gi|85679213|gb|ABC72023.1| SigB [Listeria monocytogenes] gi|307717608|gb|ADN88857.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] gi|307717616|gb|ADN88861.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] Length = 220 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|240144182|ref|ZP_04742783.1| RNA polymerase sigma-G factor [Roseburia intestinalis L1-82] gi|257203785|gb|EEV02070.1| RNA polymerase sigma-G factor [Roseburia intestinalis L1-82] Length = 259 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 26/93 (27%), Positives = 54/93 (58%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R ++ GD +A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPILKEEEKDALFARIKQ-GDTAARETYIKGNLRLVLSVIKRFSGNHENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++++ FDP G + +TY++ I ++ Y+ Sbjct: 74 GLIKSIDNFDPTIGVKFSTYAVPMIIGEIRRYL 106 >gi|78045111|ref|YP_359473.1| sporulation sigma factor SigK [Carboxydothermus hydrogenoformans Z-2901] gi|77997226|gb|ABB16125.1| RNA polymerase sigma-K factor [Carboxydothermus hydrogenoformans Z-2901] Length = 234 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++E Y + + GD A L +LRLV I + G G +++S G IGL Sbjct: 30 PLSEEEEAYYIDRLL--QGDREARDVLAERNLRLVAHIVKKFEGTGEATEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ F P++G +LATY+ ++ Sbjct: 88 IKAIDTFRPDKGTKLATYAAKCVE 111 >gi|161898895|gb|ABX80437.1| SigB [Listeria monocytogenes] gi|161898903|gb|ABX80441.1| SigB [Listeria monocytogenes] Length = 237 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 63/259 (24%), Positives = 119/259 (45%), Gaps = 38/259 (14%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWS------LVKIGTTANQKRLFFNLRRLKGHLQ 147 G +++ I ++ ++ ++WS + ++G N + L LQ Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSVHVPRRIKELGPKINNA-----VEELTRELQ 117 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQ 201 + Q+ IA + V+E EV+ +M L+ D S+ A SD ++ Sbjct: 118 S-------SPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLL 167 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + DG E+V N+R +L + + VL+ RE++I + ++ + + Sbjct: 168 DVVGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGEL 217 Query: 262 FEVSRERVRQIEARAFKKV 280 ++S+ V +I+ +A KK+ Sbjct: 218 LDISQMHVSRIQRQAIKKL 236 >gi|302386721|ref|YP_003822543.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] gi|302197349|gb|ADL04920.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] Length = 258 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 61/260 (23%), Positives = 117/260 (45%), Gaps = 23/260 (8%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ VL KR +GD A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPLLSNEEKEVLFKRIL-NGDKKAREDYIKGNLRLVLSVIQRFSGSNENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GL++A+ FD + R +TY++ I ++ Y LR + +++ + K ++ Sbjct: 74 GLIKAIDNFDITQNVRFSTYAVPMILGEVRRY-LRDNNSIRVSRSLRDTAYKAIYAKENL 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K NLK ++ IA+++ VS+ ++ + SL + S + Sbjct: 133 MK--------KNLKEPTLMEIAEEIGVSKEDITYALDAIQSPVSLYEPVYSDGGDPLFVM 184 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + D E+ +E L +M L RER I + R + T ++ E Sbjct: 185 DQ-ISDKKNLEENWVEDIS-------LNEAMRRLPERERHIIDMRFFEGKTQT--EVAEE 234 Query: 262 FEVSRERVRQIEARAFKKVQ 281 +S+ +V ++E A K ++ Sbjct: 235 IHISQAQVSRLEKNALKTMK 254 >gi|187935345|ref|YP_001885383.1| sporulation sigma factor SigK [Clostridium botulinum B str. Eklund 17B] gi|187723498|gb|ACD24719.1| RNA polymerase sigma-K factor [Clostridium botulinum B str. Eklund 17B] Length = 232 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 32/84 (38%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E +EE L KR ++ GD +A L+ +LRLV I Y + E++S G +GL Sbjct: 30 PLNESEEEEYL-KRLKD-GDKTAKGVLIERNLRLVAHIVKKYSFPNKDVDELISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A+ FD +G RLATY+ I+ Sbjct: 88 IKAIDSFDSGKGTRLATYASRCIE 111 >gi|15894966|ref|NP_348315.1| sporulation sigma factor SigK [Clostridium acetobutylicum ATCC 824] gi|15024653|gb|AAK79655.1|AE007679_1 DNA-dependent RNA polymerase sigma subunit [Clostridium acetobutylicum ATCC 824] gi|528974|gb|AAB94775.1| SigK [Clostridium acetobutylicum] gi|325509103|gb|ADZ20739.1| sporulation sigma factor SigK [Clostridium acetobutylicum EA 2018] Length = 234 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 30/83 (36%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E +E+Y L K + GD A + L+ +LRLV I Y G + +++S G IGL Sbjct: 30 PLSESEEKYYLKKL--KEGDPLAKNILIERNLRLVAHIVKKYSYSGKEVDDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ ++ +G RLATY+ I Sbjct: 88 IKAIDSYNVSKGTRLATYAARCI 110 >gi|307717596|gb|ADN88851.1| RNA polymerase sigma-37 factor [Listeria innocua] gi|307717598|gb|ADN88852.1| RNA polymerase sigma-37 factor [Listeria innocua] gi|307717600|gb|ADN88853.1| RNA polymerase sigma-37 factor [Listeria innocua] gi|307717602|gb|ADN88854.1| RNA polymerase sigma-37 factor [Listeria innocua] Length = 220 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|161898917|gb|ABX80448.1| SigB [Listeria monocytogenes] Length = 236 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 63/259 (24%), Positives = 119/259 (45%), Gaps = 38/259 (14%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 3 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 62 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWS------LVKIGTTANQKRLFFNLRRLKGHLQ 147 G +++ I ++ ++ ++WS + ++G N + L LQ Sbjct: 63 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSVHVPRRIKELGPKINNA-----VEELTRELQ 117 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQ 201 + Q+ IA + V+E EV+ +M L+ D S+ A SD ++ Sbjct: 118 S-------SPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLL 167 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + DG E+V N+R +L + + VL+ RE++I + ++ + + Sbjct: 168 DVVGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGEL 217 Query: 262 FEVSRERVRQIEARAFKKV 280 ++S+ V +I+ +A KK+ Sbjct: 218 LDISQMHVSRIQRQAIKKL 236 >gi|307717640|gb|ADN88873.1| RNA polymerase sigma-37 factor [Listeria ivanovii subsp. ivanovii] Length = 220 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|251780405|ref|ZP_04823325.1| RNA polymerase sigma-K factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243084720|gb|EES50610.1| RNA polymerase sigma-K factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 232 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 32/83 (38%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E +EE L KR ++ GD +A L+ +LRLV I Y + E++S G +GL Sbjct: 30 PLNESEEEEYL-KRLKD-GDKTAKGVLIERNLRLVAHIVKKYSFPNKDVDELISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDSGKGTRLATYASRCI 110 >gi|160914280|ref|ZP_02076501.1| hypothetical protein EUBDOL_00290 [Eubacterium dolichum DSM 3991] gi|158433907|gb|EDP12196.1| hypothetical protein EUBDOL_00290 [Eubacterium dolichum DSM 3991] Length = 233 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 66/260 (25%), Positives = 111/260 (42%), Gaps = 62/260 (23%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 LEK+EE A EHGD A + L+ +LRLVV IA Y + + +++S G+IGL++ Sbjct: 33 LEKEEEQA-ALIALEHGDEEARNTLIEHNLRLVVYIAKRYETNPIFMEDLISIGSIGLIK 91 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV F + +L TY+ I+ + + LR S Sbjct: 92 AVNTFKRNKNIKLVTYASRCIENEILMF-LRKKS-------------------------- 124 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 +KL VS DE LN D N D L D Sbjct: 125 --------------RRKLEVS------------FDEPLNI---DYDGNELLLSDILGTDD 155 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRE 267 D V+ ++ ER+ + L ++M L RER+I + R ++ +T ++++ +S+ Sbjct: 156 D----VVTKQFEREENKRELLKAMRGLKDRERQILQMRYGIEHEELTQKDIAKRLGISQS 211 Query: 268 RVRQIEARAFKKVQESIQKQ 287 + ++E R K++ +++Q Sbjct: 212 YISRLEKRIIHKLKLQMKQQ 231 >gi|260438830|ref|ZP_05792646.1| RNA polymerase sigma-E factor [Butyrivibrio crossotus DSM 2876] gi|292808820|gb|EFF68025.1| RNA polymerase sigma-E factor [Butyrivibrio crossotus DSM 2876] Length = 246 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 53/94 (56%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E V+A E+ D A L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 42 PLEPAEEAEVIADLGTEY-DTKAKTMLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ FD + +LATY+ I+ + Y+ R+ Sbjct: 101 IKAINSFDINKKIKLATYASRCIENEILMYLRRN 134 >gi|148380489|ref|YP_001255030.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. ATCC 3502] gi|153933176|ref|YP_001384712.1| sporulation sigma factor SigG [Clostridium botulinum A str. ATCC 19397] gi|153936833|ref|YP_001388233.1| sporulation sigma factor SigG [Clostridium botulinum A str. Hall] gi|153938804|ref|YP_001391829.1| sporulation sigma factor SigG [Clostridium botulinum F str. Langeland] gi|148289973|emb|CAL84086.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. ATCC 3502] gi|152929220|gb|ABS34720.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. ATCC 19397] gi|152932747|gb|ABS38246.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. Hall] gi|152934700|gb|ABS40198.1| RNA polymerase sigma-G factor [Clostridium botulinum F str. Langeland] gi|295319855|gb|ADG00233.1| RNA polymerase sigma-G factor [Clostridium botulinum F str. 230613] gi|322806802|emb|CBZ04371.1| RNA polymerase sporulation specific sigma factor SigG [Clostridium botulinum H04402 065] Length = 257 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 62/279 (22%), Positives = 127/279 (45%), Gaps = 55/279 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L R R +G+ + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKDKEMKKLLVRIR-NGETECREEFIQGNLRLVLSVIKRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 74 GLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALQA 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I +NN +P V IAK+L + EV+ +L+A+ QD + Sbjct: 129 RDKLIKNNNKEP-TVSQIAKELELPREEVVF---------ALDAI-----------QDPV 167 Query: 205 -----VYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRER-----RIFEA 245 +Y HDG + + + ++ + +N+ + +M LN RE+ R F+ Sbjct: 168 SLFEPIY-HDGGDAIFV-MDQISDTKNIDENWIENISIKEAMKKLNDREKLILNLRFFDG 225 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R E ++ E +S+ +V ++E A K +++ + Sbjct: 226 RTQME-------VADEIGISQAQVSRLEKTALKHMRKYV 257 >gi|188588587|ref|YP_001920530.1| sporulation sigma factor SigK [Clostridium botulinum E3 str. Alaska E43] gi|188498868|gb|ACD52004.1| RNA polymerase sigma-K factor [Clostridium botulinum E3 str. Alaska E43] Length = 232 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 32/83 (38%), Positives = 48/83 (57%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E +EE L KR ++ GD +A L+ +LRLV I Y + E++S G +GL Sbjct: 30 PLNESEEEEYL-KRLKD-GDKTAKGVLIERNLRLVAHIVKKYSFPNKDVDELISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ FD +G RLATY+ I Sbjct: 88 IKAIDSFDSGKGTRLATYASRCI 110 >gi|322806971|emb|CBZ04541.1| RNA polymerase sigma factor for flagellar operon [Clostridium botulinum H04402 065] Length = 242 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 65/249 (26%), Positives = 115/249 (46%), Gaps = 23/249 (9%) Query: 45 GDLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +L +V ++ LV IA +G Y + ++VS G IGLM A+ KFD +G + Sbjct: 6 NNLYVKEEIVKKYIPLVKYIASRVIIGKTKY-IEYEDLVSYGMIGLMDALNKFDESKGMK 64 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ IK +M + + R+ + K G R + +L+ L K ++ Sbjct: 65 FSTYASIRIKGSMIDELRRNSPISK-GAMDKLNRYNEAIEKLQKKLN-------KEPNLI 116 Query: 161 AIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +LN+S EV I SL LI SS+ L+ ++ EK Sbjct: 117 QIADELNISLKEVSEIENYINYISVISLEDLIFSSEDEVP-----LIGTIKDEKSPSPEK 171 Query: 219 EERKNRR-NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +N + + L +++ +LN ++R + +E +TL+ + VS RV Q+ +RA Sbjct: 172 HVEENEQLDYLAKAIELLNEKDRLVVTLYYYEE--LTLKEIGKILNVSESRVCQLHSRAI 229 Query: 278 KKVQESIQK 286 +++++ K Sbjct: 230 IHLKKAMAK 238 >gi|311071144|ref|YP_003976067.1| RNA polymerase sigma factor SigB [Bacillus atrophaeus 1942] gi|310871661|gb|ADP35136.1| RNA polymerase sigma factor SigB [Bacillus atrophaeus 1942] Length = 262 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 68/268 (25%), Positives = 126/268 (47%), Gaps = 28/268 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GN 83 K L K E L Y+ + D SA LV + LV +A Y G E + + G Sbjct: 6 KTTKLTKDEVDRLINEYQTNQDDSAQETLVQVYTNLVEVLAKKY-SKGKSFHEDLRQVGM 64 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL+ A+K++DP G +++ I ++ ++ ++WS+ +R+ R+ Sbjct: 65 IGLLGAIKRYDPVVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRI 118 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKN 196 K + +T + +V IA+ L+VSE EV+ +M L+ D S+ A +D + Sbjct: 119 KMAVDTLTTETQRSPKVEEIAEYLDVSEEEVLETMEMGKSYQALSVDHSIEA---DADGS 175 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 + D + DG E+V N++ ML + VL+ RE++I + +Q + + Sbjct: 176 TVTILDIVGSQEDGYERV--------NQQMMLKSVLHVLSEREKQIIDLTYIQNK--SQK 225 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 226 ETGDILGISQMHVSRLQRKAVKKLREAL 253 >gi|125972644|ref|YP_001036554.1| RNA polymerase, sigma 28 subunit [Clostridium thermocellum ATCC 27405] gi|125712869|gb|ABN51361.1| RNA polymerase, sigma subunit, RpoX/SigF [Clostridium thermocellum ATCC 27405] Length = 246 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 58/241 (24%), Positives = 111/241 (46%), Gaps = 29/241 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++ LV I ++ G ++ G IGL++A+ KFD + +TY++ I Sbjct: 27 LVEKNVGLVWSIVRRFQNRGYEAEDIFQIGCIGLIKAINKFDCSYDVKFSTYAVPMIIGE 86 Query: 113 MQEYILRSWSLVKIGTT----ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLN 167 ++ +I R ++K+ + AN+ R+ + I L E V I+++L Sbjct: 87 IKRFI-RDDGMIKVSRSLKELANKARI----------TKEIMSKELGREPTVGEISEQLG 135 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + EV+ ESL + + D +S+ D + + + QE +++ R Sbjct: 136 IPVEEVVMAMEASCTPESLYSTLGEGDNSSTLLIDKIANESENQEVDIVD-------RID 188 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L + + L PRE++I R +E T ++ +S+ +V +IE KK+ E I+K+ Sbjct: 189 LRKVLDTLKPREKQIIVLRYFKEK--TQVQIAKMLGISQVQVSRIE----KKILEEIRKK 242 Query: 288 V 288 + Sbjct: 243 I 243 >gi|133473|sp|P26764|RPSF_BACLI RecName: Full=RNA polymerase sigma-F factor; AltName: Full=Sporulation sigma factor; AltName: Full=Stage II sporulation protein AC gi|304173|gb|AAA22797.1| sporulation protein [Bacillus licheniformis] Length = 255 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 58/244 (23%), Positives = 110/244 (45%), Gaps = 28/244 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A L+ ++RLV + + G ++ G IGL+++V KFD R + Sbjct: 27 QNGDQKARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVRFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K L +RR K L + +N + V I Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRAKEEL---SKSNGRIPTVQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A L +S EV+ + S++ VY++DG +Q+ + Sbjct: 141 ADYLEISSEEVVMAQEAVRSPSSIHE---------------TVYENDGDPITLLDQIADQ 185 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 EE+ + L ++ L+ RE+ I R ++ T ++ +S+ +V ++E + Sbjct: 186 SEEKWFDKIALKEAIKDLDEREKLIVYLRYYKDK--TQSEVADRLGISQVQVSRLEKKIL 243 Query: 278 KKVQ 281 K+++ Sbjct: 244 KQIK 247 >gi|312794092|ref|YP_004027015.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|312181232|gb|ADQ41402.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 255 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 40/149 (26%), Positives = 79/149 (53%), Gaps = 7/149 (4%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E+ L KR +E GD A + +LRLV+ + + G + ++ G IG Sbjct: 14 LPVLSHEEKLELLKRMKE-GDKEARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD + + +TY++ I ++ Y LR + ++I + K + ++K Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSMRISRSL--KDTAYKALKIK-- 127 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + +NN K + IAK+L+V++ E++ Sbjct: 128 -EKYINNNQKEPTLEEIAKELSVTKEELV 155 >gi|325288800|ref|YP_004264981.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Syntrophobotulus glycolicus DSM 8271] gi|324964201|gb|ADY54980.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Syntrophobotulus glycolicus DSM 8271] Length = 254 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 63/253 (24%), Positives = 123/253 (48%), Gaps = 29/253 (11%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFR 100 G+LS + + +L LV ++A G LP +++ G GL+ A++K++P RG + Sbjct: 16 GNLSEEY--IDQYLPLVKRLA-GRLAMSLPSHIEEEDLIGYGVFGLIDALQKYEPSRGVK 72 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQK-----RLFFNLRRLKGHLQAITDNNLK 155 TY+ I+ AM + LRS V +A QK + + +L L+G +I + Sbjct: 73 FETYASLRIRGAMIDG-LRSMDWVP--HSARQKVKKVRQAYIDLENLQGRTPSIEE---- 125 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV- 214 VA ++ + E ++ + S++ L++ +S L+ D + QE Sbjct: 126 ----VAGFLEIQLEELHTTLLHGQYMTLVSMDQLLDGHSGDSGISPVDLIIDAEAQESFN 181 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 IEKEE+K +L R + L+ +E+ + +E +TL+ +++ +S R+ QI + Sbjct: 182 NIEKEEQK---QILAREIEKLSEKEKLVIAMYYREE--MTLKEIAAVMNLSESRISQIHS 236 Query: 275 RAFKKVQESIQKQ 287 +A +++ + +Q Sbjct: 237 QAILRLRGYLGRQ 249 >gi|164687591|ref|ZP_02211619.1| hypothetical protein CLOBAR_01232 [Clostridium bartlettii DSM 16795] gi|164603365|gb|EDQ96830.1| hypothetical protein CLOBAR_01232 [Clostridium bartlettii DSM 16795] Length = 255 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 57/251 (22%), Positives = 113/251 (45%), Gaps = 31/251 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A L++S+L LV + + G ++ G+IGL++A+ KFDP + + Sbjct: 27 QNGDEEAKALLISSNLGLVRSVIGKFSNIGYERDDLFQLGSIGLIKAIYKFDPSYNVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR +VK+ + Q + +++G + + Sbjct: 87 TYAVPMILGEIKRY-LRDDGMVKVSRSLKQLAIKV---KMQGEM---------------L 127 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---- 218 +KKL I G E + ++ S ++ ++++ +G LI+K Sbjct: 128 SKKLG--RDPTIEELAEAIGVEKEDVVMAIESNFSVEYLQGVIHEEEGSPICLIDKISQK 185 Query: 219 ---EERKNRRNMLTRS-MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 EE K N+L + + L+ RER+I R ++ T + +S+ +V +IE Sbjct: 186 GEAEEDKVVDNILLKEVLGKLDKRERQIIMLRYFEDK--TQSEIGELLNISQVQVSRIEK 243 Query: 275 RAFKKVQESIQ 285 + K++ I+ Sbjct: 244 KVLHKLKLYIE 254 >gi|161898839|gb|ABX80409.1| SigB [Listeria monocytogenes] Length = 222 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 103/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 1 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 60 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 61 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVKELTREL 114 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 115 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 171 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 172 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 200 >gi|304439070|ref|ZP_07398989.1| RNA polymerase sigma-B factor [Peptoniphilus duerdenii ATCC BAA-1640] gi|304372429|gb|EFM26016.1| RNA polymerase sigma-B factor [Peptoniphilus duerdenii ATCC BAA-1640] Length = 260 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 65/259 (25%), Positives = 115/259 (44%), Gaps = 36/259 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y + D +L+ +L + +A Y G G+ ++ +IGL+ AV ++DP +GF Sbjct: 20 YNKTRDPELREKLIEDNLYIAEILAKKYYGRGIDYDDIYQVASIGLIYAVDRYDPSKGFE 79 Query: 101 LATYSMWWIKAAMQEYIL-RSWS------LVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 ++++ I +++Y + W+ + ++ N R++ L +LQ Sbjct: 80 FSSFATPTIIGEIKKYFRDKGWTIRVPRRIQELSKKINNARVY-----LAQNLQ------ 128 Query: 154 LKPEQVVAIAKKLNVSESEVISM--NCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDG 210 K V IA+ LN +E EV+ R+ +SL+ S SD D + G Sbjct: 129 -KAPTVSDIAEYLNTTEEEVLEAIEASRVYQPQSLDISYESQSDDKEVNLADII-----G 182 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 Q++ EK E + L ++ LN E+ I R N T ++ + +S+ V Sbjct: 183 QDEEYFEKIEMNDLMESLFKN---LNEVEKTILVERYF--NRKTQVAIAEQLNISQMTVS 237 Query: 271 QIEARAFKKVQESIQKQVE 289 +IE KKV E ++K VE Sbjct: 238 RIE----KKVLERLKKDVE 252 >gi|302793696|ref|XP_002978613.1| hypothetical protein SELMODRAFT_177039 [Selaginella moellendorffii] gi|300153962|gb|EFJ20599.1| hypothetical protein SELMODRAFT_177039 [Selaginella moellendorffii] Length = 458 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 32/115 (27%), Positives = 65/115 (56%), Gaps = 4/115 (3%) Query: 48 SAAHRLVTSHLRLVVKIAMGY-RGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +A ++L+ + RLV+ +A Y R G + ++ EG GL+ A+ F+P +G R +TY+ Sbjct: 218 AAQNKLIEHNCRLVLFLARRYERDAGSFSLEDLCQEGVKGLIDAMDHFNPGKGTRFSTYA 277 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 ++WI+ AM I R+ ++++ + K++ +R+ + L+ N E+V+ Sbjct: 278 IFWIRTAMVRAITRTGQVIRLPFSFAAKKV--EIRKARRELRVELGRNPSDEEVM 330 >gi|153932837|ref|YP_001384784.1| RNA polymerase sigma-K factor [Clostridium botulinum A str. ATCC 19397] gi|170755199|ref|YP_001782157.1| RNA polymerase sigma-K factor [Clostridium botulinum B1 str. Okra] gi|152928881|gb|ABS34381.1| RNA polymerase sigma-K factor [Clostridium botulinum A str. ATCC 19397] gi|169120411|gb|ACA44247.1| RNA polymerase sigma-K factor [Clostridium botulinum B1 str. Okra] Length = 144 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 30/79 (37%), Positives = 47/79 (59%), Gaps = 2/79 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +++E+Y L + + GD A LV +LRLV I Y G I +++S G +GL Sbjct: 30 PLSDEEEKYYLDRL--KKGDALAKDILVERNLRLVAHIVKKYSYPGKDIDDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYS 105 ++A+ FD +G RLATY+ Sbjct: 88 IKAIDSFDNSKGTRLATYA 106 >gi|153854689|ref|ZP_01995939.1| hypothetical protein DORLON_01937 [Dorea longicatena DSM 13814] gi|149752793|gb|EDM62724.1| hypothetical protein DORLON_01937 [Dorea longicatena DSM 13814] Length = 246 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 26/75 (34%), Positives = 47/75 (62%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D +A L+ +LRLVV IA + G+ + +++S G IGL++A+ F+P++ +LATY+ Sbjct: 60 DENARKILIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFNPDKNIKLATYA 119 Query: 106 MWWIKAAMQEYILRS 120 I+ + Y+ R+ Sbjct: 120 SRCIENEILMYLRRN 134 >gi|307717644|gb|ADN88875.1| RNA polymerase sigma-37 factor [Listeria ivanovii subsp. londoniensis] Length = 220 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 102/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQEDGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSMEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|256004731|ref|ZP_05429707.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum DSM 2360] gi|281416836|ref|ZP_06247856.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum JW20] gi|255991324|gb|EEU01430.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum DSM 2360] gi|281408238|gb|EFB38496.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum JW20] gi|316941118|gb|ADU75152.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum DSM 1313] Length = 248 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 58/241 (24%), Positives = 111/241 (46%), Gaps = 29/241 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++ LV I ++ G ++ G IGL++A+ KFD + +TY++ I Sbjct: 29 LVEKNVGLVWSIVRRFQNRGYEAEDIFQIGCIGLIKAINKFDCSYDVKFSTYAVPMIIGE 88 Query: 113 MQEYILRSWSLVKIGTT----ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLN 167 ++ +I R ++K+ + AN+ R+ + I L E V I+++L Sbjct: 89 IKRFI-RDDGMIKVSRSLKELANKARI----------TKEIMSKELGREPTVGEISEQLG 137 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + EV+ ESL + + D +S+ D + + + QE +++ R Sbjct: 138 IPVEEVVMAMEASCTPESLYSTLGEGDNSSTLLIDKIANESENQEVDIVD-------RID 190 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L + + L PRE++I R +E T ++ +S+ +V +IE KK+ E I+K+ Sbjct: 191 LRKVLDTLKPREKQIIVLRYFKEK--TQVQIAKMLGISQVQVSRIE----KKILEEIRKK 244 Query: 288 V 288 + Sbjct: 245 I 245 >gi|312126848|ref|YP_003991722.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311776867|gb|ADQ06353.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 248 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 62/264 (23%), Positives = 127/264 (48%), Gaps = 27/264 (10%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQ 88 ++ +L +++ + D +L+ ++ LV K+ G Y G + ++VS G+IGL+ Sbjct: 4 DDALLWEKFIKTKDPKIKEQLIIKYMPLV-KLVAGRMAIYFGGNVEYDDLVSYGSIGLLD 62 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++KFD ++G + TY+ IK A+ + + RS + K + K +++ Sbjct: 63 AIEKFDSQKGVKFETYAYTRIKGAIIDCV-RSQDFLPRSIRQKAKEI------EKAYIEI 115 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ-WQDWL--V 205 + +Q +AK++ +S E+ + R++ + +I S D Q ++ + + Sbjct: 116 EKEGKTPTDQ--EVAKRIGISVDELQKLQDRIS-----SGMIISLDSFLEQNYESKIGGL 168 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 D Q + IE EE K +L + + L ER + +E ++++ ++ VS Sbjct: 169 EDFVSQPEHFIENEELK---TVLRQQIDNLMENERMVIVLYYYEE--LSIKEIAKVLGVS 223 Query: 266 RERVRQIEARAFKKVQESIQKQVE 289 RV Q+ RA K++ ++QK +E Sbjct: 224 ESRVSQLHTRALLKLRSALQKYLE 247 >gi|226323679|ref|ZP_03799197.1| hypothetical protein COPCOM_01454 [Coprococcus comes ATCC 27758] gi|225207863|gb|EEG90217.1| hypothetical protein COPCOM_01454 [Coprococcus comes ATCC 27758] Length = 247 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 33/103 (32%), Positives = 54/103 (52%), Gaps = 1/103 (0%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSH-LRLVVKIAMGYRGYGLPISE 77 YI +P+ EE A G +L+ H LRLVV IA + G+ + + Sbjct: 32 YIGGTDILPLPLSSEEEGHAISLLGGGQDEEGKKLLIEHNLRLVVYIAKKFDNTGVGVED 91 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++S G IGL++A+ F+PE+ +LATY+ I+ + Y+ R+ Sbjct: 92 LISIGTIGLIKAINTFNPEKNIKLATYASRCIENEILMYLRRN 134 >gi|168180582|ref|ZP_02615246.1| RNA polymerase sigma-G factor [Clostridium botulinum NCTC 2916] gi|168182609|ref|ZP_02617273.1| RNA polymerase sigma-G factor [Clostridium botulinum Bf] gi|170757556|ref|YP_001782076.1| sporulation sigma factor SigG [Clostridium botulinum B1 str. Okra] gi|170761503|ref|YP_001787848.1| sporulation sigma factor SigG [Clostridium botulinum A3 str. Loch Maree] gi|187778872|ref|ZP_02995345.1| hypothetical protein CLOSPO_02467 [Clostridium sporogenes ATCC 15579] gi|226949887|ref|YP_002804978.1| sporulation sigma factor SigG [Clostridium botulinum A2 str. Kyoto] gi|237795971|ref|YP_002863523.1| sporulation sigma factor SigG [Clostridium botulinum Ba4 str. 657] gi|169122768|gb|ACA46604.1| RNA polymerase sigma-G factor [Clostridium botulinum B1 str. Okra] gi|169408492|gb|ACA56903.1| RNA polymerase sigma-G factor [Clostridium botulinum A3 str. Loch Maree] gi|182668579|gb|EDT80558.1| RNA polymerase sigma-G factor [Clostridium botulinum NCTC 2916] gi|182674221|gb|EDT86182.1| RNA polymerase sigma-G factor [Clostridium botulinum Bf] gi|187772497|gb|EDU36299.1| hypothetical protein CLOSPO_02467 [Clostridium sporogenes ATCC 15579] gi|226842131|gb|ACO84797.1| RNA polymerase sigma-G factor [Clostridium botulinum A2 str. Kyoto] gi|229263792|gb|ACQ54825.1| RNA polymerase sigma-G factor [Clostridium botulinum Ba4 str. 657] Length = 257 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 62/279 (22%), Positives = 127/279 (45%), Gaps = 55/279 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L R R +G+ + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKDKEMKKLLVRIR-NGETECREEFIQGNLRLVLSVIKRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 74 GLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALQA 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I +NN +P V IAK+L + EV+ +L+A+ QD + Sbjct: 129 RDKLIKNNNKEP-TVSQIAKELELPREEVVF---------ALDAI-----------QDPV 167 Query: 205 -----VYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRER-----RIFEA 245 +Y HDG + + + ++ + +N+ + +M LN RE+ R F+ Sbjct: 168 SLFEPIY-HDGGDAIFV-MDQISDTKNVDENWIENISIKEAMKKLNDREKLILNLRFFDG 225 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R E ++ E +S+ +V ++E A K +++ + Sbjct: 226 RTQME-------VADEIGISQAQVSRLEKTALKHMRKYV 257 >gi|146295518|ref|YP_001179289.1| FliA/WhiG family RNA polymerase sigma factor [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409094|gb|ABP66098.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 257 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 48/233 (20%), Positives = 110/233 (47%), Gaps = 21/233 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + YR+ D++ + LV HL + +A + G+ ++ + L+ AV++F+P Sbjct: 18 LFEEYRKTKDINLRNELVNRHLYIAEIVAKKFINRGIEYDDLYQVACMALINAVERFEPN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G++ +++ I ++ Y SL+++ +R++ ++K + ++ +P Sbjct: 78 KGYKFTSFATPTIMGEIKRYFRDRASLIRLP-----RRIYETSAKIKLATEILSAKLKQP 132 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ--- 213 ++ IA+ + ++ EV+ + + S N L S D+ + ++ + D G+ Sbjct: 133 PKIEEIAQYIGITPEEVLEV-----MEASNNYLPQSLDQTMYEDEEMTLGDVLGKSDENL 187 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 V IE E + +++ L+P ER + R +E T ++ E +VS+ Sbjct: 188 VQIENTE------TVKKAIDKLSPLEREFVQKRFFEEK--TQREIADEMKVSQ 232 >gi|253682196|ref|ZP_04862993.1| RNA polymerase sigma-K factor [Clostridium botulinum D str. 1873] gi|253561908|gb|EES91360.1| RNA polymerase sigma-K factor [Clostridium botulinum D str. 1873] Length = 235 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 33/102 (32%), Positives = 53/102 (51%), Gaps = 2/102 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +++G L+ Y+ P L + EE K+++ GD A L+ +LRLV I Sbjct: 10 MIDGMTFLTAYVSNGTSFPQPLNEDEERYYLKKFK-GGDALAKGILIERNLRLVAHIVKK 68 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y I +++S G +GL++A+ FD +G RLATY+ I Sbjct: 69 YSYPNKDIDDLISIGTVGLIKAIDSFDISKGTRLATYAARCI 110 >gi|170760209|ref|YP_001787962.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A3 str. Loch Maree] gi|169407198|gb|ACA55609.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum A3 str. Loch Maree] Length = 242 Score = 53.9 bits (128), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 65/249 (26%), Positives = 115/249 (46%), Gaps = 23/249 (9%) Query: 45 GDLSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 +L +V ++ LV IA +G Y + ++VS G IGLM A+ KFD +G + Sbjct: 6 NNLYVKEEIVKKYIPLVKYIASRVIIGKTKY-IEYEDLVSYGMIGLMDALNKFDESKGMK 64 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +TY+ IK +M + + R+ + K G R + +L+ L K ++ Sbjct: 65 FSTYASIRIKGSMIDELRRNSPISK-GAMDKLNRYNEAIEKLQKKLN-------KEPNLI 116 Query: 161 AIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +LN+S EV I SL LI SS+ L+ ++ EK Sbjct: 117 QIADELNISLKEVSEIENYINYISVISLEDLIFSSEDEVP-----LIGTIKDEKSPSPEK 171 Query: 219 EERKNRR-NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +N + + L +++ +LN ++R + +E +TL+ + VS RV Q+ +RA Sbjct: 172 HVEENEQLDYLAKAIELLNEKDRLVVTLYYYEE--LTLKEIGKILNVSESRVCQLHSRAI 229 Query: 278 KKVQESIQK 286 +++++ K Sbjct: 230 VHLKKAMVK 238 >gi|332799104|ref|YP_004460603.1| RNA polymerase sigma-28 subunit SigG [Tepidanaerobacter sp. Re1] gi|332696839|gb|AEE91296.1| RNA polymerase, sigma 28 subunit, SigG [Tepidanaerobacter sp. Re1] Length = 257 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 56/250 (22%), Positives = 123/250 (49%), Gaps = 32/250 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD SA +L++ +LRLV+ + + G + ++ G IGL++A+ FD + + + Sbjct: 32 QKGDKSAREKLISGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDLSQNVKFS 91 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR + +++ + + L+ +T N+ +P + + Sbjct: 92 TYAVPMIIGEIRRY-LRDNNQIRVSRSLRDTA----YKALQVRDSLVTKNSREPS-INEV 145 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--E 220 AK++N+ EV+ +L+A+ + S ++ +Y HDG + + + + + Sbjct: 146 AKEMNMPSEEVVF---------ALDAI----QEPVSLFEP--IY-HDGGDPIFVMDQISD 189 Query: 221 RKNRRNMLTRSMSV------LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 KN+ + + +S+ L RE++I R E +E ++ E +S+ +V ++E Sbjct: 190 EKNQDDQWLQGISIKEAMQRLGEREKKILNLRFF-EGKTQME-VAQEIGISQAQVSRLEK 247 Query: 275 RAFKKVQESI 284 A K +++ I Sbjct: 248 AALKHMRKFI 257 >gi|166031185|ref|ZP_02234014.1| hypothetical protein DORFOR_00871 [Dorea formicigenerans ATCC 27755] gi|166029032|gb|EDR47789.1| hypothetical protein DORFOR_00871 [Dorea formicigenerans ATCC 27755] Length = 246 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 29/85 (34%), Positives = 49/85 (57%), Gaps = 6/85 (7%) Query: 42 REHGDLSAAHR------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 R G L +AH L+ +LRLVV IA + G+ + +++S G IGL++A+ F+P Sbjct: 50 RAIGYLGSAHDEEARKLLIEHNLRLVVYIAKKFDNTGIGVEDLISIGTIGLIKAINTFNP 109 Query: 96 ERGFRLATYSMWWIKAAMQEYILRS 120 + +LATY+ I+ + Y+ R+ Sbjct: 110 TKNIKLATYASRCIENEILMYLRRN 134 >gi|224110206|ref|XP_002333134.1| predicted protein [Populus trichocarpa] gi|222834948|gb|EEE73397.1| predicted protein [Populus trichocarpa] Length = 512 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 58/248 (23%), Positives = 105/248 (42%), Gaps = 37/248 (14%) Query: 48 SAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +A ++L+ +LRLV+ + Y G + G GL+ A+ +F+P+R FRL+TY Sbjct: 275 AARNKLIKHNLRLVLFVIKKYFQDFANGTKFQDFCQAGVKGLITAIDRFEPKRRFRLSTY 334 Query: 105 SMWWIK-AAMQEYILRSWSLVKIGTTA-------NQKRLFFNLRRLKGHLQAITDNNLKP 156 ++WI+ A ++ L S++ V G + + L+F L+R + I + P Sbjct: 335 GLFWIRHAIIRSMTLSSFTRVSFGLESIRSEIQKAKLELWFQLKRQPMEDEIIEKVRISP 394 Query: 157 EQVVAIAKKLNVSESEVISMNCR-LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E+ + + + V+S++ R E I D + Q L+ Sbjct: 395 ERYHEVTR----ASKPVLSLHSRHKTTQEEFIGGIADVDGGDDRRQSALL---------- 440 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV--TLENLSSEFEVSRERVRQIE 273 R L + L P+E + R + TL ++ +SRE VR+ E Sbjct: 441 ---------RLALDDVLDSLKPKESLVVRQRYGLDGKGDRTLGEIAGNLNISREMVRKHE 491 Query: 274 ARAFKKVQ 281 +A K++ Sbjct: 492 VKALMKLK 499 >gi|225075400|ref|ZP_03718599.1| hypothetical protein NEIFLAOT_00405 [Neisseria flavescens NRL30031/H210] gi|224953218|gb|EEG34427.1| hypothetical protein NEIFLAOT_00405 [Neisseria flavescens NRL30031/H210] Length = 113 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 61/101 (60%), Gaps = 3/101 (2%) Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN-RRNMLTRSMSVLNPRERRIFEARRLQ 249 N+ D+++ DWL DHD + + K+ + L +++ L+ R RI E+R LQ Sbjct: 12 NNDDEDNFAPIDWLA-DHDAEPSRQLSKQAHYALQTEGLQNALAQLDDRSHRIVESRWLQ 70 Query: 250 ENP-VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 ++ +TL L++E+ VS ER+RQIEA+A +K++ + ++ E Sbjct: 71 DDGGLTLHELAAEYGVSAERIRQIEAKAMQKLRGFLAEEAE 111 >gi|307717642|gb|ADN88874.1| RNA polymerase sigma-37 factor [Listeria ivanovii subsp. londoniensis] Length = 220 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 102/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQEDGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|225569422|ref|ZP_03778447.1| hypothetical protein CLOHYLEM_05506 [Clostridium hylemonae DSM 15053] gi|225161630|gb|EEG74249.1| hypothetical protein CLOHYLEM_05506 [Clostridium hylemonae DSM 15053] Length = 237 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 59/242 (24%), Positives = 107/242 (44%), Gaps = 18/242 (7%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A +LV + LV I + G ++ GNIGL++A+ KFD + +T Sbjct: 13 QGDEKARAQLVEENAGLVWCIVKRFYNRGAEAEDLFQVGNIGLLKAIDKFDMSYEVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + LR ++K+ + K L + + LQ + + IA Sbjct: 73 YAVPMISGEIKRF-LRDDGMIKVSRSL--KELSYKAYLCQEKLQEALG---REPTITEIA 126 Query: 164 KKLNVSESEVISMNCRLAGD-ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 + L V E ++M +GD ESL+ I + + D L G+E++L Sbjct: 127 EYLEVDREE-LTMALDASGDIESLHKPIYQKEGQEIRLMDKLPEKEGGEEKIL------- 178 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 +L + + LN ER++ R T + E +S+ +V ++E + K+++E Sbjct: 179 -NHMLLQQLLEYLNKDERQLIYLRYFANQ--TQSQVGQELGISQVQVSRLEKKILKRLRE 235 Query: 283 SI 284 I Sbjct: 236 RI 237 >gi|220907105|ref|YP_002482416.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 7425] gi|219863716|gb|ACL44055.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 7425] Length = 263 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 67/262 (25%), Positives = 127/262 (48%), Gaps = 30/262 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 Y ++ ++ ++LV HL LV K+A R P ++V G +GL+ A+++FDP +G+ Sbjct: 18 YHQNPTIAVRNQLVRLHLGLVRKVAHRLARQCKEPYEDLVQCGCLGLIAAIERFDPSQGY 77 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++++ +I+ + ++ ++KI Q L + ++++ L + D EQV Sbjct: 78 AFSSFAVPYIRGEILHFLRDRAYMLKIPRRWQQ--LNQDGQKVRQELAKVLDRPPTEEQV 135 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ-------WQDWLVYDHDGQE 212 A +L VS E S+ RLA IN++ +S+Q D LV D QE Sbjct: 136 ---ASQLQVSPEEWRSV--RLAMRNRTPLSINTTLSSSAQAAGMALTLADLLV---DAQE 187 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 +V ++ + L ++++ L R R++ E V L +L+ + SR+ V I Sbjct: 188 EV---RQSQTEDSLELYQALAQLEERTRQMIEE-------VFLHHLTRQEVASRKGVSPI 237 Query: 273 EARAFKKVQESIQKQVELSSSP 294 + +Q+ I++ + L SP Sbjct: 238 TVS--RHIQKGIEQLMNLLQSP 257 >gi|318040135|ref|ZP_07972091.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 310 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 58/247 (23%), Positives = 108/247 (43%), Gaps = 15/247 (6%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLP-----ISEVVSEGNIGLMQAVKKFDPERGFRL 101 L A +LV +L LV G LP ++ + E + L++A +KFDP +G+R Sbjct: 59 LRAREQLVRHNLGLVAHT-WGRHRCSLPAHDDTTADALQEAALNLVRAAEKFDPAKGYRF 117 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 +TY+ +W++ E+ R+ ++ A + + RL QA T + E + A Sbjct: 118 STYATFWVRRGFTEFEQRAKRAIRF--PAEKAAVVLKALRLSQQHQATTGDEPALEWLAA 175 Query: 162 ----IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 K ++ + SL+ D+ + L EQ L + Sbjct: 176 QLKFDGKAMSAEQLAEFIRQWDATRTGSLDGAEEEGDEKGGCSRLDLASLQQAAEQQLTQ 235 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL-SSEFEVSRERVRQIEARA 276 + + ++ L + MS L+ +E R+ R L+ P++ L S + RE++ Q+EA A Sbjct: 236 EPDPQH--ASLPQLMSCLDEQEHRLIRNRYLRRPPLSPCQLRRSMGGMQREQLEQLEATA 293 Query: 277 FKKVQES 283 K++++ Sbjct: 294 LDKLRQA 300 >gi|222529665|ref|YP_002573547.1| Sig B/F/G subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222456512|gb|ACM60774.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 232 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 55/241 (22%), Positives = 107/241 (44%), Gaps = 20/241 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +L+ ++L LV + + G+ + ++ G+IGL++AV +FDP R + Sbjct: 6 KNGDKLARQQLIENNLALVWSVVKKFAAKGVELEDLFQIGSIGLIKAVDRFDPSFNVRFS 65 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR +K+ + N ++K N+ + + I Sbjct: 66 TYAVPMIIGEIKRY-LRDDGKIKVSRKIKE-----NQGKIKKLRNQFVSNHGREPTISEI 119 Query: 163 AKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 ++ +S E++ C A E SL+ +IN + D + D ++L Sbjct: 120 SQLTGLSNDEILL--CLDASSEVASLSEVINQEEGKPITLMDIASDEEDYSTKLL----- 172 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L + L RER I R + T ++ + +S+ V +IE RA +++ Sbjct: 173 ---DLMALKEGLKKLKGRERYIIFMRYFKNK--TQSEIAKQLNISQVHVSRIEKRALERI 227 Query: 281 Q 281 + Sbjct: 228 K 228 >gi|283796413|ref|ZP_06345566.1| RNA polymerase sigma-F factor [Clostridium sp. M62/1] gi|291075823|gb|EFE13187.1| RNA polymerase sigma-F factor [Clostridium sp. M62/1] gi|295091441|emb|CBK77548.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Clostridium cf. saccharolyticum K10] gi|295114800|emb|CBL35647.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [butyrate-producing bacterium SM4/1] Length = 245 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 62/240 (25%), Positives = 106/240 (44%), Gaps = 21/240 (8%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A RLV ++ LV I + G G ++ G+IGL++A+ KFD R +TY Sbjct: 20 GDKAARDRLVEENMGLVWSIVRRFAGRGCETEDLFQIGSIGLIKAIDKFDTSYDVRFSTY 79 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR--LKGHLQAITDNNLKPEQVVAI 162 ++ I ++ + LR ++K+ + + + + R L G L + + I Sbjct: 80 AVPMIAGEIRRF-LRDDGMIKVSRSVKEMGIKVSAAREKLAGTLG-------REPTLEEI 131 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A + S EV + A ESL A D N S D L + E+VL Sbjct: 132 AGSVGASREEVAASLEAGAQVESLYAPAGGDDTNLS-LLDRLSQESRENEEVL------- 183 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R +L + + L +ER + R T ++ + +S+ +V ++E R KK++E Sbjct: 184 -DRMVLKKLLGSLGEKERELIVRRYFYGQTQT--KIAGQMGISQVQVSRMEKRILKKMRE 240 >gi|161898847|gb|ABX80413.1| SigB [Listeria monocytogenes] Length = 233 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 60/247 (24%), Positives = 118/247 (47%), Gaps = 26/247 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 5 YQENGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 64 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 65 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 118 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 119 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 175 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 V N+R +L + + VL+ RE++I + ++ + + ++S+ V +I+ Sbjct: 176 V--------NQRMLLEKVLPVLDEREQKILQFTFIENR--SQKETGELLDISQMHVSRIQ 225 Query: 274 ARAFKKV 280 +A KK+ Sbjct: 226 RQAIKKL 232 >gi|326791409|ref|YP_004309230.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium lentocellum DSM 5427] gi|326542173|gb|ADZ84032.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium lentocellum DSM 5427] Length = 257 Score = 53.5 bits (127), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 60/260 (23%), Positives = 118/260 (45%), Gaps = 17/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +++ L K E GD A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPILTNEQKETLFKLI-EQGDNKAREEYIRGNLRLVLSVIQRFNNRGEHVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + R +TY++ I ++ Y LR + +++ + + + + K Sbjct: 74 GLIKAIDNFDVTQNVRFSTYAVPMIIGEIRRY-LRDNNAIRVSRSL--RDTAYKALQTKE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L T N K V IA +L + + +++ + SL + + ++ D Sbjct: 131 QL---TRKNAKEPTVQEIADELGIKKEDIVFALDAIQDPISLFEPVYHDESDTLYIMDQ- 186 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D Q+ V +E L +M +N RE++I R T +++E + Sbjct: 187 VSDDKNQDDVWLEN-------IALKEAMKRINDREKQILMLRFFAGK--TQMEVANEIGI 237 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A K +++ I Sbjct: 238 SQAQVSRLEKTALKHMKKYI 257 >gi|220931546|ref|YP_002508454.1| sporulation sigma factor SigF [Halothermothrix orenii H 168] gi|219992856|gb|ACL69459.1| sporulation sigma factor SigF [Halothermothrix orenii H 168] Length = 257 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 55/252 (21%), Positives = 126/252 (50%), Gaps = 32/252 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++ D A +LV +LRLV+K+ ++ G ++ G IGL++A+K FD +RG + + Sbjct: 27 QNNDQKALDKLVEHNLRLVLKVINRFKSSGYDPQDLFQIGVIGLIKAIKNFDLDRGVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ +I R ++K+ + K++ ++R+ + + NN P ++ + Sbjct: 87 TYAVSRIIGEIRLHI-RDDGIIKVSRSL--KKIANDVRKKE--EELKKKNNCSP-SILEL 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE----- 217 +KK S+ E++ L +++ ++ + VY+ DG E +++ Sbjct: 141 SKKTGYSKEEIVQA---LEANKAPTSIYET------------VYEDDGSELYVVDNLANE 185 Query: 218 --KEERKNRRNML--TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 EE+ N + + L+ R R+I R ++ T + ++ E VS+ ++ ++E Sbjct: 186 SKDEEKIPDFNKILLVDLLKKLDERSRKIIYLRYFEDK--TQQEVADEIGVSQVQISRLE 243 Query: 274 ARAFKKVQESIQ 285 + K++++++ Sbjct: 244 KKILHKLRDNLE 255 >gi|325264805|ref|ZP_08131534.1| RNA polymerase sigma-E factor [Clostridium sp. D5] gi|324030097|gb|EGB91383.1| RNA polymerase sigma-E factor [Clostridium sp. D5] Length = 246 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 31/99 (31%), Positives = 56/99 (56%), Gaps = 1/99 (1%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 E+ P+ ++E V+ E+ D A L+ +LRLVV IA + G+ + +++S Sbjct: 37 EVLPAPLETERETEVIEHLGSEY-DQEAKKLLIEHNLRLVVYIAKKFDNTGVGVEDLISI 95 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G IGL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 96 GTIGLIKAINTFNPTKKIKLATYASRCIENEILMYLRRN 134 >gi|222528460|ref|YP_002572342.1| Sig B/F/G subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222455307|gb|ACM59569.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 256 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 51/233 (21%), Positives = 112/233 (48%), Gaps = 21/233 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y++ + + LV +L + IA + G G+ ++ I L+ AV++F+P Sbjct: 18 LFEEYQKTKSIELRNELVNKYLYIAEIIAKKFVGRGIDYEDLYQVACIALINAVERFEPN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G++ +++ I ++ Y S++++ +R++ ++K + ++ +P Sbjct: 78 KGYKFTSFATPTIMGEIKRYFRDRASIIRLP-----RRIYETSAKIKLATEVLSTKLKRP 132 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--EQV 214 +V IA+ LN+S EV+ + + S N L S D+ + ++ + D G+ E + Sbjct: 133 PKVEEIAQHLNMSAEEVLEV-----MEASNNYLPQSLDQTMYEDEEMTLGDVLGKSDENI 187 Query: 215 L-IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 L +E E + +++ L+P ER + R +E T + ++ E VS+ Sbjct: 188 LQVENVE------AVKKAIERLSPFEREFVQKRFFEEK--TQKEIAEEMNVSQ 232 >gi|312134334|ref|YP_004001672.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311774385|gb|ADQ03872.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 256 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 30/140 (21%), Positives = 71/140 (50%), Gaps = 5/140 (3%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y++ D+ + LV HL + IA + G+ ++ + L+ AV++F+P Sbjct: 18 LFEEYQKTKDVKLRNELVNRHLYIAEIIAKKFVNRGIDYDDLYQVACVALINAVERFEPN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G++ +++ I ++ Y S++++ +R++ ++K + ++ +P Sbjct: 78 KGYKFTSFATPTIMGEIKRYFRDRASIIRLP-----RRIYETSAKIKLATEVLSTKLKRP 132 Query: 157 EQVVAIAKKLNVSESEVISM 176 +V IA+ LN+S EV+ + Sbjct: 133 PKVEEIAQHLNMSTEEVLEV 152 >gi|160895354|ref|ZP_02076125.1| hypothetical protein CLOL250_02913 [Clostridium sp. L2-50] gi|156863047|gb|EDO56478.1| hypothetical protein CLOL250_02913 [Clostridium sp. L2-50] Length = 226 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 67/278 (24%), Positives = 121/278 (43%), Gaps = 67/278 (24%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I EI + + K P+ K+E Y L + + GD A L+ ++RLV IA Y Sbjct: 14 IAGAEIDVQTF-----KKPLSPKEEAYFL--KLCKEGDPRARKTLIEYNMRLVAHIAKKY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 G +++S G IGL++A+ +D ++G RL TY+ I Sbjct: 67 NG-SHENDDLISAGTIGLIKAIDTYDSKKGKRLVTYASRCI------------------- 106 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN-VSESEVISMNCRLAGDESLN 187 + L LR+ + H + ++ +P + K+ N +S ++IS + L+ Sbjct: 107 ---ENELLMLLRQNRKHAREVS--LFEP---IGTDKEGNEISLMDIISPD----TPSILD 154 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 ++++ D N Q D +++ QE VL+ +RR L+ Sbjct: 155 SMVH--DYNLKQLPDCMLHHLTKQEMVLL------SRRYGLS------------------ 188 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 E P T + ++S +SR V +IE RA K++++++ Sbjct: 189 -GEAPCTQKEIASAMGISRSYVSRIEKRALLKLRKALE 225 >gi|167037535|ref|YP_001665113.1| FliA/WhiG family RNA polymerase sigma factor [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256752057|ref|ZP_05492925.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus CCSD1] gi|320115950|ref|YP_004186109.1| RNA polymerase sigma-F factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166856369|gb|ABY94777.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256749067|gb|EEU62103.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus CCSD1] gi|319929041|gb|ADV79726.1| RNA polymerase sigma-F factor [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 246 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 59/259 (22%), Positives = 122/259 (47%), Gaps = 20/259 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 EK +E + R + D + +L+ + L+ I + G + ++ G IG ++ Sbjct: 6 FEKSDENLELIRAAQKNDKESLEKLILENSGLIWSIVKKFSNRGYELEDLYQIGCIGFVK 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++KFD +L+TY++ I ++ + LR L+K+ + + L +++ Sbjct: 66 AIQKFDESYNVKLSTYAVPIIMGEIKRF-LRDDGLIKVSRSLKE------LSTKAFYVKE 118 Query: 149 ITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 I N L E + IA++LNVS E+ A ESL D + D L+ + Sbjct: 119 ILSNELNREPTINEIAERLNVSPEEIAMAFESAATAESL------YDNATHDEDDKLLIE 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 +E EKE + + L ++ L PRE++I R ++ +T +++ +S+ Sbjct: 173 MVSEE----EKEVDIDDKLALQMVINKLKPREKQIIFLRYFKD--MTQMEVANILGISQV 226 Query: 268 RVRQIEARAFKKVQESIQK 286 +V ++E + +K+++ +++ Sbjct: 227 QVSRLEKKVLQKLRKELEE 245 >gi|323706111|ref|ZP_08117680.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323534555|gb|EGB24337.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 256 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 69/281 (24%), Positives = 125/281 (44%), Gaps = 59/281 (20%) Query: 25 KIPMLE--KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ KQ+E +L + +GD SA + +LRLV+ + + G + ++ G Sbjct: 14 KLPVLKGAKQKELLLRMK---NGDKSAREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVG 70 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLF 136 IGL++A+ FD + + +TY++ I ++ Y I S SL + A Q R Sbjct: 71 CIGLIKAIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNNSIRVSRSLRDVAYKALQVR-- 128 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + + N K V IAK+LN+ EV+ +L+A+ Sbjct: 129 ----------DKLVNENSKEPTVGDIAKELNIPREEVVF---------ALDAI------- 162 Query: 197 SSQWQDWL-----VYDHDGQEQVLIEKE--ERKNRRNM------LTRSMSVLNPRERRIF 243 QD + +Y HDG + + + + + KN + L ++ LN RE+ I Sbjct: 163 ----QDPVSLFEPIY-HDGGDAIYVMDQIGDEKNVDEVWLEQIALKEAIKKLNDREKMIL 217 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R E +E ++ E +S+ +V ++E A +++ I Sbjct: 218 -TMRFFEGKTQME-VAKEIGISQAQVSRLEKSALSHMRKYI 256 >gi|89099621|ref|ZP_01172496.1| sporulation sigma factor SigG [Bacillus sp. NRRL B-14911] gi|89085774|gb|EAR64900.1| sporulation sigma factor SigG [Bacillus sp. NRRL B-14911] Length = 259 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 62/270 (22%), Positives = 124/270 (45%), Gaps = 35/270 (12%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L K+ E GD A LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRKLFKQMHE-GDTYARECLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRE 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L + T E+ IA+ L V E++ +L+A+ + + Sbjct: 131 RLMSETSKEPTAEE---IARVLEVPHEEIVF---------ALDAIQDPVSLFEPIY---- 174 Query: 205 VYDHDGQEQVLIEKEERKNRRN---------MLTRSMSVLNPRERRIFEARRLQENPVTL 255 +DG + + + ++ + RN L M LN RE+ I R Q T Sbjct: 175 ---NDGGDPIFV-MDQLSDERNKDIQWIEEIALKEGMRRLNEREKLILRKRFFQGK--TQ 228 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ E +S+ +V ++E A K++ ++IQ Sbjct: 229 MEVAEEIGISQAQVSRLEKAAIKQMNKNIQ 258 >gi|323486723|ref|ZP_08092043.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323692138|ref|ZP_08106382.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323399942|gb|EGA92320.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323503825|gb|EGB19643.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 258 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 59/257 (22%), Positives = 111/257 (43%), Gaps = 17/257 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E+ L KR + GD+ A + + +LRLV+ + + + ++ G I Sbjct: 15 KLPLLSNDEKEELFKRILD-GDMDAREQYIKGNLRLVLSVIQRFSNSSENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + R +TY++ I ++ Y LR + +++ + R Sbjct: 74 GLIKAIDNFDITQNVRFSTYAVPMILGEVKRY-LRDNNSIRVSRSLRDTAYKAIYAR--- 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + + NLK + IA ++ VS+ + + SL + + + D L Sbjct: 130 --EGLMKRNLKEPTICEIADEIGVSKESITYALDAIQSPVSLYEPVYTDGGDPLYVMDQL 187 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D E+ IE L +M L RER I + R + T ++ E + Sbjct: 188 S-DKKCSEEHWIEDIS-------LNEAMKRLPERERHIIDMRFFEGKTQT--EVAEEIHI 237 Query: 265 SRERVRQIEARAFKKVQ 281 S+ +V ++E A K ++ Sbjct: 238 SQAQVSRLEKSALKNMR 254 >gi|317129288|ref|YP_004095570.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus cellulosilyticus DSM 2522] gi|315474236|gb|ADU30839.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus cellulosilyticus DSM 2522] Length = 261 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 61/262 (23%), Positives = 119/262 (45%), Gaps = 27/262 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E VL ++ ++GD A LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNKEMRVLFEKM-QNGDEFAREELVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRS---------LRDIAY 123 Query: 145 HLQAITDNNLKPEQ------VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 + DN + ++ V IAK L+V + +++ + SL I + + Sbjct: 124 KALQVRDNMMNEKKREREPTVQEIAKVLDVPKEDIVFALDAIQDPVSLFEPIYNDGGDPI 183 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 D + D Q + E L +M LN RE+ I + R Q T + Sbjct: 184 YVMDQISDDKQKDIQWIEEI--------ALKEAMIRLNDREKMILDMRFFQGK--TQMEV 233 Query: 259 SSEFEVSRERVRQIEARAFKKV 280 + E +S+ +V ++E A +++ Sbjct: 234 ADEIGISQAQVSRLEKAAIQQM 255 >gi|169831144|ref|YP_001717126.1| FliA/WhiG family RNA polymerase sigma factor [Candidatus Desulforudis audaxviator MP104C] gi|169637988|gb|ACA59494.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Desulforudis audaxviator MP104C] Length = 256 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 31/81 (38%), Positives = 46/81 (56%), Gaps = 3/81 (3%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E+++EYV R GD A + L +LRLV I Y G +++S G IGL++A Sbjct: 57 EEEKEYV---RRMLAGDEHARNILTERNLRLVAHIIKKYDSTGEDTDDLISIGTIGLIKA 113 Query: 90 VKKFDPERGFRLATYSMWWIK 110 + F+P +G RLATY+ I+ Sbjct: 114 INTFNPHKGARLATYAARCIE 134 >gi|304404022|ref|ZP_07385684.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304347000|gb|EFM12832.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 272 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 65/280 (23%), Positives = 125/280 (44%), Gaps = 54/280 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L + + +A +LV +LRLV+ + + G + ++ G I Sbjct: 27 KLPVLTNAEMRELFTALQTRNERAAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 86 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 87 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 142 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 ++T+ N + + I++ L V + +V+ +L+A+ Sbjct: 143 --------DSLTNANSREPTIFEISEALGVPKEDVVF---------ALDAI--------- 176 Query: 199 QWQDWL-----VYDHDGQEQVLIEKE--ERKNR------RNMLTRSMSVLNPRERRIFEA 245 QD + +Y HDG + + + + + KN+ L +M LN RE+ I + Sbjct: 177 --QDPVSLFEPIY-HDGGDPIYVMDQISDDKNKDISWIEEIALREAMHKLNDREKMIL-S 232 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R E +E ++ E +S+ +V ++E A +++Q+ ++ Sbjct: 233 MRFFEGKTQME-VADEIGISQAQVSRLEKSAIQQMQKHVK 271 >gi|325678908|ref|ZP_08158506.1| putative RNA polymerase sigma-F factor [Ruminococcus albus 8] gi|324109412|gb|EGC03630.1| putative RNA polymerase sigma-F factor [Ruminococcus albus 8] Length = 217 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 51/187 (27%), Positives = 80/187 (42%), Gaps = 27/187 (14%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 +SA L +L LV A +RG G+ ++ G IGL++A K FD RG + +TY++ Sbjct: 1 MSAESHLPEDNLGLVHLCANRFRGRGIEYDDLYGAGCIGLLKASKAFDSGRGVKFSTYAV 60 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 I ++ + R VK+ + + L RL G Q N + V +AK + Sbjct: 61 PVILGEIKR-LFRDGGTVKVSRSLKELSL-----RLTGEAQVFAHKNGREPTVEELAKIV 114 Query: 167 NVSESEVISMNCRLAGDESLNA------LINSSDKNSSQWQ------DWLVYDHDGQEQV 214 +VI E+LNA L D+N +Q D + D QV Sbjct: 115 GTPVEDVI---------EALNAAQPVISLTVGDDENETQADLPAPAPDEDITDRLALRQV 165 Query: 215 LIEKEER 221 L E +++ Sbjct: 166 LTELDDK 172 >gi|254479124|ref|ZP_05092475.1| RNA polymerase sigma-K factor [Carboxydibrachium pacificum DSM 12653] gi|214034938|gb|EEB75661.1| RNA polymerase sigma-K factor [Carboxydibrachium pacificum DSM 12653] Length = 234 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 30/82 (36%), Positives = 47/82 (57%), Gaps = 1/82 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE + YR GD A + L+ +LRLV + Y G G + +++S G IGL++ Sbjct: 35 LSPEEERKYLEAYR-RGDEEARNILIERNLRLVAHVVKKYSGTGRDLDDLISIGTIGLIK 93 Query: 89 AVKKFDPERGFRLATYSMWWIK 110 A+ +D E+G LATY+ I+ Sbjct: 94 AIDTYDFEKGTHLATYAAKCIE 115 >gi|283779412|ref|YP_003370167.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] gi|283437865|gb|ADB16307.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] Length = 374 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 25/64 (39%), Positives = 42/64 (65%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 L+ +R+V ++LRLVV IA + +++SEG L++AV+KFD +RGFR +TY+ Sbjct: 192 LADRNRIVRANLRLVVSIAKKFSDARNSFDDLLSEGITSLLRAVEKFDYDRGFRFSTYAT 251 Query: 107 WWIK 110 ++ Sbjct: 252 QAVR 255 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 28/70 (40%), Positives = 45/70 (64%), Gaps = 4/70 (5%) Query: 225 RNMLTRSMSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + +S L+PRER I R +E TL++L+ EF V +ERVRQ+E RA K++ Sbjct: 301 RRALAKMLSKLDPRERSIIRCRFGLDRKEQVQTLQSLAGEFGVCKERVRQLEMRAISKLR 360 Query: 282 ESIQKQVELS 291 S+ ++++L+ Sbjct: 361 -SMAEEIDLT 369 >gi|20807708|ref|NP_622879.1| sporulation sigma factor SigK [Thermoanaerobacter tengcongensis MB4] gi|20516259|gb|AAM24483.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 231 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 29/81 (35%), Positives = 48/81 (59%), Gaps = 3/81 (3%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E++ +Y+ A R GD A + L+ +LRLV + Y G G + +++S G IGL++A Sbjct: 35 EEERKYLEAYR---RGDEEARNILIERNLRLVAHVVKKYSGTGRDLDDLISIGTIGLIKA 91 Query: 90 VKKFDPERGFRLATYSMWWIK 110 + +D E+G LATY+ I+ Sbjct: 92 IDTYDFEKGTHLATYAAKCIE 112 >gi|312623242|ref|YP_004024855.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312203709|gb|ADQ47036.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 256 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 38/180 (21%), Positives = 87/180 (48%), Gaps = 19/180 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y++ + + LV +L + IA + G G+ ++ I L+ AV++F+P Sbjct: 18 LFEEYQKTKSIELRNELVNRYLYIAEIIAKKFVGRGIDYEDLYQVACIALINAVERFEPN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G++ +++ I ++ Y S++++ +R++ ++K + ++ +P Sbjct: 78 KGYKFTSFATPTIMGEIKRYFRDRASIIRLP-----RRIYETSAKIKLATEVLSTKLKRP 132 Query: 157 EQVVAIAKKLNVSESEVI------------SMNCRLAGDE--SLNALINSSDKNSSQWQD 202 +V IA+ LN+S EV+ S++ + DE +L ++ SD+N Q ++ Sbjct: 133 PKVEEIAQHLNMSTEEVLEVMEASNNYLPQSLDQTMYEDEEMTLGDVLGKSDENILQVEN 192 >gi|291550014|emb|CBL26276.1| RNA polymerase, sigma 29 subunit, SigE [Ruminococcus torques L2-14] Length = 264 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 30/94 (31%), Positives = 53/94 (56%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P LE ++E + + D A L+ +LRLVV IA + G+ + +++S G IGL Sbjct: 59 PPLENEKEREVVRWLGTDRDEKARKILIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGL 118 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 119 IKAINTFNPSKKIKLATYASRCIENEILMYLRRN 152 >gi|302871380|ref|YP_003840016.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574239|gb|ADL42030.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 255 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 39/149 (26%), Positives = 79/149 (53%), Gaps = 7/149 (4%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E++ L KR +E GD A + +LRLV+ + + G + ++ G IG Sbjct: 14 LPVLSHEEKFELLKRMKE-GDKEARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD + + +TY++ I ++ Y LR + ++I + + LK Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSMRISRSLKDTA----YKALKIK 127 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + I N+ +P + IAK+L++++ E++ Sbjct: 128 EKYINKNHREP-TLEEIAKELSITKEELV 155 >gi|297560730|ref|YP_003679704.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296845178|gb|ADH67198.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 287 Score = 53.5 bits (127), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 56/226 (24%), Positives = 104/226 (46%), Gaps = 17/226 (7%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRL----VTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 P+ E E +LA+ + D A RL V + LV K+A Y G G P+ ++ Sbjct: 29 PVKEIPAEELLAELHGLDDDDPRAVRLREEVVVRYQPLVNKLARRYNGRGEPLEDLKQTA 88 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 +GL++A++ + P+RG +Y M + ++ + +++ + R+ +L Sbjct: 89 MVGLVKAIRGYRPDRGKPFISYLMPTVTGEIKRHFRDHTWAIRVPRRHQENRI-----KL 143 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQ 201 + L + + IAK++ + E EV+ + + ES +L +++ D + S Q Sbjct: 144 RQVLNTFQQTHARVPTNAEIAKEMGLDEEEVVEL---VQASESYRSLSLDAPDSSDSDGQ 200 Query: 202 DWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + + DH G E E ER +R L +++ L RER I + R Sbjct: 201 EGSRLEDHLGSED---EGLERVVQRESLKPALARLPEREREILKLR 243 >gi|160914281|ref|ZP_02076502.1| hypothetical protein EUBDOL_00291 [Eubacterium dolichum DSM 3991] gi|158433908|gb|EDP12197.1| hypothetical protein EUBDOL_00291 [Eubacterium dolichum DSM 3991] Length = 260 Score = 53.1 bits (126), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 115/240 (47%), Gaps = 30/240 (12%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A L+ +L+LV+ I + + ++ G IGL++++ FD + R +TY Sbjct: 34 GDQNAKEELINGNLKLVLSIVQRFANRCENMDDLFQVGCIGLVKSIDHFDLKHEVRFSTY 93 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ Y LR ++++ + + K L + RLK + + K + +A+ Sbjct: 94 AVPMIMGEIKRY-LRDNQVLRV--SRHLKDLAYKCFRLK---EEYVHQHQKEPSITWLAE 147 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI-----EKE 219 +L V E +++ A D + N L S ++ VY+ DG E L+ EK+ Sbjct: 148 QLEVREKDIVD-----ALDSTQNVL--------SIFEP--VYNSDGDELYLLDQIRDEKD 192 Query: 220 ERKNRRNMLT--RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 E N+L+ S+ L +E I + R Q+ +T +++E +S+ +V ++E A Sbjct: 193 EIDLLNNVLSLRSSLKQLKEKELEILDKRYYQD--MTQTEIANELGISQAQVSRLEKSAI 250 >gi|268608170|ref|ZP_06141897.1| sporulation sigma factor SigG [Ruminococcus flavefaciens FD-1] Length = 259 Score = 53.1 bits (126), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 28/102 (27%), Positives = 56/102 (54%), Gaps = 1/102 (0%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++ ++++ E+ L + + G A +L+ +LRLV+ + + G G I ++ G I Sbjct: 15 ELKVMKEDEKMALLREIKATGSKEARDKLIKGNLRLVLSVIQRFTGRGEDIDDLFQIGVI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GL++A+ FD + R +TY + I ++ + LR +S VK+ Sbjct: 75 GLIKAINNFDLTKEVRFSTYCVPMISGELRRH-LRDYSHVKV 115 >gi|307717594|gb|ADN88850.1| RNA polymerase sigma-37 factor [Listeria innocua] gi|307717604|gb|ADN88855.1| RNA polymerase sigma-37 factor [Listeria innocua] gi|307717614|gb|ADN88860.1| RNA polymerase sigma-37 factor [Listeria innocua] gi|307717620|gb|ADN88863.1| RNA polymerase sigma-37 factor [Listeria innocua] gi|307717622|gb|ADN88864.1| RNA polymerase sigma-37 factor [Listeria innocua] Length = 220 Score = 53.1 bits (126), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 102/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQEDGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE++I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQKILQ 201 >gi|219115846|ref|XP_002178718.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217409485|gb|EEC49416.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 217 Score = 53.1 bits (126), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 25/58 (43%), Positives = 37/58 (63%), Gaps = 1/58 (1%) Query: 53 LVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ S++RLVV IA + + E V EG +GL +A ++DPERG R ATY+ +W+ Sbjct: 14 LIASNVRLVVSIAKKWAKNAHKAARETVQEGILGLAKAADRYDPERGLRFATYATYWV 71 >gi|291548178|emb|CBL21286.1| RNA polymerase, sigma 29 subunit, SigE [Ruminococcus sp. SR1/5] Length = 241 Score = 53.1 bits (126), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 25/68 (36%), Positives = 43/68 (63%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLVV IA + G+ + +++S G IGL++A+ FDP + +LATY+ I+ Sbjct: 62 LIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFDPVKNIKLATYASRCIENE 121 Query: 113 MQEYILRS 120 + Y+ R+ Sbjct: 122 ILMYLRRN 129 >gi|302391216|ref|YP_003827036.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Acetohalobium arabaticum DSM 5501] gi|302203293|gb|ADL11971.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Acetohalobium arabaticum DSM 5501] Length = 235 Score = 53.1 bits (126), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 34/105 (32%), Positives = 56/105 (53%), Gaps = 2/105 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 S + +G + L YI P L+ +EE RY E GD A L+ ++RLV I Sbjct: 11 SSLADGILVLISYIANNNIFPQPLDDEEEKKYLTRYLE-GDEEAKEVLIEHNMRLVAHIV 69 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 Y + +++S G+IGL++A++ +DP + +LATY+ I+ Sbjct: 70 KKYNNSNVDKEDLISIGSIGLIKAIETYDPSKKVKLATYASRCIE 114 >gi|303241077|ref|ZP_07327586.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302591337|gb|EFL61076.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 246 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 56/250 (22%), Positives = 116/250 (46%), Gaps = 29/250 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV ++ LV I ++ G ++ G IGL++A+KKFD + + Sbjct: 17 KSGDKQAQSILVERNVGLVWSIVKRFQNRGYETDDIYQIGCIGLIKAIKKFDDSFDVKFS 76 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK----PEQ 158 TY++ I ++ +I R ++K+ + L+ L ++ + +K Sbjct: 77 TYAVPMIIGEIKRFI-RDDGIIKVSRS---------LKELSNKIRVTKEIMMKELGREPS 126 Query: 159 VVAIAKKLNVSESEVI---SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 + I+ +++V+ E++ NC ESL + SD ++ D L + + +E L Sbjct: 127 ISEISLRMDVAAEELVMAMEANC---SPESLYNTVGDSDTSTVLLIDKLNNESNDEEVDL 183 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 ++K + L ++ L PRE++I R +E T ++ +S+ +V +IE + Sbjct: 184 VDKID-------LRLVLNTLKPREKQIIILRYFKEK--TQVQIAKMLGISQVQVSRIEKK 234 Query: 276 AFKKVQESIQ 285 ++++ I+ Sbjct: 235 ILDEIKKKIK 244 >gi|313902394|ref|ZP_07835797.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Thermaerobacter subterraneus DSM 13965] gi|313467325|gb|EFR62836.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Thermaerobacter subterraneus DSM 13965] Length = 247 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 36/102 (35%), Positives = 53/102 (51%), Gaps = 2/102 (1%) Query: 10 VNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 V G + L Y+ R P L +EE +R R GD A L+ +LRLV IA + Sbjct: 14 VRGLLYLVGYLQTGRSFPQPLSPEEEAHYLERMR-CGDERAREVLIERNLRLVAHIAKKF 72 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 G +++S G +GL++ V +DP +G RLATY+ I+ Sbjct: 73 DETGEDPEDLISIGTVGLIKGVDTYDPSKGTRLATYAARCIE 114 >gi|224992858|gb|ACN76144.1| SigB [Listeria monocytogenes] gi|224992860|gb|ACN76145.1| SigB [Listeria monocytogenes] gi|224992862|gb|ACN76146.1| SigB [Listeria monocytogenes] gi|224992864|gb|ACN76147.1| SigB [Listeria monocytogenes] gi|224992866|gb|ACN76148.1| SigB [Listeria monocytogenes] gi|224992868|gb|ACN76149.1| SigB [Listeria monocytogenes] gi|224992870|gb|ACN76150.1| SigB [Listeria monocytogenes] gi|224992872|gb|ACN76151.1| SigB [Listeria monocytogenes] gi|224992876|gb|ACN76153.1| SigB [Listeria monocytogenes] gi|224992878|gb|ACN76154.1| SigB [Listeria monocytogenes] gi|224992880|gb|ACN76155.1| SigB [Listeria monocytogenes] gi|224992882|gb|ACN76156.1| SigB [Listeria monocytogenes] gi|224992884|gb|ACN76157.1| SigB [Listeria monocytogenes] gi|224992888|gb|ACN76159.1| SigB [Listeria monocytogenes] gi|224992890|gb|ACN76160.1| SigB [Listeria monocytogenes] gi|224992892|gb|ACN76161.1| SigB [Listeria monocytogenes] gi|224992894|gb|ACN76162.1| SigB [Listeria monocytogenes] gi|224992896|gb|ACN76163.1| SigB [Listeria monocytogenes] gi|224992900|gb|ACN76165.1| SigB [Listeria monocytogenes] Length = 214 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 101/211 (47%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 4 YQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 63 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 64 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 117 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 118 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 174 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 175 V--------NQRMLLEKVLPVLDEREQKILQ 197 >gi|255994576|ref|ZP_05427711.1| RNA polymerase sigma-B factor [Eubacterium saphenum ATCC 49989] gi|255993289|gb|EEU03378.1| RNA polymerase sigma-B factor [Eubacterium saphenum ATCC 49989] Length = 249 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 54/220 (24%), Positives = 103/220 (46%), Gaps = 27/220 (12%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 ++Y + D++ + +V +L +V + Y G+ ++ G + L+ AV++FD RG Sbjct: 8 EKYAKTRDINERNAIVEDYLYIVDILVRKYLNKGVEYDDLYQVGAMALIMAVERFDASRG 67 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSL-----VKIGTTANQ---KRLFFNLRRLKGHLQAI 149 F ++++ I +++Y + W L VK A Q + LF L+R + Sbjct: 68 FEFSSFATPTILGEIKKYFRDKEWKLKVPRSVKEANAAIQSARESLFAKLQRDPTVKEIA 127 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 + N+K E+V KL S +++ + D+S SD S+++ ++ + Sbjct: 128 EEKNMKEEEVA----KLIDSSMAYNTLSLDVTFDDS------GSDSGVSRYEKYMAVEGS 177 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 G E +E EE M+ +SVL+ + R IF+ R L+ Sbjct: 178 GIES--LEYEE------MIESILSVLSEKNRYIFKKRFLE 209 >gi|205373280|ref|ZP_03226084.1| sporulation sigma factor SigG [Bacillus coahuilensis m4-4] Length = 258 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 66/279 (23%), Positives = 121/279 (43%), Gaps = 53/279 (18%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L ++ + GD + +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNEEMRELFRKM-QAGDTYSREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+++ FD + R +TY++ I ++ Y I S SL I A Q R Sbjct: 74 GLMKSIDNFDLSQNVRFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQAR---- 129 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +L G K IAK L+V +++ +L+A+ Sbjct: 130 -EKLMGETS-------KEPTAEEIAKVLDVPHEDIVF---------ALDAI--------- 163 Query: 199 QWQDWL-----VYDHDGQEQVLIEKEERKNRRNM-------LTRSMSVLNPRERRIFEAR 246 QD + +Y+ G ++++ + R++ L + LN RE+ I R Sbjct: 164 --QDPVSLFEPIYNDGGDPIFVMDQLSDERNRDVNWIEEIALKEGLRRLNDREKMIIRKR 221 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 Q T ++ E +S+ +V ++E A K + ++IQ Sbjct: 222 FFQGK--TQMEVADEIGISQAQVSRLEKAAIKHMNKNIQ 258 >gi|224992874|gb|ACN76152.1| SigB [Listeria monocytogenes] gi|224992886|gb|ACN76158.1| SigB [Listeria monocytogenes] gi|224992898|gb|ACN76164.1| SigB [Listeria monocytogenes] gi|224992902|gb|ACN76166.1| SigB [Listeria monocytogenes] Length = 214 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 101/211 (47%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 4 YQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 63 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 64 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 117 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 118 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 174 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 175 V--------NQRMLLEKVLPVLDEREQKILQ 197 >gi|332977445|gb|EGK14221.1| DNA-directed RNA polymerase sigma subunit SigF [Desmospora sp. 8437] Length = 254 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 55/247 (22%), Positives = 115/247 (46%), Gaps = 28/247 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A RLV ++RLV + + G ++ G IGL++AV KFD + + Sbjct: 26 QKGDTEARDRLVQHNIRLVWSVVQRFLNRGYEAEDLFQIGCIGLLKAVDKFDLAYDVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR +VK+ + K L +R++K + T + + + Sbjct: 86 TYAVPMIIGEIQRF-LRDDGMVKVSRSL--KELSNRIRKVKDEM---TKGLGRSPTIQEL 139 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 ++++ V+ E++ +++ + + VY++DG +Q+ E Sbjct: 140 SEEMGVTPEEIV--------------FAQEANRTPTSIHE-TVYENDGDPITLMDQIADE 184 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +EE R L ++ L RER I R ++ T ++ +S+ +V ++E + Sbjct: 185 EEEGWFDRMALKEAIRQLEERERLIVYLRFFKDQ--TQSEVAQRLGISQVQVSRLEKKII 242 Query: 278 KKVQESI 284 ++++++I Sbjct: 243 RRMRDAI 249 >gi|167770367|ref|ZP_02442420.1| hypothetical protein ANACOL_01710 [Anaerotruncus colihominis DSM 17241] gi|167667689|gb|EDS11819.1| hypothetical protein ANACOL_01710 [Anaerotruncus colihominis DSM 17241] Length = 225 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 45/179 (25%), Positives = 81/179 (45%), Gaps = 20/179 (11%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 ++ ++ LV A ++G G+ ++ G +GL +AV FDP+RG +L+TY++ I M Sbjct: 16 ISENIGLVHSCAHRFKGRGIEYDDLFQAGCMGLCKAVDAFDPQRGVKLSTYAVPVILGEM 75 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 + + R VK+ T + +LR + Q +P V +A+ + + E +V Sbjct: 76 RR-LFRDGGAVKVSRTLKE----LSLRIGRAREQLALALGREP-SVSELAQAMELPEEQV 129 Query: 174 ISMNCRLA-------GDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + C A DE I+ +D Q D + + ++EK E K+R Sbjct: 130 VEALCAAAPPLSLTESDEDGGGQIDLPADSPEDQLADVISLNQ------VVEKLEDKDR 182 >gi|225568718|ref|ZP_03777743.1| hypothetical protein CLOHYLEM_04797 [Clostridium hylemonae DSM 15053] gi|225162217|gb|EEG74836.1| hypothetical protein CLOHYLEM_04797 [Clostridium hylemonae DSM 15053] Length = 189 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 29/79 (36%), Positives = 46/79 (58%), Gaps = 1/79 (1%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 ++Y E GDL A H L+ +LRLV I Y+ +++S G IGL++AV F+P++ Sbjct: 2 QKYTE-GDLEAKHVLIERNLRLVAHIVKKYQSLEEDNEDLLSIGTIGLIKAVVTFNPDKC 60 Query: 99 FRLATYSMWWIKAAMQEYI 117 RL TY+ I+ + Y+ Sbjct: 61 VRLGTYAARCIENEILMYL 79 >gi|299472406|emb|CBN77594.1| RpoD family RNA polymerase sigma factor [Ectocarpus siliculosus] Length = 242 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 52/232 (22%), Positives = 100/232 (43%), Gaps = 37/232 (15%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ EG I L A +++DP+RG R TY+ W ++AA + + + I + ++ Sbjct: 15 DLIQEGAIALHLAAERYDPQRGVRFFTYADWSLRAAFERAEASQATTIAI-----PRYVY 69 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 RRLK AI + P+ +A L +SE ++ + R +S+N ++ SS Sbjct: 70 VQKRRLK----AILGQHCGPQTSQDLATSLGISERQLAKLLRRAKDCQSMNRVLVSSGVA 125 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI------FEARRLQE 250 + ++ E +L R + L + L P+E + RR + Sbjct: 126 LGE----MIPGAQSCEDIL----RRLDAEASLVGLLGTLKPQEEEVIVHRYGLFGRRRKS 177 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKPRY 302 P +++ VSR+ V ++ A +K++ S + Q+PR+ Sbjct: 178 TPA----VAAVMGVSRQYVGRVHRSALEKMRASFEAD----------QQPRF 215 >gi|307717590|gb|ADN88848.1| RNA polymerase sigma-37 factor [Listeria welshimeri] gi|307717592|gb|ADN88849.1| RNA polymerase sigma-37 factor [Listeria welshimeri] gi|307717624|gb|ADN88865.1| RNA polymerase sigma-37 factor [Listeria welshimeri] gi|307717626|gb|ADN88866.1| RNA polymerase sigma-37 factor [Listeria welshimeri] Length = 220 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 102/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE+ I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQMILQ 201 >gi|326791235|ref|YP_004309056.1| RNA polymerase, sigma 28 subunit, SigK [Clostridium lentocellum DSM 5427] gi|326541999|gb|ADZ83858.1| RNA polymerase, sigma 28 subunit, SigK [Clostridium lentocellum DSM 5427] Length = 220 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 47/84 (55%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E++ L + GD +A + L+ +LRLV I Y + +++S G IGL Sbjct: 19 PLSAEEEKHYL--ECYQDGDEAAKNILIERNLRLVAHIVKKYNNINNDVDDLISIGTIGL 76 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++ + FDP + RLATY+ I+ Sbjct: 77 IKGISSFDPNKCTRLATYAARCIE 100 >gi|121488781|emb|CAJ18275.1| sigma 70-type sigma factor [Chlorobium phaeovibrioides] Length = 165 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 48/180 (26%), Positives = 91/180 (50%), Gaps = 33/180 (18%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTA 130 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L ++GT Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNRVGTLN 59 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNAL 189 + + L + + D N K +A +L++ +S+ ++ ++AG S++A Sbjct: 60 KISKAYSQLEQ-----EYERDPNTK-----ELANQLDM-DSQDVADTLKIAGRHVSVDAP 108 Query: 190 INSSDKN---SSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 D N D + DH ++ + +E E RS+SVL PRE + ++ Sbjct: 109 FAQGDDNRLLDVLQNDGHLPDHGLNRDSLTLEVE----------RSLSVLAPREADVIKS 158 >gi|134298861|ref|YP_001112357.1| sigma-70 region 2 domain-containing protein [Desulfotomaculum reducens MI-1] gi|134051561|gb|ABO49532.1| sigma-70 region 2 domain protein [Desulfotomaculum reducens MI-1] Length = 118 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 36/106 (33%), Positives = 56/106 (52%), Gaps = 3/106 (2%) Query: 9 IVNGEIGLSRYI-HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +VNG + L YI + P+ E +E LA GD A + L +LRLV I Sbjct: 13 VVNGVMALVSYIANNTFPQPLKEVEEARYLA--LLAEGDEMARNILTERNLRLVAHIVKK 70 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + G + +++S G IGL++A+ F ++G RLATY+ I+ A+ Sbjct: 71 FDSTGEDVDDLISIGTIGLIKAINTFKADKGTRLATYAARCIENAI 116 >gi|331090017|ref|ZP_08338907.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 3_1_46FAA] gi|330402931|gb|EGG82497.1| RNA polymerase sigma-E factor [Lachnospiraceae bacterium 3_1_46FAA] Length = 245 Score = 53.1 bits (126), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 34/110 (30%), Positives = 55/110 (50%), Gaps = 4/110 (3%) Query: 15 GLSRYIHEIRKI----PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G R +H I P LE E + R A L+ +LRLVV IA + Sbjct: 24 GSGREVHYIGGTEVLPPPLEGMRESEMINRLGTEYAEDAKKVLIEHNLRLVVYIAKKFDN 83 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G+ + +++S G IGL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 84 TGVGVEDLISIGTIGLIKAINTFNPTKKIKLATYASRCIENEILMYLRRN 133 >gi|224992792|gb|ACN76111.1| SigB [Listeria innocua] gi|224992796|gb|ACN76113.1| SigB [Listeria innocua] gi|224992810|gb|ACN76120.1| SigB [Listeria innocua] gi|224992814|gb|ACN76122.1| SigB [Listeria innocua] gi|224992832|gb|ACN76131.1| SigB [Listeria innocua] gi|224992834|gb|ACN76132.1| SigB [Listeria innocua] gi|224992848|gb|ACN76139.1| SigB [Listeria innocua] gi|224992850|gb|ACN76140.1| SigB [Listeria innocua] gi|224992856|gb|ACN76143.1| SigB [Listeria innocua] Length = 214 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 101/211 (47%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 4 YQENGDEDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 63 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 64 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 117 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 118 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 174 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 175 V--------NQRMLLEKVLPVLDEREQKILQ 197 >gi|225026792|ref|ZP_03715984.1| hypothetical protein EUBHAL_01044 [Eubacterium hallii DSM 3353] gi|224955911|gb|EEG37120.1| hypothetical protein EUBHAL_01044 [Eubacterium hallii DSM 3353] Length = 245 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 62/248 (25%), Positives = 121/248 (48%), Gaps = 25/248 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K+ +E G+ A LV + L+ + ++G G ++ G+IGL++ ++ FD E Sbjct: 7 LIKQAKE-GNKEAQSILVEENSGLIWSVVKRFQGRGYDKEDLFQIGSIGLLKCIENFDLE 65 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 R + +TY++ I ++ + LR +VK+ + K + ++R K H Q + N +P Sbjct: 66 RNVKFSTYAVPLIMGEIKRF-LRDDGIVKVSRSL--KEASYKIKREKEHYQKLY--NREP 120 Query: 157 EQVVAIAKKLNVSESEVI-SMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + IA L++ ES+++ +M +G E SL+ +I S+ + +D L D EQ Sbjct: 121 -TLKEIAVTLDMDESDILMAME---SGQEVCSLHQVIYQSEGDEIHLEDKLEQQADLIEQ 176 Query: 214 VLIEKEERKNRRNMLTRS-MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 + N+ + + LN +ER+I R Q T ++ + +S+ +V ++ Sbjct: 177 TV---------DNIYVQELLKKLNEQERQIIHMRYFQNQ--TQAAIAKKIGISQVQVSRM 225 Query: 273 EARAFKKV 280 E + K+ Sbjct: 226 EKKILNKL 233 >gi|161898843|gb|ABX80411.1| SigB [Listeria monocytogenes] Length = 228 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 101/211 (47%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 6 YQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 65 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 66 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 119 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 120 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 176 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 177 V--------NQRMLLEKVLPVLDEREQKILQ 199 >gi|153938360|ref|YP_001391942.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum F str. Langeland] gi|152934256|gb|ABS39754.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum F str. Langeland] gi|295319962|gb|ADG00340.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium botulinum F str. 230613] Length = 242 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 57/213 (26%), Positives = 101/213 (47%), Gaps = 18/213 (8%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 ++VS G IGLM A+ KFD +G + +TY+ IK +M + + R+ + K G R Sbjct: 41 DLVSYGMIGLMDALNKFDESKGMKFSTYASIRIKGSMIDELRRNSPISK-GAMDKLNRYN 99 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSD 194 + +L+ L K ++ IA +LN+S EV I SL LI SS+ Sbjct: 100 EAIEKLQKKLN-------KEPNLIQIAGELNISLKEVSEIENYINYISVISLEDLIFSSE 152 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRR-NMLTRSMSVLNPRERRIFEARRLQENPV 253 L+ ++ EK +N + + L +++ +LN ++R + +E + Sbjct: 153 DEVP-----LIGTIKDEKSPSPEKHVEENEQLDYLAKAIELLNEKDRLVVTLYYYEE--L 205 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TL+ + VS RV Q+ +RA +++++ K Sbjct: 206 TLKEIGKILNVSESRVCQLHSRAIIHLKKAMAK 238 >gi|153814605|ref|ZP_01967273.1| hypothetical protein RUMTOR_00819 [Ruminococcus torques ATCC 27756] gi|317501234|ref|ZP_07959439.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|145848099|gb|EDK25017.1| hypothetical protein RUMTOR_00819 [Ruminococcus torques ATCC 27756] gi|316897410|gb|EFV19476.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] Length = 246 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 34/110 (30%), Positives = 55/110 (50%), Gaps = 4/110 (3%) Query: 15 GLSRYIHEIRKI----PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 G R +H I P LE E + R A L+ +LRLVV IA + Sbjct: 25 GSGREVHYIGGTEVLPPPLEGMRESEMINRLGTEYAEDAKKVLIEHNLRLVVYIAKKFDN 84 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G+ + +++S G IGL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 85 TGVGVEDLISIGTIGLIKAINTFNPTKKIKLATYASRCIENEILMYLRRN 134 >gi|161898921|gb|ABX80450.1| SigB [Listeria monocytogenes] Length = 231 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 101/211 (47%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 6 YQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 65 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 66 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 119 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 120 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 176 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 177 V--------NQRMLLEKVLPVLDEREQKILQ 199 >gi|332970514|gb|EGK09503.1| RNA polymerase sigma factor SigB [Desmospora sp. 8437] Length = 261 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 59/250 (23%), Positives = 119/250 (47%), Gaps = 16/250 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L +RY+E D LV LV +A + P ++V G IGL+ A+K++DP+ Sbjct: 18 LIRRYQEESDEEIQEVLVDHFTPLVETLASKFTKGSEPFEDLVQVGMIGLLAALKRYDPD 77 Query: 97 RGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 G ++++ I ++ +I ++WS+ +R+ R+K + +T + Sbjct: 78 FGKSFESFAVPTIVGEIKRHIRDKTWSV------HVPRRIKELGPRIKKAAEELTIRYQR 131 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQV 214 V IA+ L+V+ EV+ + S NA+ ++S + +++ + D G Sbjct: 132 SPSVDEIAQYLDVTPEEVLET---MEMGRSYNAVSVDSPIEANNEGSQVTLLDLVGNRDA 188 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 EK +++ +L ++ VL RE+ I R + ++ + + E +S+ V +++ Sbjct: 189 GFEK---VDQQLLLQKAFQVLTDREQAII--RMTFFDNLSQKQVGDELGISQMHVSRLQR 243 Query: 275 RAFKKVQESI 284 RA K++E+I Sbjct: 244 RALGKLREAI 253 >gi|312134672|ref|YP_004002010.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311774723|gb|ADQ04210.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 255 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 39/149 (26%), Positives = 78/149 (52%), Gaps = 7/149 (4%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E++ L KR +E GD A + +LRLV+ + + G + ++ G IG Sbjct: 14 LPVLSHEEKFELLKRMKE-GDKEARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD + + +TY++ I ++ Y LR + ++I + + LK Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSMRISRSLKDTA----YKALKIK 127 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + I N +P + IAK+L++++ E++ Sbjct: 128 EKYINKNQREP-TLEEIAKELSITKEELV 155 >gi|320102910|ref|YP_004178501.1| RNA polymerase sigma-28 subunit SigD/FliA/WhiG [Isosphaera pallida ATCC 43644] gi|319750192|gb|ADV61952.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Isosphaera pallida ATCC 43644] Length = 273 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 54/215 (25%), Positives = 101/215 (46%), Gaps = 17/215 (7%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G+ + +++S G GLM A+ FD RG + TY + I+ AM + LR+ V + Sbjct: 65 GVDLDDLISAGTFGLMDAIDAFDLSRGVKFETYCVPRIRGAMLDE-LRTMDWVPRLVRSK 123 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS--ESEVISMNCRLAGDESLNAL 189 R + + L+AI + +P IA++L V+ E E +++ G SLN Sbjct: 124 HSR----MEEARKALEAI---HGRPPTDAEIAERLGVTPEEFEKMALESNAVGLVSLNKK 176 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 +D + ++ D G++ + +RK+ M+TR LN ER I + Sbjct: 177 WYETDSYKDVREIDILEDKKGEDPT--RRLQRKDLMRMVTRG---LNRNERLIIILYYYE 231 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E +T++ + + ++S RV Q+ + +++Q + Sbjct: 232 E--LTMKEIGATLDLSESRVSQMHSSIIQRLQSQL 264 >gi|291550016|emb|CBL26278.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus torques L2-14] Length = 260 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 39/154 (25%), Positives = 77/154 (50%), Gaps = 15/154 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L ++E+ L +R R GD A + +LRLV+ + + ++ G + Sbjct: 15 KLPLLREKEKEELFRRIR-QGDKLAREEYIKGNLRLVLSVMKRFDSSNENADDLFQIGCV 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++AV FDP+R + +TY++ I ++ Y+ + SL R+ +LR + Sbjct: 74 GLVKAVDNFDPDRQVKFSTYAVPMIIGEIRRYLRDNSSL----------RVSRSLRDIAY 123 Query: 145 HL----QAITDNNLKPEQVVAIAKKLNVSESEVI 174 + + N+K + IA+++ +S+ EV+ Sbjct: 124 KVIYTREGYIRKNMKEPSIQEIAEEIGLSKEEVV 157 >gi|255505283|ref|ZP_05345211.3| RNA polymerase sigma-E factor [Bryantella formatexigens DSM 14469] gi|255268593|gb|EET61798.1| RNA polymerase sigma-E factor [Bryantella formatexigens DSM 14469] Length = 249 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 2/79 (2%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 RE G+ A L+ +LRLVV IA + G+ + +++S G IGL++A+ F+P + +L Sbjct: 61 RESGE--AKSLLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFNPGKNIKL 118 Query: 102 ATYSMWWIKAAMQEYILRS 120 ATY+ I+ + Y+ R+ Sbjct: 119 ATYASRCIENEILMYLRRT 137 >gi|133481|sp|P26768|RPSX_BACTK RecName: Full=Putative RNA polymerase sigma-G factor; AltName: Full=ORF3 gi|580955|emb|CAA40027.1| unnamed protein product [Bacillus thuringiensis serovar kurstaki] Length = 125 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 28/95 (29%), Positives = 55/95 (57%), Gaps = 5/95 (5%) Query: 25 KIPMLEKQEEYVLAKRYRE--HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+ +E + K +RE G++SA +LV +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKNEE---MRKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 IGLM+++ FD + + +TY++ I ++ Y+ Sbjct: 72 CIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYL 106 >gi|288573001|ref|ZP_06391358.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dethiosulfovibrio peptidovorans DSM 11002] gi|288568742|gb|EFC90299.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dethiosulfovibrio peptidovorans DSM 11002] Length = 248 Score = 52.8 bits (125), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 58/211 (27%), Positives = 103/211 (48%), Gaps = 24/211 (11%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++S G +GL+ A+ +F+ ERGF T+++ I+ A+ + + + + G Sbjct: 46 GLDYEDLISFGLMGLLDAIDRFEIERGFSFQTFAVPRIRGAVLDELRKCDWFSRTGREKL 105 Query: 132 QKRLFFNLRRLKGHLQAIT--DNNLKPEQVVAIAKKLNVSESEVISMNCR---LAGDESL 186 Q RL RL +Q IT D +LK E V + + E++S+ R ++ DE Sbjct: 106 Q-RLERATERL--MIQGITPDDESLKREMDVD-----DKTYREMLSLASRGYVVSLDE-- 155 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + S D+ Q D L Y ++ L +EE R+++ +++ L+ RER + Sbjct: 156 ---VMSLDEGDVQKGDLLSYTGASAQEFLENREE----RDLVVGALNRLSERERLVLSMY 208 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L+E +TL+ + V+ RV QI +A Sbjct: 209 YLEE--MTLKEIGLVLGVTESRVSQIHGKAI 237 >gi|167770197|ref|ZP_02442250.1| hypothetical protein ANACOL_01540 [Anaerotruncus colihominis DSM 17241] gi|167667519|gb|EDS11649.1| hypothetical protein ANACOL_01540 [Anaerotruncus colihominis DSM 17241] Length = 257 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 61/260 (23%), Positives = 127/260 (48%), Gaps = 30/260 (11%) Query: 37 LAKRYREHGDLSAAHRLVT--SHLRLVVKIAMG--YRGYGLPISEVVSEGNIGLMQAVKK 92 L + Y+E G +R+V S++ V I M + Y I E+V++G I L+ +V + Sbjct: 14 LMRLYKETGSQELRNRIVMHYSYIAKSVAIEMNNMFHKYA-TIEEMVNQGVIALIDSVDR 72 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 FDP+ G + +TY+ +K A+ +Y+ + W ++ A + +N +K + Sbjct: 73 FDPDHGVKFSTYAFTKVKGAIIDYVRKQDWLPRRVRHNAIRVNNAYNDLPMK-----LGR 127 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHD 209 N + E +AK+L++SE E ++G+ S +L+ +N + +++ + Sbjct: 128 NPTRSE----MAKQLDMSEREFDQCIYEMSGESIFSYESLLADGPQNQN-----MLWPME 178 Query: 210 GQEQVLIEKE---ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 G+ ++ E + K R L ++ LN +ER + + EN +T++ + VS Sbjct: 179 GE---IVNPEGCVDAKELREQLGMAIDSLNEQERHVL-SLYYYEN-LTMKEIGGVLGVSE 233 Query: 267 ERVRQIEARAFKKVQESIQK 286 +R+ QI + +K++ +++ Sbjct: 234 QRIGQINRKLIQKLRNKLEQ 253 >gi|239626528|ref|ZP_04669559.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239516674|gb|EEQ56540.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 209 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 28/80 (35%), Positives = 51/80 (63%), Gaps = 3/80 (3%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 +++EY+ +R +E GD SA L+ ++RLV + Y+G + +++S G IGL++AV Sbjct: 12 EEKEYL--ERCKE-GDQSARDMLIEHNMRLVAHVVKKYQGSDYDMEDLLSVGTIGLIKAV 68 Query: 91 KKFDPERGFRLATYSMWWIK 110 F+ ++G RLATY+ ++ Sbjct: 69 NTFNADKGSRLATYAARCVE 88 >gi|168186139|ref|ZP_02620774.1| RNA polymerase sigma-D factor [Clostridium botulinum C str. Eklund] gi|169295860|gb|EDS77993.1| RNA polymerase sigma-D factor [Clostridium botulinum C str. Eklund] Length = 242 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 113/243 (46%), Gaps = 27/243 (11%) Query: 53 LVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 +V ++ LV IA +G Y + +++ G +GLM A KFD +G + +TY+ Sbjct: 13 IVKKYIPLVKYIASRVIIGKTKY-IEFEDLLGYGMLGLMDAFNKFDKSKGMKFSTYASIR 71 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ +M + I ++ + K A K L + ++ + NL + IA++L++ Sbjct: 72 IRGSMIDEIRKNSPISK---GAMDK-----LNKYNAAIENLQRKNLSEPNIKDIAQELDM 123 Query: 169 SESEV--ISMNCRLAGDESLNALINSSDKNSS---QWQDWLVYDHDGQEQVLIEKEERKN 223 + S+V I SL LI S D + S +D + D +E+ ER Sbjct: 124 TVSQVGEIENFINYISIVSLEDLIFSDDDDISLIGTIED--INSPDPEEEF-----ERDE 176 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + L++ + +LN ++R + +E +TL+ + VS RV Q+ +RA +++ Sbjct: 177 KLEYLSKGLDMLNDKDRTVLSLYYYEE--MTLKEIGKVLGVSESRVCQLHSRAIVHLRKE 234 Query: 284 IQK 286 + K Sbjct: 235 LAK 237 >gi|319937135|ref|ZP_08011542.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319807501|gb|EFW04094.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 230 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 47/176 (26%), Positives = 82/176 (46%), Gaps = 12/176 (6%) Query: 21 HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY-GLPISEVV 79 H++ K P+ K+E L K + GD A L+ +LRLVV +A Y I +++ Sbjct: 22 HDVLKAPLKGKEEADALVKL--QQGDAQARDLLIEHNLRLVVYVAKKYDSVQNGSIEDLI 79 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL---------VKIGTTA 130 S G IGL++AV F ++ +LATY+ I+ + ++ ++ L + + Sbjct: 80 SIGTIGLVKAVNTFKMDKNIKLATYASRCIENEILMFLRKNNKLRQEISLDEPLNVDYDG 139 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 N+ L + K +Q ++N + E+ LN E E++ M L G + L Sbjct: 140 NELLLSDIIGTDKDIVQDEIEHNDQKEKFYRALHHLNEREQEILMMRYGLVGHDEL 195 >gi|240144184|ref|ZP_04742785.1| RNA polymerase sigma-E factor [Roseburia intestinalis L1-82] gi|257203788|gb|EEV02073.1| RNA polymerase sigma-E factor [Roseburia intestinalis L1-82] gi|291536439|emb|CBL09551.1| RNA polymerase, sigma 29 subunit, SigE [Roseburia intestinalis M50/1] gi|291538693|emb|CBL11804.1| RNA polymerase, sigma 29 subunit, SigE [Roseburia intestinalis XB6B4] Length = 243 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 32/96 (33%), Positives = 55/96 (57%), Gaps = 3/96 (3%) Query: 27 PMLEKQEEYVLAKRYR--EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 P L ++E V + E G L A +L+ +LRLVV IA + G+ + +++S G I Sbjct: 37 PPLAGEDEAVCIEMLTSDESGQL-ARKQLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTI 95 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 GL++A+ F+P + +LATY+ I+ + Y+ R+ Sbjct: 96 GLIKAINTFNPGKNIKLATYASRCIENEILMYLRRN 131 >gi|309778066|ref|ZP_07673005.1| RNA polymerase sigma-E factor [Erysipelotrichaceae bacterium 3_1_53] gi|313901138|ref|ZP_07834626.1| RNA polymerase sigma-E factor [Clostridium sp. HGF2] gi|308914160|gb|EFP59961.1| RNA polymerase sigma-E factor [Erysipelotrichaceae bacterium 3_1_53] gi|312954096|gb|EFR35776.1| RNA polymerase sigma-E factor [Clostridium sp. HGF2] Length = 234 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 67/254 (26%), Positives = 113/254 (44%), Gaps = 62/254 (24%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L+K+EE + A E+GD A + L+ +LRLVV IA Y + + +++S G+IGL++ Sbjct: 35 LDKEEE-LAALIALENGDEEARNTLIEHNLRLVVYIAKRYETNPIFMEDLISIGSIGLIK 93 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV F ++ +L TY+ I+ + + LR S RR Sbjct: 94 AVNTFKRDKNIKLVTYASRCIENEILMF-LRKKS-----------------RR------- 128 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 K+ VS E +N G+E L D L D Sbjct: 129 ----------------KVEVSFDE--PLNIDYDGNELL-------------LSDILGTDD 157 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRE 267 D V E E+++N+R +L +MS L RER+I + R +Q +T ++++ +S+ Sbjct: 158 DV---VTKEFEKKENKRELL-EAMSTLKERERQILQMRYGIQHEELTQKDIAKRLGISQS 213 Query: 268 RVRQIEARAFKKVQ 281 + ++E R K++ Sbjct: 214 YISRLEKRIIAKLK 227 >gi|253682486|ref|ZP_04863283.1| RNA polymerase sigma-F factor [Clostridium botulinum D str. 1873] gi|253562198|gb|EES91650.1| RNA polymerase sigma-F factor [Clostridium botulinum D str. 1873] Length = 252 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 54/242 (22%), Positives = 111/242 (45%), Gaps = 20/242 (8%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A LV +L LV I+ + G ++ G++GL++A+ FD + +TY Sbjct: 27 GDKKAVDELVQKNLPLVSSISKKFLNRGYEYEDIFQIGSMGLIKAINNFDSSYDVQFSTY 86 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTA--NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ +I R L+K+ + K+L ++ +L L N +P + + Sbjct: 87 AVPMIMGEIKRFI-RDDGLIKVSRSVKYTAKKLHYDKEKLTKEL------NREP-SLEEL 138 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 +K +S+ ++I + + + L I+ D + D +V D G+ L Sbjct: 139 SKFSGISKEDIIFSSEAINEPKYLYDTIHQDDGSPIYLIDKVVLDDKGEIDEL------- 191 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L ++S L+ R R+I R ++ +T ++ +S+ +V +IE + K ++E Sbjct: 192 -DKIALKEALSKLDQRSRQIIILRYFKD--ITQVKVAKMLGISQVQVSRIEKKVLKSMKE 248 Query: 283 SI 284 + Sbjct: 249 KL 250 >gi|254384107|ref|ZP_04999452.1| sigma factor [Streptomyces sp. Mg1] gi|194342997|gb|EDX23963.1| sigma factor [Streptomyces sp. Mg1] Length = 301 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 56/199 (28%), Positives = 89/199 (44%), Gaps = 21/199 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 80 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 139 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L VSE Sbjct: 140 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQKLDRS---PTVPELAAVLGVSEE 193 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 EV+ N A SL++ + D L Y+ E V E R++ + + Sbjct: 194 EVVDGLAVGNAYTA--SSLDSPSPEDEGGEGSLADRLGYEDTALEGV----EYRESLKPL 247 Query: 228 LTRSMSVLNPRERRIFEAR 246 L + L PRER+I R Sbjct: 248 LAK----LPPRERQIIMLR 262 >gi|161898885|gb|ABX80432.1| SigB [Listeria monocytogenes] Length = 217 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 101/211 (47%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 5 YQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 64 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 65 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 118 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 119 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 175 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 176 V--------NQRMLLEKVLPVLDEREQKILQ 198 >gi|220934511|ref|YP_002513410.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thioalkalivibrio sp. HL-EbGR7] gi|219995821|gb|ACL72423.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thioalkalivibrio sp. HL-EbGR7] Length = 241 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 55/237 (23%), Positives = 106/237 (44%), Gaps = 25/237 (10%) Query: 51 HRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +RLV +H+ LV +IA +G + + +++ G +GL++A +++D +G TY+ Sbjct: 10 NRLVDAHVPLVKRIAYHLLGRLPSSVQVDDLIQAGVVGLLEAAQQYDATQGASFETYAGI 69 Query: 108 WIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 I+ AM + + RS W+ + + N RR+ ++ + + + Q +A +L Sbjct: 70 RIRGAMLDEVRRSDWT---------PRSVHRNARRVSEAMRLVENRLGREAQPAEVAAEL 120 Query: 167 NVSESEVISMNCRLAGDESLNALINSSD--KNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 VS E M D + +++ D + S+ +D L G E E + Sbjct: 121 GVSLDEYQHM----VSDAASCKVLSFEDIFEPDSEGEDLL----PGDEPSPFEALQSDGF 172 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L R + L RER + ++ + L + VS RV Q+ +A +++ Sbjct: 173 RAALAREVGALPERERLVMSL--YYDDELNLREIGEVLGVSESRVCQLHGQALVRLR 227 >gi|87302171|ref|ZP_01084996.1| RNA polymerase ECF-type (group 3) sigma-E factor [Synechococcus sp. WH 5701] gi|87283096|gb|EAQ75052.1| RNA polymerase ECF-type (group 3) sigma-E factor [Synechococcus sp. WH 5701] Length = 318 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 26/82 (31%), Positives = 51/82 (62%), Gaps = 1/82 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG-LPISEVVSEGNIGLMQAVKKFDP 95 L +R+ GD +RLV +L LV ++A+ G +P+ ++V G +GL++A++ FDP Sbjct: 21 LLQRFHSSGDHRLRNRLVELNLPLVRQVAVRQSGSTRVPLDDLVQLGCLGLIRAIEAFDP 80 Query: 96 ERGFRLATYSMWWIKAAMQEYI 117 R L+++++ +I+ MQ ++ Sbjct: 81 SRHTALSSFAVLYIRGEMQHHL 102 >gi|225375611|ref|ZP_03752832.1| hypothetical protein ROSEINA2194_01236 [Roseburia inulinivorans DSM 16841] gi|225212590|gb|EEG94944.1| hypothetical protein ROSEINA2194_01236 [Roseburia inulinivorans DSM 16841] Length = 244 Score = 52.8 bits (125), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 30/99 (30%), Positives = 55/99 (55%), Gaps = 1/99 (1%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 EI P+ ++E Y + H + A L+ +LRLVV IA + G+ + +++S Sbjct: 35 EILPPPLEGEREAYCIRMLDGVHAE-RARKELIEHNLRLVVYIAKKFDNTGVGVEDLISI 93 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G IGL++ + F+P++ +LATY+ I+ + Y+ R+ Sbjct: 94 GTIGLIKGINTFNPDKNIKLATYASRCIENEILMYLRRN 132 >gi|291522735|emb|CBK81028.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Coprococcus catus GD/7] Length = 206 Score = 52.4 bits (124), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 30/81 (37%), Positives = 47/81 (58%), Gaps = 1/81 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +E V ++Y ++GD+ A L+ +LRLV I Y G E++S G +GL++ Sbjct: 8 LSAAQETVYLRQY-QNGDMHARDILIERNLRLVAHIVKKYMNSGKETDEMISVGIVGLVK 66 Query: 89 AVKKFDPERGFRLATYSMWWI 109 AV ++ E+G RLATY+ I Sbjct: 67 AVNTYNFEKGSRLATYAARCI 87 >gi|293401517|ref|ZP_06645660.1| RNA polymerase sigma-E factor [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305155|gb|EFE46401.1| RNA polymerase sigma-E factor [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 238 Score = 52.4 bits (124), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 64/259 (24%), Positives = 119/259 (45%), Gaps = 62/259 (23%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 LEK+EE + A E+GD A ++L+ +LRLVV IA Y + + +++S G+IGL++ Sbjct: 35 LEKEEE-LAALIALENGDEEARNKLIEHNLRLVVYIAKRYETNPIFMEDLISIGSIGLIK 93 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV F ++ +L TY+ I+ N+ +F R K Sbjct: 94 AVNTFKRDKNIKLVTYASRCIE--------------------NEILMFL---RKKSR--- 127 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 +K+ VS E +N G+E L + I +D + Sbjct: 128 ---------------RKVEVSFDE--PLNIDYDGNELLLSDILGTDDDI----------- 159 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRE 267 V E E+++N+R +L +M+ L RER+I + R ++ +T ++++ +S+ Sbjct: 160 -----VTKEFEKQENKRELLA-AMATLKDRERQILQMRYGIEHEELTQKDIAKRLGISQS 213 Query: 268 RVRQIEARAFKKVQESIQK 286 + ++E R +K++ ++K Sbjct: 214 YISRLEKRIIQKLKVQMKK 232 >gi|210608671|ref|ZP_03287948.1| hypothetical protein CLONEX_00127 [Clostridium nexile DSM 1787] gi|210152928|gb|EEA83934.1| hypothetical protein CLONEX_00127 [Clostridium nexile DSM 1787] Length = 247 Score = 52.4 bits (124), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 26/75 (34%), Positives = 45/75 (60%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D A L+ +LRLVV IA + G+ + +++S G IGL++A+ F+P + +LATY+ Sbjct: 60 DEYAKKVLIEHNLRLVVYIAKKFDNTGVGVEDLISIGTIGLIKAINTFNPTKNIKLATYA 119 Query: 106 MWWIKAAMQEYILRS 120 I+ + Y+ R+ Sbjct: 120 SRCIENEILMYLRRN 134 >gi|302391629|ref|YP_003827449.1| RNA polymerase, sigma subunit, RpsG/SigG [Acetohalobium arabaticum DSM 5501] gi|302203706|gb|ADL12384.1| RNA polymerase, sigma subunit, RpsG/SigG [Acetohalobium arabaticum DSM 5501] Length = 260 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 27/93 (29%), Positives = 52/93 (55%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L +E L K+ ++GD A +V +L+LV+ + + G PI ++ G I Sbjct: 14 ELPVLSNEEMRELFKKM-QNGDREARQTIVGGNLKLVLSVLQRFNNRGEPIDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD R + +TY++ I ++ ++ Sbjct: 73 GLMKAIDNFDLSRNVKFSTYAVPMIIGEIRRHL 105 >gi|150390238|ref|YP_001320287.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|149950100|gb|ABR48628.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 149 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 32/85 (37%), Positives = 48/85 (56%), Gaps = 1/85 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE + +RY E GD A + LV +LRLV + Y +++S G IGL++ Sbjct: 33 LSPEEEAMYLERY-EQGDEEARNILVERNLRLVAHVVKKYSNVNRDADDLISIGTIGLIK 91 Query: 89 AVKKFDPERGFRLATYSMWWIKAAM 113 A+ F+ +G RLATY+ I+ AM Sbjct: 92 AITTFNRGKGTRLATYAARCIEKAM 116 >gi|325662347|ref|ZP_08150956.1| hypothetical protein HMPREF0490_01695 [Lachnospiraceae bacterium 4_1_37FAA] gi|325471349|gb|EGC74572.1| hypothetical protein HMPREF0490_01695 [Lachnospiraceae bacterium 4_1_37FAA] Length = 234 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 53/229 (23%), Positives = 108/229 (47%), Gaps = 21/229 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L + +E GD +A R + +LRLV+ + + + ++ G + Sbjct: 15 KLPLLSNEEKEALFVKIKE-GDEAARERYIKGNLRLVLSVIKRFASSNENVDDLFQIGCV 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRR 141 GLM+A+ F+ + + +TY++ I ++ Y LR + +++ + K ++ Sbjct: 74 GLMKAIDNFNTDLQVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDTAYKAIYAKEGY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K HL+ T V IA+++ +++ ++I + SLN + + ++ Sbjct: 133 MKRHLKEPT--------VEEIAEEIGIAKEDIIFALDAIQAPMSLNEPVYNDSGDALYVM 184 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D + D +E+ +E L +M LN RER I + R L+E Sbjct: 185 DQ-ISDKKNREEYWVEGLS-------LEAAMERLNERERFIIQLRFLKE 225 >gi|255523683|ref|ZP_05390649.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium carboxidivorans P7] gi|296186687|ref|ZP_06855089.1| putative RNA polymerase sigma factor WhiG [Clostridium carboxidivorans P7] gi|255512552|gb|EET88826.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium carboxidivorans P7] gi|296048724|gb|EFG88156.1| putative RNA polymerase sigma factor WhiG [Clostridium carboxidivorans P7] Length = 241 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 66/246 (26%), Positives = 107/246 (43%), Gaps = 21/246 (8%) Query: 47 LSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 L LV ++ LV IA +G Y + ++VS G +GLM A+ KFD RG + + Sbjct: 7 LDVKEELVKKYIPLVKYIASRVIIGKTKY-IEYEDLVSYGMLGLMDAIGKFDNTRGMKFS 65 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TYS IK AM + I R S + G R + RL+ L +P I Sbjct: 66 TYSSIRIKGAMIDEI-RKNSPISKGAMDKLNRYNAAVERLQKTLGR------EPSD-KEI 117 Query: 163 AKKLNVSESEVISMN--CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 A +LN++ E+I + SL LI S D + D + + E Sbjct: 118 ANELNITLKEMIEIENYINYISIVSLEDLIFSEDDDIPLIGTI----QDNKSPSPEKSLE 173 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 K L +++ +LN +++ + + +TL+ + VS RV Q+ +RA + Sbjct: 174 EKEELEYLAKALDLLNEKDKTVLSLYYYE--GLTLKEIGKVLSVSESRVCQLHSRAIVHL 231 Query: 281 QESIQK 286 + ++QK Sbjct: 232 RNAMQK 237 >gi|256751992|ref|ZP_05492861.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus CCSD1] gi|256749102|gb|EEU62137.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus CCSD1] Length = 256 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 59/260 (22%), Positives = 124/260 (47%), Gaps = 17/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ ++ L +R + +GD A + +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLKPSKQKELLQRMK-NGDKKAREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD ++ + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 73 GLIKAIDNFDLDQNVKFSTYAVPMIIGEIRRY-LRDNTPIRVSRSLRD----IAYKALQV 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + +++N+ +P V IAK+L++ EV+ + SL I ++ D Sbjct: 128 RDKLVSENSKEP-TVGEIAKELDLPREEVVMALDAIQEPVSLFEPIYHDGGDAIYVMDQ- 185 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D ++V +EK L ++ L+ RE+ I R E +E ++ E + Sbjct: 186 VSDDKNMDEVWLEK-------IALKEAIQKLSEREKMIL-TMRFFEGKTQME-VAKEIGI 236 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A +++ I Sbjct: 237 SQAQVSRLEKAALNHMRKYI 256 >gi|4378867|gb|AAD19735.1| sigma-F factor [Zymomonas mobilis subsp. mobilis ZM4] Length = 244 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 104/235 (44%), Gaps = 23/235 (9%) Query: 53 LVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ +HL+LV KIA G + + +++ G + L++A F+ RGF ATY+ I Sbjct: 25 LIKTHLQLVRKIAWHVHGRVSSAIEVEDLIQIGMVALIEAANAFE-NRGFAFATYASMRI 83 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM +Y +R + + A QK L L L +PE IA+KLN+S Sbjct: 84 RGAMIDY-MRQHAATARSSIARQKTLNKAREELSATL------GRRPED-AEIAEKLNMS 135 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 SE R D ++N S D S D+ Q + ER+ ++ L Sbjct: 136 PSE-----YREWADGAINIRQESLDDVYSDHSSIFTDDNADQASEM----EREALQSALA 186 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L RE + + ++E + L+ + ++ R+ QI+ A +++ + Sbjct: 187 EQIKTLPEREALVLQLYYVEE--LNLKEIGEVLDLGTARISQIKKSAVDHLRQKM 239 >gi|332982148|ref|YP_004463589.1| RNA polymerase sigma subunit RpsG/SigG [Mahella australiensis 50-1 BON] gi|332699826|gb|AEE96767.1| RNA polymerase, sigma subunit, RpsG/SigG [Mahella australiensis 50-1 BON] Length = 257 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 64/273 (23%), Positives = 124/273 (45%), Gaps = 43/273 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L ++ L KR +E GD +A + +LRLV+ I + G + ++ G I Sbjct: 15 KLPVLTDKQMKDLLKRIKE-GDKAAREEFIRGNLRLVLSIIQRFNNRGEHVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 74 GLIKAIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDTA----YKALQV 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 Q + N +P V IAK + + EV+ +++A+ QD + Sbjct: 129 REQLVAQNGKEP-TVEEIAKAMELPAEEVVF---------AMDAI-----------QDPI 167 Query: 205 -----VYDHDGQEQVLIEKE--ERKNRRN------MLTRSMSVLNPRERRIFEARRLQEN 251 VY HDG + + + + + KN+ + L +M L+ RE+ I R Q Sbjct: 168 SLFEPVY-HDGGDAIYVMDQVSDDKNQDDNWLETIALKEAMQKLSEREKTILAMRFFQGR 226 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A +++ I Sbjct: 227 --TQMEVAEEIGISQAQVSRLEKSALSHMRKYI 257 >gi|154504525|ref|ZP_02041263.1| hypothetical protein RUMGNA_02029 [Ruminococcus gnavus ATCC 29149] gi|153795007|gb|EDN77427.1| hypothetical protein RUMGNA_02029 [Ruminococcus gnavus ATCC 29149] Length = 208 Score = 52.4 bits (124), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 28/80 (35%), Positives = 49/80 (61%), Gaps = 3/80 (3%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 +++EY+ ++Y E GDL A H L+ +LRLV + Y+ +++S G IGL++A+ Sbjct: 12 EEKEYI--QKYTE-GDLQAKHILIERNLRLVAHVIKKYQYVDEDPEDLISIGTIGLIKAI 68 Query: 91 KKFDPERGFRLATYSMWWIK 110 F+P +G RLA Y+ ++ Sbjct: 69 VTFNPSKGNRLAAYASKCVE 88 >gi|302774234|ref|XP_002970534.1| hypothetical protein SELMODRAFT_147096 [Selaginella moellendorffii] gi|300162050|gb|EFJ28664.1| hypothetical protein SELMODRAFT_147096 [Selaginella moellendorffii] Length = 458 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 31/115 (26%), Positives = 65/115 (56%), Gaps = 4/115 (3%) Query: 48 SAAHRLVTSHLRLVVKIAMGY-RGYG-LPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +A ++L+ + RLV+ +A Y R G + ++ EG GL+ A+ F+P +G R +TY+ Sbjct: 218 AAQNKLIEHNCRLVLFLARRYERDAGSFSLEDLCQEGVKGLIDAMDHFNPGKGTRFSTYA 277 Query: 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 ++WI+ A+ I R+ ++++ + K++ +R+ + L+ N E+V+ Sbjct: 278 IFWIRTAIVRAITRTGQVIRLPFSFAAKKV--EIRKARRELRVELGRNPSDEEVM 330 >gi|224005495|ref|XP_002291708.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] gi|220972227|gb|EED90559.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] Length = 541 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 60/222 (27%), Positives = 94/222 (42%), Gaps = 43/222 (19%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + E V EG +GL +AV K+DPERG R +TY+ WI S++ K Sbjct: 319 LDEAVQEGMLGLARAVDKYDPERGLRFSTYATHWIT---------SYAAYK--------- 360 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE----------SEVISMNCRLAGDE 184 + +K HLQ T P + +IAK+L +SE ++S++ + Sbjct: 361 -----KIIKDHLQLGT----TPPEQKSIAKELGISEQRLTTAIRATGSLVSVDAPVISPG 411 Query: 185 SLNALINSSDKNSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSV-LNPRERRI 242 S + +++ + S Q+ L+ D E ++ E R L +M+ L P ER + Sbjct: 412 SGSYKGSAAGGDGSNSQELLILDTLRCAEPKPEDQVEISFLRQCLENAMATELTPYERDV 471 Query: 243 FEAR---RLQENPVTLENLS-SEFEVSRERVRQIEARAFKKV 280 R E E + V+ VR E RAFKK+ Sbjct: 472 LRLRLGLDSGEGKTVREVVEICGGSVTMSDVRSAERRAFKKL 513 >gi|15237896|ref|NP_197800.1| SIGE (SIGMA FACTOR E); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|4033838|emb|CAA77213.1| sigma-like factor [Arabidopsis thaliana] gi|4972299|dbj|BAA78109.1| RNA polymerase sigma subunit SigE [Arabidopsis thaliana] gi|10178160|dbj|BAB11572.1| sigma-like factor [Arabidopsis thaliana] gi|222423237|dbj|BAH19595.1| AT5G24120 [Arabidopsis thaliana] gi|332005876|gb|AED93259.1| RNA polymerase sigma factor [Arabidopsis thaliana] Length = 517 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 32/95 (33%), Positives = 53/95 (55%), Gaps = 13/95 (13%) Query: 48 SAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +A ++L+ +LRLV+ + Y G ++ G GL+ A+ +F+P+R FRL+TY Sbjct: 278 AARNKLIKHNLRLVLFVMNKYFHEFTNGPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTY 337 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 ++WI+ A I+RS TT+N R+ F L Sbjct: 338 GLFWIRHA----IIRSM------TTSNFTRVPFGL 362 >gi|255280061|ref|ZP_05344616.1| RNA polymerase sigma-E factor [Bryantella formatexigens DSM 14469] gi|255269152|gb|EET62357.1| RNA polymerase sigma-E factor [Bryantella formatexigens DSM 14469] Length = 243 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 31/83 (37%), Positives = 49/83 (59%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E + L K Y+E GDL A L+ +LRLV +A Y+ G E+++ G IGL Sbjct: 42 PLTPEEEAWFLQK-YKE-GDLEAKKILIERNLRLVAHVAKKYQKQGEDGEELIAVGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++AV F+ R +LATY+ + Sbjct: 100 IKAVSTFNHARTNKLATYAARCV 122 >gi|299822364|ref|ZP_07054250.1| RNA polymerase sigma-B factor [Listeria grayi DSM 20601] gi|299815893|gb|EFI83131.1| RNA polymerase sigma-B factor [Listeria grayi DSM 20601] Length = 259 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 61/261 (23%), Positives = 124/261 (47%), Gaps = 26/261 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y K Y+E D A LV + LV IA Y ++V G IGL+ A+ Sbjct: 12 KEKVYEWIKLYQETADDDAQTNLVLHYHNLVESIARKYSQGKSFHEDLVQVGVIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 K++DP+ G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 KRYDPDFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDW 203 T Q+ IA + +E E++ +M L+ D S+ A SD ++ D Sbjct: 126 TRELQSSPQISDIANFIGATEEEILEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDV 182 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + +G EQV N+R +L + + VL+ RE++I + ++ + + + Sbjct: 183 VGGVDEGFEQV--------NQRMILEKILPVLDEREQKILQYTFIENR--SQKETGELLD 232 Query: 264 VSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 233 ISQMHVSRVQRQAIKKLREAL 253 >gi|315506253|ref|YP_004085140.1| anti-sigma-factor antagonist [Micromonospora sp. L5] gi|315412872|gb|ADU10989.1| anti-sigma-factor antagonist [Micromonospora sp. L5] Length = 377 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 66/249 (26%), Positives = 113/249 (45%), Gaps = 27/249 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L ++A YRG G P+ ++ +GL+ AV ++DPERG A ++ + Sbjct: 46 LVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERGSFTAYAAITIVGEI 105 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLNVSES 171 + + R+W + + R +L G A + L VA ++ +L E Sbjct: 106 KRHFRDRTWGV-------HVPRRLRDLILEVGQATATLTSELSRAPTVAELSARLETPEE 158 Query: 172 EVISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E+++ AG SLNA + ++S+++ D LV + D L ++R +L Sbjct: 159 EILAALESAAGYSPASLNAPVGG--ESSAEFGD-LVGESD---HALESVDDRVTVSGLLH 212 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 R L RERRI A R N E +++ F +S+ V ++ +RA + +Q Sbjct: 213 R----LPWRERRIL-AMRFYGNQTQAE-IAARFGISQMHVSRLLSRALTWL-----RQAM 261 Query: 290 LSSSPPLLQ 298 L+ +PP Q Sbjct: 262 LADAPPPWQ 270 >gi|167769451|ref|ZP_02441504.1| hypothetical protein ANACOL_00781 [Anaerotruncus colihominis DSM 17241] gi|167668419|gb|EDS12549.1| hypothetical protein ANACOL_00781 [Anaerotruncus colihominis DSM 17241] Length = 234 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 51/174 (29%), Positives = 74/174 (42%), Gaps = 19/174 (10%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+E L R GD A RL+ +LRLV I Y +++S G IGL Sbjct: 27 PLSAKEERECLEGIAR--GDEEAKTRLIEHNLRLVAHIIKKYYSAFKDQDDLISIGTIGL 84 Query: 87 MQAVKKFDPERGFRLATYSMWWI------------KAAMQEYILRSWSLVKIGTTANQKR 134 ++AV F PE+G R ATY+ I K+A YI K G + + Sbjct: 85 IKAVSTFKPEKGTRFATYASRCIENEVLMHFRNKKKSAQDVYISDPIDTDKDGNSLTLQ- 143 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLN 187 ++ ++ D +K EQ+ I L+ E ++I M L G SL Sbjct: 144 ---DIMAEDDNIVDCIDLRIKSEQLYRFIEGALDERERQIIIMRYGLGGTRSLT 194 >gi|224992794|gb|ACN76112.1| SigB [Listeria innocua] gi|224992800|gb|ACN76115.1| SigB [Listeria innocua] gi|224992802|gb|ACN76116.1| SigB [Listeria innocua] gi|224992804|gb|ACN76117.1| SigB [Listeria innocua] gi|224992806|gb|ACN76118.1| SigB [Listeria innocua] gi|224992808|gb|ACN76119.1| SigB [Listeria innocua] gi|224992812|gb|ACN76121.1| SigB [Listeria innocua] gi|224992816|gb|ACN76123.1| SigB [Listeria innocua] gi|224992818|gb|ACN76124.1| SigB [Listeria innocua] gi|224992820|gb|ACN76125.1| SigB [Listeria innocua] gi|224992822|gb|ACN76126.1| SigB [Listeria innocua] gi|224992824|gb|ACN76127.1| SigB [Listeria innocua] gi|224992826|gb|ACN76128.1| SigB [Listeria innocua] gi|224992828|gb|ACN76129.1| SigB [Listeria innocua] gi|224992830|gb|ACN76130.1| SigB [Listeria innocua] gi|224992836|gb|ACN76133.1| SigB [Listeria innocua] gi|224992838|gb|ACN76134.1| SigB [Listeria innocua] gi|224992840|gb|ACN76135.1| SigB [Listeria innocua] gi|224992842|gb|ACN76136.1| SigB [Listeria innocua] gi|224992844|gb|ACN76137.1| SigB [Listeria innocua] gi|224992846|gb|ACN76138.1| SigB [Listeria innocua] gi|224992852|gb|ACN76141.1| SigB [Listeria innocua] gi|224992854|gb|ACN76142.1| SigB [Listeria innocua] Length = 214 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 100/211 (47%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 4 YQEDGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 63 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++WS+ +R+ ++K ++ +T Q+ Sbjct: 64 FEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 117 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 118 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 174 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 175 V--------NQRMLLEKVLPVLDEREQKILQ 197 >gi|307717612|gb|ADN88859.1| RNA polymerase sigma-37 factor [Listeria welshimeri] Length = 220 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 55/217 (25%), Positives = 102/217 (47%), Gaps = 24/217 (11%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 2 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 62 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 115 Query: 154 LKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYD 207 Q+ IA + V+E EV+ +M L+ D S+ A SD ++ D + Sbjct: 116 QSSPQISDIAYFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGT 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 DG E+V N+R +L + + VL+ RE+ I + Sbjct: 173 DDGFERV--------NQRMLLEKVLPVLDEREQMILQ 201 >gi|222528794|ref|YP_002572676.1| sporulation sigma factor SigG [Caldicellulosiruptor bescii DSM 6725] gi|222455641|gb|ACM59903.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 255 Score = 52.4 bits (124), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 60/259 (23%), Positives = 122/259 (47%), Gaps = 17/259 (6%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E+ L KR +E GD A + +LRLV+ + + G + ++ G IG Sbjct: 14 LPVLSHEEKLELLKRMKE-GDKEARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD + + +TY++ I ++ Y LR + ++I + K + ++K Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSMRISRSL--KDTAYKALKIK-- 127 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + +NN K + IAK+L++++ +++ + SL + D + + + Sbjct: 128 -EKYINNNQKEPTLEEIAKELSITKEDLVFALDSIQEPISLYEPV-FQDSTDTMYVVERL 185 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 DH E V +E+ K+ ++S L RE+ I R + T ++ +S Sbjct: 186 CDHKSCESVWLEEISLKD-------ALSKLTKREKEILYLRYYKGK--TQMEVAKIVGIS 236 Query: 266 RERVRQIEARAFKKVQESI 284 + +V +IE A +++ I Sbjct: 237 QAQVSRIEKSAIGHIKKYI 255 >gi|302872543|ref|YP_003841179.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302575402|gb|ADL43193.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 246 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 63/264 (23%), Positives = 127/264 (48%), Gaps = 27/264 (10%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQ 88 +E +L +++ + D +L+ ++ LV K+ G Y G + ++VS G+IGL+ Sbjct: 2 DEALLWEKFIKTKDPKIKEQLIIKYMPLV-KLVAGRMAIYFGGNVEYDDLVSYGSIGLLD 60 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++KFD ++G + TY+ IK A+ + + RS + K + ++ + Sbjct: 61 AIEKFDSQKGVKFETYAYTRIKGAIIDCV-RSQDFLPRSIRQKAKEIEKAYIEIEREGRT 119 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ-WQDWL--V 205 TD+ +AK++ +S SE+ + +++ + +I S D Q ++ + + Sbjct: 120 PTDDE--------VAKRVGLSISELQKLQEKIS-----SGMIVSLDSFLEQNYESKIGGL 166 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 D Q + IE EE K +L + + L ER + +E ++++ ++ VS Sbjct: 167 EDFVSQPEHFIENEELK---EVLRQQIDNLLENERMVIVLYYYEE--LSIKEIAKILGVS 221 Query: 266 RERVRQIEARAFKKVQESIQKQVE 289 RV Q+ RA K++ ++QK +E Sbjct: 222 ESRVSQLHTRALLKLRSALQKYLE 245 >gi|288553150|ref|YP_003425085.1| sporulation sigma factor SigG [Bacillus pseudofirmus OF4] gi|288544310|gb|ADC48193.1| sporulation sigma factor SigG [Bacillus pseudofirmus OF4] Length = 261 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 64/273 (23%), Positives = 126/273 (46%), Gaps = 39/273 (14%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ E L + + GD SA LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNTEMRELFTQL-QSGDDSAREVLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRD 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L A +P V IAK L+V + +V+ +L+A+ QD + Sbjct: 131 QLMAEKKRENEP-TVQEIAKVLDVPKEDVVF---------ALDAI-----------QDPV 169 Query: 205 -----VYDHDGQEQVLIEK--EERKNRRN-----MLTRSMSVLNPRERRIFEARRLQENP 252 +Y+ G ++++ +ER N L +M LN RE+ I R Q Sbjct: 170 SLFEPIYNDGGDPIFVMDQISDERNKDVNWVEEIALKEAMIRLNDREKMILNMRFFQGK- 228 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 T ++ E +S+ +V ++E A +++ + Q Sbjct: 229 -TQMEVADEIGISQAQVSRLEKAAIQQMNKHAQ 260 >gi|153814532|ref|ZP_01967200.1| hypothetical protein RUMTOR_00746 [Ruminococcus torques ATCC 27756] gi|317500575|ref|ZP_07958796.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|331089324|ref|ZP_08338225.1| hypothetical protein HMPREF1025_01808 [Lachnospiraceae bacterium 3_1_46FAA] gi|145848026|gb|EDK24944.1| hypothetical protein RUMTOR_00746 [Ruminococcus torques ATCC 27756] gi|316898008|gb|EFV20058.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|330405505|gb|EGG85037.1| hypothetical protein HMPREF1025_01808 [Lachnospiraceae bacterium 3_1_46FAA] Length = 260 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 59/243 (24%), Positives = 109/243 (44%), Gaps = 34/243 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + + +LRLV+ + + ++ G +GLM+AV FDP R + +TY Sbjct: 34 GDEEAREKYIKGNLRLVLSVIKRFENSSENADDLFQIGCVGLMKAVDHFDPGRMVKFSTY 93 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 ++ I ++ Y LR S +++ + K ++ +K H++ T + E + Sbjct: 94 AVPMIIGEIRRY-LRDNSPIRVSRSLRDTAYKAIYAKEGYIKRHMKEPTVQEIAEE--IG 150 Query: 162 IAKKLNVSESEVISMNCRL------AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 IAK+ V + I M L G ++L + SDK + + ++W+ E++ Sbjct: 151 IAKEEIVYALDAIQMPMSLHEPVYSDGQDALFVMDQVSDKKNKE-ENWI-------EELS 202 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 +E +M LN RER I R E +E ++ + +S+ +V ++E Sbjct: 203 LEA------------AMERLNERERYII-TLRFFEGKTQME-VAEQINISQAQVSRLEKN 248 Query: 276 AFK 278 A K Sbjct: 249 ALK 251 >gi|218289600|ref|ZP_03493820.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] gi|218240250|gb|EED07433.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] Length = 222 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 54/203 (26%), Positives = 85/203 (41%), Gaps = 24/203 (11%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A RL+ + RLV + + G G ++ G IGLM+AV KFD + +TY Sbjct: 34 GDAEARERLIVHNQRLVWAVVQRFLGRGYEAEDLFQIGCIGLMKAVDKFDLSYDVKFSTY 93 Query: 105 SMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 ++ I +Q + LR S VK+ TA Q R + RL L + + Sbjct: 94 AVPMIIGEIQRF-LRDDSTVKVSRSLKETAKQIRHVRD--RLAKELG-------RQPHIT 143 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 IA+ + + SE++ L S++ + +D + D Q+ E+ E Sbjct: 144 EIAEAMGMEPSEIVFAQEALRAPASIHETVYENDGDPIYLMD----------QIADEETE 193 Query: 221 RKNRRNMLTRSMSVLNPRERRIF 243 K + L + L RER F Sbjct: 194 GKFDKVELHEIIGRLPERERSSF 216 >gi|297156863|gb|ADI06575.1| RNA polymerase sigma factor WhiG [Streptomyces bingchenggensis BCW-1] Length = 277 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 63/245 (25%), Positives = 103/245 (42%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 33 RSYKSTGDGRLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 91 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 PER + TY++ I+ AM E W I + QK + R L+A Sbjct: 92 PERAIKFETYAITRIRGAMIDELRALDW----IPRSVRQK--ARAVERAYATLEAAL-RR 144 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA + + E + LA +L L+++S + + D L D Sbjct: 145 TPSEAEVAAEMDIGLDELHGVFSQLSLANVVALEDLLHASGEGGERLSLMDTL---EDTA 201 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R +L R+++ L RE+ + + +TL + V+ RV Q Sbjct: 202 ADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEG--LTLAEIGQVLGVTESRVSQ 259 Query: 272 IEARA 276 I ++ Sbjct: 260 IHTKS 264 >gi|302874610|ref|YP_003843243.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulovorans 743B] gi|307690779|ref|ZP_07633225.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulovorans 743B] gi|302577467|gb|ADL51479.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulovorans 743B] Length = 241 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 56/240 (23%), Positives = 109/240 (45%), Gaps = 21/240 (8%) Query: 53 LVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 ++T ++ LV IA +G + + ++VS G +GLM A+ KFD +G + ++Y+ Sbjct: 13 IITKYIPLVKYIASRVIIG-KSKHIEFDDLVSNGILGLMDALNKFDESKGMKFSSYASIR 71 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 IK AM + + R+ + K L R + ++ + L+ V IA ++ + Sbjct: 72 IKGAMIDELRRNSPI--------PKGAMDKLNRYNSAIDSLRNTLLREPTVDEIACEMAI 123 Query: 169 SESEVISM--NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++VI + + SL LI S D + E+ L E K + Sbjct: 124 DIADVIEIENHINYLSVVSLEELIYSEDDDMPLIGTIKDNKSPSPEKDL----EDKEKME 179 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L +++ +LN +++ + + +TL+ + EVS RV Q+ RA +++++ K Sbjct: 180 YLAKAIELLNEKDKLVLNLYYYE--GLTLKEIGKILEVSESRVCQLHTRAIAHLRKNLSK 237 >gi|223994539|ref|XP_002286953.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] gi|220978268|gb|EED96594.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] Length = 298 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 46/75 (61%), Gaps = 3/75 (4%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L+T ++ LV IA Y Y + + ++ EG +G+M+A +++DP +GFR +TY WI+ Sbjct: 65 KLITGNVGLVTLIAKRY--YNM-LRNLIQEGYMGIMEAAERYDPSKGFRFSTYGTHWIRQ 121 Query: 112 AMQEYILRSWSLVKI 126 + I S ++++ Sbjct: 122 RIVRAIAESSRMIRL 136 >gi|238064463|ref|ZP_04609172.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] gi|237886274|gb|EEP75102.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] Length = 305 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 66/249 (26%), Positives = 114/249 (45%), Gaps = 27/249 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L ++A YRG G P+ ++ +GL+ AV ++DPERG A ++ + Sbjct: 69 LVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERGSFTAYAAITIVGEI 128 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLNVSES 171 + + R+W + + R +L G A + L VA +A++L + Sbjct: 129 KRHFRDRTWGV-------HVPRRLRDLILEVGQATATLTSELSRAPTVAELAERLETPQE 181 Query: 172 EVISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E+++ AG SLNA + ++S+++ D LV + D L ++R +L Sbjct: 182 EILAALESAAGYSPASLNAPVGG--ESSAEFGD-LVGESD---NALESVDDRVTISGLLH 235 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 R L RERRI A R N E +++ F +S+ V ++ +RA + +Q Sbjct: 236 R----LPWRERRIL-AMRFYGNQTQAE-IAARFGISQMHVSRLLSRALTWL-----RQAM 284 Query: 290 LSSSPPLLQ 298 L+ +PP Q Sbjct: 285 LADAPPPWQ 293 >gi|224771367|dbj|BAH28625.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 31/86 (36%), Positives = 48/86 (55%), Gaps = 5/86 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY---GLPISEVVSEGN 83 P+ EK+E+ L + ++GD+ A LV +LRLV I Y + +++S G Sbjct: 17 PLNEKEEKIYLERL--KYGDVEAKRVLVERNLRLVAHIVKKYSSNYQNSKEMDDLISIGT 74 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWI 109 IGL++A+ FD +G RLATY+ I Sbjct: 75 IGLIKAIDSFDTNKGIRLATYAAKCI 100 >gi|302867341|ref|YP_003835978.1| RNA polymerase sigma-70 factor [Micromonospora aurantiaca ATCC 27029] gi|302570200|gb|ADL46402.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Micromonospora aurantiaca ATCC 27029] Length = 377 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 66/249 (26%), Positives = 113/249 (45%), Gaps = 27/249 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L ++A YRG G P+ ++ +GL+ AV ++DPERG A ++ + Sbjct: 46 LVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERGSFTAYAAITIVGEI 105 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLNVSES 171 + + R+W + + R +L G A + L VA ++ +L E Sbjct: 106 KRHFRDRTWGV-------HVPRRLRDLILEVGQATATLTSELSRAPTVAELSARLETPEE 158 Query: 172 EVISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E+++ AG SLNA + ++S+++ D LV + D L ++R +L Sbjct: 159 EILAALESAAGYSPASLNAPVGG--ESSAEFGD-LVGESD---HALESVDDRVTVSGLLH 212 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 R L RERRI A R N E +++ F +S+ V ++ +RA + +Q Sbjct: 213 R----LPWRERRIL-AMRFYGNQTQAE-IAARFGISQMHVSRLLSRALTWL-----RQAM 261 Query: 290 LSSSPPLLQ 298 L+ +PP Q Sbjct: 262 LADAPPPWQ 270 >gi|222530110|ref|YP_002573992.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222456957|gb|ACM61219.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Caldicellulosiruptor bescii DSM 6725] Length = 246 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 62/268 (23%), Positives = 131/268 (48%), Gaps = 35/268 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQ 88 ++ +L +++ + D +L+ ++ LV K+ G Y G + ++VS G+IGL+ Sbjct: 2 DDALLWEKFTKTKDPKIKEQLIIKYMPLV-KLVAGRMAIYFGGNVEYDDLVSYGSIGLLD 60 Query: 89 AVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTANQ-KRLFFNLRR 141 A++KFD ++G + TY+ IK A+ Q+++ RS I A + +R++ + + Sbjct: 61 AIEKFDSQKGVKFETYAYTRIKGAIIDCVRSQDFLPRS-----IRQKAKEIERVYIEIEK 115 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 + T N + +AK++ +S E+ + R++ ++ + S + + + + Sbjct: 116 -----EGKTPTNQE------VAKRIGISVEELQKLQDRISSGMIIS--LESFLEQNYESK 162 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 + D Q + IE EE R +L + + L ER + +E ++++ ++ Sbjct: 163 IGGLEDFVSQPEHFIENEE---LREVLRQQIDNLLENERMVIVLYYYEE--LSIKEIAKV 217 Query: 262 FEVSRERVRQIEARAFKKVQESIQKQVE 289 VS RV Q+ RA K++ ++QK +E Sbjct: 218 LGVSESRVSQLHTRALLKLRSALQKYLE 245 >gi|121488769|emb|CAJ18269.1| sigma 70-type sigma factor [Chlorobium limicola] gi|121488771|emb|CAJ18270.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 37/50 (74%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|121488765|emb|CAJ18267.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 37/50 (74%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|121488773|emb|CAJ18271.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 37/50 (74%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|15894973|ref|NP_348322.1| sporulation sigma factor SigG [Clostridium acetobutylicum ATCC 824] gi|1350864|sp|P33658|RPSG_CLOAB RecName: Full=RNA polymerase sigma-G factor gi|15024660|gb|AAK79662.1|AE007679_8 Specialized DNA-dependent RNA polymerase sigma subunit [Clostridium acetobutylicum ATCC 824] gi|580960|emb|CAA80621.1| putative sigma factor G [Clostridium acetobutylicum ATCC 824] gi|706854|gb|AAC43310.1| putative sigma factor G [Clostridium acetobutylicum ATCC 824] gi|325509110|gb|ADZ20746.1| sporulation sigma factor SigG [Clostridium acetobutylicum EA 2018] Length = 257 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 58/262 (22%), Positives = 123/262 (46%), Gaps = 21/262 (8%) Query: 25 KIPMLEKQE--EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 K+P+L+++E E +++ R +G+ +A + + +LRLV+ + + G ++ G Sbjct: 15 KLPVLKEKEMRELLISMR---NGNTTAREKFIKGNLRLVLSVIQRFNNRGENADDLFQVG 71 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 IGL++++ FD + + +TY++ I ++ Y LR + +++ + R L Sbjct: 72 CIGLIKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYRAL 126 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + I+ NN +P V IAK+L + EVI + SL I D ++ D Sbjct: 127 QVRDRLISKNNKEP-TVSQIAKELKIPREEVIFALDAIQDPISLFEPIYHDDGDAIYVMD 185 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 + + + + L ++ + + R +LN R F+ R E ++ E Sbjct: 186 QISDNKNLDDSWLQNISIKEAMKKLSDREKMILN---MRFFDGRTQME-------VADEI 235 Query: 263 EVSRERVRQIEARAFKKVQESI 284 +S+ +V ++E A K +++ + Sbjct: 236 GISQAQVSRLEKTALKHMKKYV 257 >gi|291484084|dbj|BAI85159.1| sporulation sigma factor SigG [Bacillus subtilis subsp. natto BEST195] Length = 237 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 57/250 (22%), Positives = 112/250 (44%), Gaps = 16/250 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L ++ ++ GD SA +LV +LRLV+ + + G + ++ G IGLM+++ FD Sbjct: 4 LFRQLQDEGDDSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLS 63 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 + +TY++ I ++ Y LR + +++ + + L+ + I++ + +P Sbjct: 64 HNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQVRERLISETSKEP 118 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 IAK L V E++ + SL I + + D + + + Q + Sbjct: 119 -TAEDIAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNTDSQWIE 177 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 E L M LN RE+ I R Q T ++ E +S+ +V ++E A Sbjct: 178 EL--------ALKEGMRRLNDREKMILRKRFFQGK--TQMEVAEEIGISQAQVSRLEKAA 227 Query: 277 FKKVQESIQK 286 K++ ++I + Sbjct: 228 IKQMNKNIHQ 237 >gi|311898622|dbj|BAJ31030.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 276 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 60/245 (24%), Positives = 108/245 (44%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRL---VTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVK 91 + Y+E GD HRL + H +VK G G GLP ++ VS G GL+ A++ Sbjct: 33 RSYKESGD----HRLRDQLILHYSPLVKYVAGRVGVGLPANVEQADFVSSGVFGLIDAIE 88 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD +R + TY++ I+ A+ + LR+ + K + L+ L+ Sbjct: 89 KFDIDRAIKFETYAISRIRGAIIDE-LRALDWIPRSVRQKAKAVERAYATLEARLRR--- 144 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE VA +++ + I LA +L+ L++S+ + + G Sbjct: 145 TPYDPE--VAAEMGISLDDLHTIFSQLSLANVVALDELLHSAGEGGDRLTLMETLPDSGA 202 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 + + E+R+ RR +L +++ L RE+ + + +TL + V+ RV Q Sbjct: 203 DNPVEIAEDRELRR-LLASAVNTLPEREKTVVTLYYYE--GLTLAEIGQVLGVTESRVSQ 259 Query: 272 IEARA 276 I ++ Sbjct: 260 IHTKS 264 >gi|78044674|ref|YP_359860.1| RNA polymerase sigma factor for flagellar operon [Carboxydothermus hydrogenoformans Z-2901] gi|77996789|gb|ABB15688.1| RNA polymerase sigma factor for flagellar operon [Carboxydothermus hydrogenoformans Z-2901] Length = 254 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 69/269 (25%), Positives = 128/269 (47%), Gaps = 44/269 (16%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKK 92 L + YR + L + L+ +L LV K++ LP ++ G IGL++AV+ Sbjct: 11 LWREYRRNKSLQLRNELLEYYLPLVRKVSAAM-SLKLPTHLSREDIEGYGIIGLIEAVET 69 Query: 93 FDPERGFRLATYSMWWIKAAM------QEYILRS-WSLVKIGTTANQKRLFFNLRRLKGH 145 +D RG + +Y+ I+AA+ Q ++ RS W +K TT+ + L Sbjct: 70 YDQNRGVKFESYASLKIRAAIIDELRKQNFLPRSVWDKIKKVTTSEEMLL---------- 119 Query: 146 LQAITDNNLKPE-QVVAIAKKLNVSESEVISMNCRLA--GDESLNALIN---SSDKNSSQ 199 N L E V +A++L VS S+V+ + +A SL+ +I+ S D+ + Sbjct: 120 ------NALGEEVPVEKVAEQLGVSVSDVLKIKTLIALKNHLSLDEIIDPEGSVDRFAGL 173 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 D + E +++ E + R L R L+ RER I + ++E ++L+ ++ Sbjct: 174 ADD----EKYSPENKFLKRVEIEELREALKR----LSDRERLILQLFYVEE--LSLKEIA 223 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQKQV 288 + ++S RV QI ++A K+++ + + V Sbjct: 224 AVLDISTSRVSQIASKALGKLRKLLNEGV 252 >gi|148242553|ref|YP_001227710.1| putative group 3 RNA polymerase sigma factor [Synechococcus sp. RCC307] gi|147850863|emb|CAK28357.1| Putative group 3 RNA polymerase sigma factor [Synechococcus sp. RCC307] Length = 259 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 27/86 (31%), Positives = 48/86 (55%), Gaps = 1/86 (1%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVK 91 E L +RY + L +RLV +HL LV + A + + ++ +G GL+ AV+ Sbjct: 10 ELLALHRRYGQSRCLKLRNRLVEAHLNLVRQQAARFSQASSACYDDLFQQGCFGLLDAVQ 69 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYI 117 ++ P+RG+ +TY++ I+ MQ Y+ Sbjct: 70 RYQPQRGYAFSTYAVTLIRGQMQHYL 95 >gi|121488735|emb|CAJ18251.1| sigma 70-type sigma factor [Chlorobium chlorovibrioides] Length = 165 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 50/178 (28%), Positives = 88/178 (49%), Gaps = 33/178 (18%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTA 130 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ Q I+R L ++GT Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVR-LPLNRVGTLN 59 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNAL 189 + + L + + D N K +A L++ +S+ ++ ++AG S++A Sbjct: 60 KISKAYSQLEQ-----EYERDPNTK-----ELANLLDM-DSQDVADTLKIAGRHVSVDAP 108 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT----RSMSVLNPRERRIF 243 D N + D L D + L R+ LT RS+SVL PRE + Sbjct: 109 FAQGDDN--RLLDVLQNDGHMPDHTL--------NRDSLTLEVERSLSVLAPREADVI 156 >gi|121488749|emb|CAJ18259.1| sigma 70-type sigma factor [Pelodictyon luteolum] Length = 165 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 37/50 (74%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|108804004|ref|YP_643941.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765247|gb|ABG04129.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 257 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 40/134 (29%), Positives = 65/134 (48%), Gaps = 7/134 (5%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY-GLPISEVVSEGNIGLMQAVKKFDP 95 L YR+ GD A RL SH L+ IA Y G G P +++ G +GLM+AV +DP Sbjct: 18 LVAAYRDGGDRRALERLFASHGALLKSIARRYAGSSGEPYEDLLQAGYVGLMKAVNGYDP 77 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 G ++Y+ ++ ++ + LR LV+ A+ L+ + HL Sbjct: 78 SSGAAFSSYAYSMMEGEIRHH-LRDSGLVRRPRWASG--LYARVSEATAHLTRELGRPPL 134 Query: 156 PEQVVAIAKKLNVS 169 PE+V A++ N++ Sbjct: 135 PEEV---AREANIT 145 >gi|253681759|ref|ZP_04862556.1| RNA polymerase sigma-G factor [Clostridium botulinum D str. 1873] gi|253561471|gb|EES90923.1| RNA polymerase sigma-G factor [Clostridium botulinum D str. 1873] Length = 257 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 63/273 (23%), Positives = 129/273 (47%), Gaps = 43/273 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L + R+ GD + + + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKDKEMKELLIKMRD-GDYFSREKFIRGNLRLVLSVIQRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 74 GLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSL--RDIAYKALQVRD 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L I +N P V IAK+L + EV+ +L+A+ QD + Sbjct: 131 RL--INKDNKDP-NVSQIAKELELPREEVVF---------ALDAI-----------QDPV 167 Query: 205 -----VYDHDGQEQ--VLIEKEERKNRRNMLTRSMSV------LNPRERRIFEARRLQEN 251 +Y HDG + V+ + + KN + ++S+ LN RE+ I R Q Sbjct: 168 SLFEPIY-HDGGDALYVMDQISDSKNADDSWIENISIKEAMKRLNKREKLILNMRFFQGR 226 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A K +++ + Sbjct: 227 --TQMEVADEIGISQAQVSRLEKTALKHMRKYV 257 >gi|225017509|ref|ZP_03706701.1| hypothetical protein CLOSTMETH_01436 [Clostridium methylpentosum DSM 5476] gi|224949748|gb|EEG30957.1| hypothetical protein CLOSTMETH_01436 [Clostridium methylpentosum DSM 5476] Length = 231 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 33/86 (38%), Positives = 48/86 (55%), Gaps = 6/86 (6%) Query: 27 PMLEKQEE--YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 P+ KQE+ + L K+ GD +A RL+ +LRLV IA Y +++S G I Sbjct: 29 PLTLKQEKESFELMKQ----GDSAARDRLIEHNLRLVAHIAKKYYSVTNEQDDLISIGTI 84 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIK 110 GL++AV FD +G R ATY+ I+ Sbjct: 85 GLIKAVGTFDYTKGTRFATYASRCIE 110 >gi|121488745|emb|CAJ18257.1| sigma 70-type sigma factor [Chlorobaculum thiosulfatiphilum] Length = 165 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 37/50 (74%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|224116898|ref|XP_002331841.1| predicted protein [Populus trichocarpa] gi|222875079|gb|EEF12210.1| predicted protein [Populus trichocarpa] Length = 512 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 33/103 (32%), Positives = 59/103 (57%), Gaps = 13/103 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGY-RGY--GLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +A ++L+ +LRLV+ + Y + Y G ++ G GLM A+ +F+P+R FRL+TY Sbjct: 275 AARNKLIKHNLRLVLFVINKYFQDYANGPRYQDLCQAGVKGLMTAIDRFEPKRRFRLSTY 334 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 ++WI+ A I+RS +L ++ R+ F L ++ +Q Sbjct: 335 GLFWIRHA----IIRSMTL------SSFTRVSFGLESIRSEIQ 367 >gi|188585937|ref|YP_001917482.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350624|gb|ACB84894.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 269 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 36/151 (23%), Positives = 78/151 (51%), Gaps = 7/151 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAA-HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 K+P+L E L ++ R D A +L+ +LRLV+ + + G + ++ G Sbjct: 15 KLPVLNNSEMKELFEKMRVGDDEDEARQKLINGNLRLVLSVIQRFNNRGEYVDDLFQVGC 74 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 +GL++A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 75 VGLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSL--RDIAYKALQIR 131 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 L + N + + IA+KL+VSE +V+ Sbjct: 132 DEL---VEKNSREPAISEIAEKLDVSEEQVV 159 >gi|170764001|ref|ZP_02637018.2| RNA polymerase sigma-K factor [Clostridium perfringens B str. ATCC 3626] gi|170710658|gb|EDT22840.1| RNA polymerase sigma-K factor [Clostridium perfringens B str. ATCC 3626] Length = 152 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 35/105 (33%), Positives = 56/105 (53%), Gaps = 5/105 (4%) Query: 9 IVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +V +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Sbjct: 10 LVGSKIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKK 68 Query: 68 YRGY---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 69 YSSNYQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCI 113 >gi|307330048|ref|ZP_07609199.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306884309|gb|EFN15344.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 277 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 60/248 (24%), Positives = 107/248 (43%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 33 RSYKTTGDGRLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 91 Query: 95 PERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 PER + TY++ I+ AM ++I RS L LRR + Sbjct: 92 PERAIKFETYAITRIRGAMIDELRALDWIPRSVRQKARAVERAYATLEAQLRRTPSEAEV 151 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + ++ E++ + +L++ + V+++ +E L+ D+ S D L Sbjct: 152 AAEMDISIEELHGVFSQLSL--ANVVAL------EELLHVGGEGGDRLS--LMDTL---E 198 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + V+ R Sbjct: 199 DTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEG--LTLAEIGQVLGVTESR 256 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 257 VSQIHTKS 264 >gi|224771349|dbj|BAH28616.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 54/101 (53%), Gaps = 5/101 (4%) Query: 13 EIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Y Sbjct: 1 KIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDIEAKRVLVERNLRLVAHIVKKYSSS 59 Query: 72 ---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 60 YQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCI 100 >gi|121488532|emb|CAJ18256.1| sigma 70-type sigma factor [Chlorobium limicola] Length = 165 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 37/50 (74%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|117929239|ref|YP_873790.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] gi|117649702|gb|ABK53804.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Acidothermus cellulolyticus 11B] Length = 297 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 55/212 (25%), Positives = 94/212 (44%), Gaps = 25/212 (11%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS--WSLVKIGTTANQK- 133 ++ S G + L QA + +DP RG A ++ I+ A+ + LRS W+ + A Q+ Sbjct: 51 DLTSAGMMALAQAARTYDPSRGVPFARFATVRIRGAIIDE-LRSHDWASRSVRVKARQRA 109 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN-S 192 L + G L P Q +A+ L VS E+ S GD +++ Sbjct: 110 AAEEELAAVLGRL---------PTQ-AELAEHLGVSVDELASTE----GDVHRAVVLSLQ 155 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ + L + G E VL+ +E R N L +++ L PR R + E QE P Sbjct: 156 GFADAGTLEGMLPHQDPGPEDVLLNRE----RVNYLLDAVAALPPRLRTVVEGYFFQERP 211 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+ E V+ R+ Q+ A A +++ + Sbjct: 212 --MAELAEELGVTESRISQMRAEALSLLRDGM 241 >gi|56551522|ref|YP_162361.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Zymomonas mobilis subsp. mobilis ZM4] gi|56543096|gb|AAV89250.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Zymomonas mobilis subsp. mobilis ZM4] Length = 247 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 104/235 (44%), Gaps = 23/235 (9%) Query: 53 LVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ +HL+LV KIA G + + +++ G + L++A F+ RGF ATY+ I Sbjct: 28 LIKTHLQLVRKIAWHVHGRVSSAIEVEDLIQIGMVALIEAANAFE-NRGFAFATYASMRI 86 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM +Y +R + + A QK L L L +PE IA+KLN+S Sbjct: 87 RGAMIDY-MRQHAATARSSIARQKTLNKAREELSATL------GRRPED-AEIAEKLNMS 138 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 SE R D ++N S D S D+ Q + ER+ ++ L Sbjct: 139 PSE-----YREWADGAINIRQESLDDVYSDHSSIFTDDNADQASEM----EREALQSALA 189 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L RE + + ++E + L+ + ++ R+ QI+ A +++ + Sbjct: 190 EQIKTLPEREALVLQLYYVEE--LNLKEIGEVLDLGTARISQIKKSAVDHLRQKM 242 >gi|154684976|ref|YP_001420137.1| RNA polymerase sigma factor SigB [Bacillus amyloliquefaciens FZB42] gi|126363073|emb|CAM35801.1| RNA polymerase sigma-B factor [Bacillus amyloliquefaciens FZB42] gi|154350827|gb|ABS72906.1| SigB [Bacillus amyloliquefaciens FZB42] Length = 262 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 64/263 (24%), Positives = 125/263 (47%), Gaps = 18/263 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GN 83 K L K E L + ++ H + A LV + LV +A Y G E + + G Sbjct: 6 KTTKLTKDEVDRLIRDFQTHDNKEAQETLVEVYTNLVEMLAKKY-SKGKSFHEDLRQVGM 64 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL+ A+K++DPE G +++ I ++ ++ ++WS+ +R+ R+ Sbjct: 65 IGLLGAIKRYDPEVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRI 118 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQ 201 K + +T + +V IA L+VSE EV+ + +S AL ++ S + + Sbjct: 119 KMAVDQLTTETQRSPKVEEIAAFLDVSEEEVLET---MEMGKSYQALSVDHSIEADADGS 175 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 + D G ++ E ER N++ M+ + VL+ RE++I + +Q + + Sbjct: 176 TVTILDIVGSQE---EGYERVNQQMMIKSVLHVLSDREKQIIDLTFVQNK--SQKETGDI 230 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 231 LGISQMHVSRLQRKAVKKLREAL 253 >gi|302535694|ref|ZP_07288036.1| RNA polymerase sigma-E factor [Streptomyces sp. C] gi|302444589|gb|EFL16405.1| RNA polymerase sigma-E factor [Streptomyces sp. C] Length = 300 Score = 52.0 bits (123), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 60/237 (25%), Positives = 104/237 (43%), Gaps = 23/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R P+ ++V G IGL++A+ +FD ERG T++M + Sbjct: 79 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 138 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL L + L D + V +A L V+E Sbjct: 139 IKRFFRDTSWS-VRVPRRLQELRL--ALTKASDELAQKLDRS---PTVPELAAVLGVTEE 192 Query: 172 EVIS----MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 EV+ N A SL++ + D L Y+ E V E R++ + + Sbjct: 193 EVVDGLAVGNAYTA--SSLDSPSPEDEGGEGSLADRLGYEDSALEGV----EYRESLKPL 246 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRER+I R +T + E +S+ V ++ R +++ + Sbjct: 247 LAK----LPPRERQIIMLRFFAN--MTQSQIGEEVGISQMHVSRLLTRTLAQLRTGL 297 >gi|157692327|ref|YP_001486789.1| RNA polymerase sigma factor SigD [Bacillus pumilus SAFR-032] gi|157681085|gb|ABV62229.1| DNA-directed RNA polymerase sigma subunit D [Bacillus pumilus SAFR-032] Length = 255 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 65/274 (23%), Positives = 130/274 (47%), Gaps = 43/274 (15%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 E+ L R++E D +A L+ ++ LV +G GLP S +++S G +GL Sbjct: 7 EDQALWARWKEWKDPAAGDDLMRRYMPLVT-YHVGRISIGLPKSVHKEDLISLGMLGLYD 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFDP R + TY+ + I+ A+ + + + W + T+ +K ++++ ++ Sbjct: 66 ALEKFDPGRDLKFDTYASFRIRGAIIDGLRKEDW----LPRTSREKT-----KKVEAAIE 116 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVI-SMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + L+ +A++L +SE +V+ +MN E A + S D+ ++ Sbjct: 117 KLEQRYLRNVTPTEVAEELGMSEQDVVTTMN------EGFFANLLSIDEK--------LH 162 Query: 207 DHDGQE--QVLIEKE-----ERKNRRN----MLTRSMSVLNPRERRIFEARRLQENPVTL 255 D + E QV+I E E K ++ L M+ L+ +E+ + +E +TL Sbjct: 163 DQEDGENVQVMIRDEKTVTPEEKMLKDELIEQLAEKMTELSEKEKLVISLFYKEE--LTL 220 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + +S R+ QI ++A K++ + K ++ Sbjct: 221 TEIGHVLNLSTSRISQIHSKALFKLKHLLDKAIQ 254 >gi|160939772|ref|ZP_02087119.1| hypothetical protein CLOBOL_04663 [Clostridium bolteae ATCC BAA-613] gi|158437206|gb|EDP14971.1| hypothetical protein CLOBOL_04663 [Clostridium bolteae ATCC BAA-613] Length = 209 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 24/66 (36%), Positives = 41/66 (62%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD SA L+ ++RLV + Y+G + +++S G IGL++AV F+ ++G RLATY Sbjct: 23 GDQSARDMLIEHNMRLVAHVVKKYQGSDYDMEDLLSVGTIGLIKAVNTFNVDKGSRLATY 82 Query: 105 SMWWIK 110 + ++ Sbjct: 83 AARCVE 88 >gi|121488785|emb|CAJ18277.1| sigma 70-type sigma factor [Pelodictyon clathratiforme] Length = 165 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 37/50 (74%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|325679635|ref|ZP_08159210.1| RNA polymerase sigma-E factor [Ruminococcus albus 8] gi|324108665|gb|EGC02906.1| RNA polymerase sigma-E factor [Ruminococcus albus 8] Length = 235 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 30/92 (32%), Positives = 51/92 (55%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 YI+ K+P +EE A + A L+ +LRLVV I+ + G+ + ++ Sbjct: 24 YINGADKLPPPLTKEEERKAFELFATDEKKAKELLIVHNLRLVVYISRKFENAGVGLEDL 83 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +S G+IGL++AV F P++ +LATY+ I+ Sbjct: 84 ISIGSIGLIKAVNTFRPDKNIKLATYASRCIE 115 >gi|302542195|ref|ZP_07294537.1| RNA polymerase sigma factor WhiG [Streptomyces hygroscopicus ATCC 53653] gi|302459813|gb|EFL22906.1| RNA polymerase sigma factor WhiG [Streptomyces himastatinicus ATCC 53653] Length = 277 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 64/246 (26%), Positives = 104/246 (42%), Gaps = 22/246 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 33 RSYKATGDGRLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 91 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 PER + TY++ I+ AM E W I + QK + R L+A Sbjct: 92 PERAIKFETYAITRIRGAMIDELRALDW----IPRSVRQKA--RAVERAYATLEAALRRT 145 Query: 154 LKPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDG 210 P +V VA ++V E + LA +L L++ + + D L D Sbjct: 146 --PTEVEVAAEMDISVDELHGVFSQLSLANVVALEELLHVGGEGGDRLSLMDTL---EDT 200 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +E E + R +L R+++ L RE+ + + +TL + V+ RV Sbjct: 201 AADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYE--GLTLAEIGQVLGVTESRVS 258 Query: 271 QIEARA 276 QI ++ Sbjct: 259 QIHTKS 264 >gi|160892593|ref|ZP_02073383.1| hypothetical protein CLOL250_00123 [Clostridium sp. L2-50] gi|156865634|gb|EDO59065.1| hypothetical protein CLOL250_00123 [Clostridium sp. L2-50] Length = 245 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 1/106 (0%) Query: 19 YIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 YI +P LE EE + D L+ +LRLVV IA + G+ + + Sbjct: 31 YIGGCDVLPAPLEPYEESAMVAGLGNGDDQEIKKILIERNLRLVVYIAKKFDNTGIGVED 90 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 ++S G IGL++A+ F ++ +LATY+ I+ + Y+ R+ L Sbjct: 91 LISIGTIGLIKAINTFKCDKNIKLATYASRCIENEILMYLRRNSKL 136 >gi|304316726|ref|YP_003851871.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778228|gb|ADL68787.1| RNA polymerase, sigma 28 subunit, SigK [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 231 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E +GD A + L+ +LRLV I Y G + +++S G IGL++A+ +D Sbjct: 38 KKYFEAYKNGDEEAKNILIERNLRLVAHIVKKYSNTGKDVDDLISIGTIGLIKAISTYDA 97 Query: 96 ERGFRLATYSMWWI 109 +G LATY+ I Sbjct: 98 SKGTHLATYAARCI 111 >gi|289578664|ref|YP_003477291.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|297544884|ref|YP_003677186.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|289528377|gb|ADD02729.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|296842659|gb|ADH61175.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 256 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 60/260 (23%), Positives = 123/260 (47%), Gaps = 17/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ ++ L R + +GD A + +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLKPSKQKELLIRMK-NGDKKAREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD ++ + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 73 GLIKAIDNFDLDQNVKFSTYAVPMIIGEIRRY-LRDNTPIRVSRSLRD----IAYKALQV 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + +++N+ +P V IAK+L++ EV+ + SL I ++ D Sbjct: 128 RDKLVSENSKEP-TVGEIAKELDLPREEVVMALDAIQEPVSLFEPIYHDGGDAIYVMDQ- 185 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D ++V +EK L ++ LN RE+ I R E +E ++ E + Sbjct: 186 VSDDKNIDEVWLEK-------IALKEAIQKLNEREKLILTLRFF-EGKTQME-VAKEIGI 236 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A +++ I Sbjct: 237 SQAQVSRLEKAALNHMRKYI 256 >gi|150016005|ref|YP_001308259.1| sporulation sigma factor SigG [Clostridium beijerinckii NCIMB 8052] gi|149902470|gb|ABR33303.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium beijerinckii NCIMB 8052] Length = 257 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 39/150 (26%), Positives = 77/150 (51%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L + + GD +A + +LRLV+ + + G I ++ G I Sbjct: 15 KLPILKEKEKKQLFLQM-QAGDKNARETFIKGNLRLVLSVIQRFNNRGENIDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+++ FD + + +TY++ I ++ Y LR + +++ + + L Sbjct: 74 GLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALIM 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + I DNN +P + IAK+L + EV+ Sbjct: 129 REKFIKDNNKEP-TISQIAKELELPREEVV 157 >gi|224771307|dbj|BAH28595.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771319|dbj|BAH28601.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771321|dbj|BAH28602.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 54/101 (53%), Gaps = 5/101 (4%) Query: 13 EIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Y Sbjct: 1 KIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKKYSSN 59 Query: 72 ---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 60 YQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCI 100 >gi|254519401|ref|ZP_05131457.1| RNA polymerase [Clostridium sp. 7_2_43FAA] gi|226913150|gb|EEH98351.1| RNA polymerase [Clostridium sp. 7_2_43FAA] Length = 241 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 51/229 (22%), Positives = 106/229 (46%), Gaps = 17/229 (7%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 L ++ +G Y + ++VS G +GL+ A+ ++D +G + ++Y+ IK AM + I + Sbjct: 24 LASRVMLGKTKY-IEYEDLVSYGIVGLLDAINRYDSTKGMKFSSYATLRIKGAMIDEIRK 82 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--ISMN 177 + K L + ++ + + ++ + IA +LN+SE EV + Sbjct: 83 CRPI--------SKGAMDKLAKYNECVEKLQNRYMREPSLQEIALELNISEEEVSQVENY 134 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 SL ++I S D + + + + E+ L E K + +L ++ L Sbjct: 135 INYMSIISLESIIYSDDDDVTIMETLEDKNSISPEESL----EDKEKLEILAEAIEKLKD 190 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +++ I ++ +TL+ + EVS RV Q+ +RA + ++ +QK Sbjct: 191 KDKLILNLYYYEK--LTLKEIGQILEVSESRVCQLHSRAIRNLRAVMQK 237 >gi|89895149|ref|YP_518636.1| sporulation sigma factor SigK [Desulfitobacterium hafniense Y51] gi|89334597|dbj|BAE84192.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 248 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 23/62 (37%), Positives = 38/62 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LV +LRLV + + G G +++S G IGL++ + FDP +G +LATY+ Sbjct: 64 ARNKLVEHNLRLVAHLVKKFDGTGEDSDDLISIGTIGLIKGIDTFDPGKGTKLATYAARC 123 Query: 109 IK 110 I+ Sbjct: 124 IE 125 >gi|332701290|ref|ZP_08421378.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio africanus str. Walvis Bay] gi|332551439|gb|EGJ48483.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio africanus str. Walvis Bay] Length = 264 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 56/222 (25%), Positives = 103/222 (46%), Gaps = 26/222 (11%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQK 133 + E++S G++GLM+A++KF+PE + TY+ IK AM + + R W + Sbjct: 64 LGELMSAGSLGLMEALQKFNPELRIKFETYAESRIKGAMLDELRRMDWY---------SR 114 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE---SLNALI 190 L LR ++ ++ I +P V IAK+ +SE +V M + ++ SL+A+ Sbjct: 115 GLRQRLRLMEHTVREIEQETGRPATVQEIAKRTGLSEKDV-DMGLEMLQNQLCLSLDAIS 173 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D Y Q LI+K +T + L PRE+ + +E Sbjct: 174 ECVASVSDAGVDGDPY-QSAAFQELIDK---------ITLLIDELTPREKLVLSLYYGEE 223 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 + + ++ E++ RV Q+ ++A K+++ + Q L + Sbjct: 224 --LNMRETANVMEITEGRVSQLHSQALGKLRKLFKDQYNLDA 263 >gi|284045116|ref|YP_003395456.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] gi|283949337|gb|ADB52081.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] Length = 262 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 67/260 (25%), Positives = 122/260 (46%), Gaps = 24/260 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKK 92 L +RY+ GD A RLV ++ LV +A G GLP ++++S G IGL+ A+++ Sbjct: 13 LWRRYKASGDGRARERLVVAYSPLVKYVA-GRMASGLPAHVEEADLISYGLIGLISAIER 71 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITD 151 FD R + TY++ I+ A+ + LRS V A + + +L+ LQ A TD Sbjct: 72 FDLGREIKFETYAIPRIRGAIIDE-LRSLDWVPRSVRAKAREIERANAKLEHKLQRAPTD 130 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQ--DWLVYD 207 + A +L++S E +++ +L+ L SD + Q D L Sbjct: 131 EEM--------AHELDMSMDEFQDALIQISNSTIAALDELWTVSDASGDQISLLDTLQDP 182 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 + +++ E K+R + +++ L RE+ + A EN +TL + V+ Sbjct: 183 DAPDPEKIVDASELKDR---VADAIARLPEREKLVI-ALYYYEN-LTLREIGEVLGVTES 237 Query: 268 RVRQIEARAFKKVQESIQKQ 287 R+ Q+ +A +++ +Q + Sbjct: 238 RISQLHTKAVLRLRSRLQNE 257 >gi|219669565|ref|YP_002460000.1| sporulation sigma factor SigK [Desulfitobacterium hafniense DCB-2] gi|219539825|gb|ACL21564.1| RNA polymerase, sigma 28 subunit, SigK [Desulfitobacterium hafniense DCB-2] Length = 249 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 23/62 (37%), Positives = 38/62 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A ++LV +LRLV + + G G +++S G IGL++ + FDP +G +LATY+ Sbjct: 65 ARNKLVEHNLRLVAHLVKKFDGTGEDSDDLISIGTIGLIKGIDTFDPGKGTKLATYAARC 124 Query: 109 IK 110 I+ Sbjct: 125 IE 126 >gi|163789630|ref|ZP_02184068.1| Sigma factor of SigD/WhiG family protein [Carnobacterium sp. AT7] gi|159875162|gb|EDP69228.1| Sigma factor of SigD/WhiG family protein [Carnobacterium sp. AT7] Length = 238 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 54/209 (25%), Positives = 104/209 (49%), Gaps = 13/209 (6%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G IGLM A++KFD + Y+ IK + + I ++ + + T + ++ R Sbjct: 41 GVIGLMDALEKFDKSKKVPFEGYAYIRIKGTIIDEIRKTAPVSR--TRMGKLNEYY---R 95 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 K L+A +++ A K S +++ LA SL ++ S D NS + Sbjct: 96 GKEKLEAELMRTPTEKEICAELKIDEKSLAKIHETVHNLAS-VSLEKVMFSDDGNSIELL 154 Query: 202 DWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D+L H+ G E L++KE R+++LT+ + L+ RE+ I ++E ++L+ ++ Sbjct: 155 DFLEDTHETGSEDTLLDKE----RQHLLTKHVGQLDKREQTILNLIYVEE--LSLKEIAY 208 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQVE 289 F++S RV QI + K++ S+ ++ + Sbjct: 209 IFDISVPRVSQIHGKMILKLKGSMGREYD 237 >gi|333024988|ref|ZP_08453052.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] gi|332744840|gb|EGJ75281.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] Length = 316 Score = 51.6 bits (122), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 108/242 (44%), Gaps = 30/242 (12%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 93 HTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTII 152 Query: 111 AAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 ++ + SWS V++ + RL +L + L D P + +A+KL + Sbjct: 153 GEIKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLDRAPTPSE---LAEKLGIE 206 Query: 170 ESEVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 EVI G + NA SS D + S D L Y+ E + E + Sbjct: 207 REEVIE------GMAASNAYTASSLDAQPEEDDSESALADRLGYEDHSLEGI----EYIE 256 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + + M+ R L R+R+I R + +T + E +S+ V ++ +R K+++ Sbjct: 257 SLKPMIAR----LPQRDRKILSLRFVAN--MTQSEIGEELGISQMHVSRLLSRTLVKLRK 310 Query: 283 SI 284 + Sbjct: 311 GL 312 >gi|194016072|ref|ZP_03054687.1| RNA polymerase sigma-B factor [Bacillus pumilus ATCC 7061] gi|194012427|gb|EDW21994.1| RNA polymerase sigma-B factor [Bacillus pumilus ATCC 7061] Length = 262 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 65/259 (25%), Positives = 121/259 (46%), Gaps = 18/259 (6%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GNIGLM 87 L K E L + Y+ + D A LV + LV +A Y G E + + G IGL+ Sbjct: 10 LTKDEVDRLIQSYQSNQDEQAQLTLVECYTNLVDMLAKKY-SKGKSFHEDLRQVGMIGLL 68 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHL 146 A+K++DP G +++ I ++ ++ ++WS+ +R+ R+K + Sbjct: 69 GAIKRYDPLVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRIKMAV 122 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLV 205 +T K QV IA+ L+V+E EV+ + +S AL ++ + S+ + Sbjct: 123 DHLTTETQKSPQVQEIAEYLDVTEEEVLET---MEMGKSYQALSVDQGVEADSEGSTVTI 179 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 D G ++ E ER N++ ML + VL RE+ I LQ + + +S Sbjct: 180 LDVVGSQE---EGYERVNQKMMLESVLHVLTDREKEIINLTYLQNK--SQKETGDLLGIS 234 Query: 266 RERVRQIEARAFKKVQESI 284 + V +++ +A KK+++++ Sbjct: 235 QMHVSRLQRKAVKKLRDAL 253 >gi|318056726|ref|ZP_07975449.1| SigL-like sigma factor [Streptomyces sp. SA3_actG] gi|318075360|ref|ZP_07982692.1| SigL-like sigma factor [Streptomyces sp. SA3_actF] Length = 316 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 108/240 (45%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 95 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 154 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D P + +A+KL + Sbjct: 155 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLDRAPTPSE---LAEKLGIERE 208 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EVI G + NA SS D + S D L Y+ G E + E ++ Sbjct: 209 EVIE------GMAASNAYTASSLDAQPEEDDSESALADRLGYEDHGLEGI----EYIESL 258 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + M+ R L R+R+I R + +T + E +S+ V ++ +R K+++ + Sbjct: 259 KPMIAR----LPQRDRKILSLRFVAN--MTQSEIGEELGISQMHVSRLLSRTLVKLRKGL 312 >gi|224771357|dbj|BAH28620.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 54/101 (53%), Gaps = 5/101 (4%) Query: 13 EIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Y Sbjct: 1 KIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKKYSSN 59 Query: 72 ---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 60 YQNSKEMDDLISIGTIGLIKAIDSFDTSKGIRLATYAAKCI 100 >gi|312792676|ref|YP_004025599.1| RNA polymerase, sigma 28 subunit, flia/whig [Caldicellulosiruptor kristjanssonii 177R1B] gi|312179816|gb|ADQ39986.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Caldicellulosiruptor kristjanssonii 177R1B] Length = 246 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 61/251 (24%), Positives = 120/251 (47%), Gaps = 27/251 (10%) Query: 46 DLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 D +L+ ++ LV K+ G Y G + ++VS G+IGL+ A++KFD ++G + Sbjct: 15 DPKIKEQLIIKYMPLV-KLVAGRMAIYFGGNVEYDDLVSYGSIGLLDAIEKFDSQKGVKF 73 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 TY+ IK A+ + + RS + K + K +++ + +Q Sbjct: 74 ETYAYTRIKGAIIDCV-RSQDFLPRSIRQKAKEI------EKAYVEIEREGKTPTDQ--E 124 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ-WQDWL--VYDHDGQEQVLIEK 218 +AK++ +S +E+ + R++ + +I S D Q ++ + + D Q + IE Sbjct: 125 VAKRVGISVNELQKLQERIS-----SGMIISLDSFLEQNYESKIGGLEDFVSQPEHFIEN 179 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 EE K +L + + L ER + +E ++++ ++ VS RV Q+ RA Sbjct: 180 EELK---EVLRQQIENLMENERMVIVLYYYEE--LSIKEIAKVLGVSESRVSQLHTRALL 234 Query: 279 KVQESIQKQVE 289 K++ ++QK +E Sbjct: 235 KLKAALQKYLE 245 >gi|312128104|ref|YP_003992978.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311778123|gb|ADQ07609.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 255 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 54/221 (24%), Positives = 104/221 (47%), Gaps = 15/221 (6%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E+ L KR +E GD A + +LRLV+ + + G + ++ G IG Sbjct: 14 LPVLSHEEKLELLKRMKE-GDKEARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD + + +TY++ I ++ Y LR + ++I + + LK Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSMRISRSLKDTA----YKALKIK 127 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 + I N+ +P + IAK+L++++ E++ + SL + D + + + Sbjct: 128 EKYINKNHREP-TLEEIAKELSITKEELVFALDSIQEPISLYEPV-FQDSTDTMYVVEKL 185 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 DH E V +E+ K+ ++S L RE+ I R Sbjct: 186 CDHKSCENVWLEEISLKD-------ALSKLTKREKEILYLR 219 >gi|163814130|ref|ZP_02205522.1| hypothetical protein COPEUT_00283 [Coprococcus eutactus ATCC 27759] gi|158450579|gb|EDP27574.1| hypothetical protein COPEUT_00283 [Coprococcus eutactus ATCC 27759] Length = 245 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 31/103 (30%), Positives = 54/103 (52%), Gaps = 1/103 (0%) Query: 19 YIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 YI +P LE EE ++ + A L+ +LRLVV IA + G+ I + Sbjct: 31 YIGGAEILPAPLEPHEEAIVIDELTQKQSEEAKKMLIERNLRLVVYIARKFDNTGVGIED 90 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++S G IGL++A+ F ++ +LATY+ I+ + ++ R+ Sbjct: 91 LISIGTIGLIKAINTFKNDKNIKLATYASRCIENEILMFLRRN 133 >gi|224771331|dbj|BAH28607.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771333|dbj|BAH28608.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771337|dbj|BAH28610.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 54/101 (53%), Gaps = 5/101 (4%) Query: 13 EIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Y Sbjct: 1 KIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKKYSSS 59 Query: 72 ---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 60 YQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCI 100 >gi|224771363|dbj|BAH28623.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 54/101 (53%), Gaps = 5/101 (4%) Query: 13 EIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Y Sbjct: 1 KIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKKYSSN 59 Query: 72 ---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 60 YQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCI 100 >gi|167037237|ref|YP_001664815.1| sporulation sigma factor SigG [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167040623|ref|YP_001663608.1| sporulation sigma factor SigG [Thermoanaerobacter sp. X514] gi|300914664|ref|ZP_07131980.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307267689|ref|ZP_07549143.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307724102|ref|YP_003903853.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter sp. X513] gi|320115656|ref|YP_004185815.1| RNA polymerase sigma-G factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166854863|gb|ABY93272.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter sp. X514] gi|166856071|gb|ABY94479.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|300889599|gb|EFK84745.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|306917291|gb|EFN47611.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307581163|gb|ADN54562.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X513] gi|319928747|gb|ADV79432.1| RNA polymerase sigma-G factor [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 256 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 59/260 (22%), Positives = 123/260 (47%), Gaps = 17/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ ++ L +R + +GD A + +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLKPSKQKELLQRMK-NGDKKAREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 73 GLIKAIDNFDLNQNVKFSTYAVPMIIGEIRRY-LRDNTPIRVSRSLRD----IAYKALQV 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + +++N+ +P V IAK+L++ EV+ + SL I ++ D Sbjct: 128 RDKLVSENSKEP-TVGEIAKELDLPREEVVMALDAIQEPVSLFEPIYHDGGDAIYVMDQ- 185 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D ++V +EK L ++ L+ RE+ I R E +E ++ E + Sbjct: 186 VSDDKNMDEVWLEK-------IALKEAIQKLSEREKMIL-TMRFFEGKTQME-VAKEIGI 236 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A +++ I Sbjct: 237 SQAQVSRLEKAALNHMRKYI 256 >gi|302521363|ref|ZP_07273705.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] gi|302430258|gb|EFL02074.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] Length = 312 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 108/240 (45%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 91 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 150 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D P + +A+KL + Sbjct: 151 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLDRAPTPSE---LAEKLGIERE 204 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EVI G + NA SS D + S D L Y+ G E + E ++ Sbjct: 205 EVIE------GMAASNAYTASSLDAQPEEDDSESALADRLGYEDHGLEGI----EYIESL 254 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + M+ R L R+R+I R + +T + E +S+ V ++ +R K+++ + Sbjct: 255 KPMIAR----LPQRDRKILSLRFVAN--MTQSEIGEELGISQMHVSRLLSRTLVKLRKGL 308 >gi|253581342|ref|ZP_04858568.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium varium ATCC 27725] gi|251836706|gb|EES65240.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium varium ATCC 27725] Length = 286 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 31/119 (26%), Positives = 55/119 (46%), Gaps = 9/119 (7%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ + ++ +EE K + +++ +L V IA Y G+ ++ Sbjct: 61 YLEELSNMEVISDEEESNYLKNISDFD----KEKIIVKNLNEVASIAFYYVKTGIAYMDI 116 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFF 137 V EG +GL++AV FDP++ YS +WI + YI K+ N+ + FF Sbjct: 117 VQEGTVGLIKAVDYFDPDKNGDFKNYSKYWIVREIVLYIEN-----KVADLRNEFKNFF 170 >gi|224771371|dbj|BAH28627.1| sporulation sigma factor SigK [Clostridium perfringens NCTC 8239] gi|224771377|dbj|BAH28630.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771385|dbj|BAH28634.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771387|dbj|BAH28635.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771389|dbj|BAH28636.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771391|dbj|BAH28637.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771407|dbj|BAH28645.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771409|dbj|BAH28646.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771411|dbj|BAH28647.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 31/86 (36%), Positives = 47/86 (54%), Gaps = 5/86 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY---GLPISEVVSEGN 83 P+ EK+E+ L + + GD+ A LV +LRLV I Y + +++S G Sbjct: 17 PLNEKEEKIYLDRL--KDGDVEAKRVLVERNLRLVAHIVKKYSSNYQNSKEMDDLISIGT 74 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWI 109 IGL++A+ FD +G RLATY+ I Sbjct: 75 IGLIKAIDSFDTNKGIRLATYAAKCI 100 >gi|312876527|ref|ZP_07736510.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Caldicellulosiruptor lactoaceticus 6A] gi|311796738|gb|EFR13084.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Caldicellulosiruptor lactoaceticus 6A] Length = 246 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 61/251 (24%), Positives = 120/251 (47%), Gaps = 27/251 (10%) Query: 46 DLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 D +L+ ++ LV K+ G Y G + ++VS G+IGL+ A++KFD ++G + Sbjct: 15 DPKIKEQLIIKYMPLV-KLVAGRMAIYFGGNVEYDDLVSYGSIGLLDAIEKFDSQKGVKF 73 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 TY+ IK A+ + + RS + K + K +++ + +Q Sbjct: 74 ETYAYTRIKGAIIDCV-RSQDFLPRSIRQKAKEI------EKAYVEIEREGKTPTDQ--E 124 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ-WQDWL--VYDHDGQEQVLIEK 218 +AK++ +S +E+ + R++ + +I S D Q ++ + + D Q + IE Sbjct: 125 VAKRVGISVNELQKLKERIS-----SGMIISLDSFLEQNYESKIGGLEDFVSQPEHFIEN 179 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 EE K +L + + L ER + +E ++++ ++ VS RV Q+ RA Sbjct: 180 EELK---EVLRQQIENLMENERMVIVLYYYEE--LSIKEIAKVLGVSESRVSQLHTRALL 234 Query: 279 KVQESIQKQVE 289 K++ ++QK +E Sbjct: 235 KLKAALQKYLE 245 >gi|283780334|ref|YP_003371089.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] gi|283438787|gb|ADB17229.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] Length = 556 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/124 (27%), Positives = 62/124 (50%), Gaps = 29/124 (23%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRY----------REHGDLSAA-------------- 50 GL Y+ + ++P+L +++EY L +++ R+ D ++A Sbjct: 314 GLPPYLAALYEVPLLMREQEYHLFRKFNYLKFKATALRDKLDPASARTSVMDEIEHLYEE 373 Query: 51 -----HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 + +V ++LRLVV IA + +VS+GN+ L++A +KFD RG + +TY+ Sbjct: 374 AVAVKNSIVQANLRLVVSIAKRHVNGSEDFFGLVSDGNMSLIRAAEKFDFSRGNKFSTYA 433 Query: 106 MWWI 109 W I Sbjct: 434 SWAI 437 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 27/93 (29%), Positives = 50/93 (53%), Gaps = 3/93 (3%) Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR---RLQE 250 D+ + + V D + L + ++ R+ + + + L+ RE++I +R Sbjct: 453 DRFRTSQDELFVAKQDNRSDQLGLEHVQQQRQLQVEKILEKLDEREQKIIISRFGLDHSH 512 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 P+TL+ + E V++ERVRQIEARA K++E+ Sbjct: 513 EPLTLKEVGHELGVTKERVRQIEARALNKLREA 545 >gi|205373400|ref|ZP_03226204.1| RNA polymerase sigma factor SigD [Bacillus coahuilensis m4-4] Length = 257 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 67/264 (25%), Positives = 128/264 (48%), Gaps = 24/264 (9%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLV---VKIAMGYRGYGLPISEVVSEGNIGLMQ 88 Q+E VL K + E+ + A LV ++ LV V+ + ++ S G +GL+ Sbjct: 7 QDELVLWKSWIENRNEEAGDLLVKKYMHLVSFHVQRISSTLPKNISKDDLKSLGMMGLLD 66 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A++KFD ER + TY+ + I+ ++ + LR + T K++ + RL+ L Sbjct: 67 ALQKFDIERDLKFDTYASFRIRGSIIDG-LRKEDWLPRNTRDKAKKIEKTISRLEQTLM- 124 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVIS-MNCR-LAGDESLNALINSSDKNSSQWQDWLVY 206 + PE V AK+L++S EVI MN A S++ + +K+S ++Q + Sbjct: 125 ---RKIVPEDV---AKELDMSADEVIQIMNEHFFANVLSMDEMTREEEKDSPKFQ---MQ 175 Query: 207 DHDGQ--EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D + E+ L++ E+ ++ L + + LN +E+ + + +TL + ++ Sbjct: 176 DEKSRSPEEELVKSEQIRD----LEQHIRGLNEKEQLVLSL--FYQEELTLTEIGEVLQL 229 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 S R+ QI ++A K+++ I Q Sbjct: 230 STSRISQIHSKALFKLRKFISTQA 253 >gi|224992798|gb|ACN76114.1| SigB [Listeria innocua] Length = 214 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 99/211 (46%), Gaps = 24/211 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+E GD A + LV + LV IA Y ++V GNIGL+ A++++D G Sbjct: 4 YQEDGDEDAQYNLVIHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKS 63 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ + WS+ +R+ ++K ++ +T Q+ Sbjct: 64 FEAFAVPTIVGEIKRFLRDKKWSV------HVPRRIKELGPKIKNAVEELTRELQSSPQI 117 Query: 160 VAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 IA + V+E EV+ +M L+ D S+ A SD ++ D + DG E+ Sbjct: 118 SDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA---DSDGSTITLLDVVGGTDDGFER 174 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 V N+R +L + + VL+ RE++I + Sbjct: 175 V--------NQRMLLEKVLPVLDEREQKILQ 197 >gi|224771305|dbj|BAH28594.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771309|dbj|BAH28596.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771311|dbj|BAH28597.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771313|dbj|BAH28598.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771315|dbj|BAH28599.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771317|dbj|BAH28600.1| sporulation sigma factor SigK [Clostridium perfringens CPE str. F4969] gi|224771323|dbj|BAH28603.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771325|dbj|BAH28604.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771327|dbj|BAH28605.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771329|dbj|BAH28606.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771335|dbj|BAH28609.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771339|dbj|BAH28611.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771341|dbj|BAH28612.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771343|dbj|BAH28613.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771345|dbj|BAH28614.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771347|dbj|BAH28615.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771351|dbj|BAH28617.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771353|dbj|BAH28618.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771355|dbj|BAH28619.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771359|dbj|BAH28621.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771361|dbj|BAH28622.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771365|dbj|BAH28624.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771369|dbj|BAH28626.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771373|dbj|BAH28628.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771375|dbj|BAH28629.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771379|dbj|BAH28631.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771381|dbj|BAH28632.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771383|dbj|BAH28633.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771393|dbj|BAH28638.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771395|dbj|BAH28639.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771397|dbj|BAH28640.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771399|dbj|BAH28641.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771401|dbj|BAH28642.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771403|dbj|BAH28643.1| sporulation sigma factor SigK [Clostridium perfringens] gi|224771405|dbj|BAH28644.1| sporulation sigma factor SigK [Clostridium perfringens] Length = 196 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 54/101 (53%), Gaps = 5/101 (4%) Query: 13 EIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 +I L+ Y+ P L ++EE + +R ++ GD+ A LV +LRLV I Y Sbjct: 1 KIFLTGYVTGNSTFPKPLNEKEEKIYLERLKD-GDVEAKRVLVERNLRLVAHIVKKYSSN 59 Query: 72 ---GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +++S G IGL++A+ FD +G RLATY+ I Sbjct: 60 YQNSKEMDDLISIGTIGLIKAIDSFDTNKGIRLATYAAKCI 100 >gi|168703207|ref|ZP_02735484.1| sigma-70 factor [Gemmata obscuriglobus UQM 2246] Length = 566 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 45/149 (30%), Positives = 67/149 (44%), Gaps = 28/149 (18%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ + RLV A G I ++VS+GN+ LM+AV+KFD RG + +TY+ W A Sbjct: 394 LINCNQRLVYAQAKQKLALGENIDDLVSDGNLSLMRAVEKFDYARGNKFSTYATW----A 449 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH---LQAITDNNLKPEQVVAIAKK---- 165 + + RS K T Q R + GH +A D ++V+A+A + Sbjct: 450 IMKNFARSIPDAK---THKQ-------RYMTGHDELFEAKADIRTDEQEVLALADQARAR 499 Query: 166 -------LNVSESEVISMNCRLAGDESLN 187 L+ EVI M L G E + Sbjct: 500 VNRLLDHLDARTREVIRMRTGLDGSEEMT 528 >gi|226313041|ref|YP_002772935.1| RNA polymerase sigma-D factor [Brevibacillus brevis NBRC 100599] gi|226095989|dbj|BAH44431.1| RNA polymerase sigma-D factor [Brevibacillus brevis NBRC 100599] Length = 262 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 31/88 (35%), Positives = 47/88 (53%), Gaps = 5/88 (5%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIG 85 EK +E+ +++ G A L+T L LV K+A LP + +++S G G Sbjct: 8 EKAKEFDKWVMWKQEGSREAEVDLITRFLPLVDKVA-NRLAINLPANVDKDDLISYGRFG 66 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAM 113 L+ A+ KFD RG + TY+MW I+ AM Sbjct: 67 LLDALAKFDHTRGLQFETYAMWRIRGAM 94 >gi|220929478|ref|YP_002506387.1| sporulation sigma factor SigG [Clostridium cellulolyticum H10] gi|219999806|gb|ACL76407.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium cellulolyticum H10] Length = 257 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 61/278 (21%), Positives = 128/278 (46%), Gaps = 53/278 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +++ L +R + GD SA + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNEQKKELFERMHK-GDNSARDEFIKGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK- 143 GL++++ FD + + +TY++ I ++ Y+ + S+ R+ +LR + Sbjct: 74 GLIKSIDNFDVTQNVKFSTYAVPMIIGEIRRYLRDNNSI----------RVSRSLRDIAY 123 Query: 144 GHLQA---ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 LQA +T N K +V +A++L + + +++ +L+A+ + S + Sbjct: 124 KALQAKERLTTQNSKEPTIVELAQELQLPKEDIVF---------ALDAIQDPISLFESVY 174 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRER-----RIFEAR 246 HDG + + + ++ + +N+ L +M LN RE+ R FE R Sbjct: 175 -------HDGGDAIYV-MDQVSDDKNIDENWLETISLKEAMRKLNDREKLILNLRFFEGR 226 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E ++ E +S+ +V ++E A +++ I Sbjct: 227 TQME-------VADEIGISQAQVSRLEKTALMHMKKYI 257 >gi|225389920|ref|ZP_03759644.1| hypothetical protein CLOSTASPAR_03670 [Clostridium asparagiforme DSM 15981] gi|225044021|gb|EEG54267.1| hypothetical protein CLOSTASPAR_03670 [Clostridium asparagiforme DSM 15981] Length = 258 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 28/93 (30%), Positives = 52/93 (55%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ VL KR + GD A + + +LRLV+ + + G I ++ G I Sbjct: 15 KLPLLSNEEKEVLFKRILD-GDKEAREQYIKGNLRLVLSVIQRFSGNQENIDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A+ FD + + +TY++ I ++ Y+ Sbjct: 74 GLIKAIDNFDITQNVKFSTYAVPMILGEVRRYL 106 >gi|326392135|ref|ZP_08213612.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus JW 200] gi|325991822|gb|EGD50337.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus JW 200] Length = 256 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 59/260 (22%), Positives = 123/260 (47%), Gaps = 17/260 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ ++ L +R + +GD A + +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLKPSKQKELLQRMK-NGDEKAREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 73 GLIKAIDNFDLNQNVKFSTYAVPMIIGEIRRY-LRDNTPIRVSRSLRD----IAYKALQV 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + +++N+ +P V IAK+L++ EV+ + SL I ++ D Sbjct: 128 RDKLVSENSKEP-TVGEIAKELDLPREEVVMALDAIQEPVSLFEPIYHDGGDAIYVMDQ- 185 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 V D ++V +EK L ++ L+ RE+ I R E +E ++ E + Sbjct: 186 VSDDKNMDEVWLEK-------IALKEAIQKLSEREKMIL-TMRFFEGKTQME-VAKEIGI 236 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ +V ++E A +++ I Sbjct: 237 SQAQVSRLEKAALNHMRKYI 256 >gi|169334386|ref|ZP_02861579.1| hypothetical protein ANASTE_00786 [Anaerofustis stercorihominis DSM 17244] gi|169259103|gb|EDS73069.1| hypothetical protein ANASTE_00786 [Anaerofustis stercorihominis DSM 17244] Length = 233 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 29/83 (34%), Positives = 44/83 (53%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L K+EE + K + L+ +LRLVV IA + + +++S G IGL Sbjct: 29 PPLTKEEEQEVLKNLESDETNTTKTILIERNLRLVVYIAKKFDTSSASVEDLISIGTIGL 88 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++AVK F E+ +LATY+ I Sbjct: 89 IKAVKTFKVEKNIKLATYASKCI 111 >gi|331269335|ref|YP_004395827.1| RNA polymerase sigma 28 subunit FliA/WhiG [Clostridium botulinum BKT015925] gi|329125885|gb|AEB75830.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium botulinum BKT015925] Length = 242 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 60/232 (25%), Positives = 109/232 (46%), Gaps = 23/232 (9%) Query: 53 LVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 +V ++ LV IA +G Y + +++ G IGLM A+ KFD +G + +TY+ Sbjct: 13 IVKKYIPLVKYIASRVIIGKSKY-IEFEDLLGYGMIGLMDALNKFDESKGMKFSTYASIR 71 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ +M + I ++ + K A K L R ++ + NL + IA++L + Sbjct: 72 IRGSMIDEIRKNSPISK---GAMDK-----LNRYNNAIETLQKKNLTEPNIKDIAQELQM 123 Query: 169 SESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE-ERKNRR 225 + +EV I SL LI S D + S L+ + ++ EK+ E + R Sbjct: 124 TVNEVGEIENFINYISIVSLEDLIFSEDDDIS-----LMGTIEDEKSPNPEKDFEDQERL 178 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L +++ +LN +++ + + +TL+ + S VS RV Q+ +RA Sbjct: 179 EYLAKALDMLNDKDKTVLSLYYYE--GMTLKEIGSVLGVSESRVCQLHSRAI 228 >gi|167465669|ref|ZP_02330758.1| sporulation sigma factor SigG [Paenibacillus larvae subsp. larvae BRL-230010] Length = 260 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 62/276 (22%), Positives = 120/276 (43%), Gaps = 46/276 (16%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L + + +A +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNTEMRELFALLQTKNERAAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEY------ILRSWSLVKIGTTANQKRLFFN 138 GLM+A+ FD + + +TY++ I ++ Y I S SL I A Q R Sbjct: 75 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVR---- 130 Query: 139 LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +T+ N + + I++ LNV + +V+ +L+A+ + Sbjct: 131 --------DQLTNRNSREPTIYEISEVLNVPKEDVVF---------ALDAIQDPVSLFEP 173 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRN---------MLTRSMSVLNPRERRIFEARRLQ 249 + HDG + + + ++ + RN L +M L RE+ I + R Sbjct: 174 IY-------HDGGDPIYV-MDQISDERNKDLFWIEGIALREAMRKLGSREKMIL-SMRFF 224 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 E +E ++ E +S+ +V ++E A ++Q+ ++ Sbjct: 225 EGKTQME-VADEIGISQAQVSRLEKSAINQMQKHVK 259 >gi|332653369|ref|ZP_08419114.1| RNA polymerase sigma-G factor [Ruminococcaceae bacterium D16] gi|332518515|gb|EGJ48118.1| RNA polymerase sigma-G factor [Ruminococcaceae bacterium D16] Length = 256 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 60/267 (22%), Positives = 131/267 (49%), Gaps = 31/267 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L+ +E L +R +E GD A L+ +LRLV+ + + G + ++ G I Sbjct: 14 KLKVLKNEETQALLRRAKE-GDKQAREELIAGNLRLVLSVIHKFANRGENVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + +TY + I ++ Y LR S +++ + A + + L+ + Sbjct: 73 GLIKAIDNFDTSLDVKFSTYGVPMIVGEIRRY-LRDNSAMRV-SRAMRDTAYKVLQAKES 130 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 ++ + K V IA+ L + EV+ +L+A+++ S ++ Sbjct: 131 YMA----QHQKEPSVEEIAQMLGIKREEVVF---------ALDAILDP----VSLYEP-- 171 Query: 205 VYDHDGQEQVLIEK-EERKNRRNM------LTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +Y G ++++ ++ +N M L ++S L+ RE++I A R ++ +E Sbjct: 172 IYSDSGDTVCVMDQVKDSRNTDEMWLEHIALKEAVSRLSEREQKIL-AMRFYQSKTQVE- 229 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESI 284 +S E +S+ +V ++E A +++++ + Sbjct: 230 VSREIGISQAQVSRLEKNALRQIRKEL 256 >gi|304317193|ref|YP_003852338.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778695|gb|ADL69254.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 256 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 37/150 (24%), Positives = 78/150 (52%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ ++ L R + +GD +A + +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLKGAKQKELLIRMK-NGDKNAREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 73 GLIKAIDNFDLNQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSL--RDVAYKALQIRD 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 L + N K V IAK+LN+ EV+ Sbjct: 130 KL---VNENSKEPTVGDIAKELNIPREEVV 156 >gi|164688589|ref|ZP_02212617.1| hypothetical protein CLOBAR_02234 [Clostridium bartlettii DSM 16795] gi|164603002|gb|EDQ96467.1| hypothetical protein CLOBAR_02234 [Clostridium bartlettii DSM 16795] Length = 234 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 27/83 (32%), Positives = 46/83 (55%), Gaps = 1/83 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E Y L + + A LV ++RLV I+ Y G + +++S G IGL Sbjct: 10 PLTPEEEVYYL-NLLKNENNKEAKEVLVQRNMRLVAHISKKYNNSGEELDDLISIGTIGL 68 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ F+ ++G RLATY+ I Sbjct: 69 IKAIDTFNVDKGIRLATYASKCI 91 >gi|121488727|emb|CAJ18247.1| sigma 70-type sigma factor [Chlorobium limicola] Length = 165 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 36/50 (72%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL +A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLXKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|297559507|ref|YP_003678481.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296843955|gb|ADH65975.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 285 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 45/188 (23%), Positives = 85/188 (45%), Gaps = 11/188 (5%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 L+ KIA Y G G P+ ++ +GL +AV+ +DP RG +Y + + ++ + Sbjct: 64 LINKIARRYGGRGEPLEDLKQTAMVGLAKAVRGYDPARGKPFISYLLPTVTGEIKRHFRD 123 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 V++ + R+ LRR+ Q + + + +A + + E+EV + Sbjct: 124 HTWAVRVPRRHQENRV--KLRRVTSEFQ---QRHARTPTIAELAHDMGLPEAEVSELTQV 178 Query: 180 LAGDESLNALINSSDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 SL+ +++ D + S+ Q+ + DH G E + +R R L +++ L R Sbjct: 179 SESYRSLS--LDAPDSSDSEGQEGTRLEDHLGCEDAAL---DRVVERESLKPALARLPAR 233 Query: 239 ERRIFEAR 246 ER I R Sbjct: 234 EREILRLR 241 >gi|88856926|ref|ZP_01131577.1| RNA polymerase sigma-70 factor [marine actinobacterium PHSC20C1] gi|88813802|gb|EAR23673.1| RNA polymerase sigma-70 factor [marine actinobacterium PHSC20C1] Length = 244 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 54/111 (48%), Gaps = 2/111 (1%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 + E LA R +G++ A H L S ++ + G G+ + ++ SE GL++A K Sbjct: 16 EREAALAARI-SNGEMEAVHELAMSGYAWAKSLSHKFTGRGVDLDDLNSEAYFGLVEAAK 74 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 FDP RG R A YS +++ A+ + I S V I A L N R+ Sbjct: 75 TFDPTRG-RFAGYSTAFVQGAIWKAIRLSGRSVSIPKHAFDAELVGNRDRI 124 >gi|311068169|ref|YP_003973092.1| RNA polymerase sigma factor SigD [Bacillus atrophaeus 1942] gi|310868686|gb|ADP32161.1| RNA polymerase sigma factor SigD [Bacillus atrophaeus 1942] Length = 254 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 63/272 (23%), Positives = 126/272 (46%), Gaps = 39/272 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 E+ VL R++E D A L+ ++ LV +G GLP S +++S G +GL Sbjct: 7 EDQVLWSRWKEWKDPKAGDDLMRRYMPLVT-YHVGRISVGLPKSVHKDDLMSLGMLGLYD 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFDP R + TY+ + I+ A+ + + + W + T+ +K ++++ ++ Sbjct: 66 ALEKFDPSRDLKFDTYASFRIRGAIIDGLRKEDW----LPRTSREKT-----KKVEAAIE 116 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVIS-MNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + L+ IA++L ++E +V+S MN E A + S D+ ++ Sbjct: 117 KLEQRYLRNVSPAEIAEELGMTEQDVVSTMN------EGFFANLLSIDEK--------LH 162 Query: 207 DHDGQEQVLIEKEERKN----RRNMLTRSMSVLNPRERRIFEARRL-----QENPVTLEN 257 D D E + + + KN + M ++ L + + E +L + +TL Sbjct: 163 DQDDGENIQVMIRDDKNVPPEEKIMKDELIAQLAEKIHELSEKEQLVVSLFYKEELTLTE 222 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + +S R+ QI ++A K++ + K ++ Sbjct: 223 IGQVLSLSTSRISQIHSKALFKLKHLLDKVIQ 254 >gi|138895880|ref|YP_001126333.1| sporulation sigma factor SigF [Geobacillus thermodenitrificans NG80-2] gi|134267393|gb|ABO67588.1| RNA polymerase sigma-F factorr [Geobacillus thermodenitrificans NG80-2] Length = 252 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 58/256 (22%), Positives = 114/256 (44%), Gaps = 19/256 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 ++ QE L +R +E GD A ++ ++RLV + + G ++ G IGL++ Sbjct: 14 IKDQEMKELIRRSQE-GDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLK 72 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +V KFD + +TY++ I +Q + LR VK+ + K + +R+ K L Sbjct: 73 SVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSL--KEMGNKIRKAKDEL-- 127 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + + IA L VS EV+ + S++ + +D + D + Sbjct: 128 -SKTRGRAPTITEIADHLGVSPEEVVLAQEAVRSPASIHETVYENDGDPITLLDQIA--- 183 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D E EK L +++ L+ RER I R ++ T +++ +S+ + Sbjct: 184 DADEASWFEK-------IALKKAIEELDERERLIVYLRYYKDQ--TQSEVAARLGISQVQ 234 Query: 269 VRQIEARAFKKVQESI 284 V ++E + + ++E + Sbjct: 235 VSRLEKKILQHIKEKM 250 >gi|320537994|ref|ZP_08037899.1| RNA polymerase sigma factor WhiG [Treponema phagedenis F0421] gi|320145151|gb|EFW36862.1| RNA polymerase sigma factor WhiG [Treponema phagedenis F0421] Length = 262 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 57/246 (23%), Positives = 114/246 (46%), Gaps = 27/246 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLV----VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 Y++ G+ + + LV KIA+G G + ++VS G GL A+ K+DPE Sbjct: 18 YKKTGNAKIREFFIIQYAPLVKYVASKIAVGKPG-SIEFDDLVSYGIFGLFDAIDKYDPE 76 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLK 155 + R TY++ I+ A+ + LRS V K++ + ++ L ++ TD + Sbjct: 77 KNIRFNTYAVTRIRGAIYDE-LRSIDWVPRSVRQQIKQIEDTIAAIEAKLGRSATDEEIA 135 Query: 156 PEQVVAIAKK----LNVSESEVISM-NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 E +++ + L +S + VIS+ + + G++S + S + + Sbjct: 136 FELNISLEEYHQLLLKISGTSVISLADTKFGGEDSGQIAVGDSIEAPASL---------- 185 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 V++E+EE K ++ ++ L+ RE+++ ++ +TL+ + +V+ RV Sbjct: 186 NPDVIVEREEIK---RVIVEAIKELSEREQQVLILYYYED--MTLKEIGKVLKVTESRVS 240 Query: 271 QIEARA 276 QI A Sbjct: 241 QIHTSA 246 >gi|300854419|ref|YP_003779403.1| putative RNA polymerase sigma-G factor [Clostridium ljungdahlii DSM 13528] gi|300434534|gb|ADK14301.1| predicted RNA polymerase sigma-G factor [Clostridium ljungdahlii DSM 13528] Length = 257 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 60/279 (21%), Positives = 129/279 (46%), Gaps = 55/279 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ +E L + + GD + + + +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKGKEMKELLIKM-QQGDNESREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 74 GLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALQV 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + I +NN +P + IA++LN+ EV+ +L+A+ QD + Sbjct: 129 RDKLIRENNKEP-TISQIAEELNIPREEVVF---------ALDAI-----------QDPV 167 Query: 205 -----VYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRER-----RIFEA 245 +Y HDG + + + ++ + +N+ + +M LN RE+ R F+ Sbjct: 168 SLFEPIY-HDGGDAIYV-MDQISDTKNLDENWLENISIKEAMKKLNDREKLILNLRFFDG 225 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R E ++ E +S+ +V ++E A + +++ I Sbjct: 226 RTQME-------VADEIGISQAQVSRLEKTALRHMRKYI 257 >gi|295092809|emb|CBK78916.1| RNA polymerase, sigma subunit, RpsG/SigG [Clostridium cf. saccharolyticum K10] Length = 258 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 59/257 (22%), Positives = 114/257 (44%), Gaps = 17/257 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L R + GD A + + +LRLV+ + + G + ++ G I Sbjct: 15 KLPLLTNEEKEELFARILK-GDREAREQYIKGNLRLVLSVIQRFSGSSENVDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + R +TY++ I ++ Y LR + +++ + R Sbjct: 74 GLIKAIDNFDITQNVRFSTYAVPMILGEVKRY-LRDNNSIRVSRSLRDTAYKAIYAR--- 129 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +++ NLK + IA+++ VS+ ++ + SL + + + D L Sbjct: 130 --ESLMKKNLKEPTLCEIAEEVGVSKEDITYALDAIQSPVSLYEPVYTDGGDPLYVMDQL 187 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D E+ IE L+ +M L RER I R + T ++ E + Sbjct: 188 S-DKKNSEENWIEDIS-------LSEAMRRLPERERHIIGMRFFEGKTQT--EVAEEIHI 237 Query: 265 SRERVRQIEARAFKKVQ 281 S+ +V ++E A K ++ Sbjct: 238 SQAQVSRLEKNALKAMK 254 >gi|153953967|ref|YP_001394732.1| sporulation sigma factor SigG [Clostridium kluyveri DSM 555] gi|219854581|ref|YP_002471703.1| hypothetical protein CKR_1238 [Clostridium kluyveri NBRC 12016] gi|146346848|gb|EDK33384.1| SigG [Clostridium kluyveri DSM 555] gi|219568305|dbj|BAH06289.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 257 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 39/151 (25%), Positives = 78/151 (51%), Gaps = 9/151 (5%) Query: 25 KIPML-EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 K+P+L EK+ + +L K + GD A + + +LRLV+ + + G + ++ G Sbjct: 15 KLPVLKEKEMKELLIKM--QQGDNDAREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGC 72 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 73 IGLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALQ 127 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 + I +NN +P + IAK+L + EV+ Sbjct: 128 VRDKLIRENNKEP-TISQIAKELELPREEVV 157 >gi|322384112|ref|ZP_08057830.1| sporulation sigma factor SigG-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151192|gb|EFX44501.1| sporulation sigma factor SigG-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 272 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 57/270 (21%), Positives = 125/270 (46%), Gaps = 34/270 (12%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L + + +A +LV +LRLV+ + + G + ++ G I Sbjct: 27 KLPVLTNTEMRELFALLQTKNERAAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCI 86 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 87 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRD 143 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 L T+ N + + I++ LNV + +V+ +L+A+ + + Sbjct: 144 QL---TNRNSREPTIYEISEVLNVPKEDVVF---------ALDAIQDPVSLFEPIY---- 187 Query: 205 VYDHDGQEQVLIEKEERKNRRN---------MLTRSMSVLNPRERRIFEARRLQENPVTL 255 HDG + + + ++ + RN L +M L RE+ I + R E + Sbjct: 188 ---HDGGDPIYV-MDQISDERNKDLFWIEGIALREAMRKLGSREKMIL-SMRFFEGKTQM 242 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 E ++ E +S+ +V ++E A ++Q+ ++ Sbjct: 243 E-VADEIGISQAQVSRLEKSAINQMQKHVK 271 >gi|167630813|ref|YP_001681312.1| RNA polymerase, sigma-70 factor family [Heliobacterium modesticaldum Ice1] gi|167593553|gb|ABZ85301.1| RNA polymerase, sigma-70 factor family [Heliobacterium modesticaldum Ice1] Length = 252 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 57/264 (21%), Positives = 104/264 (39%), Gaps = 63/264 (23%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E +A+ GD A +L+T +LRLV I Y I +++S G IGL Sbjct: 32 PLSAEEEAEYIARTT--GGDAEAREKLITHNLRLVAHICKKYYSNDEEIEDLISIGTIGL 89 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A+ F E+ RL+TY+ I + + +LR Sbjct: 90 IKAINTFKAEKQVRLSTYASRCI----------------------ENEILMHLR------ 121 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 N + +VV+ + + + + D N + D L Sbjct: 122 -----NKKRDSRVVSFEESVGIDK-----------------------DGNRMTYSDILGT 153 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEV 264 D D +++ E ++ +N + R LN +ER I R P T + ++ + Sbjct: 154 DGDTVAELVERSSEIEDLQNKVRRR---LNKKEREILTLRYGLSDGTPKTQQTVADLLNI 210 Query: 265 SRERVRQIEARAFKKVQESIQKQV 288 SR V +IE R +K+ + +++ Sbjct: 211 SRSYVSRIEGRGIRKLMKEYLREI 234 >gi|240145473|ref|ZP_04744074.1| RNA polymerase sigma-27 factor [Roseburia intestinalis L1-82] gi|257202447|gb|EEV00732.1| RNA polymerase sigma-27 factor [Roseburia intestinalis L1-82] gi|291536032|emb|CBL09144.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Roseburia intestinalis M50/1] Length = 254 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 62/243 (25%), Positives = 112/243 (46%), Gaps = 48/243 (19%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +V++ G Y GY + ++VS G GL+ A+ KFD + + TY+ I+ ++ + Sbjct: 32 LVRVVAGRLSMYLGYNVEYEDLVSYGIFGLIDAIDKFDRGKDVKFETYASLRIRGSILDQ 91 Query: 117 ILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE--- 172 I + W I T QKR + ++ T N E+ IA++L + E E Sbjct: 92 IRKMDW----IPRTVRQKRK--KIEEAIKQIETKTGRNASDEE---IAQELGIGEEELND 142 Query: 173 ---------VISMN--CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 VIS+N G+ ++A KN+S H Q + +++EE Sbjct: 143 WQTQLNVTNVISLNEFVEQGGEPVMDA------KNNS---------HFIQPEESVQEEEL 187 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 K +L S+ +L +E+++ ++ +TL+ +SS EVS RV Q+ +A K++ Sbjct: 188 K---KVLMESLELLTEKEKKVILLYYYED--LTLKEISSILEVSESRVSQLHTKALLKMR 242 Query: 282 ESI 284 + + Sbjct: 243 KKM 245 >gi|160902849|ref|YP_001568430.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Petrotoga mobilis SJ95] gi|160360493|gb|ABX32107.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Petrotoga mobilis SJ95] Length = 231 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 53/221 (23%), Positives = 105/221 (47%), Gaps = 31/221 (14%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SW------SLV 124 + + +++ EG IGL+Q+ K+++PE+G TY++ IK +M +Y+ R W SLV Sbjct: 32 NIELEDLIQEGIIGLLQSYKRYNPEKGTSFYTYALKRIKGSMYDYLRRIDWLPKDVRSLV 91 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 K + L + + + I DN ++A+KL++ +++V + L+ + Sbjct: 92 K-----KYEDLIYECK----DNEYIDDN--------SVAEKLHIEKNDVDKIKFSLSKRQ 134 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 L + W + + ++D ++L K+ ++ LT S+ L RE+ I Sbjct: 135 ILQLDEYFLNNEEDTWLEDIQEENDP--EILAYKDMLHDK---LTESIEKLEEREKLILS 189 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +T + + S E+S RV Q+ + K+++ IQ Sbjct: 190 LYY--NEGLTFKEIGSVLEISESRVSQLHSVILVKLKKMIQ 228 >gi|317133668|ref|YP_004092982.1| RNA polymerase, sigma 28 subunit, SigK [Ethanoligenens harbinense YUAN-3] gi|315471647|gb|ADU28251.1| RNA polymerase, sigma 28 subunit, SigK [Ethanoligenens harbinense YUAN-3] Length = 228 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 50/168 (29%), Positives = 73/168 (43%), Gaps = 18/168 (10%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +E LA+ + GD A L+ +LRLV+ I Y +++S G IGL Sbjct: 29 PLTAAEERECLARM--QAGDTKAQDMLIEHNLRLVMHIIKKYYANARDQEDLLSVGTIGL 86 Query: 87 MQAVKKFDPERGFRLATYSMWWI------------KAAMQEYILRSWSLVKIGTTANQKR 134 ++ V F PE+G RLATY+ I K+A YI K G NQ Sbjct: 87 IKGVITFKPEKGTRLATYAARCIENEILMHFRSQKKSAQDVYISDPIDTDKDG---NQLT 143 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 L ++ + + D +K E++ A KL E +I M L G Sbjct: 144 L-MDVVSCEDTILDDVDLKMKSEKLRAYIVKLPPRERAIIEMRYGLHG 190 >gi|271964601|ref|YP_003338797.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] gi|270507776|gb|ACZ86054.1| putative RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] Length = 258 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 54/234 (23%), Positives = 105/234 (44%), Gaps = 16/234 (6%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V H L ++IA YR G P+ +++ +GLM+A+ FDP G Y++ + Sbjct: 36 RIVEMHRPLAMEIARRYRYRGEPLEDLLQAAYVGLMKAINGFDPTLGHAFRGYAVVTMTG 95 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + R+W+ +++ ++R N RL L D P V +A K+ +SE Sbjct: 96 EVKRHFRDRTWA-IRVPRVYQERRAELN--RLVADLS--QDLGRAP-TVAELAVKMRISE 149 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 +V+ A +L+ + + ++ D D VL+++E K Sbjct: 150 EDVLLTLDASAAYSALSLDAPLGADDDAAALGDIIPDEDDALGVLVDREAVKP------- 202 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L RE+ I R +T +++EF +S+ V +I + +++E + Sbjct: 203 LIDKLPTREKNILLLRFF--GNMTQAEIAAEFGISQMHVSRILRKVLDQLREEL 254 >gi|312621597|ref|YP_004023210.1| RNA polymerase, sigma 28 subunit, flia/whig [Caldicellulosiruptor kronotskyensis 2002] gi|312202064|gb|ADQ45391.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Caldicellulosiruptor kronotskyensis 2002] Length = 246 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 60/269 (22%), Positives = 126/269 (46%), Gaps = 37/269 (13%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQ 88 ++ +L +++ + D +L+ ++ LV K+ G Y G + ++VS G+IGL+ Sbjct: 2 DDALLWEKFTKTKDPKIKEQLIIKYMPLV-KLVAGRMAIYFGGNVEYDDLVSYGSIGLLD 60 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL-----K 143 A++KFD ++G + TY+ IK A+ I NQ L ++R+ + Sbjct: 61 AIEKFDSQKGVKFETYAYTRIKGAI------------IDCVRNQDFLPRSIRQKAKEIER 108 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSS-DKNSSQW 200 +++ + Q +AK++ +S E+ + R++ SL + + + + Sbjct: 109 AYIEIEKEGKTPTNQ--EVAKRIGISVEELQKLQDRISSGMIISLESFLEQNYESKIGGL 166 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 +D++ Q + IE EE R +L + + L ER + ++ ++++ ++ Sbjct: 167 EDFV-----SQPEHFIENEE---LRKVLRQQIDNLMENERMVIVLYYYED--LSIKEIAK 216 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQVE 289 VS RV Q+ RA K++ ++QK +E Sbjct: 217 VLGVSESRVSQLHTRALLKLRSALQKYLE 245 >gi|291087795|ref|ZP_06347503.2| RNA polymerase sigma-G factor [Clostridium sp. M62/1] gi|291073935|gb|EFE11299.1| RNA polymerase sigma-G factor [Clostridium sp. M62/1] Length = 291 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 59/257 (22%), Positives = 114/257 (44%), Gaps = 17/257 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L R + GD A + + +LRLV+ + + G + ++ G I Sbjct: 48 KLPLLTNEEKEELFARILK-GDREAREQYIKGNLRLVLSVIQRFSGSSENVDDLFQIGCI 106 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + R +TY++ I ++ Y LR + +++ + R Sbjct: 107 GLIKAIDNFDITQNVRFSTYAVPMILGEVKRY-LRDNNSIRVSRSLRDTAYKAIYAR--- 162 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +++ NLK + IA+++ VS+ ++ + SL + + + D L Sbjct: 163 --ESLMKKNLKEPTLCEIAEEVGVSKEDITYALDAIQSPVSLYEPVYTDGGDPLYVMDQL 220 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 D E+ IE L+ +M L RER I R + T ++ E + Sbjct: 221 -SDKKNSEENWIEDIS-------LSEAMRRLPERERHIIGMRFFEGKTQT--EVAEEIHI 270 Query: 265 SRERVRQIEARAFKKVQ 281 S+ +V ++E A K ++ Sbjct: 271 SQAQVSRLEKNALKAMK 287 >gi|226329392|ref|ZP_03804910.1| hypothetical protein PROPEN_03297 [Proteus penneri ATCC 35198] gi|225202578|gb|EEG84932.1| hypothetical protein PROPEN_03297 [Proteus penneri ATCC 35198] Length = 131 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 41/127 (32%), Positives = 70/127 (55%), Gaps = 3/127 (2%) Query: 162 IAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 +A++L VSES+V M R+ A D + + + SD + + D IE++ Sbjct: 4 VARELGVSESDVREMESRMSAQDMAFDMTADDSDDSHPIAPVLFLEDKSSDFADGIEEDN 63 Query: 221 RKNRR-NMLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFK 278 N + LT ++ L+ R + I AR L + N TL++L++++ VS ERVRQ+E A K Sbjct: 64 WDNHAADKLTSAIETLDERSQDIIRARWLDDDNKSTLQDLATKYGVSAERVRQLEKNAMK 123 Query: 279 KVQESIQ 285 K++ +I+ Sbjct: 124 KLRLAIE 130 >gi|319788967|ref|YP_004090282.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ruminococcus albus 7] gi|315450834|gb|ADU24396.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ruminococcus albus 7] Length = 234 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 32/81 (39%), Positives = 47/81 (58%), Gaps = 5/81 (6%) Query: 27 PMLEKQEEYVLAKRYREHG-DLSAAHRLVTSH-LRLVVKIAMGYRGYGLPISEVVSEGNI 84 P L K EE AK ++ D A L+ H LRLVV I+ + G I +++S G+I Sbjct: 32 PPLTKDEE---AKAFQLFATDEKKARELLIVHNLRLVVYISKKFESTGAGIEDLISIGSI 88 Query: 85 GLMQAVKKFDPERGFRLATYS 105 GL++AV F P++ +LATY+ Sbjct: 89 GLIKAVNTFRPDKNIKLATYA 109 >gi|296270865|ref|YP_003653497.1| Sig B/F/G subfamily RNA polymerase sigma-28 [Thermobispora bispora DSM 43833] gi|296093652|gb|ADG89604.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Thermobispora bispora DSM 43833] Length = 259 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 59/243 (24%), Positives = 111/243 (45%), Gaps = 30/243 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV H+ LV +A +R G + ++ IGL++++ +FD RG +TY+ I Sbjct: 38 LVELHMPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFDLSRGVEFSTYATPTIVGE 97 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + W+ V++ + +L L + ++ + V +A+ L +SE Sbjct: 98 IKRHFRDKGWA-VRVPRRLQELKL-----SLTKAISELSQRESRAPTVAELAEHLQMSEE 151 Query: 172 EVISMNCRLAGDESLNAL-------INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV L G ES NA +S D+++ D L + E V E R++ Sbjct: 152 EV------LEGLESANAYSTVSLDAPDSGDEDAPAVSDSLGIVDESLEGV----EYRESL 201 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L R L PRE+RI R +T +++E +S+ V ++ AR +++E + Sbjct: 202 KPLLER----LPPREKRILLLRFFGN--MTQSQIANELGISQMHVSRLLARTLAQLREGL 255 Query: 285 QKQ 287 + Sbjct: 256 TAE 258 >gi|269127892|ref|YP_003301262.1| B/F/G subfamily RNA polymerase sigma-28 subunit [Thermomonospora curvata DSM 43183] gi|268312850|gb|ACY99224.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Thermomonospora curvata DSM 43183] Length = 276 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 64/247 (25%), Positives = 115/247 (46%), Gaps = 38/247 (15%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G + +++ IGL++++ +FD +RG +TY+ I Sbjct: 55 LVELHLPLVEYLARRFRNRGEWLDDLIQVATIGLIKSIDRFDLDRGVEFSTYATPTIVGE 114 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD---NNLKPEQVVAIAKKLN 167 ++ + + W++ R+ L+ LK L +AI+D + V +A+ L Sbjct: 115 IKRHFRDKGWAV----------RVPRRLQELKLSLTKAISDLAQREGRAPTVSELAEHLQ 164 Query: 168 VSESEVISMNCRLAGDESLNAL-------INSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 +SE EV L G ES NA +S D+++ D L D E V E Sbjct: 165 MSEEEV------LEGLESANAYSTVSLDAPDSGDEDAPAVADSLGMVDDSLEGV----EY 214 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R++ + +L + L RE+RI R +T +++E +S+ V ++ AR ++ Sbjct: 215 RESLKPLLEK----LPAREKRILLLRFFGN--MTQSQIANELGISQMHVSRLLARTLAQL 268 Query: 281 QESIQKQ 287 +E + + Sbjct: 269 REGLTAE 275 >gi|194014777|ref|ZP_03053394.1| RNA polymerase sigma-D factor (Sigma-28) [Bacillus pumilus ATCC 7061] gi|194013803|gb|EDW23368.1| RNA polymerase sigma-D factor (Sigma-28) [Bacillus pumilus ATCC 7061] Length = 255 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 65/274 (23%), Positives = 130/274 (47%), Gaps = 43/274 (15%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 E+ L R++E D +A L+ ++ LV +G GLP S +++S G +GL Sbjct: 7 EDQALWARWKEWKDPAAGDDLMRRYMPLVT-YHVGRISIGLPKSVHKEDLISLGMLGLYD 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFDP R + TY+ + I+ A+ + + + W + T+ +K ++++ ++ Sbjct: 66 ALEKFDPGRDLKFDTYASFRIRGAIIDGLRKEDW----LPRTSREKT-----KKVEAAIE 116 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVI-SMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + L+ +A++L +SE +V+ +MN E A + S D+ ++ Sbjct: 117 KLEQRYLRNVTPTEVAEELGMSEQDVVTTMN------EGFFANLLSIDEK--------LH 162 Query: 207 DHDGQE--QVLIEKE-----ERKNRRN----MLTRSMSVLNPRERRIFEARRLQENPVTL 255 D + E QV+I E E K ++ L M+ L+ +E+ + +E +TL Sbjct: 163 DQEDGENVQVMIRDEKTVTPEEKMLKDELIEQLAEKMTELSEKEKLVISLFYKEE--LTL 220 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + +S R+ QI ++A K++ + K ++ Sbjct: 221 TEIGHVLNLSTSRISQIHSKALFKLKYLLDKAIQ 254 >gi|143460|gb|AAA22713.1| 37 kd minor sigma factor (rpoF, sigB; ttg start codon) [Bacillus subtilis] gi|143463|gb|AAA22715.1| 37 kd minor sigma factor (ttg start codon) [Bacillus subtilis] gi|1881283|dbj|BAA19310.1| RNA POLYMERASE SIGMA-B FACTOR (SIGMA-37) [Bacillus subtilis] Length = 264 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 68/268 (25%), Positives = 124/268 (46%), Gaps = 28/268 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GN 83 K L K E L Y+ D A LV + LV +A Y G E + + G Sbjct: 8 KTTKLTKDEVDRLISDYQTKQDEQAQETLVRVYTNLVDMLAKKY-SKGKSFHEDLRQVGM 66 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL+ A+K++DP G +++ I ++ ++ ++WS+ +R+ R+ Sbjct: 67 IGLLGAIKRYDPVVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRI 120 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKN 196 K + +T + +V IA+ L+VSE EV+ +M L+ D S+ A SD + Sbjct: 121 KMAVDQLTTETQRSPKVEEIAEFLDVSEEEVLETMEMGKSYQALSVDHSIEA---DSDGS 177 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 + D + DG E+V N++ ML + VL+ RE++I + +Q + + Sbjct: 178 TVTILDIVGSQEDGYERV--------NQQLMLQSVLHVLSDREKQIIDLTYIQNK--SQK 227 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 228 ETGDILGISQMHVSRLQRKAVKKLREAL 255 >gi|325677679|ref|ZP_08157331.1| RNA polymerase sigma-K factor [Ruminococcus albus 8] gi|324110647|gb|EGC04811.1| RNA polymerase sigma-K factor [Ruminococcus albus 8] Length = 231 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 26/66 (39%), Positives = 38/66 (57%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD SA RL++ +LRLV I Y +++S G IGL++AV+ FD +G R ATY Sbjct: 49 GDKSARDRLISHNLRLVAHIIKKYYAAASDQDDLISIGTIGLIKAVQTFDYTKGTRFATY 108 Query: 105 SMWWIK 110 ++ Sbjct: 109 GSRCVE 114 >gi|291563747|emb|CBL42563.1| RNA polymerase, sigma subunit, RpoX/SigF [butyrate-producing bacterium SS3/4] Length = 239 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 59/246 (23%), Positives = 111/246 (45%), Gaps = 25/246 (10%) Query: 42 REH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 R H GD A RLV + LV I + G G ++ GNIGL++A+ FD E G R Sbjct: 10 RSHAGDKEARDRLVMENAGLVWSIVRRFIGRGPEPDDLFQIGNIGLIKAIDHFDTELGVR 69 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN---NLKPE 157 +TY++ I ++ + LR ++K+ L+ L G + A + +L E Sbjct: 70 FSTYAVPMITGEIRRF-LRDDGMIKVSRP---------LKELAGKVGAAREKLEADLGRE 119 Query: 158 QVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 V +A+ + S EV + A S+ ++ D++ D + ++VL Sbjct: 120 PTVEELARSVGASREEVAASMEAGARVGSIYEPFDAGDESGGCLADKIAEKTSENDRVL- 178 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 R +L +S L +E++I + R + T+ ++ +S+ +V ++E + Sbjct: 179 -------DRIVLAELLSGLGEKEQQIIKMRYFENMTQTV--IAGRLGISQVQVSRMEKKI 229 Query: 277 FKKVQE 282 ++++E Sbjct: 230 LREMRE 235 >gi|218133504|ref|ZP_03462308.1| hypothetical protein BACPEC_01371 [Bacteroides pectinophilus ATCC 43243] gi|217990879|gb|EEC56885.1| hypothetical protein BACPEC_01371 [Bacteroides pectinophilus ATCC 43243] Length = 238 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 23/68 (33%), Positives = 44/68 (64%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLVV IA + G+ + +++S G IGL++A+ ++P++ +LATY+ I+ Sbjct: 67 LIEHNLRLVVYIAKRFDNTGIGVEDLISIGTIGLIKAIHSYNPDKSIKLATYASRCIENE 126 Query: 113 MQEYILRS 120 + Y+ R+ Sbjct: 127 ILMYLRRN 134 >gi|196248769|ref|ZP_03147469.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|196211645|gb|EDY06404.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 250 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 58/256 (22%), Positives = 114/256 (44%), Gaps = 19/256 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 ++ QE L +R +E GD A ++ ++RLV + + G ++ G IGL++ Sbjct: 12 IKDQEMKELIRRSQE-GDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLK 70 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +V KFD + +TY++ I +Q + LR VK+ + K + +R+ K L Sbjct: 71 SVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSL--KEMGNKIRKAKDEL-- 125 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + + IA L VS EV+ + S++ + +D + D + Sbjct: 126 -SKTRGRAPTITEIADHLGVSPEEVVLAQEAVRSPASIHETVYENDGDPITLLDQIA--- 181 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D E EK L +++ L+ RER I R ++ T +++ +S+ + Sbjct: 182 DADEASWFEK-------IALKKAIEELDERERLIVYLRYYKDQ--TQSEVAARLGISQVQ 232 Query: 269 VRQIEARAFKKVQESI 284 V ++E + + ++E + Sbjct: 233 VSRLEKKILQHIKEKM 248 >gi|153440|gb|AAC36891.1| minor sigma-like factor [Streptomyces aureofaciens] gi|743686|prf||2013252A RNA polymerase:SUBUNIT=sigma factor Length = 278 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 62/247 (25%), Positives = 106/247 (42%), Gaps = 18/247 (7%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVK 91 VL + Y++ GD +L+ H +VK G GLP ++ VS G GL+ A++ Sbjct: 31 VLWRSYKDSGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIE 89 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 KFD ER + TY++ I+ AM + LR+ + + + L+ L+ Sbjct: 90 KFDIERSIKFETYAITRIRGAMIDE-LRALDWIPRSVRQKARAVERAYATLEAQLR---- 144 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHD 209 E VA + V E + LA +L L++ + + D L DH Sbjct: 145 -RTPTEGEVAGEMGIGVEELHTVFSQLSLANVVALEELLHVGGEGGDRLSLMDTL-EDHA 202 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 + V E E + R +L R+++ L RE+ + + +TL + + V+ RV Sbjct: 203 ADDPV--EVAEDRELRRLLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRV 258 Query: 270 RQIEARA 276 QI ++ Sbjct: 259 SQIHTKS 265 >gi|163816759|ref|ZP_02208122.1| hypothetical protein COPEUT_02949 [Coprococcus eutactus ATCC 27759] gi|158448016|gb|EDP25011.1| hypothetical protein COPEUT_02949 [Coprococcus eutactus ATCC 27759] Length = 207 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 59/247 (23%), Positives = 100/247 (40%), Gaps = 67/247 (27%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A L+ +LRLV I Y +++S G IGL++A+ + PE+G +LA Y Sbjct: 23 GDNEARRVLIEYNLRLVAHIVKKYSSSVRDPEDLLSIGTIGLIKAIDSYKPEKGCKLAGY 82 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + I + L NLR+ K K + V++ + Sbjct: 83 AAKCI----------------------ENELLMNLRQEK-----------KKSREVSMYE 109 Query: 165 KLNVSE--SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 + + +E++ M+ +I++S+ S + + DH Sbjct: 110 PIGTDKEGNEIVIMD-----------IISTSE--SCPLEKLITEDH-------------- 142 Query: 223 NRRNMLTRSMS-VLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 N L M+ +L PRE I + R L E P+T + + +SR V +IE RA K Sbjct: 143 --LNHLPSCMNQILTPREYHIIQMRYGILGEAPLTQKETAKILGISRSYVSRIEKRALSK 200 Query: 280 VQESIQK 286 ++ + K Sbjct: 201 LRGCLDK 207 >gi|153811113|ref|ZP_01963781.1| hypothetical protein RUMOBE_01504 [Ruminococcus obeum ATCC 29174] gi|149833001|gb|EDM88084.1| hypothetical protein RUMOBE_01504 [Ruminococcus obeum ATCC 29174] Length = 259 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 60/266 (22%), Positives = 121/266 (45%), Gaps = 37/266 (13%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ E+ L ++ ++ GD A + + +LRLV+ + ++ ++ G IG Sbjct: 16 LPILKSDEKEALFQKIKK-GDSEAREQYIKGNLRLVLSVIKRFQNSNENADDLFQIGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRRL 142 LM+AV FD + +TY++ I ++ Y LR ++ +++ + K ++ + Sbjct: 75 LMKAVDNFDDTLNVKFSTYAVPMIIGEIRRY-LRDYNSIRVSRSLRDIAYKAIYTKENMI 133 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL------AGDESLNALINSSDKN 196 K +L+ T + + E + I K++ V + I L G ++L + SD+ Sbjct: 134 KKNLKEPTIDEIADE--IGIEKEMIVYALDAIQSPVSLFEPVYSEGGDTLYVMDQISDQK 191 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTL 255 + + WL N+ L +M+ LN RE+ I E R E + Sbjct: 192 NKE-DHWL--------------------ENLSLREAMNRLNQREKHIIEM-RFYEGRTQM 229 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E ++ E +S+ +V ++E A K ++ Sbjct: 230 E-VADEIGISQAQVSRLEKNALKTMK 254 >gi|221308296|ref|ZP_03590143.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. subtilis str. 168] gi|221312618|ref|ZP_03594423.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221317541|ref|ZP_03598835.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. subtilis str. JH642] gi|221321817|ref|ZP_03603111.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. subtilis str. SMY] gi|255767137|ref|NP_388354.2| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. subtilis str. 168] gi|321314147|ref|YP_004206434.1| RNA polymerase sigma factor SigB [Bacillus subtilis BSn5] gi|133469|sp|P06574|RPSB_BACSU RecName: Full=RNA polymerase sigma-B factor; AltName: Full=General stress protein 84; Short=GSP84; AltName: Full=Sigma-37 gi|143538|gb|AAA22754.1| sigma-37 RNA polymerase [Bacillus subtilis] gi|225184764|emb|CAB12280.2| RNA polymerase sigma-37 factor (sigma(B)) [Bacillus subtilis subsp. subtilis str. 168] gi|291482882|dbj|BAI83957.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. natto BEST195] gi|320020421|gb|ADV95407.1| RNA polymerase sigma factor SigB [Bacillus subtilis BSn5] Length = 262 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 68/268 (25%), Positives = 124/268 (46%), Gaps = 28/268 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GN 83 K L K E L Y+ D A LV + LV +A Y G E + + G Sbjct: 6 KTTKLTKDEVDRLISDYQTKQDEQAQETLVRVYTNLVDMLAKKY-SKGKSFHEDLRQVGM 64 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL+ A+K++DP G +++ I ++ ++ ++WS+ +R+ R+ Sbjct: 65 IGLLGAIKRYDPVVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRI 118 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKN 196 K + +T + +V IA+ L+VSE EV+ +M L+ D S+ A SD + Sbjct: 119 KMAVDQLTTETQRSPKVEEIAEFLDVSEEEVLETMEMGKSYQALSVDHSIEA---DSDGS 175 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 + D + DG E+V N++ ML + VL+ RE++I + +Q + + Sbjct: 176 TVTILDIVGSQEDGYERV--------NQQLMLQSVLHVLSDREKQIIDLTYIQNK--SQK 225 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 226 ETGDILGISQMHVSRLQRKAVKKLREAL 253 >gi|296332841|ref|ZP_06875301.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305673187|ref|YP_003864859.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. spizizenii str. W23] gi|296150121|gb|EFG91010.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305411431|gb|ADM36550.1| RNA polymerase sigma factor SigB [Bacillus subtilis subsp. spizizenii str. W23] Length = 262 Score = 50.8 bits (120), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 67/268 (25%), Positives = 125/268 (46%), Gaps = 28/268 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GN 83 K L K E L Y+ + D A LV + LV +A Y G E + + G Sbjct: 6 KTTKLTKDEVDRLISDYQTNQDEQAQETLVRVYTNLVDMLAKKY-SKGKSFHEDLRQVGM 64 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL+ A+K++DP G +++ I ++ ++ ++WS+ +R+ R+ Sbjct: 65 IGLLGAIKRYDPVVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRI 118 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNALINSSDKN 196 K + +T + +V IA+ L+VSE EV+ +M L+ D S+ A +D + Sbjct: 119 KMAVDQLTTETQRSPKVEEIAEFLDVSEEEVLETMEMGKSYQALSVDHSIEA---DADGS 175 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 + D + DG E+V N++ ML + VL+ RE++I + +Q + + Sbjct: 176 TVTILDIVGSQEDGYERV--------NQQMMLQSVLHVLSDREKQIIDLTYIQNK--SQK 225 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 226 ETGDILGISQMHVSRLQRKAVKKLREAL 253 >gi|315186365|gb|EFU20125.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Spirochaeta thermophila DSM 6578] Length = 262 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 56/229 (24%), Positives = 106/229 (46%), Gaps = 22/229 (9%) Query: 61 VVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK G GLP S +++ G GL+ A++KFDPE+ + TY++ I+ A+ + Sbjct: 37 LVKYVAGKIAVGLPSSVEFDDLIGFGTFGLLDAIEKFDPEKHVKFKTYAVTRIRGAIYDE 96 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVIS 175 LR+ V K + L RL+ L +A TD L A+++N+S E+ Sbjct: 97 -LRAMDWVPRSVRQKSKEIEDALHRLESSLGRAATDEEL--------AREMNMSSRELQK 147 Query: 176 MNCRLAGDE--SLNALINSSDKNSS-QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 +++ SL L + D+N D L +E+EE K ++ ++ Sbjct: 148 TLQKISSTSILSLQELWYTGDENDRVAIADMLEAPQAYDPAARVEREEIK---RVVAEAI 204 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +E+++ ++ +TL+ + + V+ RV Q+ +A +++ Sbjct: 205 KELPEKEKKVLVLYYYED--LTLKEIGAILNVTESRVSQLHTKAISRLR 251 >gi|289578314|ref|YP_003476941.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|297544594|ref|YP_003676896.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|289528027|gb|ADD02379.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|296842369|gb|ADH60885.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 246 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 59/259 (22%), Positives = 120/259 (46%), Gaps = 20/259 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 EK ++ + R + D + +L+ + L+ I + G + ++ G +G ++ Sbjct: 6 FEKSDDNLTLIRAAQKNDKESLEKLILENSGLIWSIVKKFSNRGYELEDLYQIGCMGFVK 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV+KFD +L+TY++ I ++ + LR L+K+ + + L +L+ Sbjct: 66 AVQKFDESYNVKLSTYAVPIIMGEIKRF-LRDDGLIKVSRSLKE------LSTKAFYLKE 118 Query: 149 ITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + + L E + IA++L VS EV A ESL D + D L+ + Sbjct: 119 VLSSELNREPTINEIAERLKVSPEEVAMAFESAATAESL------YDNATHDEDDRLLIE 172 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 +E EKE + + L ++ L PRE++I R ++ +T ++S +S+ Sbjct: 173 MVSEE----EKEVDIDDKLALQMVINKLKPREKQIIFLRYFKD--MTQMEIASILGISQV 226 Query: 268 RVRQIEARAFKKVQESIQK 286 +V +IE + +K+++ + + Sbjct: 227 QVSRIEKKVLQKLRKELDE 245 >gi|325290052|ref|YP_004266233.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Syntrophobotulus glycolicus DSM 8271] gi|324965453|gb|ADY56232.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Syntrophobotulus glycolicus DSM 8271] Length = 248 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 23/70 (32%), Positives = 42/70 (60%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +A ++L+ +LRLV + Y G G +++S G IGL++ + F+ ++G RLATY+ Sbjct: 64 NARNKLIEHNLRLVAHLVKKYDGTGEDSDDLISIGTIGLIKGINTFNTDKGTRLATYAAR 123 Query: 108 WIKAAMQEYI 117 I+ + Y+ Sbjct: 124 CIENEILMYL 133 >gi|291525265|emb|CBK90852.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium rectale DSM 17629] gi|291529276|emb|CBK94862.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium rectale M104/1] Length = 259 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 29/102 (28%), Positives = 58/102 (56%), Gaps = 2/102 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ E+ L ++ ++ GD +A + + +LRLV+ + + + + ++ G I Sbjct: 15 KLPVLKDDEKEELFEKIKK-GDKAAREKYIRGNLRLVLSVIRRFSNHNENMDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GLM+++ FDP G + +TY++ I ++ Y LR S +I Sbjct: 74 GLMKSIDNFDPTIGVKFSTYAVPMIIGEVRRY-LRDNSAYRI 114 >gi|126651479|ref|ZP_01723683.1| sigma factor B [Bacillus sp. B14905] gi|126591732|gb|EAZ85828.1| sigma factor B [Bacillus sp. B14905] Length = 261 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 58/257 (22%), Positives = 118/257 (45%), Gaps = 38/257 (14%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+ D A LV + LV IA Y ++V G +GL+ A+++FDP G Sbjct: 22 YQSTEDDEAQTNLVIHYRYLVESIARKYSNGKSYYDDIVQVGMLGLLGAIRRFDPNVGRS 81 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++W + +R+ R+K ++A+T + + Sbjct: 82 FEAFAVPTIVGEIKRFLRDKTWDV------HVPRRIKEIGPRIKSTVEALTIELQRSPSI 135 Query: 160 VAIAKK-----------LNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 IA++ + +S S + +SM+ + D SD ++ D L + Sbjct: 136 QEIAERLEVAEEEVLEAMEMSRSYQALSMDHSIESD---------SDGSTVTLFDILGRE 186 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E ++R +++ +M VLN RE++I + L++ ++ + + +S+ Sbjct: 187 DDGYEMT--------DKRMIVSEAMVVLNEREKQIIQLTYLEQ--LSQKEAGEQLGISQM 236 Query: 268 RVRQIEARAFKKVQESI 284 V +I+ +A KK+QE+I Sbjct: 237 HVSRIQRKAIKKLQEAI 253 >gi|158340491|ref|YP_001521485.1| RNA polymerase sigma-2 subunit [Acaryochloris marina MBIC11017] gi|158310732|gb|ABW32346.1| RNA polymerase sigma-2 subunit domain protein [Acaryochloris marina MBIC11017] Length = 697 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 29/121 (23%), Positives = 62/121 (51%), Gaps = 2/121 (1%) Query: 1 MNRKNMSIIVNGEIGLSRY-IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 M ++ + I L Y + + + P+ + ++E L ++ + G ++ L+ H+R Sbjct: 1 MTTTTIASPFSDGIRLPEYLVQFLHRFPIPDPEQELDLIRKAKR-GHETSLSWLMIGHVR 59 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 LV K+A Y +++ EG +G+ AV KFD +G + +TY+ WI+ ++ + + Sbjct: 60 LVAKLAKQYAWTLDDAQDLIQEGMLGIRHAVGKFDSTKGCKFSTYARGWIRGYIRRFCYK 119 Query: 120 S 120 + Sbjct: 120 N 120 >gi|158319069|ref|YP_001511576.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus oremlandii OhILAs] gi|158139268|gb|ABW17580.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus oremlandii OhILAs] Length = 270 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 58/264 (21%), Positives = 124/264 (46%), Gaps = 34/264 (12%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K Y D+ + L+ HL + ++ + G+ ++ ++GL+ A++++D Sbjct: 30 LFKEYALTRDIEIRNELINRHLYIAEILSKKFLNKGIEYEDIYQVASLGLIYAIERYDVT 89 Query: 97 RGFRLATYSMWWIKAAMQEYIL-RSWSL-VKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +GF ++++ I +++Y + WS+ V K++ + L+ LQ Sbjct: 90 KGFEFSSFATPTIIGEIKKYFRDKGWSIRVPRRIQELSKKVNVSKNTLQQTLQ------- 142 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ- 213 + V IA+ LN +E EVI E++ A S + + D L+YD+DG ++ Sbjct: 143 RTPTVKDIAEYLNCTEEEVI---------EAMEA----SQVYTPKSLD-LIYDNDGDDKD 188 Query: 214 -----VLIEKEERKN---RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 ++ E ++R + ++ +++ LN E+++ + R N T +S E VS Sbjct: 189 IQLLDLIGELDKRFDDIENKDFFQKAIDKLNEVEKKVLKDRFF--NNKTQMKVSEELNVS 246 Query: 266 RERVRQIEARAFKKVQESIQKQVE 289 + V ++E R +K ++ + + +E Sbjct: 247 QMTVSRMEKRIIEKFKKELDRSME 270 >gi|256271|gb|AAC60416.1| RpoD3 [Synechococcus] Length = 48 Score = 50.8 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 18/41 (43%), Positives = 30/41 (73%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++ EG IG+ + V+KFDP +G+R +TY+ WWI+ A+ I Sbjct: 2 DLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAI 42 >gi|253578148|ref|ZP_04855420.1| sporulation sigma factor SigG [Ruminococcus sp. 5_1_39B_FAA] gi|251850466|gb|EES78424.1| sporulation sigma factor SigG [Ruminococcus sp. 5_1_39BFAA] Length = 259 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 63/266 (23%), Positives = 117/266 (43%), Gaps = 35/266 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L +R + +GD A + +LRLV+ + ++ ++ G I Sbjct: 15 KLPVLTAEEKAELFRRIK-NGDEQARELYIKGNLRLVLSVIRRFQNSSENADDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GL++A+ FD + +TY++ I ++ Y LR + +++ + K ++ Sbjct: 74 GLIKAIDNFDTTLQVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDIAYKAIYTRENY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL------AGDESLNALINSSDK 195 +K HL+ T + E + I K++ V + I L G ++L + SDK Sbjct: 133 MKQHLKEPTVTEIAQE--IGIEKEMIVYALDAIQNPVSLFEPVYTEGGDTLYVMDQISDK 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + KEER L +M LN RE+ I E R E + Sbjct: 191 KN--------------------KEERWIENLALREAMQRLNSREKHIIEL-RFYEGKTQM 229 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQ 281 E ++ E +S+ +V ++E A K ++ Sbjct: 230 E-VAQEIGISQAQVSRLEKNALKSMR 254 >gi|158339684|ref|YP_001520691.1| RNA polymerase sigma factor domain-containing protein [Acaryochloris marina MBIC11017] gi|158309925|gb|ABW31541.1| RNA polymerase sigma factor domain protein [Acaryochloris marina MBIC11017] Length = 400 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 31/121 (25%), Positives = 64/121 (52%), Gaps = 2/121 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEI-RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLR 59 M ++S + I L Y+ ++ + P+ +EE L ++ + G ++ L+ H+R Sbjct: 1 MTAASISSPFSEGIRLPDYLTQLLHRFPVPNPEEELDLIRKAKL-GHETSLSWLMIGHVR 59 Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 LV K+A Y +++ EG +G+ AV+KFD +G + +TY+ WI+ ++ + + Sbjct: 60 LVSKLAKQYAWTLDDAQDLIQEGMLGIRHAVRKFDSTKGCKFSTYARGWIRGYIRRFCYK 119 Query: 120 S 120 + Sbjct: 120 N 120 >gi|261405539|ref|YP_003241780.1| sporulation sigma factor SigK [Paenibacillus sp. Y412MC10] gi|315645904|ref|ZP_07899025.1| sporulation sigma factor SigK [Paenibacillus vortex V453] gi|329925929|ref|ZP_08280639.1| RNA polymerase sigma-K factor [Paenibacillus sp. HGF5] gi|261282002|gb|ACX63973.1| RNA polymerase, sigma 28 subunit, SigK [Paenibacillus sp. Y412MC10] gi|315278665|gb|EFU41979.1| sporulation sigma factor SigK [Paenibacillus vortex V453] gi|328939580|gb|EGG35929.1| RNA polymerase sigma-K factor [Paenibacillus sp. HGF5] Length = 233 Score = 50.8 bits (120), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 28/84 (33%), Positives = 51/84 (60%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++E L +R E GD + ++L+ +LRLV I + G + +++S G IGL Sbjct: 30 PLTEEEEAKHL-QRMAE-GDPQSRNKLIEHNLRLVAHIVKKFDNTGEDLEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ F P +G +LAT++ I+ Sbjct: 88 IKAIESFRPNKGTKLATFAARCIE 111 >gi|282866278|ref|ZP_06275324.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282558864|gb|EFB64420.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 318 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 47/170 (27%), Positives = 78/170 (45%), Gaps = 20/170 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ ++V G IGL++A+ +F+ RG T++M I Sbjct: 97 LVELNLALVKFAAARFRSRSEPMEDIVQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 156 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + VV +A++L ++ Sbjct: 157 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQQLD---RAPTVVELAERLGITHE 210 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQV 214 EV+ G + NA SS D N D L Y+ +G E + Sbjct: 211 EVVE------GMTASNAYTASSLDAKPEDDDNEGALADRLGYEDNGLEGI 254 >gi|241761164|ref|ZP_04759253.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|241374783|gb|EER64244.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Zymomonas mobilis subsp. mobilis ATCC 10988] Length = 247 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 59/227 (25%), Positives = 100/227 (44%), Gaps = 23/227 (10%) Query: 53 LVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ +HL+LV KIA G + + +++ G + L++A F+ RGF ATY+ I Sbjct: 28 LIKTHLQLVRKIAWHVHGRVSSAIEVEDLIQIGMVALIEAANAFE-NRGFAFATYASMRI 86 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM +Y +R + + QK L L L +PE+ IA+KLN+S Sbjct: 87 RGAMIDY-MRQHAATARSSIVRQKTLNKAREELSATL------GRRPEE-AEIAEKLNMS 138 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 SE R D ++N S D S D+ Q + ER+ ++ L Sbjct: 139 PSE-----YREWADGAINIRQESLDDVYSDHSSIFTDDNADQASEM----EREALQSALA 189 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + L RE + + ++E + L+ + ++ R+ QI+ A Sbjct: 190 EQIKTLPEREALVLQLYYVEE--LNLKEIGEVLDLGTARISQIKKSA 234 >gi|254478671|ref|ZP_05092042.1| RNA polymerase sigma-F factor [Carboxydibrachium pacificum DSM 12653] gi|214035358|gb|EEB76061.1| RNA polymerase sigma-F factor [Carboxydibrachium pacificum DSM 12653] Length = 215 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 54/221 (24%), Positives = 109/221 (49%), Gaps = 26/221 (11%) Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGY L ++ G IG ++AV+KFD + +TY++ I ++ + LR L+K+ Sbjct: 17 RGYEL--EDLYQIGCIGFVKAVQKFDESYNVKFSTYAVPIIMGEIKRF-LRDDGLIKVSR 73 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLN 187 + + L +++ + N L E + IA++LNV+ E+ A ESL Sbjct: 74 SLKE------LSSKAFYMKEVLSNELNREPTINEIAERLNVTPEEIAMAFESAATAESL- 126 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV--LNPRERRIFEA 245 D S + +D + + G ++ ++ EE+ LT M + L PRE+++ Sbjct: 127 -----YDSISHEEEDRQLIEMVGDKEDSVDLEEK------LTLHMIIDKLKPREKQVIFL 175 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R ++ +T +++ +S+ +V +IE + +K+++ ++K Sbjct: 176 RYFKD--MTQTEVANILGISQVQVSRIEKKVLEKIRKELEK 214 >gi|239827809|ref|YP_002950433.1| sporulation sigma factor SigK [Geobacillus sp. WCH70] gi|239808102|gb|ACS25167.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. WCH70] Length = 236 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+EE L + GD A + L+ +LRLV I + G +++S G IGL Sbjct: 30 PLSAKEEEKYL--QLMAKGDEQARNILIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ + P +G +LATY+ I+ Sbjct: 88 IKAIESYSPGKGTKLATYAARCIE 111 >gi|291538524|emb|CBL11635.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Roseburia intestinalis XB6B4] Length = 254 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 62/239 (25%), Positives = 109/239 (45%), Gaps = 48/239 (20%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +V++ G Y GY + ++VS G GL+ A+ KFD + + TY+ I+ ++ + Sbjct: 32 LVRVVAGRLSMYLGYNVEYEDLVSYGIFGLIDAIDKFDRGKDVKFETYASLRIRGSILDQ 91 Query: 117 ILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE--- 172 I + W I T QKR + ++ T N E+ IA++L + E E Sbjct: 92 IRKMDW----IPRTVRQKRK--KIEEAIKQIETKTGRNASDEE---IAQELGIGEEELND 142 Query: 173 ---------VISMN--CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 VIS+N G+ ++A KN+S H Q + +++EE Sbjct: 143 WQTQLNVTNVISLNEFVEQGGEPVMDA------KNNS---------HFIQPEESVQEEEL 187 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 K +L S+ +L +E+++ ++ +TL+ +SS EVS RV Q+ +A K+ Sbjct: 188 K---KVLMESLELLTEKEKKVILLYYYED--MTLKEISSILEVSESRVSQLHTKALLKM 241 >gi|238924598|ref|YP_002938114.1| sporulation sigma factor SigG [Eubacterium rectale ATCC 33656] gi|238876273|gb|ACR75980.1| sporulation sigma factor SigG [Eubacterium rectale ATCC 33656] Length = 259 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 29/102 (28%), Positives = 58/102 (56%), Gaps = 2/102 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ E+ L ++ ++ GD +A + + +LRLV+ + + + + ++ G I Sbjct: 15 KLPVLKDDEKEELFEKIKK-GDKAAREKYIRGNLRLVLSVIRRFSNHNENMDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GLM+++ FDP G + +TY++ I ++ Y LR S +I Sbjct: 74 GLMKSIDNFDPTIGVKFSTYAVPMIIGEVRRY-LRDNSAYRI 114 >gi|158341383|ref|YP_001522549.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] gi|158311624|gb|ABW33234.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] Length = 423 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 28/79 (35%), Positives = 45/79 (56%), Gaps = 1/79 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A R + + RLV K A YRG + ++V+ G +GL A++KFD RGF+ +TY Sbjct: 32 GDRRAEDRFIRKNQRLVFKEAKRYRGL-VDWDDLVNAGTLGLSIAIQKFDLSRGFQFSTY 90 Query: 105 SMWWIKAAMQEYILRSWSL 123 ++ I+ +++ I L Sbjct: 91 AVKPIRTEIRQLICEQRGL 109 >gi|188011951|gb|ACD45272.1| RNA polymerase sigma-37 factor [Listeria monocytogenes] Length = 222 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 52/212 (24%), Positives = 99/212 (46%), Gaps = 14/212 (6%) Query: 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A++++D Sbjct: 4 YIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 G +++ I ++ ++ ++WS+ +R+ ++K ++ +T Sbjct: 64 ATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEELTREL 117 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQE 212 Q+ IA + V+E EV+ + +S AL ++ S + S + D G Sbjct: 118 QSSPQISDIADFIGVTEEEVLEA---MEMGKSYQALSVDHSIEADSDGSTITLLDVVGGT 174 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 ER N+R +L + + VL+ RE++I + Sbjct: 175 DYGF---ERVNQRMLLEKVLPVLDEREQKILQ 203 >gi|326204040|ref|ZP_08193901.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium papyrosolvens DSM 2782] gi|325985807|gb|EGD46642.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium papyrosolvens DSM 2782] Length = 138 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 31/96 (32%), Positives = 53/96 (55%), Gaps = 2/96 (2%) Query: 19 YIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 Y+ + P L+ +EE + Y+ +G A + L+ +LRLV I Y G + Sbjct: 22 YVSNVNSFPQPLKPEEEQYYVEAYK-NGSEDARNILIERNLRLVAHIVKKYGSCGSDSDD 80 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 ++S G IGL++A+ F+ ++G RLATY+ I+ A+ Sbjct: 81 LISIGTIGLIKAISTFNMDKGTRLATYAARCIENAI 116 >gi|271969498|ref|YP_003343694.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] gi|270512673|gb|ACZ90951.1| putative RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] Length = 266 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 61/243 (25%), Positives = 109/243 (44%), Gaps = 30/243 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G + ++ IGL++++ +FD RG +TY+ I Sbjct: 45 LVELHLPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFDLGRGVEFSTYATPTIVGE 104 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + W+ V++ + +L L + ++ + V +A L +SE Sbjct: 105 IKRHFRDKGWA-VRVPRRLQELKL-----SLTKAISELSQREGRAPTVGELAAFLKMSEE 158 Query: 172 EVISMNCRLAGDESLNAL-------INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV L G ES NA +S D ++ D L D E V E R++ Sbjct: 159 EV------LEGLESANAYSTVSLDAPDSGDDDAPAVADSLGIVDDSLEGV----EYRESL 208 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L R L PRE+RI R +T +++E +S+ V ++ AR +++E + Sbjct: 209 KPLLER----LPPREKRILLLRFF--GNMTQSQIATELGISQMHVSRLLARTLAQLREGL 262 Query: 285 QKQ 287 + Sbjct: 263 TAE 265 >gi|47122|emb|CAA48660.1| whiG-Stv [Streptomyces griseocarneus] Length = 278 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 61/249 (24%), Positives = 104/249 (41%), Gaps = 28/249 (11%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RSYKASGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGIFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 P R + TY++ I+ AM ++I RS L LRR + Sbjct: 93 PARAIKFETYAITRIRGAMIDELRALDWIPRSVRQKARAVERAYATLEAELRRTPTEAEV 152 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSSQWQDWLVYD 207 + + E++ ++ +L++ + V+++ L AGDE L D L Sbjct: 153 AAEMGIALEELHSVFSQLSL--ANVVALEDLLHAGDEGGERL---------SLMDTL--- 198 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 D +E E R +L R+++ L RE+ + + +TL + V+ Sbjct: 199 EDTAADDPVEVAEDHELRRLLARAINTLPEREKTVVTLYYYE--GLTLAEIGQVLGVTES 256 Query: 268 RVRQIEARA 276 RV QI ++ Sbjct: 257 RVSQIHTKS 265 >gi|15614101|ref|NP_242404.1| sporulation sigma factor SigF [Bacillus halodurans C-125] gi|10174155|dbj|BAB05257.1| RNA polymerase sigma-F factor (stage II sporulation protein AC) [Bacillus halodurans C-125] Length = 252 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 59/247 (23%), Positives = 115/247 (46%), Gaps = 32/247 (12%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++V+ + RLV + + G ++ G IGL+++V KFD + +TY Sbjct: 29 GDQEARDQIVSRNTRLVWSVVQRFLNRGYEADDLFQIGCIGLIKSVDKFDLSYDVKFSTY 88 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I +Q + LR VK+ + K L +R+LK + T + V IA+ Sbjct: 89 AVPMIIGEIQRF-LRDDGTVKVSRSI--KELGNKIRKLKDDM---TKTLGRTPTVNEIAE 142 Query: 165 KLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 +L ++ EV+ AGD SL+++ + VY++DG L+++ E + Sbjct: 143 QLEITPEEVV-----FAGDASRSLSSIHET------------VYENDGDPITLLDQLEDQ 185 Query: 223 NR-----RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + L ++ L RER I R ++ T ++ +S+ +V ++E + Sbjct: 186 SETRWFDKIALKEAIHNLEERERLIVYLRYYKDQ--TQSEVAQRLGISQVQVSRLEKKIL 243 Query: 278 KKVQESI 284 + ++ +I Sbjct: 244 ETMKANI 250 >gi|242089059|ref|XP_002440362.1| hypothetical protein SORBIDRAFT_09g030350 [Sorghum bicolor] gi|241945647|gb|EES18792.1| hypothetical protein SORBIDRAFT_09g030350 [Sorghum bicolor] Length = 529 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 21/62 (33%), Positives = 35/62 (56%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ + LV IA Y G G + +++ G +G++ +KFD +G R +TY +WI+ Sbjct: 290 RLLVTTEWLVRCIARSYTGMGTALDDLLQAGKMGVLDGAEKFDTRKGCRFSTYVKYWIRK 349 Query: 112 AM 113 M Sbjct: 350 GM 351 >gi|167630319|ref|YP_001680818.1| RNA polymerase sigma factor, flia/whig family [Heliobacterium modesticaldum Ice1] gi|167593059|gb|ABZ84807.1| RNA polymerase sigma factor, flia/whig family [Heliobacterium modesticaldum Ice1] Length = 266 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 63/254 (24%), Positives = 114/254 (44%), Gaps = 20/254 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPE 96 Y++H D +A L+ + LV K G LP + +++S G GLM A++KFD Sbjct: 21 YKDHKDPAAREELILIYAPLV-KFVAGRLAISLPPNVEREDLISYGVFGLMDAIEKFDLA 79 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLK 155 RG + TY++ I+ +M + LR+ V + + L L L + TD Sbjct: 80 RGLKFETYAIARIRGSMLDG-LRAMDWVPVSVRQKTRELEKTYATLSQRLGREATDEE-- 136 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNA--LINSSDKNSSQWQDWLVYDHDGQEQ 213 VA A L ++E + + + SL+ L +S + + D L + + Sbjct: 137 ----VAQALGLTLNEFAKLLQDVQATTIMSLDEYWLTDSDKGDPVRLIDSLADEQVEEPT 192 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 +E EE R +L +++ L +ER + A E +TL+ + + VS R+ Q+ Sbjct: 193 AALEFEE---TRLLLAQAIDKLPEKERTVI-ALYYYEG-LTLKEIGAVIGVSESRISQLH 247 Query: 274 ARAFKKVQESIQKQ 287 +A +++ + +Q Sbjct: 248 TKAILRLRGQLARQ 261 >gi|218132880|ref|ZP_03461684.1| hypothetical protein BACPEC_00741 [Bacteroides pectinophilus ATCC 43243] gi|217991753|gb|EEC57757.1| hypothetical protein BACPEC_00741 [Bacteroides pectinophilus ATCC 43243] Length = 259 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 27/101 (26%), Positives = 57/101 (56%), Gaps = 2/101 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ +E+ L ++ + GD A + + +LRLV+ + + G G ++ G IG Sbjct: 16 LPLLKNEEKDELLRKAID-GDSKAREKYIKGNLRLVLSVIQRFAGNGENADDLFQIGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 LM+A+ FD + R +TY++ I ++ Y +R ++ +++ Sbjct: 75 LMKAIDNFDVTQNVRFSTYAVPMIMGEVRRY-MRDYNSIRV 114 >gi|328885347|emb|CCA58586.1| RNA polymerase sigma factor for flagellar operon [Streptomyces venezuelae ATCC 10712] Length = 258 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 63/248 (25%), Positives = 106/248 (42%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+E GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 14 RSYKETGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 72 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFN----LRRLKGHLQA 148 ER + TY++ I+ AM E W + A N +R + LRR + Sbjct: 73 VERAIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYATLEAQLRRTPSETEV 132 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + ++ E + A+ +L S+ +A +E L+ D+ S D L Sbjct: 133 AAEMDISLEDLHAVFSQL--------SLANVVALEELLHVGGEGGDRLS--LMDTL---E 179 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + V+ R Sbjct: 180 DTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYE--GLTLAEIGHVLGVTESR 237 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 238 VSQIHTKS 245 >gi|226324647|ref|ZP_03800165.1| hypothetical protein COPCOM_02432 [Coprococcus comes ATCC 27758] gi|225207095|gb|EEG89449.1| hypothetical protein COPCOM_02432 [Coprococcus comes ATCC 27758] Length = 222 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 30/84 (35%), Positives = 47/84 (55%), Gaps = 1/84 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L +EE L +R + D A H L+ +LRLV + Y+ +++S G IGL Sbjct: 6 PPLTPKEESELLRRSAD-SDNEARHILIERNLRLVAHVIKKYQHLEDDTEDLLSIGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++AV F+P++ RLATY+ I+ Sbjct: 65 IKAVSTFNPDKKARLATYACRCIE 88 >gi|319937136|ref|ZP_08011543.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319807502|gb|EFW04095.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 259 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 71/278 (25%), Positives = 127/278 (45%), Gaps = 43/278 (15%) Query: 16 LSRYIHEIRKIPM-----LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 +SRY EI + L QE L +Y + D + +LV S+L+LV+ + Y Sbjct: 1 MSRYKVEINGYTIQEYEKLSHQETMNLLDQYHQTNDENIKEKLVLSNLKLVLSLVQKYHQ 60 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 + ++ G IGL++A+ FD R +TY++ I ++ YI R S ++I + Sbjct: 61 RVSNLDDLFQVGVIGLIKAIDHFDTSLDVRFSTYAVPLIIGEIKRYI-RDNSPMRIPRSM 119 Query: 131 NQ---KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 K L N +K H + + L +K L+V E ++ E+L+ Sbjct: 120 RDLAYKALLANEEYMKKHHKEASTKEL--------SKILDVDEFLLV---------EALS 162 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERKNR-RNM-----LTRSMSVLNPRE 239 + NS S + Q+ DG Q+ +E + +RKN+ +M L +M+ L+ +E Sbjct: 163 S-TNSVTSLSQEVQN------DGNGQIDLESQIPDRKNQMEDMQNSIDLYEAMNHLDEKE 215 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +I R + + T ++ E +S+ +V +IE +A Sbjct: 216 LQIINERYFKGH--TQSEIAKELFISQAQVSRIEKQAL 251 >gi|291563982|emb|CBL42798.1| RNA polymerase, sigma 29 subunit, SigE [butyrate-producing bacterium SS3/4] Length = 246 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 55/241 (22%), Positives = 103/241 (42%), Gaps = 70/241 (29%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLVV IA + + + +++S G IGL++A+ F+P + +LATY+ I+ Sbjct: 67 LIEHNLRLVVYIAKKFDNTSVGVEDLISIGTIGLIKAINTFNPTKNIKLATYASRCIENE 126 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + Y+ R+ + KL VS Sbjct: 127 ILMYLRRTSKM-----------------------------------------KLEVS--- 142 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQEQVLIEKE-ERKNRRNMLT 229 DE LN W + L+ D G E+ +I K+ E + +++L Sbjct: 143 ---------IDEPLNV----------DWDGNELLLSDILGTEEDVIYKDMEDEVEKDLLK 183 Query: 230 RSMSVLNPRERRIFEAR----RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +++S L+PRER+I E R R +T + ++ +S+ + ++E + ++++ I Sbjct: 184 KAVSRLSPRERKIVELRYGLKRRDGAEMTQKEVADLMGISQSYISRLEKKIMMRLKKEIV 243 Query: 286 K 286 K Sbjct: 244 K 244 >gi|283797733|ref|ZP_06346886.1| RNA polymerase sigma-E factor [Clostridium sp. M62/1] gi|291074630|gb|EFE11994.1| RNA polymerase sigma-E factor [Clostridium sp. M62/1] Length = 205 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 31/80 (38%), Positives = 46/80 (57%), Gaps = 3/80 (3%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E++ EY+ KR RE GD A L+ +LRLV + Y+ +++S G IGL++A Sbjct: 11 EEEREYL--KRCRE-GDEEAKAVLIERNLRLVAHVIKKYQYTDYETEDLLSVGTIGLIKA 67 Query: 90 VKKFDPERGFRLATYSMWWI 109 V F E+G RLATY+ + Sbjct: 68 VNTFKAEKGSRLATYAAKCV 87 >gi|255545052|ref|XP_002513587.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223547495|gb|EEF48990.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 501 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 50/84 (59%), Gaps = 4/84 (4%) Query: 48 SAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +A ++L+ +LRLV+ + Y G ++ G GL+ A+ +F+P+R F+L+TY Sbjct: 264 AARNKLIKHNLRLVMFVMNKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPQRRFQLSTY 323 Query: 105 SMWWIK-AAMQEYILRSWSLVKIG 127 S++WI+ A ++ L S++ V G Sbjct: 324 SLFWIRHAIIRSMTLSSFTKVSFG 347 >gi|310826431|ref|YP_003958788.1| RinA family phage transcriptional regulator [Eubacterium limosum KIST612] gi|308738165|gb|ADO35825.1| RinA family phage transcriptional regulator [Eubacterium limosum KIST612] Length = 250 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 58/225 (25%), Positives = 100/225 (44%), Gaps = 24/225 (10%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 + KQE L Y++ GD RL+ + L + + Y + ++ +GLM Sbjct: 7 MTKQESKKLFIEYKKTGDKEIRDRLIENFLYIPKLLVKKYAYRSNDVEDIYQVACLGLMY 66 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 AV+++DP+RGF T++ I +++Y ++++ + L + R K L+ Sbjct: 67 AVERYDPDRGFEFDTFASPTIIGEIKKYYRDKQWIIRVPRRIQE--LNREINRAKTTLEH 124 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 +K + IA L V+E VI + G+ S++ S + Sbjct: 125 ---KLMKTPTISEIADYLEVTEEAVIEA---MEGNNVFYPKSLSTEFES---------NA 169 Query: 209 DGQEQVLI----EKEER-KNRRNM--LTRSMSVLNPRERRIFEAR 246 DGQE L+ E++ER +N N+ L + + LNP ER I E R Sbjct: 170 DGQEATLLDLIGEEDERIENIGNVEDLRQRLESLNPVERMIIEER 214 >gi|288555973|ref|YP_003427908.1| sporulation sigma factor SigF [Bacillus pseudofirmus OF4] gi|288547133|gb|ADC51016.1| sporulation sigma factor SigF [Bacillus pseudofirmus OF4] Length = 256 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 59/253 (23%), Positives = 119/253 (47%), Gaps = 32/253 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A +V + RLV + + G ++ G IGL+++V KFD + + Sbjct: 29 QEGDQQARDLIVNRNTRLVWSVVQRFMNRGYEADDLFQIGCIGLIKSVDKFDLSYDVKFS 88 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR VK+ + K L +R++K L T + + V I Sbjct: 89 TYAVPMIIGEIQRF-LRDDGTVKVSRSI--KELGNKIRKMKDEL---TKSLGRVPTVNEI 142 Query: 163 AKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVL 215 A++L ++ EV+ AG+ SL ++ + VY++DG +Q+ Sbjct: 143 AEQLEITPEEVV-----FAGEASRSLTSIHET------------VYENDGDPITLLDQIA 185 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + E + + L ++ L+ RER I R ++ T +++ +S+ +V ++E + Sbjct: 186 DQTETKWFDKIALKEAIRDLDERERLIVFLRYYKDQ--TQSEVATRLGISQVQVSRLEKK 243 Query: 276 AFKKVQESIQKQV 288 ++++E + +Q+ Sbjct: 244 ILEQMKEVMGEQI 256 >gi|146295967|ref|YP_001179738.1| sporulation sigma factor SigG [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409543|gb|ABP66547.1| RNA polymerase, sigma subunit, RpsG/SigG [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 255 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 25/92 (27%), Positives = 51/92 (55%), Gaps = 1/92 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +PML +E+ L K+ + +GD A + + +LRLV+ + + G + ++ G IG Sbjct: 14 LPMLSHEEKIELLKKMK-NGDKEARKQFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L++A+ FD + + +TY++ I ++ Y+ Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRYL 104 >gi|118443948|ref|YP_877996.1| RNA polymerase sigma factor for flagellar operon fliA [Clostridium novyi NT] gi|118134404|gb|ABK61448.1| RNA polymerase sigma factor for flagellar operon fliA [Clostridium novyi NT] Length = 242 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 58/240 (24%), Positives = 109/240 (45%), Gaps = 21/240 (8%) Query: 53 LVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 +V ++ LV IA +G Y + +++ G +GLM A KFD +G + +TY+ Sbjct: 13 IVKKYIPLVKYIASRVIIGKTKY-IEFEDLLGYGMLGLMDAFNKFDKSKGMKFSTYASIR 71 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ +M + I ++ + K A K L + ++++ NL + IAK+L++ Sbjct: 72 IRGSMIDEIRKNSPISK---GAMDK-----LNKYNSAIESLQKRNLAEPNIKDIAKELDM 123 Query: 169 SESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 + +V I SL LI S D + S + E E+ E + Sbjct: 124 TVKQVGEIENFINYISIVSLEDLIFSEDDDISLMGTIEDINSPNPE----EEYENDEKLE 179 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L++ + +LN ++R + +E +TL+ + VS RV Q+ +RA +++ + K Sbjct: 180 YLSKGLDMLNEKDRTVLSLYYYEE--MTLKEIGKILGVSESRVCQLHSRAIVHLRKELAK 237 >gi|291060074|gb|ADD72809.1| RNA polymerase sigma factor WhiG [Treponema pallidum subsp. pallidum str. Chicago] Length = 262 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 55/220 (25%), Positives = 103/220 (46%), Gaps = 23/220 (10%) Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 KIA+G G + ++VS G GL A+ K+DPE+ R TY++ I+ A+ + LRS Sbjct: 44 KIAVGKPG-NVEFDDLVSYGIFGLFDAIDKYDPEKNIRFNTYAVTRIRGAIFDE-LRSID 101 Query: 123 LVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKK----LNVSESEVISM- 176 V +++ + L+ L +A TD + + + + L VS + VIS+ Sbjct: 102 WVPRSVRQQTRQIEEAIADLEARLGRAATDTEIACALNIELEEYHQLLLKVSGTSVISLA 161 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 + + GDE + + S + + V++E+EE K ++ ++ L+ Sbjct: 162 DSKFGGDERDHVSVGDSIEAPASL----------NPDVIVEREEIK---RIIAEAIRELS 208 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 RE+++ +E +TL+ + +V+ R+ QI A Sbjct: 209 QREQQVLILYYYEE--MTLKEIGKVLKVTESRISQIHTSA 246 >gi|169829726|ref|YP_001699884.1| RNA polymerase sigma-B factor [Lysinibacillus sphaericus C3-41] gi|168994214|gb|ACA41754.1| RNA polymerase sigma-B factor (Sigma-37) (General stress protein 84) (GSP84) [Lysinibacillus sphaericus C3-41] Length = 261 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 58/257 (22%), Positives = 118/257 (45%), Gaps = 38/257 (14%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+ D A LV + LV IA Y ++V G +GL+ A+++FDP G Sbjct: 22 YQSTEDDEAQTNLVIHYRYLVESIARKYSNGKSYYDDIVQVGMLGLLGAIRRFDPNVGRS 81 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++W + +R+ R+K ++A+T + + Sbjct: 82 FEAFAVPTIVGEIKRFLRDKTWDV------HVPRRIKEIGPRIKTTVEALTIELQRSPSI 135 Query: 160 VAIAKK-----------LNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 IA++ + +S S + +SM+ + D SD ++ D L + Sbjct: 136 QEIAERLEVAEEEVLEAMEMSRSYQALSMDHSIESD---------SDGSTVTLFDILGRE 186 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E ++R +++ +M VLN RE++I + L++ ++ + + +S+ Sbjct: 187 DDGYEMT--------DKRMIVSEAMVVLNEREKQIIQLTYLEQ--LSQKEAGEQLGISQM 236 Query: 268 RVRQIEARAFKKVQESI 284 V +I+ +A KK+QE+I Sbjct: 237 HVSRIQRKAIKKLQEAI 253 >gi|26000679|gb|AAN75199.1| sigma K [Clostridium difficile] gi|26000681|gb|AAN75200.1| sigma K [Clostridium difficile CD196] gi|26000696|gb|AAN75201.1| sigma K [Clostridium difficile] gi|26000698|gb|AAN75202.1| sigma K [Clostridium difficile] gi|26000700|gb|AAN75203.1| sigma K [Clostridium difficile] Length = 108 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 26/81 (32%), Positives = 45/81 (55%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE +++ D SA L+ ++RLV IA Y +++S G IGL++ Sbjct: 11 LTPEEEIEYLTKFKIENDKSAKDTLIERNMRLVAYIAKKYNNSTEDQDDLISIGTIGLIK 70 Query: 89 AVKKFDPERGFRLATYSMWWI 109 A++ ++ ++G RLATY+ I Sbjct: 71 AIETYNIDKGTRLATYASRCI 91 >gi|152964789|ref|YP_001360573.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Kineococcus radiotolerans SRS30216] gi|151359306|gb|ABS02309.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Kineococcus radiotolerans SRS30216] Length = 267 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 34/122 (27%), Positives = 61/122 (50%), Gaps = 15/122 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL L +A YR G P ++V +GL++A ++FDP+ G R A Y+ I Sbjct: 18 LVLEHLPLARSVAAHYRNRGEPYDDLVQVAYLGLVKAAQRFDPDTGHRFAAYAAPTITGE 77 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + W++ R L+ L+ L + ++ PE+V +A++L+ + + Sbjct: 78 VRRHFRDHGWNV----------RPPRRLQELRARL--LAEDADTPEEV--LAQRLDATVA 123 Query: 172 EV 173 EV Sbjct: 124 EV 125 >gi|258515296|ref|YP_003191518.1| RNA polymerase, sigma 28 subunit, SigF [Desulfotomaculum acetoxidans DSM 771] gi|257779001|gb|ACV62895.1| RNA polymerase, sigma 28 subunit, SigF [Desulfotomaculum acetoxidans DSM 771] Length = 259 Score = 50.4 bits (119), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 32/109 (29%), Positives = 59/109 (54%), Gaps = 4/109 (3%) Query: 25 KIPMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 + P+L+ +E +LAK + GD A RLV +L+LV + + G + ++ G+ Sbjct: 12 RFPLLKDEEMRQLLAKA--KLGDAVARERLVNCNLKLVFNLVKRFNNRGYELEDLFQIGS 69 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 IGLM+A+ KFD + +TY++ I ++ + LR + VK+ + + Sbjct: 70 IGLMKAIDKFDLNYDVKFSTYAVPMIVGEIRRF-LRDDNPVKVSRSVKE 117 >gi|312876364|ref|ZP_07736349.1| RNA polymerase, sigma 28 subunit, SigE [Caldicellulosiruptor lactoaceticus 6A] gi|311796858|gb|EFR13202.1| RNA polymerase, sigma 28 subunit, SigE [Caldicellulosiruptor lactoaceticus 6A] Length = 244 Score = 50.4 bits (119), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 50/94 (53%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + R G+ L+ +LRLVV IA + + + ++VS G IGL Sbjct: 41 PPLTPDEEAQILYRIHYQGEEGLKKLLIERNLRLVVYIAKRFENTKVNLEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P + +LATY+ I+ + ++ R+ Sbjct: 101 IKAINTYNPNKNIKLATYASKCIENEILMFLRRN 134 >gi|317969500|ref|ZP_07970890.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0205] Length = 315 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 62/258 (24%), Positives = 109/258 (42%), Gaps = 37/258 (14%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLP-----ISEVVSEGNIGLMQAVKKFDPERGFRL 101 L A +LV +L LV G LP ++ + E + L++A +KFDP +G+R Sbjct: 64 LRAREQLVRHNLGLVAHT-WGRHRCSLPAHDDTTADALQEAALNLVRAAEKFDPAKGYRF 122 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 +TY+ +W++ E+ R+ ++ A + + RL QA T + E + A Sbjct: 123 STYATFWVRRGFTEFEQRAKRAIRF--PAEKAAVVLKALRLSQQQQATTGDEPSLEWLAA 180 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K + +MN E L I D + D + DG E+ + + Sbjct: 181 QLK------FDGKAMNA-----EQLAEFIRQWDATRTGSLD--GAEDDGDEKGGCSRLDL 227 Query: 222 KN---------------RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL-SSEFEVS 265 + + L + MS L+ +E R+ R L+ P++ L S + Sbjct: 228 ASLQQAAEQQQTQEPDPQHAALPQLMSCLDEQEHRLIRNRYLRRPPLSPCQLRRSMGGMQ 287 Query: 266 RERVRQIEARAFKKVQES 283 RE++ Q+EA A K+++S Sbjct: 288 REQLEQLEATALNKLRQS 305 >gi|94500298|ref|ZP_01306831.1| flagellar biosynthesis sigma factor [Oceanobacter sp. RED65] gi|94427597|gb|EAT12574.1| flagellar biosynthesis sigma factor [Oceanobacter sp. RED65] Length = 245 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 55/242 (22%), Positives = 114/242 (47%), Gaps = 22/242 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 LV + LV +IA +G LP + +++ G IGL++A +K++P +G TY+ Sbjct: 19 LVEEYASLVKRIAHHLKGR-LPDSVQVDDLIQSGMIGLIEAAQKYEPSKGASFETYAGIR 77 Query: 109 IKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 I+ +M + I + W+ + + N RR+ ++ + + Q +AK L Sbjct: 78 IRGSMLDEIRKGDWA---------PRSVHRNSRRISEAIRYVESQTGRDAQDQEVAKALG 128 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + E E + + L + + ++ Q D++ +D + Q L + ++ + Sbjct: 129 M-ELEEYHQHLQDGAGSRLFSFEDLLEQRGEQESDFMGHDDESPLQDL----QSEHFQQQ 183 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L +++S L RE+ + +E + L+ + + EVS RV QI ++A +++ +Q+ Sbjct: 184 LAKAISQLPEREQLVLALYYDEE--LNLKEIGAVLEVSESRVSQIHSQAAHRLRARLQEW 241 Query: 288 VE 289 E Sbjct: 242 AE 243 >gi|152965379|ref|YP_001361163.1| RNA polymerase sigma factor WhiG [Kineococcus radiotolerans SRS30216] gi|151359896|gb|ABS02899.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Kineococcus radiotolerans SRS30216] Length = 312 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 70/268 (26%), Positives = 123/268 (45%), Gaps = 31/268 (11%) Query: 24 RKIPMLEKQEEYVLAKR-----YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI--- 75 RK P +QE+ A R Y+ GD +L+ H +VK G G GLP Sbjct: 49 RKGPQTPEQEQAEAALRAMWEEYKASGDGVVREKLIM-HYSPLVKYVAGRVGVGLPPNIE 107 Query: 76 -SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++VS G GL+ A++KFD ER + TY++ I+ A+ + LRS + + + Sbjct: 108 QADLVSYGIFGLIDAIEKFDIERAIKFETYAISRIRGAIIDE-LRSIDWIPRSVRSKARE 166 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSE-----SEVISMNCRLAGDESLNA 188 + L+ L + P +V VA ++ +SE S+V +N +A DE L+ Sbjct: 167 VERTYAALEAEL------HRTPTEVEVAARMEIKLSELHHIFSQVSYVNV-VALDELLSV 219 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 DK S D L D + + ++ E++ + +L+R+++ L RE+ + Sbjct: 220 SGEKGDKLS--LVDTL---EDTKAEDPVQSFEKEETKFLLSRAINQLPEREKIVVTLYYY 274 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARA 276 + +TL + V+ R+ Q+ +A Sbjct: 275 E--GLTLAEIGRVLGVTESRICQMHTKA 300 >gi|154686064|ref|YP_001421225.1| RNA polymerase sigma factor SigD [Bacillus amyloliquefaciens FZB42] gi|308173610|ref|YP_003920315.1| RNA polymerase sigma-28 factor sigma-D [Bacillus amyloliquefaciens DSM 7] gi|154351915|gb|ABS73994.1| SigD [Bacillus amyloliquefaciens FZB42] gi|307606474|emb|CBI42845.1| RNA polymerase sigma-28 factor (sigma-D) [Bacillus amyloliquefaciens DSM 7] gi|328553458|gb|AEB23950.1| RNA polymerase sigma factor SigD [Bacillus amyloliquefaciens TA208] gi|328911751|gb|AEB63347.1| RNA polymerase sigma factor [Bacillus amyloliquefaciens LL3] Length = 254 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 63/272 (23%), Positives = 127/272 (46%), Gaps = 39/272 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 E+ VL R++E D A L+ ++ LV +G GLP S +++S G +GL Sbjct: 7 EDQVLWSRWKEWKDPKAGDDLMRRYMPLVT-YHVGRISVGLPKSVHKDDLMSLGMLGLYD 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFDP R + TY+ + I+ A+ + + + W + T+ +K ++++ ++ Sbjct: 66 ALEKFDPGRDLKFDTYASFRIRGAIIDGLRKEDW----LPRTSREKT-----KKVEAAIE 116 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVIS-MNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + L+ IA++L ++E +V+S MN E A + S D+ ++ Sbjct: 117 KLEQRYLRNVTPSEIAEELGMTEQDVVSTMN------EGFFANLLSIDEK--------LH 162 Query: 207 DHDGQEQVLIEKEERKN----RRNMLTRSMSVLNPRERRIFEARRL-----QENPVTLEN 257 D D E + + + KN + M ++ L + + E +L + +TL Sbjct: 163 DQDDGENIQVMIRDDKNVPPEEKIMKDELIAQLAGKIHELSEKEQLVVSLFYKEELTLTE 222 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + +S R+ QI ++A K++ ++K ++ Sbjct: 223 IGQVLNLSTSRISQIHSKALFKLKHLLEKVIQ 254 >gi|291559903|emb|CBL38703.1| RNA polymerase, sigma subunit, RpsG/SigG [butyrate-producing bacterium SSC/2] Length = 258 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 29/98 (29%), Positives = 52/98 (53%), Gaps = 1/98 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L ++E+ L +R E GDL A + +LRLV+ I + G ++ G IG Sbjct: 16 LPLLSEEEKEDLFERI-EQGDLLAREHYIKGNLRLVLSIIQRFSGSNENADDLFQVGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 LM+A+ FD + +TY++ I ++ Y+ + S+ Sbjct: 75 LMKAIDNFDRNLNVKFSTYAVPMIIGEVKRYLRDNHSM 112 >gi|260886663|ref|ZP_05897926.1| RNA polymerase sigma-27 factor [Selenomonas sputigena ATCC 35185] gi|330839507|ref|YP_004414087.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Selenomonas sputigena ATCC 35185] gi|260863515|gb|EEX78015.1| RNA polymerase sigma-27 factor [Selenomonas sputigena ATCC 35185] gi|329747271|gb|AEC00628.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Selenomonas sputigena ATCC 35185] Length = 252 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 65/257 (25%), Positives = 115/257 (44%), Gaps = 35/257 (13%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEG 82 P E Q+ + L YRE ++V +L LV IA G GLP ++VS G Sbjct: 7 PSAEIQDLWAL---YRETRAPEVRDKIVEKYLPLVNIIA-GRVVVGLPAHVDRDDLVSSG 62 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 GL+ A++++D ERG + TY I+ AM +Y LR+ + + +R + L Sbjct: 63 FFGLLDAIERYDVERGNKFETYGGVRIRGAMLDY-LRTMDWIPVSKRQKIRRYEQAVTTL 121 Query: 143 KGHL-QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +G L ++ TD+ L A +L +S+ E L+ L++ ++ + Sbjct: 122 EGRLGRSATDDEL--------AAELKISKKE-------------LHDLVSQTNIATVIPL 160 Query: 202 DWLVYDHDGQEQVLIEKE--ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 + V Q + +E E+ R+ L ++ L +ER + +E +TL+ +S Sbjct: 161 EEYVRTESPSSQTIDPEENAEKNELRDTLAEAIDQLPEKERTVVSLYYYEE--LTLKEIS 218 Query: 260 SEFEVSRERVRQIEARA 276 +S R+ Q+ +A Sbjct: 219 LILHLSEARISQLHTKA 235 >gi|15614994|ref|NP_243297.1| RNA polymerase sigma factor SigD [Bacillus halodurans C-125] gi|10175051|dbj|BAB06150.1| RNA polymerase sigma-D factor [Bacillus halodurans C-125] Length = 256 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 52/221 (23%), Positives = 113/221 (51%), Gaps = 19/221 (8%) Query: 72 GLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 GLP S +++S G +GL+ A++KF+P+R + TY+ + ++ A+ + LR + Sbjct: 46 GLPRSVSKDDLISHGMLGLLDALEKFNPDRDLKFDTYASFRVRGAILDG-LRKEDWLPRS 104 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNCRLAGD-ES 185 K++ +L+ L N+ E+V AK++ +SE+EV +M L + S Sbjct: 105 MREKIKKIEAATEKLEQKL----GRNVSVEEV---AKEVGISENEVSQTMTESLVANLLS 157 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 ++ N SD+ + + E+ L+E+ +++ ++ ++LN +E+ + Sbjct: 158 MDEKTNDSDREETYTATIIDKQSLSPEEKLLEEAQKEELSQLIA---NILNEKEQLVIGL 214 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E +TL + ++S R+ QI ++A ++Q++++K Sbjct: 215 FYFEE--LTLTEIGQILKLSTSRISQIHSKALFRLQQALKK 253 >gi|312794093|ref|YP_004027016.1| RNA polymerase, sigma 28 subunit, sige [Caldicellulosiruptor kristjanssonii 177R1B] gi|312181233|gb|ADQ41403.1| RNA polymerase, sigma 28 subunit, SigE [Caldicellulosiruptor kristjanssonii 177R1B] Length = 244 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 50/94 (53%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + R G+ L+ +LRLVV IA + + + ++VS G IGL Sbjct: 41 PPLTPDEEAQILYRIHYQGEEGLKKLLIERNLRLVVYIAKRFENTKVNLEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P + +LATY+ I+ + ++ R+ Sbjct: 101 IKAINTYNPNKNIKLATYASKCIENEILMFLRRN 134 >gi|332981685|ref|YP_004463126.1| RNA polymerase sigma-27/28 subunit,RpsK/SigK [Mahella australiensis 50-1 BON] gi|332699363|gb|AEE96304.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Mahella australiensis 50-1 BON] Length = 236 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 26/75 (34%), Positives = 40/75 (53%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I Y +++S G IGL++ + FD +G RLA Sbjct: 46 EQGDQQAKNILIEHNLRLVAHIVKKYNNAVKDPEDLISIGTIGLIKGITTFDSNKGTRLA 105 Query: 103 TYSMWWIKAAMQEYI 117 TY+ I+ + Y+ Sbjct: 106 TYAARCIENEILMYV 120 >gi|318075685|ref|ZP_07983017.1| RNA polymerase sigma factor WhiG [Streptomyces sp. SA3_actF] Length = 259 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 61/244 (25%), Positives = 104/244 (42%), Gaps = 18/244 (7%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 15 RMYKTTGDARLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 73 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 ER + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 74 IERSIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEAKLHRT 127 Query: 154 LKPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 P +V VA + V + + LA +L L++ + + + G + Sbjct: 128 --PTEVEVASEMGVGVEDLHAVFSQLSLANVVALEELLSVGSEGGGRLSIMDTLEDTGAD 185 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 +E E + R +L+R+++ L RE+ + + +TL + V+ RV QI Sbjct: 186 NP-VEVAEGRELRQLLSRAINSLPDREKTVVMLYYYE--GLTLAEIGHVLGVTESRVSQI 242 Query: 273 EARA 276 ++ Sbjct: 243 HTKS 246 >gi|254974785|ref|ZP_05271257.1| sporulation sigma factor SigK [Clostridium difficile QCD-66c26] gi|255100257|ref|ZP_05329234.1| sporulation sigma factor SigK [Clostridium difficile QCD-63q42] gi|255306197|ref|ZP_05350369.1| sporulation sigma factor SigK [Clostridium difficile ATCC 43255] gi|255313912|ref|ZP_05355495.1| sporulation sigma factor SigK [Clostridium difficile QCD-76w55] gi|255516591|ref|ZP_05384267.1| sporulation sigma factor SigK [Clostridium difficile QCD-97b34] gi|306519807|ref|ZP_07406154.1| sporulation sigma factor SigK [Clostridium difficile QCD-32g58] Length = 130 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 26/81 (32%), Positives = 45/81 (55%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE +++ D SA L+ ++RLV IA Y +++S G IGL++ Sbjct: 11 LTPEEEIEYLTKFKIENDKSAKDTLIERNMRLVAYIAKKYNNSTEDQDDLISIGTIGLIK 70 Query: 89 AVKKFDPERGFRLATYSMWWI 109 A++ ++ ++G RLATY+ I Sbjct: 71 AIETYNIDKGTRLATYASRCI 91 >gi|167767366|ref|ZP_02439419.1| hypothetical protein CLOSS21_01885 [Clostridium sp. SS2/1] gi|317497448|ref|ZP_07955768.1| sigma-70 family RNA polymerase sigma factor [Lachnospiraceae bacterium 5_1_63FAA] gi|167711341|gb|EDS21920.1| hypothetical protein CLOSS21_01885 [Clostridium sp. SS2/1] gi|316895234|gb|EFV17396.1| sigma-70 family RNA polymerase sigma factor [Lachnospiraceae bacterium 5_1_63FAA] Length = 207 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 29/84 (34%), Positives = 47/84 (55%), Gaps = 4/84 (4%) Query: 27 PML-EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 P+L E++ Y++ R GD++A + LV +LRLV I Y +++S G IG Sbjct: 7 PLLPEEERHYLILSR---QGDMNARNLLVEHNLRLVAHIVKKYHNLDREKEDMISIGVIG 63 Query: 86 LMQAVKKFDPERGFRLATYSMWWI 109 L++A+ +D +G RL TY+ I Sbjct: 64 LIKAINTYDISKGHRLVTYAARCI 87 >gi|269792906|ref|YP_003317810.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermanaerovibrio acidaminovorans DSM 6589] gi|269100541|gb|ACZ19528.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermanaerovibrio acidaminovorans DSM 6589] Length = 187 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 28/78 (35%), Positives = 44/78 (56%), Gaps = 6/78 (7%) Query: 44 HGDLSAAHRLVTSHLRLVVKIA--MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 GD A L+ ++ +V +A +G R Y +VV EG +GL++AV FDP RG R Sbjct: 22 QGDQEAREELILAYRPMVFWLARRLGNRAY----QDVVQEGMLGLLEAVDNFDPSRGHRF 77 Query: 102 ATYSMWWIKAAMQEYILR 119 +TY+ + I+ M ++ R Sbjct: 78 STYAYYRIRGRMINFLSR 95 >gi|312128105|ref|YP_003992979.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311778124|gb|ADQ07610.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 244 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 50/94 (53%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + R G+ L+ +LRLVV IA + + + ++VS G IGL Sbjct: 41 PPLTPDEEAQILYRIHYQGEEGLKKLLIERNLRLVVYIAKRFENTKINLEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P + +LATY+ I+ + ++ R+ Sbjct: 101 IKAINTYNPNKNIKLATYASKCIENEILMFLRRN 134 >gi|302522171|ref|ZP_07274513.1| RNA polymerase sigma-G factor [Streptomyces sp. SPB78] gi|318056578|ref|ZP_07975301.1| RNA polymerase sigma factor WhiG [Streptomyces sp. SA3_actG] gi|302431066|gb|EFL02882.1| RNA polymerase sigma-G factor [Streptomyces sp. SPB78] Length = 279 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 62/246 (25%), Positives = 105/246 (42%), Gaps = 18/246 (7%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKK 92 L + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++K Sbjct: 33 LWRMYKTTGDARLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEK 91 Query: 93 FDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 FD ER + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 92 FDIERSIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEAKLH 145 Query: 152 NNLKPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 P +V VA + V + + LA +L L++ + + + G Sbjct: 146 RT--PTEVEVASEMGVGVEDLHAVFSQLSLANVVALEELLSVGSEGGGRLSIMDTLEDTG 203 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 + +E E + R +L+R+++ L RE+ + + +TL + V+ RV Sbjct: 204 ADNP-VEVAEGRELRQLLSRAINSLPDREKTVVMLYYYE--GLTLAEIGHVLGVTESRVS 260 Query: 271 QIEARA 276 QI ++ Sbjct: 261 QIHTKS 266 >gi|323140910|ref|ZP_08075823.1| Sigma-70 region 2 [Phascolarctobacterium sp. YIT 12067] gi|322414648|gb|EFY05454.1| Sigma-70 region 2 [Phascolarctobacterium sp. YIT 12067] Length = 211 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 34/133 (25%), Positives = 67/133 (50%), Gaps = 3/133 (2%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A RL+T++ LV KIA +R E++ EG +GL++A + +D +R + + Sbjct: 30 GDEAAHQRLMTAYQPLVFKIASSFRLPEADTMELIQEGMVGLLEAAESYDYKRQVAFSLF 89 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA---ITDNNLKPEQVVA 161 + + I+ +M +Y+ S + + + F L L + +T+ +L E+V Sbjct: 90 ASYRIRGSMVDYLRHSTDKGMLYLDSELSKGFTLSDALPSELASPSEVTEQHLLCEKVAQ 149 Query: 162 IAKKLNVSESEVI 174 +L + E +V+ Sbjct: 150 AMDRLPLKEQQVL 162 >gi|254381060|ref|ZP_04996425.1| sigma factor [Streptomyces sp. Mg1] gi|194339970|gb|EDX20936.1| sigma factor [Streptomyces sp. Mg1] Length = 302 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 53/221 (23%), Positives = 107/221 (48%), Gaps = 20/221 (9%) Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGT 128 G G+ I ++V G IGL++A+ +FDP+R +T ++ +I ++ + +W++ Sbjct: 93 GGGVDIEDIVQVGTIGLIKAIDRFDPDREVEFSTLALPYISGEIKRFFRDTTWAV----- 147 Query: 129 TANQKRLFFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI----SMNCRLAGD 183 + R LR L A+T+ + V IA+ L +SE +VI + N +G Sbjct: 148 --HVPRRLQELRSELAKSQDALTEVFGRAPTVKEIAEHLELSEDDVIEGLVAANGYTSG- 204 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 S++A +S + S + + + + G+ +E E + L +S L R+RRI Sbjct: 205 -SIDAATSSRQRTSGETEGRSLAETVGEVDPDMELFEEFHTLAPLLQS---LKERDRRIL 260 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R +E +T + +E +S+ +V ++ R +++ ++ Sbjct: 261 AMRFGEE--MTQAEIGTELGISQMQVSRLLTRVLTRLRTAM 299 >gi|168186812|ref|ZP_02621447.1| RNA polymerase sigma-G factor [Clostridium botulinum C str. Eklund] gi|169295146|gb|EDS77279.1| RNA polymerase sigma-G factor [Clostridium botulinum C str. Eklund] Length = 256 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 63/277 (22%), Positives = 127/277 (45%), Gaps = 51/277 (18%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E L + ++ GD + + V +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLKEKEMKELLLKMKD-GDNLSREKFVRGNLRLVLSVIQRFNNRGENVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 73 GLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRS---------LRDIAY 122 Query: 145 HLQAITDNNLKPE----QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 + D +K E V IAK+L++ EV+ +L+A+ Sbjct: 123 KALQVRDRIIKKENKDPNVSQIAKELDLPREEVVF---------ALDAI----------- 162 Query: 201 QDWL-----VYDHDGQEQVLIEKEERKNR-------RNM-LTRSMSVLNPRERRIFEARR 247 QD + +Y HDG + + + + N+ N+ + +M LN RE+ I R Sbjct: 163 QDPVSLFEPIY-HDGGDALYVMDQISDNKNADESWIENISIKEAMKRLNEREKLILNMRF 221 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 Q T ++ E +S+ +V ++E A K +++ + Sbjct: 222 FQGR--TQMEVADEIGISQAQVSRLEKTALKHMRKYV 256 >gi|325111003|ref|YP_004272071.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] gi|324971271|gb|ADY62049.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] Length = 555 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 24/57 (42%), Positives = 38/57 (66%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ S+LRLVV IA + E+VS+GN+ L++A++KFD +G + +TY+ W I Sbjct: 380 LIRSNLRLVVSIAKRHFKPQANFFEMVSDGNMSLIRAIEKFDYSQGNKFSTYATWAI 436 Score = 38.9 bits (89), Expect = 0.84, Method: Compositional matrix adjust. Identities = 23/60 (38%), Positives = 39/60 (65%), Gaps = 4/60 (6%) Query: 235 LNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE-SIQKQVEL 290 L+PRER I R P TLE + F V++ER+RQIE+RA K+++ ++++++E+ Sbjct: 493 LDPRERDIILHRFGLNKGTEPETLEQVGHRFGVTKERIRQIESRALSKLKKIAVEEKLEI 552 >gi|147677561|ref|YP_001211776.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] gi|146273658|dbj|BAF59407.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] Length = 259 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 56/258 (21%), Positives = 123/258 (47%), Gaps = 17/258 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L+ +E L ++ + GD A +LV +L+LV + ++ G + ++ G I Sbjct: 12 RFPLLKDREMRELLQKAK-AGDSYARDKLVNCNLKLVFNLVKRFQNRGYELEDLFQIGCI 70 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ KFD + +TY++ I ++ + LR + +K+ + +K R++ Sbjct: 71 GLMKAIDKFDVSYDVKFSTYAVPMIVGEIRRF-LRDDNPIKVSRSLKEKAY-----RVQQ 124 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +T + V ++ +L +S EV++ S+ ++ D + +L Sbjct: 125 ARDLLTARLGREPTVGEVSAELGLSREEVVNALEAAQVPASIYETLHQDDGDPI----YL 180 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + G E+ + E+ + +L + L R+R+I R ++ T +++ + Sbjct: 181 LDQIKGSEEGDVPWLEKITVKELLNK----LPERDRQILAWRFFEDR--TQSDIAKRLGL 234 Query: 265 SRERVRQIEARAFKKVQE 282 S+ +V ++E +A KK++E Sbjct: 235 SQVQVSRLERQALKKLKE 252 >gi|167765669|ref|ZP_02437722.1| hypothetical protein CLOSS21_00157 [Clostridium sp. SS2/1] gi|167712644|gb|EDS23223.1| hypothetical protein CLOSS21_00157 [Clostridium sp. SS2/1] Length = 271 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 29/98 (29%), Positives = 52/98 (53%), Gaps = 1/98 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L ++E+ L +R E GDL A + +LRLV+ I + G ++ G IG Sbjct: 29 LPLLSEEEKEDLFERI-EQGDLLAREHYIKGNLRLVLSIIQRFSGSNENADDLFQVGCIG 87 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 LM+A+ FD + +TY++ I ++ Y+ + S+ Sbjct: 88 LMKAIDNFDRNLNVKFSTYAVPMIIGEVKRYLRDNHSM 125 >gi|23099454|ref|NP_692920.1| sporulation sigma factor SigK [Oceanobacillus iheyensis HTE831] gi|22777683|dbj|BAC13955.1| RNA polymerase sigma 28 (sigam K) factor [Oceanobacillus iheyensis HTE831] Length = 234 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 23/68 (33%), Positives = 41/68 (60%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A ++L+ +LRLV I + G + +++S G IGL++ V+ F ++G +LA Sbjct: 44 QEGDEVARNKLIEHNLRLVAHIVKKFENTGEDMEDLISIGTIGLIKGVESFSTDKGTKLA 103 Query: 103 TYSMWWIK 110 TY+ I+ Sbjct: 104 TYAARCIE 111 >gi|295836990|ref|ZP_06823923.1| RNA polymerase sigma factor [Streptomyces sp. SPB74] gi|197697450|gb|EDY44383.1| RNA polymerase sigma factor [Streptomyces sp. SPB74] Length = 312 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 107/240 (44%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 91 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 150 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D P + +A +L + Sbjct: 151 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLDRAPTPSE---LADRLGIERE 204 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EVI G + NA SS D + S D L Y+ G E + E ++ Sbjct: 205 EVIE------GMAASNAYTASSLDAQPEEDDSESALADRLGYEDHGLEGI----EYIESL 254 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + M+ R L R+R+I R + +T + E +S+ V ++ +R K+++ + Sbjct: 255 KPMIAR----LPQRDRKILSLRFVAN--MTQSEIGEELGISQMHVSRLLSRTLVKLRKGL 308 >gi|121488747|emb|CAJ18258.1| sigma 70-type sigma factor [Pelodictyon luteolum] Length = 165 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 16/50 (32%), Positives = 36/50 (72%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 ++++EGN+GL++ K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 DLINEGNLGLIKXAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|302871379|ref|YP_003840015.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574238|gb|ADL42029.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 262 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 50/94 (53%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + R G+ L+ +LRLVV IA + + + ++VS G IGL Sbjct: 41 PPLTPDEEAQILYRIHYQGEEGLKKLLIERNLRLVVYIARRFENTKVNLEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P + +LATY+ I+ + ++ R+ Sbjct: 101 IKAINTYNPNKNIKLATYASKCIENEILMFLRRN 134 >gi|297605001|ref|NP_001056480.2| Os05g0589200 [Oryza sativa Japonica Group] gi|255676623|dbj|BAF18394.2| Os05g0589200 [Oryza sativa Japonica Group] Length = 464 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 25/81 (30%), Positives = 43/81 (53%), Gaps = 2/81 (2%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E +L R +E RL+ + LV IA Y G G +++ G +G++ +K Sbjct: 305 DEALLRSRLQE--GYCCRERLLVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEK 362 Query: 93 FDPERGFRLATYSMWWIKAAM 113 FD ++G + +TY +WI+ AM Sbjct: 363 FDSQKGCKFSTYVKYWIRKAM 383 >gi|239982580|ref|ZP_04705104.1| RNA polymerase sigma factor WhiG [Streptomyces albus J1074] Length = 259 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 28/77 (36%), Positives = 41/77 (53%), Gaps = 5/77 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPE 96 Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFDPE Sbjct: 16 YKATGDARLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGIFGLIDAIEKFDPE 74 Query: 97 RGFRLATYSMWWIKAAM 113 R + TY++ I+ AM Sbjct: 75 RSIKFETYAITRIRGAM 91 >gi|251733355|emb|CAR82427.1| RNA polymerase sigma factor [Rhizobium galegae] Length = 202 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|223984440|ref|ZP_03634576.1| hypothetical protein HOLDEFILI_01870 [Holdemania filiformis DSM 12042] gi|223963596|gb|EEF67972.1| hypothetical protein HOLDEFILI_01870 [Holdemania filiformis DSM 12042] Length = 232 Score = 50.1 bits (118), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 32/99 (32%), Positives = 53/99 (53%), Gaps = 7/99 (7%) Query: 17 SRYIH-----EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY 71 SR++H ++ P+ +EE L E+GD A L+ +LRLVV IA Y Sbjct: 17 SRHVHFIQGNDVLPHPLARDEEEAALIAL--ENGDQQARDTLIEHNLRLVVYIAKRYETN 74 Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + + +++S G IGL++AV F ++ +L TY+ I+ Sbjct: 75 PIFMEDLISIGTIGLIKAVNTFKRDKNIKLVTYASRCIE 113 >gi|282856209|ref|ZP_06265492.1| RNA polymerase, sigma 28 subunit [Pyramidobacter piscolens W5455] gi|282585968|gb|EFB91253.1| RNA polymerase, sigma 28 subunit [Pyramidobacter piscolens W5455] Length = 196 Score = 50.1 bits (118), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 26/75 (34%), Positives = 42/75 (56%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +L+ ++ LV +A +R G S++V EG + L++AV KFD G R TY Sbjct: 22 GDEEAREQLILAYRPLVYWVAKKFRVNGQRFSDLVQEGTLALIRAVDKFDVSLGHRFTTY 81 Query: 105 SMWWIKAAMQEYILR 119 + + I+ M ++ R Sbjct: 82 ACYRIRGQMLNFLQR 96 >gi|293400805|ref|ZP_06644950.1| RNA polymerase sigma-K factor [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305831|gb|EFE47075.1| RNA polymerase sigma-K factor [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 247 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 69/284 (24%), Positives = 119/284 (41%), Gaps = 68/284 (23%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEE-YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I++ +G YI + L+K+EE + +A + D ++L+ +LRLV I Sbjct: 11 ILSSALGYVGYIRSNSFLQPLDKEEEAHCIAGLSLQ--DEECRNKLIEHNLRLVAHIVKK 68 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 Y +++S G IGL++A+ F PE+G +L TY+ I+ + Y Sbjct: 69 YDIKKEQTEDLISIGTIGLIKAIDSFKPEKGHKLTTYASRCIENEILMY----------- 117 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 LR K + Q ++ N+ IA + SE +I + Sbjct: 118 -----------LRSSKNYFQNVSLND-------PIATDKDGSEITLI------------D 147 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR- 246 A+ SS + +S +D +V D+ + L + + VL+ RE I R Sbjct: 148 AI--SSPQETSIIEDMVVEDNISK----------------LKQFLHVLDSRELEIITKRF 189 Query: 247 ---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++E T ++ + +SR V +IE RAF K+ QK+ Sbjct: 190 GLYGVEEE--TQREIAKQLHISRSYVSRIEKRAFMKLYREFQKE 231 >gi|255092173|ref|ZP_05321651.1| sporulation sigma factor SigK [Clostridium difficile CIP 107932] gi|255649691|ref|ZP_05396593.1| sporulation sigma factor SigK [Clostridium difficile QCD-37x79] Length = 105 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 26/81 (32%), Positives = 45/81 (55%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE +++ D SA L+ ++RLV IA Y +++S G IGL++ Sbjct: 11 LTPEEEIEYLTKFKIENDKSAKDTLIERNMRLVAYIAKKYNNSTEDQDDLISIGTIGLIK 70 Query: 89 AVKKFDPERGFRLATYSMWWI 109 A++ ++ ++G RLATY+ I Sbjct: 71 AIETYNIDKGTRLATYASRCI 91 >gi|331090618|ref|ZP_08339469.1| hypothetical protein HMPREF9477_00112 [Lachnospiraceae bacterium 2_1_46FAA] gi|330401058|gb|EGG80653.1| hypothetical protein HMPREF9477_00112 [Lachnospiraceae bacterium 2_1_46FAA] Length = 259 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 61/263 (23%), Positives = 120/263 (45%), Gaps = 35/263 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R + GD A + +LRLV+ + + ++ G I Sbjct: 15 KLPLLKEEEKEALFVRIK-AGDEEAKEEYIKGNLRLVLSVIKRFSNSNENPDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRR 141 GL++A+ F+ E + +TY++ I ++ Y +R + +++ + K ++ Sbjct: 74 GLIKAINNFNTELNVKFSTYAVPMIIGEIRRY-MRDNNSIRVSRSLRDTAYKAIYAKEGY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL------AGDESLNALINSSDK 195 +K HL+ T + E + I+K+ V + I M L G ++L + SDK Sbjct: 133 MKTHLKEPTIQEIASE--IGISKEEIVQALDAIQMPMSLHEPIYNDGGDTLYVMDQISDK 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + + ++W+ +E L E ER L RER+I + R E + Sbjct: 191 KNKE-ENWV------EELSLAEAMER-------------LGERERKIIQMRFF-EGKTQM 229 Query: 256 ENLSSEFEVSRERVRQIEARAFK 278 E ++ E +S+ +V ++E A + Sbjct: 230 E-IAKEIHISQAQVSRLEKNALE 251 >gi|254422308|ref|ZP_05036026.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. PCC 7335] gi|196189797|gb|EDX84761.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. PCC 7335] Length = 259 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 26/97 (26%), Positives = 58/97 (59%), Gaps = 1/97 (1%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY-GLPISEVVSEGNIGLMQA 89 K + + L Y++ L +RLV ++ LV + A + GY G +++ G++GL+ A Sbjct: 10 KNQSFELLSLYQKDRSLQLRNRLVQLNIGLVRQEAYRWLGYSGETFDDLMQIGSLGLINA 69 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 +++FD E+G+ +++++ +I+ +Q Y+ ++V+I Sbjct: 70 IERFDLEKGYAFSSFAIPYIRGEIQHYLRDKGTVVRI 106 >gi|312898376|ref|ZP_07757766.1| sigma-70 region 2 [Megasphaera micronuciformis F0359] gi|310620295|gb|EFQ03865.1| sigma-70 region 2 [Megasphaera micronuciformis F0359] Length = 205 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 31/112 (27%), Positives = 64/112 (57%), Gaps = 6/112 (5%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + E++KI +L+ EE L Y++ G + + RL+ + LV + A+ + +++V+ Sbjct: 1 MEELQKITLLKPDEEKRLWMAYKDEGCMDSRGRLIEQYQPLVFREALRWHVGEEHMADVL 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 EGN+GL++AV+++D + G + Y++ I+ + ++ L K G +AN Sbjct: 61 QEGNLGLIEAVERYDYKLGVAFSIYAVHRIRGEIVDW------LKKEGKSAN 106 >gi|331269711|ref|YP_004396203.1| FliA/WhiG family RNA polymerase sigma 28 subunit [Clostridium botulinum BKT015925] gi|329126261|gb|AEB76206.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium botulinum BKT015925] Length = 242 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 61/272 (22%), Positives = 124/272 (45%), Gaps = 43/272 (15%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ +E L + R+ GD + + + +LRLV+ + + G + ++ G IG Sbjct: 1 MPVLKDKEMKELLIKMRD-GDYFSREKFIRGNLRLVLSVIQRFNNRGENVDDLFQVGCIG 59 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 60 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRD----IAYKALQVR 114 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL- 204 + I +N P V IAK+L + EV+ +L+A+ QD + Sbjct: 115 DRLINKDNKDP-NVSQIAKELELPREEVVF---------ALDAI-----------QDPVS 153 Query: 205 ----VYDHDGQEQVLIEKEERKNR-------RNM-LTRSMSVLNPRERRIFEARRLQENP 252 +Y HDG + + + + N+ N+ + +M LN RE+ I R Q Sbjct: 154 LFEPIY-HDGGDALYVMDQISDNKSVDDSWIENISIKEAMKRLNEREKLILNMRFFQGR- 211 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 T ++ E +S+ +V ++E A K +++ + Sbjct: 212 -TQMEVADEIGISQAQVSRLEKTALKHMRKYV 242 >gi|302385749|ref|YP_003821571.1| sigma-70 region 3 domain protein [Clostridium saccharolyticum WM1] gi|302196377|gb|ADL03948.1| sigma-70 region 3 domain protein [Clostridium saccharolyticum WM1] Length = 203 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 56/111 (50%), Gaps = 3/111 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ IP + E+ L K E G A RLV +LR ++ A Y G G+ I+++ Sbjct: 9 YLEEMGNIPPCTRDEQERLLKEAAE-GRKEAKKRLVEGNLRTALEYAREYDGRGVLITDL 67 Query: 79 VSEGNIGLMQAVKKFDPERGFRLA--TYSMWWIKAAMQEYILRSWSLVKIG 127 V E N+ LM AV++F RLA +++ I+ A+ + S + G Sbjct: 68 VQEANMALMMAVEEFSAMENGRLAFDSFTGRKIREALTAAVEEQQSACQTG 118 >gi|223975681|gb|ACN32028.1| unknown [Zea mays] Length = 565 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 21/62 (33%), Positives = 35/62 (56%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ + LV IA Y G G + +++ G +G++ +KFD +G R +TY +WI+ Sbjct: 331 RLLVTTEWLVRCIARTYTGMGTALDDLLQAGKMGVLDGAEKFDSRKGCRFSTYVKYWIRK 390 Query: 112 AM 113 M Sbjct: 391 GM 392 >gi|291454422|ref|ZP_06593812.1| RNA polymerase sigma factor WhiG [Streptomyces albus J1074] gi|291357371|gb|EFE84273.1| RNA polymerase sigma factor WhiG [Streptomyces albus J1074] Length = 279 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 28/77 (36%), Positives = 41/77 (53%), Gaps = 5/77 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPE 96 Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFDPE Sbjct: 36 YKATGDARLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGIFGLIDAIEKFDPE 94 Query: 97 RGFRLATYSMWWIKAAM 113 R + TY++ I+ AM Sbjct: 95 RSIKFETYAITRIRGAM 111 >gi|226311983|ref|YP_002771877.1| sporulation sigma factor SigF [Brevibacillus brevis NBRC 100599] gi|226094931|dbj|BAH43373.1| RNA polymerase sigma-F factor [Brevibacillus brevis NBRC 100599] Length = 251 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 59/252 (23%), Positives = 113/252 (44%), Gaps = 36/252 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV S++RLV + + G ++ G IGL++AV KFD R + Sbjct: 26 QAGDTEARELLVNSNIRLVWSVVQRFINRGYEADDLFQIGCIGLLKAVDKFDLSYDVRFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY++ I +Q + LR VK+ TAN+ +RR K L + Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTVKVSRSLKETANK------VRRTKDELYK---QFGRAPT 135 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + +A + ++ EV+ +++ S + V+++DG LI++ Sbjct: 136 IAEVADAVGITPEEVV--------------FAQEANRAPSSIHE-TVFENDGDPITLIDQ 180 Query: 219 --EERKNR---RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 +E N+ + L ++S L+ RE+ I R ++ T ++ +S+ +V ++E Sbjct: 181 IADEGVNKWFEKIALKDAISRLSEREQLIVYLRYYKDQ--TQSEVAERLGISQVQVSRLE 238 Query: 274 ARAFKKVQESIQ 285 R + +++ I+ Sbjct: 239 KRILQTIKDQIE 250 >gi|147677461|ref|YP_001211676.1| hypothetical protein PTH_1126 [Pelotomaculum thermopropionicum SI] gi|146273558|dbj|BAF59307.1| hypothetical protein [Pelotomaculum thermopropionicum SI] Length = 127 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 34/105 (32%), Positives = 52/105 (49%), Gaps = 1/105 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +VNG + L YI P +EE + G+ A + L +LRLV I + Sbjct: 13 LVNGLLLLVSYIAN-NTFPQPLSEEEEAKYLKLLNMGNEEARNILTERNLRLVAHIVKKF 71 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 G +++S G IGL++A+ F+P +G RLATY+ I+ M Sbjct: 72 DSTGEDSDDLISIGTIGLIKAINTFNPGKGTRLATYAAKCIENEM 116 >gi|157691239|ref|YP_001485701.1| RNA polymerase sigma factor SigB [Bacillus pumilus SAFR-032] gi|157679997|gb|ABV61141.1| DNA-directed RNA polymerase sigma subunit SigB [Bacillus pumilus SAFR-032] Length = 262 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 64/259 (24%), Positives = 121/259 (46%), Gaps = 18/259 (6%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GNIGLM 87 L K E L + Y+ + D A LV + LV +A Y G E + + G IGL+ Sbjct: 10 LTKDEVDRLIQSYQSNQDEQAQLTLVECYTNLVDMLAKKY-SKGKSFHEDLRQVGMIGLL 68 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHL 146 A+K++DP G +++ I ++ ++ ++WS+ +R+ R+K + Sbjct: 69 GAIKRYDPLVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRIKMAV 122 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLV 205 +T K +V IA+ L+V+E EV+ + +S AL ++ + S+ + Sbjct: 123 DHLTTETQKSPKVQEIAEYLDVTEEEVLET---MEMGKSYQALSVDQGVEADSEGSTVTI 179 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 D G ++ E ER N++ ML + VL RE+ I LQ + + +S Sbjct: 180 LDVVGSQE---EGYERVNQKMMLESVLHVLTDREKEIINLTYLQNK--SQKETGDLLGIS 234 Query: 266 RERVRQIEARAFKKVQESI 284 + V +++ +A KK+++++ Sbjct: 235 QMHVSRLQRKAVKKLRDAL 253 >gi|304404273|ref|ZP_07385935.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304347251|gb|EFM13083.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 262 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 45/162 (27%), Positives = 78/162 (48%), Gaps = 18/162 (11%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVS 80 K P L E++ ++++ D+ A +L+ +L LV + GLP + ++ S Sbjct: 5 KTPHLSNIEKW---RKWKTEKDIEAKKQLIEQYLPLVDYVT-SRMAIGLPKTVSKDDLYS 60 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLR 140 G +GL+ A++KFD ERG + TY+ W I+ + + LR V KR+ + Sbjct: 61 NGVMGLIDAIEKFDYERGLQFETYASWRIRGGIIDG-LRQGDWVPRSVRDKAKRIEEAYQ 119 Query: 141 RL-KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 L + +L+++TD I+ LNVSE E + +A Sbjct: 120 LLEQKYLRSVTD--------AEISDYLNVSEKEFTGILQEIA 153 >gi|134298969|ref|YP_001112465.1| FliA/WhiG family RNA polymerase sigma factor [Desulfotomaculum reducens MI-1] gi|134051669|gb|ABO49640.1| RNA polymerase, sigma subunit, RpoX/SigF [Desulfotomaculum reducens MI-1] Length = 260 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 40/151 (26%), Positives = 76/151 (50%), Gaps = 7/151 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L +E L K+ + G+ A RLV +L+LV + + G + ++ G I Sbjct: 13 RFPLLGDKEMRGLLKKA-QSGNSEARERLVNCNLKLVFNLVQRFSNRGYELEDLFQIGCI 71 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ KFD + +TY++ I ++ + LR S VK+ + K + +++ + Sbjct: 72 GLMKAIDKFDLSYDVKFSTYAVPMIVGEIRRF-LRDDSPVKVSRSL--KETAYKIQQTRD 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 L A + + IA++L+ S EV++ Sbjct: 129 RLTARLG---REPSINEIAEELSYSREEVVN 156 >gi|312134671|ref|YP_004002009.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311774722|gb|ADQ04209.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 244 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 50/94 (53%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + R G+ L+ +LRLVV IA + + + ++VS G IGL Sbjct: 41 PPLTPDEEAQILYRIHYQGEEELKKLLIERNLRLVVYIARRFENTKVNLEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P + +LATY+ I+ + ++ R+ Sbjct: 101 IKAINTYNPNKNIKLATYASKCIENEILMFLRRN 134 >gi|295092257|emb|CBK78364.1| RNA polymerase sigma factor, sigma-70 family [Clostridium cf. saccharolyticum K10] Length = 220 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 50/183 (27%), Positives = 87/183 (47%), Gaps = 21/183 (11%) Query: 45 GDLSAAHRLVTSHLRLVVKIAM-GYRGYGLP-------ISEVVSEGNIGLMQAVKKFDPE 96 GD +A L+ ++L + KIA+ YR GL + ++V EG+IGL+ A+ FD Sbjct: 16 GDTAARDILLENNLGFIRKIALEQYRSMGLDENDIGIDLDDLVQEGSIGLLNAIPLFDAG 75 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 RG + TY+ I+ AM + I +L + K+ +R+ +L I ++ + Sbjct: 76 RGMKFLTYAAPAIRNAMTDCI--RAALAQFEQRMVDKKNGPGFQRV--YLDDILSDDERM 131 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH---DGQEQ 213 ++ AIA + ++ E L L + DK +++ Q +L+Y + DG E Sbjct: 132 LRIEAIADPHTQTPEQIYIQK------EQLTELYAALDKLTAREQTYLLYRYGFTDGIEH 185 Query: 214 VLI 216 LI Sbjct: 186 PLI 188 >gi|225375310|ref|ZP_03752531.1| hypothetical protein ROSEINA2194_00935 [Roseburia inulinivorans DSM 16841] gi|225212799|gb|EEG95153.1| hypothetical protein ROSEINA2194_00935 [Roseburia inulinivorans DSM 16841] Length = 196 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 24/66 (36%), Positives = 41/66 (62%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GDL A + L+ ++RLV +A Y+ + +++S G IGL++AV+ + + G RLAT Sbjct: 13 NGDLEARNELIERNMRLVAHVAKKYQNPEDEMEDLISIGTIGLIKAVETYKEDYGSRLAT 72 Query: 104 YSMWWI 109 Y+ I Sbjct: 73 YAARCI 78 >gi|159901988|gb|ABX10718.1| RNA polymerase sigma factor [uncultured planctomycete 13FN] Length = 391 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 25/83 (30%), Positives = 50/83 (60%), Gaps = 8/83 (9%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 M+ +++ A++ R+H ++ ++LRLVV IA + + + E++S+GN+ LM Sbjct: 196 MVRTEKDLDDARQVRDH--------IIQANLRLVVSIARRFVTDFISLDELISDGNLILM 247 Query: 88 QAVKKFDPERGFRLATYSMWWIK 110 +AV +F+ GFR +TY+ ++ Sbjct: 248 KAVDRFNFSLGFRFSTYATHAVQ 270 Score = 35.4 bits (80), Expect = 10.0, Method: Compositional matrix adjust. Identities = 18/54 (33%), Positives = 33/54 (61%), Gaps = 3/54 (5%) Query: 232 MSVLNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L+PRE+ I + R + + TL + + +S+ERVRQ++ RA ++V+E Sbjct: 322 VDALSPREQTILDMRLGLKADDGGKTLREVGEKLSISKERVRQLQTRAIEQVRE 375 >gi|225028118|ref|ZP_03717310.1| hypothetical protein EUBHAL_02388 [Eubacterium hallii DSM 3353] gi|224954588|gb|EEG35797.1| hypothetical protein EUBHAL_02388 [Eubacterium hallii DSM 3353] Length = 247 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 24/72 (33%), Positives = 44/72 (61%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ +LRLVV IA + G+ + +++S G IGL++A++ F ++ +LATY+ Sbjct: 64 AKALLIERNLRLVVYIAKKFENTGIGVEDLISIGTIGLIKAIQTFKLDKKIKLATYASRC 123 Query: 109 IKAAMQEYILRS 120 I+ + Y+ R+ Sbjct: 124 IENEILMYLRRT 135 >gi|254382042|ref|ZP_04997404.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] gi|194340949|gb|EDX21915.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] Length = 278 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 60/248 (24%), Positives = 107/248 (43%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+E GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RAYKESGDERLRQQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +R + TY++ I+ AM ++I RS L LRR + Sbjct: 93 IDRSIKFETYAITRIRGAMIDELRALDWIPRSVRQKARAVERAYATLEAQLRRTPTECEV 152 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + E++ + +L++ + V+++ DE L+ D+ S D L Sbjct: 153 ADEMGIAVEELHTVFSQLSL--ANVVAL------DELLHVGGEGGDRLS--LMDTL---E 199 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + + V+ R Sbjct: 200 DTAADNPVEVAEGRELRRLLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESR 257 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 258 VSQIHTKS 265 >gi|253996640|ref|YP_003048704.1| flagellar biosynthesis sigma factor [Methylotenera mobilis JLW8] gi|253983319|gb|ACT48177.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Methylotenera mobilis JLW8] Length = 244 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 63/257 (24%), Positives = 118/257 (45%), Gaps = 30/257 (11%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPER 97 Y HG L+ H LV K+A + P + +++ G +GL+ AV +++ Sbjct: 2 YTAHGKKDQKDVLLDQHAILVKKLAYQLKAKLPPSVELDDLIQAGMMGLLDAVNRYEDTH 61 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKP 156 G + TY+ I+ AM + LRS + N + + + +L+ L Q+ T+N+ Sbjct: 62 GAQFETYAAQRIRGAMLDE-LRSSDWLPRSIRKNMRDVENAISQLEQQLGQSPTEND--- 117 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD----KNSSQWQDWLVYDHDGQ- 211 +AKKLN+S +E M GD S + LI D + + D DHD Sbjct: 118 -----VAKKLNMSLAEYHEM----LGDCSGHQLIYYEDFHEADSGEHFLDRFQTDHDNDP 168 Query: 212 -EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 + +LI + ++ L ++ L RE+ + QE + L+ + + VS RV Sbjct: 169 IKGLLI-----GDFKDALIGAIDSLPEREKILLGLYYEQE--LNLKEIGAVMSVSESRVC 221 Query: 271 QIEARAFKKVQESIQKQ 287 Q+ ++A +++ +++++ Sbjct: 222 QLHSQAVARLRANLREK 238 >gi|126700257|ref|YP_001089154.1| sporulation sigma factor SigE [Clostridium difficile 630] gi|254976236|ref|ZP_05272708.1| sporulation sigma factor SigE [Clostridium difficile QCD-66c26] gi|255093623|ref|ZP_05323101.1| sporulation sigma factor SigE [Clostridium difficile CIP 107932] gi|255101811|ref|ZP_05330788.1| sporulation sigma factor SigE [Clostridium difficile QCD-63q42] gi|255307678|ref|ZP_05351849.1| sporulation sigma factor SigE [Clostridium difficile ATCC 43255] gi|255518036|ref|ZP_05385712.1| sporulation sigma factor SigE [Clostridium difficile QCD-97b34] gi|255651152|ref|ZP_05398054.1| sporulation sigma factor SigE [Clostridium difficile QCD-37x79] gi|255656620|ref|ZP_05402029.1| sporulation sigma factor SigE [Clostridium difficile QCD-23m63] gi|260684218|ref|YP_003215503.1| sporulation sigma factor SigE [Clostridium difficile CD196] gi|260687877|ref|YP_003219011.1| sporulation sigma factor SigE [Clostridium difficile R20291] gi|296449924|ref|ZP_06891688.1| RNA polymerase sigma-E factor [Clostridium difficile NAP08] gi|296878306|ref|ZP_06902314.1| RNA polymerase sigma-E factor [Clostridium difficile NAP07] gi|306521002|ref|ZP_07407349.1| sporulation sigma factor SigE [Clostridium difficile QCD-32g58] gi|115251694|emb|CAJ69529.1| RNA polymerase sigma-E factor [Clostridium difficile] gi|260210381|emb|CBA64762.1| RNA polymerase sigma-E factor [Clostridium difficile CD196] gi|260213894|emb|CBE05927.1| RNA polymerase sigma-E factor [Clostridium difficile R20291] gi|296261194|gb|EFH08025.1| RNA polymerase sigma-E factor [Clostridium difficile NAP08] gi|296430604|gb|EFH16443.1| RNA polymerase sigma-E factor [Clostridium difficile NAP07] Length = 240 Score = 49.7 bits (117), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 29/91 (31%), Positives = 50/91 (54%), Gaps = 2/91 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L+ +EE L ++ D S L+ +LRLVV I+ + G+ + +++S G IGL Sbjct: 38 PPLKPEEEMELLQKL--ETDESVKSILIERNLRLVVYISRKFENTGIDVEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++AV F + +LATY+ I+ + Y+ Sbjct: 96 IKAVNTFKLNKNIKLATYASRCIENEILMYL 126 >gi|289208354|ref|YP_003460420.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thioalkalivibrio sp. K90mix] gi|288943985|gb|ADC71684.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thioalkalivibrio sp. K90mix] Length = 253 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 58/234 (24%), Positives = 108/234 (46%), Gaps = 25/234 (10%) Query: 54 VTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 V H+ LV +IA M + + +++ G IGL++A ++F+ +G ATY+ I+ Sbjct: 23 VAEHIELVHRIAHHLMARLPSSVQVDDLIQAGMIGLLEAARQFEGGQGATFATYAGIRIR 82 Query: 111 AAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 AM + + RS W+ + + N R++ +Q + + + V +A++L V Sbjct: 83 GAMIDELRRSDWT---------PRSVHRNSRKIAEAIQTVEAREGRAARGVEVAEELEVP 133 Query: 170 ESEVISMNCRLAGDESLNAL--INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E SM AG L AL + +D ++ D ++ +GQE E R Sbjct: 134 IDEYYSMLQDHAG-AHLFALDDLGGTDGDA----DRVI---EGQEASPSRTIEAGEFREE 185 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L ++ L RER + ++E + L + + V+ RV QI ++A +++ Sbjct: 186 LAAALGDLPERERLVLSLYYIEE--LNLREIGAVLGVTESRVSQIRSQAVIRLR 237 >gi|251733367|emb|CAR82433.1| RNA polymerase sigma factor [Agrobacterium vitis] Length = 202 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|307718622|ref|YP_003874154.1| hypothetical protein STHERM_c09340 [Spirochaeta thermophila DSM 6192] gi|306532347|gb|ADN01881.1| hypothetical protein STHERM_c09340 [Spirochaeta thermophila DSM 6192] Length = 262 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 55/229 (24%), Positives = 106/229 (46%), Gaps = 22/229 (9%) Query: 61 VVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK G GLP S +++ G GL+ A++KFDPE+ + TY++ I+ A+ + Sbjct: 37 LVKYVAGKIAVGLPSSVEFDDLIGFGTFGLLDAIEKFDPEKHVKFKTYAVTRIRGAIYDE 96 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVIS 175 LR+ V + + L RL+ L +A TD L A+++N+S E+ Sbjct: 97 -LRAMDWVPRSVRQKSREIEDALHRLESSLGRAATDEEL--------AREMNMSSRELQK 147 Query: 176 MNCRLAGDE--SLNALINSSDKNSS-QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 +++ SL L + D+N D L +E+EE K ++ ++ Sbjct: 148 TLQKISSTSILSLQELWYTGDENDRVAIADMLEAPQAYDPAARVEREEIK---RVVAEAI 204 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +E+++ ++ +TL+ + + V+ RV Q+ +A +++ Sbjct: 205 KELPEKEKKVLVLYYYED--LTLKEIGAILNVTESRVSQLHTKAISRLR 251 >gi|302871075|ref|YP_003839711.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302573934|gb|ADL41725.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 256 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 37/180 (20%), Positives = 85/180 (47%), Gaps = 19/180 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y+ + + LV +L + IA + G+ ++ + L+ AV++F+P Sbjct: 18 LFEEYQRTKAIELRNELVNKYLYIAEIIAKKFVNRGIDYDDLYQVACVALINAVERFEPN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +G++ +++ I ++ Y S++++ +RL+ ++K + ++ +P Sbjct: 78 KGYKFTSFATPTIMGEIKRYFRDRASIIRLP-----RRLYETSAKIKLVTEMLSSKLKRP 132 Query: 157 EQVVAIAKKLNVSESEVI------------SMNCRLAGDE--SLNALINSSDKNSSQWQD 202 +V IA+ LN+S EV+ S++ + DE +L ++ SD+N Q ++ Sbjct: 133 PKVEEIAQHLNMSTEEVLEVMEASNSYLPQSLDQTMYEDEEMTLGDVLGKSDENILQIEN 192 >gi|312622917|ref|YP_004024530.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312203384|gb|ADQ46711.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 255 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 26/92 (28%), Positives = 50/92 (54%), Gaps = 1/92 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E+ L KR +E GD A + +LRLV+ + + G + ++ G IG Sbjct: 14 LPVLSHEEKLELLKRMKE-GDKEARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIG 72 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L++A+ FD + + +TY++ I ++ Y+ Sbjct: 73 LIKAIDNFDLSQNVKFSTYAVPMIIGEIRRYL 104 >gi|295109465|emb|CBL23418.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Ruminococcus obeum A2-162] Length = 238 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 59/260 (22%), Positives = 123/260 (47%), Gaps = 33/260 (12%) Query: 34 EYVLAKRYREH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 E LA R H GD A RL + L+ A + G G+ + ++ G+IGL++AV K Sbjct: 3 EDTLALIGRAHQGDKEARERLFHENTGLIYCAAKRFLGRGVDMEDLFQIGSIGLLKAVDK 62 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD + +TY++ I ++ + LR ++K+ + + + + + R + L+ Sbjct: 63 FDTSYDVKFSTYAVPMIIGEIKRF-LRDDGILKVSRSVKENQ--YRIGRKREELEK---- 115 Query: 153 NLKPEQVVAIAKKLNVSE-SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + ++ + E +E + M E L +++++ S +Q ++Y +G Sbjct: 116 --------TLGREPTLGELAESVQMLP-----EELAMTMDAANDVESIYQ--IIYQGEGN 160 Query: 212 EQVLIEK-EERKNRRNMLTRSMSV------LNPRERRIFEARRLQENPVTLENLSSEFEV 264 E L++K E++N + L + + LN ER++ R +E +T ++ EF V Sbjct: 161 ELRLLDKIPEKENLHDRLLNKIFLEELLRSLNAEERKLLYMRYFRE--MTQTEVADEFGV 218 Query: 265 SRERVRQIEARAFKKVQESI 284 S+ ++ ++E + +++ I Sbjct: 219 SQVQISRMEKKILNRLRAII 238 >gi|297562622|ref|YP_003681596.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296847070|gb|ADH69090.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 267 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 64/239 (26%), Positives = 109/239 (45%), Gaps = 28/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G + ++ IGL++++ +FD ERG +TY+ I Sbjct: 46 LVELHLPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFDLERGVEFSTYATPTIVGE 105 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD---NNLKPEQVVAIAKKLN 167 ++ + + W++ R+ L+ LK L +A++D + V +A L Sbjct: 106 IKRHFRDKGWAV----------RVPRRLQELKLSLTKAVSDLSQREGRSPTVAELAAHLQ 155 Query: 168 VSESEVISMNCRLAGDESLNALINSS-DKNSSQWQDW-LVYDHDGQEQVLIEKEERKNRR 225 ++E EV L G ES NA S D S +D V D G ++ E E R Sbjct: 156 MTEEEV------LEGLESANAYSTVSLDAPDSGDEDAPAVADSLG---IVDESLEGVEYR 206 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L + L PRE+RI R +T ++ E +S+ V ++ AR ++++++ Sbjct: 207 ESLKPLLEQLPPREKRILLLRFF--GNMTQSQIAQELGISQMHVSRLLARTLAQLRQAL 263 >gi|217077805|ref|YP_002335523.1| RNA polymerase sigma factor for flagellar operon [Thermosipho africanus TCF52B] gi|217037660|gb|ACJ76182.1| RNA polymerase sigma factor for flagellar operon [Thermosipho africanus TCF52B] Length = 226 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 21/68 (30%), Positives = 43/68 (63%), Gaps = 3/68 (4%) Query: 53 LVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV+ +L + KIA + + + + +++ EG + +QA++KFDP++G +L +Y + + Sbjct: 7 LVSEYLPYIKKIAYDLKRNLPHNVEVDDLIQEGLVAFIQAIEKFDPKKGAKLRSYLLTRV 66 Query: 110 KAAMQEYI 117 K AM +Y+ Sbjct: 67 KGAMYDYL 74 >gi|256273|gb|AAC60417.1| RpoD4 [Synechococcus] Length = 48 Score = 49.7 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 18/41 (43%), Positives = 31/41 (75%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++ EG++GL +AV+KFDP G++ +TY+ WWI+ +M I Sbjct: 2 DLIQEGSLGLERAVEKFDPALGYKFSTYAYWWIRQSMTRAI 42 >gi|162463525|ref|NP_001105185.1| sigma factor protein [Zea mays] gi|20159761|gb|AAM12034.1| sigma factor protein [Zea mays] Length = 568 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 21/62 (33%), Positives = 35/62 (56%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+ + LV IA Y G G + +++ G +G++ +KFD +G R +TY +WI+ Sbjct: 334 RLLVTTEWLVRCIARTYTGMGTALDDLLQAGKMGVLDGAEKFDSRKGCRFSTYVKYWIRK 393 Query: 112 AM 113 M Sbjct: 394 GM 395 >gi|326791410|ref|YP_004309231.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium lentocellum DSM 5427] gi|326542174|gb|ADZ84033.1| RNA polymerase, sigma 28 subunit, SigE [Clostridium lentocellum DSM 5427] Length = 251 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 28/99 (28%), Positives = 54/99 (54%), Gaps = 5/99 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDL-----SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 P L + EE +L ++ E + + L+ +LRLVV IA + G+ + +++S Sbjct: 42 PPLSRDEEEILIQKLIEFAEQEEEIKAIKTTLIERNLRLVVYIARKFENTGIYMEDLISI 101 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 G IGL++++ F P + +LATY+ I+ + ++ R+ Sbjct: 102 GTIGLIKSINTFKPCKKIKLATYASRCIENEILMFLRRT 140 >gi|312110136|ref|YP_003988452.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y4.1MC1] gi|311215237|gb|ADP73841.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y4.1MC1] Length = 236 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 47/84 (55%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+EE L + GD A + L+ +LRLV I + G + +++S G IGL Sbjct: 30 PLSAKEEEKYL--QLMAKGDEQARNILIEHNLRLVAHIVKKFENTGEDVEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ + +G +LATY+ I+ Sbjct: 88 IKAIESYSSNKGTKLATYAARCIE 111 >gi|196038743|ref|ZP_03106051.1| RNA polymerase sigma-F factor [Bacillus cereus NVH0597-99] gi|196030466|gb|EDX69065.1| RNA polymerase sigma-F factor [Bacillus cereus NVH0597-99] Length = 252 Score = 49.7 bits (117), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 50/190 (26%), Positives = 92/190 (48%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ QE L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDQELKALIQKSQD-GDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R+++ Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMR 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEFGRAPTINEVAEALELTPEEVV-LAQEASRAPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D++ ++W D Sbjct: 183 ADQSETKWFD 192 >gi|2529267|gb|AAB81186.1| sigma factor [Paenibacillus polymyxa] Length = 251 Score = 49.3 bits (116), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 58/255 (22%), Positives = 115/255 (45%), Gaps = 44/255 (17%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A L+ S++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDNDARETLINSNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKSVDKFDLSYEVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFNLRRLKGHLQAITDNNLKP-- 156 TY++ I +Q + LR +K+ TAN+ +R++K L KP Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSLKETANK------VRKMKDELS-------KPLN 131 Query: 157 --EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ--- 211 V +A +L V+ +V+ ++K + + V+++DG Sbjct: 132 RLPTVKEVADELGVTPEDVV--------------FAQEANKPPTSIHE-TVFENDGDPIT 176 Query: 212 --EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 +Q+ E +ER + L ++ L+ RER I R ++ T ++S +S+ +V Sbjct: 177 LMDQIADESQERWFDKLALNEAIDGLSERERLIVYLRYYRDQ--TQSEVASRLGISQVQV 234 Query: 270 RQIEARAFKKVQESI 284 ++E + +++++ I Sbjct: 235 SRLEKKILQQIRDQI 249 >gi|251733365|emb|CAR82432.1| RNA polymerase sigma factor [Agrobacterium rubi] Length = 202 Score = 49.3 bits (116), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|21104386|dbj|BAB93463.1| putative rpoD gene [Variovorax sp. WFF52] gi|21104388|dbj|BAB93464.1| putative rpoD gene [Leptothrix discophora] gi|21104390|dbj|BAB93465.1| putative rpoD gene [Sphaerotilus natans] Length = 47 Score = 49.3 bits (116), Expect = 6e-04, Method: Composition-based stats. Identities = 22/46 (47%), Positives = 32/46 (69%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 LV+ IA Y GL +++ EGNIGLM+AV KF+ RG++ +TY+ Sbjct: 1 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 46 >gi|251733361|emb|CAR82430.1| RNA polymerase sigma factor [Agrobacterium tumefaciens] Length = 202 Score = 49.3 bits (116), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 35/90 (38%), Positives = 52/90 (57%), Gaps = 15/90 (16%) Query: 10 VNGEIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 ++ E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Sbjct: 126 LSTETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKK 172 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 Y GL +++ EGNIGLM+AV KF+ R Sbjct: 173 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|157692844|ref|YP_001487306.1| sporulation sigma factor SigF [Bacillus pumilus SAFR-032] gi|194016850|ref|ZP_03055463.1| RNA polymerase sigma-F factor [Bacillus pumilus ATCC 7061] gi|157681602|gb|ABV62746.1| DNA-directed RNA polymerase sigma subunit SigF [Bacillus pumilus SAFR-032] gi|194011456|gb|EDW21025.1| RNA polymerase sigma-F factor [Bacillus pumilus ATCC 7061] Length = 255 Score = 49.3 bits (116), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 55/239 (23%), Positives = 108/239 (45%), Gaps = 18/239 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 27 QDGDQQARDLLVEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K L +RR + L + ++ + V I Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRARDEL---SKSHGRMPTVQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A+ L+++ +V+ + S++ + +D + D + DH EER Sbjct: 141 AEYLDITPEDVVLAQEAVRTPSSIHETVYENDGDPITLLDQIA-DH---------SEERW 190 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L ++ L RE+ I R ++ T ++ +S+ +V ++E + K++Q Sbjct: 191 FDKIALKEAIKELEEREKLIVYLRYYKDQ--TQSEVAERLGISQVQVSRLEKKILKQIQ 247 >gi|108804196|ref|YP_644133.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765439|gb|ABG04321.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 258 Score = 49.3 bits (116), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 26/98 (26%), Positives = 50/98 (51%), Gaps = 1/98 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P +K L +RY GD A +++ L L +A + G G P+ ++V ++GL Sbjct: 6 PRPDKARTRRLLERYHREGDRQAREQVIQEQLPLAEFLARKFAGRGEPLEDLVQVASVGL 65 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSL 123 ++AV +FD +R +TY+ I ++ + + W++ Sbjct: 66 IKAVDRFDVDRNIEFSTYATPNILGEIKRHFRDKGWAM 103 >gi|299472120|emb|CBN77105.1| RNA polymerase sigma factor [Ectocarpus siliculosus] Length = 555 Score = 49.3 bits (116), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 21/66 (31%), Positives = 41/66 (62%), Gaps = 4/66 (6%) Query: 49 AAHRLVTSHLRLVVKIAMGYR----GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 A R+V +++ L+V +A + G S+V+ EG++ +++A + FDP G+R +TY Sbjct: 240 AQERIVGANVGLIVVMARRHHPATMARGTITSDVIQEGSLAVLRAAETFDPRLGYRFSTY 299 Query: 105 SMWWIK 110 + WW++ Sbjct: 300 AGWWVR 305 >gi|225375609|ref|ZP_03752830.1| hypothetical protein ROSEINA2194_01234 [Roseburia inulinivorans DSM 16841] gi|225212588|gb|EEG94942.1| hypothetical protein ROSEINA2194_01234 [Roseburia inulinivorans DSM 16841] Length = 259 Score = 49.3 bits (116), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 57/259 (22%), Positives = 124/259 (47%), Gaps = 19/259 (7%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L++ E+ L R R+ GD A + +LRLV+ + + G + ++ G I Sbjct: 15 KLPILKETEKEALFARIRQ-GDQEAREMYIKGNLRLVLSVIKRFSGSHENLDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++++ F+P+ + +TY++ I ++ Y LR + +++ + L + Sbjct: 74 GLIKSIDNFNPDLQVKFSTYAVPMIIGEIRRY-LRDNNSIRVS-----RSLRDTAYKAIH 127 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + ++ N+ K + IA++ V+ ++ L +++ + ++ D + D L Sbjct: 128 AKEVLSKNSFKEPTLQEIAEESGVAAEDI------LYALDAIQSPVSLYDPVYTDGGDTL 181 Query: 205 -VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 V D ++ KEE + L+ +M+ L+ RE I R E +E ++ E Sbjct: 182 YVMDQISDKK---NKEENWVEKLSLSDAMNHLSERENFIINLRFF-EGKTQME-VADEIH 236 Query: 264 VSRERVRQIEARAFKKVQE 282 +S+ +V ++E A K +++ Sbjct: 237 ISQAQVSRLEKSALKTIRQ 255 >gi|317497563|ref|ZP_07955881.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] gi|316895122|gb|EFV17286.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] Length = 215 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 29/98 (29%), Positives = 52/98 (53%), Gaps = 1/98 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L ++E+ L +R E GDL A + +LRLV+ I + G ++ G IG Sbjct: 29 LPLLSEEEKEDLFERI-EQGDLLAREHYIKGNLRLVLSIIQRFSGSSENADDLFQVGCIG 87 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 LM+A+ FD + +TY++ I ++ Y+ + S+ Sbjct: 88 LMKAIDNFDRNLNVKFSTYAVPMIIGEVKRYLRDNHSM 125 >gi|150390630|ref|YP_001320679.1| sporulation sigma factor SigG [Alkaliphilus metalliredigens QYMF] gi|149950492|gb|ABR49020.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 257 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 61/269 (22%), Positives = 115/269 (42%), Gaps = 49/269 (18%) Query: 36 VLAKRYREH-------GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 VL Y H GD SA + +LRLV+ + + G + ++ G IGL++ Sbjct: 18 VLKNDYMRHLFGLIKQGDNSAREEFIQGNLRLVLSVIQRFNNRGEHVDDLFQVGCIGLIK 77 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 A+ FD R +TY++ I ++ Y LR + +++ + + + +++ L Sbjct: 78 AIDNFDLRHNVRFSTYAVPMIIGEIRRY-LRDNNSIRVSRSL--RDTAYKALQVRDQL-- 132 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL---- 204 T+ K V IA LN+ +V+ +L+A+ QD + Sbjct: 133 -TNQKSKEPSVAEIAANLNIPREDVVF---------ALDAI-----------QDPVSLFE 171 Query: 205 -VYDHDGQEQVLIEKEERKNRRN--------MLTRSMSVLNPRERRIFEARRLQENPVTL 255 +Y HD + + + + R + L +M LN RE+ I R E + Sbjct: 172 PIY-HDSGDAIFVMDQIRDEKSEDETWIDGIALREAMRRLNNREKHILNLRFF-EGRTQM 229 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESI 284 E ++ E +S+ +V ++E A K ++++I Sbjct: 230 E-VADEIGISQAQVSRLEKTALKHMRKNI 257 >gi|303239292|ref|ZP_07325820.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302593078|gb|EFL62798.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 236 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 33/95 (34%), Positives = 48/95 (50%), Gaps = 2/95 (2%) Query: 16 LSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+ + P L EE K +E GD A + L+ +LRLV I Y Sbjct: 19 LFGYVSNVNSFPQPLSPDEEQHYIKLLKE-GDEEARNILIERNLRLVAHIVKKYNATIGD 77 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 +++S G IGL++A+ F+ E+G RLATY+ I Sbjct: 78 CDDLISIGTIGLIKAIATFNHEKGTRLATYAARCI 112 >gi|251733405|emb|CAR82452.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733407|emb|CAR82453.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733425|emb|CAR82462.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733427|emb|CAR82463.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733429|emb|CAR82464.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733431|emb|CAR82465.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733433|emb|CAR82466.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733435|emb|CAR82467.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733437|emb|CAR82468.1| RNA polymerase sigma factor [Ensifer adhaerens] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|251733387|emb|CAR82443.1| RNA polymerase sigma factor [Sinorhizobium kostiense] gi|251733389|emb|CAR82444.1| RNA polymerase sigma factor [Sinorhizobium kostiense] gi|251733391|emb|CAR82445.1| RNA polymerase sigma factor [Sinorhizobium kostiense] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|121488757|emb|CAJ18263.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 163 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 17/46 (36%), Positives = 33/46 (71%) Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 EGN+GL++A K+FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 1 EGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 46 >gi|292905274|ref|YP_003541145.1| sigma-70 region 2-containing protein [Anabaena variabilis ATCC 29413] gi|75705012|gb|ABA24687.1| Sigma-70 region 2 [Anabaena variabilis ATCC 29413] Length = 240 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 24/91 (26%), Positives = 47/91 (51%), Gaps = 1/91 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR-GYGLPISEVVSEGNIGLMQAVKKFDP 95 L + YR + R+ H +L +IA YR P+ +++ +G++ A+++FDP Sbjct: 5 LFREYRNNPTRQLRDRIFNHHYKLACEIAHQYRICCDEPLEDLIQLAGVGMLTAIERFDP 64 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 R ++++ +IK ++ Y+ S VKI Sbjct: 65 SRSNAFSSFACPYIKGEIRHYLRDKASTVKI 95 >gi|118443097|ref|YP_878334.1| sporulation sigma factor SigG [Clostridium novyi NT] gi|118133553|gb|ABK60597.1| Specialized DNA-dependent RNA polymerase sigma subunit [Clostridium novyi NT] Length = 256 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 62/278 (22%), Positives = 128/278 (46%), Gaps = 53/278 (19%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E L + ++ GD + + V +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLKEKEMKELLLKMKD-GDNLSREKFVRGNLRLVLSVIQRFNNRGENVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 73 GLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRS---------LRDIAY 122 Query: 145 HLQAITDNNLKPE----QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 + D +K E V IAK+L++ EV+ +L+A+ Sbjct: 123 KALQVRDKIIKKENKDPNVSRIAKELDLPREEVVF---------ALDAI----------- 162 Query: 201 QDWL-----VYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRERRIFEAR 246 QD + +Y HDG + + + ++ + +N+ + +M LN RE+ I R Sbjct: 163 QDPVSLFEPIY-HDGGDALYV-MDQISDSKNVDESWIENISIKEAMKRLNEREKMILNMR 220 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 Q T ++ E +S+ +V ++E A K +++ + Sbjct: 221 FFQGR--TQMEVADEIGISQAQVSRLEKTALKHMRKYV 256 >gi|308172341|ref|YP_003919046.1| RNA polymerase sigma-37 factor sigma B [Bacillus amyloliquefaciens DSM 7] gi|307605205|emb|CBI41576.1| RNA polymerase sigma-37 factor (sigma(B)) [Bacillus amyloliquefaciens DSM 7] gi|328552153|gb|AEB22645.1| RNA polymerase sigma factor SigB [Bacillus amyloliquefaciens TA208] gi|328910426|gb|AEB62022.1| RNA polymerase sigma-37 factor (sigma(B)) [Bacillus amyloliquefaciens LL3] Length = 262 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 64/263 (24%), Positives = 124/263 (47%), Gaps = 18/263 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GN 83 K L K E L ++ H + A LV + LV +A Y G E + + G Sbjct: 6 KTTKLTKDEVDRLILDFQIHDNKEAQETLVEVYTNLVEMLAKKY-SKGKSFHEDLRQVGM 64 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRL 142 IGL+ A+K++DPE G +++ I ++ ++ ++WS+ +R+ R+ Sbjct: 65 IGLLGAIKRYDPEVGKSFEAFAIPTIIGEIKRFLRDKTWSV------HVPRRIKELGPRI 118 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQ 201 K + +T + +V IA L+VSE EV+ + +S AL ++ S + + Sbjct: 119 KMAVDQLTTETQRSPKVEEIAAFLDVSEEEVLET---MEMGKSYQALSVDHSIEADADGS 175 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 + D G ++ E ER N++ M+ + VL+ RE++I + +Q + + Sbjct: 176 TVTILDIVGSQE---EGYERVNQQMMIKSVLHVLSDREKQIIDLTFVQNK--SQKETGDI 230 Query: 262 FEVSRERVRQIEARAFKKVQESI 284 +S+ V +++ +A KK++E++ Sbjct: 231 LGISQMHVSRLQRKAVKKLREAL 253 >gi|251733373|emb|CAR82436.1| RNA polymerase sigma factor [Sinorhizobium arboris LMG 14919] gi|251733375|emb|CAR82437.1| RNA polymerase sigma factor [Sinorhizobium arboris] gi|251733377|emb|CAR82438.1| RNA polymerase sigma factor [Sinorhizobium arboris] gi|251733393|emb|CAR82446.1| RNA polymerase sigma factor [Sinorhizobium medicae] gi|251733395|emb|CAR82447.1| RNA polymerase sigma factor [Sinorhizobium medicae] gi|251733397|emb|CAR82448.1| RNA polymerase sigma factor [Sinorhizobium medicae] gi|251733399|emb|CAR82449.1| RNA polymerase sigma factor [Sinorhizobium meliloti] gi|251733401|emb|CAR82450.1| RNA polymerase sigma factor [Sinorhizobium meliloti] gi|251733403|emb|CAR82451.1| RNA polymerase sigma factor [Sinorhizobium meliloti] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|257457436|ref|ZP_05622606.1| RNA polymerase sigma-D factor [Treponema vincentii ATCC 35580] gi|257445165|gb|EEV20238.1| RNA polymerase sigma-D factor [Treponema vincentii ATCC 35580] Length = 262 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 56/229 (24%), Positives = 102/229 (44%), Gaps = 22/229 (9%) Query: 61 VVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK G G+P ++V G GL+ A+ K+DPE+ + TY++ I+ A+ + Sbjct: 37 LVKYVAGKVAVGMPNNVEFDDLVGYGVFGLLDAIDKYDPEKNVKFNTYAVTRIRGAIFDE 96 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVIS 175 LRS V + + + L+ L A TD+ IA+ L +S E Sbjct: 97 -LRSIDWVPRSVRQQSREIEEVIADLEARLGHAATDSE--------IAEALGMSVEEFHQ 147 Query: 176 MNCRLAGDE--SLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + +++G SL L + D + D + V++E+EE K ++ ++ Sbjct: 148 VLLKISGTSIISLTDLRFGADDSEQTPVADSIEAPTSLNPDVIVEREEMK---RIIVDAI 204 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L RE+++ ++ +TL + EV+ RV QI A K++ Sbjct: 205 NELPDREKKVLIMYYYED--MTLREIGKVLEVTESRVSQIHTSANLKLK 251 >gi|260438829|ref|ZP_05792645.1| RNA polymerase sigma-G factor [Butyrivibrio crossotus DSM 2876] gi|292808819|gb|EFF68024.1| RNA polymerase sigma-G factor [Butyrivibrio crossotus DSM 2876] Length = 260 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 28/102 (27%), Positives = 57/102 (55%), Gaps = 2/102 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L + + +GD +A R + +LRLV+ + + G G + ++ G I Sbjct: 15 KLPLLSTKEKEELIIKVK-NGDKAARERYIKCNLRLVLSVVKRFSGNGENMDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GL++A+ FD + +TY++ I ++ + LR S +++ Sbjct: 74 GLIKAIDNFDMSLNVKFSTYAVPMIIGEIRRF-LRDNSQIRV 114 >gi|295836278|ref|ZP_06823211.1| RNA polymerase sigma-27 factor [Streptomyces sp. SPB74] gi|197697357|gb|EDY44290.1| RNA polymerase sigma-27 factor [Streptomyces sp. SPB74] Length = 279 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 59/250 (23%), Positives = 106/250 (42%), Gaps = 34/250 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPE 96 Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD E Sbjct: 37 YKTTGDARLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFDIE 95 Query: 97 RGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFN----LRRLKGHLQAIT 150 R + TY++ I+ AM E W + A N +R + LRR + Sbjct: 96 RSIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYATLEAKLRRTPSEAEVAR 155 Query: 151 DNNLKPEQVVAIAKKLN----VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + + E + A+ +L+ V+ E++S+ G S+ + +D ++ Sbjct: 156 EMGVGVEDLHAVFSQLSLANVVALEELLSVGSEGGGRLSIMDTLEDTDADNP-------- 207 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 +E E + R +L+R+++ L RE+ + + +TL + V+ Sbjct: 208 ---------VEVAEGRELRRLLSRAINSLPEREKTVVMLYYYE--GLTLAEIGHVLGVTE 256 Query: 267 ERVRQIEARA 276 RV QI ++ Sbjct: 257 SRVSQIHTKS 266 >gi|149175161|ref|ZP_01853784.1| sigma-70 factor [Planctomyces maris DSM 8797] gi|148846139|gb|EDL60479.1| sigma-70 factor [Planctomyces maris DSM 8797] Length = 349 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 32/114 (28%), Positives = 57/114 (50%), Gaps = 29/114 (25%) Query: 26 IPMLEKQEEYVL----------AKRYREHGDLSA---------------AHRL----VTS 56 +P+L+K++E +L A++ + DL + A RL + + Sbjct: 114 VPLLDKEQEVILFRGMNYLKYRAEKLKSQIDLKSPCIGLLDRIEQKLKDARRLRNYIIQA 173 Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +LRLVV IA ++VS+G++ L++AV+ FD +RG R +TY W ++ Sbjct: 174 NLRLVVSIAKNLTDRANLFEDIVSDGHLPLIRAVEIFDVDRGNRFSTYGTWAVR 227 >gi|323705266|ref|ZP_08116841.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323535168|gb|EGB24944.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 231 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 39/67 (58%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A + L+ +LRLV + Y G + +++S G IGL++A+ +D +G LA Sbjct: 45 KNGDEEAKNILIERNLRLVAHVVKKYSNAGKDVDDLISIGTIGLIKAILTYDSSKGTHLA 104 Query: 103 TYSMWWI 109 TY+ I Sbjct: 105 TYAARCI 111 >gi|251733351|emb|CAR82425.1| RNA polymerase sigma factor [Mesorhizobium loti] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 32/49 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 154 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|251733349|emb|CAR82424.1| RNA polymerase sigma factor [Sinorhizobium americanum] gi|251733415|emb|CAR82457.1| RNA polymerase sigma factor [Sinorhizobium terangae] gi|251733417|emb|CAR82458.1| RNA polymerase sigma factor [Sinorhizobium terangae] gi|251733419|emb|CAR82459.1| RNA polymerase sigma factor [Sinorhizobium terangae] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|328948392|ref|YP_004365729.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Treponema succinifaciens DSM 2489] gi|328448716|gb|AEB14432.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Treponema succinifaciens DSM 2489] Length = 262 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 59/256 (23%), Positives = 120/256 (46%), Gaps = 21/256 (8%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGN 83 +L++ EE L Y++ ++ RL+ ++ LV +A G G+P S ++V G Sbjct: 5 ILDENEEAELWHEYKKSKSVAIRDRLIRQYMPLVKWVA-GRVSTGMPDSVEFDDLVGFGQ 63 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 GL+ A+ KFD ++G + TY+ I+ A+ + LR V + + + L+ Sbjct: 64 FGLLDAINKFDIDKGVKFKTYATTRIRGAIFDE-LRELDWVPRSVRQKSREIEDTIVELE 122 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSS-QW 200 L + IAK +N++E+E S +++G SLN + S D++ Sbjct: 123 SKLGRTASD-------AEIAKAMNMTEAEYQSAVMKVSGTSVLSLNDVWYSGDESEHVSI 175 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D + + V++E+EE R ++ ++++ L P+ ++ E+ ++ + + Sbjct: 176 GDSIEAPNSLNPDVIVEREE---IRRVIIQAINEL-PKNEKMVIVLYYHED-LSFKEIGQ 230 Query: 261 EFEVSRERVRQIEARA 276 VS R+ Q+ ++A Sbjct: 231 VLNVSESRISQLHSKA 246 >gi|251733409|emb|CAR82454.1| RNA polymerase sigma factor [Sinorhizobium saheli] gi|251733411|emb|CAR82455.1| RNA polymerase sigma factor [Sinorhizobium saheli] gi|251733413|emb|CAR82456.1| RNA polymerase sigma factor [Sinorhizobium saheli] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|251733363|emb|CAR82431.1| RNA polymerase sigma factor [Agrobacterium rhizogenes] gi|251733369|emb|CAR82434.1| RNA polymerase sigma factor [Rhizobium tropici] gi|251733371|emb|CAR82435.1| RNA polymerase sigma factor [Rhizobium tropici] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--ISEFRRIVHMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|327537603|gb|EGF24315.1| RNA polymerase ECF-type sigma factor [Rhodopirellula baltica WH47] Length = 340 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 55/230 (23%), Positives = 98/230 (42%), Gaps = 66/230 (28%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V ++LRLV I + +++S+G + L++AV+KFD +RGFR +TY+ ++ Sbjct: 164 RIVEANLRLVFSIVKKFVNPNNTFDDLLSDGIVALIRAVEKFDFDRGFRFSTYATQVVRR 223 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 S+ V + QK ++G LQ + ++VSE Sbjct: 224 -------NSYRTVVLKQQERQK--------VQGGLQDM---------------DIDVSEE 253 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 E SS + +W H+ + ++ + + R + R+ Sbjct: 254 E------------------RSSAISEKRW-------HELRSRLSVMLGDLDRREKFIIRA 288 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L P R++ TL++L+ VS+ERVRQ+E RA K++ Sbjct: 289 RFSLGP-HRKVH----------TLQSLADRLGVSKERVRQLERRAMDKLR 327 >gi|251733379|emb|CAR82439.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733381|emb|CAR82440.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733383|emb|CAR82441.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733385|emb|CAR82442.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733421|emb|CAR82460.1| RNA polymerase sigma factor [Sinorhizobium xinjiangense] gi|251733423|emb|CAR82461.1| RNA polymerase sigma factor [Sinorhizobium xinjiangense] Length = 202 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--IAEFRRIVSMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|126698826|ref|YP_001087723.1| sporulation sigma factor SigK [Clostridium difficile 630] gi|26000675|gb|AAN75197.1| sigma K [Clostridium difficile] gi|26000677|gb|AAN75198.1| sigma K [Clostridium difficile] Length = 213 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 26/82 (31%), Positives = 46/82 (56%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE +++ D SA L+ ++RLV IA Y +++S G IGL++ Sbjct: 11 LTPEEEIEYLTKFKIENDKSAKDTLIERNMRLVAYIAKKYNNSTEDQDDLISIGTIGLIK 70 Query: 89 AVKKFDPERGFRLATYSMWWIK 110 A++ ++ ++G RLATY+ I+ Sbjct: 71 AIETYNIDKGTRLATYASRCIE 92 >gi|284043274|ref|YP_003393614.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] gi|283947495|gb|ADB50239.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] Length = 258 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 40/137 (29%), Positives = 65/137 (47%), Gaps = 9/137 (6%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E+ L +R+ E D A L+ + LV +A Y G P+ ++ G +GL++AV + Sbjct: 16 DEHELLRRWHEERDEDARRALIERMMPLVRSLARRYANRGEPLDDLEQVGCVGLIKAVDR 75 Query: 93 FDPERGFRLATYSMWWIKAAMQEYIL-RSWSL-VKIGTTANQKRLFFNLRRLK---GHLQ 147 FD R R +T+++ I ++ + R+WS+ V G R+ RL G Sbjct: 76 FDLSRELRFSTFAVPTILGEIKRHFRDRAWSVRVSRGLQELSARVTREADRLSTKLGRSP 135 Query: 148 AITD----NNLKPEQVV 160 I D N PEQV+ Sbjct: 136 TIEDLAEATNSTPEQVL 152 >gi|255655251|ref|ZP_05400660.1| sporulation sigma factor SigK [Clostridium difficile QCD-23m63] gi|296451236|ref|ZP_06892976.1| RNA polymerase sigma-E factor [Clostridium difficile NAP08] gi|296880412|ref|ZP_06904375.1| RNA polymerase sigma-E factor [Clostridium difficile NAP07] gi|296259842|gb|EFH06697.1| RNA polymerase sigma-E factor [Clostridium difficile NAP08] gi|296428653|gb|EFH14537.1| RNA polymerase sigma-E factor [Clostridium difficile NAP07] Length = 138 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 26/82 (31%), Positives = 46/82 (56%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L +EE +++ D SA L+ ++RLV IA Y +++S G IGL++ Sbjct: 11 LTPEEEIEYLTKFKIENDKSAKDTLIERNMRLVAYIAKKYNNSTEDQDDLISIGTIGLIK 70 Query: 89 AVKKFDPERGFRLATYSMWWIK 110 A++ ++ ++G RLATY+ I+ Sbjct: 71 AIETYNIDKGTRLATYASRCIE 92 >gi|239827600|ref|YP_002950224.1| sporulation sigma factor SigF [Geobacillus sp. WCH70] gi|239807893|gb|ACS24958.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. WCH70] Length = 250 Score = 49.3 bits (116), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 57/259 (22%), Positives = 116/259 (44%), Gaps = 29/259 (11%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 ++ QE L +R +E GD A ++ ++RLV + + G ++ G IGL++ Sbjct: 12 IKDQEMKELIRRSQE-GDQEARDEIIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLK 70 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +V KFD + +TY++ I +Q +I R VK+ + K + +R+ K L Sbjct: 71 SVDKFDLSYDVKFSTYAVPMIIGEIQRFI-RDDGTVKVSRSL--KEMGNKIRKAKDEL-- 125 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + V IA L +S +V+ + S++ VY++ Sbjct: 126 -SKKQGRAPTVTEIADYLEISPEDVVLAQEAIRSPASIHE---------------TVYEN 169 Query: 209 DGQEQVLIEKEERKNR-----RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 DG L+++ + + L +++ L+ RER I R ++ T ++S Sbjct: 170 DGDPITLLDQIADSDEVSWFDKIALKKAIEELDERERLIVYLRYYKDQ--TQSEVASRLG 227 Query: 264 VSRERVRQIEARAFKKVQE 282 +S+ +V ++E + ++++E Sbjct: 228 ISQVQVSRLEKKILQQIKE 246 >gi|295696440|ref|YP_003589678.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] gi|295412042|gb|ADG06534.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] Length = 256 Score = 49.3 bits (116), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 58/246 (23%), Positives = 111/246 (45%), Gaps = 22/246 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV + RLV + + G G ++ G IGLM+A+ KFD + + Sbjct: 27 QSGDAGARETLVLFNQRLVWSVVQRFLGRGYEPEDLFQIGCIGLMKAIDKFDLSYDVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR VK+ + K ++RR + L + + + Sbjct: 87 TYAVPMIIGEIQRF-LRDDGTVKVSRSV--KETARHIRRARDELAKRLG---RQPHINEL 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A++L + +EV+ + S++ + +D + D Q+ E++E+ Sbjct: 141 AEELGMDPAEVVFTQDAMRAPASIHETVFENDGDPILLMD----------QIADEEQEKW 190 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R LT +++ L RER I R ++ T ++ +S+ +V ++E KK+ Sbjct: 191 FDRLALTDALNRLPERERLIVFLRFFRDK--TQSEVAEVLGISQVQVSRLE----KKILN 244 Query: 283 SIQKQV 288 I++Q+ Sbjct: 245 RIRRQL 250 >gi|298708236|emb|CBJ48299.1| rpoD [Ectocarpus siliculosus] Length = 381 Score = 49.3 bits (116), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 27/80 (33%), Positives = 46/80 (57%), Gaps = 2/80 (2%) Query: 49 AAHRLVTSHLRLVVKIAMGYR--GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A L H LV +A Y+ L + ++ EGN+GL++AV+KFD +G R ++Y++ Sbjct: 113 AQRTLALCHQGLVRSVAYRYKQVSRNLSLDDLTQEGNVGLLEAVEKFDSTKGTRFSSYAV 172 Query: 107 WWIKAAMQEYILRSWSLVKI 126 + IKA++ I LV++ Sbjct: 173 FRIKASVLRAIADKDRLVRV 192 >gi|296133019|ref|YP_003640266.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola sp. JR] gi|296031597|gb|ADG82365.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola potens JR] Length = 262 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 47/182 (25%), Positives = 83/182 (45%), Gaps = 25/182 (13%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKK 92 L R+++ DL+A +L+ + LV +A G LP + +++S G GL+ A++K Sbjct: 13 LWDRFKKERDLAAREQLILKYAPLVKYVA-GRLAISLPPNVQQDDLISYGIFGLIDAIEK 71 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+PER + TY++ IK A+ + LRS + K L RL+ L Sbjct: 72 FEPERNIKFETYAISRIKGAIWDG-LRSMDWIPYSIRQKAKELEETYARLENELG----- 125 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 +P + + L +++ + S L + S +L++ +D V+D DG Sbjct: 126 --RPATDEEMCETLGITKQQFYS----LLQETSCTSLLS--------LEDLFVFDRDGTN 171 Query: 213 QV 214 V Sbjct: 172 GV 173 >gi|261416067|ref|YP_003249750.1| putative RNA polymerase, sigma 70 family subunit [Fibrobacter succinogenes subsp. succinogenes S85] gi|261372523|gb|ACX75268.1| putative RNA polymerase, sigma 70 family subunit [Fibrobacter succinogenes subsp. succinogenes S85] gi|302327561|gb|ADL26762.1| sigma-70 factor family protein [Fibrobacter succinogenes subsp. succinogenes S85] Length = 376 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 75/299 (25%), Positives = 131/299 (43%), Gaps = 43/299 (14%) Query: 1 MNRKNMSIIVNGEIG----LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTS 56 +N K+ S I + I L +I +RKI +K+E + + E G A R + Sbjct: 70 VNYKDFSCIFDAVIAAEPLLENFIEYVRKIQPADKKEMVRIQYQLFE-GHEYARKRAIEG 128 Query: 57 HLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 +LR+ V +A YR Y I + + E + L+ A + P+ A+Y I A+ Sbjct: 129 NLRIAVILA--YRESVAYNKNIVDCIGEACLALVSACNSYKPDEHQTFASY----ISIAV 182 Query: 114 QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL-KPEQVVAIAKKLNVSE-- 170 +Y+ R+ + N L R+L + I N L K + ++ + + E Sbjct: 183 FDYLARTIGVPFFSIPVNIVNL---CRKL---YKDIKYNRLGKKDALLYVCSCYGLEEYW 236 Query: 171 SEVIS--MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE---ERKNRR 225 S V+ ++ ++ L+ ++++ VY E L + E ERKN + Sbjct: 237 SNVLYDILHVFFLDEDVLDNVLDN------------VYSESCYENFLTDVENDIERKNVQ 284 Query: 226 NMLTRSMS-VLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ R ++ L RE + E R ++ +L L S VSRER+RQIE +A K++ Sbjct: 285 ILINRCLNECLTDREYNVVEHRYGLNGKDSHSLVELGSHQVVSRERIRQIEKKALTKLE 343 >gi|167464139|ref|ZP_02329228.1| DNA-directed RNA polymerase sigma subunit D [Paenibacillus larvae subsp. larvae BRL-230010] gi|322382365|ref|ZP_08056272.1| RNA polymerase sigma factor SigD-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321153718|gb|EFX46093.1| RNA polymerase sigma factor SigD-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 262 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 50/174 (28%), Positives = 86/174 (49%), Gaps = 18/174 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKK 92 L K ++E G L A L+ +L LV ++ GLP ++ S G +GLM AV+K Sbjct: 14 LWKAWKEAGCLEAKQSLLEQYLPLVDYVS-SRMSNGLPRNVAKEDLASFGVLGLMDAVEK 72 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAITD 151 FD RG + TY+ W I A+ + LR V K++ ++L+ H L+ +TD Sbjct: 73 FDHTRGLQFETYASWRILGAVIDG-LRQGDWVPRSLREKAKKIEDAYQKLEQHYLRTVTD 131 Query: 152 NNL------KPEQVVAIAKKLNVSESEVISMNCRLAGDES---LNALINSSDKN 196 + + E+ + +++NV + + S++ + +ES L+ LI+ KN Sbjct: 132 AEISEYLGVEEEEFRQMLQEINV--TSICSVDDPIKEEESETRLSLLIDEKAKN 183 >gi|156636391|gb|ABU92466.1| RpoD [Vibrio vulnificus] Length = 202 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 32/49 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 154 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|212638845|ref|YP_002315365.1| sporulation sigma factor SigF [Anoxybacillus flavithermus WK1] gi|212560325|gb|ACJ33380.1| Stage II sporulation protein AC, DNA-directed RNA polymerase sporulation-specific sigma factor (sigma-F) [Anoxybacillus flavithermus WK1] Length = 247 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 54/242 (22%), Positives = 109/242 (45%), Gaps = 19/242 (7%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + GD A ++ ++RLV + + G ++ G IGLM++V KFD Sbjct: 20 RRSQQGDQQARDEIIEKNMRLVWSVVQRFLNRGYEPEDLFQIGCIGLMKSVDKFDLSYDV 79 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY++ I +Q +I R VK+ + K + +R+ K L + N + V Sbjct: 80 KFSTYAVPMILGEIQRFI-RDDGSVKVSRSL--KEIGNKIRKAKDEL---SKQNGRVPTV 133 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IA+ L +S +V+ + S++ + +D + D + + D V +K Sbjct: 134 NEIAQFLQISPEDVVLAQEAVRSPTSIHETVYENDGDPITLLDQIADEQD----VWFDK- 188 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 L ++M L+ RER I R ++ T +++ +S+ +V ++E + ++ Sbjct: 189 ------IALKKAMEELDERERLIVYLRYYKDQ--TQSEVAARLGISQVQVSRLEKKILQQ 240 Query: 280 VQ 281 ++ Sbjct: 241 MK 242 >gi|156636373|gb|ABU92457.1| RpoD [Vibrio vulnificus] gi|156636375|gb|ABU92458.1| RpoD [Vibrio vulnificus] gi|156636377|gb|ABU92459.1| RpoD [Vibrio vulnificus] gi|156636379|gb|ABU92460.1| RpoD [Vibrio vulnificus] gi|156636381|gb|ABU92461.1| RpoD [Vibrio vulnificus] gi|156636383|gb|ABU92462.1| RpoD [Vibrio vulnificus] gi|156636385|gb|ABU92463.1| RpoD [Vibrio vulnificus] gi|156636387|gb|ABU92464.1| RpoD [Vibrio vulnificus] gi|156636389|gb|ABU92465.1| RpoD [Vibrio vulnificus] gi|156636393|gb|ABU92467.1| RpoD [Vibrio vulnificus] gi|156636397|gb|ABU92469.1| RpoD [Vibrio vulnificus] gi|156636399|gb|ABU92470.1| RpoD [Vibrio vulnificus] gi|156636401|gb|ABU92471.1| RpoD [Vibrio vulnificus] gi|156636403|gb|ABU92472.1| RpoD [Vibrio vulnificus] gi|156636405|gb|ABU92473.1| RpoD [Vibrio vulnificus] gi|156636407|gb|ABU92474.1| RpoD [Vibrio vulnificus] gi|156636409|gb|ABU92475.1| RpoD [Vibrio vulnificus] gi|156636411|gb|ABU92476.1| RpoD [Vibrio vulnificus] gi|156636413|gb|ABU92477.1| RpoD [Vibrio vulnificus] gi|156636415|gb|ABU92478.1| RpoD [Vibrio vulnificus] gi|156636417|gb|ABU92479.1| RpoD [Vibrio vulnificus MO6-24/O] gi|156636419|gb|ABU92480.1| RpoD [Vibrio vulnificus] gi|156636421|gb|ABU92481.1| RpoD [Vibrio vulnificus] gi|156636423|gb|ABU92482.1| RpoD [Vibrio vulnificus] gi|156636425|gb|ABU92483.1| RpoD [Vibrio vulnificus] gi|156636427|gb|ABU92484.1| RpoD [Vibrio vulnificus] gi|156636429|gb|ABU92485.1| RpoD [Vibrio vulnificus] gi|156636435|gb|ABU92488.1| RpoD [Vibrio vulnificus] gi|156636437|gb|ABU92489.1| RpoD [Vibrio vulnificus] gi|156636439|gb|ABU92490.1| RpoD [Vibrio vulnificus] gi|156636441|gb|ABU92491.1| RpoD [Vibrio vulnificus] gi|156636443|gb|ABU92492.1| RpoD [Vibrio vulnificus] gi|156636445|gb|ABU92493.1| RpoD [Vibrio vulnificus] gi|156636447|gb|ABU92494.1| RpoD [Vibrio vulnificus] Length = 202 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 32/49 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 154 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|258515964|ref|YP_003192186.1| RNA polymerase, sigma 28 subunit, SigK [Desulfotomaculum acetoxidans DSM 771] gi|257779669|gb|ACV63563.1| RNA polymerase, sigma 28 subunit, SigK [Desulfotomaculum acetoxidans DSM 771] Length = 234 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 34/103 (33%), Positives = 55/103 (53%), Gaps = 3/103 (2%) Query: 9 IVNGEIGLSRYI-HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 +VNG + L YI + P+ E++E L + GD A + L +LRLV I Sbjct: 13 VVNGLLLLVSYIANNTFPQPLSEEEEAKYLQLLF--EGDEHARNVLTERNLRLVAHIVKK 70 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + +++S G IGL++AV ++PE+G +LATY+ I+ Sbjct: 71 FDKTVGDTDDLISIGTIGLIKAVNTYNPEKGTKLATYAARCIE 113 >gi|156636431|gb|ABU92486.1| RpoD [Vibrio vulnificus] Length = 202 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 32/49 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 154 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|251733359|emb|CAR82429.1| RNA polymerase sigma factor [Rhizobium leguminosarum] Length = 202 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--ISEFRRIVHMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|251733357|emb|CAR82428.1| RNA polymerase sigma factor [Rhizobium giardinii] Length = 202 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 35/87 (40%), Positives = 50/87 (57%), Gaps = 15/87 (17%) Query: 13 EIGLSRYIHEIRKI-PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG 70 E G+S I E R+I M++K E E +AK+ +V ++LRLV+ IA Y Sbjct: 129 ETGIS--ISEFRRIVHMVQKGEREARIAKK-----------EMVEANLRLVISIAKKYTN 175 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPER 97 GL +++ EGNIGLM+AV KF+ R Sbjct: 176 RGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|167630136|ref|YP_001680635.1| RNA polymerase sigma-g factor, putative [Heliobacterium modesticaldum Ice1] gi|167592876|gb|ABZ84624.1| RNA polymerase sigma-g factor, putative [Heliobacterium modesticaldum Ice1] Length = 265 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 61/269 (22%), Positives = 125/269 (46%), Gaps = 35/269 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L + + G+ SA +L++ +LRLV+ + + G + ++ G I Sbjct: 23 KLPVLTNAEMRTLFQAM-QSGERSAREKLISGNLRLVLSVIQRFTNRGEYVDDLFQVGCI 81 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 82 GLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRD 138 Query: 145 HLQAITDNNLKPEQVVA-IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 HL N L E V IA L EV+ +L+A+ + S ++ Sbjct: 139 HLV----NELSREPTVTEIADALGFPREEVVF---------ALDAI----QEPISLFEP- 180 Query: 204 LVYDHDGQEQVLIEKE--ERKNRRNMLTRSMSV------LNPRERRIFEARRLQENPVTL 255 +Y HDG + + + + + KN+ ++V LN RE+ I R + T Sbjct: 181 -IY-HDGGDPIFVMDQIGDEKNQDAQWLEGIAVREALRRLNDREKLILTLRFFEGK--TQ 236 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++ E +S+ +V ++E A +++ + Sbjct: 237 MEVADEIGISQAQVSRLEKAALTHMRKHV 265 >gi|257054261|ref|YP_003132093.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] gi|256584133|gb|ACU95266.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 267 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 54/235 (22%), Positives = 100/235 (42%), Gaps = 18/235 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT HL L IA + G G+ ++V +GL+ AV +FDP RG ++++ + Sbjct: 42 RLVTGHLPLAEHIAQRFSGRGVAKEDLVQVARVGLINAVDRFDPSRGSDFLSFAVPTVMG 101 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + ++++ K L ++ L P + IA L ++ Sbjct: 102 EVRRHFRDTGWVIRV--PRRLKELHLSINNASTQLSQRLGRAPTPSE---IADHLGLTLE 156 Query: 172 EVISMNCRLAGDESLNALINSS--DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV G E+ NA + S + S+ ++ + D G+E + E L Sbjct: 157 EVFE------GLEAGNAYHSMSLDEVLSADTENLALGDTLGEEDAALAGVENHETLQPLV 210 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + + P R A R N +T ++ +S+ V ++ AR KK++E + Sbjct: 211 KQL----PERERTILALRFVHN-MTQTQIAERIGISQMHVSRLLARTLKKLREGL 260 >gi|76664996|emb|CAJ17940.1| DNA-directed RNA polymerase sigma subunit [Candidatus Phytoplasma solani] Length = 110 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 24/49 (48%), Positives = 33/49 (67%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A LV S+ RLVV IA Y G G+ +++ EGN+GLM+AV KFD ++ Sbjct: 62 AKDSLVESNYRLVVSIAKRYIGRGILFLDLIQEGNMGLMRAVDKFDYQK 110 >gi|32471396|ref|NP_864389.1| RNA polymerase sigma 70 [Rhodopirellula baltica SH 1] gi|32443237|emb|CAD72068.1| probable RNA polymerase sigma 70 [Rhodopirellula baltica SH 1] Length = 340 Score = 48.9 bits (115), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 55/230 (23%), Positives = 98/230 (42%), Gaps = 66/230 (28%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V ++LRLV I + +++S+G + L++AV+KFD +RGFR +TY+ ++ Sbjct: 164 RIVEANLRLVFSIVKKFVNPNNTFDDLLSDGIVALIRAVEKFDFDRGFRFSTYATQVVRR 223 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 S+ V + QK ++G LQ + ++VSE Sbjct: 224 -------NSYRTVVLKQQERQK--------VQGGLQDM---------------DIDVSEE 253 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 E SS + +W H+ + ++ + + R + R+ Sbjct: 254 E------------------RSSAISEKRW-------HELRSRLSVMLGDLDRREKFIIRA 288 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L P R++ TL++L+ VS+ERVRQ+E RA K++ Sbjct: 289 RFSLGP-HRKVH----------TLQSLADRLGVSKERVRQLERRAMDKLR 327 >gi|256379368|ref|YP_003103028.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Actinosynnema mirum DSM 43827] gi|255923671|gb|ACU39182.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Actinosynnema mirum DSM 43827] Length = 268 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 61/244 (25%), Positives = 113/244 (46%), Gaps = 34/244 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT HL + IA + G P ++V +GL+ AV +FDPERG ++++ I Sbjct: 49 LVTEHLPVARHIARRFGHRGEPHDDLVQVATVGLINAVDRFDPERGSDFLSFAVPTIMGE 108 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 +++Y SWS V++ RRLK AI + + Q + A + S Sbjct: 109 VRKYFRDSSWS-VRMP------------RRLKELHLAINAGSARLSQELGRAP----TPS 151 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD--------GQEQVLIEK-EERK 222 E ++ + L+ +E L + +S+ D LV D G+E +E E+R+ Sbjct: 152 E-LAQHLGLSREEVHEGLAAGNAYHSASLDDLLVADDSSISLGSTLGEEDPELEAIEQRE 210 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + +L + L RERRI R +T ++ + +S+ V ++ A+ +++++ Sbjct: 211 SLHPLLEK----LPERERRIVVMRFFGN--MTQTQIAQKVGISQMHVSRLLAKTLRQLRD 264 Query: 283 SIQK 286 +++ Sbjct: 265 GLEQ 268 >gi|159469913|ref|XP_001693104.1| predicted protein [Chlamydomonas reinhardtii] gi|158277362|gb|EDP03130.1| predicted protein [Chlamydomonas reinhardtii] Length = 525 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 27/103 (26%), Positives = 52/103 (50%), Gaps = 5/103 (4%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 Y L + ++ G GLM+ + KF P+ G+RL+TY WWI+ ++++ + R + +++ + Sbjct: 153 YELAFEDALTAGMEGLMRGIHKFRPDSGYRLSTYCTWWIRMSIRKTLSRQSTALQLPLSV 212 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 Q RL+ +T P A+A +L S + + Sbjct: 213 LQSVEALVSARLR-----LTKPGASPPTDEAVAAELGWSMTRI 250 >gi|295399044|ref|ZP_06809026.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|312110351|ref|YP_003988667.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y4.1MC1] gi|294978510|gb|EFG54106.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|311215452|gb|ADP74056.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y4.1MC1] Length = 250 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 58/259 (22%), Positives = 116/259 (44%), Gaps = 19/259 (7%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 R +L+ E L +R +E GD A + ++ ++RLV + + G ++ G Sbjct: 7 RDQTLLKDHEMKKLIRRSQE-GDQQARNEIIQKNMRLVWSVVQRFLNRGYEPDDLFQIGC 65 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q +I R VK+ + K +R+ + Sbjct: 66 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFI-RDDGTVKVSRSL--KETGNKIRKAR 122 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 L + + + V IA L +S EV+ + S++ + +D + D Sbjct: 123 DEL---SKKHGRAPTVTEIADYLEISPEEVVLAQEAVRSPASIHETVYENDGDPITLLDQ 179 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + D E +K L +++ L+ RER I R ++ T ++S Sbjct: 180 IA---DADEASWFDK-------IALKKAIEELDERERLIVYLRYYKDQ--TQSEVASRLG 227 Query: 264 VSRERVRQIEARAFKKVQE 282 +S+ +V ++E + ++++E Sbjct: 228 ISQVQVSRLEKKILQQIKE 246 >gi|226325489|ref|ZP_03801007.1| hypothetical protein COPCOM_03294 [Coprococcus comes ATCC 27758] gi|225206232|gb|EEG88586.1| hypothetical protein COPCOM_03294 [Coprococcus comes ATCC 27758] Length = 239 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 57/251 (22%), Positives = 120/251 (47%), Gaps = 19/251 (7%) Query: 34 EYVLAKRYREH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 ++ +A R H GD +A +LV + L+ + + G G ++ G+IGL++A+ K Sbjct: 2 DHTIALIRRAHEGDENARAQLVEENTGLIWCVVKRFYGRGTEAEDLFQIGSIGLLKAIDK 61 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 FD + +TY++ I ++ + LR ++K+ + + K + + + K +A+T+ Sbjct: 62 FDLGYDVKFSTYAVPMITGEIKRF-LRDDGMLKV--SRSLKEIAYKAYQAK---EALTEK 115 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGD-ESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + + IA++ V + E++ M AG+ ESL+ + D N + + D G Sbjct: 116 LGREPLLEEIAEETGVEKEELV-MAMEAAGEVESLHRPVGMKDGNEVMLLEKIA-DTGGA 173 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 E+ +++ +LT + L ER++ R + T + E +S+ +V + Sbjct: 174 EEKILD-------HLLLTELIKELKKDERKLLYLRYFADKTQT--EIGEELGISQVQVSR 224 Query: 272 IEARAFKKVQE 282 +E + K ++E Sbjct: 225 MEKKILKTMRE 235 >gi|156636395|gb|ABU92468.1| RpoD [Vibrio vulnificus] gi|156636449|gb|ABU92495.1| RpoD [Vibrio vulnificus] gi|156636451|gb|ABU92496.1| RpoD [Vibrio vulnificus] gi|156636453|gb|ABU92497.1| RpoD [Vibrio vulnificus] gi|156636459|gb|ABU92500.1| RpoD [Vibrio vulnificus] gi|156636463|gb|ABU92502.1| RpoD [Vibrio vulnificus] gi|156636465|gb|ABU92503.1| RpoD [Vibrio vulnificus] gi|156636467|gb|ABU92504.1| RpoD [Vibrio vulnificus] gi|156636469|gb|ABU92505.1| RpoD [Vibrio vulnificus] gi|156636471|gb|ABU92506.1| RpoD [Vibrio vulnificus] gi|156636473|gb|ABU92507.1| RpoD [Vibrio vulnificus] gi|156636477|gb|ABU92509.1| RpoD [Vibrio vulnificus] gi|156636479|gb|ABU92510.1| RpoD [Vibrio vulnificus] gi|156636481|gb|ABU92511.1| RpoD [Vibrio vulnificus] gi|156636483|gb|ABU92512.1| RpoD [Vibrio vulnificus] gi|156636485|gb|ABU92513.1| RpoD [Vibrio vulnificus] gi|156636487|gb|ABU92514.1| RpoD [Vibrio vulnificus] gi|156636489|gb|ABU92515.1| RpoD [Vibrio vulnificus] gi|156636491|gb|ABU92516.1| RpoD [Vibrio vulnificus] gi|156636493|gb|ABU92517.1| RpoD [Vibrio vulnificus] Length = 202 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 32/49 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 154 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|320007063|gb|ADW01913.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 297 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 63/244 (25%), Positives = 109/244 (44%), Gaps = 26/244 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISE-VVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A + L+ +L LV A +R G +E ++ G IGL++A+ +FD R AT+++ Sbjct: 68 ARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREVEFATFAVP 127 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 +I ++ + +WS + + L L + K L D + V +A L Sbjct: 128 YIVGEIKRFFRDTTWS---VHVPRRLQELRVELAKAKEQLSTKLDRD---PTVAELAAHL 181 Query: 167 NVSESEVI----SMNCRLAGDESLNALINSSDKNSSQ--WQDWLVYDHDGQEQVLIEKEE 220 ++ E E+I + N AG SL+ SD S Q + D L D G E V Sbjct: 182 DLPEEEIIEGLVAANGYSAG--SLDTPNADSDSGSEQRAYADLLGEDDPGMESV------ 233 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L + L+ RER+I R QE +T + +E VS+ V ++ +R +++ Sbjct: 234 --ENLHTLAPLLRQLDDRERKIVRMRFGQE--MTQAQIGAELGVSQMHVSRLLSRIVQRL 289 Query: 281 QESI 284 + + Sbjct: 290 RAGM 293 >gi|261417856|ref|YP_003251538.1| sporulation sigma factor SigF [Geobacillus sp. Y412MC61] gi|297529524|ref|YP_003670799.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|319767332|ref|YP_004132833.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y412MC52] gi|261374313|gb|ACX77056.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y412MC61] gi|297252776|gb|ADI26222.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|317112198|gb|ADU94690.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y412MC52] Length = 252 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 56/256 (21%), Positives = 114/256 (44%), Gaps = 19/256 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 ++ QE L +R +E GD A ++ ++RLV + + G ++ G IGL++ Sbjct: 14 IKDQEMKELIRRSQE-GDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLK 72 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +V KFD + +TY++ I +Q + LR VK+ + K + +R+ K L Sbjct: 73 SVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSL--KEMGNKIRKAKDEL-- 127 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + V IA L +S +V+ + S++ + +D + D + Sbjct: 128 -SKTRGRAPTVTEIADHLGISPEDVVLAQEAVRSPTSIHETVYENDGDPITLLDQIA--- 183 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D E +K L +++ L+ RER I R ++ T ++S +S+ + Sbjct: 184 DADEASWFDK-------IALKKAIEELDERERLIVYLRYYKDQ--TQSEVASRLGISQVQ 234 Query: 269 VRQIEARAFKKVQESI 284 V ++E + + +++ + Sbjct: 235 VSRLEKKILQHIKDKM 250 >gi|147678180|ref|YP_001212395.1| sporulation sigma factor SigG [Pelotomaculum thermopropionicum SI] gi|146274277|dbj|BAF60026.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] Length = 257 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 26/93 (27%), Positives = 50/93 (53%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + L + + GD SA +L+ +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTGSQMKALFEAMHK-GDASARTKLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD + + +TY++ I ++ Y+ Sbjct: 74 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYL 106 >gi|331698492|ref|YP_004334731.1| RNA polymerase sigma 28 subunit FliA/WhiG [Pseudonocardia dioxanivorans CB1190] gi|326953181|gb|AEA26878.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pseudonocardia dioxanivorans CB1190] Length = 429 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 10/78 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ +H +V+ GLP +S++V G GL+ A+ +FDP RG R TY+ Sbjct: 206 LLVAHYGPLVRAVAARMAVGLPASVEVSDLVQAGVFGLLDAIARFDPTRGIRFETYAAQR 265 Query: 109 IKAAM------QEYILRS 120 I+ AM Q+++ R+ Sbjct: 266 IRGAMLDELRAQDWVPRT 283 >gi|160942608|ref|ZP_02089853.1| hypothetical protein FAEPRAM212_00082 [Faecalibacterium prausnitzii M21/2] gi|158446087|gb|EDP23090.1| hypothetical protein FAEPRAM212_00082 [Faecalibacterium prausnitzii M21/2] Length = 234 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 29/68 (42%), Positives = 39/68 (57%), Gaps = 4/68 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS--EVVSEGNIGLMQAVKKFDPERGFRLA 102 GD +A +L+ +LRLV I Y Y LP ++VS G IGLM+AV FD R R + Sbjct: 51 GDAAAREKLIRHNLRLVAHIVKKY--YALPGDQEDLVSIGTIGLMKAVDTFDATRKARFS 108 Query: 103 TYSMWWIK 110 TY+ I+ Sbjct: 109 TYASRCIE 116 >gi|156636433|gb|ABU92487.1| RpoD [Vibrio vulnificus] gi|156636455|gb|ABU92498.1| RpoD [Vibrio vulnificus] gi|156636457|gb|ABU92499.1| RpoD [Vibrio vulnificus] gi|156636461|gb|ABU92501.1| RpoD [Vibrio vulnificus] gi|156636475|gb|ABU92508.1| RpoD [Vibrio vulnificus] gi|156636495|gb|ABU92518.1| RpoD [Vibrio vulnificus] gi|156636497|gb|ABU92519.1| RpoD [Vibrio vulnificus] gi|156636499|gb|ABU92520.1| RpoD [Vibrio vulnificus] gi|156636501|gb|ABU92521.1| RpoD [Vibrio vulnificus] Length = 202 Score = 48.9 bits (115), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 32/49 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 154 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 202 >gi|225850934|ref|YP_002731168.1| RNA polymerase sigma-D factor (Sigma-28) [Persephonella marina EX-H1] gi|225645790|gb|ACO03976.1| RNA polymerase sigma-D factor (Sigma-28) [Persephonella marina EX-H1] Length = 241 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 53/231 (22%), Positives = 106/231 (45%), Gaps = 50/231 (21%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 ++++ G +GL+ A+ K+DP +G +L+TY+ I+ + + SL K+ Sbjct: 39 DLINTGVLGLIDAINKYDPSKGVKLSTYAEIRIRGQIID------SLRKLDWVPR----- 87 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVA-------IAKKLN------------VSESEVISMN 177 N+R+ H++A L+ EQ + IA+ L +S S +IS++ Sbjct: 88 -NVRQKARHIEAAI---LEVEQKLGREATPEEIAEYLGMDVEEYMKYAEKISNSGLISID 143 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 + DE D N+ WQ ++ +D +E+EE K +++ +S LN Sbjct: 144 TTVGSDE---------DANTKLWQ--IISINDDTPDKYVEEEELK---KIISDIISKLNE 189 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RER + +E ++++ + ++ R+ QI + K++ I+K + Sbjct: 190 RERLVITLYYYEE--LSMKEIGEVLGLTESRISQIHTKTMMKIKSMIKKYI 238 >gi|160933635|ref|ZP_02081023.1| hypothetical protein CLOLEP_02489 [Clostridium leptum DSM 753] gi|156867512|gb|EDO60884.1| hypothetical protein CLOLEP_02489 [Clostridium leptum DSM 753] Length = 217 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 1/74 (1%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + S++ LV A +RG G+ ++V G +GL++AV FD RG + +TY++ I M Sbjct: 8 IESNMGLVHACAKRFRGRGIEYDDLVQAGCLGLVKAVDHFDEGRGLQFSTYAVPVILGEM 67 Query: 114 QEYILRSWSLVKIG 127 + + R +K+G Sbjct: 68 RR-LFRDGGAIKVG 80 >gi|302537203|ref|ZP_07289545.1| RNA polymerase sigma-G factor [Streptomyces sp. C] gi|302446098|gb|EFL17914.1| RNA polymerase sigma-G factor [Streptomyces sp. C] Length = 278 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 62/246 (25%), Positives = 113/246 (45%), Gaps = 16/246 (6%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVK 91 VL + Y++ GD +L+ H +VK G GLP ++ VS G GL+ A++ Sbjct: 31 VLWRSYKDSGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIE 89 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAIT 150 KFD ER + TY++ I+ AM + LR+ + + + L+ L + T Sbjct: 90 KFDIERSIKFETYAITRIRGAMIDE-LRALDWIPRSVRQKARAVERAYATLEAQLRRTPT 148 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + + E +A+ ++L+ S+ +S+ +A +E L+ D+ S D L D Sbjct: 149 EGEVAGEMGIAV-EELHTVFSQ-LSLANVVALEELLHVGGEGGDRLS--LMDTL---EDT 201 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +E E + R +L R+++ L RE+ + + +TL + + V+ RV Sbjct: 202 AADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYEG--LTLAEIGNVLGVTESRVS 259 Query: 271 QIEARA 276 QI ++ Sbjct: 260 QIHTKS 265 >gi|15613848|ref|NP_242151.1| sporulation sigma factor SigK [Bacillus halodurans C-125] gi|10173901|dbj|BAB05004.1| RNA polymerase sigma factor (sigma K) precursor [Bacillus halodurans C-125] Length = 235 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 1/82 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K+EE KR E GD A +RL+ +LRLV I + +++S G IGL++ Sbjct: 31 LSKEEERHYLKRMAE-GDEEARNRLIEHNLRLVAHIVKKFENTREHTEDLISIGTIGLIK 89 Query: 89 AVKKFDPERGFRLATYSMWWIK 110 A++ F +G +LATY+ I+ Sbjct: 90 AIESFSEGKGTKLATYAARCIE 111 >gi|158341591|ref|YP_001522756.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] gi|158311832|gb|ABW33441.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] Length = 423 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 1/79 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A R + + RLV A YRG + ++V+ G +GL A++KFD RGF+ +TY Sbjct: 32 GDRRAEDRFIRKNQRLVFNEAKRYRGL-VDWDDLVNAGTLGLSIAIQKFDLSRGFQFSTY 90 Query: 105 SMWWIKAAMQEYILRSWSL 123 ++ I+ +++ I L Sbjct: 91 AVKPIRTEIRQLICEQRGL 109 >gi|239982297|ref|ZP_04704821.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|291454142|ref|ZP_06593532.1| sigma factor [Streptomyces albus J1074] gi|291357091|gb|EFE83993.1| sigma factor [Streptomyces albus J1074] Length = 298 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 60/235 (25%), Positives = 107/235 (45%), Gaps = 28/235 (11%) Query: 61 VVKIAMG---YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +V+ A G +RG G + ++V G IGL++A+ +FD R T+++ +I ++ + Sbjct: 77 LVRYAAGRFRHRGPG-EMEDIVQVGTIGLIKAIDRFDLSREVEFTTFAVPYIVGEIKRFF 135 Query: 118 L-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--- 173 SW+ + + L ++ + K L A D + V +A KL +E EV Sbjct: 136 RDTSWA---VHVPRRLQELRVDMAKAKESLAAELD---REPTVKELAAKLERTEEEVVEG 189 Query: 174 -ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRNMLT 229 ++ N AG SL+ S D N + + D G Q L+E + L Sbjct: 190 LVAANGYTAG--SLDVPTESGDDNRAGGSPRSLADTLGAPDPAQELVED------LHALA 241 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+ RERRI E R QE +T + +E +S+ V ++ +R +++ + Sbjct: 242 PLLETLDERERRIVEMRFGQE--LTQSQIGAELGISQMHVSRLLSRILTRLRSGM 294 >gi|294631664|ref|ZP_06710224.1| RNA polymerase sigma factor WhiG [Streptomyces sp. e14] gi|292834997|gb|EFF93346.1| RNA polymerase sigma factor WhiG [Streptomyces sp. e14] Length = 280 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 63/245 (25%), Positives = 101/245 (41%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 36 RSYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 95 IDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEARL-RR 147 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL--INSSDKNSSQWQDWLVYDHDGQ 211 E VA + V E + LA +L L + D + + D L D Sbjct: 148 TPTETEVAGEMGIAVDELHAVFSQLSLANVVALEELLHVGGEDGDGLSFMDTL---EDTA 204 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 205 ADNPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQ 262 Query: 272 IEARA 276 I ++ Sbjct: 263 IHTKS 267 >gi|327439575|dbj|BAK15940.1| DNA-directed RNA polymerase specialized sigma subunit [Solibacillus silvestris StLB046] Length = 233 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 29/84 (34%), Positives = 47/84 (55%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++EE V+ + + GD SA L+ ++RLV + + + + +S G IGL Sbjct: 30 PLSREEEEEVINRFIK--GDESARVELIERNMRLVAHVVKKFHPSHDLLDDYISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 M+AV F PE+ RLATY+ I+ Sbjct: 88 MKAVSSFTPEKKTRLATYAARCIE 111 Score = 37.4 bits (85), Expect = 2.9, Method: Compositional matrix adjust. Identities = 31/94 (32%), Positives = 44/94 (46%), Gaps = 6/94 (6%) Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN-- 251 D S Q +D L D E IEK ER+ L R + L+PRE I R +N Sbjct: 139 DGQSLQIRDLLQLD----EPSTIEKIERQEDFAQLYRYLDTLDPRELEIISYRYGLQNFD 194 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 P T + ++ +SR V +IE RA K+ + + Sbjct: 195 PHTQKEIAKRLNISRSYVSRIEKRALIKLYQQFK 228 >gi|238917256|ref|YP_002930773.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] gi|238872616|gb|ACR72326.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] Length = 258 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 58/270 (21%), Positives = 127/270 (47%), Gaps = 45/270 (16%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ + L + + GD A + +LRLV+ I + G + ++ G IG Sbjct: 16 LPLLKPAQAKELLVKIK-SGDTQARETFIKGNLRLVLSIVQRFSQSGENLDDLFQIGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 +++A+ FD + +TY++ I ++ + LR S +++ R LK Sbjct: 75 MIKAIDNFDISLNVQFSTYAVPMIIGEIKRF-LRDNSTIRVS------------RSLKDT 121 Query: 146 -LQAITD------NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 +AIT NLK + IA+++ +S+++++ +L A+ S S Sbjct: 122 AYKAITTRETLMKKNLKEPSITEIAEEIGISKADIVI---------ALEAVTPS----IS 168 Query: 199 QWQDWLVYDHDGQEQVLIEK-EERKNRRNMLTRSMSV------LNPRERRIFEARRLQEN 251 ++ V++ G +I++ +++KN + R++++ L+PRER+I R + Sbjct: 169 LYEP--VFNDGGDTLYVIDQVKDKKNTEDRWVRNIALQEAINRLSPRERQIIILRFF--D 224 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T ++ +S+ +V ++E A + ++ Sbjct: 225 CLTQTEVAKGLGISQAQVSRLEKCALRDMK 254 >gi|332799375|ref|YP_004460874.1| RNA polymerase sigma-28 subunit SigK [Tepidanaerobacter sp. Re1] gi|332697110|gb|AEE91567.1| RNA polymerase, sigma 28 subunit, SigK [Tepidanaerobacter sp. Re1] Length = 240 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 27/80 (33%), Positives = 46/80 (57%), Gaps = 3/80 (3%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E++++Y+L GD A + L+ +LRLV I + G + +++S G IGL++A Sbjct: 39 EEEKKYIL---LYSKGDEEARNILIEHNLRLVAHIVKKFASTGEDMDDLISIGTIGLIKA 95 Query: 90 VKKFDPERGFRLATYSMWWI 109 + F+ +G RLATY+ I Sbjct: 96 ISTFNYSKGSRLATYAARCI 115 >gi|182435659|ref|YP_001823378.1| RNA polymerase sigma factor WhiG [Streptomyces griseus subsp. griseus NBRC 13350] gi|326776293|ref|ZP_08235558.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces cf. griseus XylebKG-1] gi|178464175|dbj|BAG18695.1| putative RNA polymerase sigma factor WhiG [Streptomyces griseus subsp. griseus NBRC 13350] gi|326656626|gb|EGE41472.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces cf. griseus XylebKG-1] Length = 278 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 110/248 (44%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RSYKTTGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFNL----RRLKGHLQA 148 ER + TY++ I+ AM E W + A N +R + L RR + Sbjct: 93 IERAIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYATLEAQFRRTPSEAEV 152 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 ++ + E++ A+ +L++ + V+++ +E L+ D+ S D L Sbjct: 153 ASEMGIALEELHAVFSQLSL--ANVVAL------EELLHVGGEGGDRLS--LMDTL---E 199 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + + V+ R Sbjct: 200 DTAADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYEG--LTLAEIGNVLGVTESR 257 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 258 VSQIHTKS 265 >gi|146295966|ref|YP_001179737.1| sporulation sigma factor SigE [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409542|gb|ABP66546.1| RNA polymerase, sigma 29 subunit, SigE [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 246 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 54/94 (57%), Gaps = 1/94 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E +L K + E + LV +LRLVV IA + + + ++VS G IGL Sbjct: 44 PLTPEEESEILNKIHYERRE-ELKKVLVERNLRLVVYIARKFENTKINLEDLVSIGTIGL 102 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P++ +LATY+ I+ + ++ R+ Sbjct: 103 IKAINTYNPDKNIKLATYASKCIENEILMFLRRN 136 >gi|311068942|ref|YP_003973865.1| sporulation sigma factor SigF [Bacillus atrophaeus 1942] gi|310869459|gb|ADP32934.1| sporulation sigma factor SigF [Bacillus atrophaeus 1942] Length = 255 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 59/250 (23%), Positives = 110/250 (44%), Gaps = 29/250 (11%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L KR ++ GD A L+ ++RLV + + G ++ G IGL+++V KFD Sbjct: 22 LIKRSQD-GDQQARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 R +TY++ I +Q +I R VK+ + K L +RR K L + + Sbjct: 81 YDVRFSTYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRAKDEL---SKTYGRV 134 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ----- 211 V IA+ L + +V+ + S++ VY++DG Sbjct: 135 PTVQEIAEHLEIDAEDVVLAQEAVRAPSSIHE---------------TVYENDGDPITLL 179 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +Q+ EE+ + L ++S L RE+ I R ++ T ++ +S+ +V + Sbjct: 180 DQIADHSEEKWFDKIALKEAISDLEEREKLIVYLRYYKDQ--TQSEVAERLGISQVQVSR 237 Query: 272 IEARAFKKVQ 281 +E + K+++ Sbjct: 238 LEKKILKQIK 247 >gi|158341138|ref|YP_001522305.1| hypothetical protein AM1_E0222 [Acaryochloris marina MBIC11017] gi|158311379|gb|ABW32991.1| hypothetical protein AM1_E0222 [Acaryochloris marina MBIC11017] Length = 427 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 67/261 (25%), Positives = 120/261 (45%), Gaps = 42/261 (16%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 ++Q +Y L + + GDL A R + + LV + A +RG ++V+ GN+GL A Sbjct: 18 DRQSQYTLIIQA-QAGDLRARDRFIRQNEGLVFQQAHKFRGLA-DWDDLVNAGNLGLAIA 75 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILR--------SWSLVKIGTTANQKRLFFNLRR 141 ++KFD +G++ ++Y++ I+ ++ I S L +I + R+ +L R Sbjct: 76 IQKFDVAKGYKFSSYAVKVIRTEIRRLIHEFKGISIEISLHLKEIEQASQAIRM--DLDR 133 Query: 142 LKGHLQAITDNNLKPEQVVAIA-KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 + + ++D +QV+ A K NV E+ S+N L D+ L Sbjct: 134 -EPTITELSDETGYSQQVIFNAWNKANVVETA--SLNIPLNDDQGCEQL----------- 179 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D G + E E +++N + + L RE I A+R + + + + + Sbjct: 180 ------DVIGVDDRTWEFTETLDQKNYIAQ----LPDREAFIVRAKR---DGFSNKEIGT 226 Query: 261 EFEVSRERVRQI--EARAFKK 279 +S ERVRQ+ +ARAF K Sbjct: 227 MLSLSGERVRQLLKQARAFLK 247 >gi|210617641|ref|ZP_03291672.1| hypothetical protein CLONEX_03896 [Clostridium nexile DSM 1787] gi|210149188|gb|EEA80197.1| hypothetical protein CLONEX_03896 [Clostridium nexile DSM 1787] Length = 237 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 52/195 (26%), Positives = 90/195 (46%), Gaps = 19/195 (9%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R GD A +LV ++ L+ I + G G ++ G+IGL++A+ KFD Sbjct: 9 RQSHDGDEKAREQLVEENIGLIWCIVKRFYGRGAEPEDLFQIGSIGLLKAIDKFDMTYDV 68 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY++ I ++ + LR ++K+ + K L + K LQ + E+ Sbjct: 69 KFSTYAVPMISGEIKRF-LRDDGMIKVSRSL--KELSYKAYFAKEKLQEKLGRDPTLEE- 124 Query: 160 VAIAKKLNVSESEVISMNCRLAGD-ESLNALINSSDKNSSQWQDWLVYDHDGQEQVL--- 215 +A+ + V + E++ M +G+ ESL+ I D N Q D L +E+VL Sbjct: 125 --LAETMEVEKEELV-MAMESSGEVESLHKPIYQKDGNEIQLMDKLEETGAQEEKVLNQM 181 Query: 216 --------IEKEERK 222 +EKEER+ Sbjct: 182 LLAQLLEGLEKEERQ 196 >gi|228992811|ref|ZP_04152736.1| RNA polymerase sigma-F factor [Bacillus pseudomycoides DSM 12442] gi|228998857|ref|ZP_04158442.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock3-17] gi|229006374|ref|ZP_04164053.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock1-4] gi|228754873|gb|EEM04239.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock1-4] gi|228760873|gb|EEM09834.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock3-17] gi|228766860|gb|EEM15498.1| RNA polymerase sigma-F factor [Bacillus pseudomycoides DSM 12442] Length = 252 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 50/190 (26%), Positives = 90/190 (47%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQKSQD-GDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R++K Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMK 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEYGRAPTINEVAEALELTPEEVV-LAQEASRTPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D+ ++W D Sbjct: 183 ADQTETKWFD 192 >gi|56420843|ref|YP_148161.1| sporulation sigma factor SigF [Geobacillus kaustophilus HTA426] gi|56380685|dbj|BAD76593.1| DNA-directed RNA polymerase sporulation-specific sigma factor (sigma-F) (stage II sporulation protein AC) [Geobacillus kaustophilus HTA426] Length = 250 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 56/256 (21%), Positives = 114/256 (44%), Gaps = 19/256 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 ++ QE L +R +E GD A ++ ++RLV + + G ++ G IGL++ Sbjct: 12 IKDQEMKELIRRSQE-GDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLK 70 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +V KFD + +TY++ I +Q + LR VK+ + K + +R+ K L Sbjct: 71 SVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSL--KEMGNKIRKAKDEL-- 125 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + V IA L +S +V+ + S++ + +D + D + Sbjct: 126 -SKTRGRAPTVTEIADHLGISPEDVVLAQEAVRSPTSIHETVYENDGDPITLLDQIA--- 181 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D E +K L +++ L+ RER I R ++ T ++S +S+ + Sbjct: 182 DADEASWFDK-------IALKKAIEELDERERLIVYLRYYKDQ--TQSEVASRLGISQVQ 232 Query: 269 VRQIEARAFKKVQESI 284 V ++E + + +++ + Sbjct: 233 VSRLEKKILQHIKDKM 248 >gi|685227|dbj|BAA04283.1| sigma factor [Streptomyces setonii] Length = 259 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 54/224 (24%), Positives = 102/224 (45%), Gaps = 19/224 (8%) Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIG 127 RG G + ++V G IGL++A+ +FD R ++++ +I ++ + SW+ + Sbjct: 49 RGSG-DMEDIVQVGTIGLIKAIDRFDLSREVEFTSFAVPYIVGEIKRFFRDTSWA---VH 104 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----ISMNCRLAGD 183 + L +L + K L D + V +A+ L + ESEV ++ N AG Sbjct: 105 VPRRLQELRVDLAKAKESLAGDLDRD---PTVRELAQDLGIEESEVTEGIVASNGYTAG- 160 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL+ ++++ Q D G+ +E E + L + L+ RERRI Sbjct: 161 -SLDMPTDTAEAGPGQHSGRTFADVLGEPDPAMETVENL---HALAPLLGELDERERRII 216 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + R QE +T + +E +S+ V ++ +R K++ + Q Sbjct: 217 DMRFGQE--MTQAQIGAELGISQMHVSRLLSRMLGKLRNGMLTQ 258 >gi|294102492|ref|YP_003554350.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Aminobacterium colombiense DSM 12261] gi|293617472|gb|ADE57626.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Aminobacterium colombiense DSM 12261] Length = 196 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 25/79 (31%), Positives = 42/79 (53%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 R H D A L+ S+ LV +A + +++ EG + L+++V KF+PER + Sbjct: 25 RCHLDDDAREELIISYRPLVFWLAQKFYVSPSLYPDLIQEGMVALIKSVDKFEPERQLKF 84 Query: 102 ATYSMWWIKAAMQEYILRS 120 TY+ + IK M ++ RS Sbjct: 85 TTYAFYRIKGQMVNFLQRS 103 >gi|118443643|ref|YP_877879.1| sporulation sigma factor SigF [Clostridium novyi NT] gi|118134099|gb|ABK61143.1| RNA polymerase sigma-F factor [Clostridium novyi NT] Length = 251 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 52/249 (20%), Positives = 106/249 (42%), Gaps = 34/249 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A LV +L LV I+ + G ++ G++GL++A+ FD + +TY Sbjct: 26 GDKKALDELVEKNLPLVTAISKKFLNRGYEYEDIFQIGSMGLIKAINNFDSSYNVQFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTA--NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ +I R L+K+ + ++L F+ +L Sbjct: 86 AVPMIMGEIRRFI-RDDGLIKVSRSVKYTARKLHFDKEKL-------------------- 124 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 KKLN + + +G + + + N ++ ++ DG LI+K K Sbjct: 125 TKKLN--REPTVEELSKFSGIDKEQIIFATEAINEPKYLYDTIHQDDGSPIYLIDKVVLK 182 Query: 223 NRRNM-------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + + L ++S L+ R R+I R ++ +T ++ +S+ +V +IE + Sbjct: 183 DESEIDELDKIALKEALSKLDQRSRQIIILRYFKD--ITQVKVAKMLGISQVQVSRIEKK 240 Query: 276 AFKKVQESI 284 K ++E + Sbjct: 241 VLKTMKEKL 249 >gi|218133693|ref|ZP_03462497.1| hypothetical protein BACPEC_01562 [Bacteroides pectinophilus ATCC 43243] gi|217991068|gb|EEC57074.1| hypothetical protein BACPEC_01562 [Bacteroides pectinophilus ATCC 43243] Length = 254 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 50/229 (21%), Positives = 102/229 (44%), Gaps = 19/229 (8%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK+ G Y GY + ++ G GL+ A+ KFD + + TY+ I+ A+ + Sbjct: 32 LVKLVAGRLGMYLGYSVEYDDLCGYGIFGLIDAIDKFDCNKNVKFETYASLRIRGAILDQ 91 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI-TDNNLKPEQVVAIAKKLNVSESEVIS 175 I R + QK++ + +++ ++ TD L A++L ++ E Sbjct: 92 I-RKMDWIPRSLRQKQKKIDAAMSKIEAQKGSVATDEEL--------AQELGITLDEFND 142 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + ++ + + + D + Q + ++EKEE K M+ ++S+L Sbjct: 143 WQGKTKATNLISLDEYTETQGTEAKMDSVTNARFDQPEDVVEKEELK---KMIVEAISLL 199 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +ER + +E +TL+ +S +VS RV Q+ +A K++ + Sbjct: 200 TDKERSVVTLYYYEE--MTLKEISLVLDVSESRVSQLHTKALLKMKSKL 246 >gi|23099294|ref|NP_692760.1| sporulation sigma factor SigF [Oceanobacillus iheyensis HTE831] gi|22777523|dbj|BAC13795.1| stage II sporulation protein AC (RNA polymerase sigma-F factor) [Oceanobacillus iheyensis HTE831] Length = 250 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 25/84 (29%), Positives = 44/84 (52%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + GD SA RLV ++RLV + + G ++ G+IGL++++ KFD Sbjct: 22 RLSQQGDQSARDRLVEKNIRLVWSVVQRFINRGYDPDDLFQIGSIGLIKSIDKFDLSYDV 81 Query: 100 RLATYSMWWIKAAMQEYILRSWSL 123 + +TY++ I +Q +I S+ Sbjct: 82 KFSTYAVPMIIGEIQRFIRDDGSI 105 >gi|320008281|gb|ADW03131.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces flavogriseus ATCC 33331] Length = 278 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 110/248 (44%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RSYKTTGDGRLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFN----LRRLKGHLQA 148 ER + TY++ I+ AM E W + A N +R + LRR + Sbjct: 93 IERAIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYATLEAQLRRTPSEAEV 152 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 ++ + E++ A+ +L++ + V+++ +E L+ D+ S D L Sbjct: 153 ASEMGVALEELHAVFSQLSL--ANVVAL------EELLHVGGEGGDRLS--LMDTL---E 199 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + + V+ R Sbjct: 200 DTAADDPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYE--GLTLAEIGNVLGVTESR 257 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 258 VSQIHTKS 265 >gi|294501135|ref|YP_003564835.1| RNA polymerase sigma-F factor [Bacillus megaterium QM B1551] gi|295706482|ref|YP_003599557.1| RNA polymerase sigma-F factor [Bacillus megaterium DSM 319] gi|464690|sp|P35145|RPSF_BACME RecName: Full=RNA polymerase sigma-F factor; AltName: Full=Sporulation sigma factor; AltName: Full=Stage II sporulation protein AC gi|39654|emb|CAA45288.1| spoIIAC [Bacillus megaterium] gi|294351072|gb|ADE71401.1| RNA polymerase sigma-F factor [Bacillus megaterium QM B1551] gi|294804141|gb|ADF41207.1| RNA polymerase sigma-F factor [Bacillus megaterium DSM 319] gi|383708|prf||1904152C spoIIAC gene Length = 253 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 47/185 (25%), Positives = 85/185 (45%), Gaps = 13/185 (7%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L+ E L KR + GD A +V ++RLV + + G ++ G IGL Sbjct: 12 PYLKDHEVKDLIKR-SQQGDQIARDTIVQKNMRLVWSVVQRFINRGYEPDDLFQIGCIGL 70 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRR 141 +++V KFD + +TY++ I +Q +I R VK+ + + ++ L + Sbjct: 71 LKSVDKFDLSYDVKFSTYAVPMIIGEIQRFI-RDDGTVKVSRSLKEMSNKIRKAKDELSK 129 Query: 142 LKGHLQAITDN----NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 L G + + + +L PE+VV +A++ N + S + GD + L +D Sbjct: 130 LLGRVPTVAEVAEHLDLTPEEVV-LAQEANRAPSSIHETVYENDGD-PITLLDQIADHTE 187 Query: 198 SQWQD 202 ++W D Sbjct: 188 AKWFD 192 >gi|4102217|gb|AAD11814.1| sigma-like factor [Streptomyces sp. A21] Length = 343 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 60/242 (24%), Positives = 107/242 (44%), Gaps = 22/242 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISE-VVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A + L+ +L LV A +R G +E ++ G IGL++A+ +FD R AT+++ Sbjct: 114 ARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREVEFATFAVP 173 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 +I ++ + +WS + + L L + K L A D + V +A +L Sbjct: 174 YIVGEIKRFFRDTTWS---VHVPRRLQELRVELAKAKEALSADLDRD---PTVAELAARL 227 Query: 167 NVSESEVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++SE E+I + N AG + + S + D L D G E V Sbjct: 228 DLSEEEIIEGLVAANGYSAGSLDTPSADSESGNEQRAYADLLGEDDPGMESV-------- 279 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L + L+ RER I R QE +T + +E VS+ V ++ +R ++++ Sbjct: 280 ENLHALAPLLRQLDDRERAIVRMRFGQE--MTQAQIGAELGVSQMHVSRLLSRIVRRLRT 337 Query: 283 SI 284 + Sbjct: 338 GM 339 >gi|206900763|ref|YP_002250593.1| SigF [Dictyoglomus thermophilum H-6-12] gi|206739866|gb|ACI18924.1| SigF [Dictyoglomus thermophilum H-6-12] Length = 235 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 23/65 (35%), Positives = 37/65 (56%), Gaps = 1/65 (1%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +YRE GD L+ L+ A + YG P+ ++V G +G ++AV+ +DPE+G Sbjct: 11 KYRETGDKKVLEELLEVFDDLIYYWASKFTSYGEPLEDLVQIGYLGFLKAVENYDPEKG- 69 Query: 100 RLATY 104 L+TY Sbjct: 70 DLSTY 74 >gi|319937328|ref|ZP_08011735.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319807694|gb|EFW04287.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 227 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 1/81 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L QEE L ++Y + GD A ++L+ +LRLV IA Y +++S G IGL++ Sbjct: 27 LTPQEENDLLEKYFQ-GDQEARNQLIEHNLRLVAHIAKKYESTKDLQEDLISIGTIGLIK 85 Query: 89 AVKKFDPERGFRLATYSMWWI 109 AV + P + +L TY+ I Sbjct: 86 AVDSYKPTKATKLGTYAAKCI 106 >gi|297616994|ref|YP_003702153.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297144831|gb|ADI01588.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 256 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 38/149 (25%), Positives = 76/149 (51%), Gaps = 7/149 (4%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ + L R +++ D A L+ +LRLV+ + + G + ++ G IG Sbjct: 15 LPVLKNERMRDLFLRVKQN-DRQAREELIRGNLRLVLSVIQRFNHRGEYVDDLFQVGCIG 73 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+ FD E+ R +TY++ I ++ Y LR + V++ + + L+ Sbjct: 74 LIKAIDNFDLEQNVRFSTYAVPMIIGEIRRY-LRDNNPVRVSRSLRD----VAYKALQVR 128 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVI 174 Q + + + +P + IA +L VS+ EV+ Sbjct: 129 EQLLAEKSREP-TIAEIADRLEVSQEEVV 156 >gi|296504831|ref|YP_003666531.1| sporulation sigma factor SigK [Bacillus thuringiensis BMB171] gi|296325883|gb|ADH08811.1| sporulation sigma factor SigK [Bacillus thuringiensis BMB171] Length = 196 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 2 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 61 Query: 103 TYSMWWI 109 TY+ I Sbjct: 62 TYAARCI 68 >gi|296133647|ref|YP_003640894.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola sp. JR] gi|296032225|gb|ADG82993.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola potens JR] Length = 257 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 26/93 (27%), Positives = 51/93 (54%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E + ++ + GD SA +L+ +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLSSSEMRKIFEQM-QAGDKSARTKLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD + + +TY++ I ++ Y+ Sbjct: 74 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYL 106 >gi|225181587|ref|ZP_03735028.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dethiobacter alkaliphilus AHT 1] gi|225167695|gb|EEG76505.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dethiobacter alkaliphilus AHT 1] Length = 239 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 55/253 (21%), Positives = 113/253 (44%), Gaps = 27/253 (10%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDP 95 +Y+E + LV +L LV ++ G GLP +++ G +GL++A+++FDP Sbjct: 9 KYQETKEEGLQETLVEKYLPLV-RLHAGRLALGLPAHVNRDDLLQAGMLGLLEALQRFDP 67 Query: 96 ERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 RG + +++ I+ AM + + R W + + +R + +Q + Sbjct: 68 TRGVKFESFAALRIRGAMLDELRRLCWV---------PRSVVREMREMDRAVQELATQLG 118 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + IA+K+ ++ ++ + +INSS S + V DG E Sbjct: 119 REPAEEEIAEKMGITIPQL----------RKITGMINSSSLLSLEDTLLAVPAVDGPEVE 168 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 +++ R L ++ L R +++ A QE+ +TL+ + V+ RV Q+ A Sbjct: 169 ALDRLIAAEDRQRLAEAIGQLPERHQQLL-ALYYQED-LTLKEVGLVLGVTESRVCQLHA 226 Query: 275 RAFKKVQESIQKQ 287 R +++ ++Q + Sbjct: 227 RIIARLRTALQDE 239 >gi|5360738|dbj|BAA82139.1| sigma factor of sigB family [Streptomyces griseus] Length = 259 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 53/224 (23%), Positives = 103/224 (45%), Gaps = 19/224 (8%) Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIG 127 RG G + ++V G IGL++A+ +FD R ++++ +I ++ + SW+ + Sbjct: 49 RGSG-DMEDIVQVGTIGLIKAIDRFDLSREVEFTSFAVPYIVGEIKRFFRDTSWA---VH 104 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----ISMNCRLAGD 183 + L +L + K L + D + ++ +A+ L + ESEV ++ N AG Sbjct: 105 VPRRLQELRVDLAKAKEALAGVLDRDPTAKE---LAEYLGIEESEVTEGIVASNGYTAG- 160 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL+ ++++ Q D G +E E + L + L+ RERRI Sbjct: 161 -SLDMPTDTAEAGPGQTAGRTFADVLGDPDPAMEAVENL---HALAPLLDELDERERRII 216 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + R QE +T + +E +S+ V ++ +R K++ + Q Sbjct: 217 DMRFGQE--MTQAQIGAELGISQMHVSRLLSRMLGKLRTGMLVQ 258 >gi|332975582|gb|EGK12472.1| DNA-directed RNA polymerase sigma subunit SigK [Desmospora sp. 8437] Length = 160 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ EK+EE L + GD A + L+ +LRLV I + +++S G IGL Sbjct: 30 PLNEKEEEKYL--KQMAGGDKEARNILIEHNLRLVAHIVKKFENTSEDNEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A++ + P +G +LATY+ I Sbjct: 88 IKAIESYQPNKGTKLATYAARCI 110 >gi|86605313|ref|YP_474076.1| RNA polymerase sigma factor SigF [Synechococcus sp. JA-3-3Ab] gi|86553855|gb|ABC98813.1| RNA polymerase sigma factor, group 3 [Synechococcus sp. JA-3-3Ab] Length = 299 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 30/92 (32%), Positives = 51/92 (55%), Gaps = 9/92 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR-----GYGLPISEVVSEGNIG 85 K + L + Y + D + +RLV +L LV K A +R GY ++V G IG Sbjct: 52 KAQTAALLRLYHQTRDPALRNRLVEINLGLVRKEAHHWRNQCDEGY----DDLVQVGCIG 107 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L+QA+++FD RG ++++M +I+ +Q Y+ Sbjct: 108 LIQAIERFDISRGLAFSSFAMPYIRGEIQHYL 139 >gi|291448094|ref|ZP_06587484.1| sporulation sigma factor [Streptomyces roseosporus NRRL 15998] gi|1655819|gb|AAB41960.1| sporulation sigma factor [Streptomyces filamentosus] gi|291351041|gb|EFE77945.1| sporulation sigma factor [Streptomyces roseosporus NRRL 15998] Length = 278 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 110/248 (44%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RSYKTTGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFNL----RRLKGHLQA 148 ER + TY++ I+ AM E W + A N +R + L RR + Sbjct: 93 IERAIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYATLEAQFRRTPSEAEV 152 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 ++ + E++ A+ +L++ + V+++ +E L+ D+ S D L Sbjct: 153 ASEMGIALEELHAVFSQLSL--ANVVAL------EELLHVGGEGGDRLS--LMDTL---E 199 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + + V+ R Sbjct: 200 DTAADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYEG--LTLAEIGNVLGVTESR 257 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 258 VSQIHTKS 265 >gi|114566052|ref|YP_753206.1| sigma 28 (flagella/sporulation) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114336987|gb|ABI67835.1| sigma 28 (flagella/sporulation) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 126 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 31/98 (31%), Positives = 55/98 (56%), Gaps = 3/98 (3%) Query: 9 IVNGEIGLSRYIH-EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I+ G + L Y++ ++ P+ E+ E L + R G A + L+ +LRLV + Sbjct: 13 ILKGSLCLFAYLNNQVFPQPLSEEDERKCLQEMQR--GGEEARNILIEHNLRLVAHVVKK 70 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 Y G + +++S G IG ++A++ ++ ERG RLATY+ Sbjct: 71 YESSGEDLEDLISIGTIGPIKAIRTYNFERGVRLATYA 108 >gi|47569335|ref|ZP_00240019.1| RNA polymerase sigma-K factor [Bacillus cereus G9241] gi|228967406|ref|ZP_04128439.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar sotto str. T04001] gi|47554006|gb|EAL12373.1| RNA polymerase sigma-K factor [Bacillus cereus G9241] gi|228792294|gb|EEM39863.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar sotto str. T04001] Length = 228 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 34 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 93 Query: 103 TYSMWWI 109 TY+ I Sbjct: 94 TYAARCI 100 >gi|268610009|ref|ZP_06143736.1| sporulation sigma factor SigK [Ruminococcus flavefaciens FD-1] Length = 227 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 31/82 (37%), Positives = 44/82 (53%), Gaps = 1/82 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L K EE+ L +R GD A +L+ +LRLV I Y E++S G IGL++ Sbjct: 26 LPKSEEHELFER-SSCGDEYARKKLIEHNLRLVAHIVKKYTSSFDEQDELISIGTIGLIK 84 Query: 89 AVKKFDPERGFRLATYSMWWIK 110 AV FD +G + ATY+ I+ Sbjct: 85 AVSSFDHTKGSKFATYASRCIE 106 >gi|254380542|ref|ZP_04995908.1| sigma factor [Streptomyces sp. Mg1] gi|194339453|gb|EDX20419.1| sigma factor [Streptomyces sp. Mg1] Length = 304 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 54/226 (23%), Positives = 106/226 (46%), Gaps = 29/226 (12%) Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGT 128 G GL + +++ G IGL++A+ +FDPER +T ++ +I ++ + +WS+ Sbjct: 94 GGGLDMDDIIQVGTIGLIKAIDRFDPEREVEFSTLALPYIVGEIKRHFRDTTWSV----- 148 Query: 129 TANQKRLFFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI----SMNCRLAGD 183 + R LR L +A+TD + V +A+ L ++E +VI + N +G Sbjct: 149 --HVPRRLQELRSELAKAQEALTDVLGRAPTVKEVAEHLELTEEQVIDGLVAANGYTSG- 205 Query: 184 ESLNALINSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 SL+A S+ + S + LV D D ++ + + L + L+ R Sbjct: 206 -SLDAAAGESETSPSTGRSTRPLADLVGDVDPAMELFEDL-------HTLAPLLRQLDER 257 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +R I + R Q+ T + SE +S+ +V ++ +R +++ + Sbjct: 258 DRLILQMRFGQDR--TQAEIGSELGISQMQVSRLLSRTLARLRTGM 301 >gi|256269|gb|AAC60415.1| RpoD2 [Synechococcus] Length = 48 Score = 48.5 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 17/41 (41%), Positives = 30/41 (73%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++ EG +GL + V+KFDP +G++ +TY+ WWI+ A+ I Sbjct: 2 DLIQEGTLGLERGVEKFDPSKGYKFSTYAYWWIRQAITRAI 42 >gi|226311507|ref|YP_002771401.1| RNA polymerase sigma-K factor precursor [Brevibacillus brevis NBRC 100599] gi|226094455|dbj|BAH42897.1| RNA polymerase sigma-K factor precursor [Brevibacillus brevis NBRC 100599] Length = 119 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 48/84 (57%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ + +EE L R GD A ++L+ +LRLV I + G +++S G IGL Sbjct: 30 PLQDTEEEKYL--RLMAKGDPYARNKLIEHNLRLVAHIVKKFENTGEDSEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ + ++G +LATY+ I+ Sbjct: 88 IKAIESYQVDKGTKLATYAARCIE 111 >gi|160939653|ref|ZP_02087001.1| hypothetical protein CLOBOL_04545 [Clostridium bolteae ATCC BAA-613] gi|158437444|gb|EDP15208.1| hypothetical protein CLOBOL_04545 [Clostridium bolteae ATCC BAA-613] Length = 258 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 24/80 (30%), Positives = 47/80 (58%), Gaps = 3/80 (3%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPER 97 YR++G +RL+ +L +V A+ R G L E++ +G + L++ ++++DP+R Sbjct: 18 YRKNGSQELRNRLIMHYLPIVRSAAVQLRSMAGSLLEQEELIDQGVLALIECLERYDPDR 77 Query: 98 GFRLATYSMWWIKAAMQEYI 117 G R T++ ++ AM +YI Sbjct: 78 GARFETFAFMRVRGAMIDYI 97 >gi|258514354|ref|YP_003190576.1| sporulation sigma factor SigG [Desulfotomaculum acetoxidans DSM 771] gi|257778059|gb|ACV61953.1| RNA polymerase, sigma 28 subunit, SigG [Desulfotomaculum acetoxidans DSM 771] Length = 257 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 22/75 (29%), Positives = 42/75 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD SA +L+ +LRLV+ + + G + ++ G IGLM+A+ FD + + + Sbjct: 32 QQGDTSARPQLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCIGLMKAIDNFDLAQNVKFS 91 Query: 103 TYSMWWIKAAMQEYI 117 TY++ I ++ Y+ Sbjct: 92 TYAVPMIIGEIRRYL 106 >gi|153852719|ref|ZP_01994156.1| hypothetical protein DORLON_00138 [Dorea longicatena DSM 13814] gi|149754361|gb|EDM64292.1| hypothetical protein DORLON_00138 [Dorea longicatena DSM 13814] Length = 237 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 64/249 (25%), Positives = 111/249 (44%), Gaps = 34/249 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++V + LV I + G G + ++ G IGL++A+ KFD + +TY Sbjct: 14 GDEEARAQIVEENTGLVWCIVRRFTGRGTELEDLFQIGTIGLLKAIDKFDLSYEVKFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH-LQAITDNNLKPE-QVVAI 162 ++ I ++ + LR ++K+ + + K L + KG+ Q + L E V + Sbjct: 74 AVPMISGEIKRF-LRDDGMIKV--SRSLKELSY-----KGYQAQEVLGRKLGREPSVTEL 125 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---- 218 A+ L+VS E+ ESL+ VY +GQE L+EK Sbjct: 126 AEYLDVSPEELTMAMDACTDVESLHR---------------PVYKKEGQEISLMEKVGKE 170 Query: 219 ---EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 EER +L ++ L+ ER++ R E T + E +S+ +V ++E + Sbjct: 171 DGAEERVLDHLLLKELLTSLDKEERKLIYLRYFAEKTQT--QIGKEMGISQVQVSRMEKK 228 Query: 276 AFKKVQESI 284 K ++E I Sbjct: 229 ILKNLRERI 237 >gi|15639696|ref|NP_219146.1| RNA polymerase sigma factor WhiG [Treponema pallidum subsp. pallidum str. Nichols] gi|189025934|ref|YP_001933706.1| RNA polymerase sigma factor WhiG [Treponema pallidum subsp. pallidum SS14] gi|3323011|gb|AAC65675.1| RNA polymerase sigma-28 factor [Treponema pallidum subsp. pallidum str. Nichols] gi|189018509|gb|ACD71127.1| RNA polymerase sigma-28 factor [Treponema pallidum subsp. pallidum SS14] Length = 262 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 54/220 (24%), Positives = 102/220 (46%), Gaps = 23/220 (10%) Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 KIA+G G + ++VS G GL A+ K+DPE+ R TY++ I+ A+ + LRS Sbjct: 44 KIAVGKPG-NVEFDDLVSYGIFGLFDAIDKYDPEKNIRFNTYAVTRIRGAIFDE-LRSID 101 Query: 123 LVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKK----LNVSESEVISM- 176 V +++ + L+ L + TD + + + + L VS + VIS+ Sbjct: 102 WVPRSVRQQTRQIEEAIADLEARLGRXATDTEIACALNIELEEYHQLLLKVSGTSVISLA 161 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 + + GDE + + S + + V++E+EE K ++ ++ L+ Sbjct: 162 DSKFGGDERDHVSVGDSIEAPASL----------NPDVIVEREEIK---RIIAEAIRELS 208 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 RE+++ +E +TL+ + +V+ R+ QI A Sbjct: 209 QREQQVLILYYYEE--MTLKEIGKVLKVTESRISQIHTSA 246 >gi|160892497|ref|ZP_02073287.1| hypothetical protein CLOL250_00024 [Clostridium sp. L2-50] gi|156865538|gb|EDO58969.1| hypothetical protein CLOL250_00024 [Clostridium sp. L2-50] Length = 258 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 61/268 (22%), Positives = 118/268 (44%), Gaps = 39/268 (14%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L +E+ L R E GD++A + +LRLV+ + + ++ G I Sbjct: 15 RLPLLTDKEKDELFDRI-EQGDMAARETFIKGNLRLVLSVIQRFSNSNENPDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + +TY++ I + Y+ + S+ R+ +LR + Sbjct: 74 GLIKAIDNFDRSLNVKFSTYAVPMILGECRRYLRDNNSI----------RVSRSLRDIAY 123 Query: 145 HLQAITDNNLKP----EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 D LK V IAK+++V+ ++ + +L+A+ S + Sbjct: 124 KAIYTKDALLKKLDREPTVDEIAKEIDVAPEDITT---------ALDAISTP----VSLY 170 Query: 201 QDWLVYDHDGQEQVLIEK-EERKNRRN------MLTRSMSVLNPRERRIFEARRLQENPV 253 + VY G ++++ ++KN+ L +M LN RE I R + Sbjct: 171 EP--VYQEGGDTLYIVDQLSDKKNKEENWVENISLKEAMKKLNEREYNILRLRFFEGKTQ 228 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 T ++SE +S+ +V +IE A K ++ Sbjct: 229 T--EVASEIAISQAQVSRIEKSAIKSLK 254 >gi|154686587|ref|YP_001421748.1| sporulation sigma factor SigF [Bacillus amyloliquefaciens FZB42] gi|308174131|ref|YP_003920836.1| RNA polymerase sporulation-specific sigma factor sigma-F [Bacillus amyloliquefaciens DSM 7] gi|63146682|emb|CAG28933.1| Sigma F [Bacillus amyloliquefaciens FZB42] gi|154352438|gb|ABS74517.1| SigF [Bacillus amyloliquefaciens FZB42] gi|307606995|emb|CBI43366.1| RNA polymerase sporulation-specific sigma factor (sigma-F) [Bacillus amyloliquefaciens DSM 7] gi|328552736|gb|AEB23228.1| sporulation sigma factor SigF [Bacillus amyloliquefaciens TA208] gi|328912466|gb|AEB64062.1| RNA polymerase sigma factor [Bacillus amyloliquefaciens LL3] Length = 255 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 56/244 (22%), Positives = 105/244 (43%), Gaps = 28/244 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A L+ ++RLV + + G ++ G IGL+++V KFD R + Sbjct: 27 QEGDQQARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVRFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K L +RR K L + + V I Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRAKDEL---SKTYGRVPTVQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A L + +V+ + S++ VY++DG +Q+ Sbjct: 141 ADHLEIDAEDVVLAQEAVRAPSSIHE---------------TVYENDGDPITLLDQIADH 185 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 EE+ + L ++S L RE+ I R ++ T ++ +S+ +V ++E + Sbjct: 186 SEEKWFDKIALKEAISDLEEREKLIVYLRYYKDQ--TQSEVAERLGISQVQVSRLEKKIL 243 Query: 278 KKVQ 281 K+++ Sbjct: 244 KQIK 247 >gi|149181668|ref|ZP_01860161.1| sporulation sigma factor SigF [Bacillus sp. SG-1] gi|148850646|gb|EDL64803.1| sporulation sigma factor SigF [Bacillus sp. SG-1] Length = 253 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 51/177 (28%), Positives = 81/177 (45%), Gaps = 17/177 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L KR +E GD SA +V ++RLV + + G ++ G IGL+++V KFD Sbjct: 22 LIKRSQE-GDQSARDTIVQKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI-----TD 151 + +TY++ I +Q +I R VK+ + K + +RR K L T Sbjct: 81 YDVKFSTYAVPMIIGEIQRFI-RDDGTVKVSRSL--KEMGNRIRRAKDELSKTFGRVPTV 137 Query: 152 N------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 N L PE+VV +A++ + S S + GD + L SD + +W D Sbjct: 138 NEIAAHLELSPEEVV-MAQEASRSPSSIHETVYENDGD-PITLLDQISDTSDQKWFD 192 >gi|240145516|ref|ZP_04744117.1| RNA polymerase sigma-E factor [Roseburia intestinalis L1-82] gi|257202333|gb|EEV00618.1| RNA polymerase sigma-E factor [Roseburia intestinalis L1-82] Length = 207 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ +QE L K + G L A + L ++RLV +A Y+ + +++S G IGL Sbjct: 7 PLTPEQENECLKKLKK--GSLEARNELTLHNMRLVAHVAKKYQNSEEDMEDLISIGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 M+A+ + + G RLATY+ I Sbjct: 65 MKAIATYKEDYGSRLATYAARCI 87 >gi|220931430|ref|YP_002508338.1| sporulation sigma factor SigK [Halothermothrix orenii H 168] gi|219992740|gb|ACL69343.1| sporulation sigma factor SigK [Halothermothrix orenii H 168] Length = 232 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 59/256 (23%), Positives = 103/256 (40%), Gaps = 67/256 (26%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 E++E+Y+ KR R+ GD A + L+ +LRLV I Y +++S G IGL++ Sbjct: 32 EEEEKYI--KRMRQ-GDEEARNILIEHNLRLVAHIVKKYNSVYTDNEDLISIGTIGLIKG 88 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 + +D + +LATY+ I + + +LR +K Sbjct: 89 INTYDETKKTKLATYAARCI----------------------ENEILMHLRSVK------ 120 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS-DKNSSQWQDWLVYDH 208 +L+ + L I S D N D L Sbjct: 121 -----------------------------KLSNETLLQESIGSDKDGNDITLMDVL---- 147 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSR 266 D +E +I K E+ L + L+PRE+++ E R L +T + ++S +SR Sbjct: 148 DTREDSVINKVEKSIDEEQLYNKLGELSPREKKVLELRYGLLDGKRLTQKEVASILGISR 207 Query: 267 ERVRQIEARAFKKVQE 282 V +IE +A +++ + Sbjct: 208 SYVSRIEKKAIQELSD 223 >gi|153487|gb|AAA26829.1| sigma factor (whiG) (put. alt.) (gtg start codon); putative [Streptomyces coelicolor] Length = 258 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 104/245 (42%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 14 RSYKTTGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 72 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 73 VDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEARLRRT 126 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA+ + V + + LA +L L+++ + + D L D Sbjct: 127 -PSESEVAVEMGIAVEDLHAVFSQLSLANVVALEELLHAGGEGGGRLSLMDTL---EDTA 182 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R +L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 183 ADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYE--GLTLAEIGNVLGVTESRVSQ 240 Query: 272 IEARA 276 I ++ Sbjct: 241 IHTKS 245 >gi|255315371|ref|ZP_05356954.1| sporulation sigma factor SigE [Clostridium difficile QCD-76w55] Length = 240 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 28/91 (30%), Positives = 50/91 (54%), Gaps = 2/91 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L+ +EE L ++ D + L+ +LRLVV I+ + G+ + +++S G IGL Sbjct: 38 PPLKPEEEMELLQKL--ETDENVKSILIERNLRLVVYISRKFENTGIDVEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++AV F + +LATY+ I+ + Y+ Sbjct: 96 IKAVNTFKLNKNIKLATYASRCIENEILMYL 126 >gi|225174918|ref|ZP_03728915.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dethiobacter alkaliphilus AHT 1] gi|225169558|gb|EEG78355.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dethiobacter alkaliphilus AHT 1] Length = 231 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 39/135 (28%), Positives = 65/135 (48%), Gaps = 10/135 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRG-YGLPISEVVSEGNIGLMQAVKKFDPERGF 99 YR+ G R+V + L+ A Y G +G + V G GLM+AV++++ +G Sbjct: 14 YRKSGKDEDLERVVEAGRSLIHHFARLYTGGFG---EDAVQAGMEGLMKAVQRYEVGKGT 70 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ATY+ + ++ Y+ + S + G+ K L F + RL + + +P V Sbjct: 71 AFATYAAHCVMGEIRHYVRKESSYYRPGSI---KDLQFRVARL---VDEVLKETGEPPGV 124 Query: 160 VAIAKKLNVSESEVI 174 IAK+LNV E V+ Sbjct: 125 SEIAKRLNVKEEGVV 139 >gi|254383401|ref|ZP_04998753.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] gi|194342298|gb|EDX23264.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] Length = 311 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 81/175 (46%), Gaps = 20/175 (11%) Query: 1 MNRKNMSIIVNGEI-GLSRYIHEIRKIPML-EKQEEYVLAKRYREHGDLSAAHRLVTSHL 58 MNR +++ + GE LS + R++ L E EY + + LV +L Sbjct: 20 MNRTDLTAVDTGEARALSATL--FRRLAELHEGSPEYSYVR-----------NTLVELNL 66 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 LV A +R P+ ++V G IGL++A+ +FDP RG +++M I ++ + Sbjct: 67 SLVRYAARRFRARSEPMEDIVQVGTIGLIKAINRFDPGRGVEFTSFAMPTITGEIKRFFR 126 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 + VK+ + R + K H A+ + +P V +A +L+VS E+ Sbjct: 127 DTSWAVKVPRRLQELR----IDAAKAH-DALEQDLGRPPSDVELAGRLHVSPEEL 176 >gi|218778853|ref|YP_002430171.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfatibacillum alkenivorans AK-01] gi|218760237|gb|ACL02703.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfatibacillum alkenivorans AK-01] Length = 252 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 49/217 (22%), Positives = 106/217 (48%), Gaps = 18/217 (8%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++S G +GL+ A+ K+D RG + TY+ + I+ AM + LR+ V + Sbjct: 46 VDDLISAGIMGLLDALDKYDEGRGVKFRTYAEFRIRGAMLDE-LRAMDWVP-------RS 97 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINS 192 + ++ ++ + + +P IA +L V +M + G E SL+ + S Sbjct: 98 VRKKVQEIEQAVNRVEKRESRPADAEEIANELGVDMDTYQNMLSKAGGIELVSLDEPLWS 157 Query: 193 SD--KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D K+ + L+ D+ ++ L++ E +K +L +S+S L P+E++I + Sbjct: 158 NDNTKDGRRTHVDLLEDNANPDRDLMDSEFKK----ILAQSISSLTPKEQQILSL--YYQ 211 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + +TL+ + ++ R+ QI + K++ ++ Q Sbjct: 212 DELTLKEVGEVMGLTESRICQIHTQCMIKLRSKLKTQ 248 >gi|302544852|ref|ZP_07297194.1| putative RNA polymerase sigma factor [Streptomyces hygroscopicus ATCC 53653] gi|302462470|gb|EFL25563.1| putative RNA polymerase sigma factor [Streptomyces himastatinicus ATCC 53653] Length = 315 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 45/170 (26%), Positives = 79/170 (46%), Gaps = 20/170 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ ++V G IGL++A+ +F+P RG T++M I Sbjct: 94 LVELNLALVKFAASRFRSRSEPMEDIVQVGTIGLIKAIDRFEPGRGVEFPTFAMPTIVGE 153 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L+++ + Sbjct: 154 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLD---RAPTVHELAQRLDITTA 207 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQV 214 EV+ G + NA SS D + D + Y+ G E + Sbjct: 208 EVVE------GMAASNAYTASSLDAQPEEDDSEGALADRIGYEDHGLEGI 251 >gi|222632729|gb|EEE64861.1| hypothetical protein OsJ_19718 [Oryza sativa Japonica Group] Length = 457 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 28/99 (28%), Positives = 51/99 (51%), Gaps = 21/99 (21%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLP-------ISEVVSEGNIGLMQAVKKFDPERGFR 100 +A ++L+ +LRLV+ Y P ++ G GL+ A+ +F+P+RGFR Sbjct: 219 AARNKLIKHNLRLVLYTINKY----YPDMSNDERFDDICQAGANGLITAIDRFEPKRGFR 274 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 ++TY+++WI+ S+V+ T +N R F + Sbjct: 275 ISTYALFWIR----------HSIVRAITLSNFTRFPFAM 303 >gi|324998294|ref|ZP_08119406.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily protein [Pseudonocardia sp. P1] Length = 258 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 46/194 (23%), Positives = 88/194 (45%), Gaps = 18/194 (9%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT +L + IA + G P+ ++V +GL+ A+ +FDP++G ++++ I Sbjct: 33 RLVTGYLPVAQHIARRFNHRGEPLDDLVQVATVGLINAIDRFDPDKGGEFFSFAVPTISG 92 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + +SWS+ K + ++ L + +P + IA+ L + Sbjct: 93 EVRRHFRDQSWSMR---VPRRLKDMHVSINGAVSELSQTLGRSPRPSE---IAEHLGLPV 146 Query: 171 SEVISM--NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 EV+ SL+ +++S D ++ + LV D D + +R + R L Sbjct: 147 PEVLEGLEAAEAYRSSSLDEMLSSEDGGATVGE--LVGDADAE-------LDRVDYRESL 197 Query: 229 TRSMSVLNPRERRI 242 ++ L PRER I Sbjct: 198 RPLLAELAPRERTI 211 >gi|302551910|ref|ZP_07304252.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] gi|302469528|gb|EFL32621.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] Length = 304 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 56/240 (23%), Positives = 108/240 (45%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 83 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIVGE 142 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L +S Sbjct: 143 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQKLD---RAPTVTELAERLGISND 196 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ G + NA SS D + D + Y+ G E + E ++ Sbjct: 197 EVVE------GMAASNAYTASSLDAQPEEDDSEGALADRIGYEDHGLEGI----EYVESL 246 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + ++ L PR+R+I R + +T + E +S+ V ++ +R ++++ + Sbjct: 247 KPLIAE----LPPRDRKILSLRFVAG--LTQSEIGEELGISQMHVSRLLSRTLVRLRKGL 300 >gi|238063793|ref|ZP_04608502.1| RNA polymerase sigma factor [Micromonospora sp. ATCC 39149] gi|237885604|gb|EEP74432.1| RNA polymerase sigma factor [Micromonospora sp. ATCC 39149] Length = 294 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 100/240 (41%), Gaps = 34/240 (14%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R + + L L +A Y G G P ++ +GL++A+ KFDP RG A Y++ I Sbjct: 72 RAIEAWLPLANHLAHRYSGRGEPTDDLAQTAAVGLIKAIDKFDPSRGVDFAGYAIPTIIG 131 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV---------VA 161 ++ + R+W +++ RRL+ AI+D N Q +A Sbjct: 132 ELKRHFRDRTWD-IRVP------------RRLQELRLAISDANSTLLQTLGRSPTVADIA 178 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 KL E R SL+ D+ +++ D L G E E E Sbjct: 179 AHLKLTEEEVLEGLEGARAYNAVSLSTPTGDGDR-ATELGDML-----GGEDTEFELAE- 231 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L +++ L+ RE++I R +T ++ + VS+ V ++ ARA K++ Sbjct: 232 --LRVALGPALATLDEREQKILTLRFYGN--LTQSQIADQIGVSQMHVSRLLARALTKLR 287 >gi|182440445|ref|YP_001828164.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326781114|ref|ZP_08240379.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178468961|dbj|BAG23481.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326661447|gb|EGE46293.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 293 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 53/224 (23%), Positives = 103/224 (45%), Gaps = 19/224 (8%) Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIG 127 RG G + ++V G IGL++A+ +FD R ++++ +I ++ + SW+ + Sbjct: 83 RGSG-DMEDIVQVGTIGLIKAIDRFDLSREVEFTSFAVPYIVGEIKRFFRDTSWA---VH 138 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----ISMNCRLAGD 183 + L +L + K L + D + ++ +A+ L + ESEV ++ N AG Sbjct: 139 VPRRLQELRVDLAKAKEALAGVLDRDPTAKE---LAEYLGIEESEVTEGIVASNGYTAG- 194 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL+ ++++ Q D G +E E + L + L+ RERRI Sbjct: 195 -SLDMPTDTAEAGPGQTAGRTFADVLGDPDPAMEAVENL---HALAPLLDELDERERRII 250 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + R QE +T + +E +S+ V ++ +R K++ + Q Sbjct: 251 DMRFGQE--MTQAQIGAELGISQMHVSRLLSRMLGKLRSGMLVQ 292 >gi|16078710|ref|NP_389529.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. subtilis str. 168] gi|221309525|ref|ZP_03591372.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. subtilis str. 168] gi|221313849|ref|ZP_03595654.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221318772|ref|ZP_03600066.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. subtilis str. JH642] gi|221323044|ref|ZP_03604338.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. subtilis str. SMY] gi|296330862|ref|ZP_06873337.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674380|ref|YP_003866052.1| RNA polymerase sigma factor sigma-D [Bacillus subtilis subsp. spizizenii str. W23] gi|321315414|ref|YP_004207701.1| RNA polymerase sigma factor SigD [Bacillus subtilis BSn5] gi|1350863|sp|P10726|RPSD_BACSU RecName: Full=RNA polymerase sigma-D factor; AltName: Full=Sigma-28 gi|289304|gb|AAA61470.1| sigma factor 28 [Bacillus subtilis] gi|2634019|emb|CAB13520.1| RNA polymerase sigma-28 factor (sigma-D) [Bacillus subtilis subsp. subtilis str. 168] gi|291484202|dbj|BAI85277.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. natto BEST195] gi|296151867|gb|EFG92741.1| RNA polymerase sigma factor SigD [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305412624|gb|ADM37743.1| RNA polymerase sigma factor sigma-D [Bacillus subtilis subsp. spizizenii str. W23] gi|320021688|gb|ADV96674.1| RNA polymerase sigma factor SigD [Bacillus subtilis BSn5] Length = 254 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 62/272 (22%), Positives = 126/272 (46%), Gaps = 39/272 (14%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 E+ VL R++E D A L+ ++ LV +G GLP S +++S G +GL Sbjct: 7 EDQVLWTRWKEWKDPKAGDDLMRRYMPLVT-YHVGRISVGLPKSVHKDDLMSLGMLGLYD 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFDP R + TY+ + I+ A+ + + + W + T+ +K ++++ ++ Sbjct: 66 ALEKFDPSRDLKFDTYASFRIRGAIIDGLRKEDW----LPRTSREKT-----KKVEAAIE 116 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVIS-MNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + L+ IA++L ++ +V+S MN E A + S D+ ++ Sbjct: 117 KLEQRYLRNVSPAEIAEELGMTVQDVVSTMN------EGFFANLLSIDEK--------LH 162 Query: 207 DHDGQEQVLIEKEERKN----RRNMLTRSMSVLNPRERRIFEARRL-----QENPVTLEN 257 D D E + + + KN + M ++ L + + E +L + +TL Sbjct: 163 DQDDGENIQVMIRDDKNVPPEEKIMKDELIAQLAEKIHELSEKEQLVVSLFYKEELTLTE 222 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + +S R+ QI ++A K++ ++K ++ Sbjct: 223 IGQVLNLSTSRISQIHSKALFKLKNLLEKVIQ 254 >gi|160943880|ref|ZP_02091110.1| hypothetical protein FAEPRAM212_01380 [Faecalibacterium prausnitzii M21/2] gi|158444556|gb|EDP21560.1| hypothetical protein FAEPRAM212_01380 [Faecalibacterium prausnitzii M21/2] gi|295104729|emb|CBL02273.1| RNA polymerase, sigma subunit, RpsG/SigG [Faecalibacterium prausnitzii SL3/3] Length = 255 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 59/258 (22%), Positives = 121/258 (46%), Gaps = 24/258 (9%) Query: 25 KIPML---EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 ++P+L EK++ LA GD +A R+V +LRLV+ + + G + ++ Sbjct: 14 QLPVLTEAEKRQLLTLA----HAGDKAARARMVEGNLRLVLSVVQRFAQRGENLDDLFQV 69 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G IGL++A+ FDP + R +TY + I ++ + LR + +++ T + + + Sbjct: 70 GCIGLIKAIDNFDPAQPVRFSTYGVPMIIGEIRRF-LRDNNALRVSRTL--RDTAYRAMQ 126 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 + L+ +++ A A ++ EV + + SL+ + +D + + Sbjct: 127 ARETLEKQLGREPTMDEIAAAA---GLARREVTAALESVVEPLSLDEPV-YTDGGDAMYV 182 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D +E + + R +++ L+PRE+RI E R L+ T ++ E Sbjct: 183 IDQVRDPDSEESWISGLQFRD--------TVAALSPREKRIMELRYLRGK--TQMEVAQE 232 Query: 262 FEVSRERVRQIEARAFKK 279 +S+ +V ++E A ++ Sbjct: 233 IGISQAQVSRLEKGALQQ 250 >gi|239944630|ref|ZP_04696567.1| RNA polymerase sigma factor WhiG [Streptomyces roseosporus NRRL 15998] gi|239991094|ref|ZP_04711758.1| RNA polymerase sigma factor WhiG [Streptomyces roseosporus NRRL 11379] Length = 247 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 110/248 (44%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 3 RSYKTTGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 61 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFNL----RRLKGHLQA 148 ER + TY++ I+ AM E W + A N +R + L RR + Sbjct: 62 IERAIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYATLEAQFRRTPSEAEV 121 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 ++ + E++ A+ +L++ + V+++ +E L+ D+ S D L Sbjct: 122 ASEMGIALEELHAVFSQLSL--ANVVAL------EELLHVGGEGGDRLS--LMDTL---E 168 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + + V+ R Sbjct: 169 DTAADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYE--GLTLAEIGNVLGVTESR 226 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 227 VSQIHTKS 234 >gi|251796351|ref|YP_003011082.1| sporulation sigma factor SigF [Paenibacillus sp. JDR-2] gi|247543977|gb|ACT00996.1| RNA polymerase, sigma 28 subunit, SigF [Paenibacillus sp. JDR-2] Length = 251 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 58/256 (22%), Positives = 117/256 (45%), Gaps = 42/256 (16%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDTIARDTLVQCNIRLVWSVVQRFINRGYEPEDLFQIGCIGLLKSVDKFDLSYDVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFN-LRRLKGHLQAITDNNLKPE 157 TY++ I +Q + LR +K+ TAN+ R + L + G L +++ Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSLKETANKVRKMKDELSKTLGRLPTVSE------ 138 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----E 212 +A +L ++ +V+ ++K + + V+++DG + Sbjct: 139 ----VADRLGITPEDVV--------------FAQEANKPPTSIHE-TVFENDGDPITLMD 179 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 Q+ + +ER + L ++ L+ RER I R ++ T ++S +S+ +V ++ Sbjct: 180 QIADDSQERWFDKLALIEAIEGLSERERLIVYLRYYRDK--TQSEVASRLGISQVQVSRL 237 Query: 273 EARAFKKVQESIQKQV 288 E KK+ +SI++Q+ Sbjct: 238 E----KKILQSIREQI 249 >gi|21223976|ref|NP_629755.1| RNA polymerase sigma factor WhiG [Streptomyces coelicolor A3(2)] gi|256784937|ref|ZP_05523368.1| RNA polymerase sigma factor WhiG [Streptomyces lividans TK24] gi|289768830|ref|ZP_06528208.1| RNA polymerase sigma factor whiG [Streptomyces lividans TK24] gi|133480|sp|P17211|RPSW_STRCO RecName: Full=RNA polymerase sigma factor whiG gi|153486|gb|AAA26828.1| sigma factor (whiG) (put. alt.); putative [Streptomyces coelicolor] gi|3192014|emb|CAA19413.1| RNA polymerase sigma factor WhiG [Streptomyces coelicolor A3(2)] gi|289699029|gb|EFD66458.1| RNA polymerase sigma factor whiG [Streptomyces lividans TK24] Length = 280 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 104/245 (42%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 36 RSYKTTGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 95 VDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEARL-RR 147 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA+ + V + + LA +L L+++ + + D L D Sbjct: 148 TPSESEVAVEMGIAVEDLHAVFSQLSLANVVALEELLHAGGEGGGRLSLMDTL---EDTA 204 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R +L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 205 ADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQ 262 Query: 272 IEARA 276 I ++ Sbjct: 263 IHTKS 267 >gi|284044899|ref|YP_003395239.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] gi|283949120|gb|ADB51864.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] Length = 273 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 57/213 (26%), Positives = 94/213 (44%), Gaps = 17/213 (7%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L +RY GD A L+T L L ++A+ Y P+ ++V ++GL++AV +F+ Sbjct: 35 LLERYHLRGDERAREELITRFLPLARQLALRYYHGREPLDDLVQVASVGLVKAVDRFEVR 94 Query: 97 RGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 R A+Y++ + ++ Y W+L + ++ L + R LQ Sbjct: 95 RTTAFASYAVPVMLGELRRYFRDNGWAL-HVPRGLQERALAVD--RTADRLQVAQGAAPT 151 Query: 156 PEQVVAIAKKLNVSESEVI-SMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 P Q IA++L ++ EV+ +M A D SL+A S+D D L D E Sbjct: 152 PAQ---IAEQLKLTVEEVVEAMAAARATDTVSLDAPRPSADGERDALVDSLGADDSRLE- 207 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 L+E R + ++ L RER I R Sbjct: 208 -LVEY------REAIAGALDALPVREREILRLR 233 >gi|169831582|ref|YP_001717564.1| sporulation sigma factor SigG [Candidatus Desulforudis audaxviator MP104C] gi|169638426|gb|ACA59932.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Desulforudis audaxviator MP104C] Length = 255 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 39/154 (25%), Positives = 74/154 (48%), Gaps = 15/154 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L + + GD SA +L+ +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLTAAEMRQLFQEM-QAGDPSARSKLINGNLRLVLSVIQRFTNRGEFVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ FD + + +TY++ I ++ Y LR + +++ + LR + Sbjct: 73 GLIKAIDNFDLGQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRS---------LRDVAY 122 Query: 145 HLQAITDNNL----KPEQVVAIAKKLNVSESEVI 174 I DN + V IA++LN+ E++ Sbjct: 123 KALQIRDNLANRFSREPSVSEIAQELNIPREEIV 156 >gi|51892360|ref|YP_075051.1| sporulation sigma factor SigG [Symbiobacterium thermophilum IAM 14863] gi|51856049|dbj|BAD40207.1| RNA polymerase sigma factor similar to B. subtilis SigG [Symbiobacterium thermophilum IAM 14863] Length = 256 Score = 48.1 bits (113), Expect = 0.001, Method: Compositional matrix adjust. Identities = 27/93 (29%), Positives = 50/93 (53%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + L R R G+ +A L+T +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLTNAQMRELFVRMR-SGEKAARDELITGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD + + +TY++ I ++ Y+ Sbjct: 73 GLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRYL 105 >gi|302389895|ref|YP_003825716.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Thermosediminibacter oceani DSM 16646] gi|302200523|gb|ADL08093.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Thermosediminibacter oceani DSM 16646] Length = 239 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 24/66 (36%), Positives = 39/66 (59%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GD A + L+ +LRLV I + G + +++S G IGL++A+ F+ +G RLAT Sbjct: 50 NGDEEARNILIERNLRLVAHIVKKFANTGEDMDDLISIGTIGLIKAITTFNKTKGNRLAT 109 Query: 104 YSMWWI 109 Y+ I Sbjct: 110 YAARCI 115 >gi|323484320|ref|ZP_08089687.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323694680|ref|ZP_08108842.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323402314|gb|EGA94645.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323501272|gb|EGB17172.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 209 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 31/84 (36%), Positives = 48/84 (57%), Gaps = 4/84 (4%) Query: 27 PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 P+ +E EY+ KR +E GD A L+ +LRLV + Y+ + +++S G IG Sbjct: 7 PLTASEEREYL--KRCKE-GDEEAKAVLIERNLRLVAHVIKKYQYTDYEMEDLLSVGTIG 63 Query: 86 LMQAVKKFDPERGFRLATYSMWWI 109 L++AV F +RG RLATY+ + Sbjct: 64 LIKAVNTFKMDRGSRLATYAAKCV 87 >gi|222528793|ref|YP_002572675.1| sporulation sigma factor SigE [Caldicellulosiruptor bescii DSM 6725] gi|222455640|gb|ACM59902.1| RNA polymerase, sigma 28 subunit, SigE [Caldicellulosiruptor bescii DSM 6725] Length = 244 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 49/94 (52%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + + G LV +LRLVV IA + + + ++VS G IGL Sbjct: 41 PPLTPDEEAQILYKIHYQGKEELKKLLVERNLRLVVYIARRFENTKINLEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P + +LATY+ I+ + ++ R+ Sbjct: 101 IKAINTYNPNKNIKLATYASKCIENEILMFLRRN 134 >gi|253576139|ref|ZP_04853471.1| RNA polymerase sigma-G factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251844482|gb|EES72498.1| RNA polymerase sigma-G factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 260 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 59/274 (21%), Positives = 128/274 (46%), Gaps = 42/274 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L E L ++ SA +LV +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNAEMRELFHSLQQDHVRSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCI 74 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + + + +++ Sbjct: 75 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQMRD 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +L T+ N + + I++ L + + +V+ +L+A+ QD + Sbjct: 132 NL---TNQNSREPTIFEISEALGLPKEDVVF---------ALDAI-----------QDPV 168 Query: 205 -----VYDHDGQEQVLIEKE--ERKNR------RNMLTRSMSVLNPRERRIFEARRLQEN 251 +Y HDG + + + + + KN+ L +M L RE+ I + R E Sbjct: 169 SLFEPIY-HDGGDPIYVMDQISDDKNKDVSWIEEIALREAMQRLGNREKMIL-SMRFFEG 226 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +E ++ E +S+ +V ++E A ++Q+ ++ Sbjct: 227 KTQME-VADEIGISQAQVSRLEKSAILQMQKHVK 259 >gi|281420137|ref|ZP_06251136.1| RNA polymerase sigma-43 factor [Prevotella copri DSM 18205] gi|281405937|gb|EFB36617.1| RNA polymerase sigma-43 factor [Prevotella copri DSM 18205] Length = 205 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 20/76 (26%), Positives = 43/76 (56%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +++V+ +L V +A Y+G G+ ++VSEG + ++ A +KF +RG Y+ ++ Sbjct: 7 NKIVSENLNYVKSVANQYKGKGVEFDDLVSEGTLAMLMAARKFQADRGTDFVAYAGPFVH 66 Query: 111 AAMQEYILRSWSLVKI 126 A+ + I + L ++ Sbjct: 67 KAISQAIDKQSGLYRL 82 >gi|295399263|ref|ZP_06809245.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|294978729|gb|EFG54325.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] Length = 155 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 47/84 (55%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+EE L + GD A + L+ +LRLV I + G + +++S G IGL Sbjct: 30 PLSAKEEEKYL--QLMAKGDEQARNILIEHNLRLVAHIVKKFENTGEDVEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ + +G +LATY+ I+ Sbjct: 88 IKAIESYSSNKGTKLATYAARCIE 111 >gi|125553511|gb|EAY99220.1| hypothetical protein OsI_21178 [Oryza sativa Indica Group] Length = 500 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 28/99 (28%), Positives = 51/99 (51%), Gaps = 21/99 (21%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLP-------ISEVVSEGNIGLMQAVKKFDPERGFR 100 +A ++L+ +LRLV+ Y P ++ G GL+ A+ +F+P+RGFR Sbjct: 262 AARNKLIKHNLRLVLYTINKY----YPDMSNDERFDDICQAGANGLITAIDRFEPKRGFR 317 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 ++TY+++WI+ S+V+ T +N R F + Sbjct: 318 ISTYALFWIR----------HSIVRAITLSNFTRFPFAM 346 >gi|153854687|ref|ZP_01995937.1| hypothetical protein DORLON_01935 [Dorea longicatena DSM 13814] gi|149752791|gb|EDM62722.1| hypothetical protein DORLON_01935 [Dorea longicatena DSM 13814] Length = 258 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 60/262 (22%), Positives = 118/262 (45%), Gaps = 25/262 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L ++E+ L R + GD A + +LRLV+ + + G ++ G I Sbjct: 15 KLPILNEKEKEALFVRIK-AGDQEAKEEYIKGNLRLVLSVIRRFGASGENPDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ F+ E + +TY++ I ++ Y+ + S+ R+ +LR Sbjct: 74 GLIKAINNFNTELEVKFSTYAVPMIIGEIRRYMRDNNSI----------RVSRSLRDTAY 123 Query: 145 HLQAITDNNLKPEQ----VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 +N +K Q V IA+++ +S+ +++ + SL + + ++ Sbjct: 124 KAIYAKENYMKKNQKEPTVQEIAEEIGISKEDIVFALDAIQVPMSLQEPVYNDGGDALYV 183 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D L D +E+ IE L +M L RER I + R Q T ++ Sbjct: 184 MDQLS-DQTNKEEKWIEDLS-------LEEAMKHLGERERYIIKLRFFQGK--TQMEVAD 233 Query: 261 EFEVSRERVRQIEARAFKKVQE 282 E ++S+ +V ++E A K +++ Sbjct: 234 EIQISQAQVSRLEKNALKTMRQ 255 >gi|93007309|gb|ABE97157.1| SigF [Pasteuria ramosa] Length = 131 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 46/84 (54%), Gaps = 1/84 (1%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A RLV+ ++RLV + + G ++ G IGL++AV KF+ E + + Sbjct: 27 QKGDTKARDRLVSHNIRLVWSVVQRFLNRGYESDDIFQIGCIGLLKAVDKFNLEYEVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKI 126 TY++ I +Q + LR +VK+ Sbjct: 87 TYAVPMILGEIQRF-LRDDGIVKV 109 >gi|115465727|ref|NP_001056463.1| Os05g0586600 [Oryza sativa Japonica Group] gi|30698488|dbj|BAC76601.1| Sig5 [Oryza sativa Japonica Group] gi|30698518|dbj|BAC76607.1| plastid sigma factor SIG5 [Oryza sativa Japonica Group] gi|113580014|dbj|BAF18377.1| Os05g0586600 [Oryza sativa Japonica Group] Length = 500 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 28/99 (28%), Positives = 51/99 (51%), Gaps = 21/99 (21%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLP-------ISEVVSEGNIGLMQAVKKFDPERGFR 100 +A ++L+ +LRLV+ Y P ++ G GL+ A+ +F+P+RGFR Sbjct: 262 AARNKLIKHNLRLVLYTINKY----YPDMSNDERFDDICQAGANGLITAIDRFEPKRGFR 317 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 ++TY+++WI+ S+V+ T +N R F + Sbjct: 318 ISTYALFWIR----------HSIVRAITLSNFTRFPFAM 346 >gi|229086911|ref|ZP_04219070.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-44] gi|228696421|gb|EEL49247.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-44] Length = 228 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 34 EQGDAHARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 93 Query: 103 TYSMWWI 109 TY+ I Sbjct: 94 TYAARCI 100 >gi|206975995|ref|ZP_03236905.1| RNA polymerase sigma-27 factor [Bacillus cereus H3081.97] gi|206745747|gb|EDZ57144.1| RNA polymerase sigma-27 factor [Bacillus cereus H3081.97] Length = 237 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/68 (33%), Positives = 39/68 (57%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 43 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 102 Query: 103 TYSMWWIK 110 TY+ I+ Sbjct: 103 TYAARCIE 110 >gi|165973130|gb|ABY76244.1| sigma-K factor [Bacillus thuringiensis] Length = 237 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 43 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 102 Query: 103 TYSMWWI 109 TY+ I Sbjct: 103 TYAARCI 109 >gi|319935952|ref|ZP_08010376.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319809066|gb|EFW05562.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 241 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 49/180 (27%), Positives = 83/180 (46%), Gaps = 8/180 (4%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++V +L LV I ++ ++ G IGLM+A+ FDP + +TY Sbjct: 16 GDEQAKEQVVKDNLGLVWSIVHRFKNSYYDKEDLFQIGCIGLMKAINHFDPSYNVQFSTY 75 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ Y R +K+ + K L + + K LQA +NN +P V +A+ Sbjct: 76 AVPIIMGEIKRY-FRDDGTIKVSRSL--KELNIKVTKAKEILQA--ENNEEP-TVEEVAR 129 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV--YDHDGQEQVLIEKEERK 222 L V +V+ SL+ I D ++ +D L+ DH E++ +E E K Sbjct: 130 YLEVDVHDVVEAIDSSYYPTSLSEPIYEKDGSTISMEDRLIDKSDHMWFEKIALEMEMEK 189 >gi|296121384|ref|YP_003629162.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] gi|296013724|gb|ADG66963.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] Length = 376 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 25/78 (32%), Positives = 49/78 (62%), Gaps = 2/78 (2%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 ++A +++V ++LRLVV +A G ++E+VSEG + L+++V+ FD G R +TY+ Sbjct: 191 SITARNQIVQANLRLVVALARKCCGSIEQLAELVSEGVMPLIRSVELFDISLGNRFSTYA 250 Query: 106 MWWIKAAMQEYI--LRSW 121 W ++ M + +++W Sbjct: 251 TWAVRNQMHRHFKKVQTW 268 >gi|16079402|ref|NP_390226.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. 168] gi|221310263|ref|ZP_03592110.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. 168] gi|221314586|ref|ZP_03596391.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221319509|ref|ZP_03600803.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. JH642] gi|221323785|ref|ZP_03605079.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. SMY] gi|321311821|ref|YP_004204108.1| sporulation sigma factor SigF [Bacillus subtilis BSn5] gi|133474|sp|P07860|RPSF_BACSU RecName: Full=RNA polymerase sigma-F factor; AltName: Full=Sporulation sigma factor; AltName: Full=Stage II sporulation protein AC gi|143611|gb|AAA22788.1| sporulation-specific sigma factor [Bacillus subtilis] gi|1304000|dbj|BAA12655.1| SpoIIAC [Bacillus subtilis] gi|2634780|emb|CAB14277.1| RNA polymerase sporulation-specific sigma factor (sigma-F) [Bacillus subtilis subsp. subtilis str. 168] gi|291484775|dbj|BAI85850.1| sporulation sigma factor SigF [Bacillus subtilis subsp. natto BEST195] gi|320018095|gb|ADV93081.1| sporulation sigma factor SigF [Bacillus subtilis BSn5] Length = 255 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 56/244 (22%), Positives = 105/244 (43%), Gaps = 28/244 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A L+ ++RLV + + G ++ G IGL+++V KFD R + Sbjct: 27 QNGDQQARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLTYDVRFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K L +RR K L + V I Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRAKDELSKTLG---RVPTVQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A L + +V+ + S++ VY++DG +Q+ Sbjct: 141 ADHLEIEAEDVVLAQEAVRAPSSIHE---------------TVYENDGDPITLLDQIADN 185 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 EE+ + L ++S L RE+ I R ++ T ++ +S+ +V ++E + Sbjct: 186 SEEKWFDKIALKEAISDLEEREKLIVYLRYYKDQ--TQSEVAERLGISQVQVSRLEKKIL 243 Query: 278 KKVQ 281 K+++ Sbjct: 244 KQIK 247 >gi|296332278|ref|ZP_06874740.1| sporulation sigma factor SigF [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674979|ref|YP_003866651.1| sporulation sigma factor SigmaF [Bacillus subtilis subsp. spizizenii str. W23] gi|296150592|gb|EFG91479.1| sporulation sigma factor SigF [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413223|gb|ADM38342.1| sporulation sigma factor SigmaF [Bacillus subtilis subsp. spizizenii str. W23] Length = 255 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 56/244 (22%), Positives = 105/244 (43%), Gaps = 28/244 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A L+ ++RLV + + G ++ G IGL+++V KFD R + Sbjct: 27 QNGDQQARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLTYDVRFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K L +RR K L + V I Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRAKDELSKTLG---RVPTVQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A L + +V+ + S++ VY++DG +Q+ Sbjct: 141 ADHLEIEAEDVVLAQEAVRAPSSIHE---------------TVYENDGDPITLLDQIADN 185 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 EE+ + L ++S L RE+ I R ++ T ++ +S+ +V ++E + Sbjct: 186 SEEKWFDKIALKEAISDLEEREKLIVYLRYYKDQ--TQSEVAERLGISQVQVSRLEKKIL 243 Query: 278 KKVQ 281 K+++ Sbjct: 244 KQIK 247 >gi|168335365|ref|ZP_02693459.1| sporulation sigma factor SigE [Epulopiscium sp. 'N.t. morphotype B'] Length = 246 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 34/107 (31%), Positives = 55/107 (51%), Gaps = 6/107 (5%) Query: 9 IVNGEIGLSRYIHEIRKIPM-LEKQEEYVLAKRYREHGDLSAAHR-----LVTSHLRLVV 62 I+ +IG YI +P L K+EE L + E+ D L+ +LRLVV Sbjct: 18 ILKNQIGQIHYIGGSEVLPAPLSKEEENELLMQMIEYPDDDEKINEIKKILIERNLRLVV 77 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 IA + + +++S G+IGL++A+ F P++ +LATY+ I Sbjct: 78 YIAKKFENTNKGMEDLISIGSIGLIKAINTFKPDKKIKLATYASRCI 124 >gi|300856558|ref|YP_003781542.1| RNA polymerase sigma-F factor [Clostridium ljungdahlii DSM 13528] gi|300436673|gb|ADK16440.1| RNA polymerase sigma-F factor [Clostridium ljungdahlii DSM 13528] Length = 251 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 52/252 (20%), Positives = 110/252 (43%), Gaps = 34/252 (13%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +Y + GD A ++LV +L LV I+ + G ++ G +GLM+AV F+ E Sbjct: 21 KYAKKGDKDALNKLVELNLPLVASISKKFLNRGYEYEDIFQIGCMGLMKAVNNFNEEYNV 80 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTA--NQKRLFFNLRRLKGHLQAITDNNLKPE 157 + +TY++ I ++ + LR ++K+ + K++ ++ Sbjct: 81 KFSTYAVPMILGEIKRF-LRDDGMIKVSRSVKNTAKKIHYDRE----------------- 122 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 A+ KKLN I +G E + + +S Q+ ++ DG +LI+ Sbjct: 123 ---ALTKKLN--REPTIQELAEYSGVEVEELIFATESASSLQYLYDTIHQDDGSPVLLID 177 Query: 218 KEERKNRRNM-------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 K + ++ L +++ L+ + R+I R ++ T ++ +++ +V Sbjct: 178 KISENPKEDVEMVDKIALKEALNNLDVKSRQIIMLRYFKDK--TQVQVAKMLGINQVQVS 235 Query: 271 QIEARAFKKVQE 282 +IE + K ++E Sbjct: 236 RIEKKVLKTMRE 247 >gi|288942618|ref|YP_003444858.1| RNA polymerase sigma-28 subunit FliA/WhiG [Allochromatium vinosum DSM 180] gi|288897990|gb|ADC63826.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Allochromatium vinosum DSM 180] Length = 248 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 60/251 (23%), Positives = 111/251 (44%), Gaps = 35/251 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPE 96 Y GD +A RLV+ H+ LV +IA LP S +++ G +GL++A ++F Sbjct: 10 YASAGDEAA--RLVSEHVDLVRRIAHHLVAR-LPASVQVEDLIQSGMVGLIEAARQFQTG 66 Query: 97 RGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +G ATY+ ++ AM + + R+ W+ + + N RR+ + + + Sbjct: 67 QGATFATYAGIRVRGAMIDELRRADWT---------PRSVHRNSRRIAEAIHQVESREGR 117 Query: 156 PEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 IA+ L V+ + M +C++ G E L SD+ +L G Sbjct: 118 AASDREIAETLGVTLDDYHGMLQDTASCQILGLEDLFGEDADSDR-------FL----PG 166 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 E+ ER+ L +++ L RER + +E + L + + +V+ RV Sbjct: 167 AGTAPTEQLEREQFAQALAEALADLPERERLVLALYYDEE--LNLREIGAVLDVTESRVS 224 Query: 271 QIEARAFKKVQ 281 QI ++A +++ Sbjct: 225 QIRSQALHRLR 235 >gi|251733353|emb|CAR82426.1| RNA polymerase sigma factor [Bradyrhizobium japonicum] Length = 205 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 32/49 (65%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 A +V ++LRLV+ IA Y GL +++ EGNIGLM+AV KF+ R Sbjct: 157 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 205 >gi|297582861|ref|YP_003698641.1| LuxR family transcriptional regulator [Bacillus selenitireducens MLS10] gi|297141318|gb|ADH98075.1| transcriptional regulator, LuxR family [Bacillus selenitireducens MLS10] Length = 268 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 61/267 (22%), Positives = 123/267 (46%), Gaps = 36/267 (13%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +K+ + + ++E GD +LV + LV +A + ++V G IGL+ A Sbjct: 18 DKERQLKMIAEFQETGDDEIQTQLVLEYENLVHALARKFSRGQRHDEDLVQVGMIGLLAA 77 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +++FDP G ++++ I ++ +I ++WS+ +R+ ++K ++ Sbjct: 78 LRRFDPSFGRSFESFAVPTIVGEIKRFIRDKTWSV------HVPRRIKELGPKIKSAVEN 131 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-----INSSDKNSS-QWQD 202 +T + QV IA L VSE E++ + +S AL I + D+ S+ D Sbjct: 132 LTTELQRSPQVEEIADYLEVSEEEILET---MEMGKSYQALSVDRSIEADDEGSAVTLLD 188 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS--- 259 + G EQ +++ +L ++ VL RE++I + EN+S Sbjct: 189 LVGSVESGYEQT--------DQQLLLEKAFQVLTDREKQILQL-------TYFENMSQKE 233 Query: 260 --SEFEVSRERVRQIEARAFKKVQESI 284 + +S+ V +++ RA +K+++SI Sbjct: 234 TGEQLGISQMHVSRLQRRALQKLKDSI 260 >gi|89098615|ref|ZP_01171497.1| sigma factor SigD [Bacillus sp. NRRL B-14911] gi|89086577|gb|EAR65696.1| sigma factor SigD [Bacillus sp. NRRL B-14911] Length = 253 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 51/222 (22%), Positives = 101/222 (45%), Gaps = 22/222 (9%) Query: 72 GLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 GLP + E+ S G +GL A++KFDP R + TY+ + I+ ++ + LR + Sbjct: 45 GLPKNVSRDELRSLGLMGLYDALEKFDPTRDLKFDTYASFRIRGSIIDG-LRKEDWLPRS 103 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 T K++ RL+ HL ++ I K++++ E EV ++ L+ Sbjct: 104 TREKAKKIEAAAERLEQHL-------MRKATAAEIGKEVDLHEDEVQTVMSEHFFANVLS 156 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR---SMSVLNPRERRIFE 244 D++ +++ DH + EE+ + +L+ ++S LN +E+ + Sbjct: 157 MDEQPQDQDEKDGATYILKDHRA-----VVPEEKVAKDELLSEMADAVSCLNEKEQLVIS 211 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E +TL + +S R+ QI +A ++ ++QK Sbjct: 212 LFYKEE--LTLTEIGQVMGLSTSRISQIHTKAIFSLRHTLQK 251 >gi|30264411|ref|NP_846788.1| sporulation sigma factor SigK [Bacillus anthracis str. Ames] gi|47529862|ref|YP_021211.1| sporulation sigma factor SigK [Bacillus anthracis str. 'Ames Ancestor'] gi|49187232|ref|YP_030484.1| sporulation sigma factor SigK [Bacillus anthracis str. Sterne] gi|49481469|ref|YP_038392.1| sporulation sigma factor SigK [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141167|ref|YP_085663.1| sporulation sigma factor SigK [Bacillus cereus E33L] gi|163942095|ref|YP_001646979.1| sporulation sigma factor SigK [Bacillus weihenstephanensis KBAB4] gi|165873242|ref|ZP_02217852.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0488] gi|167634588|ref|ZP_02392908.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0442] gi|167638535|ref|ZP_02396811.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0193] gi|170687349|ref|ZP_02878566.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0465] gi|170707389|ref|ZP_02897843.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0389] gi|177653302|ref|ZP_02935554.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0174] gi|190566875|ref|ZP_03019791.1| RNA polymerase sigma-27 factor [Bacillus anthracis Tsiankovskii-I] gi|196034403|ref|ZP_03101812.1| RNA polymerase sigma-27 factor [Bacillus cereus W] gi|196039171|ref|ZP_03106477.1| RNA polymerase sigma-27 factor [Bacillus cereus NVH0597-99] gi|196044956|ref|ZP_03112190.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB108] gi|206969450|ref|ZP_03230404.1| RNA polymerase sigma-27 factor [Bacillus cereus AH1134] gi|217961829|ref|YP_002340399.1| sporulation sigma factor SigK [Bacillus cereus AH187] gi|218231149|ref|YP_002369149.1| sporulation sigma factor SigK [Bacillus cereus B4264] gi|218899507|ref|YP_002447918.1| RNA polymerase sigma-27 factor [Bacillus cereus G9842] gi|225866320|ref|YP_002751698.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB102] gi|227817116|ref|YP_002817125.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. CDC 684] gi|229603939|ref|YP_002868629.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0248] gi|254684096|ref|ZP_05147956.1| sporulation sigma factor SigK [Bacillus anthracis str. CNEVA-9066] gi|254721930|ref|ZP_05183719.1| sporulation sigma factor SigK [Bacillus anthracis str. A1055] gi|254736444|ref|ZP_05194150.1| sporulation sigma factor SigK [Bacillus anthracis str. Western North America USA6153] gi|254741481|ref|ZP_05199168.1| sporulation sigma factor SigK [Bacillus anthracis str. Kruger B] gi|254750920|ref|ZP_05202959.1| sporulation sigma factor SigK [Bacillus anthracis str. Vollum] gi|254757752|ref|ZP_05209779.1| sporulation sigma factor SigK [Bacillus anthracis str. Australia 94] gi|300118668|ref|ZP_07056396.1| sporulation sigma factor SigK [Bacillus cereus SJ1] gi|49065844|sp|P62180|RP28_BACCR RecName: Full=RNA polymerase sigma-28 factor; Flags: Precursor gi|49065845|sp|P62181|RP28_BACTK RecName: Full=RNA polymerase sigma-28 factor; Flags: Precursor gi|49065846|sp|P62182|RP28_BACAN RecName: Full=RNA polymerase sigma-28 factor; Flags: Precursor gi|580953|emb|CAA40024.1| sigma factor 28 [Bacillus thuringiensis serovar kurstaki] gi|19918928|gb|AAL99379.1| sigma factor 28 [Bacillus thuringiensis serovar israelensis] gi|30259069|gb|AAP28274.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. Ames] gi|47505010|gb|AAT33686.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. 'Ames Ancestor'] gi|49181159|gb|AAT56535.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. Sterne] gi|49333025|gb|AAT63671.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51974636|gb|AAU16186.1| RNA polymerase sigma-28 factor [Bacillus cereus E33L] gi|163864292|gb|ABY45351.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] gi|164711001|gb|EDR16568.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0488] gi|167513383|gb|EDR88753.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0193] gi|167530040|gb|EDR92775.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0442] gi|170127633|gb|EDS96506.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0389] gi|170668544|gb|EDT19290.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0465] gi|172081584|gb|EDT66656.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0174] gi|190561866|gb|EDV15835.1| RNA polymerase sigma-27 factor [Bacillus anthracis Tsiankovskii-I] gi|195992945|gb|EDX56904.1| RNA polymerase sigma-27 factor [Bacillus cereus W] gi|196024444|gb|EDX63117.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB108] gi|196029798|gb|EDX68399.1| RNA polymerase sigma-27 factor [Bacillus cereus NVH0597-99] gi|206735138|gb|EDZ52306.1| RNA polymerase sigma-27 factor [Bacillus cereus AH1134] gi|217066768|gb|ACJ81018.1| RNA polymerase sigma-27 factor [Bacillus cereus AH187] gi|218159106|gb|ACK59098.1| RNA polymerase sigma-27 factor [Bacillus cereus B4264] gi|218543613|gb|ACK96007.1| RNA polymerase sigma-27 factor [Bacillus cereus G9842] gi|225788740|gb|ACO28957.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB102] gi|227007199|gb|ACP16942.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. CDC 684] gi|229268347|gb|ACQ49984.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0248] gi|298723917|gb|EFI64631.1| sporulation sigma factor SigK [Bacillus cereus SJ1] gi|324328243|gb|ADY23503.1| sporulation sigma factor SigK [Bacillus thuringiensis serovar finitimus YBT-020] gi|326942122|gb|AEA18018.1| sporulation sigma factor SigK [Bacillus thuringiensis serovar chinensis CT-43] Length = 237 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 43 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 102 Query: 103 TYSMWWI 109 TY+ I Sbjct: 103 TYAARCI 109 >gi|152967736|ref|YP_001363520.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Kineococcus radiotolerans SRS30216] gi|151362253|gb|ABS05256.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Kineococcus radiotolerans SRS30216] Length = 326 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 53/237 (22%), Positives = 102/237 (43%), Gaps = 21/237 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L HL L +A + G G P ++V IGL++A+ +FDP RG Y++ + Sbjct: 109 LTRRHLPLADHLAARFLGRGEPQDDLVQVATIGLLKALDRFDPSRGVPFGAYAVPTMLGE 168 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + R W++ ++ +R+ R L +A+T + V +A++ Sbjct: 169 IKRHFRDRGWAM-RV-----PRRIQEAGRALGDAREALTHELGRAPTVAELAERTGYDPE 222 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 +V+ + ES NA S LV + L E R+ R +L Sbjct: 223 DVVDVL------ESANAYSTLPLDTGSPTS--LVASLGADDDALQNVENREALRPLL--- 271 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 + L RERRI R ++ ++ +++E +S+ V ++ R +++E + + Sbjct: 272 -AGLPARERRILALRFVRG--MSQSQIAAEVGISQMHVSRLLTRTLAQLREGLGDEA 325 >gi|310642622|ref|YP_003947380.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309247572|gb|ADO57139.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 251 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 59/251 (23%), Positives = 114/251 (45%), Gaps = 36/251 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV S++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDNDARETLVNSNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKSVDKFDLSYEVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY++ I +Q + LR +K+ TAN+ +R++K L N P Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSLKETANK------VRKMKDELSKRL--NRLP-T 135 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQ 213 V +A +L V+ +V+ ++K + + V+++DG +Q Sbjct: 136 VKEVADELGVTPEDVV--------------FAQEANKPPTSIHE-TVFENDGDPITLMDQ 180 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + E +ER + L ++ L+ RER I R ++ T ++S +S+ +V ++E Sbjct: 181 IADESQERWFDKLALNEAIDGLSERERLIVYLRYYRDQ--TQSEVASRLGISQVQVSRLE 238 Query: 274 ARAFKKVQESI 284 + + +++ I Sbjct: 239 KKILQLIRDQI 249 >gi|297616717|ref|YP_003701876.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297144554|gb|ADI01311.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 248 Score = 48.1 bits (113), Expect = 0.002, Method: Compositional matrix adjust. Identities = 51/240 (21%), Positives = 108/240 (45%), Gaps = 18/240 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A + S+L LV ++ ++ G IGL++A+ +FD G + + Sbjct: 20 QAGDRDAEEAVFQSNLGLVYMALERFKNTPYDFEDLFQIGAIGLLKAIARFDFGYGVKFS 79 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA- 161 TY++ I ++ Y LR ++K+ + K +++ ++ + L+ E + Sbjct: 80 TYAVPMIIGELKRY-LRDDGILKVQRSI--KEIYYRVKSAQDDLR----REFGKEPTIGE 132 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 IA++L + ++V+ + L+ +K V D +G E +L Sbjct: 133 IAERLGLELNDVVMAVEACQPPTYIYNLLPGDEKEQPLPLISKVSDREGTEDLL------ 186 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L ++ L+PRER + R ++ T ++ + +S+ +V ++E RA KK++ Sbjct: 187 --EKVALKEAVMRLDPREREVIVRRFFKDE--TQSAIAEDLGISQVQVSRLEKRALKKLR 242 >gi|257438884|ref|ZP_05614639.1| RNA polymerase sigma-K factor [Faecalibacterium prausnitzii A2-165] gi|257198699|gb|EEU96983.1| RNA polymerase sigma-K factor [Faecalibacterium prausnitzii A2-165] Length = 153 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 33/89 (37%), Positives = 51/89 (57%), Gaps = 7/89 (7%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS--EVVSEGNIGLMQAVKKFDPERGFRLA 102 GD SA +++ +LRLV +A Y Y P +++S G IGLM+AV FD R R A Sbjct: 47 GDRSAREKIIRHNLRLVAHVAKKY--YAQPGDQEDLISIGTIGLMKAVDTFDITRKARFA 104 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 TY+ I+ A+ + R+ + ++IGT + Sbjct: 105 TYASRCIENAI---LTRANAGLRIGTIST 130 >gi|326201325|ref|ZP_08191197.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium papyrosolvens DSM 2782] gi|325988893|gb|EGD49717.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium papyrosolvens DSM 2782] Length = 248 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 60/256 (23%), Positives = 115/256 (44%), Gaps = 18/256 (7%) Query: 28 MLEKQEEYVLAKRYR-EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 M E ++ VL + + GD A LV ++ LV I ++ G + ++ G+IGL Sbjct: 1 MKETSDDAVLTLIIKAKAGDKQAQSVLVERNVGLVWSIVKRFQNRGYEVDDLFQIGSIGL 60 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 ++A+ KFD + +TY++ I ++ +I R ++K+ + K + R K Sbjct: 61 IKAINKFDTSYDVKFSTYAVPMIIGEIKRFI-RDDGIIKVSRSL--KEISSKARITK--- 114 Query: 147 QAITDNNLKPEQVV-AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 I L E + IA+++N+S E++ ESL + I D + D + Sbjct: 115 -EIMSKELGREPTINEIAQRMNISPEELVMAIEAGCTPESLYSTIGDGDNSPILLIDRID 173 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 + E LI+K + + + L+ RER+I R +E T ++ +S Sbjct: 174 AADNNCEVDLIDK-------IAIRQILDTLDTRERQIIILRYFKEK--TQVQIAKLLGIS 224 Query: 266 RERVRQIEARAFKKVQ 281 + +V +IE + + ++ Sbjct: 225 QVQVSRIEKKILRDIK 240 >gi|30022417|ref|NP_834048.1| sporulation sigma factor SigK [Bacillus cereus ATCC 14579] gi|228902866|ref|ZP_04067008.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 4222] gi|228910177|ref|ZP_04073996.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 200] gi|228916971|ref|ZP_04080532.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228929384|ref|ZP_04092407.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935660|ref|ZP_04098474.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228941506|ref|ZP_04104056.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228954625|ref|ZP_04116649.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960610|ref|ZP_04122256.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228974436|ref|ZP_04135004.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228981030|ref|ZP_04141332.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis Bt407] gi|229025805|ref|ZP_04182204.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1272] gi|229031990|ref|ZP_04187975.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1271] gi|229048046|ref|ZP_04193621.1| RNA polymerase sigma-28 factor [Bacillus cereus AH676] gi|229062038|ref|ZP_04199363.1| RNA polymerase sigma-28 factor [Bacillus cereus AH603] gi|229071846|ref|ZP_04205059.1| RNA polymerase sigma-28 factor [Bacillus cereus F65185] gi|229076014|ref|ZP_04208987.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-18] gi|229098811|ref|ZP_04229749.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-29] gi|229104971|ref|ZP_04235627.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-28] gi|229111812|ref|ZP_04241358.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-15] gi|229117837|ref|ZP_04247201.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-3] gi|229123878|ref|ZP_04253071.1| RNA polymerase sigma-28 factor [Bacillus cereus 95/8201] gi|229129620|ref|ZP_04258588.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-Cer4] gi|229141077|ref|ZP_04269619.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST26] gi|229157954|ref|ZP_04286026.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 4342] gi|229163288|ref|ZP_04291242.1| RNA polymerase sigma-28 factor [Bacillus cereus R309803] gi|229169087|ref|ZP_04296802.1| RNA polymerase sigma-28 factor [Bacillus cereus AH621] gi|229175013|ref|ZP_04302532.1| RNA polymerase sigma-28 factor [Bacillus cereus MM3] gi|229180616|ref|ZP_04307957.1| RNA polymerase sigma-28 factor [Bacillus cereus 172560W] gi|229192552|ref|ZP_04319513.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 10876] gi|229198467|ref|ZP_04325171.1| RNA polymerase sigma-28 factor [Bacillus cereus m1293] gi|29897975|gb|AAP11249.1| RNA polymerase sigma-K factor [Bacillus cereus ATCC 14579] gi|228584970|gb|EEK43084.1| RNA polymerase sigma-28 factor [Bacillus cereus m1293] gi|228590859|gb|EEK48717.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 10876] gi|228602859|gb|EEK60339.1| RNA polymerase sigma-28 factor [Bacillus cereus 172560W] gi|228608474|gb|EEK65777.1| RNA polymerase sigma-28 factor [Bacillus cereus MM3] gi|228614315|gb|EEK71425.1| RNA polymerase sigma-28 factor [Bacillus cereus AH621] gi|228620195|gb|EEK77067.1| RNA polymerase sigma-28 factor [Bacillus cereus R309803] gi|228625514|gb|EEK82269.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 4342] gi|228642355|gb|EEK98644.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST26] gi|228653737|gb|EEL09607.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-Cer4] gi|228659592|gb|EEL15239.1| RNA polymerase sigma-28 factor [Bacillus cereus 95/8201] gi|228665634|gb|EEL21112.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-3] gi|228671568|gb|EEL26866.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-15] gi|228678465|gb|EEL32686.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-28] gi|228684655|gb|EEL38595.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-29] gi|228707126|gb|EEL59326.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-18] gi|228711276|gb|EEL63238.1| RNA polymerase sigma-28 factor [Bacillus cereus F65185] gi|228717190|gb|EEL68865.1| RNA polymerase sigma-28 factor [Bacillus cereus AH603] gi|228723290|gb|EEL74660.1| RNA polymerase sigma-28 factor [Bacillus cereus AH676] gi|228729345|gb|EEL80337.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1271] gi|228735513|gb|EEL86109.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1272] gi|228778690|gb|EEM26955.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis Bt407] gi|228785272|gb|EEM33283.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228799038|gb|EEM46009.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228805071|gb|EEM51666.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228818156|gb|EEM64231.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228824020|gb|EEM69838.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830290|gb|EEM75904.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228842692|gb|EEM87779.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228849460|gb|EEM94295.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 200] gi|228856740|gb|EEN01258.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 4222] Length = 240 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 46 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 105 Query: 103 TYSMWWI 109 TY+ I Sbjct: 106 TYAARCI 112 >gi|152976482|ref|YP_001375999.1| sporulation sigma factor SigF [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025234|gb|ABS23004.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus cytotoxicus NVH 391-98] Length = 252 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 50/190 (26%), Positives = 90/190 (47%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKNPQLKDHELKALIQKSQD-GDQGARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R++K Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMK 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEYGRAPTINEVAEALELTPEEVV-LAQEASRTPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D+ ++W D Sbjct: 183 ADQAETKWFD 192 >gi|239623611|ref|ZP_04666642.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239521642|gb|EEQ61508.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 197 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 29/76 (38%), Positives = 41/76 (53%), Gaps = 1/76 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ I L QE+ L K G+ A +RLV LR V+ +A Y G LP+S++ Sbjct: 9 YLEEMGGIAPLTGQEKPELLKETA-KGNAGARNRLVEGSLRHVLNLAAEYEGRELPMSDI 67 Query: 79 VSEGNIGLMQAVKKFD 94 V E N LM A ++D Sbjct: 68 VQEANTALMLAAIEYD 83 >gi|312622918|ref|YP_004024531.1| RNA polymerase, sigma 28 subunit, sige [Caldicellulosiruptor kronotskyensis 2002] gi|312203385|gb|ADQ46712.1| RNA polymerase, sigma 28 subunit, SigE [Caldicellulosiruptor kronotskyensis 2002] Length = 244 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 49/94 (52%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P L EE + + G LV +LRLVV IA + + + ++VS G IGL Sbjct: 41 PPLTPDEEAQILYKIHYQGKEELKKILVERNLRLVVYIARRFENTKINLEDLVSIGTIGL 100 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 ++A+ ++P + +LATY+ I+ + ++ R+ Sbjct: 101 IKAINTYNPNKNIKLATYASKCIENEILMFLRRN 134 >gi|239623454|ref|ZP_04666485.1| RNA polymerase [Clostridiales bacterium 1_7_47_FAA] gi|239521485|gb|EEQ61351.1| RNA polymerase [Clostridiales bacterium 1_7_47FAA] Length = 258 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 59/260 (22%), Positives = 116/260 (44%), Gaps = 23/260 (8%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L KR +GD A + + +LRLV+ + + I ++ G I Sbjct: 15 KLPLLSNEEKEELFKRIL-NGDKDAREQYIKGNLRLVLSVIQRFSNSQENIDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRR 141 GL++A+ FD + + +TY++ I ++ Y LR + +++ + K L+ Sbjct: 74 GLIKAIDNFDITQNVKFSTYAVPMILGEVRRY-LRDNNSIRVSRSLRDTAYKALYAR--- 129 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 + +T N K +V IA+++ VS+ ++ + SL + + + Sbjct: 130 -----EQLTRVNSKEPTLVEIAQEIGVSKEDITYALDAIQTPVSLYEPVYTDGGDPLYVM 184 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + D E+ +E L +M L RER I + R + T ++ E Sbjct: 185 DQ-ISDKKNLEENWVEDLS-------LVEAMKRLPERERHIIDMRFFEGKTQT--EVAEE 234 Query: 262 FEVSRERVRQIEARAFKKVQ 281 +S+ +V ++E A K ++ Sbjct: 235 IHISQAQVSRLEKNALKSMK 254 >gi|65321710|ref|ZP_00394669.1| COG1191: DNA-directed RNA polymerase specialized sigma subunit [Bacillus anthracis str. A2012] gi|228923092|ref|ZP_04086384.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228948053|ref|ZP_04110338.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228987592|ref|ZP_04147708.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229013560|ref|ZP_04170693.1| RNA polymerase sigma-28 factor [Bacillus mycoides DSM 2048] gi|229019564|ref|ZP_04176380.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1273] gi|229081603|ref|ZP_04214099.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-2] gi|229135165|ref|ZP_04263965.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST196] gi|229146910|ref|ZP_04275274.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST24] gi|229152543|ref|ZP_04280733.1| RNA polymerase sigma-28 factor [Bacillus cereus m1550] gi|229186579|ref|ZP_04313740.1| RNA polymerase sigma-28 factor [Bacillus cereus BGSC 6E1] gi|228596838|gb|EEK54497.1| RNA polymerase sigma-28 factor [Bacillus cereus BGSC 6E1] gi|228630909|gb|EEK87548.1| RNA polymerase sigma-28 factor [Bacillus cereus m1550] gi|228636509|gb|EEK92975.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST24] gi|228648293|gb|EEL04328.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST196] gi|228701709|gb|EEL54199.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-2] gi|228741730|gb|EEL91914.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1273] gi|228747720|gb|EEL97590.1| RNA polymerase sigma-28 factor [Bacillus mycoides DSM 2048] gi|228772133|gb|EEM20583.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228811639|gb|EEM57975.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228836590|gb|EEM81939.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 243 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 49 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 108 Query: 103 TYSMWWI 109 TY+ I Sbjct: 109 TYAARCI 115 >gi|152976769|ref|YP_001376286.1| sporulation sigma factor SigK [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025521|gb|ABS23291.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus cytotoxicus NVH 391-98] Length = 237 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 43 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 102 Query: 103 TYSMWWI 109 TY+ I Sbjct: 103 TYAARCI 109 >gi|299538306|ref|ZP_07051591.1| RNA polymerase sigma-B factor [Lysinibacillus fusiformis ZC1] gi|298726508|gb|EFI67098.1| RNA polymerase sigma-B factor [Lysinibacillus fusiformis ZC1] Length = 261 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 58/257 (22%), Positives = 116/257 (45%), Gaps = 38/257 (14%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+ D A LV + LV IA Y ++V G +GL+ A+++FDP G Sbjct: 22 YQSTEDDEAQTNLVIHYRYLVESIARKYSNGKSYYDDIVQVGMLGLLGAIRRFDPNVGRS 81 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ I ++ ++ ++W + +R+ R+K ++A+T + + Sbjct: 82 FEAFAVPTIVGEIKRFLRDKTWDV------HVPRRIKELGPRIKSTVEALTIELQRSPSI 135 Query: 160 VAIAKK-----------LNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 IA++ + +S S + +SM+ + D SD ++ D L + Sbjct: 136 KDIAERLEVAEEEVLEAMEMSRSYQALSMDHSIESD---------SDGSTVTLFDILGRE 186 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 DG E N+R ++ ++ VLN RE++I + L++ ++ + +S+ Sbjct: 187 DDGYEMT--------NQRMIVQDALVVLNEREKQIIQLTYLEQ--LSQKEAGERLGISQM 236 Query: 268 RVRQIEARAFKKVQESI 284 V +I+ +A KK+QE+I Sbjct: 237 HVSRIQRKAIKKLQEAI 253 >gi|256267|gb|AAC60414.1| RpoD1 [Synechococcus] Length = 48 Score = 47.8 bits (112), Expect = 0.002, Method: Composition-based stats. Identities = 17/41 (41%), Positives = 32/41 (78%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++ EG++GL++A +KFD E+G++ +TY+ WWI+ A+ I Sbjct: 2 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAI 42 >gi|320010407|gb|ADW05257.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 326 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 47/168 (27%), Positives = 78/168 (46%), Gaps = 14/168 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ ++V G IGL++A+ +F+ RG T++M I Sbjct: 103 LVELNLALVKFAASRFRTRSEPMEDIVQVGTIGLIKAIDRFELSRGVEFPTFAMPTIVGE 162 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A +L +S Sbjct: 163 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELSQQLD---RAPTVAELADRLGLSRD 216 Query: 172 EVI----SMNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQV 214 EV+ + N A SL+A + D N D L Y+ +G E + Sbjct: 217 EVVEGMAASNAYTA--SSLDAKPDDHGDGNEGALADRLGYEDNGLEGI 262 >gi|168334573|ref|ZP_02692729.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Epulopiscium sp. 'N.t. morphotype B'] Length = 247 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 55/240 (22%), Positives = 107/240 (44%), Gaps = 29/240 (12%) Query: 54 VTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + H +VKI G Y L + +++ G IGL+ A+ K+D ++ + TY+ I Sbjct: 23 LIEHYAPLVKIVAGRLGIYLNSYLELDDLLGFGVIGLIDAIDKYDYDKKIKFETYASLRI 82 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK---GHLQAITDNNLKPEQVVAIAKKL 166 + A+ + I R V QK R++ GH TD + K+L Sbjct: 83 RGAIIDEI-RKLDWVPRSIRQKQKEYIRAYERVEAKIGHSPTDTD----------VRKEL 131 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 N++ESE +L D +++ L++ + ++ + + +++ E K Sbjct: 132 NINESEY----NKLVHDTNISTLVSIDESELYEFNIEDITTKNPYQEL-----ENKEALE 182 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +L + L RE+ + + +E +TL+ +S E+S RV QI ++ K++ ++K Sbjct: 183 ILEHEILALTEREQLLIKLYYYEE--LTLKEISLILEISESRVSQIHSKLMVKLRNKLKK 240 >gi|253576354|ref|ZP_04853684.1| RNA polymerase sigma-F factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251844247|gb|EES72265.1| RNA polymerase sigma-F factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 251 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 58/251 (23%), Positives = 115/251 (45%), Gaps = 32/251 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD +A RLV ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDNAARDRLVNCNIRLVWSVVQRFMNRGYEPEDLFQIGCIGLLKSVDKFDLSYDVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR +K+ + K + +R+ K L + + V + Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSL--KEMANKVRKKKDEL---SKQLGRLPTVKEV 139 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A +L V+ +V+ ++K + + V+++DG +Q+ E Sbjct: 140 ADELGVTPEDVV--------------FAQEANKPPASIHE-TVFENDGDPITLMDQIADE 184 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +ER + L ++ L RER I R ++ T +++ +S+ +V ++E Sbjct: 185 TQERWFDKLALHEAIDGLTDRERLIVYLRYYRDQ--TQSEVATRLGISQVQVSRLE---- 238 Query: 278 KKVQESIQKQV 288 KK+ +SI+ Q+ Sbjct: 239 KKILQSIRDQI 249 >gi|134298555|ref|YP_001112051.1| sporulation sigma factor SigG [Desulfotomaculum reducens MI-1] gi|134051255|gb|ABO49226.1| RNA polymerase, sigma subunit, RpsG/SigG [Desulfotomaculum reducens MI-1] Length = 257 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 25/93 (26%), Positives = 50/93 (53%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+ + L + + GD A +L+ +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLKNTQMRTLFEAM-QQGDKDARSQLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD + + +TY++ I ++ Y+ Sbjct: 74 GLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRYL 106 >gi|121535758|ref|ZP_01667560.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] gi|121305657|gb|EAX46597.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] Length = 243 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 53/241 (21%), Positives = 109/241 (45%), Gaps = 16/241 (6%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++ ++ LV I + G ++ G IGLM+A+++FD + +TY Sbjct: 17 GDKQAKEYILEHNVNLVRSIVHRFLNRGYEWDDLFQIGCIGLMKAIERFDLNFNVKFSTY 76 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ + ++ +I R + K+ K L + + R + LQ++ + + +AK Sbjct: 77 AVPMVIGEIRRFI-RDDNPTKVSRPV--KELAYRVYRTQERLQSLLG---REPTIHEVAK 130 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 +L ++ E++S + SL D + D + DGQ+ EK Sbjct: 131 ELALAPQEIVSALEAMQPPASLFEQAYHDDGDPISRLDQIA-QCDGQDNAYFEK------ 183 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +S L P+ER + R ++ T +++ +S+ +V +IE +A + +++ + Sbjct: 184 -LALREVLSRLPPKERYVIHLRFFEDK--TQAEIANMIGLSQVQVSRIEKQALRLIRDLM 240 Query: 285 Q 285 Q Sbjct: 241 Q 241 >gi|52080250|ref|YP_079041.1| RNA polymerase sigma factor SigD [Bacillus licheniformis ATCC 14580] gi|52785627|ref|YP_091456.1| RNA polymerase sigma factor SigD [Bacillus licheniformis ATCC 14580] gi|319645970|ref|ZP_08000200.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] gi|52003461|gb|AAU23403.1| RNA polymerase sigma-28 factor (sigma-D) [Bacillus licheniformis ATCC 14580] gi|52348129|gb|AAU40763.1| SigD [Bacillus licheniformis ATCC 14580] gi|317391720|gb|EFV72517.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] Length = 254 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 39/148 (26%), Positives = 76/148 (51%), Gaps = 15/148 (10%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 E+ +L R++E D A L+ ++ LV +G GLP S ++VS G +GL Sbjct: 7 EDQMLWSRWKEWKDPQAGDDLIRRYMPLVT-YHVGRIAVGLPKSVHKDDLVSLGMLGLYD 65 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFDP R + TY+ + I+ A+ + + + W + T+ +K ++++ ++ Sbjct: 66 ALEKFDPGRDLKFDTYASFRIRGAIIDGLRKEDW----LPRTSREKT-----KKVEAAIE 116 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVIS 175 + L+ IA +L +SE +V++ Sbjct: 117 KLEQRYLRNVSPSEIAAELGMSEQDVVT 144 >gi|294501329|ref|YP_003565029.1| RNA polymerase sigma-K factor [Bacillus megaterium QM B1551] gi|295706676|ref|YP_003599751.1| RNA polymerase sigma-K factor [Bacillus megaterium DSM 319] gi|294351266|gb|ADE71595.1| RNA polymerase sigma-K factor [Bacillus megaterium QM B1551] gi|294804335|gb|ADF41401.1| RNA polymerase sigma-K factor [Bacillus megaterium DSM 319] Length = 242 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 3/75 (4%) Query: 39 KRY---REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 KRY E GD A + L+ +LRLV I + G +++S G IGL++A++ + Sbjct: 37 KRYLSLMEQGDQEARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSQ 96 Query: 96 ERGFRLATYSMWWIK 110 +G +LATY+ I+ Sbjct: 97 GKGTKLATYAARCIE 111 >gi|146296669|ref|YP_001180440.1| FliA/WhiG family RNA polymerase sigma factor [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145410245|gb|ABP67249.1| RNA polymerase, sigma subunit, RpoX/SigF [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 231 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 55/239 (23%), Positives = 101/239 (42%), Gaps = 17/239 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A L+ ++L LV I + G+ ++ G IGL++AV +FD R + Sbjct: 6 KNGDKKARQELIENNLALVWSIVKKFVVKGIEADDLFQIGCIGLIKAVDRFDLSFNVRFS 65 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR +KI + N +LK N + + I Sbjct: 66 TYAVPMIIGEIKRY-LRDDGKIKISRKIKE-----NQNKLKRFRDEFLFQNGREPTISEI 119 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++ +S+ +++ SLN +IN + D + D D ++L Sbjct: 120 SEATGLSQDDILLCIDASLDVTSLNEVINQEEGKPITLMD-IAADEDYSSRLL------- 171 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + L RER I R + T ++ E +S+ V +IE +A ++++ Sbjct: 172 -DIMALKEGLRKLKGRERYIIFMRYFKNK--TQSEIAKELNISQVHVSRIEKKALERIK 227 >gi|169831890|ref|YP_001717872.1| FliA/WhiG family RNA polymerase sigma factor [Candidatus Desulforudis audaxviator MP104C] gi|169638734|gb|ACA60240.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Desulforudis audaxviator MP104C] Length = 257 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 72/266 (27%), Positives = 122/266 (45%), Gaps = 40/266 (15%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIA--MGYRGYGLPISEVVSE-----GNIGLMQAVK 91 +RYR+ + +L+ HL LV IA + R P S + E G GL++AV+ Sbjct: 7 RRYRDTRNSGLREQLIVEHLPLVRLIAGRLAVR----PPSFIAQEDLEGWGIFGLIEAVE 62 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILR-SW---SLVKIGTTANQKRLFFNLRRLKGHLQ 147 K+DP G T++ I+ A+ + + R SW SL N+ R L R G Sbjct: 63 KYDPNHGTDFRTFAYHRIRGAILDEVRRQSWLPRSLWHKLQEINEARA--RLERETG--A 118 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 ++TD +A L +++ E ++ + R SL+ + + + + W L+ Sbjct: 119 SVTDAE--------VAASLGMTDLEFHRLANHFRSVSVMSLDDVRTTRNGEAVPWGS-LI 169 Query: 206 YDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 D D EQVL E++ + L +++ L ++R + A QE +TL+ L Sbjct: 170 EDTGSPDPLEQVLEEEDHQ-----TLVAAITQLEEKDRLVL-ALYYQEG-LTLKELGRVL 222 Query: 263 EVSRERVRQIEARAFKKVQESIQKQV 288 EV+ R Q+ ARA +++E I + V Sbjct: 223 EVTESRACQLHARAIARLREKIAQAV 248 >gi|315646368|ref|ZP_07899486.1| sporulation sigma factor SigF [Paenibacillus vortex V453] gi|315278011|gb|EFU41331.1| sporulation sigma factor SigF [Paenibacillus vortex V453] Length = 251 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 58/251 (23%), Positives = 114/251 (45%), Gaps = 32/251 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDNVARDTLVNCNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR +K+ + K + +R+ + L D + V + Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSL--KEMANKVRKKRDELSKQLD---RLPTVKEV 139 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A++L V+ EV+ ++K + + V+++DG +Q+ E Sbjct: 140 AEELGVTPEEVV--------------FAQEANKPPTSIHE-TVFENDGDPITLMDQIADE 184 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +ER + L ++ L RER I R ++ T ++S +S+ +V ++E Sbjct: 185 SQERWFDKLALNEAIGGLTERERLIVYLRYYRDQ--TQSEVASRLGISQVQVSRLE---- 238 Query: 278 KKVQESIQKQV 288 KK+ +SI+ ++ Sbjct: 239 KKILQSIRNEI 249 >gi|242089037|ref|XP_002440351.1| hypothetical protein SORBIDRAFT_09g030110 [Sorghum bicolor] gi|241945636|gb|EES18781.1| hypothetical protein SORBIDRAFT_09g030110 [Sorghum bicolor] Length = 501 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 26/79 (32%), Positives = 48/79 (60%), Gaps = 7/79 (8%) Query: 48 SAAHRLVTSHLRLV-VKIAMGYRGYGLP--ISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +A ++L+ +LRLV I Y G ++ G GL+ A+ +F+P+RGFR++TY Sbjct: 262 AARNKLIKHNLRLVPYAINKYYPDMGTDERFDDLCQAGANGLITAIDRFEPKRGFRISTY 321 Query: 105 SMWWIKAAMQEYILRSWSL 123 +++WI+ + I+R+ +L Sbjct: 322 ALFWIRHS----IVRAMTL 336 >gi|225028119|ref|ZP_03717311.1| hypothetical protein EUBHAL_02389 [Eubacterium hallii DSM 3353] gi|224954589|gb|EEG35798.1| hypothetical protein EUBHAL_02389 [Eubacterium hallii DSM 3353] Length = 278 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 58/262 (22%), Positives = 114/262 (43%), Gaps = 17/262 (6%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L +E+ L + E G++ A + V +LRLV+ + + ++ G I Sbjct: 34 ELPLLSDEEKENLFIQI-EQGNMDAREQYVKGNLRLVLSVIQRFSSNHEHADDLFQVGCI 92 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + +TY++ I ++ Y LR + +++ + + + Sbjct: 93 GLMKAIDNFDRTLNVKFSTYAVPMILGEVRRY-LRDNNSIRVSRSLRDTA----YKAIYA 147 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 Q N P + ++KK + E ++I +A SL + D N + Sbjct: 148 KEQLTKSMNRTP-TIEEVSKKTEIPEEDIIYALDAIATPMSLFEPV-YQDGNDPLFLMDQ 205 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 + D +E IE L +M+ L+ RE I E R + T ++ E + Sbjct: 206 ICDKKNKEDTWIEHLS-------LQEAMNQLSGREYHIIEKRFFEGKTQT--EVADEISI 256 Query: 265 SRERVRQIEARAFKKVQESIQK 286 S+ +V ++E A K ++ I++ Sbjct: 257 SQAQVSRLEKNALKSIRNFIER 278 >gi|238916719|ref|YP_002930236.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] gi|238872079|gb|ACR71789.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] Length = 223 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 35/86 (40%), Positives = 48/86 (55%), Gaps = 9/86 (10%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY----RGYGLPISE-VVSEGN 83 L QEE L + RE GD +A + L+ ++RLV I Y R Y I+E ++S G Sbjct: 14 LSAQEEKELLIKLRE-GDSAARNALIEKNMRLVAHIVKKYTSTERDY---INEDLISVGT 69 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWI 109 IGL++AV FD ER R +TY+ I Sbjct: 70 IGLIKAVDSFDIERNVRFSTYAAKCI 95 >gi|222097784|ref|YP_002531841.1| sporulation sigma factor sigk [Bacillus cereus Q1] gi|221241842|gb|ACM14552.1| RNA polymerase sigma-27 factor [Bacillus cereus Q1] Length = 263 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 69 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 128 Query: 103 TYSMWWI 109 TY+ I Sbjct: 129 TYAARCI 135 >gi|188589198|ref|YP_001920238.1| sporulation sigma factor SigF [Clostridium botulinum E3 str. Alaska E43] gi|251778416|ref|ZP_04821336.1| RNA polymerase sigma-F factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188499479|gb|ACD52615.1| RNA polymerase sigma-F factor [Clostridium botulinum E3 str. Alaska E43] gi|243082731|gb|EES48621.1| RNA polymerase sigma-F factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 251 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 53/252 (21%), Positives = 105/252 (41%), Gaps = 34/252 (13%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A +RL+ +L LV I+ + G ++ G+IGL++A+ FD + + Sbjct: 24 KDGDTEAMNRLIEMNLPLVASISKKFLNRGYDYEDIFQIGSIGLVKAINNFDLSYNVKFS 83 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY++ I ++ + LR ++K+ KR+ F L Sbjct: 84 TYAVPMIIGEIKRF-LRDDGMIKVSRNVKSLAKRIHFTKEEL------------------ 124 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 KKLN S I +G + + S Q+ ++ DG +LI+K Sbjct: 125 --TKKLN--RSPTIEELAEYSGVDKEEIIFAIESATSLQYLYDTIHQDDGAPVLLIDKLS 180 Query: 221 RKNRRNM-------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 K ++ L ++ L+ + R+I R ++ T ++ +S+ +V +IE Sbjct: 181 EKGEDDIGMINKIALKEALRSLDEKARQIIVLRYFKDK--TQVQVAKLLGISQVQVSRIE 238 Query: 274 ARAFKKVQESIQ 285 + K+++ ++ Sbjct: 239 KKVLLKMRDKLE 250 >gi|40787125|gb|AAR90090.1| WhiG-like protein [Streptomyces ambofaciens] Length = 280 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 104/245 (42%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 36 RSYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 95 VDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYTTLEARL-RR 147 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA+ + V + + LA +L L+++ + + D L D Sbjct: 148 TPSESEVAVEMGIAVEDLHAVFSQLSLANVVALEELLHAGGEGGGRLSLMDTL---EDTA 204 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R +L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 205 ADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQ 262 Query: 272 IEARA 276 I ++ Sbjct: 263 IHTKS 267 >gi|294998208|gb|ADF57908.1| sporulation specific sigma factor K [Bacillus thuringiensis serovar aizawai] gi|308154182|gb|ADF57907.2| sporulation specific sigma factor K [Bacillus thuringiensis serovar aizawai] Length = 271 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 77 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 136 Query: 103 TYSMWWI 109 TY+ I Sbjct: 137 TYAARCI 143 >gi|282861385|ref|ZP_06270450.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces sp. ACTE] gi|282564043|gb|EFB69580.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces sp. ACTE] Length = 278 Score = 47.8 bits (112), Expect = 0.002, Method: Compositional matrix adjust. Identities = 65/248 (26%), Positives = 108/248 (43%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RSYKSTGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA----- 148 ER + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 93 LERAIKFETYAITRIRGAMIDELRALDW----IPRSVRQK--ARNVERAYATLEAQLRRT 146 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 T+ + E +A+ + +V +S+ +A +E L+ D+ S D L Sbjct: 147 PTEAEVAAEMGIALEELHSVFSQ--LSLANVVALEELLHVGGEGGDRLS--LMDTL---E 199 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R ML R+++ L RE+ + + +TL + + V+ R Sbjct: 200 DTAADNPVEIAEDRELRRMLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESR 257 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 258 VSQIHTKS 265 >gi|49183950|ref|YP_027202.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. Sterne] gi|49177877|gb|AAT53253.1| RNA polymerase sigma-B factor [Bacillus anthracis str. Sterne] Length = 258 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 61/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 3 EIQSQPTNLTKEDVIKLIAEFQQNQCGEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 62 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 63 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 115 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 116 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 172 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G EQ RR +L +VLN E+ + + E Sbjct: 173 SDGSSVARIESVGEVEQGYEQT--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 222 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 223 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 253 >gi|302560279|ref|ZP_07312621.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] gi|302477897|gb|EFL40990.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] Length = 304 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 56/237 (23%), Positives = 109/237 (45%), Gaps = 24/237 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 83 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 142 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L ++ Sbjct: 143 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQQLDRS---PTVAELAERLGITNE 196 Query: 172 EVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 EV+ + N A SL+A D + D + Y+ G E + E ++ + + Sbjct: 197 EVVEGMAASNAYTAS--SLDAQPEEDDAEGA-LADRIGYEDHGLEGI----EYVESLKPL 249 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L PR+R+I R + +T + E +S+ V ++ +R K+++ + Sbjct: 250 IAE----LPPRDRKILSLRFVAG--MTQSEIGEELGISQMHVSRLLSRTLVKLRKGL 300 >gi|229093408|ref|ZP_04224513.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-42] gi|228690002|gb|EEL43805.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-42] Length = 258 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 46 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 105 Query: 103 TYSMWWI 109 TY+ I Sbjct: 106 TYAARCI 112 >gi|188586048|ref|YP_001917593.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350735|gb|ACB85005.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Natranaerobius thermophilus JW/NM-WN-LF] Length = 250 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 58/258 (22%), Positives = 118/258 (45%), Gaps = 23/258 (8%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIA--MGYRGY-GLPISEVVSEGNIGLMQAVKKF 93 L Y++ GD +L++ + LV K + Y GL +++S G IGL+ A+KKF Sbjct: 5 LITSYQDSGDRQQLEKLISEYSYLVKKQVDKVNYPSISGLNRDDLISFGVIGLIDAIKKF 64 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 D R Y+ I+ A+ + LR + V K L R+L+ L NN Sbjct: 65 DINRNVPFEAYANIRIRGAILDG-LRKFDFVPRNLREEMKTLHSEYRKLEQKLGRTPTNN 123 Query: 154 LKPEQVVAIAKKLNVSESEVISM----NCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 +A ++++SE+E+ + NC + L+ I ++++ +D + Sbjct: 124 -------ELAYQMSISEAELDKLWQATNCVIPS--YLSDYI-TAEEGELTLEDIYPDSNS 173 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 Q I++ K + L +++ L +E+ + +E +TL+ ++ E++ R+ Sbjct: 174 PDPQSRIDE---KTTKQELGQAIDTLPQKEKLVLSLYYYEE--LTLKEIAKILELTESRI 228 Query: 270 RQIEARAFKKVQESIQKQ 287 Q+ ++A +++ + K+ Sbjct: 229 SQLHSKAVLRLRGKLAKK 246 >gi|333023850|ref|ZP_08451914.1| putative RNA polymerase sigma-F factor [Streptomyces sp. Tu6071] gi|332743702|gb|EGJ74143.1| putative RNA polymerase sigma-F factor [Streptomyces sp. Tu6071] Length = 294 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 56/218 (25%), Positives = 102/218 (46%), Gaps = 23/218 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL++A+ +FD R ++++ +I ++ Y S V + + R Sbjct: 88 MEDILQVGTIGLIKAIDRFDLTREAEFTSFAIPYIVGEIKRYFRDSTWAVHVPRRLQELR 147 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + +L R K L D + V +A +LN+SE EVI G +SL+ +S Sbjct: 148 V--DLARAKERLAVELDRD---PGVKELAAELNISEEEVIDGLIAANGYMSDSLDLPADS 202 Query: 193 SD------KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 S K ++ + D+L D D +++ E R +L L+ RER + E R Sbjct: 203 STSGKPDQKTATTYADFL-GDWDPAMELV---ENFTALRPLL----GTLDDRERYLLELR 254 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 QE +T + +E VS+ V ++ +R K++E + Sbjct: 255 FGQE--LTQAQIGAELGVSQMHVSRLLSRTLGKLREGL 290 >gi|229917800|ref|YP_002886446.1| RNA polymerase sigma factor SigB [Exiguobacterium sp. AT1b] gi|229469229|gb|ACQ71001.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Exiguobacterium sp. AT1b] Length = 266 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 56/236 (23%), Positives = 119/236 (50%), Gaps = 18/236 (7%) Query: 53 LVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 L+ + LV +A + RG + ++V G IGL+ A+++FDPE G ++++ I Sbjct: 35 LINRYSDLVEALARKFSRGRAIH-DDLVQVGMIGLLAALRRFDPEFGRSFESFAVPTIIG 93 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ +I ++WS+ +R+ ++K ++ +T + ++ IA L VS+ Sbjct: 94 EIKRFIRDKTWSV------HVPRRIKELGPKIKKTVEELTTELQRSPRIDEIADHLGVSD 147 Query: 171 SEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 E++ L +S AL ++SS + ++ + D G ++ E ++R +L Sbjct: 148 EEILET---LEMGKSYQALSVDSSIEADNEGSTVTLLDLVGSQE---RGYESVDQRLILE 201 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ +VLN RER I E + ++ + +S+ V +++ RA +K++E+I+ Sbjct: 202 KAFNVLNERERAILECAYYKN--MSQKETGELLGISQMHVSRLQRRALEKLREAIK 255 >gi|75761264|ref|ZP_00741246.1| RNA polymerase sigma-K factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74491246|gb|EAO54480.1| RNA polymerase sigma-K factor [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 271 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 77 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 136 Query: 103 TYSMWWI 109 TY+ I Sbjct: 137 TYAARCI 143 >gi|318041689|ref|ZP_07973645.1| RNA polymerase sigma factor SigF [Synechococcus sp. CB0101] Length = 263 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 18/46 (39%), Positives = 31/46 (67%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 G ++ EG GL++AV++FDP RG L+T ++ WI+ A++ Y+ Sbjct: 53 GHSFDDLTQEGCFGLIKAVERFDPGRGHSLSTAAVPWIRGAIRHYL 98 >gi|118479504|ref|YP_896655.1| sporulation sigma factor SigK [Bacillus thuringiensis str. Al Hakam] gi|118418729|gb|ABK87148.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Bacillus thuringiensis str. Al Hakam] Length = 271 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 77 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 136 Query: 103 TYSMWWI 109 TY+ I Sbjct: 137 TYAARCI 143 >gi|308069565|ref|YP_003871170.1| RNA polymerase sigma-F factor (stage II sporulation protein AC) (sporulation sigma factor) [Paenibacillus polymyxa E681] gi|305858844|gb|ADM70632.1| RNA polymerase sigma-F factor (Stage II sporulation protein AC) (Sporulation sigma factor) [Paenibacillus polymyxa E681] Length = 251 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 59/251 (23%), Positives = 114/251 (45%), Gaps = 36/251 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV S++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDNEARETLVNSNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKSVDKFDLSYEVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 TY++ I +Q + LR +K+ TAN+ +R++K L N P Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSLKETANK------VRKMKDELSKRL--NRLP-T 135 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQ 213 V +A +L V+ +V+ ++K + + V+++DG +Q Sbjct: 136 VKEVADELGVTPEDVV--------------FAQEANKPPTSIHE-TVFENDGDPITLMDQ 180 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + E +ER + L ++ L+ RER I R ++ T ++S +S+ +V ++E Sbjct: 181 IADESQERWFDKLALNEAIGGLSERERLIVYLRYYRDQ--TQSEVASRLGISQVQVSRLE 238 Query: 274 ARAFKKVQESI 284 + + +++ I Sbjct: 239 KKILQLIRDQI 249 >gi|228993082|ref|ZP_04153005.1| RNA polymerase sigma-28 factor [Bacillus pseudomycoides DSM 12442] gi|228999132|ref|ZP_04158714.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock3-17] gi|229006680|ref|ZP_04164314.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock1-4] gi|228754541|gb|EEM03952.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock1-4] gi|228760749|gb|EEM09713.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock3-17] gi|228766730|gb|EEM15370.1| RNA polymerase sigma-28 factor [Bacillus pseudomycoides DSM 12442] Length = 228 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 34 EQGDAHARNLLIEHNLRLVAHIVKKFENTGEDSEDLISIGTIGLIKAIESYSAGKGTKLA 93 Query: 103 TYSMWWI 109 TY+ I Sbjct: 94 TYAARCI 100 >gi|11466545|ref|NP_044794.1| transcription initiation factor sigma [Reclinomonas americana] gi|2258375|gb|AAD11909.1| transcription initiation factor sigma [Reclinomonas americana] Length = 532 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 23/81 (28%), Positives = 44/81 (54%), Gaps = 6/81 (7%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYR--GYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 RE+ ++ +R++ +++ + I+ Y GY S+++ EG G+ A +KF RG Sbjct: 345 RENIKVTLKNRIIFNYMPYITTISKQYVKIGYQAQFSDLIQEGISGVSDAAEKFQLGRGV 404 Query: 100 RLATYSMWWIKAAMQEYILRS 120 R TY+ WW M Y++++ Sbjct: 405 RFLTYAYWW----MHNYMMKA 421 >gi|30261116|ref|NP_843493.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. Ames] gi|47526271|ref|YP_017620.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. 'Ames Ancestor'] gi|65318395|ref|ZP_00391354.1| COG1191: DNA-directed RNA polymerase specialized sigma subunit [Bacillus anthracis str. A2012] gi|165871654|ref|ZP_02216299.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0488] gi|167635453|ref|ZP_02393766.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0442] gi|167638886|ref|ZP_02397160.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0193] gi|170687593|ref|ZP_02878809.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0465] gi|170707965|ref|ZP_02898414.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0389] gi|177653505|ref|ZP_02935679.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0174] gi|190566700|ref|ZP_03019617.1| RNA polymerase sigma-B factor [Bacillus anthracis Tsiankovskii-I] gi|196037492|ref|ZP_03104803.1| RNA polymerase sigma-B factor [Bacillus cereus NVH0597-99] gi|227816152|ref|YP_002816161.1| RNA polymerase sigma-B factor [Bacillus anthracis str. CDC 684] gi|229604478|ref|YP_002865547.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0248] gi|254682827|ref|ZP_05146688.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. CNEVA-9066] gi|254725613|ref|ZP_05187395.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. A1055] gi|254734239|ref|ZP_05191952.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. Western North America USA6153] gi|254740112|ref|ZP_05197804.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. Kruger B] gi|254753453|ref|ZP_05205489.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. Vollum] gi|254758550|ref|ZP_05210577.1| RNA polymerase sigma factor SigB [Bacillus anthracis str. Australia 94] gi|17369088|sp|Q9K5J6|RPSB_BACAN RecName: Full=RNA polymerase sigma-B factor gi|8670945|emb|CAB95034.1| sigB [Bacillus anthracis] gi|30254730|gb|AAP24979.1| RNA polymerase sigma-B factor [Bacillus anthracis str. Ames] gi|47501419|gb|AAT30095.1| RNA polymerase sigma-B factor [Bacillus anthracis str. 'Ames Ancestor'] gi|164712555|gb|EDR18087.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0488] gi|167513016|gb|EDR88388.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0193] gi|167529071|gb|EDR91825.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0442] gi|170127125|gb|EDS96003.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0389] gi|170668406|gb|EDT19153.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0465] gi|172081309|gb|EDT66383.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0174] gi|190562252|gb|EDV16220.1| RNA polymerase sigma-B factor [Bacillus anthracis Tsiankovskii-I] gi|196031734|gb|EDX70330.1| RNA polymerase sigma-B factor [Bacillus cereus NVH0597-99] gi|227003869|gb|ACP13612.1| RNA polymerase sigma-B factor [Bacillus anthracis str. CDC 684] gi|229268886|gb|ACQ50523.1| RNA polymerase sigma-B factor [Bacillus anthracis str. A0248] Length = 257 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 61/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIAEFQQNQCGEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G EQ RR +L +VLN E+ + + E Sbjct: 172 SDGSSVARIESVGEVEQGYEQT--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 221 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 222 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 252 >gi|126700256|ref|YP_001089153.1| sporulation sigma factor SigG [Clostridium difficile 630] gi|254976235|ref|ZP_05272707.1| sporulation sigma factor SigG [Clostridium difficile QCD-66c26] gi|255093622|ref|ZP_05323100.1| sporulation sigma factor SigG [Clostridium difficile CIP 107932] gi|255101810|ref|ZP_05330787.1| sporulation sigma factor SigG [Clostridium difficile QCD-63q42] gi|255307677|ref|ZP_05351848.1| sporulation sigma factor SigG [Clostridium difficile ATCC 43255] gi|255315370|ref|ZP_05356953.1| sporulation sigma factor SigG [Clostridium difficile QCD-76w55] gi|255518035|ref|ZP_05385711.1| sporulation sigma factor SigG [Clostridium difficile QCD-97b34] gi|255651151|ref|ZP_05398053.1| sporulation sigma factor SigG [Clostridium difficile QCD-37x79] gi|255656619|ref|ZP_05402028.1| sporulation sigma factor SigG [Clostridium difficile QCD-23m63] gi|260684217|ref|YP_003215502.1| sporulation sigma factor SigG [Clostridium difficile CD196] gi|260687876|ref|YP_003219010.1| sporulation sigma factor SigG [Clostridium difficile R20291] gi|296449925|ref|ZP_06891689.1| RNA polymerase sigma-G factor [Clostridium difficile NAP08] gi|296878307|ref|ZP_06902315.1| RNA polymerase sigma-G factor [Clostridium difficile NAP07] gi|306521001|ref|ZP_07407348.1| sporulation sigma factor SigG [Clostridium difficile QCD-32g58] gi|115251693|emb|CAJ69528.1| RNA polymerase sigma-G factor [Clostridium difficile] gi|260210380|emb|CBA64761.1| RNA polymerase sigma-G factor [Clostridium difficile CD196] gi|260213893|emb|CBE05925.1| RNA polymerase sigma-G factor [Clostridium difficile R20291] gi|296261195|gb|EFH08026.1| RNA polymerase sigma-G factor [Clostridium difficile NAP08] gi|296430605|gb|EFH16444.1| RNA polymerase sigma-G factor [Clostridium difficile NAP07] Length = 257 Score = 47.4 bits (111), Expect = 0.002, Method: Compositional matrix adjust. Identities = 22/75 (29%), Positives = 41/75 (54%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A + V +LRLV+ + + G I ++ G IGL++A+ FD + R + Sbjct: 32 KNGDEEARQQFVRGNLRLVLSVIKKFNNRGENIDDLFQIGCIGLIKAIDNFDLSQNVRFS 91 Query: 103 TYSMWWIKAAMQEYI 117 TY++ I ++ Y+ Sbjct: 92 TYAVPMIIGEIRRYL 106 >gi|261419446|ref|YP_003253128.1| RNA polymerase sigma factor SigD [Geobacillus sp. Y412MC61] gi|319766261|ref|YP_004131762.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. Y412MC52] gi|261375903|gb|ACX78646.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. Y412MC61] gi|317111127|gb|ADU93619.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. Y412MC52] Length = 251 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 60/249 (24%), Positives = 113/249 (45%), Gaps = 21/249 (8%) Query: 44 HG-DLSAAHRLVTSHLRLV---VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 HG D AA LV ++ LV V+ +P E+VS G +GL A++KFDP R Sbjct: 18 HGRDRHAAEELVQRYMPLVFYHVQRLSATLPSSVPKDELVSLGLVGLYDALEKFDPSRDL 77 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG-HLQAITDNNLKPEQ 158 + TY+ + I+ A+ + LR + K++ + RL+ H++++T Sbjct: 78 KFDTYASFRIRGAILDG-LRKEDWLPRSMRDKAKKIEGAIERLEQRHMRSVTAKE----- 131 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +L ++E EV + A E+ + + + + L+ D + + E+ Sbjct: 132 ---IAAELGMTEEEV-----QAAASETFFSHWLPLGQTTVDEDEGLLSVRDDRAPLPEEQ 183 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 ++ L ++ LN +E+ + +E +T + S +S R+ QI A+A Sbjct: 184 IVKQEMIEKLAEAIGQLNEKEQLVISLFYKEE--LTFTEIGSLLHLSTSRISQIHAKALW 241 Query: 279 KVQESIQKQ 287 K++ +K+ Sbjct: 242 KLRRFFEKE 250 >gi|30022159|ref|NP_833790.1| sporulation sigma factor SigF [Bacillus cereus ATCC 14579] gi|30264150|ref|NP_846527.1| sporulation sigma factor SigF [Bacillus anthracis str. Ames] gi|42783188|ref|NP_980435.1| sporulation sigma factor SigF [Bacillus cereus ATCC 10987] gi|47529588|ref|YP_020937.1| sporulation sigma factor SigF [Bacillus anthracis str. 'Ames Ancestor'] gi|47568126|ref|ZP_00238830.1| sigma-B, putative [Bacillus cereus G9241] gi|49186981|ref|YP_030233.1| sporulation sigma factor SigF [Bacillus anthracis str. Sterne] gi|49478518|ref|YP_038132.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141420|ref|YP_085409.1| sporulation sigma factor SigF [Bacillus cereus E33L] gi|65321467|ref|ZP_00394426.1| COG1191: DNA-directed RNA polymerase specialized sigma subunit [Bacillus anthracis str. A2012] gi|75762406|ref|ZP_00742276.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|118479276|ref|YP_896427.1| sporulation sigma factor SigF [Bacillus thuringiensis str. Al Hakam] gi|165871124|ref|ZP_02215774.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0488] gi|167633745|ref|ZP_02392069.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0442] gi|167639441|ref|ZP_02397712.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0193] gi|170687128|ref|ZP_02878346.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0465] gi|170705887|ref|ZP_02896350.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0389] gi|177652593|ref|ZP_02935009.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0174] gi|190565830|ref|ZP_03018749.1| RNA polymerase sigma-F factor [Bacillus anthracis Tsiankovskii-I] gi|196035002|ref|ZP_03102409.1| RNA polymerase sigma-F factor [Bacillus cereus W] gi|196045861|ref|ZP_03113090.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB108] gi|206971277|ref|ZP_03232228.1| RNA polymerase sigma-F factor [Bacillus cereus AH1134] gi|206977400|ref|ZP_03238296.1| RNA polymerase sigma-F factor [Bacillus cereus H3081.97] gi|217961566|ref|YP_002340136.1| sporulation sigma factor SigF [Bacillus cereus AH187] gi|218234550|ref|YP_002368877.1| sporulation sigma factor SigF [Bacillus cereus B4264] gi|218899234|ref|YP_002447645.1| RNA polymerase sigma-F factor [Bacillus cereus G9842] gi|218905210|ref|YP_002453044.1| RNA polymerase sigma-F factor [Bacillus cereus AH820] gi|222097523|ref|YP_002531580.1| sporulation sigma factor sigf [Bacillus cereus Q1] gi|225866059|ref|YP_002751437.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB102] gi|227816852|ref|YP_002816861.1| RNA polymerase sigma-F factor [Bacillus anthracis str. CDC 684] gi|228902583|ref|ZP_04066734.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 4222] gi|228909904|ref|ZP_04073725.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 200] gi|228916713|ref|ZP_04080278.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228922825|ref|ZP_04086123.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228929122|ref|ZP_04092149.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935394|ref|ZP_04098212.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228941224|ref|ZP_04103777.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228947793|ref|ZP_04110080.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228954358|ref|ZP_04116384.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960339|ref|ZP_04121992.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228967106|ref|ZP_04128142.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228974156|ref|ZP_04134726.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980748|ref|ZP_04141053.1| RNA polymerase sigma-F factor [Bacillus thuringiensis Bt407] gi|228987264|ref|ZP_04147385.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229019284|ref|ZP_04176110.1| RNA polymerase sigma-F factor [Bacillus cereus AH1273] gi|229025528|ref|ZP_04181938.1| RNA polymerase sigma-F factor [Bacillus cereus AH1272] gi|229047765|ref|ZP_04193345.1| RNA polymerase sigma-F factor [Bacillus cereus AH676] gi|229071577|ref|ZP_04204795.1| RNA polymerase sigma-F factor [Bacillus cereus F65185] gi|229081330|ref|ZP_04213833.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-2] gi|229093131|ref|ZP_04224253.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-42] gi|229111546|ref|ZP_04241097.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-15] gi|229123596|ref|ZP_04252791.1| RNA polymerase sigma-F factor [Bacillus cereus 95/8201] gi|229129353|ref|ZP_04258324.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-Cer4] gi|229140809|ref|ZP_04269354.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST26] gi|229146647|ref|ZP_04275014.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST24] gi|229152275|ref|ZP_04280468.1| RNA polymerase sigma-F factor [Bacillus cereus m1550] gi|229157657|ref|ZP_04285732.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 4342] gi|229186319|ref|ZP_04313484.1| RNA polymerase sigma-F factor [Bacillus cereus BGSC 6E1] gi|229192285|ref|ZP_04319250.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 10876] gi|229198196|ref|ZP_04324905.1| RNA polymerase sigma-F factor [Bacillus cereus m1293] gi|229603990|ref|YP_002868374.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0248] gi|254683842|ref|ZP_05147702.1| sporulation sigma factor SigF [Bacillus anthracis str. CNEVA-9066] gi|254721677|ref|ZP_05183466.1| sporulation sigma factor SigF [Bacillus anthracis str. A1055] gi|254736189|ref|ZP_05193895.1| sporulation sigma factor SigF [Bacillus anthracis str. Western North America USA6153] gi|254744078|ref|ZP_05201761.1| sporulation sigma factor SigF [Bacillus anthracis str. Kruger B] gi|254754142|ref|ZP_05206177.1| sporulation sigma factor SigF [Bacillus anthracis str. Vollum] gi|254758168|ref|ZP_05210195.1| sporulation sigma factor SigF [Bacillus anthracis str. Australia 94] gi|296504567|ref|YP_003666267.1| sporulation sigma factor SigF [Bacillus thuringiensis BMB171] gi|301055569|ref|YP_003793780.1| sporulation sigma factor SigF [Bacillus anthracis CI] gi|29897716|gb|AAP10991.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 14579] gi|30258795|gb|AAP28013.1| RNA polymerase sigma-F factor [Bacillus anthracis str. Ames] gi|42739116|gb|AAS43043.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 10987] gi|47504736|gb|AAT33412.1| RNA polymerase sigma-F factor [Bacillus anthracis str. 'Ames Ancestor'] gi|47555116|gb|EAL13463.1| sigma-B, putative [Bacillus cereus G9241] gi|49180908|gb|AAT56284.1| RNA polymerase sigma-F factor [Bacillus anthracis str. Sterne] gi|49330074|gb|AAT60720.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51974889|gb|AAU16439.1| RNA polymerase sigma-F factor [Bacillus cereus E33L] gi|74490099|gb|EAO53445.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|118418501|gb|ABK86920.1| RNA polymerase, sigma subunit, RpoX/SigF [Bacillus thuringiensis str. Al Hakam] gi|164713043|gb|EDR18570.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0488] gi|167512500|gb|EDR87875.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0193] gi|167531151|gb|EDR93838.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0442] gi|170129427|gb|EDS98291.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0389] gi|170668745|gb|EDT19490.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0465] gi|172081928|gb|EDT66996.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0174] gi|190562749|gb|EDV16715.1| RNA polymerase sigma-F factor [Bacillus anthracis Tsiankovskii-I] gi|195992541|gb|EDX56502.1| RNA polymerase sigma-F factor [Bacillus cereus W] gi|196023301|gb|EDX61979.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB108] gi|206734049|gb|EDZ51220.1| RNA polymerase sigma-F factor [Bacillus cereus AH1134] gi|206744391|gb|EDZ55802.1| RNA polymerase sigma-F factor [Bacillus cereus H3081.97] gi|217063378|gb|ACJ77628.1| RNA polymerase sigma-F factor [Bacillus cereus AH187] gi|218162507|gb|ACK62499.1| RNA polymerase sigma-F factor [Bacillus cereus B4264] gi|218540139|gb|ACK92537.1| RNA polymerase sigma-F factor [Bacillus cereus AH820] gi|218540957|gb|ACK93351.1| RNA polymerase sigma-F factor [Bacillus cereus G9842] gi|221241581|gb|ACM14291.1| RNA polymerase sigma-F factor [Bacillus cereus Q1] gi|225790809|gb|ACO31026.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB102] gi|227007915|gb|ACP17658.1| RNA polymerase sigma-F factor [Bacillus anthracis str. CDC 684] gi|228585356|gb|EEK43465.1| RNA polymerase sigma-F factor [Bacillus cereus m1293] gi|228591235|gb|EEK49089.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 10876] gi|228597113|gb|EEK54768.1| RNA polymerase sigma-F factor [Bacillus cereus BGSC 6E1] gi|228625614|gb|EEK82366.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 4342] gi|228631237|gb|EEK87873.1| RNA polymerase sigma-F factor [Bacillus cereus m1550] gi|228636817|gb|EEK93280.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST24] gi|228642599|gb|EEK98885.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST26] gi|228653958|gb|EEL09825.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-Cer4] gi|228659731|gb|EEL15376.1| RNA polymerase sigma-F factor [Bacillus cereus 95/8201] gi|228671928|gb|EEL27221.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-15] gi|228690280|gb|EEL44073.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-42] gi|228701952|gb|EEL54435.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-2] gi|228711513|gb|EEL63470.1| RNA polymerase sigma-F factor [Bacillus cereus F65185] gi|228723557|gb|EEL74922.1| RNA polymerase sigma-F factor [Bacillus cereus AH676] gi|228735810|gb|EEL86395.1| RNA polymerase sigma-F factor [Bacillus cereus AH1272] gi|228741969|gb|EEL92143.1| RNA polymerase sigma-F factor [Bacillus cereus AH1273] gi|228772493|gb|EEM20938.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228778917|gb|EEM27179.1| RNA polymerase sigma-F factor [Bacillus thuringiensis Bt407] gi|228785496|gb|EEM33505.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228792475|gb|EEM40041.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228799363|gb|EEM46327.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228805290|gb|EEM51883.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228811780|gb|EEM58114.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228818383|gb|EEM64455.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228824146|gb|EEM69960.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830412|gb|EEM76022.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228836880|gb|EEM82223.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228842900|gb|EEM87983.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228849739|gb|EEM94572.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 200] gi|228857024|gb|EEN01533.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 4222] gi|229268398|gb|ACQ50035.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0248] gi|296325619|gb|ADH08547.1| sporulation sigma factor SigF [Bacillus thuringiensis BMB171] gi|300377738|gb|ADK06642.1| sporulation sigma factor SigF [Bacillus cereus biovar anthracis str. CI] gi|324327980|gb|ADY23240.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar finitimus YBT-020] gi|326941847|gb|AEA17743.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar chinensis CT-43] Length = 252 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 49/190 (25%), Positives = 91/190 (47%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQKSQD-GDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R+++ Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMR 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEFGRAPTINEVAEALELTPEEVV-LAQEASRAPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D++ ++W D Sbjct: 183 ADQSETKWFD 192 >gi|42783467|ref|NP_980714.1| sporulation sigma factor SigK [Bacillus cereus ATCC 10987] gi|42739396|gb|AAS43322.1| RNA polymerase sigma-27 factor [Bacillus cereus ATCC 10987] Length = 265 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 23/67 (34%), Positives = 38/67 (56%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 71 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 130 Query: 103 TYSMWWI 109 TY+ I Sbjct: 131 TYAARCI 137 >gi|239930843|ref|ZP_04687796.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 308 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 107/238 (44%), Gaps = 26/238 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 87 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFEMSRGVEFPTFAMPTIIGE 146 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L ++ Sbjct: 147 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQQLD---RAPTVAELAERLGITND 200 Query: 172 EVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKNRRN 226 EV+ + N A SL+A D + D + Y+ G E + IE Sbjct: 201 EVVEGMAASNAYTAS--SLDAQPEEDDAEGA-LADRIGYEDHGLEGIEYIES-------- 249 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++ L PR+R+I R + +T + E +S+ V ++ +R K++ + Sbjct: 250 -LKPLIAELPPRDRKILSLRFVAG--MTQSEIGEELGISQMHVSRLLSRTLVKLRRGL 304 >gi|52144331|ref|YP_082499.1| RNA polymerase sigma factor SigB [Bacillus cereus E33L] gi|51977800|gb|AAU19350.1| RNA polymerase sigma-B factor [Bacillus cereus E33L] Length = 258 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 61/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 3 EIQSQPTNLTKEDVIKLIAEFQQNQCGEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 62 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 63 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 115 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 116 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 172 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G EQ RR +L +VLN E+ + + E Sbjct: 173 SDGSSVARIESVGEVEQGYEQT--------ERRLVLEDIFNVLNETEKSVI--HYIFEEN 222 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 223 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 253 >gi|303282119|ref|XP_003060351.1| predicted protein [Micromonas pusilla CCMP1545] gi|226457822|gb|EEH55120.1| predicted protein [Micromonas pusilla CCMP1545] Length = 425 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 17/38 (44%), Positives = 25/38 (65%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 L +S++ EG GL QA KFDP RG++ +TY+ W + Sbjct: 96 LSVSDLAQEGCAGLAQAADKFDPSRGYKFSTYAYNWTR 133 >gi|196035080|ref|ZP_03102486.1| RNA polymerase sigma-B factor [Bacillus cereus W] gi|195992144|gb|EDX56106.1| RNA polymerase sigma-B factor [Bacillus cereus W] Length = 257 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 61/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIAEFQQNQCGEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G EQ RR +L +VLN E+ + + E Sbjct: 172 SDGSSVARIESVGEVEQGYEQT--------ERRLVLEDIFNVLNETEKSVI--HYIFEEN 221 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 222 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 252 >gi|72160963|ref|YP_288620.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71914695|gb|AAZ54597.1| RNA polymerase sigma factor [Thermobifida fusca YX] Length = 267 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 57/240 (23%), Positives = 112/240 (46%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV +A +R G + ++ IGL++++ +FD RG +TY+ I Sbjct: 46 LVELHLPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFDLSRGVEFSTYATPTIVGE 105 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + W+ V++ + +L L + ++ + + V +A+ L +SE Sbjct: 106 IKRHFRDKGWA-VRVPRRLQELKL-----SLTKAVSELSQRHGRAPTVAELAEYLKMSEE 159 Query: 172 EVISMNCRLAGDESLNAL-------INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV L G ES NA ++ D+++ D L + E V E R++ Sbjct: 160 EV------LEGLESANAYSTVSLDAPDNGDEDAPAVADSLGIMDESLEGV----EYRESL 209 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + +L R L PRE++I R +T +++E +S+ V ++ AR ++++++ Sbjct: 210 KPLLER----LPPREKKILLLRFF--GNMTQSQIAAELGISQMHVSRLLARTLAQLRQAL 263 >gi|125973527|ref|YP_001037437.1| sporulation sigma factor SigK [Clostridium thermocellum ATCC 27405] gi|256003345|ref|ZP_05428336.1| RNA polymerase, sigma 28 subunit, SigK [Clostridium thermocellum DSM 2360] gi|281417730|ref|ZP_06248750.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium thermocellum JW20] gi|125713752|gb|ABN52244.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Clostridium thermocellum ATCC 27405] gi|255992635|gb|EEU02726.1| RNA polymerase, sigma 28 subunit, SigK [Clostridium thermocellum DSM 2360] gi|281409132|gb|EFB39390.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium thermocellum JW20] gi|316940233|gb|ADU74267.1| RNA polymerase, sigma 28 subunit, SigK [Clostridium thermocellum DSM 1313] Length = 236 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 33/101 (32%), Positives = 48/101 (47%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I+N L YI + P EE + GD A + L+ +LRLV I Y Sbjct: 12 ILNNIFFLLGYISNVNSFPQPLSPEEEQHYLDLLKKGDEEARNILIERNLRLVAHIVKKY 71 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 +++S G IGL++A+ F+ E+G RLATY+ I Sbjct: 72 SSTINDSDDLISIGTIGLIKAISTFNHEKGTRLATYAARCI 112 >gi|229086642|ref|ZP_04218811.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-44] gi|228696724|gb|EEL49540.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-44] Length = 252 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 49/188 (26%), Positives = 89/188 (47%), Gaps = 17/188 (9%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQKSQD-GDQGARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R++K Sbjct: 68 IGLLKSVDKFDLSFEVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMK 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEYGRAPTINEVAEALELTPEEVV-LAQEASRTPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQW 200 +D+ ++W Sbjct: 183 ADQTETKW 190 >gi|325288838|ref|YP_004265019.1| RNA polymerase, sigma subunit, RpsG/SigG [Syntrophobotulus glycolicus DSM 8271] gi|324964239|gb|ADY55018.1| RNA polymerase, sigma subunit, RpsG/SigG [Syntrophobotulus glycolicus DSM 8271] Length = 257 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 56/248 (22%), Positives = 118/248 (47%), Gaps = 32/248 (12%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD + +L+ +LRLV+ + + G + ++ G IGLM+A+ FD + + +TY Sbjct: 34 GDGTIREQLIKGNLRLVLSVIQRFSNRGEHVDDLFQVGCIGLMKAIDNFDLSQNVKFSTY 93 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ Y LR + +++ + + + + +++ L T+ + +P + IA Sbjct: 94 AVPMIIGEIRRY-LRDNNSIRVSRSL--RDIAYKALQIRDKLA--TECSREP-TIQEIAA 147 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE--ERK 222 KL + EVI +L+A+ + S ++ +Y HDG + + + + + K Sbjct: 148 KLETPQEEVIL---------ALDAI----QEPVSLFEP--IY-HDGGDPIYVMDQIGDHK 191 Query: 223 NRRNMLTRSMSV------LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + S+S+ L RE+RI R Q T ++ E +S+ +V ++E A Sbjct: 192 QSDRIWLESLSIKEGIERLGEREKRIISLRFFQGK--TQMEVAEEIGISQAQVSRLEKAA 249 Query: 277 FKKVQESI 284 K +++ + Sbjct: 250 LKHMRKHV 257 >gi|291525957|emb|CBK91544.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium rectale DSM 17629] Length = 224 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 23/76 (30%), Positives = 42/76 (55%), Gaps = 1/76 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT ++ L+ + +R G+ ++ G +GL +A ++FD +GF +TY++ I Sbjct: 8 RLVTENINLIYLVMKRFRNRGVDREDLFQIGAVGLTKAAQRFDESKGFAFSTYAVPLIIG 67 Query: 112 AMQEYILRSWSLVKIG 127 +Q + LR +V I Sbjct: 68 EIQRF-LRDDGMVHIS 82 >gi|169831385|ref|YP_001717367.1| FliA/WhiG family RNA polymerase sigma factor [Candidatus Desulforudis audaxviator MP104C] gi|169638229|gb|ACA59735.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Desulforudis audaxviator MP104C] Length = 257 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 25/91 (27%), Positives = 49/91 (53%), Gaps = 1/91 (1%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+L+ +E L R + GD+ A L+ ++L+LV + + G G ++ G IGL Sbjct: 13 PLLKDRETRRLL-RLSQQGDVLARETLINANLKLVCNVIRRFEGRGYDPDDLFQIGCIGL 71 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++A+ KFD + +TY++ I ++ ++ Sbjct: 72 IKAIDKFDLRFKVKFSTYAVPMIIGEIRRFL 102 >gi|150021309|ref|YP_001306663.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermosipho melanesiensis BI429] gi|149793830|gb|ABR31278.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermosipho melanesiensis BI429] Length = 226 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 19/69 (27%), Positives = 45/69 (65%), Gaps = 3/69 (4%) Query: 52 RLVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 +++ +L + +IA + + + I +++ EG IGL+QA+++++P++G +L +Y + Sbjct: 6 KIIQEYLPYIKRIAYDLKKNLPHNIEIDDLIQEGLIGLLQAIERYNPKKGAKLRSYILTR 65 Query: 109 IKAAMQEYI 117 +K AM +Y+ Sbjct: 66 VKGAMYDYL 74 >gi|317133468|ref|YP_004092782.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Ethanoligenens harbinense YUAN-3] gi|315471447|gb|ADU28051.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Ethanoligenens harbinense YUAN-3] Length = 248 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 25/83 (30%), Positives = 47/83 (56%), Gaps = 3/83 (3%) Query: 41 YREHGDLSAAHRLVTSH---LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 YRE A +RLV + +R +V M G ++ S G IGL++A++KFD ++ Sbjct: 16 YRETRSREARNRLVLHYGWLVRAIVHRVMSVSGSYAESDDLTSCGTIGLIKAIEKFDSDK 75 Query: 98 GFRLATYSMWWIKAAMQEYILRS 120 G + +T++ + I+ + +++ RS Sbjct: 76 GVQFSTFATYRIRGEILDFVRRS 98 >gi|229180352|ref|ZP_04307695.1| RNA polymerase sigma-F factor [Bacillus cereus 172560W] gi|228603099|gb|EEK60577.1| RNA polymerase sigma-F factor [Bacillus cereus 172560W] Length = 252 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 49/190 (25%), Positives = 91/190 (47%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQKSQD-GDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R+++ Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMR 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEFGRAPTINEVAEALELTPEEVV-LAQEASRAPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D++ ++W D Sbjct: 183 ADQSEAKWFD 192 >gi|163941815|ref|YP_001646699.1| sporulation sigma factor SigF [Bacillus weihenstephanensis KBAB4] gi|229013283|ref|ZP_04170424.1| RNA polymerase sigma-F factor [Bacillus mycoides DSM 2048] gi|229061746|ref|ZP_04199079.1| RNA polymerase sigma-F factor [Bacillus cereus AH603] gi|229134882|ref|ZP_04263689.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST196] gi|229168817|ref|ZP_04296536.1| RNA polymerase sigma-F factor [Bacillus cereus AH621] gi|163864012|gb|ABY45071.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] gi|228614665|gb|EEK71771.1| RNA polymerase sigma-F factor [Bacillus cereus AH621] gi|228648557|gb|EEL04585.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST196] gi|228717492|gb|EEL69156.1| RNA polymerase sigma-F factor [Bacillus cereus AH603] gi|228748050|gb|EEL97914.1| RNA polymerase sigma-F factor [Bacillus mycoides DSM 2048] Length = 252 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 49/190 (25%), Positives = 91/190 (47%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQKSQD-GDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R+++ Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKVRKMR 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEFGRAPTINEVAQALELTPEEVV-LAQEASRAPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D++ ++W D Sbjct: 183 ADQSETKWFD 192 >gi|291439213|ref|ZP_06578603.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291342108|gb|EFE69064.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 304 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 107/238 (44%), Gaps = 26/238 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 83 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFEMSRGVEFPTFAMPTIIGE 142 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L ++ Sbjct: 143 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQQLD---RAPTVAELAERLGITND 196 Query: 172 EVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKNRRN 226 EV+ + N A SL+A D + D + Y+ G E + IE Sbjct: 197 EVVEGMAASNAYTAS--SLDAQPEEDDAEGA-LADRIGYEDHGLEGIEYIES-------- 245 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++ L PR+R+I R + +T + E +S+ V ++ +R K++ + Sbjct: 246 -LKPLIAELPPRDRKILSLRFVAG--MTQSEIGEELGISQMHVSRLLSRTLVKLRRGL 300 >gi|317055222|ref|YP_004103689.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Ruminococcus albus 7] gi|315447491|gb|ADU21055.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ruminococcus albus 7] Length = 127 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 26/70 (37%), Positives = 37/70 (52%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A L+ +LRLV I Y +++S G IGL++AV+ FD +G R ATY Sbjct: 48 GDAGARDTLIRHNLRLVAHIIKKYYANSSDQDDLISIGTIGLIKAVQTFDYTKGTRFATY 107 Query: 105 SMWWIKAAMQ 114 ++ A Q Sbjct: 108 GSRCVENATQ 117 >gi|291527309|emb|CBK92895.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium rectale M104/1] Length = 224 Score = 47.4 bits (111), Expect = 0.003, Method: Compositional matrix adjust. Identities = 23/76 (30%), Positives = 42/76 (55%), Gaps = 1/76 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT ++ L+ + +R G+ ++ G +GL +A ++FD +GF +TY++ I Sbjct: 8 RLVTENINLIYLVMKRFRNRGVDREDLFQIGAVGLTKAAQRFDESKGFAFSTYAVPLIIG 67 Query: 112 AMQEYILRSWSLVKIG 127 +Q + LR +V I Sbjct: 68 EIQRF-LRDDGMVHIS 82 >gi|229543758|ref|ZP_04432818.1| RNA polymerase, sigma 28 subunit, SigK [Bacillus coagulans 36D1] gi|229328178|gb|EEN93853.1| RNA polymerase, sigma 28 subunit, SigK [Bacillus coagulans 36D1] Length = 241 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 1/81 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L EE KR E GD A + L+ +LRLV I + G +++S G IGL++ Sbjct: 31 LSASEERKYLKRMAE-GDADARNILIEHNLRLVAHIVKKFENTGEDTEDLISIGTIGLIK 89 Query: 89 AVKKFDPERGFRLATYSMWWI 109 A++ + +G +LATY+ I Sbjct: 90 AIESYSEGKGTKLATYAARCI 110 >gi|330466807|ref|YP_004404550.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily protein [Verrucosispora maris AB-18-032] gi|328809778|gb|AEB43950.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily protein [Verrucosispora maris AB-18-032] Length = 273 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 100/240 (41%), Gaps = 34/240 (14%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R + + L L +A Y G G P ++ +GL++A+ KFDP RG A Y++ I Sbjct: 51 RAIEAWLPLANHLAHRYSGRGEPTDDLAQTAAVGLIKAIDKFDPTRGVDFAGYAIPTIIG 110 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV---------VA 161 ++ + R+W +++ RRL+ AI+D N Q +A Sbjct: 111 ELKRHFRDRTWD-IRVP------------RRLQELRLAISDANSSLLQTLGRSPTVADIA 157 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 KL E R SL+ D+ +++ D L G E E E Sbjct: 158 AHLKLTEEEVLEGLEGARAYNAVSLSTPTGDGDR-ATELGDML-----GGEDSEFELAE- 210 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L +++ L+ RE++I R +T ++ + VS+ V ++ ARA K++ Sbjct: 211 --LRVALGPALATLDEREQKILTLRFYGN--LTQSQIAEQIGVSQMHVSRLLARALTKLR 266 >gi|313624456|gb|EFR94462.1| RNA polymerase sigma-B factor [Listeria innocua FSL J1-023] Length = 215 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 53/223 (23%), Positives = 109/223 (48%), Gaps = 36/223 (16%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 ++V GNIGL+ A++++D G +++ I ++ ++ ++WS+ +R+ Sbjct: 14 DLVQVGNIGLLGAIRRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRI 67 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNC-----RLAGDESLNAL 189 ++K ++ +T Q+ IA + V+E EV+ +M L+ D S+ A Sbjct: 68 KELGPKIKNAVEELTRELQSSPQISDIADFIGVTEEEVLEAMEMGKSYQALSVDHSIEA- 126 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 SD ++ D + DG E+V N+R +L + + VL+ RE++I + Sbjct: 127 --DSDGSTITLLDVVGGTDDGFERV--------NQRMLLEKVLPVLDEREQKILQY---- 172 Query: 250 ENPVTLENLSSE-----FEVSRERVRQIEARAFKKVQESIQKQ 287 +EN S + ++S+ V +I+ +A KK++E++Q + Sbjct: 173 ---TFIENRSQKETGELLDISQMHVSRIQRQAIKKLREALQNE 212 >gi|270620051|ref|ZP_06221855.1| RNA polymerase sigma-32 factor [Haemophilus influenzae HK1212] gi|270317775|gb|EFA29151.1| RNA polymerase sigma-32 factor [Haemophilus influenzae HK1212] Length = 108 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 21/57 (36%), Positives = 38/57 (66%) Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++ L+ R + I +AR L +N TL +L++++ VS ER+RQ+E A KK++ ++ Sbjct: 50 LGAALQSLDARSQDIIKARWLDDNKATLHDLAAKYNVSAERIRQLETNALKKLKSAV 106 >gi|238924921|ref|YP_002938437.1| RNA polymerase sigma-F factor [Eubacterium rectale ATCC 33656] gi|238876596|gb|ACR76303.1| RNA polymerase sigma-F factor [Eubacterium rectale ATCC 33656] Length = 224 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 23/76 (30%), Positives = 42/76 (55%), Gaps = 1/76 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT ++ L+ + +R G+ ++ G +GL +A ++FD +GF +TY++ I Sbjct: 8 RLVTENINLIYLVMKRFRNRGVDREDLFQIGAVGLTKAAQRFDESKGFAFSTYAVPLIIG 67 Query: 112 AMQEYILRSWSLVKIG 127 +Q + LR +V I Sbjct: 68 EIQRF-LRDDGMVHIS 82 >gi|229031716|ref|ZP_04187709.1| RNA polymerase sigma-F factor [Bacillus cereus AH1271] gi|228729600|gb|EEL80587.1| RNA polymerase sigma-F factor [Bacillus cereus AH1271] Length = 252 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 49/190 (25%), Positives = 91/190 (47%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQQSQD-GDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R+++ Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMR 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEFGRAPTINEVAEALELTPEEVV-LAQEASRAPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D++ ++W D Sbjct: 183 ADQSETKWFD 192 >gi|297530579|ref|YP_003671854.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|297253831|gb|ADI27277.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] Length = 251 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 60/249 (24%), Positives = 113/249 (45%), Gaps = 21/249 (8%) Query: 44 HG-DLSAAHRLVTSHLRLV---VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 HG D AA LV ++ LV V+ +P E+VS G +GL A++KFDP R Sbjct: 18 HGRDRHAAEELVQRYMPLVFYHVQRLSATLPSSVPKDELVSLGLVGLYDALEKFDPSRDL 77 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG-HLQAITDNNLKPEQ 158 + TY+ + I+ A+ + LR + K++ + RL+ H++++T Sbjct: 78 KFDTYASFRIRGAILDG-LRKEDWLPRSMRDKAKKIEEAIERLEQRHMRSVTAKE----- 131 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +L ++E EV + A E+ + + + + L+ D + + E+ Sbjct: 132 ---IAAELGMTEEEV-----QAAASETFFSHWLPLGQTTVDEDEGLLSVRDDRAPLPEEQ 183 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 ++ L ++ LN +E+ + +E +T + S +S R+ QI A+A Sbjct: 184 IVKQEMIEKLAEAIGQLNEKEQLVISLFYKEE--LTFTEIGSLLHLSTSRISQIHAKALW 241 Query: 279 KVQESIQKQ 287 K++ +K+ Sbjct: 242 KLRRFFEKE 250 >gi|56419781|ref|YP_147099.1| RNA polymerase sigma factor SigD [Geobacillus kaustophilus HTA426] gi|56379623|dbj|BAD75531.1| DNA-directed RNA polymerase sigma-28 factor (sigma-D) [Geobacillus kaustophilus HTA426] Length = 251 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 60/249 (24%), Positives = 113/249 (45%), Gaps = 21/249 (8%) Query: 44 HG-DLSAAHRLVTSHLRLV---VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 HG D AA LV ++ LV V+ +P E+VS G +GL A++KFDP R Sbjct: 18 HGRDRHAAEELVQRYMPLVFYHVQRLSATLPSSVPKDELVSLGLVGLYDALEKFDPSRDL 77 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG-HLQAITDNNLKPEQ 158 + TY+ + I+ A+ + LR + K++ + RL+ H++++T Sbjct: 78 KFDTYASFRIRGAILDG-LRKEDWLPRSMRDKAKKIEEAIERLEQRHMRSVTAKE----- 131 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +L ++E EV + A E+ + + + + L+ D + + E+ Sbjct: 132 ---IAAELGMTEEEV-----QAAASETFFSHWLPLGQTTVDEDEGLLAVRDDRAPLPEEQ 183 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 ++ L ++ LN +E+ + +E +T + S +S R+ QI A+A Sbjct: 184 IVKQEMIEKLAEAIGQLNEKEQLVISLFYKEE--LTFTEIGSLLHLSTSRISQIHAKALW 241 Query: 279 KVQESIQKQ 287 K++ +K+ Sbjct: 242 KLRRFFEKE 250 >gi|318040084|ref|ZP_07972040.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 310 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 59/258 (22%), Positives = 106/258 (41%), Gaps = 37/258 (14%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLP-----ISEVVSEGNIGLMQAVKKFDPERGFRL 101 L A +LV +L LV G LP ++ + E + L++A +KFDP +G+R Sbjct: 59 LRAREQLVRHNLGLVAHT-WGRHRCSLPAHDDTTADALQEAALNLVRAAEKFDPAKGYRF 117 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 +TY+ +W++ E+ R+ ++ A + + RL QA T + E + A Sbjct: 118 STYATFWVRRGFTEFEQRAKRAIRF--PAEKAAVVLKALRLSQQHQASTGDEPSLEWLAA 175 Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 K + + E L I D + D + DG E+ + + Sbjct: 176 QLK-----------FDGKAMSAEQLAEFIRQWDATRTGSLD--GAEDDGDEKGGCTRLDL 222 Query: 222 KN---------------RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL-SSEFEVS 265 + + L + MS L+ +E R+ R L+ P++ L S + Sbjct: 223 ASLQQAAEQQQTQEPDPQHAALPQLMSCLDEQEHRLIRNRYLRRPPLSPCQLRRSMGGMQ 282 Query: 266 RERVRQIEARAFKKVQES 283 ER+ Q+EA A K++++ Sbjct: 283 GERLEQLEATALDKLRQA 300 >gi|166031183|ref|ZP_02234012.1| hypothetical protein DORFOR_00869 [Dorea formicigenerans ATCC 27755] gi|166029030|gb|EDR47787.1| hypothetical protein DORFOR_00869 [Dorea formicigenerans ATCC 27755] Length = 278 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 54/257 (21%), Positives = 116/257 (45%), Gaps = 23/257 (8%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R + GD A + +LRLV+ + + ++ G I Sbjct: 33 KLPILKEEEKEALFARIK-AGDDEAKEEYIKGNLRLVLSVIKRFHSSNENPDDLFQIGCI 91 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GL++A+ F+ E + +TY++ I ++ Y +R S +++ + K ++ Sbjct: 92 GLIKAINNFNTELDVKFSTYAVPMIIGEIRRY-MRDNSSIRVSRSLRDTAYKAIYAKENY 150 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K N++ V IA+++ +++ +++ + SL + S ++ Sbjct: 151 VK--------QNMREPTVQEIAQEIGIAKEDIVYALDAIQAPMSLQEPVYSDGGDALYVM 202 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + DH +E+ +E L +M LN RER I R + T ++ + Sbjct: 203 DQ-ISDHKNKEEKWVESLS-------LQAAMEHLNERERYIISLRFF--DGRTQMEVARD 252 Query: 262 FEVSRERVRQIEARAFK 278 +S+ +V ++E A + Sbjct: 253 VGISQAQVSRLEKNALR 269 >gi|296132610|ref|YP_003639857.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola sp. JR] gi|296031188|gb|ADG81956.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola potens JR] Length = 245 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 28/79 (35%), Positives = 45/79 (56%), Gaps = 2/79 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++E+ L E GD A + L+ +LRLV I + G +++S G IGL Sbjct: 42 PLSEEEEQKYL--ELLEKGDEEARNVLIERNLRLVAHIVKKFDGALDDNDDLISIGTIGL 99 Query: 87 MQAVKKFDPERGFRLATYS 105 ++A+ F+ +G RLATY+ Sbjct: 100 IKAINTFNRYKGTRLATYA 118 >gi|164686360|ref|ZP_02210390.1| hypothetical protein CLOBAR_02798 [Clostridium bartlettii DSM 16795] gi|164601962|gb|EDQ95427.1| hypothetical protein CLOBAR_02798 [Clostridium bartlettii DSM 16795] Length = 257 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 20/75 (26%), Positives = 40/75 (53%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A + V +LRLV+ + + G + ++ G +GL++A+ FD + R + Sbjct: 32 KQGDEDARQKFVKGNLRLVLSVIQKFNNRGENVDDLFQIGCVGLIKAIDNFDLSQNVRFS 91 Query: 103 TYSMWWIKAAMQEYI 117 TY++ I ++ Y+ Sbjct: 92 TYAVPMIIGEIRRYL 106 >gi|302554440|ref|ZP_07306782.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] gi|302472058|gb|EFL35151.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] Length = 280 Score = 47.0 bits (110), Expect = 0.003, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 103/243 (42%), Gaps = 16/243 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 36 RSYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 95 IDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEARL-RR 147 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 E VA + V E + LA +L L+++ + + + Sbjct: 148 TPTEGEVAAEMGIGVEELHAVFSQLSLANVVALEELLHAGGEGGDGLSVMDTLEDTAADN 207 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + E+R+ RR +L R+++ L RE+ + + +TL + + V+ RV QI Sbjct: 208 PVEVAEDRELRR-LLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQIH 264 Query: 274 ARA 276 ++ Sbjct: 265 TKS 267 >gi|260438776|ref|ZP_05792592.1| RNA polymerase sigma-27 factor [Butyrivibrio crossotus DSM 2876] gi|292808765|gb|EFF67970.1| RNA polymerase sigma-27 factor [Butyrivibrio crossotus DSM 2876] Length = 255 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 54/228 (23%), Positives = 105/228 (46%), Gaps = 18/228 (7%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK+ G Y GY + ++VS G GL+ A+ KFD + + TY+ I+ + + Sbjct: 32 LVKLVAGRLSMYLGYNVEYEDLVSYGIFGLIDAIDKFDYGKNVKFETYASLRIRGEILDQ 91 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 I R + QK+ + + L+ N E++ A A L++ E Sbjct: 92 I-RKMDWIPRSVREKQKK----IDSARTRLETENGKNATDEELAA-ALDLSLDELNNWQG 145 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 +++ SL+ + + S + H Q + ++EKEE + ++ ++S L Sbjct: 146 QTKVSNLVSLDEFVEQGSELSMETAG---NSHFEQPERVVEKEELAVK---ISEALSHLT 199 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +E+ + +E +TL+ +S+ EVS RV Q+ +A K+++S+ Sbjct: 200 EKEKMVVTLYYYEE--MTLKEISNVMEVSESRVSQLHTKALVKLKKSL 245 >gi|229163011|ref|ZP_04290967.1| RNA polymerase sigma-F factor [Bacillus cereus R309803] gi|229174749|ref|ZP_04302273.1| RNA polymerase sigma-F factor [Bacillus cereus MM3] gi|228608739|gb|EEK66037.1| RNA polymerase sigma-F factor [Bacillus cereus MM3] gi|228620417|gb|EEK77287.1| RNA polymerase sigma-F factor [Bacillus cereus R309803] Length = 252 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 49/190 (25%), Positives = 91/190 (47%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ ++ GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQQSQD-GDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R+++ Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMR 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + + S + GD + L Sbjct: 125 DELSKEFGRAPTINEVAEALELTPEEVV-LAQEASRAPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D++ ++W D Sbjct: 183 ADQSETKWFD 192 >gi|15834951|ref|NP_296710.1| RNA polymerase sigma factor sigma-28 [Chlamydia muridarum Nigg] gi|270285123|ref|ZP_06194517.1| RNA polymerase sigma factor sigma-28 [Chlamydia muridarum Nigg] gi|270289144|ref|ZP_06195446.1| RNA polymerase sigma factor sigma-28 [Chlamydia muridarum Weiss] gi|301336518|ref|ZP_07224720.1| RNA polymerase sigma factor sigma-28 [Chlamydia muridarum MopnTet14] gi|7190373|gb|AAF39194.1| RNA polymerase sigma factor, sigma-70 family [Chlamydia muridarum Nigg] Length = 253 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 58/243 (23%), Positives = 115/243 (47%), Gaps = 23/243 (9%) Query: 51 HR--LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 HR L+ ++L LV +A G+P I ++ + G GL++AV++FDPE+ R +Y Sbjct: 21 HRDFLIEAYLPLVKNVAHRLAS-GMPSHVKIEDLYASGVEGLVRAVERFDPEKSKRFESY 79 Query: 105 SMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 +++ IKAA+ + + + W + AN RL + A+ K + Sbjct: 80 ALFIIKAAIIDDLRKQDWVPRSVYQRAN---------RLADAMDALRQTLGKEPTDGDLC 130 Query: 164 KKLNVSESEVIS--MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 + LN+S+ E+ + R A SLN + D++ + + D + + + + Sbjct: 131 EYLNISQQELSHWFSSSRPALVLSLNDDFSCQDEDEGLALEERIADERAENGYDVIR--K 188 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 K ++LT ++ L+ +ER++ + + L+ + VS RV QI ++A K++ Sbjct: 189 KEAISILTEALLSLDEKERQVMALYYYDD--LVLKEIGKILGVSESRVSQIHSKALLKLR 246 Query: 282 ESI 284 ++ Sbjct: 247 GTL 249 >gi|153955768|ref|YP_001396533.1| sporulation sigma factor SigF [Clostridium kluyveri DSM 555] gi|146348626|gb|EDK35162.1| RNA polymerase sigma-F factor [Clostridium kluyveri DSM 555] Length = 251 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 57/255 (22%), Positives = 110/255 (43%), Gaps = 35/255 (13%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K RE GD A ++LV +L LV I+ + G ++ G +GLM+AV FD Sbjct: 19 LIKCARE-GDKEALNKLVELNLPLVSAISKKFLNRGYEYEDIFQIGCMGLMKAVNNFDET 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA--NQKRLFFNLRRLKGHLQAITDNNL 154 + +TY++ I ++ + LR ++K+ + K+L ++ Sbjct: 78 YNVKFSTYAVPMILGEIKRF-LRDDGMIKVSRSIKNTAKKLHYDRE-------------- 122 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 A+ KKLN I +G ++ L + NS Q+ ++ DG + Sbjct: 123 ------ALTKKLN--REPTIEELAEYSGVKTEELLFATESTNSLQYLYDTIHQDDGSPVL 174 Query: 215 LIEKEERKNRRNM-------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 LI+K + ++ L ++ L+ + R+I R ++ T ++ +++ Sbjct: 175 LIDKISENPKEDVEVIDRIALKEALRNLDVKSRQIIMLRYFKDK--TQVQVAKMLGINQV 232 Query: 268 RVRQIEARAFKKVQE 282 +V +IE + K ++E Sbjct: 233 QVSRIEKKVLKTMRE 247 >gi|253682632|ref|ZP_04863429.1| RNA polymerase sigma factor, sigma-70 family [Clostridium botulinum D str. 1873] gi|253562344|gb|EES91796.1| RNA polymerase sigma factor, sigma-70 family [Clostridium botulinum D str. 1873] Length = 242 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 59/241 (24%), Positives = 113/241 (46%), Gaps = 23/241 (9%) Query: 53 LVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 +V ++ LV IA +G Y + +++ G IGLM A+ KFD +G + +TY+ Sbjct: 13 IVKKYIPLVKYIASRVIIGKSKY-IEFEDLLGYGMIGLMDALNKFDESKGMKFSTYASIR 71 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ +M + I ++ + K A K L + ++ + NL + IA++L + Sbjct: 72 IRGSMIDEIRKNSPISK---GAMDK-----LNKYNSAIETLQKRNLTEPNIKDIAEELEM 123 Query: 169 SESEV--ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE-ERKNRR 225 + +EV I SL LI S D + S L+ + ++ EK+ E + R Sbjct: 124 TVNEVGEIENFINYISVVSLEDLIFSEDDDIS-----LMGTIEDEKSPNPEKDFEDQERL 178 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L +++ +LN +++ + + +TL+ + VS RV Q+ +RA +++ + Sbjct: 179 EYLAKALDMLNDKDKTVLSLYYYE--GMTLKEIGIVLGVSESRVCQLHSRAIVHLRKMLG 236 Query: 286 K 286 K Sbjct: 237 K 237 >gi|161723249|ref|YP_095808.2| flagellar biosynthesis sigma factor [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|307610482|emb|CBX00054.1| sigma factor 28 [Legionella pneumophila 130b] Length = 238 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 53/236 (22%), Positives = 109/236 (46%), Gaps = 27/236 (11%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H LV +IA +G + + +++ G +GL++A + +D +G TY+ I Sbjct: 18 LVKTHATLVKRIAHHLLGRLPQSVQLDDLIQSGMLGLLEAARHYDSSKGASFETYAGIRI 77 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 + M + + R+ W V N + + +R L+ L + DN + E V++ + Sbjct: 78 RGHMLDEVRRNDW--VPRSVYRNSRMISDAVRILEHKLGREAKDNEIAEELGVSLDDYHD 135 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + S++ L G + L D +++DH+G E R +M Sbjct: 136 MLQD---SISSHLYGFDDLGV------------TDDVLFDHEGNGST--EPHRNVMRSDM 178 Query: 228 LTRSMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R V++ PR+ R+ + +++ + L+ + EVS R+ QI ++A +++ Sbjct: 179 MNRLTQVIDSLPRKERLVLSLYYEQD-LNLKEIGEILEVSESRISQILSQATHRIR 233 >gi|197303315|ref|ZP_03168355.1| hypothetical protein RUMLAC_02038 [Ruminococcus lactaris ATCC 29176] gi|197297599|gb|EDY32159.1| hypothetical protein RUMLAC_02038 [Ruminococcus lactaris ATCC 29176] Length = 237 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 57/249 (22%), Positives = 112/249 (44%), Gaps = 20/249 (8%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R HGD A +LV ++ LV + + G G ++ G+IGL++A+ KFD Sbjct: 9 RKSHHGDKEAREQLVKENVGLVWCVVKRFYGRGAEPEDLFQIGSIGLLKAIDKFDLSYDV 68 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY++ I ++ + LR ++K+ + K+L + + K + +T+ + + Sbjct: 69 QFSTYAVPMISGEIRRF-LRDDGMIKVSRSL--KKLSYKCGKKK---EELTERMGREPTM 122 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +A L + E++ ES+ I+ + D L +E +L Sbjct: 123 EELATSLGTEKEELVQAMEAATEVESIYRPIHQEGDSQLSILDRLEEKSRPEEHLL---- 178 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R ML++ + L+ ER++ R QE T + +S+ +V ++E KK Sbjct: 179 ----NRMMLSQILDGLDKEERQLIYLRYFQEK--TQAAVGEILGISQVQVSRME----KK 228 Query: 280 VQESIQKQV 288 + E ++KQ+ Sbjct: 229 ILERMRKQM 237 >gi|86609923|ref|YP_478685.1| RNA polymerase sigma factor SigF [Synechococcus sp. JA-2-3B'a(2-13)] gi|86558465|gb|ABD03422.1| RNA polymerase sigma factor, group 3 [Synechococcus sp. JA-2-3B'a(2-13)] Length = 293 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 27/86 (31%), Positives = 50/86 (58%), Gaps = 9/86 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR-----GYGLPISEVVSEGNIGLMQAVK 91 L + Y ++ D + +RLV +L LV K A +R GY ++V G +GL+QA++ Sbjct: 52 LLRLYHQNRDPALRNRLVEMNLGLVRKEAHHWRNQCNEGY----DDLVQVGCLGLIQAIE 107 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYI 117 +FD RG +++++ +I+ +Q Y+ Sbjct: 108 RFDISRGLAFSSFALPYIRGEIQHYL 133 >gi|238917528|ref|YP_002931045.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] gi|238872888|gb|ACR72598.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] Length = 249 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 55/239 (23%), Positives = 110/239 (46%), Gaps = 30/239 (12%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 + D A +LVT +L L+ I ++G G ++ G IGL++A+ F+ + +T Sbjct: 23 NNDKEAREKLVTDNLGLIWNIIKRFKGRGTEQEDLFQIGCIGLIKAIDNFNLDMDVAFST 82 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + LR +VK+ + + + + G L+ + L E V Sbjct: 83 YAVPMITGEIRRF-LRDDGMVKVSRSIKENAV--KSMKAAGQLR----DTLGCEPTV--- 132 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK- 222 E I+ C L+ E + +++S + S ++ +Y DG E +L++K E K Sbjct: 133 --------EQIAAACELSV-EDITLSMSASMEVESIYK--TIYQGDGSEVMLMDKLEDKA 181 Query: 223 ------NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + + L + M L+ RE+ + R + T ++ EF +S+ +V ++E + Sbjct: 182 DIGETASSKVALVQLMETLSQREKELIRMRYY--DDYTQMQVAKEFGISQVQVSRMEKK 238 >gi|225418674|ref|ZP_03761863.1| hypothetical protein CLOSTASPAR_05898 [Clostridium asparagiforme DSM 15981] gi|225041795|gb|EEG52041.1| hypothetical protein CLOSTASPAR_05898 [Clostridium asparagiforme DSM 15981] Length = 216 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 23/65 (35%), Positives = 37/65 (56%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A L+ ++RLV + Y+ I +++S G IGL++AV F ++G RLATY Sbjct: 29 GDQLARDVLIERNMRLVAHVVKKYQSPDYDIEDLLSVGTIGLIKAVNTFKVDKGSRLATY 88 Query: 105 SMWWI 109 + + Sbjct: 89 AAKCV 93 >gi|219856135|ref|YP_002473257.1| hypothetical protein CKR_2792 [Clostridium kluyveri NBRC 12016] gi|219569859|dbj|BAH07843.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 254 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 57/255 (22%), Positives = 110/255 (43%), Gaps = 35/255 (13%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K RE GD A ++LV +L LV I+ + G ++ G +GLM+AV FD Sbjct: 22 LIKCARE-GDKEALNKLVELNLPLVSAISKKFLNRGYEYEDIFQIGCMGLMKAVNNFDET 80 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA--NQKRLFFNLRRLKGHLQAITDNNL 154 + +TY++ I ++ + LR ++K+ + K+L ++ Sbjct: 81 YNVKFSTYAVPMILGEIKRF-LRDDGMIKVSRSIKNTAKKLHYDRE-------------- 125 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 A+ KKLN I +G ++ L + NS Q+ ++ DG + Sbjct: 126 ------ALTKKLN--REPTIEELAEYSGVKTEELLFATESTNSLQYLYDTIHQDDGSPVL 177 Query: 215 LIEKEERKNRRNM-------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 LI+K + ++ L ++ L+ + R+I R ++ T ++ +++ Sbjct: 178 LIDKISENPKEDVEVIDRIALKEALRNLDVKSRQIIMLRYFKDK--TQVQVAKMLGINQV 235 Query: 268 RVRQIEARAFKKVQE 282 +V +IE + K ++E Sbjct: 236 QVSRIEKKVLKTMRE 250 >gi|205373764|ref|ZP_03226566.1| sporulation sigma factor SigF [Bacillus coahuilensis m4-4] Length = 244 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 43/169 (25%), Positives = 78/169 (46%), Gaps = 12/169 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD+ A +V ++RLV + + G ++ G+IGL+++V KFD + + Sbjct: 27 QDGDVDARDMIVNRNMRLVWSVVQRFLNRGYEPDDLFQIGSIGLLKSVDKFDLSYDVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG----TTANQKR-----LFFNLRRLKGHLQAITDNN 153 TY++ I +Q +I R VK+ T N+ R L L R+ + Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSLKETGNKIRRAKEELSKTLNRVPTISELADFLE 145 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + PE+VV +A++ + + S + GD + L +D+N +W D Sbjct: 146 ITPEEVV-LAQEASRTPSSIHETVYENDGD-PITLLDQIADQNDQKWFD 192 >gi|160880422|ref|YP_001559390.1| FliA/WhiG family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160429088|gb|ABX42651.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium phytofermentans ISDg] Length = 207 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+E +L + + G+ A L+ +LRLV I Y +++S G IGL Sbjct: 7 PLSAKEENEMLLQC--KAGNKVARDTLIERNLRLVAHIVKKYNTPDRETDDLISIGTIGL 64 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++++ FD +G RLATY+ I Sbjct: 65 IKSIDTFDSTKGIRLATYASRCI 87 >gi|268612026|ref|ZP_06145753.1| anti-sigma F factor [Ruminococcus flavefaciens FD-1] Length = 219 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 22/53 (41%), Positives = 34/53 (64%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 +L LV A +R G+ E+ S G +GL++AVK FDP+RG + +TY++ I Sbjct: 13 NLGLVHLCANRFRNRGIEYEELYSAGCVGLLKAVKAFDPDRGAQFSTYAVPVI 65 >gi|326503440|dbj|BAJ86226.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326503904|dbj|BAK02738.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 496 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 27/92 (29%), Positives = 54/92 (58%), Gaps = 16/92 (17%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP-------ISEVVSEGNIGLMQAVK 91 +R R+ G +A ++L+ +LRLV+ Y P +++ G GL+ A+ Sbjct: 250 RRLRDVGR-AARNKLIKHNLRLVLYAINKY----YPDMTGDERFADLCQAGANGLITAID 304 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +F+P+RGFR++TY+++WI+ + ++R+ +L Sbjct: 305 RFEPKRGFRISTYALFWIRHS----VVRAMTL 332 >gi|326789987|ref|YP_004307808.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium lentocellum DSM 5427] gi|326540751|gb|ADZ82610.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium lentocellum DSM 5427] Length = 274 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 24/84 (28%), Positives = 45/84 (53%), Gaps = 3/84 (3%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 GD A RL+ ++ L+ K++M + R + ++V EG IGL+ A +K+D Sbjct: 13 GDSKALERLLEANKGLIYKVSMKFYTERDNAIDQDDLVQEGRIGLIVAAEKYDINGDVPF 72 Query: 102 ATYSMWWIKAAMQEYILRSWSLVK 125 A+Y+ +WI M ++ +++K Sbjct: 73 ASYAYYWIYQKMHRFMYPKRNMIK 96 >gi|15642066|ref|NP_231698.1| flagellar biosynthesis sigma factor [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121586929|ref|ZP_01676709.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae 2740-80] gi|121727398|ref|ZP_01680537.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae V52] gi|147674794|ref|YP_001217593.1| flagellar biosynthesis sigma factor [Vibrio cholerae O395] gi|153213706|ref|ZP_01948958.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae 1587] gi|153821715|ref|ZP_01974382.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae B33] gi|153826072|ref|ZP_01978739.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae MZO-2] gi|153828895|ref|ZP_01981562.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae 623-39] gi|227082193|ref|YP_002810744.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae M66-2] gi|229507844|ref|ZP_04397349.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae BX 330286] gi|229511920|ref|ZP_04401399.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae B33] gi|229513722|ref|ZP_04403184.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae TMA 21] gi|229519056|ref|ZP_04408499.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae RC9] gi|229522025|ref|ZP_04411442.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae TM 11079-80] gi|229524074|ref|ZP_04413479.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae bv. albensis VL426] gi|229528916|ref|ZP_04418306.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae 12129(1)] gi|229607389|ref|YP_002878037.1| flagellar biosynthesis sigma factor [Vibrio cholerae MJ-1236] gi|254226075|ref|ZP_04919673.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae V51] gi|254286814|ref|ZP_04961767.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae AM-19226] gi|254849153|ref|ZP_05238503.1| flagellar biosynthesis sigma factor [Vibrio cholerae MO10] gi|297579572|ref|ZP_06941500.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae RC385] gi|298497906|ref|ZP_07007713.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae MAK 757] gi|9656612|gb|AAF95212.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121548865|gb|EAX58908.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae 2740-80] gi|121630290|gb|EAX62688.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae V52] gi|124115767|gb|EAY34587.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae 1587] gi|125621387|gb|EAZ49723.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae V51] gi|126520813|gb|EAZ78036.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae B33] gi|146316677|gb|ABQ21216.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae O395] gi|148875601|gb|EDL73736.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae 623-39] gi|149740189|gb|EDM54342.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae MZO-2] gi|150423105|gb|EDN15053.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae AM-19226] gi|227010081|gb|ACP06293.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae M66-2] gi|227013963|gb|ACP10173.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae O395] gi|229332690|gb|EEN98176.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae 12129(1)] gi|229337655|gb|EEO02672.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae bv. albensis VL426] gi|229340950|gb|EEO05955.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae TM 11079-80] gi|229343745|gb|EEO08720.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae RC9] gi|229348903|gb|EEO13860.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae TMA 21] gi|229351885|gb|EEO16826.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae B33] gi|229355349|gb|EEO20270.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae BX 330286] gi|229370044|gb|ACQ60467.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae MJ-1236] gi|254844858|gb|EET23272.1| flagellar biosynthesis sigma factor [Vibrio cholerae MO10] gi|297537166|gb|EFH75999.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae RC385] gi|297542239|gb|EFH78289.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae MAK 757] gi|327484600|gb|AEA79007.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae LMA3894-4] Length = 244 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 62/253 (24%), Positives = 112/253 (44%), Gaps = 31/253 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++G+L++ + + LV +IA G P I +++ G +GL++A K +D Sbjct: 4 ALTYDQYGNLNSQQLFLEKYSVLVKRIAHHLIGRLPPSVLIEDLIQAGMVGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREISQAIAVLEGEL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK LN+S S ++ +NC R+ G E L SD S ++ Sbjct: 116 RDPTD-AEVAKFLNMSLEQYHSVLMDINCSRIVGIEDLGV----SDDAISPFE------- 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +G++ ++ R L S+ L RE + +E + L+ + VS R Sbjct: 164 EGEDNSPFHGVAEESFRKALVESIKSLPEREALVLSLYYDEE--LNLKEIGEVLGVSESR 221 Query: 269 VRQIEARAFKKVQ 281 V QI +++ ++++ Sbjct: 222 VSQILSQSMQRLR 234 >gi|317132447|ref|YP_004091761.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] gi|315470426|gb|ADU27030.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] Length = 237 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 27/82 (32%), Positives = 44/82 (53%), Gaps = 1/82 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A +LV +L LV A + G G+ ++ G +GL++AV FD RG + +TY Sbjct: 17 GDAAAQTQLVEENLGLVHAAARHFNGKGIEYDDLYQAGCMGLVKAVTGFDITRGVQFSTY 76 Query: 105 SMWWIKAAMQEYILRSWSLVKI 126 ++ I M+ + R VK+ Sbjct: 77 AVPVIMGEMRR-LFRDDGPVKV 97 >gi|295849257|gb|ADG45292.1| sigma 70 factor-like protein [uncultured bacterium] Length = 173 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 22/53 (41%), Positives = 35/53 (66%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 ++ ++LRLVV IA + + + E+VSEG + LM+AV FD RG + +TY+ Sbjct: 25 IIRANLRLVVSIARRHLRGSVSLMELVSEGTMTLMRAVDSFDAHRGHKFSTYA 77 >gi|153803716|ref|ZP_01958302.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae MZO-3] gi|124120749|gb|EAY39492.1| RNA polymerase sigma factor for flagellar operon [Vibrio cholerae MZO-3] Length = 242 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 62/253 (24%), Positives = 112/253 (44%), Gaps = 31/253 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++G+L++ + + LV +IA G P I +++ G +GL++A K +D Sbjct: 4 ALTYDQYGNLNSQQLFLEKYSVLVKRIAHHLIGRLPPSVLIEDLIQAGMVGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREISQAIAVLEGEL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK LN+S S ++ +NC R+ G E L SD S ++ Sbjct: 116 RDPTD-AEVAKFLNMSLEQYHSVLMDINCSRIVGIEDLGV----SDDAISPFE------- 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +G++ ++ R L S+ L RE + +E + L+ + VS R Sbjct: 164 EGEDNSPFHGVAEESFRKALVESIKSLPEREALVLSLYYDEE--LNLKEIGEVLGVSESR 221 Query: 269 VRQIEARAFKKVQ 281 V QI +++ ++++ Sbjct: 222 VSQILSQSMQRLR 234 >gi|167758779|ref|ZP_02430906.1| hypothetical protein CLOSCI_01121 [Clostridium scindens ATCC 35704] gi|167663519|gb|EDS07649.1| hypothetical protein CLOSCI_01121 [Clostridium scindens ATCC 35704] Length = 258 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 56/257 (21%), Positives = 118/257 (45%), Gaps = 23/257 (8%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R + GD A + +LRLV+ + + G ++ G I Sbjct: 15 KLPILKEEEKEALFARIK-AGDAEAKEEYIKGNLRLVLSVIKRFGGSNENPDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRR 141 GL++A+ F+ E + +TY++ I ++ Y +R + +++ + K ++ Sbjct: 74 GLIKAINNFNTELDVKFSTYAVPMIIGEIRRY-MRDNNSIRVSRSLRDTAYKAIYAKENY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K NLK V IA+++ +S+ +++ + SL + + ++ Sbjct: 133 IK--------QNLKEPTVQEIAEEIGISKEDIVFALDAIQVPMSLQEPVYNDGGDALYVM 184 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + D +E+ +E L +M L RER I + R E +E ++ E Sbjct: 185 DQ-ISDTKNKEEKWVEDLS-------LEAAMQHLGERERYIIKLRFF-EGKTQME-VADE 234 Query: 262 FEVSRERVRQIEARAFK 278 ++S+ +V ++E A + Sbjct: 235 IKISQAQVSRLEKNALR 251 >gi|260893400|ref|YP_003239497.1| RNA polymerase, sigma 28 subunit, SigG [Ammonifex degensii KC4] gi|260865541|gb|ACX52647.1| RNA polymerase, sigma 28 subunit, SigG [Ammonifex degensii KC4] Length = 256 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 25/93 (26%), Positives = 51/93 (54%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L Q+ L + + GD +A L+ +LRLV+ + + G + ++ G I Sbjct: 14 KLPVLTAQQMCRLFEAMK-RGDGNARSELIKGNLRLVLSVVQRFANRGEHLDDLFQVGCI 72 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A+ FD ++ + +TY++ I ++ Y+ Sbjct: 73 GLIKAIDNFDLDQNVKFSTYAVPMIIGEIRRYL 105 >gi|164686361|ref|ZP_02210391.1| hypothetical protein CLOBAR_02799 [Clostridium bartlettii DSM 16795] gi|164601963|gb|EDQ95428.1| hypothetical protein CLOBAR_02799 [Clostridium bartlettii DSM 16795] Length = 231 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 21/57 (36%), Positives = 37/57 (64%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ +LRLVV I+ + G+ + +++S G IGL++AV F+ ++ +LATY+ I Sbjct: 53 LIERNLRLVVYISRKFENTGIDMEDLISIGTIGLIKAVNTFNLDKNIKLATYASRCI 109 >gi|158340157|ref|YP_001521327.1| sigma-28 subunit [Acaryochloris marina MBIC11017] gi|158310398|gb|ABW32013.1| sigma-28 subunit [Acaryochloris marina MBIC11017] Length = 421 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 24/73 (32%), Positives = 44/73 (60%), Gaps = 1/73 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD R + + RLV K A YRG +++V+ GN GL +A++KFD +G + ++Y Sbjct: 32 GDRRTEDRFIRKNQRLVFKEANRYRGLD-DWNDLVTAGNWGLARAIEKFDVSKGCKFSSY 90 Query: 105 SMWWIKAAMQEYI 117 ++ I+ +Q+++ Sbjct: 91 AVKVIRTEIQQFL 103 >gi|188586278|ref|YP_001917823.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350965|gb|ACB85235.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 253 Score = 46.6 bits (109), Expect = 0.004, Method: Compositional matrix adjust. Identities = 45/175 (25%), Positives = 88/175 (50%), Gaps = 21/175 (12%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K++++ GD A ++ ++ LV + + G G+ ++ G +GL++A+ KFD Sbjct: 18 LIKKWQQKGDREARKIIIEENINLVKSVVKRFVGSGIEEEDLTQLGLMGLIKAIDKFDYR 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 + R +TY++ I ++ + LR +K+ + N K LF + +K L L+ Sbjct: 78 KEVRFSTYAVPLIIGEIKTF-LRDDHPIKV--SRNLKELFNRSKEVKRWLTL----KLRR 130 Query: 157 EQVVA-IAKKLNVSES----------EVISMNCRLAGD---ESLNALINSSDKNS 197 E ++ +A +L VS+ E+IS++ ++ + ES ALI++ NS Sbjct: 131 EPTISEVADELEVSKEELATAEEANQELISLDKPVSDEHNHESEKALIDTIPDNS 185 >gi|207743453|ref|YP_002259845.1| hypothetical alternative rna sigma factor rpos (partial sequence) protein [Ralstonia solanacearum IPO1609] gi|206594850|emb|CAQ61777.1| hypothetical alternative rna sigma factor rpos (partial sequence) protein [Ralstonia solanacearum IPO1609] Length = 184 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 26/73 (35%), Positives = 43/73 (58%), Gaps = 1/73 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y++ I P+L EE + R + G+ +A ++ +LRLVV IA GY G+ + E+ Sbjct: 112 YLNRISIKPLLTPAEELHFSTRAKA-GEFAARQVMIERNLRLVVSIAKGYLKQGVRLMEM 170 Query: 79 VSEGNIGLMQAVK 91 +SEGN G+M ++ Sbjct: 171 ISEGNRGVMPPLQ 183 >gi|222112349|ref|YP_002554613.1| sigma-70 region 4 domain-containing protein [Acidovorax ebreus TPSY] gi|221731793|gb|ACM34613.1| sigma-70 region 4 domain protein [Acidovorax ebreus TPSY] Length = 893 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 25/57 (43%), Positives = 35/57 (61%), Gaps = 1/57 (1%) Query: 226 NMLTRSMSVLNPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + + LN ER IF AR + P TL+ +S + VSRERVRQIE + FKK++ Sbjct: 339 DGIVEAAQCLNENERGIFAARLGFRCEPHTLQQISDQIGVSRERVRQIEVKIFKKIR 395 >gi|218896055|ref|YP_002444466.1| RNA polymerase sigma-B factor [Bacillus cereus G9842] gi|218544560|gb|ACK96954.1| RNA polymerase sigma-B factor [Bacillus cereus G9842] Length = 257 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 110/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPMLEKQEEYV-LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P +E+ + L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTTLTKEDVIKLIAEFQQNQCNEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G EQ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEQT--------ERRLVLEDIFNVLNDTEKSVI 214 >gi|121488737|emb|CAJ18252.1| sigma 70-type sigma factor [Chlorobium limicola] Length = 165 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 16/49 (32%), Positives = 33/49 (67%) Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + +EGN+GL +A +FD RGF+ +Y++WWI+ ++ + + +V++ Sbjct: 2 LXNEGNLGLXKAXXRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRL 50 >gi|306021726|gb|ADM80299.1| RNA-polymerase sigma subunit [Geobacillus pallidus] Length = 256 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 64/275 (23%), Positives = 122/275 (44%), Gaps = 51/275 (18%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 +E V ++ H D A + LV ++ LV + + GLP + +++S G +GL Sbjct: 9 DERVYWDKWFRHRDQDAGNMLVKKYMPLV-RYHVSRISVGLPKNVDKDDLISFGLMGLYD 67 Query: 89 AVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTANQKRLFFNLRRL 142 A++KFDP R + TY+ + I+ A+ ++++ RS+ A +RL R Sbjct: 68 ALEKFDPTRDLKFDTYASFRIRGAILDGLRKEDWLPRSFREKAKKVEAAIERLEQKYHRN 127 Query: 143 KGHLQAITDNNLKPEQVVAI------AKKLNVSE-----SEVISMNCRLAGDESLNALIN 191 + + + PE+VV + A L++ E E MN L D++L Sbjct: 128 VTPNEVAEELGMTPEEVVHVVNENFFANVLSIDEQLHDQEEGEQMNIVLKDDKTLTP--- 184 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 E+ L+++E ++ LT+ +S LN +E+ + +E Sbjct: 185 --------------------EEHLLKEELFEH----LTKLISQLNDKEQLVLSLFYKEE- 219 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +TL + + +S R+ QI ++A K++ ++ K Sbjct: 220 -LTLTEIGNVLNLSTSRISQIHSKALYKLKGTLVK 253 >gi|297538886|ref|YP_003674655.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Methylotenera sp. 301] gi|297258233|gb|ADI30078.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Methylotenera sp. 301] Length = 244 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 59/255 (23%), Positives = 113/255 (44%), Gaps = 26/255 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPER 97 Y HG L+ H LV K+A + P + +++ G +GL+ A+ +++ Sbjct: 2 YTIHGKKDQKDELLNKHAVLVKKLAYQLKAKLPPSVELDDLIQAGMMGLLDAINRYEDTH 61 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G + TY+ I+ +M + LRS + + + + + +L+ L KP Sbjct: 62 GAQFETYAAQRIRGSMLDE-LRSADWLPRSVRKSMRDVEIAISQLEQQLG-------KPP 113 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD----KNSSQWQDWLVYDHDGQE- 212 +AKKL +S S+ M GD S + LI D +N + D D G Sbjct: 114 TENEVAKKLQLSLSDYYDM----LGDCSGHQLIYYEDFHESENGEHFLDRFNADTTGDPI 169 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 + L+E + R L +++ L RE+ + QE + L+ + + VS RV Q+ Sbjct: 170 KSLLE----GDFREALVGAITALPEREKILMGLYYEQE--LNLKEIGAVMNVSESRVCQL 223 Query: 273 EARAFKKVQESIQKQ 287 ++A +++ +++++ Sbjct: 224 HSQAVARLRSNLKEK 238 >gi|218905533|ref|YP_002453367.1| RNA polymerase sigma-K factor [Bacillus cereus AH820] gi|218535778|gb|ACK88176.1| RNA polymerase sigma-K factor [Bacillus cereus AH820] Length = 149 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 23/68 (33%), Positives = 39/68 (57%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LA Sbjct: 43 EQGDAQARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLA 102 Query: 103 TYSMWWIK 110 TY+ I+ Sbjct: 103 TYAARCIE 110 >gi|150015700|ref|YP_001307954.1| sporulation sigma factor SigF [Clostridium beijerinckii NCIMB 8052] gi|149902165|gb|ABR32998.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium beijerinckii NCIMB 8052] Length = 251 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 58/252 (23%), Positives = 117/252 (46%), Gaps = 34/252 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +L LV I+ + G ++ G+IGL++A+ FD + +TY Sbjct: 26 GDTDAMNTLIEMNLPLVSSISKKFLNRGYDYEDIFQIGSIGLVKAINNFDLNYNVKFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR ++K+ + N K L R++ + +T + + +A Sbjct: 86 AVPMIIGEIKRF-LRDDGMIKV--SRNVKSL---ARKIHFQKEILTKKLKRSPTIEELAD 139 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--EERK 222 NV + E++ I SS NS Q+ ++ DG +LI+K E+ Sbjct: 140 YANVDKEEILFA-------------IESS--NSLQYLYDTIHQDDGAPVLLIDKLSEKSA 184 Query: 223 NRRNM-----LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + N+ L +++ L+ + ++I R ++ T ++ +S+ +V +IE Sbjct: 185 DDENLIEKIALKEALNSLDNKAKQIIMLRYFKDK--TQVQVAKMLGISQVQVSRIE---- 238 Query: 278 KKVQESIQKQVE 289 KKV ++K++E Sbjct: 239 KKVLAEMRKKLE 250 >gi|295094135|emb|CBK83226.1| RNA polymerase sigma factor, sigma-70 family [Coprococcus sp. ART55/1] Length = 220 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 29/94 (30%), Positives = 49/94 (52%), Gaps = 8/94 (8%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAM-GYRGYGLP-------ISEVVSEGNIGLMQAVK 91 R + GD +A L+ +L + KIA+ YR GL + +++ EG+IGL+ A+ Sbjct: 11 RLAQKGDTAARDILLEKNLGFIRKIALEQYRNMGLDENDIGIDLDDLMQEGSIGLLNAIP 70 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 FD RG + TY+ ++ AM + I + L + Sbjct: 71 LFDAGRGMKFLTYAAPALRNAMTDCIRAALGLFE 104 >gi|21224822|ref|NP_630601.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|3559995|emb|CAA20617.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] Length = 266 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 55/254 (21%), Positives = 109/254 (42%), Gaps = 39/254 (15%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH +L R+V + L + ++A +R G ++ +GL++AV ++DPERG Sbjct: 32 EHDELR--DRIVEAWLPMAERLAGRFRSRGESFEDLRQVAALGLVKAVDRYDPERGNAFE 89 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 +Y++ I ++ + + + + R N R G + T +P V I Sbjct: 90 SYAVPTITGEIKRHFRDHMWTLHVPRRVQELR---NRVRFAGQDLSQTIPGRRP-TVAEI 145 Query: 163 AKKLNVSESEV------------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 A++ +SE +V +S++ L G E +L ++ + D Sbjct: 146 AERAELSEEDVRVGLEALESFTALSLDAELPGSEDGYSLGDA------------LGAPDP 193 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 ++++E K+R ++ L PRER I R N +T ++ + +S+ V Sbjct: 194 ALDTVVDREAVKDR-------LAALPPRERAILYMRFF--NDMTQSRIAEQLGISQMHVS 244 Query: 271 QIEARAFKKVQESI 284 ++ R +V+E + Sbjct: 245 RLITRCCDRVREQV 258 >gi|324997618|ref|ZP_08118730.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily protein [Pseudonocardia sp. P1] Length = 277 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 41/158 (25%), Positives = 69/158 (43%), Gaps = 22/158 (13%) Query: 60 LVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL- 118 +V IA YR G P ++ G IGL+ A+ +FDPE+G Y++ I ++ + Sbjct: 53 VVRHIAGRYRHRGEPADDLEQVGAIGLLNALDRFDPEQGTPFLAYAVPTITGEIRRHFRD 112 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI---- 174 R+WS+ ++ F R + + + P +V +A+ L S EVI Sbjct: 113 RTWSM-----RVPRRLKDFQTRMTRAQEELAVRHGRAP-KVSELAEHLGTSREEVIEGLQ 166 Query: 175 --------SMNCRLAGD--ESLNALINSSDKNSSQWQD 202 S++ RLAGD L ++ +D +D Sbjct: 167 AQDSYRSDSLD-RLAGDTESPLGEIVGGADAGIGTVED 203 >gi|54025575|ref|YP_119817.1| putative sigma factor [Nocardia farcinica IFM 10152] gi|54017083|dbj|BAD58453.1| putative sigma factor [Nocardia farcinica IFM 10152] Length = 315 Score = 46.6 bits (109), Expect = 0.005, Method: Compositional matrix adjust. Identities = 52/232 (22%), Positives = 105/232 (45%), Gaps = 18/232 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L++ + L IA + G G P ++ +GL+ AV +FDP RG ++++ I Sbjct: 95 LISRCVPLADHIARKFSGRGEPFDDLTQVARVGLVHAVDRFDPARGSNFLSFAVPTIMGE 154 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ Y +W++ ++ + L R+ + ++ + + IA +L V Sbjct: 155 VRRYFRDHTWAM-RVPRRVKETHL-----RIGAAIDTLSQSLGRSPTAKEIAAELRVDPD 208 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-EERKNRRNMLTR 230 EV +AG+ + I+++ + D + D G+E+ E+ EE R +L Sbjct: 209 EVT--QAVIAGNAYQPSSIDAA--ALGRESDASLLDTLGEEEAQFERVEEYVAIRPLL-- 262 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L RERRI R + +T ++ + +S+ V +I A+ +++E Sbjct: 263 --AGLPERERRILTMRFFES--MTQTQIAKQMGISQMHVSRILAKTLARLRE 310 >gi|313113343|ref|ZP_07798935.1| sigma-70 region 2 [Faecalibacterium cf. prausnitzii KLE1255] gi|310624319|gb|EFQ07682.1| sigma-70 region 2 [Faecalibacterium cf. prausnitzii KLE1255] Length = 167 Score = 46.2 bits (108), Expect = 0.005, Method: Compositional matrix adjust. Identities = 29/71 (40%), Positives = 42/71 (59%), Gaps = 4/71 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS--EVVSEGNIGLMQAVKKFDPERGFRLA 102 GD +A +L+ +LRLV I Y Y LP +++S G IGLM+AV FD +R R + Sbjct: 52 GDPAAREKLIRHNLRLVAHIVKKY--YALPGDQDDLISIGTIGLMKAVDTFDSDRRARFS 109 Query: 103 TYSMWWIKAAM 113 TY+ I+ A+ Sbjct: 110 TYASRCIENAI 120 >gi|290957086|ref|YP_003488268.1| sporulation-specific sigma factor WhiG [Streptomyces scabiei 87.22] gi|260646612|emb|CBG69709.1| sporulation-specific sigma factor WhiG [Streptomyces scabiei 87.22] Length = 258 Score = 46.2 bits (108), Expect = 0.005, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 102/245 (41%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 14 RTYKTSGDERLREQLIL-HYSPLVKYVAGRVSVGLPANVEQADFVSSGVFGLIDAIEKFD 72 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L++ Sbjct: 73 IDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLESRL-RR 125 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA + V E + LA +L L+++ + + D L D Sbjct: 126 TPSEGEVAAEMGIAVDELHAVFSQLSLANVVALEELLHAGGEGGDRLSLMDTL---EDTA 182 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 183 ADDPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYE--GLTLAEIGNVLGVTESRVSQ 240 Query: 272 IEARA 276 I ++ Sbjct: 241 IHTKS 245 >gi|187934214|ref|YP_001885077.1| sporulation sigma factor SigF [Clostridium botulinum B str. Eklund 17B] gi|187722367|gb|ACD23588.1| RNA polymerase sigma-F factor [Clostridium botulinum B str. Eklund 17B] Length = 251 Score = 46.2 bits (108), Expect = 0.005, Method: Compositional matrix adjust. Identities = 53/251 (21%), Positives = 105/251 (41%), Gaps = 34/251 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +RL+ +L LV I+ + G ++ G+IGL++A+ FD + +TY Sbjct: 26 GDNEAMNRLIEMNLPLVASISKKFLNRGYDYEDIFQIGSIGLVKAINNFDLSYNVKFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ + LR ++K+ KR+ F L Sbjct: 86 AVPMIIGEIKRF-LRDDGMIKVSRNVKSLAKRIHFTKEEL-------------------- 124 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 KKLN S I +G + + S Q+ ++ DG +LI+K K Sbjct: 125 TKKLN--RSPTIEELAEYSGVDKEEIIFAIESATSLQYLYDTIHQDDGAPVLLIDKLSEK 182 Query: 223 NRRNM-------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 ++ L ++ L+ + R+I R ++ T ++ +S+ +V +IE + Sbjct: 183 GEDDIGMINKIALKEALRSLDEKARQIIVLRYFKDK--TQVQVAKLLGISQVQVSRIEKK 240 Query: 276 AFKKVQESIQK 286 +++E +++ Sbjct: 241 VLLRMREKLEE 251 >gi|160935677|ref|ZP_02083052.1| hypothetical protein CLOBOL_00567 [Clostridium bolteae ATCC BAA-613] gi|158441421|gb|EDP19131.1| hypothetical protein CLOBOL_00567 [Clostridium bolteae ATCC BAA-613] Length = 258 Score = 46.2 bits (108), Expect = 0.005, Method: Compositional matrix adjust. Identities = 58/269 (21%), Positives = 123/269 (45%), Gaps = 41/269 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L +R + GD A + + +LRLV+ + + I ++ G I Sbjct: 15 KLPLLSNEEKEELFQRILD-GDKEAREQYIKGNLRLVLSVIQRFSNSQENIDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT---ANQKRLFFNLRR 141 GL++A+ FD + + +TY++ I ++ Y LR + +++ + K L+ Sbjct: 74 GLIKAIDNFDITQNVKFSTYAVPMILGEVRRY-LRDNNSIRVSRSLRDTAYKALYAR--- 129 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 + +T N K ++ IA+++ VS+ E + +++ S ++ Sbjct: 130 -----EQLTRTNSKEPTLMEIAQEIGVSK-------------EDITYALDAIQTPVSLYE 171 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNM---------LTRSMSVLNPRERRIFEARRLQENP 252 VY DG + + + ++ +++N+ L +M L RER I + R + Sbjct: 172 P--VY-TDGGDPLFV-MDQISDKKNLEENWVEDLSLVEAMKRLPERERHIIDMRFFEGKT 227 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQ 281 T ++ E +S+ +V ++E A K ++ Sbjct: 228 QT--EVAQEIHISQAQVSRLEKNALKSMK 254 >gi|160933256|ref|ZP_02080645.1| hypothetical protein CLOLEP_02102 [Clostridium leptum DSM 753] gi|156868330|gb|EDO61702.1| hypothetical protein CLOLEP_02102 [Clostridium leptum DSM 753] Length = 260 Score = 46.2 bits (108), Expect = 0.005, Method: Compositional matrix adjust. Identities = 56/236 (23%), Positives = 109/236 (46%), Gaps = 17/236 (7%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A L+ +LRLV+ + + G + ++ G IGL++A+ FD + R +TY + Sbjct: 42 AREELINGNLRLVLSVIQRFTNRGENLDDLFQVGCIGLIKAIDNFDISQDVRFSTYGVPM 101 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I ++ + LR + V++ + + + ++K L T NN +P + IAK+L + Sbjct: 102 IIGEIRRF-LRDNNSVRVSRSL--RDTAYKAMQVKERL--TTQNNKEP-SIEEIAKELEL 155 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + +V+ + SL + SD N + + V D + L E ++ RN Sbjct: 156 PKEDVVLALEAIVEPVSLYEPV-FSDGNDTIFVMDQVGDKNDDNNWLDEIALKEAIRN-- 212 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L PRE++I R Q T ++ E +S+ +V ++E + ++++ I Sbjct: 213 ------LGPREKKILNLRFFQGK--TQMEVAKEIGISQAQVSRLEKGSLERIKNHI 260 >gi|332799331|ref|YP_004460830.1| RNA polymerase sigma-28 subunit SigF [Tepidanaerobacter sp. Re1] gi|332697066|gb|AEE91523.1| RNA polymerase, sigma 28 subunit, SigF [Tepidanaerobacter sp. Re1] Length = 240 Score = 46.2 bits (108), Expect = 0.005, Method: Compositional matrix adjust. Identities = 56/245 (22%), Positives = 117/245 (47%), Gaps = 32/245 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A LV+ +L LV I + G ++ G+IGL++A++KFD + +TY Sbjct: 16 GEKKARDELVSLNLGLVWSIVKRFNNRGYEPEDLFQIGSIGLLKAIEKFDFSYDVKFSTY 75 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV-AIA 163 ++ I ++ YI R +K+ + K L + +++ + L N L E + I+ Sbjct: 76 AVPMIMGEIRRYI-RDDKPIKVSRSL--KELGYKIQKTQEELT----NTLDREPTINEIS 128 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-EERK 222 ++ V E++ E+ +L++ +D +VY DG LI++ E + Sbjct: 129 DEMEVPVEEIV------MAMEASQSLVSLND---------VVYQDDGSPIYLIDQLNENE 173 Query: 223 NRRNM------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + N+ L ++S L+ ER+I R ++ +T +++ + +++ +V ++E + Sbjct: 174 YQENLLHDKIALKEALSKLDRDERQIITLRYFKD--MTQIDVAKKLNMTQVQVSRLERKV 231 Query: 277 FKKVQ 281 KV+ Sbjct: 232 LTKVK 236 >gi|154249080|ref|YP_001409905.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Fervidobacterium nodosum Rt17-B1] gi|154153016|gb|ABS60248.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Fervidobacterium nodosum Rt17-B1] Length = 233 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 53/225 (23%), Positives = 104/225 (46%), Gaps = 21/225 (9%) Query: 53 LVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 ++ ++ +V KIA + Y + I +++ EG I L+QA +K+DP G T++ + Sbjct: 7 VIQEYIPMVTKIARDLKINLPYNVEIDDLIQEGVIALLQAAEKYDPRYGATFKTFAYTRV 66 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 K AM +Y+ + L K N ++ ++++ L + N + +++ L + Sbjct: 67 KGAMIDYLRKLDYLPK-----NVRQ---DIKKFDRELLNFYEQNKRLPTYDEMSEILGID 118 Query: 170 ESEVISMNCRLAGDESLN--ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 EV + LA +SLN + SD+NS D E+ + E + Sbjct: 119 VEEVEEIYRELALKQSLNLDQYLFESDENSYGSIDI------KSEENVKENAWKSILHEQ 172 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 L +++ L+ +E+ I R E+ ++L+ ++ V+ RV QI Sbjct: 173 LVEAINKLDEKEKIILSMRF--EHELSLKEIAEVLGVTESRVSQI 215 >gi|52629120|gb|AAU27861.1| flagellar biosynthesis sigma factor FliA [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 262 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 53/236 (22%), Positives = 109/236 (46%), Gaps = 27/236 (11%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H LV +IA +G + + +++ G +GL++A + +D +G TY+ I Sbjct: 42 LVKTHATLVKRIAHHLLGRLPQSVQLDDLIQSGMLGLLEAARHYDSSKGASFETYAGIRI 101 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 + M + + R+ W V N + + +R L+ L + DN + E V++ + Sbjct: 102 RGHMLDEVRRNDW--VPRSVYRNSRMISDAVRILEHKLGREAKDNEIAEELGVSLDDYHD 159 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + S++ L G + L D +++DH+G E R +M Sbjct: 160 MLQD---SISSHLYGFDDLGV------------TDDVLFDHEGNGST--EPHRNVMRSDM 202 Query: 228 LTRSMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R V++ PR+ R+ + +++ + L+ + EVS R+ QI ++A +++ Sbjct: 203 MNRLTQVIDSLPRKERLVLSLYYEQD-LNLKEIGEILEVSESRISQILSQATHRIR 257 >gi|323701302|ref|ZP_08112977.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323533904|gb|EGB23768.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 257 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 24/93 (25%), Positives = 50/93 (53%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + L + + G+ A ++L+ +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLTNSQMRTLFEAM-QQGNKEARNQLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GLM+A+ FD + + +TY++ I ++ Y+ Sbjct: 74 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYL 106 >gi|295109704|emb|CBL23657.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus obeum A2-162] Length = 259 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 27/101 (26%), Positives = 57/101 (56%), Gaps = 2/101 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+++E+ L +R ++ GD A + + +LRLV+ + ++ ++ G IG Sbjct: 16 LPILKQEEKDELFRRIKQ-GDTKAREQYIKGNLRLVLSVIRRFQNSNENPDDLFQIGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 LM+AV FD + +TY++ I ++ Y LR ++ +++ Sbjct: 75 LMKAVDNFDDTLMVKFSTYAVPMIIGEIRRY-LRDYNSIRV 114 >gi|225019126|ref|ZP_03708318.1| hypothetical protein CLOSTMETH_03078 [Clostridium methylpentosum DSM 5476] gi|224948099|gb|EEG29308.1| hypothetical protein CLOSTMETH_03078 [Clostridium methylpentosum DSM 5476] Length = 288 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 53/239 (22%), Positives = 112/239 (46%), Gaps = 23/239 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A +L++ +L+LV+ + + G + ++ G IGL++A+ FD + R +TY++ Sbjct: 70 AREKLISGNLKLVLSVIQRFTNRGENLDDLFQVGCIGLIKAIDNFDISQNVRFSTYAVPM 129 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I ++ Y LR + V++ + K + + K + +T +LK + I++++ V Sbjct: 130 IIGEIRRY-LRDNNSVRVSRSL--KDTAYKAMQAK---EKLTTAHLKEPTIDEISQEMGV 183 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ---EQVLIEKEERKNRR 225 +V+ + SL + S ++ D + D + +++ I KE KN Sbjct: 184 RREDVVLALESIVDPVSLYEPVYSDGGDTIYVMDQIGDKSDDKNWLDEIAI-KEAIKN-- 240 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 LN RE++I R N T ++ + +S+ +V ++E A ++++SI Sbjct: 241 ---------LNEREKKILSLRFF--NGKTQVEVAEDIGISQAQVSRLEKGALDRIKKSI 288 >gi|282862754|ref|ZP_06271815.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282562440|gb|EFB67981.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 298 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 62/244 (25%), Positives = 109/244 (44%), Gaps = 26/244 (10%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISE-VVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A + L+ +L LV A +R G +E ++ G IGL++A+ +FD R AT+++ Sbjct: 69 ARNTLIEMNLSLVRYAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREVEFATFAVP 128 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 +I ++ + +WS + + L L + K L A D + V +A L Sbjct: 129 YIVGEIKRFFRDTTWS---VHVPRRLQELRVELAKAKETLSAQLDRD---PTVAELATHL 182 Query: 167 NVSESEVI----SMNCRLAGDESLNALINSSDKNSSQ--WQDWLVYDHDGQEQVLIEKEE 220 ++ E E+I + N AG SL+ S+ + Q + D L D G E V Sbjct: 183 DLPEEEIIEGLVAANGYSAG--SLDTPSADSESGNEQRAYADLLGEDDPGMESV------ 234 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L + L+ RER I R QE +T + +E VS+ V ++ +R +++ Sbjct: 235 --ENLHALAPLLRQLDDRERTIVRMRFGQE--MTQAQIGAELGVSQMHVSRLLSRIVQRL 290 Query: 281 QESI 284 + + Sbjct: 291 RTGM 294 >gi|56963382|ref|YP_175113.1| sporulation sigma factor SigK [Bacillus clausii KSM-K16] gi|56909625|dbj|BAD64152.1| DNA-directed RNA polymerase sigma-27 factor sigma-K [Bacillus clausii KSM-K16] Length = 235 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 26/84 (30%), Positives = 48/84 (57%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++ E+ LA+ GD SA + L+ +LRLV I + + +++S G IGL Sbjct: 30 PLSKEDEKKYLARM--AEGDASARNMLIEHNLRLVAHIVKKFENTREDVEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ + +G +LATY+ I+ Sbjct: 88 IKAIESYSEGKGTKLATYAARCIE 111 >gi|326443735|ref|ZP_08218469.1| RNA polymerase sigma factor WhiG [Streptomyces clavuligerus ATCC 27064] Length = 258 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 104/248 (41%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 14 RSYKVTGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 72 Query: 95 PERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 ER + TY++ I+ AM ++I RS L LRR + Sbjct: 73 IERSIKFETYAITRIRGAMIDELRALDWIPRSVRQKARAVERAYATLEAQLRRTPSEGEV 132 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + E++ A+ +L S+ +A +E L+ D+ S D L Sbjct: 133 AEEMGIAVEELHAVFSQL--------SLANVVALEELLHVGGEGGDRLS--LMDTL---E 179 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + + V+ R Sbjct: 180 DTAADDPVEVAEGRELRRLLARAINTLPDREKTVVTLYYYE--GLTLAEIGNVLGVTESR 237 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 238 VSQIHTKS 245 >gi|323490161|ref|ZP_08095381.1| RNA polymerase sigma-D factor (Sigma-28) [Planococcus donghaensis MPA1U2] gi|323396209|gb|EGA89035.1| RNA polymerase sigma-D factor (Sigma-28) [Planococcus donghaensis MPA1U2] Length = 252 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 60/259 (23%), Positives = 117/259 (45%), Gaps = 27/259 (10%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLM 87 +EE V +++H D A LV +L LV + + LP + +V S GL+ Sbjct: 8 KEELVCWSDWQQHRDPDAGEYLVEQYLPLVDYVIQRFM-ISLPKTVEKDDVRSYAYEGLL 66 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQ-KRLFFNLRRLKGH 145 A+ KF+ ER + TY+ W IK A+ + + +S W + + ++ F L + G Sbjct: 67 DALSKFNIERDLKFETYASWRIKGAIIDGLRQSDWLPRSVRDKVKKIEKAFLLLEQQSG- 125 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 +++D ++ L ++++E+ + + +L+ +I+ D N + + Sbjct: 126 -VSVSDEE--------VSSYLGITKAEL----NKTVSEAALSTMISMDDDNFEEQGKLVN 172 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 Y D E+ L E + R+ L R++ L +E+ +E +T ++ VS Sbjct: 173 YHVDSPERHLSE----QMRKESLVRAIERLPEKEKITVSLCYFEEMKLT--EIAEILNVS 226 Query: 266 RERVRQIEARAFKKVQESI 284 RV Q+ ++A ++ SI Sbjct: 227 VSRVSQLHSKAMLRLHASI 245 >gi|257866395|ref|ZP_05646048.1| RNA polymerase sigma factor whiG [Enterococcus casseliflavus EC30] gi|257873089|ref|ZP_05652742.1| RNA polymerase sigma factor whiG [Enterococcus casseliflavus EC10] gi|257800353|gb|EEV29381.1| RNA polymerase sigma factor whiG [Enterococcus casseliflavus EC30] gi|257807253|gb|EEV36075.1| RNA polymerase sigma factor whiG [Enterococcus casseliflavus EC10] Length = 235 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 51/211 (24%), Positives = 97/211 (45%), Gaps = 20/211 (9%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA-NQKRLFFNLR 140 G IGLM A++KFDP + +Y+ IK A+ + + + + + A NQ F+ R Sbjct: 40 GVIGLMDALRKFDPSKKVPFESYAAIRIKGAIIDEVRKHAKISRYKMAAVNQ---FYQAR 96 Query: 141 RLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNS 197 + + +LK E I K+L +++S++ I + SL + + + Sbjct: 97 QE-------LEQSLKREATDTEICKQLGINQSQLADIYESLHYLASVSLEDTLFAYQEEG 149 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +D + + E+ L+ +E +R L + L RE+ I +E +TL+ Sbjct: 150 MTLKDMVRDPAENVEETLVAEE----KRTALVACIKKLGEREQLILSLYYTEE--LTLKE 203 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++ EVS RV QI + K++ I++++ Sbjct: 204 IAEILEVSIPRVSQIHGKTIAKLRTLIEEEL 234 >gi|297191780|ref|ZP_06909178.1| sporulation sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197721703|gb|EDY65611.1| sporulation sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 278 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 58/244 (23%), Positives = 101/244 (41%), Gaps = 18/244 (7%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RSYKATGDGRLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 ER + TY++ I+ AM + LR+ + + + L+ L+ Sbjct: 93 IERSIKFETYAITRIRGAMIDE-LRALDWIPRSVRQKARAVERAYATLEAQLR-----RT 146 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQE 212 E VA + V E + LA +L L++ + + D L D Sbjct: 147 PSESEVAAEMGITVDELHSVFSQLSLANVVALEELLHVGGEGGERLSLMDTL---EDTAA 203 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 +E E + R +L R+++ L RE+ + + +TL + + V+ RV QI Sbjct: 204 DNPVEVAEGRELRRLLARAINTLPDREKTVVTLYYYE--GLTLAEIGNVLGVTESRVSQI 261 Query: 273 EARA 276 ++ Sbjct: 262 HTKS 265 >gi|167755748|ref|ZP_02427875.1| hypothetical protein CLORAM_01263 [Clostridium ramosum DSM 1402] gi|237734714|ref|ZP_04565195.1| sporulation sigma factor sigE [Mollicutes bacterium D7] gi|167704687|gb|EDS19266.1| hypothetical protein CLORAM_01263 [Clostridium ramosum DSM 1402] gi|229382042|gb|EEO32133.1| sporulation sigma factor sigE [Coprobacillus sp. D7] Length = 231 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 31/90 (34%), Positives = 48/90 (53%), Gaps = 3/90 (3%) Query: 21 HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY-GLPISEVV 79 H+I P+ +E+ L K GD A L+ +LRLVV +A Y I +++ Sbjct: 21 HDILPPPLKGIEEKEALEKL--GAGDNDARDLLIEHNLRLVVYVAKRYDTTQNGGIEDLI 78 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 S G IGL++A+ F P++ +LATY+ I Sbjct: 79 SIGTIGLVKAINTFKPDKNIKLATYASRCI 108 >gi|325508641|gb|ADZ20277.1| RNA polymerase sigma factor [Clostridium acetobutylicum EA 2018] Length = 219 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 34/143 (23%), Positives = 72/143 (50%), Gaps = 9/143 (6%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +++ +++V ++ LV IA Y R L + ++V G I ++ AV+ FD +G + +T Sbjct: 5 NINERNKVVEKYMTLVKSIARKYINRSGTLELEDMVQSGAISMINAVENFDYNKGVKFST 64 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ ++ M+ Y ++ I + Q++ +LRR+K N K + I+ Sbjct: 65 YARHCVEGGMKNYCKKNEL---IHLSEYQRK---DLRRIKKLFDEKQLEN-KDIDITEIS 117 Query: 164 KKLNVSESEVISMNCRLAGDESL 186 +L + + + I++ C L D+ + Sbjct: 118 AELGIEKEKAINLICFLNKDKYI 140 >gi|312135662|ref|YP_004003000.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor owensensis OL] gi|311775713|gb|ADQ05200.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor owensensis OL] Length = 302 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 27/82 (32%), Positives = 48/82 (58%), Gaps = 9/82 (10%) Query: 50 AHRLVTSHLRLVVKIAMGY----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 +LV +++LV +A + +GY + ++VSEG IGL+ A + +DPE+G +TY+ Sbjct: 10 TQKLVADNIKLVYHVANKFMPCPKGYCYEVDDLVSEGYIGLVVAARNYDPEKG-SFSTYA 68 Query: 106 MWWIKA----AMQEYILRSWSL 123 I++ ++ +Y L S SL Sbjct: 69 CKVIESKIRKSLPKYRLTSVSL 90 >gi|308070013|ref|YP_003871618.1| RNA polymerase sigma-28 factor precursor [Paenibacillus polymyxa E681] gi|305859292|gb|ADM71080.1| RNA polymerase sigma-28 factor precursor [Paenibacillus polymyxa E681] Length = 233 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ EK+E L K + E G+ + + L+ +LRLV I + G + +++S G IGL Sbjct: 30 PLTEKEEARHL-KLFAE-GNAHSRNTLIEHNLRLVAHIVKKFDNTGEDLEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ F +G +LAT++ I+ Sbjct: 88 IKAIESFQTGKGTKLATFAARCIE 111 >gi|294815383|ref|ZP_06774026.1| RNA polymerase sigma factor whiG [Streptomyces clavuligerus ATCC 27064] gi|294327982|gb|EFG09625.1| RNA polymerase sigma factor whiG [Streptomyces clavuligerus ATCC 27064] Length = 278 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 104/248 (41%), Gaps = 26/248 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 34 RSYKVTGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGVFGLIDAIEKFD 92 Query: 95 PERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 ER + TY++ I+ AM ++I RS L LRR + Sbjct: 93 IERSIKFETYAITRIRGAMIDELRALDWIPRSVRQKARAVERAYATLEAQLRRTPSEGEV 152 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + E++ A+ +L S+ +A +E L+ D+ S D L Sbjct: 153 AEEMGIAVEELHAVFSQL--------SLANVVALEELLHVGGEGGDRLS--LMDTL---E 199 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D +E E + R +L R+++ L RE+ + + +TL + + V+ R Sbjct: 200 DTAADDPVEVAEGRELRRLLARAINTLPDREKTVVTLYYYE--GLTLAEIGNVLGVTESR 257 Query: 269 VRQIEARA 276 V QI ++ Sbjct: 258 VSQIHTKS 265 >gi|260893856|ref|YP_003239953.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Ammonifex degensii KC4] gi|260865997|gb|ACX53103.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Ammonifex degensii KC4] Length = 252 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 61/259 (23%), Positives = 116/259 (44%), Gaps = 34/259 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y++ G+ ++ LV +L LV K +G LP + ++ G +GL+ A++++DP Sbjct: 10 YKQRGNTTSKEELVRRYLPLV-KYLVGRLAVRLPPWVSLEDIEGAGILGLLAAMERYDPS 68 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT------ 150 +G +Y+ + I AM + + R W+ RR +QA+ Sbjct: 69 QGVEFESYARYRIWGAMLDEV-RRWARFS--------------RRTWQQMQAVLKVQERW 113 Query: 151 --DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + +P +V +A++L ++V + A S + S + S W+++L D Sbjct: 114 EREKGCRP-KVEDVAQELGWEPAQVDRLGRYFAAFNSFSLEEVRSAEGRSPWEEFLA-DP 171 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 GQ+ + E+ R L ++ L R + I A QE +TL + +S R Sbjct: 172 KGQDPLEELLEKEDLGR--LAEAIGRLEERLQLIL-ALYYQEG-LTLREIGEVLGISESR 227 Query: 269 VRQIEARAFKKVQESIQKQ 287 V Q+ +RA K++E + ++ Sbjct: 228 VCQLHSRALTKLREILAEE 246 >gi|15894509|ref|NP_347858.1| RNA polymerase sigma factor [Clostridium acetobutylicum ATCC 824] gi|15024150|gb|AAK79198.1|AE007635_12 RNA polymerase sigma factor [Clostridium acetobutylicum ATCC 824] Length = 227 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 34/143 (23%), Positives = 72/143 (50%), Gaps = 9/143 (6%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +++ +++V ++ LV IA Y R L + ++V G I ++ AV+ FD +G + +T Sbjct: 13 NINERNKVVEKYMTLVKSIARKYINRSGTLELEDMVQSGAISMINAVENFDYNKGVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ ++ M+ Y ++ I + Q++ +LRR+K N K + I+ Sbjct: 73 YARHCVEGGMKNYCKKNEL---IHLSEYQRK---DLRRIKKLFDEKQLEN-KDIDITEIS 125 Query: 164 KKLNVSESEVISMNCRLAGDESL 186 +L + + + I++ C L D+ + Sbjct: 126 AELGIEKEKAINLICFLNKDKYI 148 >gi|229075781|ref|ZP_04208758.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-18] gi|229098543|ref|ZP_04229484.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-29] gi|229104680|ref|ZP_04235342.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-28] gi|229117569|ref|ZP_04246941.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-3] gi|228665889|gb|EEL21359.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-3] gi|228678744|gb|EEL32959.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-28] gi|228684865|gb|EEL38802.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-29] gi|228707333|gb|EEL59529.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-18] Length = 252 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 49/190 (25%), Positives = 89/190 (46%), Gaps = 17/190 (8%) Query: 24 RKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 +K P L+ E L ++ + GD A +V S++RLV + + G ++ G Sbjct: 9 KKKPQLKDHELKALIQK-SQGGDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGC 67 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 IGL+++V KFD + +TY++ I +Q + LR VK+ + K +R+++ Sbjct: 68 IGLLKSVDKFDLSFDVKFSTYAVPMIIGEIQRF-LRDDGSVKVSRSL--KETGNKIRKMR 124 Query: 144 GHL-----QAITDN------NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L +A T N L PE+VV +A++ + S + GD + L Sbjct: 125 DELSKEFGRAPTINEVAEALELTPEEVV-LAQEASRPPSSIHETVYENDGD-PITILDQI 182 Query: 193 SDKNSSQWQD 202 +D++ ++W D Sbjct: 183 ADQSETKWFD 192 >gi|146295930|ref|YP_001179701.1| sporulation sigma factor SigK [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409506|gb|ABP66510.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 220 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 29/93 (31%), Positives = 52/93 (55%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 P+ +++EE L K + G + A + L+ +LRLV IA Y P +++S G I Sbjct: 13 PLSDEEEEMHLKKMW--EGAIEARNILIEKNLRLVAHIAKKYT-LSFPNLTDDIISVGTI 69 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + E+ RL+TY+ I+ + Y+ Sbjct: 70 GLIKAIETYSQEKNTRLSTYAAKCIENEILMYL 102 >gi|310643126|ref|YP_003947884.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309248076|gb|ADO57643.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 233 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 49/84 (58%), Gaps = 2/84 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ EK+E L K + E G+ + + L+ +LRLV I + G + +++S G IGL Sbjct: 30 PLTEKEEARHL-KLFAE-GNAHSRNTLIEHNLRLVAHIVKKFDNTGEDLEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWIK 110 ++A++ F +G +LAT++ I+ Sbjct: 88 IKAIESFQTGKGTKLATFAARCIE 111 >gi|225862940|ref|YP_002748318.1| RNA polymerase sigma-B factor [Bacillus cereus 03BB102] gi|225786058|gb|ACO26275.1| RNA polymerase sigma-B factor [Bacillus cereus 03BB102] Length = 257 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 60/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIAEFQQNQCGEAQERLVNHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G E+ RR +L +VLN E+ + + E Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 221 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 222 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 252 >gi|297561355|ref|YP_003680329.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296845803|gb|ADH67823.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 285 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 46/197 (23%), Positives = 92/197 (46%), Gaps = 13/197 (6%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V + LV K+A Y G G P+ ++ +GL++A+ F+P+RG +Y + + Sbjct: 56 RVVVLYQPLVNKLARRYNGRGEPLDDLQQTAMLGLVKAIHGFNPDRGKPFISYLLPTVTG 115 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + V++ + R+ +L+ L + + V +++++ + E+ Sbjct: 116 EIKRHFRDHTWAVRVSRRHQENRI-----KLRQALNDFQQAHARTPTVHELSEEMGLPEA 170 Query: 172 EVISMNCRLAGDESLNAL-INSSDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLT 229 EV + + ES +L +++ D + S Q+ + DH G E E E +R L Sbjct: 171 EVGEL---IQVSESYRSLSLDAPDTSDSDGQEGTRLEDHLGSED---EGLELVVQRESLK 224 Query: 230 RSMSVLNPRERRIFEAR 246 +++ L RER I R Sbjct: 225 PALARLPEREREILMLR 241 >gi|212638647|ref|YP_002315167.1| RNA polymerase sporulation-specific sigma factor (sigma-K), SpoIVCB [Anoxybacillus flavithermus WK1] gi|212560127|gb|ACJ33182.1| RNA polymerase sporulation-specific sigma factor (sigma-K), SpoIVCB [Anoxybacillus flavithermus WK1] Length = 129 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 26/81 (32%), Positives = 48/81 (59%), Gaps = 1/81 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L+ +EE + K+ + GD +A ++L+ +LRLV I + G +++S G IGL++ Sbjct: 31 LDAKEEAMYLKQMAK-GDENARNKLIEHNLRLVAHIVKKFENTGEDPEDLISIGTIGLIK 89 Query: 89 AVKKFDPERGFRLATYSMWWI 109 A++ + +G +LATY+ I Sbjct: 90 AIESYSTGKGTKLATYAARCI 110 >gi|329941096|ref|ZP_08290375.1| SigL-like sigma factor [Streptomyces griseoaurantiacus M045] gi|329299627|gb|EGG43526.1| SigL-like sigma factor [Streptomyces griseoaurantiacus M045] Length = 319 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 7/125 (5%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 H LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 96 HTLVELNLALVKFAAARFRTRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTII 155 Query: 111 AAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 ++ + SWS V++ + RL +L + L D + V +A +L +S Sbjct: 156 GEIKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQQLD---RAPTVTELADRLGLS 209 Query: 170 ESEVI 174 EV+ Sbjct: 210 NEEVV 214 >gi|300787087|ref|YP_003767378.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299796601|gb|ADJ46976.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 263 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 31/106 (29%), Positives = 52/106 (49%), Gaps = 10/106 (9%) Query: 28 MLEKQEEYVLAKR-YREHGDLSAAH--------RLVTSHLRLVVKIAMGYRGYGLPISEV 78 +L + +EY + ++E G L A +LVT L L IA + G G P ++ Sbjct: 8 LLHRPDEYAHCEPLFQELGSLDTADPRRDVVRSKLVTELLPLAEHIATRFSGRGEPREDL 67 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSL 123 V IGL+ AV +FDP RG ++++ I ++ + + WS+ Sbjct: 68 VQVARIGLINAVDRFDPARGHDFLSFAVPTIMGEVRRHFRDTGWSV 113 >gi|154503856|ref|ZP_02040916.1| hypothetical protein RUMGNA_01682 [Ruminococcus gnavus ATCC 29149] gi|153795455|gb|EDN77875.1| hypothetical protein RUMGNA_01682 [Ruminococcus gnavus ATCC 29149] Length = 259 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 53/235 (22%), Positives = 110/235 (46%), Gaps = 16/235 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A + + +LRLV+ + + ++ G +GLM+AV FDP R + +T Sbjct: 33 EGDEDAREQYIKGNLRLVLSVIKRFSSSSENADDLFQIGCVGLMKAVDHFDPSRLVKFST 92 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ Y LR + +++ + + + + +G ++ + K V IA Sbjct: 93 YAVPMIIGEIRRY-LRDNNSIRVSRSL-RDTAYKAIYAKEGFVKKYS----KEPTVQEIA 146 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +++ +S+ +++ + SL+ + S ++ D V D +E+ +E+ Sbjct: 147 EEIGISKEDIVFALDAIQMPVSLHEPVYSDGGDTLYIMDQ-VSDKKNREENWVEELS--- 202 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 L +M LN RER I + R E +E ++ + ++S+ +V ++E A K Sbjct: 203 ----LEAAMERLNERERFIIQLRFF-EGKTQME-VAEQIQISQAQVSRLEKNALK 251 >gi|2529275|gb|AAB81194.1| sigma factor [Geobacillus stearothermophilus] Length = 250 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 55/256 (21%), Positives = 114/256 (44%), Gaps = 19/256 (7%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 ++ QE L +R +E GD A ++ ++RLV + + G ++ G IGL++ Sbjct: 12 IKDQEMKELIRRSQE-GDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLK 70 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +V KFD + +TY++ I +Q + LR VK+ + K + +R+ K L Sbjct: 71 SVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSL--KEMGNKIRKAKDEL-- 125 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + + IA L +S +V+ + S++ + +D + D + Sbjct: 126 -SKTRGRSPTITEIADHLGISPEDVVLAQEAVRLPTSIHETVYENDGDPITLLDQIA--- 181 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D E +K L +++ L+ RER I R ++ T ++S +S+ + Sbjct: 182 DADEASWFDK-------IALKKAIEELDERERLIVYLRYYRDR--TQSEVASRLGISQVQ 232 Query: 269 VRQIEARAFKKVQESI 284 V ++E + + +++ + Sbjct: 233 VSRLEKKILQHIKDKM 248 >gi|75761672|ref|ZP_00741618.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74490828|gb|EAO54098.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 258 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 110/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPMLEKQEEYV-LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P +E+ + L ++++ A RLV + LV IA Y G +++ Sbjct: 3 EIQSQPTTLTKEDVIKLIAEFQQNQCNEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 62 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 63 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 115 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 116 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 172 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G EQ RR +L +VLN E+ + Sbjct: 173 SDGSSVARIESVGEVEQGYEQT--------ERRLVLEDIFNVLNDMEKSVI 215 >gi|218515736|ref|ZP_03512576.1| RNA polymerase sigma factor RpoD [Rhizobium etli 8C-3] Length = 191 Score = 46.2 bits (108), Expect = 0.006, Method: Compositional matrix adjust. Identities = 30/91 (32%), Positives = 47/91 (51%), Gaps = 5/91 (5%) Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QE 250 D+ S D++ D + I+ + N R TR ++ L PRE R+ R Sbjct: 90 GDEEDSHLGDFI---EDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 146 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F V+RER+RQIEA+A +K++ Sbjct: 147 TDHTLEEVGQQFSVTRERIRQIEAKALRKLK 177 >gi|323703189|ref|ZP_08114842.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323531848|gb|EGB21734.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 251 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 64/248 (25%), Positives = 120/248 (48%), Gaps = 18/248 (7%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRL 101 D A +L+ +L LV +A G LP ++ G IGLM+A+ KFD G Sbjct: 15 DERARQQLILHYLPLVKHLA-GRLAVKLPSFIQREDLEGYGVIGLMEALDKFDHTMGNSF 73 Query: 102 ATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 Y+ I+ A+ + + R +W + TA QK +L++ + L+ + P++++ Sbjct: 74 DAYAYHRIRGAILDQVRRQNW----LPRTAWQK--LQHLKQTRERLERELGGAV-PDEIL 126 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 A ++V E ++ + SL+ + SD + + D LV D G L EE Sbjct: 127 AREMGISVDELNHLASSAGKMYLMSLDEEVPGSDGSVVRKLD-LVED-TGSPDPLSIVEE 184 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++NR+ +L R++ L R++ I + +TL+ + EVS RV Q+ + +K+ Sbjct: 185 KENRK-LLARAIEKLGQRDQLILSLYYTE--GLTLKEIGQVLEVSESRVCQLHGQVMRKL 241 Query: 281 QESIQKQV 288 ++++Q+ + Sbjct: 242 RKTLQEML 249 >gi|295835999|ref|ZP_06822932.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] gi|295825822|gb|EFG64505.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] Length = 297 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 53/218 (24%), Positives = 102/218 (46%), Gaps = 23/218 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G +GL++A+ +FD R ++++ +I ++ Y S V + + R Sbjct: 91 MEDILQVGTVGLIKAIDRFDLTREAEFTSFAIPYIVGEIKRYFRDSTWAVHVPRRLQELR 150 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + +L R K L D + V +A +L +SE EVI G +SL+ +S Sbjct: 151 V--DLARAKERLAVDLDRD---PGVKELAAELGISEDEVIDGLIAANGYMSDSLDLPADS 205 Query: 193 SD------KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + K ++ + D+L D D +++ E+ R +L L+ RER + E R Sbjct: 206 TTSGKPDQKTATTYADFL-GDWDPAMELV---EDFTALRPLL----GTLDDRERYLLELR 257 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 QE +T + +E VS+ V ++ +R K++E + Sbjct: 258 FGQE--LTQAQIGAELGVSQMHVSRLLSRTLGKLREGL 293 >gi|291535996|emb|CBL09108.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Roseburia intestinalis M50/1] Length = 192 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 23/65 (35%), Positives = 37/65 (56%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G L A + L ++RLV +A Y+ + +++S G IGLM+A+ + + G RLATY Sbjct: 8 GSLEARNELTLHNMRLVAHVAKKYQNSEEDMEDLISIGTIGLMKAIATYKEDYGSRLATY 67 Query: 105 SMWWI 109 + I Sbjct: 68 AARCI 72 >gi|255505890|ref|ZP_05348671.3| RNA polymerase sigma-F factor [Bryantella formatexigens DSM 14469] gi|255265373|gb|EET58578.1| RNA polymerase sigma-F factor [Bryantella formatexigens DSM 14469] Length = 238 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 1/83 (1%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD +A +LV +L LV IA + G G + ++ G+IGL++A+ F+ + +T Sbjct: 13 QGDKAAREQLVEENLGLVFTIAKRFTGRGTDVEDLFQIGSIGLLKAIDNFNLSYDVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKI 126 Y++ I ++ + LR ++K+ Sbjct: 73 YAVPMIAGEIRRF-LRDDGMLKV 94 >gi|196044126|ref|ZP_03111362.1| RNA polymerase sigma-B factor [Bacillus cereus 03BB108] gi|218902186|ref|YP_002450020.1| RNA polymerase sigma-B factor [Bacillus cereus AH820] gi|196024765|gb|EDX63436.1| RNA polymerase sigma-B factor [Bacillus cereus 03BB108] gi|218534787|gb|ACK87185.1| RNA polymerase sigma-B factor [Bacillus cereus AH820] Length = 257 Score = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 60/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIAEFQQNQCGEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G E+ RR +L +VLN E+ + + E Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 221 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 222 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 252 >gi|295104067|emb|CBL01611.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 220 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 29/94 (30%), Positives = 49/94 (52%), Gaps = 8/94 (8%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAM-GYRGYGLP-------ISEVVSEGNIGLMQAVK 91 R + GD +A L+ +L + KIA+ YR GL + +++ EG+IGL+ A+ Sbjct: 11 RLAQKGDTAARDILLEKNLGFIRKIALEQYRNMGLDENDIGIDLDDLMQEGSIGLLNAIP 70 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 FD RG + TY+ ++ AM + I + L + Sbjct: 71 LFDAGRGMKFLTYAAPALRNAMTDCIRAALGLFE 104 >gi|284990614|ref|YP_003409168.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Geodermatophilus obscurus DSM 43160] gi|284063859|gb|ADB74797.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Geodermatophilus obscurus DSM 43160] Length = 360 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 57/238 (23%), Positives = 102/238 (42%), Gaps = 20/238 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL LV A + G P +++ G +GL+ A+ +FDP RG ++++ I Sbjct: 140 LVEEHLPLVRHFARRFSNRGEPFDDLLQVGTLGLIAAIDRFDPTRGVEFLSFAVPTITGE 199 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + + WS + + L +L G L P + +A+ L + + Sbjct: 200 IKRHFRDQGWS---VRVPRRLQELHLSLNAAVGELAQKNGRAPTPSE---LAEHLGIPRA 253 Query: 172 EVISMNCRLAGDESLNALINSS-DKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLT 229 EV L G NA +SS D+ S D G+E +E E R L Sbjct: 254 EV------LEGLAVANAYRSSSLDERLSGEDDSPTLAATLGEEDSALEGVE---YRESLQ 304 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ + RERRI R +T ++++ +S+ V ++ ++ K++E + K Sbjct: 305 PLLATIPARERRILILRFFGN--MTQSQIAADIGISQMHVSRLLSQTLAKLREGLLKD 360 >gi|118476614|ref|YP_893765.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis str. Al Hakam] gi|301052635|ref|YP_003790846.1| sigma factor B [Bacillus anthracis CI] gi|118415839|gb|ABK84258.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Bacillus thuringiensis str. Al Hakam] gi|300374804|gb|ADK03708.1| sigma factor B [Bacillus cereus biovar anthracis str. CI] Length = 258 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 60/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 3 EIQSQPTNLTKEDVIKLIAEFQQNQCGEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 62 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 63 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 115 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 116 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 172 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G E+ RR +L +VLN E+ + + E Sbjct: 173 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 222 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 223 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 253 >gi|154500630|ref|ZP_02038668.1| hypothetical protein BACCAP_04303 [Bacteroides capillosus ATCC 29799] gi|150270519|gb|EDM97828.1| hypothetical protein BACCAP_04303 [Bacteroides capillosus ATCC 29799] Length = 221 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 28/82 (34%), Positives = 45/82 (54%), Gaps = 1/82 (1%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L+ +EE + +R GDL A + L+ +LRLV I Y +++S G IGL++ Sbjct: 36 LKAEEERMYLERC-AAGDLEARNILIEHNLRLVAHIIKKYYTQTDDQDDLISIGTIGLIK 94 Query: 89 AVKKFDPERGFRLATYSMWWIK 110 + F P++ RLATY+ I+ Sbjct: 95 GISTFKPDKNVRLATYASRCIE 116 >gi|319644916|ref|ZP_07999149.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] gi|317392725|gb|EFV73519.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] Length = 241 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++A++ + Sbjct: 37 KKYLELMAQGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSA 96 Query: 96 ERGFRLATYSMWWI 109 +G +LATY+ I Sbjct: 97 GKGTKLATYAARCI 110 >gi|126653890|ref|ZP_01725737.1| DNA-directed RNA polymerase sigma-27 factor sigma-K [Bacillus sp. B14905] gi|126589615|gb|EAZ83754.1| DNA-directed RNA polymerase sigma-27 factor sigma-K [Bacillus sp. B14905] Length = 235 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 63/264 (23%), Positives = 107/264 (40%), Gaps = 70/264 (26%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K+EE +R+ GD A L+ ++RLV + + + + +S G IGLM+AV Sbjct: 33 KEEEAACIERFLG-GDEQARLDLIERNMRLVAHVVKKFHPKHEQLDDYISIGTIGLMKAV 91 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 + + P++ RLATY+ I + + +LR K Sbjct: 92 ESYTPDKKTRLATYAARCI----------------------ENEILMHLRTQK------- 122 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + K +++ E + D+ NAL Q +D L D Sbjct: 123 ----------KVQKDVSLFEP--------IGTDKDGNAL---------QIRDLLQCD--- 152 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRER 268 E+ EK E K L + +L+ RE I R Q++ +T + +++ +SR Sbjct: 153 -EESATEKIEHKEHVAQLYHYLHMLDERELEIVTLRYGLNQQDALTQKEIAARLNISRSY 211 Query: 269 VRQIEARA-------FKKVQESIQ 285 V +IE RA +K+ Q+SI+ Sbjct: 212 VSRIEKRALIKLYQLYKRDQKSIE 235 >gi|305644360|gb|ADM53781.1| RNA polymerase sigma factor [Aeromonas hydrophila] gi|305644362|gb|ADM53782.1| RNA polymerase sigma factor [Aeromonas hydrophila] Length = 176 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 47/194 (24%), Positives = 81/194 (41%), Gaps = 28/194 (14%) Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I + L R+ Sbjct: 1 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI--PVHMIETINKLNRISR 58 Query: 145 HLQAITDNNLKPEQVV--------AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN 196 + PE++ I K L +++ E ISM + DE Sbjct: 59 QMLQEMGREPNPEELAMRMGMPEDKIRKVLKIAK-EPISMETPIGDDE------------ 105 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVT 254 S D++ D + + ++ RN ++ L RE ++ R + T Sbjct: 106 DSHLGDFI---EDTTLALPADAATSESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHT 162 Query: 255 LENLSSEFEVSRER 268 LE + +F+V+RER Sbjct: 163 LEEVGKQFDVTRER 176 >gi|150390456|ref|YP_001320505.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Alkaliphilus metalliredigens QYMF] gi|149950318|gb|ABR48846.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Alkaliphilus metalliredigens QYMF] Length = 243 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 60/254 (23%), Positives = 119/254 (46%), Gaps = 31/254 (12%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMG--YRGYG--LPISEVVSEGNIGLMQAVKK 92 L + Y+++ DL + L+ ++ LV KI G Y YG + ++VS G GL+ A++K Sbjct: 6 LWQHYKQNHDLQTKNELIEKYIALV-KIIAGRLYTSYGSNVDYDDLVSYGIFGLIDAIEK 64 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITD 151 FD + + TY+ I+ A+ + LR+ V K++ + + L +++ D Sbjct: 65 FDINKNVKFETYAQIRIRGAIIDQ-LRNLDWVPRSIRQKSKKIEDAYAKAENRLGRSVLD 123 Query: 152 NNLKPEQVVAIA---KKL-NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 + E ++I + L ++ ++S+ RL+ ++ + I D+N Sbjct: 124 FEVAQELEMSIGDFHRTLQQINSFNIVSLEERLS--DTHHNQIPIGDEN----------- 170 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 D EQ++ KEER +L S+ L+ RE+ + + T + + +VS Sbjct: 171 -DLPEQIICNKEERL----LLRSSIESLSEREKTVVTLYYYE--GFTYKEIGQVLDVSES 223 Query: 268 RVRQIEARAFKKVQ 281 RV Q+ ++A +++ Sbjct: 224 RVSQLHSKAIVRLK 237 >gi|311894139|dbj|BAJ26547.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 281 Score = 45.8 bits (107), Expect = 0.007, Method: Compositional matrix adjust. Identities = 57/217 (26%), Positives = 96/217 (44%), Gaps = 24/217 (11%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQK 133 + ++V G +GL++AV FDP+RG TY++ I ++ + SW L ++ + Q+ Sbjct: 56 LDDIVQVGTVGLIKAVDGFDPDRGVEFVTYAIPTISGEIKRFFRDTSWPL-RVPRSV-QE 113 Query: 134 RLFFNLR---RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM--NCRLAGDESLNA 188 R +R RL+ L + D +A +L+V+E E RL +SL++ Sbjct: 114 RYLAAVRASDRLEQALGRLPDT-------AELAAELHVTEDEAAEGLEAGRLCRCDSLDS 166 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 L D S L+ G + L E R M T +S L RER + R Sbjct: 167 L---RDDGSDDAGSALINRLGGCDPEL----EVAELRVMATPFLSRLPERERTVLLLRFW 219 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +T +++ VS+ V +I A ++E I+ Sbjct: 220 --GGLTQSEIAARIGVSQMHVSRILAATLAGLRERIE 254 >gi|256784015|ref|ZP_05522446.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 266 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 55/257 (21%), Positives = 108/257 (42%), Gaps = 45/257 (17%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH +L R+V + L + ++A +R G ++ +GL++AV ++DPERG Sbjct: 32 EHDELR--DRIVEAWLPMAERLAGRFRSRGESFEDLRQVAALGLVKAVDRYDPERGNAFE 89 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 +Y++ I ++ + + + + R N R G + T +P V I Sbjct: 90 SYAVPTITGEIKRHFRDHMWTLHVPRRVQELR---NRVRFAGQDLSQTIPGRRP-TVAEI 145 Query: 163 AKKLNVSESEV------------ISMNCRLAGDE---SLNALINSSDKNSSQWQDWLVYD 207 A++ +SE +V +S++ L G E SL + + D Sbjct: 146 AERAELSEEDVRVGLEALESFTALSLDAELPGSEDGYSLGDALGAPDPALD--------- 196 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 ++++E K+R ++ L PRER I R + +T ++ + +S+ Sbjct: 197 ------TVVDREAVKDR-------LAALPPRERAILYMRFFDD--MTQSRIAEQLGISQM 241 Query: 268 RVRQIEARAFKKVQESI 284 V ++ R +V+E + Sbjct: 242 HVSRLITRCCDRVREQV 258 >gi|317470325|ref|ZP_07929717.1| RNA polymerase sigma-G factor [Anaerostipes sp. 3_2_56FAA] gi|316902189|gb|EFV24111.1| RNA polymerase sigma-G factor [Anaerostipes sp. 3_2_56FAA] Length = 258 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 63/264 (23%), Positives = 117/264 (44%), Gaps = 33/264 (12%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E+ L R E GD A + + +LRLV+ + + G ++ G IG Sbjct: 16 LPLLTNEEKEELFIRI-EQGDQEAREQYIKGNLRLVLSVIQRFSGSNENADDLFQVGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+A+ FD + +TY++ I ++ Y+ + N R+ +LR + Sbjct: 75 LMKAIDNFDRSLNVKFSTYAVPMIIGEVRRYLRDN----------NSMRVSRSLRDIA-- 122 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +AIT A+ KK N + E I+ + ++ L AL ++ S ++ Sbjct: 123 YKAITAKE-------ALTKKFNKEPTIEAIAEEIEMKKEDVLFAL-DAIATPLSLYEP-- 172 Query: 205 VYDHDGQEQVLIEK-EERKNRRNM------LTRSMSVLNPRERRIFEARRLQENPVTLEN 257 VY G L+++ +++KN+ + L +M L RE I R T Sbjct: 173 VYQDGGDTLFLMDQVKDKKNKEELWVESIALKDAMEHLPEREYNIIRLRFFDGKTQT--E 230 Query: 258 LSSEFEVSRERVRQIEARAFKKVQ 281 ++ E +S+ +V ++E A K ++ Sbjct: 231 VADEISISQAQVSRLEKNALKHMK 254 >gi|240146182|ref|ZP_04744783.1| RNA polymerase sigma-F factor [Roseburia intestinalis L1-82] gi|257201716|gb|EEV00001.1| RNA polymerase sigma-F factor [Roseburia intestinalis L1-82] gi|291536709|emb|CBL09821.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Roseburia intestinalis M50/1] Length = 248 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 54/215 (25%), Positives = 96/215 (44%), Gaps = 34/215 (15%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A L+ +L LV IA + G E+ G IGLM+AV KFD +TY Sbjct: 14 GDKGARDTLIAGNLGLVHTIANRFEHRGHEREELFQIGCIGLMKAVDKFDLSLNLAFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR +VK+ T + + R K L + +P ++ IA+ Sbjct: 74 AVPVIMGEIRRF-LRDDGMVKVSRTLKENA--YKAGRAKEELWG--ELGREP-GLLEIAE 127 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--EERK 222 + +S E+I + S+ S +Q VY+ DG E +++++ E+ + Sbjct: 128 RTGLSSGEII-------------MAMESARDVESIYQP--VYEKDGDELLMVDQLCEKEE 172 Query: 223 NRRN-----------MLTRSMSVLNPRERRIFEAR 246 N R+ ++ + M +L+ RE+ + R Sbjct: 173 NGRDEPEKEAVLNRMVIEQLMELLDEREQNLIRCR 207 >gi|219129831|ref|XP_002185083.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217403578|gb|EEC43530.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 435 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 18/50 (36%), Positives = 35/50 (70%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 +++ EG IGL +AV +++PE G + +TY+++W++AA+ I LV++ Sbjct: 184 DLIQEGAIGLARAVDRWNPEIGGKFSTYAVYWVRAAILRCIAERDDLVRV 233 >gi|149174362|ref|ZP_01852989.1| probable RNA polymerase sigma 70 [Planctomyces maris DSM 8797] gi|148846907|gb|EDL61243.1| probable RNA polymerase sigma 70 [Planctomyces maris DSM 8797] Length = 309 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 18/49 (36%), Positives = 30/49 (61%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 ++RLV I G+ E+ S+G + +++A+ KFD RGFR +TY+ Sbjct: 134 NMRLVASIVKKCTTTGVSFDELFSDGCLTMLKAIDKFDYSRGFRFSTYA 182 >gi|20151162|pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti- Sigma Factor Spoiiab With The Sporulation Sigma Factor Sigmaf Length = 243 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 38/146 (26%), Positives = 69/146 (47%), Gaps = 7/146 (4%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 ++ QE L +R +E GD A ++ ++RLV + + G ++ G IGL++ Sbjct: 10 IKDQEMKELIRRSQE-GDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLK 68 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 +V KFD + +TY++ I +Q + LR VK+ + K + +R+ K L Sbjct: 69 SVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSL--KEMGNKIRKAKDEL-- 123 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVI 174 + + V IA L +S +V+ Sbjct: 124 -SKTRGRAPTVTEIADHLGISPEDVV 148 >gi|302389825|ref|YP_003825646.1| RNA polymerase, sigma subunit, RpoX/SigF [Thermosediminibacter oceani DSM 16646] gi|302200453|gb|ADL08023.1| RNA polymerase, sigma subunit, RpoX/SigF [Thermosediminibacter oceani DSM 16646] Length = 241 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 27/81 (33%), Positives = 45/81 (55%), Gaps = 1/81 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K+ +E GD A LV+ +L LV I + G I ++ G+IGL++A++KFD Sbjct: 9 LLKKAKE-GDQEAKSELVSLNLGLVWSIVKRFTNRGYEIEDLFQIGSIGLLKAIEKFDFS 67 Query: 97 RGFRLATYSMWWIKAAMQEYI 117 + +TY++ I ++ YI Sbjct: 68 YNVKFSTYAVPMIIGEIRRYI 88 >gi|49480184|ref|YP_035252.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis serovar konkukian str. 97-27] gi|49331740|gb|AAT62386.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar konkukian str. 97-27] Length = 258 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 60/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 3 EIQSQPTNLTKEDVIKLIAEFQQNQCDEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 62 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 63 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 115 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 116 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 172 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G E+ RR +L +VLN E+ + + E Sbjct: 173 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 222 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 223 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 253 >gi|221639440|ref|YP_002525702.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Rhodobacter sphaeroides KD131] gi|221160221|gb|ACM01201.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Rhodobacter sphaeroides KD131] Length = 239 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 52/236 (22%), Positives = 112/236 (47%), Gaps = 22/236 (9%) Query: 52 RLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 RLV +H+ LV +IA G + I +++ G +GL+ A ++++P G A Y+ Sbjct: 16 RLVRAHMDLVRRIAWNLHARIGRKVEIDDLIQVGYMGLVDASRRYEPREGVTFAAYAAIR 75 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ ++ LRS S + T Q+++ ++RL+G L ++ + +A +L++ Sbjct: 76 IRGSIMDF-LRSNSALCRTTILMQQKVKAAVQRLEGRL-------MRAPETPEVAAELSM 127 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E + AG ++ +L D S+ L HD + ++ + R +L Sbjct: 128 PVGEYQDWLAQFAGSQT-ASLDEVYDDQSA-----LFEGHDPSAE---DRLQASQMRGLL 178 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +++ + RE + + ++E + + + V+ RV QI+ A ++++ I Sbjct: 179 RQALGRMPEREALLLQLIFVEE--LNVYEVGEILGVTTGRVSQIKKAAIERLRSLI 232 >gi|154503257|ref|ZP_02040317.1| hypothetical protein RUMGNA_01081 [Ruminococcus gnavus ATCC 29149] gi|153796251|gb|EDN78671.1| hypothetical protein RUMGNA_01081 [Ruminococcus gnavus ATCC 29149] Length = 238 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 49/239 (20%), Positives = 113/239 (47%), Gaps = 16/239 (6%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GD A +LV ++ L+ + + G G+ ++ G+IGL++A+ KFD + +T Sbjct: 13 NGDKEAREQLVEENIGLIWCVVKRFYGRGIEAEDLFQIGSIGLIKAIDKFDLSYDVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + LR ++K+ + + K L + + + + + +TD + + ++ Sbjct: 73 YAVPMISGEIKRF-LRDDGMIKV--SRSLKELSYRIFQTR---EKMTDGLGREPTLEELS 126 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 +++ V + E++ ESL I+ + + D L +E++L Sbjct: 127 QEMGVEKEELVQAMEASGEVESLYRPIHQKEGSEISLLDKLEEKEHREEKIL-------- 178 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R +L + + L+ +ER + R E T + E +S+ +V ++E + + ++E Sbjct: 179 DRMLLGQLLEKLDGQERTLIYLRYFAEK--TQSAVGKEMGISQVQVSRMEKKIIQNLRE 235 >gi|330983153|gb|EGH81256.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 70 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 23/57 (40%), Positives = 35/57 (61%) Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +++ VL+ R R I R L E TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 12 LHQALDVLDERSRDILYQRWLAEEKATLHDLAQKYNVSAERIRQLEKSAMNKLKTSI 68 >gi|167748837|ref|ZP_02420964.1| hypothetical protein ANACAC_03611 [Anaerostipes caccae DSM 14662] gi|167651807|gb|EDR95936.1| hypothetical protein ANACAC_03611 [Anaerostipes caccae DSM 14662] Length = 275 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 63/264 (23%), Positives = 117/264 (44%), Gaps = 33/264 (12%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L +E+ L R E GD A + + +LRLV+ + + G ++ G IG Sbjct: 33 LPLLTNEEKEELFIRI-EQGDQEAREQYIKGNLRLVLSVIQRFSGSNENADDLFQVGCIG 91 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+A+ FD + +TY++ I ++ Y+ + N R+ +LR + Sbjct: 92 LMKAIDNFDRSLNVKFSTYAVPMIIGEVRRYLRDN----------NSMRVSRSLRDIA-- 139 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +AIT A+ KK N + E I+ + ++ L AL ++ S ++ Sbjct: 140 YKAITAKE-------ALTKKFNKEPTIEAIAEEIEMKKEDVLFAL-DAIATPLSLYEP-- 189 Query: 205 VYDHDGQEQVLIEK-EERKNRRNM------LTRSMSVLNPRERRIFEARRLQENPVTLEN 257 VY G L+++ +++KN+ + L +M L RE I R T Sbjct: 190 VYQDGGDTLFLMDQVKDKKNKEELWVESIALKDAMEHLPEREYNIIRLRFFDGKTQT--E 247 Query: 258 LSSEFEVSRERVRQIEARAFKKVQ 281 ++ E +S+ +V ++E A K ++ Sbjct: 248 VADEISISQAQVSRLEKNALKHMK 271 >gi|219670064|ref|YP_002460499.1| sporulation sigma factor SigG [Desulfitobacterium hafniense DCB-2] gi|219540324|gb|ACL22063.1| RNA polymerase, sigma 28 subunit, SigG [Desulfitobacterium hafniense DCB-2] Length = 257 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 38/150 (25%), Positives = 73/150 (48%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + L Y + G+ A +L+ +LRLV+ + + G + ++ G I Sbjct: 15 KLPVLSSAKMKELFVAY-QSGEKEAREKLIYGNLRLVLSVIQRFTNRGEYVDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 74 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQV 128 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 Q + + + +P V IA KL + EVI Sbjct: 129 RDQLVNECSREP-TVSEIADKLTLPREEVI 157 >gi|143615|gb|AAA22791.1| sporulation protein [Bacillus subtilis] Length = 195 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 46/188 (24%), Positives = 79/188 (42%), Gaps = 21/188 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A L+ ++RLV + + G ++ G IGL+++V KFD R + Sbjct: 27 QNGDQQARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLTYDVRFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K L +RR K L + V I Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KELGNKIRRAKDELSKTLG---RVPTVQEI 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A L + +V+ + S++ VY++DG L+ K Sbjct: 141 ADHLEIEAEDVVLAQEAVRAPSSIHE---------------TVYENDGDPITLLIKSLTT 185 Query: 223 NRRNMLTR 230 ++N LT+ Sbjct: 186 QKKNGLTK 193 >gi|52081127|ref|YP_079918.1| sporulation sigma factor SigK [Bacillus licheniformis ATCC 14580] gi|52786504|ref|YP_092333.1| sporulation sigma factor SigK [Bacillus licheniformis ATCC 14580] gi|52004338|gb|AAU24280.1| RNA polymerase sporulation-specific sigma factor [Bacillus licheniformis ATCC 14580] gi|52349006|gb|AAU41640.1| SpoIIIC [Bacillus licheniformis ATCC 14580] Length = 241 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++A++ + Sbjct: 37 KKYLELMAQGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSA 96 Query: 96 ERGFRLATYSMWWI 109 +G +LATY+ I Sbjct: 97 GKGTKLATYAARCI 110 >gi|306821834|ref|ZP_07455426.1| RNA polymerase sigma-B factor [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304550141|gb|EFM38140.1| RNA polymerase sigma-B factor [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 268 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 53/265 (20%), Positives = 114/265 (43%), Gaps = 48/265 (18%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E D++ + L+ +L + ++ Y G+ ++ ++GL+ A++++D +GF Sbjct: 33 YSEKRDIAIRNELIQRNLYIAEILSKKYINKGIEYEDIYQVASLGLIYAIERYDITKGFE 92 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++++ I +++Y + WS I + L + +K LQ T K ++ Sbjct: 93 FSSFATPTIIGEIKKYFRDKGWS---IRVPRRIQELSKRVNTVKNELQQETH---KTPRI 146 Query: 160 VAIAKKLNVSESEV------------ISMNCRLAG-----DESLNALINSSDKNSSQWQD 202 IA+KL +++ EV IS++ + D +L+ LI DK+ ++ +D Sbjct: 147 SDIAEKLGITQEEVLETMDAAGAYAPISLDVKYDNEGEDKDVALHELIGKDDKSFAEIED 206 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 + L M L+ E++I R T ++ E Sbjct: 207 G----------------------DFLRNVMESLSEVEKKIIMDRYFDNK--TQMTVAKEL 242 Query: 263 EVSRERVRQIEARAFKKVQESIQKQ 287 ++S+ V ++E + K+++ +KQ Sbjct: 243 DISQMTVSRMEKKILTKLKKEYEKQ 267 >gi|261405990|ref|YP_003242231.1| sporulation sigma factor SigF [Paenibacillus sp. Y412MC10] gi|329929773|ref|ZP_08283449.1| RNA polymerase sigma-F factor [Paenibacillus sp. HGF5] gi|261282453|gb|ACX64424.1| RNA polymerase, sigma 28 subunit, SigF [Paenibacillus sp. Y412MC10] gi|328935751|gb|EGG32212.1| RNA polymerase sigma-F factor [Paenibacillus sp. HGF5] Length = 251 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 56/251 (22%), Positives = 114/251 (45%), Gaps = 32/251 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDNVARDTLVNCNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR +K+ + K + +R+ + L D + V + Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSL--KEMANKVRKKRDELSKQLD---RLPTVKEV 139 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----EQVLIE 217 A++L V+ EV+ ++K + + V+++DG +Q+ + Sbjct: 140 AEELGVTPEEVV--------------FAQEANKPPTSIHE-TVFENDGDPITLMDQIADD 184 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +ER + L ++ L RER I R ++ T +++ +S+ +V ++E Sbjct: 185 SQERWFDKLALNEAIGGLTERERLIVYLRYYRDQ--TQSEVATRLGISQVQVSRLE---- 238 Query: 278 KKVQESIQKQV 288 KK+ +SI+ ++ Sbjct: 239 KKILQSIRNEI 249 >gi|319651643|ref|ZP_08005770.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] gi|317396710|gb|EFV77421.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] Length = 239 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/65 (33%), Positives = 37/65 (56%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LATY Sbjct: 46 GDAHARNMLIEHNLRLVAHIVKKFENTGEDSEDLISIGTIGLIKAIESYSEGKGTKLATY 105 Query: 105 SMWWI 109 + I Sbjct: 106 AARCI 110 >gi|299535719|ref|ZP_07049040.1| RNA polymerase sigma-28 factor precursor [Lysinibacillus fusiformis ZC1] gi|298728919|gb|EFI69473.1| RNA polymerase sigma-28 factor precursor [Lysinibacillus fusiformis ZC1] Length = 235 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 101/252 (40%), Gaps = 63/252 (25%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K+EE +R+ GD A L+ ++RLV + + + + +S G IGLM+AV Sbjct: 33 KEEEAACIERFLG-GDEQARLDLIERNMRLVAHVVKKFHPKHEQLDDYISIGTIGLMKAV 91 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 + + P++ RLATY+ I + + +LR K Sbjct: 92 ESYTPDKKTRLATYAARCI----------------------ENEILMHLRTQK------- 122 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + K +++ E + D+ NAL Q +D L D Sbjct: 123 ----------KVQKDVSLFEP--------IGTDKDGNAL---------QIRDLLQCD--- 152 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRER 268 E+ EK E K L + +L+ RE I R Q++ +T + +++ +SR Sbjct: 153 -EESATEKLEHKEHVAQLYHYLHMLDERELEIVTLRYGLNQQDALTQKEIAARLNISRSY 211 Query: 269 VRQIEARAFKKV 280 V +IE RA K+ Sbjct: 212 VSRIEKRALIKL 223 >gi|289767896|ref|ZP_06527274.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289698095|gb|EFD65524.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 270 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 55/257 (21%), Positives = 108/257 (42%), Gaps = 45/257 (17%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 EH +L R+V + L + ++A +R G ++ +GL++AV ++DPERG Sbjct: 36 EHDELR--DRIVEAWLPMAERLAGRFRSRGESFEDLRQVAALGLVKAVDRYDPERGNAFE 93 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 +Y++ I ++ + + + + R N R G + T +P V I Sbjct: 94 SYAVPTITGEIKRHFRDHMWTLHVPRRVQELR---NRVRFAGQDLSQTIPGRRP-TVAEI 149 Query: 163 AKKLNVSESEV------------ISMNCRLAGDE---SLNALINSSDKNSSQWQDWLVYD 207 A++ +SE +V +S++ L G E SL + + D Sbjct: 150 AERAELSEEDVRVGLEALESFTALSLDAELPGSEDGYSLGDALGAPDPALD--------- 200 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 ++++E K+R ++ L PRER I R + +T ++ + +S+ Sbjct: 201 ------TVVDREAVKDR-------LAALPPRERAILYMRFFDD--MTQSRIAEQLGISQM 245 Query: 268 RVRQIEARAFKKVQESI 284 V ++ R +V+E + Sbjct: 246 HVSRLITRCCDRVREQV 262 >gi|302522454|ref|ZP_07274796.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB78] gi|302431349|gb|EFL03165.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB78] Length = 297 Score = 45.8 bits (107), Expect = 0.008, Method: Compositional matrix adjust. Identities = 55/218 (25%), Positives = 101/218 (46%), Gaps = 23/218 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL++A+ +FD R ++++ +I ++ Y S V + + R Sbjct: 91 MEDILQVGTIGLIKAIDRFDLTREAEFTSFAIPYIVGEIKRYFRDSTWAVHVPRRLQELR 150 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + +L R K L D + V +A +L +SE EVI G +SL+ +S Sbjct: 151 V--DLARAKERLAVELDRD---PGVKELAAELGISEEEVIDGLIAANGYMSDSLDLPADS 205 Query: 193 SD------KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 S K ++ + D+L D D +++ E R +L L+ RER + E R Sbjct: 206 STSGKPDQKTATTYADFL-GDWDPAMELV---ENFTALRPLL----GTLDDRERYLLELR 257 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 QE +T + +E VS+ V ++ +R K++E + Sbjct: 258 FGQE--LTQAQIGAELGVSQMHVSRLLSRTLGKLREGL 293 >gi|306410397|gb|ADM85820.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410399|gb|ADM85821.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410401|gb|ADM85822.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410403|gb|ADM85823.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410405|gb|ADM85824.1| RNA polymerase essential primary sigma 70 factor [Frankia sp. CcI3] gi|306410407|gb|ADM85825.1| RNA polymerase essential primary sigma 70 factor [Frankia sp. CpI1] gi|306410409|gb|ADM85826.1| RNA polymerase essential primary sigma 70 factor [Frankia sp. Cj1-82] Length = 106 Score = 45.8 bits (107), Expect = 0.009, Method: Compositional matrix adjust. Identities = 32/110 (29%), Positives = 58/110 (52%), Gaps = 13/110 (11%) Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT----TAN-----QKR 134 +GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I T N Q++ Sbjct: 1 LGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQ 60 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 L +L R + + +L P++V I L VS+ E +S+ + +E Sbjct: 61 LLQDLGREPSPEEIAKEMDLTPDKVREI---LKVSQ-EPVSLETPIGEEE 106 >gi|296133159|ref|YP_003640406.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola sp. JR] gi|296031737|gb|ADG82505.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola potens JR] Length = 260 Score = 45.8 bits (107), Expect = 0.009, Method: Compositional matrix adjust. Identities = 31/112 (27%), Positives = 58/112 (51%), Gaps = 6/112 (5%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 + P+L +E L + + +GD +A +LV +L+LV + + G ++ G I Sbjct: 12 RFPLLSDKEMKELLIKAK-NGDQAAREKLVNCNLKLVFNLVQRFCNRGYEPEDLFQIGTI 70 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG----TTANQ 132 GL++A+ KFD + +TY++ I ++ + LR + VK+ TAN+ Sbjct: 71 GLIKAIDKFDLSYDVKFSTYAVPLIIGEIRRF-LRDDNPVKVSRSVKETANK 121 >gi|291537993|emb|CBL11104.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Roseburia intestinalis XB6B4] Length = 248 Score = 45.8 bits (107), Expect = 0.009, Method: Compositional matrix adjust. Identities = 56/215 (26%), Positives = 93/215 (43%), Gaps = 34/215 (15%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A L+ +L LV IA + G E+ G IGLM+AV KFD +TY Sbjct: 14 GDKGARDTLIAGNLGLVHTIANRFEHRGHEREELFQIGCIGLMKAVDKFDLSLNLAFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR +VK+ T + + R K L + +P ++ IA+ Sbjct: 74 AVPVIMGEIRRF-LRDDGMVKVSRTLKENA--YKAGRAKEELWG--ELGREP-GLLEIAE 127 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI----EKEE 220 + +S E+I + S+ S +Q VY+ DG E +++ EKEE Sbjct: 128 RTGLSSGEII-------------MAMESARDVESIYQP--VYEKDGDELLMVDQLCEKEE 172 Query: 221 RKN---------RRNMLTRSMSVLNPRERRIFEAR 246 R ++ + M +L+ RE+ + R Sbjct: 173 NGKDEPEKEAVLNRMVIEQLMELLDEREQNLIRCR 207 >gi|89100825|ref|ZP_01173677.1| SpoIIIC [Bacillus sp. NRRL B-14911] gi|89084471|gb|EAR63620.1| SpoIIIC [Bacillus sp. NRRL B-14911] Length = 240 Score = 45.8 bits (107), Expect = 0.009, Method: Compositional matrix adjust. Identities = 23/70 (32%), Positives = 38/70 (54%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R GD A + L+ +LRLV I + G +++S G IGL++A++ + +G Sbjct: 41 RLMAEGDAHARNMLIEHNLRLVAHIVKKFENTGEDSEDLISIGTIGLIKAIESYSEGKGT 100 Query: 100 RLATYSMWWI 109 +LATY+ I Sbjct: 101 KLATYAARCI 110 >gi|258592481|emb|CBE68790.1| RNA polymerase sigma factor whiG (modular protein) [NC10 bacterium 'Dutch sediment'] Length = 459 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 61/248 (24%), Positives = 109/248 (43%), Gaps = 17/248 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFD 94 K YR+ D RL+T+++ LV ++A G LP + ++ S G +GL+ AV+ +D Sbjct: 9 KAYRQTKDPGLRDRLITANISLVRQVA-GRLSLQLPSCVELDDLESAGAVGLVSAVEHYD 67 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 P++ ATY+ + I+ A+ + LR+ A + + L RL+ D Sbjct: 68 PDQPSEFATYAQYRIRGAILDD-LRAQDFAPRSLRAKAREIQQTLVRLE------VDLGR 120 Query: 155 KP-EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 +P + VA A ++ R SL+ +D S W + D G++ Sbjct: 121 EPSDDEVAAALGMDRETYWRTLGEIRGMVLVSLDEPGVEADGTESDRLIWELPDRAGRDP 180 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + R+ R +L + L +ER + +E +T++ + EVS RV QI Sbjct: 181 S--TEAARRERVRLLGGIIEALPAQERLVLTLYYFEE--LTMKEIGRVLEVSESRVSQIH 236 Query: 274 ARAFKKVQ 281 A +++ Sbjct: 237 TSAILRMR 244 >gi|15613092|ref|NP_241395.1| RNA polymerase sigma factor SigB [Bacillus halodurans C-125] gi|10173142|dbj|BAB04248.1| RNA polymerase general stress sigma factor(sigma B) [Bacillus halodurans C-125] Length = 261 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 60/261 (22%), Positives = 124/261 (47%), Gaps = 18/261 (6%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 E Y + Y++ D +LV + LV +A + +++ G +GL+ A ++ Sbjct: 14 EVYDWIESYQQGADEEIQTKLVKHYEPLVHSLARKFSRSRAHDDDLIQVGMVGLLAAFER 73 Query: 93 FDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 +DP+ G ++++ I ++ +I ++WS + K L +++ L + Sbjct: 74 YDPKYGRSFESFAVPTIIGEIKRFIRDKTWS---VHVPRRIKELGPKIKKAADELASELQ 130 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDG 210 + + E+ IA L VSE EV+ + +S AL ++ S + + + + D G Sbjct: 131 RSPRVEE---IADFLGVSEEEVLET---MEMGKSYQALSVDRSLEADPEGGEVTLLDLVG 184 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 QE EK +++ +L ++ VL+ RE++I + ++ + +S+ V Sbjct: 185 QEDGGYEK---ADQQMLLEKAFQVLDEREKQILLCTYFEH--LSQKETGHRLGISQMHVS 239 Query: 271 QIEARAFKKVQESIQKQVELS 291 +++ RA KK+++SI +VELS Sbjct: 240 RLQRRALKKLRDSI--RVELS 258 >gi|318059283|ref|ZP_07978006.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actG] gi|318075250|ref|ZP_07982582.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] Length = 294 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 55/218 (25%), Positives = 101/218 (46%), Gaps = 23/218 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL++A+ +FD R ++++ +I ++ Y S V + + R Sbjct: 88 MEDILQVGTIGLIKAIDRFDLTREAEFTSFAIPYIVGEIKRYFRDSTWAVHVPRRLQELR 147 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINS 192 + +L R K L D + V +A +L +SE EVI G +SL+ +S Sbjct: 148 V--DLARAKERLAVELDRD---PGVKELAAELGISEEEVIDGLIAANGYMSDSLDLPADS 202 Query: 193 SD------KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 S K ++ + D+L D D +++ E R +L L+ RER + E R Sbjct: 203 STSGKPDQKTATTYADFL-GDWDPAMELV---ENFTALRPLL----GTLDDRERYLLELR 254 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 QE +T + +E VS+ V ++ +R K++E + Sbjct: 255 FGQE--LTQAQIGAELGVSQMHVSRLLSRTLGKLREGL 290 >gi|317128262|ref|YP_004094544.1| RNA polymerase, sigma 28 subunit, SigK [Bacillus cellulosilyticus DSM 2522] gi|315473210|gb|ADU29813.1| RNA polymerase, sigma 28 subunit, SigK [Bacillus cellulosilyticus DSM 2522] Length = 238 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 28/85 (32%), Positives = 47/85 (55%), Gaps = 4/85 (4%) Query: 27 PMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 P+ K+E EY+ R GD A + L+ +LRLV I + +++S G IG Sbjct: 30 PLNAKEEREYI---RRMNEGDDEARNLLIEHNLRLVAHIVKKFENTREENEDLISIGTIG 86 Query: 86 LMQAVKKFDPERGFRLATYSMWWIK 110 L++A++ + P +G +LATY+ I+ Sbjct: 87 LIKAIESYSPGKGTKLATYAARCIE 111 >gi|169829306|ref|YP_001699464.1| RNA polymerase sigma-28 factor [Lysinibacillus sphaericus C3-41] gi|168993794|gb|ACA41334.1| RNA polymerase sigma-28 factor precursor [Lysinibacillus sphaericus C3-41] Length = 228 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 63/264 (23%), Positives = 107/264 (40%), Gaps = 70/264 (26%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K+EE +R+ GD A L+ ++RLV + + + + +S G IGLM+AV Sbjct: 26 KEEEAACIERFLG-GDEQARLDLIERNMRLVAHVVKKFHPKHEQLDDYISIGTIGLMKAV 84 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 + + P++ RLATY+ I + + +LR K Sbjct: 85 ESYTPDKKTRLATYAARCI----------------------ENEILMHLRTQK------- 115 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 + K +++ E + D+ NAL Q +D L D Sbjct: 116 ----------KVQKDVSLFEP--------IGTDKDGNAL---------QIRDLLQCD--- 145 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRER 268 E+ EK E K L + +L+ RE I R Q++ +T + +++ +SR Sbjct: 146 -EESATEKIEHKEHVAQLYHYLHMLDERELEIVTLRYGLNQQDALTQKEIAARLNISRSY 204 Query: 269 VRQIEARA-------FKKVQESIQ 285 V +IE RA +K+ Q+SI+ Sbjct: 205 VSRIEKRALIKLYQLYKRDQKSIE 228 >gi|29830033|ref|NP_824667.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607143|dbj|BAC71202.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 306 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 44/170 (25%), Positives = 76/170 (44%), Gaps = 20/170 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 85 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIVGE 144 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L +S Sbjct: 145 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLD---RAPTVSELAERLGISNG 198 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQV 214 EV+ G + NA SS D + D + Y+ G E + Sbjct: 199 EVVE------GMAASNAYTASSLDAQPEEDDSEGALADRIGYEDHGLEGI 242 >gi|89895640|ref|YP_519127.1| sporulation sigma factor SigG [Desulfitobacterium hafniense Y51] gi|89335088|dbj|BAE84683.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 266 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 38/150 (25%), Positives = 73/150 (48%), Gaps = 7/150 (4%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L + L Y + G+ A +L+ +LRLV+ + + G + ++ G I Sbjct: 24 KLPVLSSAKMKELFVAY-QSGEKEAREKLIYGNLRLVLSVIQRFTNRGEYVDDLFQVGCI 82 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GLM+A+ FD + + +TY++ I ++ Y LR + +++ + + L+ Sbjct: 83 GLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRY-LRDNNPIRVSRSLRD----IAYKALQV 137 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVI 174 Q + + + +P V IA KL + EVI Sbjct: 138 RDQLVNECSREP-TVSEIADKLTLPREEVI 166 >gi|239945848|ref|ZP_04697785.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|239992317|ref|ZP_04712981.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] gi|291449304|ref|ZP_06588694.1| sigma factor [Streptomyces roseosporus NRRL 15998] gi|291352251|gb|EFE79155.1| sigma factor [Streptomyces roseosporus NRRL 15998] Length = 298 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 60/242 (24%), Positives = 108/242 (44%), Gaps = 22/242 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISE-VVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A + L+ +L LV A +R G +E ++ G IGL++A+ +FD R AT+++ Sbjct: 69 ARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREVEFATFAVP 128 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 +I ++ + +WS + + L +L + K L A D + V +A L Sbjct: 129 YIVGEIKRFFRDTTWS---VHVPRRLQELRVDLAKAKEQLSAELDRD---PTVKELATHL 182 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ----DWLVYDHDGQEQVLIEKEERK 222 ++ E E+I G + + S+D +S Q Q D L G E V Sbjct: 183 DLPEEEIIEGLVAANGYSAGSLDTPSADSDSGQEQRAYADVLGEADPGMETV-------- 234 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L + L+ RERRI + R E +T + E VS+ V ++ +R +++++ Sbjct: 235 ENLHTLAPLLEQLDDRERRIVQMRFGAE--MTQSQIGEELGVSQMHVSRLLSRIVQQLRK 292 Query: 283 SI 284 + Sbjct: 293 GM 294 >gi|332799203|ref|YP_004460702.1| RNA polymerase sigma-28 subunit FliA/WhiG [Tepidanaerobacter sp. Re1] gi|332696938|gb|AEE91395.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Tepidanaerobacter sp. Re1] Length = 246 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 47/211 (22%), Positives = 96/211 (45%), Gaps = 32/211 (15%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L +++S G GLMQA++++D ++G + TY+ IK ++ + LR ++ Sbjct: 48 LEYEDLISYGVFGLMQAIERYDTKKGIKFETYAYTRIKGSIIDE-LRKTDMIPQDIRKKI 106 Query: 133 KRL---FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA---GDESL 186 K L F + ++ GH + D++ I+ L +S+ ++ + ++ G S Sbjct: 107 KMLQNAFSEMEQILGH--SANDDD--------ISNYLGISKKDLYKIYKEISAAYGVLSF 156 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 + LI D + GQ + EKEE K +L +++ L P+E+ + Sbjct: 157 DELIEYEDVGQAS----------GQPDIQAEKEEVK---EILGNAINQLPPQEKLVITLY 203 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + + + ++ E+S+ R+ QI +A Sbjct: 204 YYE--GLNFKEIAEVLELSQGRISQIHTKAI 232 >gi|324325029|gb|ADY20289.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis serovar finitimus YBT-020] Length = 257 Score = 45.4 bits (106), Expect = 0.009, Method: Compositional matrix adjust. Identities = 60/271 (22%), Positives = 129/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVMKLIAEFQQNQCDEAQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G E+ RR +L +VLN E+ + + E Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 221 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 222 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 252 >gi|254381148|ref|ZP_04996513.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] gi|194340058|gb|EDX21024.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] Length = 306 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 48/218 (22%), Positives = 100/218 (45%), Gaps = 18/218 (8%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G+ + +V+ G IGL++A+ +FDP+R +T ++ +I ++ Y + V + Sbjct: 99 GIELDDVIQVGTIGLIKAIDRFDPDREVEFSTLALPYITGEIKRYFRDTTWAVHVPRRLQ 158 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNAL 189 + R+ L + +T+ + V IA+ L +SE EVI G SL++ Sbjct: 159 ELRV-----ELAKCQETLTEVLGRAPSVKEIAEHLELSEEEVIEGLVAANGYSSASLDST 213 Query: 190 INSSDKNSSQWQDWLVYDHDGQ---EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 ++D+ ++ + + D G VL E + L +S L+ R+ +I R Sbjct: 214 AGTTDRPAALSEGRPLADTVGDIDPAMVLFEDV------HTLAPLLSELDERDLQILRMR 267 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +E +T + +E +S+ +V ++ R +++ + Sbjct: 268 FARE--MTQAEIGTELGISQMQVSRLLTRILTRLRSGM 303 >gi|182625388|ref|ZP_02953161.1| sigma factor [Clostridium perfringens D str. JGS1721] gi|177909385|gb|EDT71837.1| sigma factor [Clostridium perfringens D str. JGS1721] Length = 232 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 54/248 (21%), Positives = 109/248 (43%), Gaps = 66/248 (26%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLMQAVKKFDPE--R 97 +HGD A +L+ ++ +L+ K+A + + + +++ EG IG + A K+D E + Sbjct: 16 QHGDKKALDKLLENNDKLIYKVASKFYSDKTSSIEFDDLLQEGRIGFILACSKYDIEYIK 75 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + TY+ +WI + +I TT N Sbjct: 76 KTKFITYAFYWIYQKIHRFI----------TTHNT------------------------- 100 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +E IS+N ++ +E+ + LINS + +S++ +D +E+ L Sbjct: 101 -------------NEEISLNTPVS-EENQDELINSIESHSNEIKD--------REEELYL 138 Query: 218 KEERKNRRNMLTRSMSVLNPRE-RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 E R ++ + + LN RE +++ E ++++ ++ FE S V+ I+ARA Sbjct: 139 SELRLELEAVMDKH-NTLNEREILKLYYGWDTDE--LSIDQIADIFETSSSEVKNIKARA 195 Query: 277 FKKVQESI 284 +K++ S+ Sbjct: 196 IRKLRNSM 203 >gi|302532223|ref|ZP_07284565.1| RNA polymerase sigma-F factor [Streptomyces sp. C] gi|302441118|gb|EFL12934.1| RNA polymerase sigma-F factor [Streptomyces sp. C] Length = 307 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 57/242 (23%), Positives = 110/242 (45%), Gaps = 24/242 (9%) Query: 53 LVTSHLRLVVKIAMGYR----GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ +L LV A +R G GL + +V+ G IGL++A+ +FD +R +T ++ + Sbjct: 77 LIEMNLSLVHYAARRFRARVSGGGLDMDDVIQVGTIGLIKAIDRFDLDREVEFSTLALPY 136 Query: 109 IKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPEQVVAIAKKL 166 I ++ + +W++ + R LR L +++T+ + V +A+ L Sbjct: 137 ITGEIKRHFRDTTWAV-------HVPRRLQELRSELAKAQESLTEALHRAPTVKEVAQHL 189 Query: 167 NVSESEVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 +SE EVI + N +G SL+ + + + + + G+ +E E Sbjct: 190 GLSEEEVIDGLVAANGYTSG--SLDTADEAEEARGTGRPARALAEKLGESDPAMELFEDF 247 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L R L PRER I R QE T + +E +S+ +V ++ +R +++ Sbjct: 248 HTLAPLLRE---LQPRERLILSMRFGQEK--TQAEIGAELHISQMQVSRLLSRTLARLRA 302 Query: 283 SI 284 + Sbjct: 303 GM 304 >gi|239628979|ref|ZP_04672010.1| DNA-directed RNA polymerase specialized sigma subunit [Clostridiales bacterium 1_7_47_FAA] gi|239519125|gb|EEQ58991.1| DNA-directed RNA polymerase specialized sigma subunit [Clostridiales bacterium 1_7_47FAA] Length = 244 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 61/256 (23%), Positives = 114/256 (44%), Gaps = 31/256 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPER 97 YR++G ++LV +L +V A+ R G L ++ +G + LM+ + ++DP + Sbjct: 4 YRKNGSQELRNKLVLHYLPIVRSAAVQLRTMAGSLLEQEDLTDQGVLALMECLDRYDPGK 63 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL---FFNLRRLKGHLQAITDN-- 152 G R TY+ ++ AM +YI RS V QK++ F L K + D Sbjct: 64 GARFETYAFVRVRGAMIDYI-RSQDWVPHRARNFQKKVDEAFSILSHEKMGEPDVKDVAG 122 Query: 153 --NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 ++ E+V K +N + V+S L + + A+ + + D DG Sbjct: 123 YLDMPVEKVENHIKYMN--HASVLSFEAAL---QDMTAIFAKGELEAG--------DMDG 169 Query: 211 Q-EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 + E+ L +E MLT ++ L +ER + +E + ++ + + RV Sbjct: 170 KPEESLFYRE----MMEMLTAAIDGLGEKERLVITLYYYEE--LKYSEIAEVMGIGQSRV 223 Query: 270 RQIEARAFKKVQESIQ 285 QI +A +K++ S++ Sbjct: 224 CQIHTKAIRKLKSSLE 239 >gi|213422468|ref|ZP_03355534.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 79 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 27/61 (44%), Positives = 38/61 (62%), Gaps = 1/61 (1%) Query: 226 NMLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 N LT +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E A KK++ +I Sbjct: 18 NRLTDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLRAAI 77 Query: 285 Q 285 + Sbjct: 78 E 78 >gi|257876008|ref|ZP_05655661.1| RNA polymerase sigma factor whiG [Enterococcus casseliflavus EC20] gi|257810174|gb|EEV38994.1| RNA polymerase sigma factor whiG [Enterococcus casseliflavus EC20] Length = 235 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 51/211 (24%), Positives = 96/211 (45%), Gaps = 20/211 (9%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA-NQKRLFFNLR 140 G IGLM A++KFDP + +Y+ IK A+ + + + + + A NQ F+ R Sbjct: 40 GVIGLMDALRKFDPSKKVPFESYAAIRIKGAIIDEVRKHAKISRYKMAAVNQ---FYQAR 96 Query: 141 RLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNS 197 + + +LK E I K+L +++S++ I + SL + + + Sbjct: 97 QE-------LEQSLKREATDTEICKQLGINQSQLADIYESLHYLASVSLEDTLFAYQEEG 149 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +D + + E L+ +E +R L + L RE+ I +E +TL+ Sbjct: 150 MTLKDMVRDPAENVEDTLVAEE----KRTALVACIKKLGEREQLILSLYYTEE--LTLKE 203 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++ EVS RV QI + K++ I++++ Sbjct: 204 IAEILEVSIPRVSQIHGKTIAKLRTLIEEEL 234 >gi|77463598|ref|YP_353102.1| sigma factor FliA (sigma-28 group, flagellar) [Rhodobacter sphaeroides 2.4.1] gi|126462430|ref|YP_001043544.1| FliA/WhiG family RNA polymerase sigma factor [Rhodobacter sphaeroides ATCC 17029] gi|332558454|ref|ZP_08412776.1| FliA/WhiG family RNA polymerase sigma factor [Rhodobacter sphaeroides WS8N] gi|77388016|gb|ABA79201.1| sigma factor FliA (Sigma-28 group, flagellar) [Rhodobacter sphaeroides 2.4.1] gi|126104094|gb|ABN76772.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Rhodobacter sphaeroides ATCC 17029] gi|332276166|gb|EGJ21481.1| FliA/WhiG family RNA polymerase sigma factor [Rhodobacter sphaeroides WS8N] Length = 239 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 53/243 (21%), Positives = 117/243 (48%), Gaps = 25/243 (10%) Query: 52 RLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 RLV +H+ LV +IA G + I +++ G +GL+ A ++++P G A Y+ Sbjct: 16 RLVRAHMDLVRRIAWNLHARIGRKVEIDDLIQVGYMGLVDASRRYEPREGVSFAAYAAIR 75 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ ++ LRS S + T Q+++ ++RL+G L ++ + +A +L++ Sbjct: 76 IRGSIMDF-LRSNSALCRTTILMQQKVKAAVQRLEGRL-------MRAPETPEVAAELSM 127 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E + AG ++ +L D S+ L HD + ++ + R +L Sbjct: 128 PVGEYQDWLAQFAGSQT-ASLDEVYDDQSA-----LFEGHDPSAE---DRLQASQMRGLL 178 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ---ESIQ 285 +++ + RE + + ++E + + + V+ RV QI+ A ++++ +++Q Sbjct: 179 RQALGRMPEREALLLQLIFVEE--LNVYEVGEILGVTTGRVSQIKKAAIERLRGLIDALQ 236 Query: 286 KQV 288 +V Sbjct: 237 GEV 239 >gi|213584001|ref|ZP_03365827.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 148 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 44/144 (30%), Positives = 70/144 (48%), Gaps = 27/144 (18%) Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDE--------------SLNALINSSDKNSSQWQD 202 ++V +A++L VS +V M R+A + + ++ DK SS + D Sbjct: 16 DEVEMVARELGVSSKDVREMESRMAAQDMTFDMSSDDESDSQPMAPVLYLQDK-SSNFAD 74 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSE 261 + D + +EQ N LT +M L+ R + I AR L E N TL+ L+ Sbjct: 75 G-IEDDNWEEQAA----------NRLTDAMQGLDERSQDIIRARWLDEDNKSTLQELADR 123 Query: 262 FEVSRERVRQIEARAFKKVQESIQ 285 + VS ERVRQ+E A KK++ +I+ Sbjct: 124 YGVSAERVRQLEKNAMKKLRAAIE 147 >gi|290959865|ref|YP_003491047.1| SigL-like sigma factor [Streptomyces scabiei 87.22] gi|260649391|emb|CBG72506.1| SigL-like sigma factor [Streptomyces scabiei 87.22] Length = 304 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 58/240 (24%), Positives = 107/240 (44%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 83 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIVGE 142 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L ++ Sbjct: 143 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQKLD---RAPTVGELAERLGLTND 196 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ G + NA SS D + D + Y+ G E IE E Sbjct: 197 EVVE------GMAASNAYTASSLDAQPEEDDSEGALADRIGYEDHGLEG--IEYVES--- 245 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++ L PR+R+I R + +T + E +S+ V ++ +R ++++ + Sbjct: 246 ---LKPLIAGLPPRDRQILSLRFVAN--MTQSEIGDELGISQMHVSRLLSRTLVRLRKGL 300 >gi|330874712|gb|EGH08861.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 81 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 23/57 (40%), Positives = 35/57 (61%) Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +++ VL+ R R I R L E TL +L+ ++ VS ER+RQ+E A K++ SI Sbjct: 23 LHQALDVLDERSRDILYQRWLAEEKATLHDLAQKYNVSAERIRQLEKSAMNKLKTSI 79 >gi|225375354|ref|ZP_03752575.1| hypothetical protein ROSEINA2194_00979 [Roseburia inulinivorans DSM 16841] gi|225212843|gb|EEG95197.1| hypothetical protein ROSEINA2194_00979 [Roseburia inulinivorans DSM 16841] Length = 256 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 57/230 (24%), Positives = 109/230 (47%), Gaps = 22/230 (9%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK+ G Y GY + ++VS G GL+ A+ KFD + + TY+ I+ + + Sbjct: 32 LVKLVAGRLSMYLGYNVEYDDLVSYGIFGLIDAIDKFDLGKEVKFETYASLRIRGTILDQ 91 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 I R + QK++ +++++ T N E+ IA++L +SE E+ + Sbjct: 92 I-RKMDWIPRTVRQKQKKIDEAIKQVEMR----TGKNASDEE---IAQELGLSEDELTTW 143 Query: 177 NCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 +L SLN + ++ + D H Q + +K E + + L S+ V Sbjct: 144 QSQLKVTNIVSLNEYL---EQGAEPVMDARRNSHFIQPE---DKVEEEELKQKLEESLEV 197 Query: 235 LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +ER++ ++ +TL+ +SS EVS R+ Q+ +A K+++ + Sbjct: 198 LTEKERKVILLYYYED--LTLKEISSILEVSESRISQLHTKALLKMRKKL 245 >gi|304407011|ref|ZP_07388665.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304343998|gb|EFM09838.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 251 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 55/252 (21%), Positives = 112/252 (44%), Gaps = 38/252 (15%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD + LV ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGDNVSRDTLVHCNIRLVWSVVQRFMNRGYEPEDLFQIGCIGLLKSVDKFDLSYDVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIG----TTANQKRLFFN-LRRLKGHLQAITDNNLKPE 157 TY++ I +Q + LR +K+ TAN+ R + L + G L IT+ Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSLKETANKVRKMKDELSKTLGRLPTITE------ 138 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ-----E 212 +A+ L ++ +V+ ++K + + V+++DG + Sbjct: 139 ----VAEGLGITPEDVV--------------FAQEANKPPTSIHE-TVFENDGDPITLMD 179 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 Q+ + +ER + L ++ L RER I R ++ T ++S +S+ +V ++ Sbjct: 180 QIADDSQERWFDKLALAEAIEGLAERERLIVYLRYYRDQ--TQSEVASRLGISQVQVSRL 237 Query: 273 EARAFKKVQESI 284 E + + +++ I Sbjct: 238 EKKILQLIKDQI 249 >gi|182418456|ref|ZP_02949750.1| RNA polymerase sigma-F factor [Clostridium butyricum 5521] gi|237666966|ref|ZP_04526951.1| RNA polymerase sigma-F factor [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377838|gb|EDT75382.1| RNA polymerase sigma-F factor [Clostridium butyricum 5521] gi|237658165|gb|EEP55720.1| RNA polymerase sigma-F factor [Clostridium butyricum E4 str. BoNT E BL5262] Length = 252 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 63/261 (24%), Positives = 118/261 (45%), Gaps = 39/261 (14%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 LAK+ GD A ++L+ +L LV I+ + G ++ G+IGL++A+ FD Sbjct: 22 LAKK----GDNDAMNKLIEINLPLVASISKKFLNRGYDYEDIFQIGSIGLVKAINNFDLN 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 + +TY++ I ++ + LR ++K+ + N K L R++ + + +T N LK Sbjct: 78 YNVKFSTYAVPMIMGEIKRF-LRDDGMIKV--SRNVKSL---ARKIHYYREQLT-NKLK- 129 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 S I AG E + NS Q+ ++ DG +LI Sbjct: 130 -------------RSPTIEELAEYAGVEKEEIVFAIESANSLQYLYDTIHQDDGAPVMLI 176 Query: 217 EK-EERKNRRNM-------LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +K E+K ++ L ++ L+ + R+I R ++ T ++ +S+ + Sbjct: 177 DKLSEKKGEDDVNLIEKIALKEALRSLDEKARQIIMLRYFKDK--TQIQVAKMLGISQVQ 234 Query: 269 VRQIEARAFKKVQESIQKQVE 289 V +IE KKV ++K++E Sbjct: 235 VSRIE----KKVLLQMKKKLE 251 >gi|54297695|ref|YP_124064.1| flagellar biosynthesis sigma factor [Legionella pneumophila str. Paris] gi|53751480|emb|CAH12898.1| sigma factor 28 [Legionella pneumophila str. Paris] Length = 238 Score = 45.4 bits (106), Expect = 0.010, Method: Compositional matrix adjust. Identities = 52/236 (22%), Positives = 108/236 (45%), Gaps = 27/236 (11%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H LV +IA +G + + +++ G +GL++A + +D +G TY+ I Sbjct: 18 LVKTHATLVKRIAHHLLGRLPQSVQLDDLIQSGMLGLLEAARHYDSSKGASFETYAGIRI 77 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 + M + + R+ W V N + + +R L+ + DN + E V++ + Sbjct: 78 RGHMLDEVRRNDW--VPRSVYRNSRMISDAVRILEHKFGREAKDNEIAEELGVSLDDYHD 135 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + S++ L G + L D +++DH+G E R +M Sbjct: 136 MLQD---SISSHLYGFDDLGV------------TDDVLFDHEGNGST--EPHRNVMRSDM 178 Query: 228 LTRSMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R V++ PR+ R+ + +++ + L+ + EVS R+ QI ++A +++ Sbjct: 179 MNRLTQVIDSLPRKERLVLSLYYEQD-LNLKEIGEILEVSESRISQILSQATHRIR 233 >gi|325264312|ref|ZP_08131043.1| putative RNA polymerase sigma factor RpoD [Clostridium sp. D5] gi|324030383|gb|EGB91667.1| putative RNA polymerase sigma factor RpoD [Clostridium sp. D5] Length = 288 Score = 45.4 bits (106), Expect = 0.011, Method: Compositional matrix adjust. Identities = 20/56 (35%), Positives = 31/56 (55%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 + +++ EG I L +AV+ FD E+ Y+ +WIK M+ YI V+I T A Sbjct: 46 LDDLMQEGYIALCEAVRHFDSEQAVPFINYAAFWIKQGMKRYIENCCGTVRIPTHA 101 >gi|149183156|ref|ZP_01861605.1| SpoIIIC [Bacillus sp. SG-1] gi|148849139|gb|EDL63340.1| SpoIIIC [Bacillus sp. SG-1] Length = 238 Score = 45.4 bits (106), Expect = 0.011, Method: Compositional matrix adjust. Identities = 26/83 (31%), Positives = 46/83 (55%), Gaps = 2/83 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ ++E+ L R +GD A + L+ +LRLV I + G +++S G IGL Sbjct: 30 PLSSQEEKKYL--RKMANGDEDARNILIEHNLRLVAHIVKKFENTGEDPEDLISIGTIGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A++ + +G +LATY+ I Sbjct: 88 IKAIESYSEGKGTKLATYAARCI 110 >gi|297157938|gb|ADI07650.1| SigL-like sigma factor [Streptomyces bingchenggensis BCW-1] Length = 322 Score = 45.4 bits (106), Expect = 0.011, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 106/240 (44%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ ++V G IGL++A+ +F+ RG T++M I Sbjct: 101 LVELNLALVKFAASRFRSRSEPMEDIVQVGTIGLIKAIDRFELSRGVEFPTFAMPTIVGE 160 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + +A++L ++ + Sbjct: 161 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLD---RAPTAGELAERLGLTTA 214 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EVI G + NA SS D D + Y+ G E IE E Sbjct: 215 EVIE------GMAASNAYTASSLDAQPEEDDTEGALADRIGYEDHGLEG--IEYVES--- 263 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++ L+PR+R+I R + +T + E +S+ V ++ +R +++ + Sbjct: 264 ---LKPLIADLSPRDRKILSLRFVAN--MTQSEIGDELGISQMHVSRLLSRTLVRLRRGL 318 >gi|293375494|ref|ZP_06621773.1| putative RNA polymerase sigma-F factor [Turicibacter sanguinis PC909] gi|325844950|ref|ZP_08168315.1| RNA polymerase sigma-F factor [Turicibacter sp. HGF1] gi|292645894|gb|EFF63925.1| putative RNA polymerase sigma-F factor [Turicibacter sanguinis PC909] gi|325489000|gb|EGC91389.1| RNA polymerase sigma-F factor [Turicibacter sp. HGF1] Length = 236 Score = 45.4 bits (106), Expect = 0.011, Method: Compositional matrix adjust. Identities = 43/175 (24%), Positives = 86/175 (49%), Gaps = 17/175 (9%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 M +KQ ++AK + GD A LVT+H+ LV + + + ++ G +GL+ Sbjct: 1 MDKKQIHELIAKA--QSGDEEARLTLVTNHMDLVWSVVHKFGHIEVEKDDLFQIGCMGLL 58 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +++ +FD L+TY++ I ++ +I R S +KI + K ++ +K HL Sbjct: 59 KSINQFDSSYDTTLSTYAIPLIIGEIKAFI-REQSPIKISRSI--KSNIHKIQEVKDHLN 115 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + + + + IA++ +SE ++I +LNA IN + ++ + +D Sbjct: 116 KVLE---REPTIKEIAQETELSEEQIIL---------ALNAPINVTSLDNYERED 158 >gi|225568653|ref|ZP_03777678.1| hypothetical protein CLOHYLEM_04731 [Clostridium hylemonae DSM 15053] gi|225162581|gb|EEG75200.1| hypothetical protein CLOHYLEM_04731 [Clostridium hylemonae DSM 15053] Length = 259 Score = 45.4 bits (106), Expect = 0.011, Method: Compositional matrix adjust. Identities = 58/265 (21%), Positives = 121/265 (45%), Gaps = 25/265 (9%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L R + GD A + +LRLV+ + + G ++ G I Sbjct: 15 KLPILKEEEKEALFARIK-AGDEEAKEEYIKGNLRLVLSVIKRFGGSNENPDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ F+ E + +TY++ I ++ Y+ + S+ R+ +LR Sbjct: 74 GLIKAINNFNTELDVKFSTYAVPMIIGEIRRYMRDNNSI----------RVSRSLRDTAY 123 Query: 145 HLQAITDN----NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 +N NLK V IA+++ +S+ +++ + SL + + ++ Sbjct: 124 KAIYAKENYVKRNLKEPTVQEIAEEIGISKEDIVFALDAIQVPMSLQEPVYNDGGDALYV 183 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D + D +E+ +E L +M L RER I + R E +E ++ Sbjct: 184 MDQ-ISDTKNKEEKWVEDLS-------LEAAMEHLGERERYIIKLRFF-EGKTQME-VAE 233 Query: 261 EFEVSRERVRQIEARAFKKVQESIQ 285 E +S+ +V ++E A + +++ ++ Sbjct: 234 EINISQAQVSRLEKNALRVMKQYLE 258 >gi|167461547|ref|ZP_02326636.1| RNA polymerase sigma factor [Paenibacillus larvae subsp. larvae BRL-230010] Length = 361 Score = 45.4 bits (106), Expect = 0.011, Method: Compositional matrix adjust. Identities = 28/88 (31%), Positives = 49/88 (55%), Gaps = 9/88 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKF 93 ++ RY H L ++ ++ ++V +A YR G GL ++VS G IGL+QA + + Sbjct: 1 MSIRYNPH--LGYEDEMIPAYEKMVHSVARKYRSCIGAGLDYDDLVSVGMIGLIQAFRNY 58 Query: 94 DPERGFR----LATYSMWWIKAAMQEYI 117 DP+R R +TY+ IK ++Q ++ Sbjct: 59 DPDRFNRKVSSFSTYAFNMIKWSIQRFL 86 >gi|282864142|ref|ZP_06273199.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282561220|gb|EFB66765.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 290 Score = 45.1 bits (105), Expect = 0.011, Method: Compositional matrix adjust. Identities = 56/232 (24%), Positives = 100/232 (43%), Gaps = 22/232 (9%) Query: 61 VVKIAMG---YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +V+ A G RG G + ++V G +GL++A+ +FD R ++++ +I ++ + Sbjct: 69 LVRFAAGRFRSRGSG-DMEDIVQVGTVGLIKAIDRFDLAREVEFTSFAVPYIVGEIKRFF 127 Query: 118 L-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--- 173 +WS + + L +L R K L D + V +A L + E EV Sbjct: 128 RDTTWS---VHVPRRLQELRVDLARAKETLAVGLDRD---PTVQELAAHLGLDEQEVTDG 181 Query: 174 -ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 ++ N AG SL+ + D D G+ +E E + L + Sbjct: 182 IVAANGYTAG--SLDMPAEAGDPAGRATGGRTFADVLGEPDPAMETVENL---HALAPLL 236 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ RERRI E R QE +T + E +S+ V ++ R +K++ + Sbjct: 237 EDLDARERRIIEMRFGQE--LTQAQIGDELGISQMHVSRLLGRTLRKLRAGM 286 >gi|295105020|emb|CBL02564.1| DNA-directed RNA polymerase specialized sigma subunit [Faecalibacterium prausnitzii SL3/3] Length = 157 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 8/85 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGY--------RGYGLPISEVVSEGNIGLMQAVKKFD 94 + GD A + LV ++LR + K A G+ ++++V EG++GL+ + F Sbjct: 14 QSGDKWAENALVENNLRFIRKTAYEIWSAQRELNVALGIELNDLVQEGSLGLLGCISSFQ 73 Query: 95 PERGFRLATYSMWWIKAAMQEYILR 119 P+ G + TY+ I AM +YI R Sbjct: 74 PDYGNKFLTYAAPAIHNAMLDYIRR 98 >gi|295706259|ref|YP_003599334.1| RNA polymerase sigma-D factor [Bacillus megaterium DSM 319] gi|294803918|gb|ADF40984.1| RNA polymerase sigma-D factor [Bacillus megaterium DSM 319] Length = 253 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 65/266 (24%), Positives = 128/266 (48%), Gaps = 34/266 (12%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 EE+ + + +RE D A + LV ++ LV + GLP + E+ S G IGL Sbjct: 8 EEHKIWQEWRETRDSHAGNMLVKKYMPLV-NYHVQRISVGLPKNIHKEELRSLGLIGLYD 66 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFD R + TY+ + I+ A+ + + + W + +A +K +R++ + Sbjct: 67 ALEKFDYGRDLKFDTYASFRIRGAIIDGLRKEDW----LSRSAREK-----TKRIEQATE 117 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVI-SMNCRLAGDESLNALINSSDKNSSQWQD---- 202 A+ L+ +AK++ ++E++V+ +MN E A + S ++ +++D Sbjct: 118 ALEQRYLRRVAPSEVAKEVGMTEADVVHTMN------EGFLANVLSMEEQPKEYEDGEQK 171 Query: 203 WLVYDHDGQEQVLIEKEERKN--RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 + + D E+ L +EE N R L + LN +E+ + +E +T ++ Sbjct: 172 YTIKD----EKTLSPEEELINDERYQELAEVIEQLNEKEQLVVSLFYKEE--LTFTEIAQ 225 Query: 261 EFEVSRERVRQIEARAFKKVQESIQK 286 +S R+ QI ++A K++ S+ K Sbjct: 226 LLGLSTSRISQIHSKALFKMRTSLSK 251 >gi|47564960|ref|ZP_00236004.1| sigma-B [Bacillus cereus G9241] gi|47558333|gb|EAL16657.1| sigma-B [Bacillus cereus G9241] Length = 257 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 110/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIAEFQQNQCDEAQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 214 >gi|225174854|ref|ZP_03728851.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dethiobacter alkaliphilus AHT 1] gi|225169494|gb|EEG78291.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dethiobacter alkaliphilus AHT 1] Length = 219 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 23/61 (37%), Positives = 35/61 (57%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 HL LV + Y+G ++ G IGL++A+KKFDP RG ATY++ I ++ Y Sbjct: 11 HLPLVHSLVKRYQGEYAESDDLFQVGCIGLLKALKKFDPARGNAFATYAVPVIAGEIKMY 70 Query: 117 I 117 + Sbjct: 71 L 71 >gi|160944585|ref|ZP_02091813.1| hypothetical protein FAEPRAM212_02099 [Faecalibacterium prausnitzii M21/2] gi|158444367|gb|EDP21371.1| hypothetical protein FAEPRAM212_02099 [Faecalibacterium prausnitzii M21/2] gi|295103334|emb|CBL00878.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 224 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 1/74 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +T +L LV A +RG G+ ++ S G +GL++A FD RG +TY++ I Sbjct: 11 FITQNLGLVHACAGRFRGRGMEYDDLYSAGCVGLIKAYDNFDESRGVCFSTYAVPVILGE 70 Query: 113 MQEYILRSWSLVKI 126 +++ + R VK+ Sbjct: 71 IKK-LFRDGGTVKV 83 >gi|126348076|emb|CAJ89797.1| putative RNA polymerase sigma factor [Streptomyces ambofaciens ATCC 23877] Length = 289 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 62/241 (25%), Positives = 110/241 (45%), Gaps = 36/241 (14%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT+ L + +IA +R G I ++ +GL++A+ +FDPERG +Y++ I Sbjct: 56 LVTAWLPMAHRIAGRFRDRGESIEDLRQVAALGLVKAIDRFDPERGA-FESYAVPTITGE 114 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPE-QVVAIAKKLNVS 169 ++ + R W+L R LR +++ + +T N PE V A+A ++ Sbjct: 115 VKRHFRDRMWAL-------RVPRRVQELRNKVRVARRELTQNPGSPEPSVAALAAHTGLT 167 Query: 170 ESEVISMNCRLAGDE--------SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 E EV AG E SL+A +++ D S D L DG +I++E Sbjct: 168 EDEVS------AGMEALESFSTLSLDAELSAGDDGYS-LADTLGA-ADGSYDTVIDRESA 219 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 K + L RER I R ++ +T ++ +S+ V ++ +R+ +V+ Sbjct: 220 KE-------GLRRLPERERAILYMRFFED--MTQSRIADRLGISQMHVSRLISRSCARVR 270 Query: 282 E 282 + Sbjct: 271 D 271 >gi|297194001|ref|ZP_06911399.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|297152057|gb|EFH31507.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 305 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 51/202 (25%), Positives = 91/202 (45%), Gaps = 28/202 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 84 LVELNLALVKFAASRFRTRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 143 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A++L++ Sbjct: 144 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELSQQLD---RAPTVDELAQRLDIGRD 197 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ G + NA SS D + + + Y+ G E + E ++ Sbjct: 198 EVVE------GMAASNAYTASSLDAQPEEDDSEGALANRIGYEDHGLEGI----EYIESL 247 Query: 225 RNMLTRSMSVLNPRERRIFEAR 246 R M+ + L PR+R+I R Sbjct: 248 RPMI----ASLPPRDRKILSLR 265 >gi|297197437|ref|ZP_06914834.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] gi|197716285|gb|EDY60319.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] Length = 298 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 52/199 (26%), Positives = 91/199 (45%), Gaps = 26/199 (13%) Query: 61 VVKIAMG-YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 +V+ A G +RG G + ++V G IGL++A+ +F+ R ++++ +I ++ + Sbjct: 78 LVRFAAGRFRGRGDDMEDIVQTGMIGLIKAIDRFEISREVEFTSFALPYIVGEIKRFFRD 137 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 + V + + R+ L + + L + D + V +A +N+SE EVI Sbjct: 138 TTWAVHVPRRLQELRV--ELAKAREELASRLDRD---PTVAELATLMNISEKEVI----- 187 Query: 180 LAGDESLNALINSSDKNSSQWQDWLVYDH-DGQEQVL---IEKEERKNRR----NMLTRS 231 A I S+ NSS L D +G E VL I EE R + L Sbjct: 188 -------EAQIASNGYNSSSLDAALTGDGPEGGEAVLADFIGVEEDGLRLVEDFHSLAPL 240 Query: 232 MSVLNPRERRIFEARRLQE 250 M+ L+ R+R+I R ++E Sbjct: 241 MAELSERDRQIIHMRFVEE 259 >gi|166154282|ref|YP_001654400.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis 434/Bu] gi|166155157|ref|YP_001653412.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis L2b/UCH-1/proctitis] gi|301335533|ref|ZP_07223777.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis L2tet1] gi|165930270|emb|CAP03756.1| RNA polymerase sigma factor [Chlamydia trachomatis 434/Bu] gi|165931145|emb|CAP06710.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/UCH-1/proctitis] Length = 253 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 61/243 (25%), Positives = 114/243 (46%), Gaps = 23/243 (9%) Query: 51 HR--LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 HR L+ S+L LV +A G+P + ++ + G GL++AV++FDPE+ R +Y Sbjct: 21 HRDVLIESYLPLVKNVAHRLAS-GMPSHVKMEDLYALGVEGLIRAVERFDPEKSKRFESY 79 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIA 163 +++ IKAA+ + LR V RL + L+ L + TD L Sbjct: 80 ALFIIKAAIIDG-LRKQDWVPRSVYQRANRLADAMDSLRQTLGKEPTDGEL--------C 130 Query: 164 KKLNVSESEVIS--MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 + LN+S+ E+ + R A SLN + D + + + D + + + + Sbjct: 131 EYLNISQQELSHWFSSSRPALVLSLNDDFSCQDDDEGLALEERIADERAETGYDVIR--K 188 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 K ++LT ++ L+ +ER++ + + L+ + VS RV QI ++A K++ Sbjct: 189 KEAISILTEALLALDEKERQVMALYYYDD--LVLKEIGKILGVSESRVSQIHSKALLKLR 246 Query: 282 ESI 284 ++ Sbjct: 247 GTL 249 >gi|312794234|ref|YP_004027157.1| RNA polymerase, sigma 70 family subunit [Caldicellulosiruptor kristjanssonii 177R1B] gi|312181374|gb|ADQ41544.1| putative RNA polymerase, sigma 70 family subunit [Caldicellulosiruptor kristjanssonii 177R1B] Length = 206 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 26/95 (27%), Positives = 49/95 (51%), Gaps = 4/95 (4%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 L++Q+E V + GD AA L+ ++ L++ IA Y + ++ EG + ++Q Sbjct: 6 LDEQKELVCRIK---QGDKKAAEELIRAYEPLIISIASKYNKPDI-FEDLKQEGAVAILQ 61 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 A +KFD G T ++++IK + RS ++ Sbjct: 62 AAQKFDESLGVSFITLAVYYIKRNTDRCVKRSQTI 96 >gi|225181965|ref|ZP_03735398.1| RNA polymerase, sigma 28 subunit, SigK [Dethiobacter alkaliphilus AHT 1] gi|225167327|gb|EEG76145.1| RNA polymerase, sigma 28 subunit, SigK [Dethiobacter alkaliphilus AHT 1] Length = 234 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 5/83 (6%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P EK+ ++AK GD A L+ +LRLV + + G +++S G +GL Sbjct: 33 PQEEKKYLALMAK-----GDEEARSILIERNLRLVAHVIKKFENTGEDQEDLISIGTVGL 87 Query: 87 MQAVKKFDPERGFRLATYSMWWI 109 ++A+ F+ +G RLATY+ I Sbjct: 88 IKAIDSFNNNKGTRLATYAARCI 110 >gi|158333719|ref|YP_001514891.1| RNA polymerase sigma factor SigF [Acaryochloris marina MBIC11017] gi|158303960|gb|ABW25577.1| RNA polymerase sigma factor [Acaryochloris marina MBIC11017] Length = 264 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 23/88 (26%), Positives = 52/88 (59%), Gaps = 1/88 (1%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL-PISEVVSEGNIGLMQA 89 K E L ++Y++ +RLV +L LV + A + G+ +++ G++GL++A Sbjct: 10 KSESLELLQQYQQSSCTELRNRLVQMNLGLVRREAHRWVGHSTESFDDLMQVGSLGLIRA 69 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++FDP +G +++++ +I+ +Q Y+ Sbjct: 70 IERFDPFKGHAFSSFAVPYIRGEIQHYL 97 >gi|226225717|ref|YP_002759823.1| RNA polymerase sigma factor for flagellar operon [Gemmatimonas aurantiaca T-27] gi|226088908|dbj|BAH37353.1| RNA polymerase sigma factor for flagellar operon [Gemmatimonas aurantiaca T-27] Length = 251 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 15/88 (17%) Query: 45 GDLSAAHRLVTSHLRLVVKIA------MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 G+ SA RL+ HL LV +A + R E+VS G IGLM A++ FD RG Sbjct: 12 GNPSARDRLLEEHLGLVHHVARQVSRTLAVRA---DFDELVSAGTIGLMTALEGFDASRG 68 Query: 99 FRLATYSMWWIKAAM------QEYILRS 120 +T++ I+ A+ Q+++ RS Sbjct: 69 LAFSTFAAPRIRGAILDELRKQDHVPRS 96 >gi|160895319|ref|ZP_02076090.1| hypothetical protein CLOL250_02878 [Clostridium sp. L2-50] gi|156863012|gb|EDO56443.1| hypothetical protein CLOL250_02878 [Clostridium sp. L2-50] Length = 225 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 24/83 (28%), Positives = 45/83 (54%), Gaps = 1/83 (1%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GD A +L+ +L LV +A + G G I ++ G IGL++ + KF E + +T Sbjct: 13 NGDDHAKEKLIEQNLGLVWSVARRFTGRGYDIEDLFQIGCIGLIKCIDKFSFEYDVKFST 72 Query: 104 YSMWWIKAAMQEYILRSWSLVKI 126 Y++ I+ ++ + LR +K+ Sbjct: 73 YAVPLIQGEIRRF-LRDSGAIKV 94 >gi|242089065|ref|XP_002440365.1| hypothetical protein SORBIDRAFT_09g030380 [Sorghum bicolor] gi|241945650|gb|EES18795.1| hypothetical protein SORBIDRAFT_09g030380 [Sorghum bicolor] Length = 182 Score = 45.1 bits (105), Expect = 0.012, Method: Compositional matrix adjust. Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 1/61 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT+ L IA Y G G + +++ G IG++ +KFD +G R +TY +WI+ Sbjct: 2 LVTTEW-LFSYIARTYTGMGTALDKLLQAGKIGVLDGSEKFDNRKGCRFSTYVKYWIRKG 60 Query: 113 M 113 M Sbjct: 61 M 61 >gi|326938732|gb|AEA14628.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis serovar chinensis CT-43] Length = 257 Score = 45.1 bits (105), Expect = 0.013, Method: Compositional matrix adjust. Identities = 54/231 (23%), Positives = 110/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPMLEKQEEYV-LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P +E+ + L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTTLTKEDVIKLIAEFQQNQCNEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 214 >gi|332297782|ref|YP_004439704.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Treponema brennaborense DSM 12168] gi|332180885|gb|AEE16573.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Treponema brennaborense DSM 12168] Length = 262 Score = 45.1 bits (105), Expect = 0.013, Method: Compositional matrix adjust. Identities = 47/224 (20%), Positives = 101/224 (45%), Gaps = 22/224 (9%) Query: 61 VVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VK G G+P S ++V G GL+ A+ K+DP++ + TY++ I+ ++ + Sbjct: 37 LVKYVAGKVATGMPGSVEFDDLVGFGQFGLLDAINKYDPDKNVKFKTYAVTRIRGSIFDE 96 Query: 117 ILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 + + W + + QK R ++ + A+ +P +A + +SE+E Sbjct: 97 LRQLDW----VPRSVRQK-----AREIEDAIVALESRLGRPASDAEVAGSMGISEAEFQQ 147 Query: 176 MNCRLAGDE--SLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 R++G SLN + + D + D + V++E+EE R ++ ++ Sbjct: 148 TVMRVSGTSVLSLNDVWYSGDDSDHVSIGDSIESPASLNPDVIVEREE---IRRVIAEAI 204 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + L +E+ + ++ +T + + VS R+ Q+ +A Sbjct: 205 TELPEKEKMVLVLYYHED--LTFKEIGQVLNVSESRISQLHTKA 246 >gi|114566413|ref|YP_753567.1| RNA polymerase sigma factor [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337348|gb|ABI68196.1| putative RNA polymerase sigma factor [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 260 Score = 45.1 bits (105), Expect = 0.013, Method: Compositional matrix adjust. Identities = 55/254 (21%), Positives = 115/254 (45%), Gaps = 19/254 (7%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 R +E+ D+ A +L+ LV +A + + + E++S G GL+ A++KFD + Sbjct: 15 RLKENEDIEARDQLIIHFAHLVKYVASRLAIHLSSLVELDELISYGIEGLIDAIEKFDHK 74 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL---FFNLRRLKGHLQAITDNN 153 R + TY++ I+ +M + LRS + + K L + N+ G ++ +D Sbjct: 75 RNIKFETYAITRIRGSMIDG-LRSMDWIPVSLRQKSKELEKAYMNVEARLG--RSASDAE 131 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + E LN+ E V+ + SL+ + D + L+ DH+ Sbjct: 132 VAEEL------GLNLDEFAVLLRDVAATTIISLDDFLPGEDGEQKKRMLDLLEDHNSISA 185 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 E E +++L +++S L +E+ + + +TL+ + + +S R+ Q+ Sbjct: 186 S--EIVEFNEVKDLLAKAISRLPDKEKLVVYLYYYE--GLTLKEIGATISLSESRISQLH 241 Query: 274 ARAFKKVQESIQKQ 287 +A +++ S+ K+ Sbjct: 242 TKAILRLRGSLSKK 255 >gi|257871306|ref|ZP_05650959.1| RNA polymerase sigma-70 subunit [Enterococcus gallinarum EG2] gi|257805470|gb|EEV34292.1| RNA polymerase sigma-70 subunit [Enterococcus gallinarum EG2] Length = 235 Score = 45.1 bits (105), Expect = 0.013, Method: Compositional matrix adjust. Identities = 50/211 (23%), Positives = 97/211 (45%), Gaps = 20/211 (9%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA-NQKRLFFNLR 140 G IGLM A++KFDP + +Y++ IK A+ + + + + + A NQ F+ R Sbjct: 40 GVIGLMDALRKFDPSKKVPFESYAVIRIKGAIIDEVRKHAKISRYKMAAVNQ---FYQAR 96 Query: 141 RLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNS 197 + + +LK E I K+L +++S++ I + SL + + + Sbjct: 97 QE-------LEQSLKREATDTEICKQLGINQSQLADIYESLHYLASVSLEDTLFAYQEEG 149 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +D + + E L+ +E +R L + L RE+ I +E +TL+ Sbjct: 150 MTIKDMVRDPAENVEDTLVAEE----KRTALVACIKKLGEREQIILSLYYTEE--LTLKE 203 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++ E+S RV QI + K++ I++++ Sbjct: 204 IAEILEISIPRVSQIHGKTIAKLRTLIEEEL 234 >gi|119511138|ref|ZP_01630256.1| sigma factor SigF [Nodularia spumigena CCY9414] gi|119464233|gb|EAW45152.1| sigma factor SigF [Nodularia spumigena CCY9414] Length = 261 Score = 45.1 bits (105), Expect = 0.013, Method: Compositional matrix adjust. Identities = 25/91 (27%), Positives = 50/91 (54%), Gaps = 1/91 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL-PISEVVSEGNIGLMQAVKKFDP 95 L Y ++ + ++LV H LV KIA + P ++ G GL++A+++FDP Sbjct: 15 LLHSYHQNPSIKLRNQLVQLHTGLVRKIAHKFSHQCHEPYEDLEQIGYFGLIRAIERFDP 74 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 +G+ +++++ +I+ M ++ SL+KI Sbjct: 75 SQGYAFSSFAVPYIRGEMLHFLRDRSSLLKI 105 >gi|218661226|ref|ZP_03517156.1| hypothetical protein RetlI_17598 [Rhizobium etli IE4771] Length = 20 Score = 45.1 bits (105), Expect = 0.013, Method: Composition-based stats. Identities = 18/20 (90%), Positives = 19/20 (95%) Query: 66 MGYRGYGLPISEVVSEGNIG 85 MGYRGYGLPI EVVSEGN+G Sbjct: 1 MGYRGYGLPIGEVVSEGNVG 20 >gi|302878264|ref|YP_003846828.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Gallionella capsiferriformans ES-2] gi|302581053|gb|ADL55064.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Gallionella capsiferriformans ES-2] Length = 236 Score = 45.1 bits (105), Expect = 0.013, Method: Compositional matrix adjust. Identities = 58/232 (25%), Positives = 103/232 (44%), Gaps = 23/232 (9%) Query: 60 LVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 LV +IA M Y + I +++ G +GL+ A ++D G + TY+ I+ AM + Sbjct: 20 LVKRIAHQMMSKLPYSVQIDDIIQAGMMGLLDAATRYDEIHGAQFETYATQRIRGAMLDE 79 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 LRS + + +R+ + RL+ L P + IAK+L VS E M Sbjct: 80 -LRSADWLPRSLRRDMRRIEQGVSRLQQKL------GRAPNE-TEIAKELEVSLVEYQQM 131 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDW---LVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 G + LI D +D+ + +D L++ + K+ L R++ Sbjct: 132 LQESRGAQ----LIYYEDFQDEDHEDFFERFEFANDTDPLALLQDDRFKSE---LARAID 184 Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 VL RER + + E + L + F VS R+ Q+ ++A +++ S++ Sbjct: 185 VLPERERLLMAL--IYEQELNLREVGEVFGVSESRISQLHSQAVLRLRGSLK 234 >gi|182438259|ref|YP_001825978.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326778910|ref|ZP_08238175.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178466775|dbj|BAG21295.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326659243|gb|EGE44089.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 323 Score = 45.1 bits (105), Expect = 0.013, Method: Compositional matrix adjust. Identities = 57/235 (24%), Positives = 103/235 (43%), Gaps = 20/235 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ ++V G IGL++A+ +F+ RG T++M I Sbjct: 102 LVELNLALVKFAAARFRSRSEPMEDIVQVGTIGLIKAIDRFELSRGVEFPTFAMPTIVGE 161 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V ++++L +S Sbjct: 162 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELSQQLD---RAPTVAELSERLGISPE 215 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQD--WLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV+ G + NA SS + D + D G E +E E L Sbjct: 216 EVVE------GMSASNAYTASSLDAKPEEDDGEGALADRIGYEDHSLEGIEYVESLKPL- 268 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++ L R+R I R + +T + E +S+ V ++ +R K+++ + Sbjct: 269 --IAALPARDRMILSLRFVSN--MTQSEIGEELNISQMHVSRLLSRTLTKLRKGL 319 >gi|157693076|ref|YP_001487538.1| sporulation sigma factor SigK [Bacillus pumilus SAFR-032] gi|157681834|gb|ABV62978.1| DNA-directed RNA polymerase sigma subunit SigK carboxy-terminus [Bacillus pumilus SAFR-032] Length = 289 Score = 45.1 bits (105), Expect = 0.014, Method: Compositional matrix adjust. Identities = 22/66 (33%), Positives = 38/66 (57%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LATY Sbjct: 94 GDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSSGKGTKLATY 153 Query: 105 SMWWIK 110 + I+ Sbjct: 154 AARCIE 159 >gi|326490962|dbj|BAJ90342.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 496 Score = 45.1 bits (105), Expect = 0.014, Method: Compositional matrix adjust. Identities = 27/92 (29%), Positives = 53/92 (57%), Gaps = 16/92 (17%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP-------ISEVVSEGNIGLMQAVK 91 +R R+ G +A ++L+ +LRLV+ Y P +++ G GL+ A+ Sbjct: 250 RRLRDVGR-AARNKLIKHNLRLVLYAINKY----YPDMTGDERFADLCQAGANGLITAID 304 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 +F+P+RGFR++TY++ WI+ + ++R+ +L Sbjct: 305 RFEPKRGFRISTYALSWIRHS----VVRAMTL 332 >gi|206975667|ref|ZP_03236579.1| RNA polymerase sigma-B factor [Bacillus cereus H3081.97] gi|206746129|gb|EDZ57524.1| RNA polymerase sigma-B factor [Bacillus cereus H3081.97] Length = 257 Score = 45.1 bits (105), Expect = 0.014, Method: Compositional matrix adjust. Identities = 59/271 (21%), Positives = 128/271 (47%), Gaps = 29/271 (10%) Query: 22 EIRKIPMLEKQEEYV-LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P +E+ + L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTTLTKEDVIKLIAEFQQNQCDEAQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDCLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 SD +S + + G E+ RR +L +VLN E+ + + E Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI--HYIFEEN 221 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQES 283 + ++ +S+ V +I+ +A K++++ Sbjct: 222 LNQKDTGERLGISQMHVSRIKRQAISKLKQA 252 >gi|315503089|ref|YP_004081976.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Micromonospora sp. L5] gi|315409708|gb|ADU07825.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Micromonospora sp. L5] Length = 273 Score = 45.1 bits (105), Expect = 0.014, Method: Compositional matrix adjust. Identities = 56/238 (23%), Positives = 103/238 (43%), Gaps = 30/238 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R + + L L +A Y G G P ++ IGL++A+ KFDP RG A Y++ I Sbjct: 51 RAIEAWLPLANHLAHRYSGRGEPNDDLAQTAAIGLIKAIDKFDPSRGVDFAGYAIPTIIG 110 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL-------KPEQVVAIA 163 ++ + R+W +++ RRL+ AI+D N + V IA Sbjct: 111 ELKRHFRDRTWD-IRVP------------RRLQELRLAISDANSTLLQTLGRSPTVADIA 157 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L ++E EV+ +++ + D + L+ DG+ ++ Sbjct: 158 AHLKLTEEEVLEGLEGARAYNAVSLSTPTGDGERATELGDLLGGEDGEFEL-------AE 210 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L +++ L+ RE++I R +T ++ + VS+ V ++ ARA K++ Sbjct: 211 MRVALGPALATLDQREQKILTLRFYGN--LTQSQIAEQIGVSQMHVSRLLARALTKLR 266 >gi|169350469|ref|ZP_02867407.1| hypothetical protein CLOSPI_01237 [Clostridium spiroforme DSM 1552] gi|169292789|gb|EDS74922.1| hypothetical protein CLOSPI_01237 [Clostridium spiroforme DSM 1552] Length = 228 Score = 45.1 bits (105), Expect = 0.014, Method: Compositional matrix adjust. Identities = 33/104 (31%), Positives = 54/104 (51%), Gaps = 3/104 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +S++ NG LS + +IP+ K+E L + + +GD A + L+ +LRLV IA Sbjct: 6 LSLLTNG-FFLSYIKSKSFEIPLTPKEEAKYLERFF--NGDQEARNVLIERNLRLVAHIA 62 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y +++S G IGL++AV + +LATY+ I Sbjct: 63 KKYENNKDLQEDLISIGTIGLIKAVDSYKQNHKTKLATYASRCI 106 >gi|302866675|ref|YP_003835312.1| RNA polymerase sigma-70 factor [Micromonospora aurantiaca ATCC 27029] gi|302569534|gb|ADL45736.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Micromonospora aurantiaca ATCC 27029] Length = 273 Score = 45.1 bits (105), Expect = 0.014, Method: Compositional matrix adjust. Identities = 56/238 (23%), Positives = 103/238 (43%), Gaps = 30/238 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R + + L L +A Y G G P ++ IGL++A+ KFDP RG A Y++ I Sbjct: 51 RAIEAWLPLANHLAHRYSGRGEPNDDLAQTAAIGLIKAIDKFDPSRGVDFAGYAIPTIIG 110 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL-------KPEQVVAIA 163 ++ + R+W +++ RRL+ AI+D N + V IA Sbjct: 111 ELKRHFRDRTWD-IRVP------------RRLQELRLAISDANSTLLQTLGRSPTVADIA 157 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 L ++E EV+ +++ + D + L+ DG+ ++ Sbjct: 158 AHLKLTEEEVLEGLEGARAYNAVSLSTPTGDGERATELGDLLGGEDGEFEL-------AE 210 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L +++ L+ RE++I R +T ++ + VS+ V ++ ARA K++ Sbjct: 211 MRVALGPALATLDQREQKILTLRFYGN--LTQSQIAEQIGVSQMHVSRLLARALTKLR 266 >gi|83590422|ref|YP_430431.1| sporulation sigma factor SigK [Moorella thermoacetica ATCC 39073] gi|83573336|gb|ABC19888.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Moorella thermoacetica ATCC 39073] Length = 226 Score = 45.1 bits (105), Expect = 0.015, Method: Compositional matrix adjust. Identities = 26/87 (29%), Positives = 48/87 (55%), Gaps = 8/87 (9%) Query: 27 PMLEKQEEYVLAKRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGN 83 P+ E++E+ +Y E GD A + L+ +LRLV I + G +++S G Sbjct: 32 PLSEEEEQ-----KYLELWLQGDQKARNILIEHNLRLVAHITKKFENTGEDTEDLISIGT 86 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIK 110 +GL++A+ ++ +G +LATY+ I+ Sbjct: 87 VGLIKAINTYNKAKGTKLATYAARCIE 113 >gi|154482592|ref|ZP_02025040.1| hypothetical protein EUBVEN_00259 [Eubacterium ventriosum ATCC 27560] gi|149736617|gb|EDM52503.1| hypothetical protein EUBVEN_00259 [Eubacterium ventriosum ATCC 27560] Length = 192 Score = 45.1 bits (105), Expect = 0.015, Method: Compositional matrix adjust. Identities = 22/65 (33%), Positives = 36/65 (55%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A L+ +LRLV + Y +++S G +GL++AV ++P++G RL TY Sbjct: 4 GDKKAKDILIERNLRLVAHVVKKYYDENRENQDLISIGIVGLIKAVNTYNPDKGNRLVTY 63 Query: 105 SMWWI 109 + I Sbjct: 64 AAKCI 68 >gi|229195303|ref|ZP_04322075.1| RNA polymerase sigma-B factor [Bacillus cereus m1293] gi|228588158|gb|EEK46204.1| RNA polymerase sigma-B factor [Bacillus cereus m1293] Length = 242 Score = 44.7 bits (104), Expect = 0.015, Method: Compositional matrix adjust. Identities = 54/243 (22%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A RLV + LV IA Y G +++ G +GL+ A++++D G +++ Sbjct: 15 AQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPT 74 Query: 109 IKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL-RRLKGHLQAITDNNLKPEQVVAIAKKL 166 I +++Y+ ++W + + R +L ++K ++ +TD+ + +++ IA L Sbjct: 75 IVGEIKKYLRDKTWGI-------HVPRRIKDLGGKIKLAIEELTDHLQRSPKIIEIADHL 127 Query: 167 NVSESEVISM-----NCRLAGDESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 +SE EV+ + N R++ SL+ ++ N+SD +S + + G E+ Sbjct: 128 GLSEEEVLEIMDAKNNYRVS---SLDDVVENASDGSSVARIESVGEVEQGYEET------ 178 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 RR +L +VLN E+ + + E + ++ +S+ V +I+ +A K+ Sbjct: 179 --ERRLVLKDIFNVLNETEKSVI--HYIFEENLNQKDTGERLGISQMHVSRIKRQAISKL 234 Query: 281 QES 283 +++ Sbjct: 235 KQA 237 >gi|188586385|ref|YP_001917930.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179351072|gb|ACB85342.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 114 Score = 44.7 bits (104), Expect = 0.015, Method: Compositional matrix adjust. Identities = 23/68 (33%), Positives = 38/68 (55%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 E GD A L+ +LRLV + + G +++S G IGL++A+ ++ +G RLA Sbjct: 44 EQGDDKAREVLIERNLRLVAHVIKKFENSGEDPEDLISIGTIGLIKAINTYNYRKGTRLA 103 Query: 103 TYSMWWIK 110 TY+ I+ Sbjct: 104 TYAARCIE 111 >gi|146277655|ref|YP_001167814.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rhodobacter sphaeroides ATCC 17025] gi|145555896|gb|ABP70509.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rhodobacter sphaeroides ATCC 17025] Length = 239 Score = 44.7 bits (104), Expect = 0.015, Method: Compositional matrix adjust. Identities = 52/236 (22%), Positives = 111/236 (47%), Gaps = 22/236 (9%) Query: 52 RLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 RLV +H+ LV +IA G + I +++ G +GL+ A ++++P G A Y+ Sbjct: 16 RLVRAHMDLVRRIAWNLHARIGRKVEIDDLIQIGYMGLVDASRRYEPRDGVTFAAYAAIR 75 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ ++ ++ LRS S + T Q+++ ++RL+ L ++ + +A +L + Sbjct: 76 IRGSIMDF-LRSNSALCRTTILMQQKVKAAVQRLESRL-------MRAPETPEVAAELGM 127 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 E + AG ++ +L D SS +Q G E ++ + R +L Sbjct: 128 PVGEYQDWLAQFAGSQT-ASLDEVYDDQSSLFQ--------GSEPSAEDRLQATQMRGLL 178 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +++ + RE + + ++E + + ++ V+ RV QI+ A ++++ I Sbjct: 179 RQALGKMPEREALLLQLIFVEE--MNVYEVAEILGVTTGRVSQIKKAAIERLRGFI 232 >gi|168335364|ref|ZP_02693458.1| sporulation sigma factor SigG [Epulopiscium sp. 'N.t. morphotype B'] Length = 243 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 15/100 (15%) Query: 25 KIPMLEKQEEYVLAKRYREH-------GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 K+P L Q+ +EH GD A + +LRLV+ + + G + + Sbjct: 15 KLPTLTNQQ--------KEHLFELIGAGDNMAREEYIRGNLRLVLSVIQRFNNRGEHVDD 66 Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 + G IGL++A+ FD +G + +TY++ I ++ Y+ Sbjct: 67 LFQVGCIGLIKAIDNFDTTQGVKFSTYAVPMIIGEIRRYL 106 >gi|148381038|ref|YP_001255579.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. ATCC 3502] gi|153933259|ref|YP_001385409.1| sporulation sigma factor SigF [Clostridium botulinum A str. ATCC 19397] gi|153935896|ref|YP_001388816.1| sporulation sigma factor SigF [Clostridium botulinum A str. Hall] gi|153939970|ref|YP_001392365.1| sporulation sigma factor SigF [Clostridium botulinum F str. Langeland] gi|170754271|ref|YP_001782722.1| sporulation sigma factor SigF [Clostridium botulinum B1 str. Okra] gi|226950516|ref|YP_002805607.1| RNA polymerase sigma-F factor [Clostridium botulinum A2 str. Kyoto] gi|148290522|emb|CAL84650.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. ATCC 3502] gi|152929303|gb|ABS34803.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. ATCC 19397] gi|152931810|gb|ABS37309.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. Hall] gi|152935866|gb|ABS41364.1| RNA polymerase sigma-F factor [Clostridium botulinum F str. Langeland] gi|169119483|gb|ACA43319.1| RNA polymerase sigma-F factor [Clostridium botulinum B1 str. Okra] gi|226844449|gb|ACO87115.1| RNA polymerase sigma-F factor [Clostridium botulinum A2 str. Kyoto] gi|295320356|gb|ADG00734.1| RNA polymerase sigma-F factor [Clostridium botulinum F str. 230613] gi|322807388|emb|CBZ04962.1| RNA polymerase sporulation specific sigma factor SigF [Clostridium botulinum H04402 065] Length = 251 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 57/250 (22%), Positives = 114/250 (45%), Gaps = 36/250 (14%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A +LV +L LV I+ + G ++ G IGL++A+ F+ + + +TY Sbjct: 26 GNKEALDKLVEVNLPLVSAISKKFLNRGYEYDDIFQIGCIGLVKAINNFETKYNVKFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTT--ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ + LR ++K+ + K+L ++ +L Sbjct: 86 AVPMIMGEIKRF-LRDDGIIKVSRSIKTAAKKLHYDKEKL-------------------- 124 Query: 163 AKKLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--- 218 K+LN + E +S DE L A +SS S Q+ +++ DG +LI+K Sbjct: 125 CKELNREPTIEELSQFSGYTVDEILMATESSS---SPQYLYDVIHQDDGAPVLLIDKISE 181 Query: 219 ---EERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 E+ K N+ L ++ L+ + R+I R ++ T ++ + +S+ +V +IE Sbjct: 182 NTEEDNKIVDNIALKEALKNLDIKSRQIIILRYFKDK--TQIEVAKQLGISQVQVSRIEK 239 Query: 275 RAFKKVQESI 284 + K ++E + Sbjct: 240 KVLKLMKEKL 249 >gi|326791514|ref|YP_004309335.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium lentocellum DSM 5427] gi|326542278|gb|ADZ84137.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium lentocellum DSM 5427] Length = 249 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 57/242 (23%), Positives = 104/242 (42%), Gaps = 37/242 (15%) Query: 57 HLRLVVKIAMGYRGYGL----PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H +VK+ G G L ++V G +GL+ AV KFDP + + TY+ I+ A Sbjct: 28 HYVYLVKLVAGRLGIYLNQYVDSDDLVGYGVLGLIDAVDKFDPGKNVKFETYASLRIRGA 87 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL------QAITDN-NLKPEQVVAIAKK 165 + + I R V QK + L+G L + + D + E+ + K+ Sbjct: 88 ILDAI-RKLDWVPRTLRKKQKDIDKAYIELEGRLGRQPLDEEVADFLEISIEEYNELLKE 146 Query: 166 LNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 +N+ S +IS+ DE + + D ++ ++++ E + Sbjct: 147 VNI--SSLISI------DEYMYQFESVKDPSAPIPENYI---------------EDTEVK 183 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ML + L RE+++ +E +TL+ +S EVS RV Q+ +A +++ +Q Sbjct: 184 EMLAEFIDSLPEREKKVIFLYYYEE--LTLKEISHVLEVSESRVSQLHTKAVSRLRAYMQ 241 Query: 286 KQ 287 K Sbjct: 242 KH 243 >gi|167756988|ref|ZP_02429115.1| hypothetical protein CLORAM_02537 [Clostridium ramosum DSM 1402] gi|167703163|gb|EDS17742.1| hypothetical protein CLORAM_02537 [Clostridium ramosum DSM 1402] Length = 228 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 32/104 (30%), Positives = 55/104 (52%), Gaps = 3/104 (2%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 +S++ NG +S + ++P+ K+EE L + + +GD A + L+ +LRLV IA Sbjct: 6 LSLLTNG-FFVSYIKSKSFELPLTAKEEERYLEQFF--NGDKEARNVLIERNLRLVAHIA 62 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 Y +++S G IGL++AV + +LATY+ I Sbjct: 63 KKYENNKDMQEDLISIGTIGLIKAVDSYKQNHKTKLATYASRCI 106 >gi|302558130|ref|ZP_07310472.1| RNA polymerase sigma factor WhiG [Streptomyces griseoflavus Tu4000] gi|302475748|gb|EFL38841.1| RNA polymerase sigma factor WhiG [Streptomyces griseoflavus Tu4000] Length = 280 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 62/245 (25%), Positives = 101/245 (41%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP + VS G GL+ A++KFD Sbjct: 36 RSYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVDQGDFVSSGVFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 95 VDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEARL-RR 147 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA + V E + LA +L L++ ++ + D L D Sbjct: 148 TPSESEVAGELGIAVDELHAVFSQLSLANVVALEELLHVGGESGDRLSLMDTL---EDTA 204 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 205 ADDPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQ 262 Query: 272 IEARA 276 I ++ Sbjct: 263 IHTKS 267 >gi|317056324|ref|YP_004104791.1| Sig B/F/G subfamily RNA polymerase sigma-28 subunit [Ruminococcus albus 7] gi|315448593|gb|ADU22157.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ruminococcus albus 7] Length = 256 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 4/88 (4%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 EKQE L KR + GD +A +L+ +LRLV+ + Y G ++ G +GL++A Sbjct: 23 EKQE---LLKRSAD-GDKTAREKLIKGNLRLVLSVLQKYSGGKENPDDLFQVGVVGLIKA 78 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYI 117 + FD R +TY++ I ++ Y+ Sbjct: 79 IDNFDVGLNVRFSTYAVPMILGEIKRYM 106 >gi|163938900|ref|YP_001643784.1| RNA polymerase sigma factor SigB [Bacillus weihenstephanensis KBAB4] gi|163861097|gb|ABY42156.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] Length = 257 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 110/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTDLTKEDVIKLIAEFQQNQCDEAQERLVNHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGV-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N +++ SL+ ++ NS Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYQVS---SLDDVVENS 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G EQ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEQT--------ERRLVLDDIFNVLNDTEKSVI 214 >gi|239941779|ref|ZP_04693716.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|239988239|ref|ZP_04708903.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] gi|291445225|ref|ZP_06584615.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|291348172|gb|EFE75076.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] Length = 329 Score = 44.7 bits (104), Expect = 0.016, Method: Compositional matrix adjust. Identities = 58/242 (23%), Positives = 106/242 (43%), Gaps = 30/242 (12%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + LV +L LV A +R P+ ++V G IGL++A+ +F+ RG T++M I Sbjct: 106 NTLVELNLALVKFAASRFRSRSEPMEDIVQVGTIGLIKAIDRFELSRGVEFPTFAMPTIV 165 Query: 111 AAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 ++ + SWS V++ + RL +L + L D + V ++++L ++ Sbjct: 166 GEIKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELSQQLD---RAPTVAELSERLGIT 219 Query: 170 ESEVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 EV+ G + NA SS D + D + Y+ G E IE E Sbjct: 220 PDEVVE------GMSASNAYTASSLDAKPEEDDSEGALADRIGYEDHGLEG--IEYVES- 270 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L ++ L R+R I R + +T + E +S+ V ++ +R K+++ Sbjct: 271 -----LKPLIAALPARDRMILSLRFVSN--MTQSEIGEELNISQMHVSRLLSRTLTKLRK 323 Query: 283 SI 284 + Sbjct: 324 GL 325 >gi|291545415|emb|CBL18523.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus sp. SR1/5] Length = 259 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 58/265 (21%), Positives = 120/265 (45%), Gaps = 35/265 (13%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+++E+ L KR + GD A + +LRLV+ + ++ ++ G IG Sbjct: 16 LPVLDQEEKAELFKRIK-AGDEEARELYIKGNLRLVLSVIRRFQNSSENPDDLFQIGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRRL 142 L++A+ FD + +TY++ I ++ Y LR + +++ + K ++ + Sbjct: 75 LIKAIDNFDTTLQVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDIAYKTIYTRENYM 133 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL------AGDESLNALINSSDKN 196 + HL+ T + E + I K++ V + I L G ++L + SDK Sbjct: 134 RQHLKEPTIAEIADE--IGIDKEMIVYAMDAIQSPVSLFEPVYSEGGDTLYVMDQISDKK 191 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 + + ++W+ E + R+ + R L RER I + R E +E Sbjct: 192 NLE-ENWV---------------EDISLRDAMNR----LGERERHIIDL-RFYEGKTQME 230 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 ++ E +S+ +V ++E A + ++ Sbjct: 231 -VADEIGISQAQVSRLEKHALRSMR 254 >gi|284992377|ref|YP_003410931.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geodermatophilus obscurus DSM 43160] gi|284065622|gb|ADB76560.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geodermatophilus obscurus DSM 43160] Length = 266 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 50/224 (22%), Positives = 94/224 (41%), Gaps = 15/224 (6%) Query: 57 HLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H +VK G G GLP +++VS G GL+ A+ ++ P R + +Y+M I+ A Sbjct: 42 HYAPLVKYVAGRVGSGLPAHVEQADLVSYGTFGLIDAITRYQPSREVKFESYAMARIRGA 101 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + + LRS + ++ + L+ LQ E+ VA ++V + Sbjct: 102 IIDE-LRSTDWIPRSVRMKARQFERTVALLESRLQ-----RSPSEEEVAAEMDMDVEDVR 155 Query: 173 VISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 L +L+ L++ + + + D L Q + E E R +L R++ Sbjct: 156 KFLGQLSLVNVVALDELLSDDEGGAPRLVDTLQDTSALDPQAMAEHSE---ARQLLARAV 212 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 L RE+ + + +TL ++ V+ R+ Q+ +A Sbjct: 213 EQLPEREKVVVSLYYFE--GLTLADIGRVLGVTESRICQLHTKA 254 >gi|194017684|ref|ZP_03056294.1| RNA polymerase sigma-K factor [Bacillus pumilus ATCC 7061] gi|194010584|gb|EDW20156.1| RNA polymerase sigma-K factor [Bacillus pumilus ATCC 7061] Length = 289 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 22/66 (33%), Positives = 38/66 (57%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +LRLV I + G +++S G IGL++A++ + +G +LATY Sbjct: 94 GDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSSGKGTKLATY 153 Query: 105 SMWWIK 110 + I+ Sbjct: 154 AARCIE 159 >gi|302871341|ref|YP_003839977.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574200|gb|ADL41991.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 242 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 29/93 (31%), Positives = 51/93 (54%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 PM ++EE L K + G A + LV +LRLV IA Y + P +++S G I Sbjct: 36 PMSSEEEEMYLNKMW--EGCKEARNILVEKNLRLVAHIAKKYT-FSFPNLTDDIISVGTI 92 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + ++ +L+TY+ I+ + Y+ Sbjct: 93 GLIKAIETYSKDKSTKLSTYAAKCIENEILMYL 125 >gi|313115569|ref|ZP_07801028.1| RNA polymerase sigma-G factor [Faecalibacterium cf. prausnitzii KLE1255] gi|310622084|gb|EFQ05580.1| RNA polymerase sigma-G factor [Faecalibacterium cf. prausnitzii KLE1255] Length = 255 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 55/235 (23%), Positives = 104/235 (44%), Gaps = 29/235 (12%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 ++V +LRLV+ + + G + ++ G IGL++A+ FDP + R +TY + I Sbjct: 39 EQMVEGNLRLVLSVVQRFAQRGENLDDLFQVGCIGLIKAIDHFDPAQPVRFSTYGVPMII 98 Query: 111 AAMQEYI-----LR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ ++ LR S SL A Q R +A+ + + IA+ Sbjct: 99 GEIRRFLRDNNALRVSRSLRDTAYRAMQSR------------EALEKQLGREPTMDEIAQ 146 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 ++ EV + + SL + +D + + V D DG++ + + R+ Sbjct: 147 AAGLARREVTAALESVVEPISLEEPV-YTDGGDAMYVIDQVRDPDGEDSWISGLQFRQ-- 203 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 +++ L PRE+RI E R LQ T ++ E +S+ +V ++E A + Sbjct: 204 ------TVAGLTPREKRIMELRYLQGK--TQMEVAREIGISQAQVSRLEKGALSQ 250 >gi|296501716|ref|YP_003663416.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis BMB171] gi|296322768|gb|ADH05696.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis BMB171] Length = 257 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 110/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIADFQQNQCDEAQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 115 GGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 214 >gi|291334306|gb|ADD93967.1| sigma factor FliA sigma 28 group flagellar [uncultured marine bacterium MedDCM-OCT-S09-C247] Length = 225 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 51/230 (22%), Positives = 105/230 (45%), Gaps = 22/230 (9%) Query: 52 RLVTSHLRLVVKIAMGYRG-YG--LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 +L+ +L +V KIA Y G G + + +++ G +GL++A + P+ Y+ Sbjct: 14 QLINDNLDIVKKIAFFYVGRVGKVVEVDDLLQLGMVGLIEAAHNYTPQDDVSFVNYARLR 73 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 +K A+ +Y+ +S +L + GT ++ R+L+ L + + IAK+L V Sbjct: 74 VKGAIVDYLRKSSNLCR-GTIRRKQDYERAKRKLEKEL-------FRQPETHEIAKELKV 125 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 S+++S A + S ++ S + D+L E+ + E +++L Sbjct: 126 EVSDLLSWQHDFAASQH-----QSLEEASDAYGDFLFATDKSVEEKIFNGE----LKDIL 176 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + LN ++ + + ++E + + + VS RV QI++ A K Sbjct: 177 RTKLEDLNEQQLMVLQLYYVEE--LNVYEIGEILSVSTGRVSQIKSAAIK 224 >gi|167464009|ref|ZP_02329098.1| RNA polymerase, sigma 28 subunit [Paenibacillus larvae subsp. larvae BRL-230010] Length = 175 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 44/168 (26%), Positives = 77/168 (45%), Gaps = 23/168 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPER 97 Y H L +++ ++ ++V +A YR G GL ++VS G IGL+QA + +DP+R Sbjct: 5 YNPH--LGYEDQIIPAYEKMVHSVARKYRSCIGAGLDYDDLVSVGMIGLIQAFRNYDPDR 62 Query: 98 GFR----LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 R +TY+ IK ++Q ++ A+++ R ++ L I Sbjct: 63 LNRKVSSFSTYAFNMIKWSIQRFL------------ADKRFSVRVPRSIQNKLTVIWKQG 110 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAG--DESLNALINSSDKNSSQ 199 E +IA+K E+ +AG SL+ ++SSDK + Sbjct: 111 WDQESAESIAEKTGWKLPEIREAQRHIAGWSVASLDQALSSSDKTDEE 158 >gi|17227773|ref|NP_484321.1| RNA polymerase sigma factor SigF [Nostoc sp. PCC 7120] gi|17135255|dbj|BAB77801.1| RNA polymerase sigma-37 factor [Nostoc sp. PCC 7120] Length = 261 Score = 44.7 bits (104), Expect = 0.017, Method: Compositional matrix adjust. Identities = 24/91 (26%), Positives = 50/91 (54%), Gaps = 1/91 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDP 95 L + Y + + +RLV H LV K+A + P ++ G GL++A+++FDP Sbjct: 15 LLRSYHHNPSIKLRNRLVQLHTGLVRKMAHKFSHQCNEPYEDLEQIGYFGLIRAIERFDP 74 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 +G+ +++++ +I+ M ++ +L+KI Sbjct: 75 SQGYAFSSFAVPYIRGEMLHFLRDRSTLLKI 105 >gi|237732926|ref|ZP_04563407.1| sporulation sigma factor sigK [Mollicutes bacterium D7] gi|229383995|gb|EEO34086.1| sporulation sigma factor sigK [Coprobacillus sp. D7] Length = 223 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 28/84 (33%), Positives = 45/84 (53%), Gaps = 2/84 (2%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+ K+EE L + + +GD A + L+ +LRLV IA Y +++S G IG Sbjct: 25 LPLTAKEEERYLEQFF--NGDKEARNVLIERNLRLVAHIAKKYENNKDMQEDLISIGTIG 82 Query: 86 LMQAVKKFDPERGFRLATYSMWWI 109 L++AV + +LATY+ I Sbjct: 83 LIKAVDSYKQNHKTKLATYASRCI 106 >gi|150388236|ref|YP_001318285.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|149948098|gb|ABR46626.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 218 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 33/119 (27%), Positives = 58/119 (48%), Gaps = 9/119 (7%) Query: 16 LSRYIHEIR-KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 + + +H++ K PM E +E L ++RE + L+ +LRLV A Y+ Sbjct: 1 MEKLLHKVNFKEPMTE-EESKRLINQFRELNNEEIRKHLIERNLRLVAYEAYKYKNQ--D 57 Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-----SWSLVKIGT 128 ++ S G IGL++A+ +DP + R TY+ I+ + YI R W+ V++ Sbjct: 58 SEDIFSVGCIGLIKAIDSYDPSKQTRFDTYANRCIQNEILLYIKRLKKGSRWTFVRLDA 116 >gi|307109682|gb|EFN57919.1| hypothetical protein CHLNCDRAFT_141989 [Chlorella variabilis] Length = 509 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 27/85 (31%), Positives = 43/85 (50%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD AA L ++ LV +A + G GL ++V+EG + L +A F P+R R T+ Sbjct: 65 GDHRAAAMLAHANRPLVTWLAAKFAGRGLAKEDLVAEGMLALERAAGSFHPDREARFGTF 124 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTT 129 + I A+ I R +++I T Sbjct: 125 AAAAISNALSRAIRRQSRVIRIPET 149 >gi|206968111|ref|ZP_03229067.1| RNA polymerase sigma-B factor [Bacillus cereus AH1134] gi|206737031|gb|EDZ54178.1| RNA polymerase sigma-B factor [Bacillus cereus AH1134] Length = 257 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 109/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIADFQQNQCDEAQERLVNHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 115 GGKIKLAIEELTDRFQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI 214 >gi|187778269|ref|ZP_02994742.1| hypothetical protein CLOSPO_01861 [Clostridium sporogenes ATCC 15579] gi|187771894|gb|EDU35696.1| hypothetical protein CLOSPO_01861 [Clostridium sporogenes ATCC 15579] Length = 251 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 57/250 (22%), Positives = 114/250 (45%), Gaps = 36/250 (14%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A +LV +L LV I+ + G ++ G IGL++A+ F+ + + +TY Sbjct: 26 GNKQALDKLVEVNLPLVSAISKKFLNRGYEYDDIFQIGCIGLVKAINNFETKYNVKFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTT--ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ + LR ++K+ + K+L ++ +L Sbjct: 86 AVPMIMGEIKRF-LRDDGIIKVSRSIKTAAKKLHYDKEKL-------------------- 124 Query: 163 AKKLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--- 218 K+LN + E +S DE L A +SS S Q+ +++ DG +LI+K Sbjct: 125 CKELNREPTIEELSQFSGYTVDEILMATESSS---SPQYLYDVIHQDDGAPVLLIDKISE 181 Query: 219 ---EERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 E+ K N+ L ++ L+ + R+I R ++ T ++ + +S+ +V +IE Sbjct: 182 NTEEDNKIIDNIALKEALKNLDIKSRQIIILRYFKDK--TQIEVAKQLGISQVQVSRIEK 239 Query: 275 RAFKKVQESI 284 + K ++E + Sbjct: 240 KVLKLMKEKL 249 >gi|218232670|ref|YP_002365766.1| RNA polymerase sigma factor SigB [Bacillus cereus B4264] gi|218160627|gb|ACK60619.1| RNA polymerase sigma-B factor [Bacillus cereus B4264] Length = 257 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 109/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTNLTKEDVIKLIADFQQNQCDEAQERLVNHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 115 GGKIKLAIEELTDRFQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 214 >gi|217967265|ref|YP_002352771.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dictyoglomus turgidum DSM 6724] gi|217336364|gb|ACK42157.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dictyoglomus turgidum DSM 6724] Length = 235 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 27/130 (20%), Positives = 64/130 (49%), Gaps = 6/130 (4%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +Y+E GD L+ L+ A + YG P+ +++ G +G ++A++ +DP++G Sbjct: 11 KYKETGDKKFLEELLNVFDDLIHYWASKFTSYGEPLEDLIQIGYLGFLKAIENYDPKKG- 69 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 L+TY ++ ++ ++ +KI + ++ N ++ ++ + + + Sbjct: 70 ELSTYISHYVLGEIRHHLRDKIDKIKIPRSV---KILIN--KMDNFIKEVWEKENRSPSC 124 Query: 160 VAIAKKLNVS 169 IAK LN++ Sbjct: 125 EEIAKHLNIT 134 >gi|168179581|ref|ZP_02614245.1| RNA polymerase sigma-F factor [Clostridium botulinum NCTC 2916] gi|168181777|ref|ZP_02616441.1| RNA polymerase sigma-F factor [Clostridium botulinum Bf] gi|170761116|ref|YP_001788407.1| sporulation sigma factor SigF [Clostridium botulinum A3 str. Loch Maree] gi|237796543|ref|YP_002864095.1| sporulation sigma factor SigF [Clostridium botulinum Ba4 str. 657] gi|169408105|gb|ACA56516.1| RNA polymerase sigma-F factor [Clostridium botulinum A3 str. Loch Maree] gi|182669805|gb|EDT81781.1| RNA polymerase sigma-F factor [Clostridium botulinum NCTC 2916] gi|182675139|gb|EDT87100.1| RNA polymerase sigma-F factor [Clostridium botulinum Bf] gi|229260985|gb|ACQ52018.1| RNA polymerase sigma-F factor [Clostridium botulinum Ba4 str. 657] Length = 251 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 57/250 (22%), Positives = 114/250 (45%), Gaps = 36/250 (14%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A +LV +L LV I+ + G ++ G IGL++A+ F+ + + +TY Sbjct: 26 GNKEALDKLVEVNLPLVSAISKKFLNRGYEYDDIFQIGCIGLVKAINNFETKYNVKFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTT--ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ + LR ++K+ + K+L ++ +L Sbjct: 86 AVPMIMGEIKRF-LRDDGIIKVSRSIKTAAKKLHYDKEKL-------------------- 124 Query: 163 AKKLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--- 218 K+LN + E +S DE L A +SS S Q+ +++ DG +LI+K Sbjct: 125 CKELNREPTIEELSQFSGYTVDEILMATESSS---SPQYLYDVIHQDDGAPVLLIDKISE 181 Query: 219 ---EERKNRRNM-LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 E+ K N+ L ++ L+ + R+I R ++ T ++ + +S+ +V +IE Sbjct: 182 NTEEDNKIIDNIALKEALKNLDIKSRQIIILRYFKDK--TQIEVAKQLGISQVQVSRIEK 239 Query: 275 RAFKKVQESI 284 + K ++E + Sbjct: 240 KVLKLMKEKL 249 >gi|332981462|ref|YP_004462903.1| RNA polymerase sigma-28 subunit FliA/WhiG [Mahella australiensis 50-1 BON] gi|332699140|gb|AEE96081.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Mahella australiensis 50-1 BON] Length = 247 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 48/219 (21%), Positives = 102/219 (46%), Gaps = 29/219 (13%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G + +++ G GL+ A++++DP R + TY+ I+ A+ + LR ++ Sbjct: 48 GDDLDDLIGYGVFGLLDAIERYDPSRDVKFETYASHRIRGAIIDN-LRKKDVIPRSVRDK 106 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQV---VAIA-KKLNVSESEVISMNCRLAGDESLN 187 K +L + L+A +D + E V + I+ ++L+ +++ NC ++ DE Sbjct: 107 VK----HLDAVYKQLEATSDKPVSDEDVCRYLGISIEQLDALYADINRFNC-ISLDEIFV 161 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 N D SS+ VYD R + +L+ ++S L+ RE+++ + Sbjct: 162 DEWNIGDTESSES----VYD-------------RIELKQVLSEAVSKLSDREKQLLQLYY 204 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + +TL+ + +S RV Q+ +A +++ ++K Sbjct: 205 Y--DGLTLKEIGKVLGISESRVSQLHTKALLQLRSRLRK 241 >gi|317127083|ref|YP_004093365.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Bacillus cellulosilyticus DSM 2522] gi|315472031|gb|ADU28634.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Bacillus cellulosilyticus DSM 2522] Length = 262 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 57/256 (22%), Positives = 119/256 (46%), Gaps = 34/256 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+ G+ +LV LV +A + +++ G IGL+ A+++FDP G Sbjct: 23 YQSTGNKEIQTKLVLEFESLVHALARKFSRGQRHDEDLIQVGMIGLLAAIRRFDPTIGKS 82 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++++ I ++ +I ++WS+ +R+ ++K + +T + +V Sbjct: 83 FESFAVPTIIGEIKRFIRDKTWSV------HVPRRIKEMGPKVKNAVDTLTTQLQRSPKV 136 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNAL-----INSSDKNSSQWQDWLVYDHDGQEQV 214 IA ++ SE EV+ + +S AL I + D+ S+ LV +G Sbjct: 137 EEIAAHIDASEEEVLET---MEMGKSYQALSVDRSIEADDEGSAVTLLDLVGSTEG---- 189 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS-----EFEVSRERV 269 E+ +++ +L ++ +VL+ RE++I + ENLS + +S+ V Sbjct: 190 ---GYEKTDQQMLLEKAFTVLSDREKQIL-------HLTYFENLSQKDTGEKLGISQMHV 239 Query: 270 RQIEARAFKKVQESIQ 285 +++ RA +K++ES++ Sbjct: 240 SRLQRRALQKLRESLK 255 >gi|223700510|gb|ACN20374.1| truncated RNA polymerase sigma factor SigB [Listeria monocytogenes] Length = 188 Score = 44.7 bits (104), Expect = 0.018, Method: Compositional matrix adjust. Identities = 36/145 (24%), Positives = 71/145 (48%), Gaps = 7/145 (4%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++ Y+ Y+E+GD A + LV + LV IA Y ++V GNIGL+ A+ Sbjct: 12 KEKVYIWIAAYQENGDQDAQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAI 71 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +++D G +++ I ++ ++ ++WS+ +R+ ++K ++ + Sbjct: 72 RRYDATFGKSFEAFAVPTIVGEIKRFLRDKTWSV------HVPRRIKELGPKIKNAVEEL 125 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVI 174 T Q+ IA + V+E EV+ Sbjct: 126 TRELQSSPQISDIADFIGVTEEEVL 150 >gi|210621718|ref|ZP_03292767.1| hypothetical protein CLOHIR_00712 [Clostridium hiranonis DSM 13275] gi|210154600|gb|EEA85606.1| hypothetical protein CLOHIR_00712 [Clostridium hiranonis DSM 13275] Length = 252 Score = 44.7 bits (104), Expect = 0.019, Method: Compositional matrix adjust. Identities = 23/84 (27%), Positives = 48/84 (57%), Gaps = 1/84 (1%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GDL + ++L+ ++ LV K + L ++ G IGL++A+++FDP G + Sbjct: 27 QKGDLKSKNKLIKLNIGLVKKAVSKFSFSSLDNDDLYQLGCIGLVKAIERFDPNLGNMFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKI 126 +Y++ I+ ++ + LR ++KI Sbjct: 87 SYAVPLIEGEIKRF-LRDDGIIKI 109 >gi|28211847|ref|NP_782791.1| sporulation sigma factor SigF [Clostridium tetani E88] gi|28204289|gb|AAO36728.1| RNA polymerase sigma-F factor [Clostridium tetani E88] Length = 255 Score = 44.7 bits (104), Expect = 0.019, Method: Compositional matrix adjust. Identities = 58/250 (23%), Positives = 113/250 (45%), Gaps = 32/250 (12%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A +LV +L LV I+ + G ++ G +GL++A+ FD + + Sbjct: 27 KNGDKKATDKLVELNLPLVSAISKKFLNRGYDYEDIYQIGCMGLVKAINNFDSSYNVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ +I R ++K+ + L R+L H + + Sbjct: 87 TYAVPMIMGEIKRFI-RDDGIIKV-----SRSLKIMARKLYYHRE-------------TL 127 Query: 163 AKKLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--- 218 KKL S E +S L +E + A+ +SS+ Q+ +++ DG +LI+K Sbjct: 128 CKKLGREPSIEELSEYTGLEIEEIVYAMESSSN---LQYLHDVIHQDDGAPIMLIDKISE 184 Query: 219 --EERKNRRNMLT--RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 E + N L ++ L+ + R+I R ++ T ++ +S+ +V +IE Sbjct: 185 NYSEDSDIINKLALKEALGKLDAKSRQIIMLRYFKDK--TQIEVAKMLGISQVQVSRIEK 242 Query: 275 RAFKKVQESI 284 R K ++E + Sbjct: 243 RVLKTMKEKL 252 >gi|126659593|ref|ZP_01730724.1| sigma factor SigF [Cyanothece sp. CCY0110] gi|126619136|gb|EAZ89874.1| sigma factor SigF [Cyanothece sp. CCY0110] Length = 245 Score = 44.7 bits (104), Expect = 0.019, Method: Compositional matrix adjust. Identities = 24/87 (27%), Positives = 50/87 (57%), Gaps = 1/87 (1%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 Y + L +RLV +L LV ++A R P ++ G +GL++A+++FDP++G Sbjct: 7 YARNPSLELRNRLVERNLGLVRQVAHRISRQCSEPYEDLEQIGYLGLIRAIERFDPQQGC 66 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 +++++ +I+ M Y+ S+++I Sbjct: 67 AFSSFAIPYIRGEMLHYLRDKGSVMRI 93 >gi|297200169|ref|ZP_06917566.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] gi|197713380|gb|EDY57414.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] Length = 304 Score = 44.3 bits (103), Expect = 0.020, Method: Compositional matrix adjust. Identities = 44/167 (26%), Positives = 77/167 (46%), Gaps = 14/167 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 83 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIVGE 142 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A +L +S+ Sbjct: 143 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQKLD---RAPTVAELADRLGLSKE 196 Query: 172 EVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 EV+ + N A SL+A D + D + Y+ G E + Sbjct: 197 EVVEGMAASNAYTAA--SLDAQPEEDDSEGA-LADRIGYEDHGLEGI 240 >gi|94495423|ref|ZP_01302003.1| flagellar-specific RNA polymerase sigma factor [Sphingomonas sp. SKA58] gi|94424811|gb|EAT09832.1| flagellar-specific RNA polymerase sigma factor [Sphingomonas sp. SKA58] Length = 243 Score = 44.3 bits (103), Expect = 0.020, Method: Compositional matrix adjust. Identities = 59/258 (22%), Positives = 106/258 (41%), Gaps = 36/258 (13%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKK 92 V A Y + G+ S RL ++ LV KIA G + + +++ G + L++A Sbjct: 8 VGAHTYGKPGEHSP-ERLARQYMPLVRKIAWHVHGRVSTAIEVEDLLQIGMVALVEAANS 66 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK------RLFFNLRRLKGHL 146 F+ +RG A Y+ ++ AM +++ R +L + ++ RL L RL Sbjct: 67 FE-DRGLGFAAYAQLRVRGAMIDHLRRQATLCRSAMARRKEIAGVRNRLEQQLGRLPTEA 125 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 + ++ L+P R A D S D+ S W Sbjct: 126 EMSSEMGLEPAAY-------------------REAADSVEMVQHTSMDEVYSDQSMWFAD 166 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 D +QVL ER++ + + +S L RE + + ++E + LE + ++ Sbjct: 167 VEDRADQVL----ERESLKKAMAACISELPQREAMVLQLYFVEE--MNLEEIGQTLDIGA 220 Query: 267 ERVRQIEARAFKKVQESI 284 RV QI+ A K++E + Sbjct: 221 ARVCQIKKAALDKLREKL 238 >gi|115394497|gb|ABI97158.1| RNA polymerase sigma factor [Fusobacterium necrophorum] Length = 185 Score = 44.3 bits (103), Expect = 0.020, Method: Compositional matrix adjust. Identities = 48/188 (25%), Positives = 88/188 (46%), Gaps = 26/188 (13%) Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG----HLQAITDNNLKPEQ 158 TY+ WWI+ A+ I ++I + + ++K +LQ T + PE Sbjct: 1 TYAPWWIRQAITRAIADQGRTIRIPV-----HMIETINKIKKEARIYLQE-TGKDATPE- 53 Query: 159 VVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 +A++L + +V S+ SL + S + S+ D++ ++Q ++ Sbjct: 54 --ILAERLGMEVEKVKSIQEMNQDPISLETPVGSEE--DSELGDFV------EDQKMLTP 103 Query: 219 EERKNR---RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIE 273 E NR R L + L+ RE ++ R ++ P TLE + F+V+RER+RQIE Sbjct: 104 YELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDDGSPKTLEEVGKIFKVTRERIRQIE 163 Query: 274 ARAFKKVQ 281 +A +K++ Sbjct: 164 VKALRKLR 171 >gi|297202660|ref|ZP_06920057.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] gi|197713235|gb|EDY57269.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] Length = 280 Score = 44.3 bits (103), Expect = 0.021, Method: Compositional matrix adjust. Identities = 61/245 (24%), Positives = 109/245 (44%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 36 RSYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFNLR-RLKGHLQAITD 151 +R + TY++ I+ AM E W + A N +R + L RL+ + T+ Sbjct: 95 LDREIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYATLEARLR---RTPTE 151 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 + E +A+ L+ S+ +S+ +A +E L+ + + + D L D Sbjct: 152 GEVAGELGIAV-DDLHAVFSQ-LSLANVVALEELLH--VGGEGGDGLSFMDTL---EDPA 204 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 205 ADNPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQ 262 Query: 272 IEARA 276 I ++ Sbjct: 263 IHTKS 267 >gi|68164561|gb|AAY87290.1| predicted flagellar-specific RNA polymerase sigma factor FliA [uncultured bacterium BAC17H8] Length = 240 Score = 44.3 bits (103), Expect = 0.021, Method: Compositional matrix adjust. Identities = 55/230 (23%), Positives = 106/230 (46%), Gaps = 26/230 (11%) Query: 53 LVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+TSH+ LV +IA G + I +++ G GL+ A + + G A+Y+ I Sbjct: 15 LITSHMELVRQIAWHMHGRLHSSIEIEDLIQIGYFGLVTAAQNYTLREGATFASYAGIRI 74 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLNV 168 + A+ +++ +S +L + T QK+ R L+ N L E A +A+ + + Sbjct: 75 RGAIVDHLRKSSNLCRT-TIEMQKKANVAGRELR--------NRLGREPTSAEMAEHMCI 125 Query: 169 SESEVISMNCRLAGDESLNALINSS-DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 SE E+ + + + A ++ S D ++ W + E+ + E+E RN+ Sbjct: 126 SEDEMHNW------EHAFQANVHQSLDSVYDEFSIWFESPENTPEENINEEE----LRNL 175 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 L ++ L RE + + ++E + + ++ EV+ RV QI+ A Sbjct: 176 LKEALRTLPEREALVIQLYYVEE--LNVYEIAEVLEVTTGRVSQIKKSAI 223 >gi|298492777|ref|YP_003722954.1| FliA/WhiG subfamily RNA polymerase sigma 28 subunit ['Nostoc azollae' 0708] gi|298234695|gb|ADI65831.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily ['Nostoc azollae' 0708] Length = 263 Score = 44.3 bits (103), Expect = 0.021, Method: Compositional matrix adjust. Identities = 44/205 (21%), Positives = 103/205 (50%), Gaps = 10/205 (4%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 Y ++ + ++LV H LV K+A + P ++ G +GL++A+++F+P + + Sbjct: 19 YHQNPSIKLRNQLVEVHKGLVRKMAYKFIHQCNEPYEDLEQIGYLGLIRAIERFNPHQRY 78 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++++ +I+ M ++ +L+KI + L+ ++++ + T + +P + Sbjct: 79 AFSSFAIPYIRGEMLHFLRDHSTLLKI--PRRWQELYNAGQKIR---KQFTLSLGRPPRE 133 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 + IA KLN+S E C+LA + ++++ N +Q L L++++ Sbjct: 134 IDIATKLNISLQE--WQECKLAVQNRIPLSLDATTANYVDYQITLGDILPCLRTALLQQQ 191 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFE 244 E + R L ++S+L+ + R + E Sbjct: 192 EEE--RLQLQGAISMLDDKRRIVVE 214 >gi|210608669|ref|ZP_03287946.1| hypothetical protein CLONEX_00125 [Clostridium nexile DSM 1787] gi|210152926|gb|EEA83932.1| hypothetical protein CLONEX_00125 [Clostridium nexile DSM 1787] Length = 259 Score = 44.3 bits (103), Expect = 0.021, Method: Compositional matrix adjust. Identities = 51/259 (19%), Positives = 122/259 (47%), Gaps = 27/259 (10%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L+++E+ L + + GD A + + +LRLV+ + + ++ G I Sbjct: 15 KLPLLKEEEKNALFAKIK-AGDEGAKEQYIKGNLRLVLSVIKRFTNSNENPDDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 GL++A+ F+ E + +TY++ I ++ Y +R + +++ + + + + +G Sbjct: 74 GLIKAINNFNTELDVKFSTYAVPMIIGEIRRY-MRDNNSIRVSRSL-RDTAYKAIYAKEG 131 Query: 145 HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 +++ NL+ + I++++ +++ +++ + SLN + + ++ D Sbjct: 132 YMK----RNLREPTLQEISEEIGIAKEDIVFAMDAIQAPMSLNEPVYNDGGDALYVMDQ- 186 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER-----RIFEARRLQENPVTLENLS 259 + D +E+ IE+ L +M L RE+ R FE R E ++ Sbjct: 187 ISDKKNKEENWIEEL-------ALQAAMEHLGEREKYIIRLRFFEGRTQME-------VA 232 Query: 260 SEFEVSRERVRQIEARAFK 278 + ++S+ +V ++E A K Sbjct: 233 EDIDISQAQVSRLEKHALK 251 >gi|239928675|ref|ZP_04685628.1| RNA polymerase sigma factor WhiG [Streptomyces ghanaensis ATCC 14672] gi|291436999|ref|ZP_06576389.1| RNA polymerase sigma factor WhiG [Streptomyces ghanaensis ATCC 14672] gi|291339894|gb|EFE66850.1| RNA polymerase sigma factor WhiG [Streptomyces ghanaensis ATCC 14672] Length = 280 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 62/245 (25%), Positives = 101/245 (41%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 36 RSYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPSNVEQADFVSSGIFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 95 VDREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEARL-RR 147 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA + V E + LA +L L++ + + D L D Sbjct: 148 TPSESEVAGELGIAVEELHAVFSQLSLANVVALEELLHVGGEGGDRLSLMDTL---EDTA 204 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 205 ADNPVEVAEDRELRRFLVRAINTLPEREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQ 262 Query: 272 IEARA 276 I ++ Sbjct: 263 IHTKS 267 >gi|126348115|emb|CAJ89836.1| putative RNA polymerase sigma factor [Streptomyces ambofaciens ATCC 23877] Length = 295 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 48/206 (23%), Positives = 96/206 (46%), Gaps = 17/206 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++ LV A +RG G + +VV G IGL++A+ +F+ R ++++ + Sbjct: 64 ARNTLIEMNMSLVRFAAGRFRGRGDDMDDVVQTGMIGLIKAIDRFELSREVEFTSFALPY 123 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I ++ + + V + + R+ L + + L + D + V +A +N+ Sbjct: 124 IVGEIKRFFRDTTWAVHVPRRLQELRV--ELAKAREELSSRLD---REPTVAELATLMNI 178 Query: 169 SESEVISMNCRLAG--DESLNALI--NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 SE+EV+ G SL+A + + + S D++ + DG L+E Sbjct: 179 SENEVVEGQIASNGYNSSSLDAALTGDGPEGGESVLADFIGVEEDGLR--LVED------ 230 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQE 250 + L M+ L+ R+R+I R ++E Sbjct: 231 FHSLAPLMAELSERDRQIIHMRFVEE 256 >gi|326775053|ref|ZP_08234318.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|326655386|gb|EGE40232.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 300 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 59/242 (24%), Positives = 108/242 (44%), Gaps = 22/242 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISE-VVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A + L+ +L LV A +R G +E ++ G IGL++A+ +FD R AT+++ Sbjct: 71 ARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREVEFATFAVP 130 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 +I ++ + +WS + + L +L + K L D + V +A L Sbjct: 131 YIVGEIKRFFRDTTWS---VHVPRRLQELRVDLAKAKEQLSGELDRD---PTVKELAAHL 184 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ----DWLVYDHDGQEQVLIEKEERK 222 ++ E E+I G + + S+D +S Q Q D L G E V Sbjct: 185 DLPEEEIIEGLVAANGYSAGSLDTPSADSDSGQEQRAYADVLGEADPGMETV-------- 236 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L + L+ RERRI + R E +T + +E VS+ V ++ +R +++++ Sbjct: 237 ENLHTLAPLLDQLDERERRIVQMRFGAE--MTQSQIGAELGVSQMHVSRLLSRIVQQLRK 294 Query: 283 SI 284 + Sbjct: 295 GM 296 >gi|182434526|ref|YP_001822245.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|178463042|dbj|BAG17562.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] Length = 300 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 59/242 (24%), Positives = 108/242 (44%), Gaps = 22/242 (9%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISE-VVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A + L+ +L LV A +R G +E ++ G IGL++A+ +FD R AT+++ Sbjct: 71 ARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREVEFATFAVP 130 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 +I ++ + +WS + + L +L + K L D + V +A L Sbjct: 131 YIVGEIKRFFRDTTWS---VHVPRRLQELRVDLAKAKEQLSGELDRD---PTVKELAAHL 184 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ----DWLVYDHDGQEQVLIEKEERK 222 ++ E E+I G + + S+D +S Q Q D L G E V Sbjct: 185 DLPEEEIIEGLVAANGYSAGSLDTPSADSDSGQEQRAYADVLGEADPGMETV-------- 236 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L + L+ RERRI + R E +T + +E VS+ V ++ +R +++++ Sbjct: 237 ENLHTLAPLLDQLDERERRIVQMRFGAE--MTQSQIGAELGVSQMHVSRLLSRIVQQLRK 294 Query: 283 SI 284 + Sbjct: 295 GM 296 >gi|124516296|gb|EAY57804.1| putative RNA polymerase sigma 28 subunit, FliA/WhiG [Leptospirillum rubarum] Length = 251 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 49/215 (22%), Positives = 102/215 (47%), Gaps = 17/215 (7%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTAN 131 L + +++S G GL+ A ++FDP RG + T + I+ AM + I W + + Sbjct: 32 LDVDDLISAGMGGLLDAARRFDPSRGIKFKTLAEHRIRGAMLDEIRAADW----MPRSVR 87 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--ISMNCRLAGDESLNAL 189 +K +++++K L I +P + IA +++++E E +S++ SL L Sbjct: 88 EK--LTHVQQVKTEL--IARYKREPTR-QEIAARMDMTEEEFDRLSVDIEPHHLVSLEDL 142 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 ++ D +S D L +G + + E + L +++ L ++R + + Sbjct: 143 MDPEDGDSPSLLDRLSAPQEGDPLASLLQSEVSEK---LCQALDRLPEKQRLVLSLYYYE 199 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E +T++ ++ VS RV QI +A +++S+ Sbjct: 200 E--LTMKEVARVVGVSESRVSQIHGQALAALKQSL 232 >gi|30019159|ref|NP_830790.1| RNA polymerase sigma factor SigB [Bacillus cereus ATCC 14579] gi|29894702|gb|AAP07991.1| RNA polymerase sigma-B factor [Bacillus cereus ATCC 14579] Length = 258 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 55/231 (23%), Positives = 110/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 3 EIQSQPTNLTKEDVIKLIADFQQNQCDEAQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQ 62 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 63 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 115 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ NS Sbjct: 116 GGKIKLAIEELTDHLQRSPRIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENS 172 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 173 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 215 >gi|325263641|ref|ZP_08130375.1| RNA polymerase sigma-F factor [Clostridium sp. D5] gi|324031350|gb|EGB92631.1| RNA polymerase sigma-F factor [Clostridium sp. D5] Length = 238 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 45/189 (23%), Positives = 90/189 (47%), Gaps = 17/189 (8%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +LV ++ LV + + G G ++ G+IGL++A+ KFD + +TY Sbjct: 14 GDKKAREQLVEENVGLVWCVVKRFYGRGTEAEDLFQIGSIGLLKAIDKFDLSYEVKFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ + LR ++K+ + + K L + + + + +A+T + + + +A Sbjct: 74 AVPMISGEIKRF-LRDDGMIKV--SRSLKELSYKIFQTR---EALTGSLGREPTLEELAN 127 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD---------WLVYDHDGQEQVL 215 +NV + E++ ESL I+ + N + D + DH Q+L Sbjct: 128 TMNVDKEEIVQAMEAGGEVESLYKPIHQKEGNEIRLVDKLEEKERKEEKILDHMLLAQLL 187 Query: 216 --IEKEERK 222 ++KEER+ Sbjct: 188 ESLDKEERQ 196 >gi|325567514|ref|ZP_08144181.1| DNA-directed RNA polymerase sigma subunit FliA [Enterococcus casseliflavus ATCC 12755] gi|325158947|gb|EGC71093.1| DNA-directed RNA polymerase sigma subunit FliA [Enterococcus casseliflavus ATCC 12755] Length = 235 Score = 44.3 bits (103), Expect = 0.022, Method: Compositional matrix adjust. Identities = 51/211 (24%), Positives = 95/211 (45%), Gaps = 20/211 (9%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA-NQKRLFFNLR 140 G IGLM A++KFDP + +Y+ IK A+ + + + + + A NQ F+ R Sbjct: 40 GVIGLMDALRKFDPSKKVPFESYAAIRIKGAIIDEVRKHAKISRYKMAAVNQ---FYQAR 96 Query: 141 RLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDKNS 197 + + +LK E I K+L +++S++ I + SL + + + Sbjct: 97 QE-------LEQSLKREATDTEICKQLGINQSQLADIYESLHYLASVSLEDTLFAYQEEG 149 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 +D + + E L+ +E +R L + L RE+ I +E +TL+ Sbjct: 150 MTLKDMVRDPAENVEDTLVAEE----KRTALVACIKKLGEREQLILSLYYTEE--LTLKE 203 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++ EVS RV QI + K++ I +++ Sbjct: 204 IAEILEVSIPRVSQIHGKTIAKLRTLIGEEL 234 >gi|15604780|ref|NP_219564.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis D/UW-3/CX] gi|76788774|ref|YP_327860.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis A/HAR-13] gi|237802495|ref|YP_002887689.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis B/Jali20/OT] gi|237804410|ref|YP_002888564.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis B/TZ1A828/OT] gi|255310863|ref|ZP_05353433.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis 6276] gi|255317163|ref|ZP_05358409.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis 6276s] gi|255348424|ref|ZP_05380431.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis 70] gi|255502966|ref|ZP_05381356.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis 70s] gi|255506635|ref|ZP_05382274.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis D(s)2923] gi|3328455|gb|AAC67652.1| Sigma-28/WhiG Family [Chlamydia trachomatis D/UW-3/CX] gi|76167304|gb|AAX50312.1| FliA [Chlamydia trachomatis A/HAR-13] gi|231272710|emb|CAX09614.1| RNA polymerase sigma factor [Chlamydia trachomatis B/TZ1A828/OT] gi|231273729|emb|CAX10508.1| RNA polymerase sigma factor [Chlamydia trachomatis B/Jali20/OT] gi|289525106|emb|CBJ14577.1| RNA polymerase sigma factor [Chlamydia trachomatis Sweden2] gi|296434648|gb|ADH16826.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis E/150] gi|296435578|gb|ADH17752.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis G/9768] gi|296436502|gb|ADH18672.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis G/11222] gi|296437438|gb|ADH19599.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis G/11074] gi|296438365|gb|ADH20518.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis E/11023] gi|297139937|gb|ADH96695.1| RNA polymerase sigma factor sigma-28 [Chlamydia trachomatis G/9301] gi|297748191|gb|ADI50737.1| FliA [Chlamydia trachomatis D-EC] gi|297749071|gb|ADI51749.1| FliA [Chlamydia trachomatis D-LC] Length = 253 Score = 44.3 bits (103), Expect = 0.023, Method: Compositional matrix adjust. Identities = 66/251 (26%), Positives = 118/251 (47%), Gaps = 39/251 (15%) Query: 51 HR--LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 HR L+ S+L LV +A G+P + ++ + G GL++AV++FDPE+ R +Y Sbjct: 21 HRDVLIESYLPLVKNVAHRLAS-GMPSHVKMEDLYALGVEGLIRAVERFDPEKSKRFESY 79 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIA 163 +++ IKAA+ + LR V RL + L+ L + TD L Sbjct: 80 ALFIIKAAIIDG-LRKQDWVPRSVYQRANRLADAMDSLRQTLGKEPTDGEL--------C 130 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEE 220 + LN+S+ E+ S AL+ S + S QD D +G +E++ E+ E Sbjct: 131 EYLNISQQELSHWFS-----SSRPALVLSLHDDFS-CQD----DDEGLALEERIADERAE 180 Query: 221 -------RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 +K ++LT ++ L+ +ER++ + + L+ + VS RV QI Sbjct: 181 TGYDVIRKKEAISILTEALLALDEKERQVMALYYYDD--LVLKEIGKILGVSESRVSQIH 238 Query: 274 ARAFKKVQESI 284 ++A K++ ++ Sbjct: 239 SKALLKLRGTL 249 >gi|154816043|emb|CAO85715.1| putative RNA polymerase sigma factor rpoD [Clostridium sp.] Length = 75 Score = 44.3 bits (103), Expect = 0.023, Method: Compositional matrix adjust. Identities = 27/62 (43%), Positives = 39/62 (62%), Gaps = 9/62 (14%) Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPV------TLENLSSEFEVSRERVRQIEARAFKK 279 + L+ +S L+PRE RI RL+ V TLE + EF ++RER+RQIEARA +K Sbjct: 4 DTLSNVLSTLSPREERIV---RLRYGLVGDGESRTLEEIGREFNLTRERIRQIEARAIRK 60 Query: 280 VQ 281 ++ Sbjct: 61 LR 62 >gi|170078529|ref|YP_001735167.1| RNA polymerase sigma factor SigF [Synechococcus sp. PCC 7002] gi|5359699|gb|AAD42767.1|AF121848_2 SigF [Synechococcus sp. PCC 7002] gi|169886198|gb|ACA99911.1| SigF [Synechococcus sp. PCC 7002] Length = 259 Score = 44.3 bits (103), Expect = 0.023, Method: Compositional matrix adjust. Identities = 37/144 (25%), Positives = 75/144 (52%), Gaps = 10/144 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDP 95 L + YR+ D+ +++V+ ++ LV K A + R +++ G++GL++A+++F Sbjct: 19 LLQEYRQSQDVKIRNQIVSLNIGLVRKEAHHWSRQCSENFDDLMQVGSLGLLRAIERFTL 78 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAI--TDNN 153 ERG ++++ +I+ +Q Y+ S V+I R LR+ ++N Sbjct: 79 ERGNAFSSFANPYIRGEIQHYLRDKSSTVRI------PRRMLQLRQQSNRFIHTFRQEHN 132 Query: 154 LKPEQVVAIAKKLNVSESEVISMN 177 +P + IA+ LN+S +E S+N Sbjct: 133 RQPS-AIEIAEHLNISVTEWQSIN 155 >gi|86146119|ref|ZP_01064445.1| flagellar biosynthesis sigma factor FliA [Vibrio sp. MED222] gi|218708840|ref|YP_002416461.1| flagellar biosynthesis sigma factor [Vibrio splendidus LGP32] gi|85836066|gb|EAQ54198.1| flagellar biosynthesis sigma factor FliA [Vibrio sp. MED222] gi|218321859|emb|CAV17839.1| RNA polymerase sigma factor for flagellar operon [Vibrio splendidus LGP32] Length = 244 Score = 44.3 bits (103), Expect = 0.023, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 106/252 (42%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +H + ++ + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 ALTYDQHANHNSQQAFFEKYSVLVKRIAHHLLGRLPPNVLVDDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V N + + + L+G L N Sbjct: 64 GTKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKNNREISSAIAELEGTL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK + +S S + +NC +L G E L SD D + + Sbjct: 116 RDPSD-AEVAKHMGLSLDQYHSALTDINCSKLVGIEDLGV----SD-------DVISPNE 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D Q+ + ++ R L S+ L RE + +E + L+ + VS R Sbjct: 164 DSQDNTPFQGVADESFRQALIDSIKQLPEREGLVLSLYYDEE--LNLKEIGEVLGVSESR 221 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 222 VSQILSQSMQRL 233 >gi|146296307|ref|YP_001180078.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409883|gb|ABP66887.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 245 Score = 44.3 bits (103), Expect = 0.023, Method: Compositional matrix adjust. Identities = 55/260 (21%), Positives = 117/260 (45%), Gaps = 21/260 (8%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQA 89 +E L ++Y + D +L ++ LV IA Y G + ++VS G++GL+ A Sbjct: 2 DEAFLWEKYSKTKDPKIKEQLTLRYMPLVKLIAGRMAMYFGGNVEYDDLVSYGSLGLLDA 61 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTANQKRLFFNLRRLKGHLQA 148 ++K+D ++G + TY+ I+ A+ + + + W I A + K +++ Sbjct: 62 IEKYDSQKGVKFETYAYTRIRGAIIDCVRSQDWVPRSIRQKAKEVE--------KAYIEI 113 Query: 149 ITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + ++ VA L +SE + + SL + + + + + + D Sbjct: 114 EKEGKIPTDEEVAKRTGLTLSEFQKLKEKISSGMILSLEGFL----EQNYEIKIGGLEDF 169 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +V IE EE K +L + + L+ E+ + +E ++++ ++ VS R Sbjct: 170 VSHPEVFIENEELK---EVLRQEIENLSENEKMVILLYYFEE--LSIKEIAKILGVSESR 224 Query: 269 VRQIEARAFKKVQESIQKQV 288 V Q+ RA K++ ++K + Sbjct: 225 VSQLHTRALLKLRAKLEKHL 244 >gi|302387774|ref|YP_003823596.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] gi|302198402|gb|ADL05973.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] Length = 258 Score = 44.3 bits (103), Expect = 0.023, Method: Compositional matrix adjust. Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 3/71 (4%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV---VSEGNIGLMQAVKKF 93 L +Y+ D+ H LV ++ +V I++ R L ++V V+EG + +M ++KF Sbjct: 13 LLIKYKRTKDIHIKHELVMRYMYMVRSISIQMRDVYLSFAQVEDIVNEGVLTIMSGIEKF 72 Query: 94 DPERGFRLATY 104 DPE + TY Sbjct: 73 DPEMNVKFETY 83 >gi|226359630|ref|YP_002777408.1| RNA polymerase sigma factor [Rhodococcus opacus B4] gi|226238115|dbj|BAH48463.1| RNA polymerase sigma factor [Rhodococcus opacus B4] Length = 265 Score = 44.3 bits (103), Expect = 0.024, Method: Compositional matrix adjust. Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T L L IA + G G +++ +GL++AV +FDP+RGF +Y++ I Sbjct: 45 IITRCLPLADHIARRFGGRGEAHEDLLQVARLGLVKAVDRFDPDRGFDFVSYAVPTIMGE 104 Query: 113 MQEYILRS-WSL 123 ++ Y + WS+ Sbjct: 105 VRRYFRDTGWSM 116 >gi|332653851|ref|ZP_08419595.1| RNA polymerase sigma-E factor [Ruminococcaceae bacterium D16] gi|332516937|gb|EGJ46542.1| RNA polymerase sigma-E factor [Ruminococcaceae bacterium D16] Length = 231 Score = 44.3 bits (103), Expect = 0.024, Method: Compositional matrix adjust. Identities = 24/67 (35%), Positives = 36/67 (53%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GDL A + LV +LRLV I Y +++S G IGL++ + F ++ RLAT Sbjct: 44 QGDLEARNILVEHNLRLVAHIVKKYYAQTGDQDDLISIGTIGLIKGISTFKADKNVRLAT 103 Query: 104 YSMWWIK 110 Y+ I+ Sbjct: 104 YASRCIE 110 >gi|169334044|ref|ZP_02861237.1| hypothetical protein ANASTE_00437 [Anaerofustis stercorihominis DSM 17244] gi|169258761|gb|EDS72727.1| hypothetical protein ANASTE_00437 [Anaerofustis stercorihominis DSM 17244] Length = 253 Score = 44.3 bits (103), Expect = 0.024, Method: Compositional matrix adjust. Identities = 56/249 (22%), Positives = 114/249 (45%), Gaps = 33/249 (13%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++G+ + + +LRLV+ + + + ++ G IGL++A+ FD + G + + Sbjct: 31 KNGEEDLKNEFIRCNLRLVLSVVQRFSNRNENMDDLFQVGCIGLIKAIDNFDVKFGVKFS 90 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I ++ Y LR +++ + K + + + K +A D N + I Sbjct: 91 TYAVPMIIGEVRRY-LRDNGTIRVSRSL--KDMAYKALKYK---EAHKDTNPTNRE---I 141 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-EER 221 AKKL V E + LN ++S + S + +Y+ +G LI++ + Sbjct: 142 AKKLGVKEKD-------------LNFALDSIVEPCSLYDQ--MYNDNGDSISLIDQVGDE 186 Query: 222 KNRRNMLTRSMSV------LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 KNR T +S+ L RE+ I +R +E +++E +S+ +V ++E Sbjct: 187 KNREENWTEKLSLKEAVEKLKGREKEII-LKRYYLGRTQIE-VANEIGISQAQVSRLEKS 244 Query: 276 AFKKVQESI 284 +K++ I Sbjct: 245 GLRKIKNEI 253 >gi|329936708|ref|ZP_08286415.1| RNA polymerase sigma factor WhiG [Streptomyces griseoaurantiacus M045] gi|329303938|gb|EGG47821.1| RNA polymerase sigma factor WhiG [Streptomyces griseoaurantiacus M045] Length = 279 Score = 44.3 bits (103), Expect = 0.024, Method: Compositional matrix adjust. Identities = 56/252 (22%), Positives = 105/252 (41%), Gaps = 35/252 (13%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++K+D Sbjct: 36 RTYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKYD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTA-NQKRLFFN----LRRLKGHLQA 148 R + TY++ I+ AM E W + A N +R + LRR + Sbjct: 95 IGREIKFETYAITRIRGAMIDELRALDWIPRSVRQKARNVERAYTTLEARLRRTPTESEV 154 Query: 149 ITDNNLKPEQVVAIAKKLN----VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + ++ + + A+ +L+ V+ E++ + G ++ L ++S N Sbjct: 155 AAELGIRVDDLHAVFSQLSLANVVALEEILHIGGEGGGLSLMDTLEDTSADNP------- 207 Query: 205 VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEV 264 +E E + R L R+++ L RE+ + + +TL + + V Sbjct: 208 -----------VEVAEDRELRRFLARAINTLPEREKTVVTLYYFEG--LTLAEIGNVLGV 254 Query: 265 SRERVRQIEARA 276 + RV QI ++ Sbjct: 255 TESRVSQIHTKS 266 >gi|258621167|ref|ZP_05716201.1| flagellar biosynthesis sigma factor FliA [Vibrio mimicus VM573] gi|258626709|ref|ZP_05721533.1| flagellar biosynthesis sigma factor FliA [Vibrio mimicus VM603] gi|258581005|gb|EEW05930.1| flagellar biosynthesis sigma factor FliA [Vibrio mimicus VM603] gi|258586555|gb|EEW11270.1| flagellar biosynthesis sigma factor FliA [Vibrio mimicus VM573] Length = 244 Score = 44.3 bits (103), Expect = 0.024, Method: Compositional matrix adjust. Identities = 61/253 (24%), Positives = 111/253 (43%), Gaps = 31/253 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++G+L++ + + LV +IA G P I +++ G +GL++A K +D Sbjct: 4 ALTYDQYGNLNSQQLFLEKYSVLVKRIAHHLIGRLPPSVLIEDLIQAGMVGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREISQAIAVLEGEL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK L +S S ++ +NC R+ G E L SD S ++ Sbjct: 116 RDPTD-AEVAKFLEMSLEQYHSVLMDINCSRIVGIEDLGV----SDDAISPFE------- 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +G++ ++ R L S+ L RE + +E + L+ + VS R Sbjct: 164 EGEDNSPFHGVAEESFRKALVESIKSLPEREALVLSLYYDEE--LNLKEIGEVLGVSESR 221 Query: 269 VRQIEARAFKKVQ 281 V QI +++ ++++ Sbjct: 222 VSQILSQSMQRLR 234 >gi|84388128|ref|ZP_00991024.1| flagellar biosynthesis sigma factor FliA [Vibrio splendidus 12B01] gi|84377195|gb|EAP94065.1| flagellar biosynthesis sigma factor FliA [Vibrio splendidus 12B01] Length = 244 Score = 44.3 bits (103), Expect = 0.024, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 106/252 (42%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +H + ++ + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 ALTYDQHANHNSQQAFFEKYSVLVKRIAHHLLGRLPPNVLVDDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V N + + + L+G L N Sbjct: 64 GTKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKNNREISSAIAELEGAL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK + +S + + +NC RL G E L SD D + + Sbjct: 116 RDPSD-AEVAKHMGLSLDQYHNALTDINCSRLVGIEDLGV----SD-------DVISPNE 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D Q+ + ++ R L S+ L RE + +E + L+ + VS R Sbjct: 164 DSQDNTPFQGVADESFRQALIDSIKQLPEREGLVLSLYYDEE--LNLKEIGEVLGVSESR 221 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 222 VSQILSQSMQRL 233 >gi|150389709|ref|YP_001319758.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|150392068|ref|YP_001322117.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|149949571|gb|ABR48099.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] gi|149951930|gb|ABR50458.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 215 Score = 44.3 bits (103), Expect = 0.025, Method: Compositional matrix adjust. Identities = 32/109 (29%), Positives = 52/109 (47%), Gaps = 8/109 (7%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K PM E +E L ++RE + L+ +LRLV A Y+ ++ S G I Sbjct: 8 KEPMTE-EESKRLINQFRELNNEEIRKHLIERNLRLVAYEAYKYKNQ--DSEDIFSVGCI 64 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-----SWSLVKIGT 128 GL++A+ +DP + R TY+ I+ + YI R W+ V++ Sbjct: 65 GLIKAIDSYDPSKQTRFDTYANRCIQNEILLYIKRLKKGSRWTFVRLDA 113 >gi|295101345|emb|CBK98890.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii L2-6] Length = 221 Score = 44.3 bits (103), Expect = 0.025, Method: Compositional matrix adjust. Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 8/83 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIA--------MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 + GD +A L+ ++ + K+A + G L ++ GN+GL +AV KFD Sbjct: 13 QKGDAAALDSLIDNNKSFIGKVANDLFRSMNLAQSGLNLDTDDLKQAGNLGLWKAVPKFD 72 Query: 95 PERGFRLATYSMWWIKAAMQEYI 117 RG + TY+ I+ AM + + Sbjct: 73 AARGMKFLTYAAPAIRNAMMDMV 95 >gi|290769931|gb|ADD61700.1| putative protein [uncultured organism] Length = 259 Score = 43.9 bits (102), Expect = 0.026, Method: Compositional matrix adjust. Identities = 58/265 (21%), Positives = 119/265 (44%), Gaps = 35/265 (13%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L ++E+ L KR + GD A + +LRLV+ + ++ ++ G IG Sbjct: 16 LPVLNQEEKEELFKRIK-AGDEEARELYIKGNLRLVLSVIRRFQNSSENPDDLFQIGCIG 74 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRRL 142 L++A+ FD + +TY++ I ++ Y LR + +++ + K ++ + Sbjct: 75 LIKAIDNFDTTLQVKFSTYAVPMIVGEIRRY-LRDNNSIRVSRSLRDIAYKTIYTRENYM 133 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL------AGDESLNALINSSDKN 196 + HL+ T + E + I K++ V + I L G ++L + SDK Sbjct: 134 RQHLKEPTIAEIADE--IGIDKEMIVYAMDAIQSPVSLFEPVYSEGGDTLYVMDQISDKK 191 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLE 256 + + ++W+ E + L +M+ L RER I + R E +E Sbjct: 192 NRE-ENWV-------EDI------------SLRDAMNRLGERERHIIDL-RFYEGKTQME 230 Query: 257 NLSSEFEVSRERVRQIEARAFKKVQ 281 ++ E +S+ +V ++E A + ++ Sbjct: 231 -VADEIGISQAQVSRLEKHALRSMR 254 >gi|134100730|ref|YP_001106391.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|291006467|ref|ZP_06564440.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133913353|emb|CAM03466.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 268 Score = 43.9 bits (102), Expect = 0.026, Method: Compositional matrix adjust. Identities = 24/73 (32%), Positives = 40/73 (54%), Gaps = 1/73 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT HL + IA +R G ++V +GL++AV +FDP RG +Y++ I Sbjct: 38 RLVTEHLPVAEHIARRFRHRGETHDDLVQVATLGLIKAVDRFDPGRGVGFMSYAVPTIMG 97 Query: 112 AMQEYILRS-WSL 123 ++ + + WS+ Sbjct: 98 EVRRHFRDAGWSV 110 >gi|158320542|ref|YP_001513049.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Alkaliphilus oremlandii OhILAs] gi|158140741|gb|ABW19053.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Alkaliphilus oremlandii OhILAs] Length = 245 Score = 43.9 bits (102), Expect = 0.026, Method: Compositional matrix adjust. Identities = 61/263 (23%), Positives = 119/263 (45%), Gaps = 37/263 (14%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMG-YRGYGLPI--SEVVSEGNIGLMQAVKKFDPER 97 Y+ + D A L+ ++RLV IA Y YG I ++VS G GL+ A++KFD + Sbjct: 11 YKNNNDSQAKALLIEEYIRLVKFIAGRLYISYGSNIEYDDLVSYGIFGLIDAIEKFDLNK 70 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKP 156 + TY+ I+ A+ + LRS V K++ L+ L ++ TD Sbjct: 71 QVKFETYAQIRIRGAIIDS-LRSLDWVPRSIRQKSKKIEEAYSSLENKLGRSATD----- 124 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL----VYDHDGQE 212 V +++ L++S E+ + L+N++ N ++ + + + +E Sbjct: 125 ---VEVSEALDISVKELQEI------------LLNTASFNVISLEEVIFEVGLIGNTAEE 169 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 Q+ + R+ N L ++ L RER++ N +T + + ++S RV Q+ Sbjct: 170 QLTEDLICRRETYNNLKDTIVQLPERERQVISLYYY--NNLTYKEIGKVLDISESRVSQL 227 Query: 273 EARAFKKVQESIQKQVELSSSPP 295 ++A +++ +L+S+ P Sbjct: 228 HSKAISRLKS------KLTSNSP 244 >gi|291453672|ref|ZP_06593062.1| SigI protein [Streptomyces albus J1074] gi|291356621|gb|EFE83523.1| SigI protein [Streptomyces albus J1074] Length = 285 Score = 43.9 bits (102), Expect = 0.026, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 106/240 (44%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 64 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 123 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A +L +S+ Sbjct: 124 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQKLD---RAPTVRELADRLGLSQE 177 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ G + NA SS D + D + Y+ G E IE E Sbjct: 178 EVVE------GMAASNAYTASSLDAQPEEDDSEGALADRIGYEDHGIEG--IEYVES--- 226 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++ L R+RRI + R N +T + E +S+ V ++ R ++++ + Sbjct: 227 ---LKPLIAELPARDRRIL-SLRFTAN-MTQSEIGEELGISQMHVSRLLTRTLNRLRKGL 281 >gi|223984205|ref|ZP_03634353.1| hypothetical protein HOLDEFILI_01646 [Holdemania filiformis DSM 12042] gi|223963820|gb|EEF68184.1| hypothetical protein HOLDEFILI_01646 [Holdemania filiformis DSM 12042] Length = 234 Score = 43.9 bits (102), Expect = 0.026, Method: Compositional matrix adjust. Identities = 64/281 (22%), Positives = 117/281 (41%), Gaps = 67/281 (23%) Query: 13 EIGLSRYIHEIRKI----PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +I S +I IR P+ ++E+ L + + GD+ A L+ +LRLV I + Sbjct: 10 QIFFSCFIGSIRTTSFPQPLTAEEEQDALQRMAK--GDVEARADLIEHNLRLVAHIVKKF 67 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 +++S G IGL++ + F ++G +LATY I Sbjct: 68 DIRREQTEDLISIGTIGLIKGIDTFKVDKGHKLATYVSRCI------------------- 108 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + + +LR K Q + ++ AI + + SE +I Sbjct: 109 ---ENEILMHLRNNKHAFQTRSLDD-------AIGQDKDGSELTLID------------- 145 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 +I + D+ D +++++E+ +RK LT+ M +L+ RE I R Sbjct: 146 VIPAPDQP------------DPIDKLMLEENKRK-----LTQFMGLLDEREHSIIVRRYG 188 Query: 249 QEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +T +++ + +SR V +IE RAF K+ + K+ Sbjct: 189 LEGHQEMTQRDIARQEHISRSYVSRIEKRAFMKLLRAFMKE 229 >gi|220929439|ref|YP_002506348.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulolyticum H10] gi|219999767|gb|ACL76368.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulolyticum H10] Length = 254 Score = 43.9 bits (102), Expect = 0.026, Method: Compositional matrix adjust. Identities = 52/246 (21%), Positives = 107/246 (43%), Gaps = 23/246 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKF 93 L K+Y E D +A +L+ + L+ +A Y G + ++V G GL+ A++K+ Sbjct: 9 LWKQYIETKDAAAKEKLIIQYAYLIKYVAGRLSIYFGSNVEFDDLVGYGAFGLIDAIEKY 68 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL---FFNLRRLKGHLQAIT 150 D +G + TY+ I+ ++ + I R V K L + + KGH T Sbjct: 69 DLAKGVKFETYASLRIRGSIIDSI-RDMDWVPRSLRQKNKELEKVYVEIENEKGH--TAT 125 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 D +A+K+ +S S+ +L D +++++++ + ++ L + Sbjct: 126 DKE--------VAEKMGLSMSDF----YKLLNDVNVSSMMSLDEFMEQNYERGLEIFSES 173 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 E E + +L + L +E+ + +E +TL+ +S+ V+ R+ Sbjct: 174 TEDKPEASLEFNEMKQLLADCIDKLPEKEKAVITFYYFEE--LTLKEISAIMNVTESRIS 231 Query: 271 QIEARA 276 Q+ +A Sbjct: 232 QLHTKA 237 >gi|293376228|ref|ZP_06622471.1| RNA polymerase sigma-G factor [Turicibacter sanguinis PC909] gi|325845152|ref|ZP_08168461.1| RNA polymerase sigma-G factor [Turicibacter sp. HGF1] gi|292645120|gb|EFF63187.1| RNA polymerase sigma-G factor [Turicibacter sanguinis PC909] gi|325488817|gb|EGC91217.1| RNA polymerase sigma-G factor [Turicibacter sp. HGF1] Length = 259 Score = 43.9 bits (102), Expect = 0.026, Method: Compositional matrix adjust. Identities = 27/99 (27%), Positives = 52/99 (52%), Gaps = 1/99 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+ +L E L K + ++G++ A L+ +LRLV+ I + G + ++ G + Sbjct: 15 KLEVLSNAEMTELFKSF-QNGNVEARESLIKGNLRLVLSIIKKFNHRGENLDDLFQVGCL 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 GLM+A+ FD + +TY++ I ++ Y+ + SL Sbjct: 74 GLMKAIDHFDLSHEVKFSTYAVPMIIGEIRRYLRDNNSL 112 >gi|169351192|ref|ZP_02868130.1| hypothetical protein CLOSPI_01971 [Clostridium spiroforme DSM 1552] gi|169292254|gb|EDS74387.1| hypothetical protein CLOSPI_01971 [Clostridium spiroforme DSM 1552] Length = 231 Score = 43.9 bits (102), Expect = 0.027, Method: Compositional matrix adjust. Identities = 29/90 (32%), Positives = 48/90 (53%), Gaps = 3/90 (3%) Query: 21 HEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVV 79 H++ P+ +E+ L K + GD A L+ +LRLVV +A Y I +++ Sbjct: 21 HDVLPPPLNAFEEKEALEKLAK--GDNDARDLLIEHNLRLVVYVAKRYDTNQNGGIEDLI 78 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 S G IGL++A+ F ++ +LATY+ I Sbjct: 79 SIGTIGLVKAINTFKTDKNIKLATYASRCI 108 >gi|312128148|ref|YP_003993022.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311778167|gb|ADQ07653.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 219 Score = 43.9 bits (102), Expect = 0.027, Method: Compositional matrix adjust. Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 PM ++EE L K + G A + L+ +LRLV IA Y + P +++S G I Sbjct: 13 PMSSEEEEMYLNKMW--EGCKEARNILIEKNLRLVAHIAKKYT-FSFPNLTDDIISVGTI 69 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + + +L+TY+ I+ + Y+ Sbjct: 70 GLIKAIETYSTAKCTKLSTYAAKCIENEILMYL 102 >gi|119897398|ref|YP_932611.1| RNA polymerase sigma factor [Azoarcus sp. BH72] gi|119669811|emb|CAL93724.1| RNA polymerase sigma factor [Azoarcus sp. BH72] Length = 256 Score = 43.9 bits (102), Expect = 0.027, Method: Compositional matrix adjust. Identities = 51/247 (20%), Positives = 106/247 (42%), Gaps = 18/247 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 Y G+L H LV ++ LV +IA M + + +++ G +GL+ A+ +++ Sbjct: 2 YDAEGNLDKDH-LVVAYAPLVKRIAFQLMAKLPASVEVEDLIQNGMMGLLDAIGRYEEGL 60 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G + TY++ ++ AM + + + L + L ++RR++ + + + +P Sbjct: 61 GAQFETYAVQRVRGAMLDGLRENDWL--------PRSLRRDMRRIESAIHVLEQQHGRPP 112 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +A+ L V E R+ D + L+ D + +D+L E E Sbjct: 113 SETELAESLGVPLPEY----QRMLQDARGHQLVYFEDFTDGEGEDFLDRHLGAHESNPAE 168 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 E + R L R++ L RE+ + E + L + V+ RV Q+ ++A Sbjct: 169 LLEDADMRANLIRAIDDLPEREKLVMAL--YYEEELNLREIGEVLGVTESRVCQLHSQAV 226 Query: 278 KKVQESI 284 +++ + Sbjct: 227 ARLRARV 233 >gi|294813001|ref|ZP_06771644.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|326441452|ref|ZP_08216186.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294325600|gb|EFG07243.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 306 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 57/238 (23%), Positives = 107/238 (44%), Gaps = 20/238 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ ++V G IGL++A+ +F+ RG T++M + Sbjct: 85 LVELNLSLVRFAAARFRSRSEPMDDIVQVGTIGLIKAIDRFELSRGVEFPTFAMPTVIGE 144 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L R L A D + V +A+ L + Sbjct: 145 IKRFFRDTSWS-VRVPRRLQELRL--DLARAGDELTARLD---RSPTVAELAEYLGIGAD 198 Query: 172 EVISMNCRLAGDESLNALINSS--DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV+ G + NA SS + ++ D + + G E +E E L Sbjct: 199 EVVE------GMVASNAYTPSSLDARPQNEEHDGTLAERIGYEDGGLEGVEYIESLKPL- 251 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ L R+RRI R + +T ++ E +S+ +V ++ +R +++ + + Sbjct: 252 --IAGLPDRDRRILSLRFGAD--MTQSDIGEELGISQMQVSRLLSRTLVRLRRGLTAE 305 >gi|305675234|ref|YP_003866906.1| sporulation sigma factor SigmaK [Bacillus subtilis subsp. spizizenii str. W23] gi|161168469|dbj|BAF93933.1| RNA polymerase sigma factor [Bacillus subtilis subsp. natto] gi|291485028|dbj|BAI86103.1| hypothetical protein BSNT_03833 [Bacillus subtilis subsp. natto BEST195] gi|305413478|gb|ADM38597.1| sporulation sigma factor SigmaK [Bacillus subtilis subsp. spizizenii str. W23] Length = 242 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++ ++ + Sbjct: 38 KKYLELMAKGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSA 97 Query: 96 ERGFRLATYSMWWI 109 +G +LATY+ I Sbjct: 98 GKGTKLATYAARCI 111 >gi|121535240|ref|ZP_01667054.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] gi|121306125|gb|EAX47053.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] Length = 257 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 20/75 (26%), Positives = 41/75 (54%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + G+ A +L+ +LRLV+ + + G + ++ G IGLM+A+ FD + + + Sbjct: 32 QQGNPEAREQLIYGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKAIDNFDLSQNVKFS 91 Query: 103 TYSMWWIKAAMQEYI 117 TY++ I ++ Y+ Sbjct: 92 TYAVPMIIGEIRRYL 106 >gi|261367813|ref|ZP_05980696.1| putative RNA polymerase sigma-H factor [Subdoligranulum variabile DSM 15176] gi|282570611|gb|EFB76146.1| putative RNA polymerase sigma-H factor [Subdoligranulum variabile DSM 15176] Length = 180 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 25/73 (34%), Positives = 36/73 (49%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD +A L+ + + K A YR GL + V EG IGL QAV+ + G A Sbjct: 13 QQGDDTALAALIARMMPAIRKGAAVYRAPGLDFEDAVQEGLIGLFQAVRGYRSAAGTPFA 72 Query: 103 TYSMWWIKAAMQE 115 +Y+ I A Q+ Sbjct: 73 SYAATCIHHAQQD 85 >gi|296333262|ref|ZP_06875715.1| sporulation sigma factor SigK [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|296149460|gb|EFG90356.1| sporulation sigma factor SigK [Bacillus subtilis subsp. spizizenii ATCC 6633] Length = 241 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++ ++ + Sbjct: 37 KKYLELMAKGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSA 96 Query: 96 ERGFRLATYSMWWI 109 +G +LATY+ I Sbjct: 97 GKGTKLATYAARCI 110 >gi|168187412|ref|ZP_02622047.1| RNA polymerase sigma-F factor [Clostridium botulinum C str. Eklund] gi|169294714|gb|EDS76847.1| RNA polymerase sigma-F factor [Clostridium botulinum C str. Eklund] Length = 251 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 3/105 (2%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A LV +L LV I+ + G ++ G++GL++A+ FD + +TY Sbjct: 26 GDKKALDELVEKNLPLVSAISKKFLNRGYEYEDIFQIGSMGLIKAINNFDSSYNVQFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTA--NQKRLFFNLRRLKGHLQ 147 ++ I ++ +I R L+K+ + ++L F+ +L L Sbjct: 86 AVPMIMGEIRRFI-RDDGLIKVSRSVKYTARKLHFDKEKLTKKLH 129 >gi|319651418|ref|ZP_08005547.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] gi|317396949|gb|EFV77658.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] Length = 252 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 55/245 (22%), Positives = 113/245 (46%), Gaps = 28/245 (11%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A ++V ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 27 QSGDQGARDKIVQKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q +I R VK+ + K + +R+ K L + V + Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSL--KEMGNKIRKAKDELSKTLG---RIPTVTEL 140 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++ L +S ++I LA + S I SS + VY++DG L+++ + Sbjct: 141 SEFLEISPEDII-----LAQEAS---RIPSSIHET-------VYENDGDPITLLDQIDDG 185 Query: 223 NR-----RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 N + L ++ L+ RER I R ++ T +++ +S+ +V ++E + Sbjct: 186 NEGKWFDKIALKEAIRELDERERLIVYLRYYKDQ--TQSEVAARLGISQVQVSRLEKKIL 243 Query: 278 KKVQE 282 +++++ Sbjct: 244 QQMKD 248 >gi|257437879|ref|ZP_05613634.1| group2 RNA polymerase sigma factor RpoD6 [Faecalibacterium prausnitzii A2-165] gi|257199539|gb|EEU97823.1| group2 RNA polymerase sigma factor RpoD6 [Faecalibacterium prausnitzii A2-165] Length = 221 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 28/101 (27%), Positives = 49/101 (48%), Gaps = 15/101 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIA--------MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 + GD +A L+ ++ + K+A + G L ++ GN+GL +AV KFD Sbjct: 13 QKGDAAALDSLIDNNKSFIGKVANDLFRSMNLAQAGLNLDTDDLKQAGNMGLWKAVPKFD 72 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 RG + TY+ I+ AM + +V+ TA ++R+ Sbjct: 73 AARGMKFLTYAAPAIRNAMMD-------MVRDAFTAFEQRM 106 >gi|269836601|ref|YP_003318829.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Sphaerobacter thermophilus DSM 20745] gi|269785864|gb|ACZ38007.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Sphaerobacter thermophilus DSM 20745] Length = 264 Score = 43.9 bits (102), Expect = 0.028, Method: Compositional matrix adjust. Identities = 48/205 (23%), Positives = 91/205 (44%), Gaps = 23/205 (11%) Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ G IGL++A+ +FDPERG + T+++ I+ A+ + + R+ LV TA Q+ Sbjct: 59 DDLLGYGTIGLIEAIDRFDPERGVKFETFAIQRIRGAIIDAV-RTLDLVP--RTARQR-- 113 Query: 136 FFNLRRLKGHLQAI--TDNNLKPEQVVA--IAKKLNVSESEVISMNCRLAGDESLNALIN 191 R ++ + I + PE+ VA + ++ + C ++ L Sbjct: 114 ---ARAIEQAYREIFAATGRMPPEEEVAAHLGMTIDAFRQALQDAAC------AILPLQQ 164 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S +D L D Q ++ R + + L ++ L R+R I +E Sbjct: 165 SDRDGEGTLEDTL---PDAQATEPLDAAVRSDLVHRLAAALERLPERDRLIVTLYYYEE- 220 Query: 252 PVTLENLSSEFEVSRERVRQIEARA 276 +TL +S ++ RV Q+ +RA Sbjct: 221 -LTLREISEVLGITESRVSQLLSRA 244 >gi|29829172|ref|NP_823806.1| RNA polymerase sigma factor WhiG [Streptomyces avermitilis MA-4680] gi|29606278|dbj|BAC70341.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 280 Score = 43.9 bits (102), Expect = 0.029, Method: Compositional matrix adjust. Identities = 62/245 (25%), Positives = 100/245 (40%), Gaps = 20/245 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFD 94 + Y+ GD +L+ H +VK G GLP ++ VS G GL+ A++KFD Sbjct: 36 RSYKATGDERLREQLIL-HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFD 94 Query: 95 PERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 R + TY++ I+ AM E W I + QK N+ R L+A Sbjct: 95 IGREIKFETYAITRIRGAMIDELRALDW----IPRSVRQKAR--NVERAYATLEARL-RR 147 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQ 211 E VA + V E + LA +L L++ + + D L D Sbjct: 148 TPTEGEVATEMGIAVDELHSVFSQLSLANVVALEELLHVGGEGGDRLSLMDTL---EDTA 204 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +E E + R L R+++ L RE+ + + +TL + + V+ RV Q Sbjct: 205 ADNPVEVAEDRELRRFLARAINTLPDREKTVVTLYYYEG--LTLAEIGNVLGVTESRVSQ 262 Query: 272 IEARA 276 I ++ Sbjct: 263 IHTKS 267 >gi|312794136|ref|YP_004027059.1| RNA polymerase, sigma 28 subunit, sigk [Caldicellulosiruptor kristjanssonii 177R1B] gi|312181276|gb|ADQ41446.1| RNA polymerase, sigma 28 subunit, SigK [Caldicellulosiruptor kristjanssonii 177R1B] Length = 219 Score = 43.9 bits (102), Expect = 0.029, Method: Compositional matrix adjust. Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 PM ++EE L K + G A + L+ +LRLV IA Y + P +++S G I Sbjct: 13 PMSSEEEEMYLNKMW--EGCKEARNILIEKNLRLVAHIAKKYT-FSFPNLTDDIISVGTI 69 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + + +L+TY+ I+ + Y+ Sbjct: 70 GLIKAIETYSKAKSTKLSTYAAKCIENEILMYL 102 >gi|310659013|ref|YP_003936734.1| RNA polymerase sigma-28 factor (sigma-d) [Clostridium sticklandii DSM 519] gi|308825791|emb|CBH21829.1| RNA polymerase sigma-28 factor (sigma-D) [Clostridium sticklandii] Length = 247 Score = 43.9 bits (102), Expect = 0.030, Method: Compositional matrix adjust. Identities = 59/233 (25%), Positives = 101/233 (43%), Gaps = 28/233 (12%) Query: 61 VVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +VKI G Y + +++S G IGL+ A+ K+DP + + TY+ I+ ++ + Sbjct: 34 LVKIIAGKLYNYYASNIEYDDLMSYGVIGLIDAIDKYDPTKNIKFETYASIRIRGSIIDQ 93 Query: 117 ILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 I W I + QK + LK +A+ + IAK L SE EV++ Sbjct: 94 IRNLDW----IPRSIRQKS-----KILKDANEALESKYGREASYQEIAKYLGKSEQEVLT 144 Query: 176 MNCRLAGDESLNALINSSDKNSS---QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM 232 + + N L D N S Q +D + E + + + K L R++ Sbjct: 145 L---IEETSVYNVLSIEDDFNESFKIQLKDESL--ESSPEDLTVYNDTVKE----LERTI 195 Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 S LN RE+ I + +T + + +S RV QI ++A K+++ Q Sbjct: 196 SELNEREQLIINLYYYE--GLTYKEIGEILNISESRVSQIHSKAISKMRKQFQ 246 >gi|311031586|ref|ZP_07709676.1| sporulation sigma factor SigK [Bacillus sp. m3-13] Length = 237 Score = 43.9 bits (102), Expect = 0.031, Method: Compositional matrix adjust. Identities = 22/65 (33%), Positives = 37/65 (56%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A + L+ +LRLV I + G +++S G IGL++A++ F +G +LATY Sbjct: 46 GNEEARNLLIEHNLRLVAHIVKKFENTGEDSEDLISIGTIGLIKAIESFHSGKGTKLATY 105 Query: 105 SMWWI 109 + I Sbjct: 106 AARCI 110 >gi|294634080|ref|ZP_06712635.1| RNA polymerase sigma factor [Streptomyces sp. e14] gi|292829894|gb|EFF88248.1| RNA polymerase sigma factor [Streptomyces sp. e14] Length = 311 Score = 43.9 bits (102), Expect = 0.031, Method: Compositional matrix adjust. Identities = 60/245 (24%), Positives = 112/245 (45%), Gaps = 30/245 (12%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 SA LVT+ L + +IA +R G I ++ +GL++A+ +FDP+RG +Y++ Sbjct: 72 SARDELVTAWLPMAHRIAGRFRDRGESIEDLRQVAALGLVKAIDRFDPDRGA-FESYAVP 130 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPE-QVVAIAK 164 I ++ + R W+L R LR +++ + +T N PE V A+A Sbjct: 131 TITGEVKRHFRDRMWAL-------RVPRRVQELRNKVRVARRELTQNPGSPEPSVAAVAA 183 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD-WLVYD----HDGQEQVLIEKE 219 ++E EV N + +S + L S D S D + + D D V++++E Sbjct: 184 HTGLTEDEV---NTGMEALDSFSTL--SLDAEMSTGADGYSLADTLGAADSSYDVVVDRE 238 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 K + L RER I R ++ +T ++ +S+ V ++ +R+ + Sbjct: 239 SAKE-------GLRRLPERERAILYMRFFED--MTQSRIADRLGISQMHVSRLISRSCAR 289 Query: 280 VQESI 284 V++ + Sbjct: 290 VRDEV 294 >gi|111017120|ref|YP_700092.1| sigma factor, sigma 70 type, group 3 [Rhodococcus jostii RHA1] gi|110816650|gb|ABG91934.1| sigma factor, sigma 70 type, group 3 [Rhodococcus jostii RHA1] Length = 265 Score = 43.9 bits (102), Expect = 0.031, Method: Compositional matrix adjust. Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T L L IA + G G +++ +GL++AV +FDP+RGF +Y++ I Sbjct: 45 VITRCLPLADHIARRFGGRGEAHEDLLQVARLGLVKAVDRFDPDRGFDFVSYAVPTIMGE 104 Query: 113 MQEYILRS-WSL 123 ++ Y + WS+ Sbjct: 105 VRRYFRDTGWSM 116 >gi|305644358|gb|ADM53780.1| RNA polymerase sigma factor [Aeromonas hydrophila] Length = 176 Score = 43.9 bits (102), Expect = 0.031, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 27/42 (64%) Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 1 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 42 >gi|222530382|ref|YP_002574264.1| putative RNA polymerase, sigma 70 family subunit [Caldicellulosiruptor bescii DSM 6725] gi|222457229|gb|ACM61491.1| putative RNA polymerase, sigma 70 family subunit [Caldicellulosiruptor bescii DSM 6725] Length = 210 Score = 43.9 bits (102), Expect = 0.031, Method: Compositional matrix adjust. Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 1/69 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD AA L+ ++ L++ +A Y + ++ EG + ++QA +KFD G T Sbjct: 23 GDKEAAETLIMAYEPLIISLAAKYNKPDI-FEDLKQEGAVAILQAAQKFDESLGVSFVTL 81 Query: 105 SMWWIKAAM 113 ++++IK M Sbjct: 82 AIYYIKRNM 90 >gi|239981813|ref|ZP_04704337.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 328 Score = 43.9 bits (102), Expect = 0.031, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 106/240 (44%), Gaps = 30/240 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 107 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 166 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A +L +S+ Sbjct: 167 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQKLD---RAPTVRELADRLGLSQE 220 Query: 172 EVISMNCRLAGDESLNALINSS-------DKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ G + NA SS D + D + Y+ G E IE E Sbjct: 221 EVVE------GMAASNAYTASSLDAQPEEDDSEGALADRIGYEDHGIEG--IEYVES--- 269 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L ++ L R+RRI + R N +T + E +S+ V ++ R ++++ + Sbjct: 270 ---LKPLIAELPARDRRIL-SLRFTAN-MTQSEIGEELGISQMHVSRLLTRTLNRLRKGL 324 >gi|222528749|ref|YP_002572631.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222530717|ref|YP_002574606.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222455596|gb|ACM59858.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor bescii DSM 6725] gi|222457564|gb|ACM61825.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 310 Score = 43.9 bits (102), Expect = 0.032, Method: Compositional matrix adjust. Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 5/66 (7%) Query: 53 LVTSHLRLVVKIAMGY----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ +L+LV +A + +GY + ++VSEG IGL+ A K +DP +G +TY+ Sbjct: 17 LIVDNLKLVYHVANKFMPCPKGYYYEVDDLVSEGYIGLVVAAKNYDPAKG-SFSTYACKV 75 Query: 109 IKAAMQ 114 I++ ++ Sbjct: 76 IESKIK 81 >gi|157371179|ref|YP_001479168.1| flagellar biosynthesis sigma factor [Serratia proteamaculans 568] gi|157322943|gb|ABV42040.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Serratia proteamaculans 568] Length = 240 Score = 43.9 bits (102), Expect = 0.032, Method: Compositional matrix adjust. Identities = 47/214 (21%), Positives = 95/214 (44%), Gaps = 30/214 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V + + Sbjct: 41 LDDLLQAGGIGLLNAVERYDAMQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRHARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + +R+L+ L +P V +A+ LN+S DE L+++++ Sbjct: 100 VAQVMRQLEQQLG-------RPASEVEVAQTLNLS------------LDEYRQILLDTNN 140 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE--------RKNRRNMLTRSMSVLNPRERRIFEAR 246 + +W + E +L EE N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGESAEPLLEGHEEANPLHHLLEGNLRQRVIDAIEALPEREKMVLTLY 200 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + +V RV Q+ ++A K++ Sbjct: 201 YQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRL 232 >gi|308803162|ref|XP_003078894.1| RNA-polymerase sigma factor (ISS) [Ostreococcus tauri] gi|116057347|emb|CAL51774.1| RNA-polymerase sigma factor (ISS) [Ostreococcus tauri] Length = 485 Score = 43.9 bits (102), Expect = 0.032, Method: Compositional matrix adjust. Identities = 23/85 (27%), Positives = 44/85 (51%), Gaps = 7/85 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPIS-------EVVSEGNIGLMQAVKKFDPERGFRL 101 A +LV++++ L K+A P+ +++ EG GL++A +KFDP G Sbjct: 180 ARQKLVSANIELAAKVATDVFHTFSPMERRSISRQDMIHEGVTGLVRASEKFDPALGCAF 239 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKI 126 +TY+ W K A+ +L + +++ Sbjct: 240 STYAYNWTKQAVTRGVLNNGRTIRV 264 >gi|154686834|ref|YP_001421995.1| sporulation sigma factor SigK [Bacillus amyloliquefaciens FZB42] gi|154352685|gb|ABS74764.1| SpoIIIC [Bacillus amyloliquefaciens FZB42] Length = 240 Score = 43.9 bits (102), Expect = 0.033, Method: Compositional matrix adjust. Identities = 21/65 (32%), Positives = 36/65 (55%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +LRLV I + G +++S G IGL++ ++ + +G +LATY Sbjct: 46 GDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSAGKGTKLATY 105 Query: 105 SMWWI 109 + I Sbjct: 106 AARCI 110 >gi|302556940|ref|ZP_07309282.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] gi|302474558|gb|EFL37651.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] Length = 285 Score = 43.9 bits (102), Expect = 0.033, Method: Compositional matrix adjust. Identities = 59/245 (24%), Positives = 108/245 (44%), Gaps = 34/245 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT+ L + +IA +R G + ++ +GL++A+ +FDP RG +Y++ I Sbjct: 51 LVTAWLPMAHRIAGRFRDRGEAVEDLRQVAALGLVKAIDRFDPSRGA-FESYAVPTITGE 109 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPE-QVVAIAKKLNVS 169 ++ + R W+L R LR +++ + +T + PE V AIA ++ Sbjct: 110 VKRHFRDRMWAL-------RVPRRVQELRNKVRVARRELTQSPGSPEPSVAAIAAHTGLT 162 Query: 170 ESEVISMNCRLAGDESLNALIN-------SSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 E EV AG E+L + SSD + D L D V++++E K Sbjct: 163 EDEVG------AGMEALESFSTLSLDAELSSDDDGYSLADTLGA-SDSSYDVVVDRESAK 215 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L RER I R ++ +T ++ + +S+ V ++ +R+ +V+ Sbjct: 216 E-------GLRRLPERERAILYMRFFED--MTQSRIADQLGISQMHVSRLISRSCARVRA 266 Query: 283 SIQKQ 287 Q Sbjct: 267 DAMGQ 271 >gi|239827399|ref|YP_002950023.1| RNA polymerase, sigma 70 family subunit [Geobacillus sp. WCH70] gi|239807692|gb|ACS24757.1| putative RNA polymerase, sigma 70 family subunit [Geobacillus sp. WCH70] Length = 831 Score = 43.9 bits (102), Expect = 0.033, Method: Compositional matrix adjust. Identities = 54/254 (21%), Positives = 105/254 (41%), Gaps = 44/254 (17%) Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 + + A + +P+ ++ E L +A +K++PE G Y + A +Q Y + Sbjct: 583 IYQYAKKFSCETVPMEDLYQEAYFALHKAYEKYNPELGGSFYHYFRRHLFARLQRYKSDN 642 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 SL++I T R++ ++ D + + + +N+ +S+ I Sbjct: 643 LSLIRIPT-----------HRIETLMK--NDQIFEKQLITNEKTNINLLDSDYILFKTNY 689 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQE------QVLI------EKEE-------- 220 E L +L + + + ++ + + ++H E QV I E EE Sbjct: 690 ISFEELYSLYDDNAGDEARARIYCYFNHPFYEDTSLKRQVFIDYSYIEEPEECDWLLSEE 749 Query: 221 ----RKNRRNMLTRSMSVL-----NPRERRIFEARR--LQENPVTLENLSSEFEVSRERV 269 R + ++ L NPR+ +I R + +TL+ + F VSRER+ Sbjct: 750 RYEEEIENRVLAESAIDYLRNIIKNPRDWKIILYRFGFMTGEEMTLQEIGELFGVSRERI 809 Query: 270 RQIEARAFKKVQES 283 RQIE +A K +++ Sbjct: 810 RQIENKALKHLKKC 823 >gi|108799863|ref|YP_640060.1| RNA polymerase sigma factor SigF [Mycobacterium sp. MCS] gi|119868973|ref|YP_938925.1| RNA polymerase sigma factor SigF [Mycobacterium sp. KMS] gi|126435506|ref|YP_001071197.1| RNA polymerase sigma factor SigF [Mycobacterium sp. JLS] gi|108770282|gb|ABG09004.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119695062|gb|ABL92135.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. KMS] gi|126235306|gb|ABN98706.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. JLS] Length = 269 Score = 43.5 bits (101), Expect = 0.033, Method: Compositional matrix adjust. Identities = 37/140 (26%), Positives = 61/140 (43%), Gaps = 23/140 (16%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+VT L L IA Y G + ++V +GLM AV +FDPE G ++++ + Sbjct: 49 RIVTRCLPLADHIAFRYHRKGENLDDLVQIARVGLMHAVNRFDPENGANFLSFAVPTMLG 108 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKG-HLQA------ITDNNLKPEQVVAIA 163 ++ + W++ RRLK H+Q +T + +P +A Sbjct: 109 EIRRHFRDNGWAM-------------HVPRRLKDLHVQITRATPRLTQSLGRPPTPTDLA 155 Query: 164 KKLNVSESEVISMNCRLAGD 183 +L EV+ C +AGD Sbjct: 156 AELGADRQEVV--ECLVAGD 173 >gi|31747734|gb|AAO38358.1| Lfe160p1 [Leptospirillum ferrooxidans] Length = 218 Score = 43.5 bits (101), Expect = 0.033, Method: Compositional matrix adjust. Identities = 48/212 (22%), Positives = 93/212 (43%), Gaps = 15/212 (7%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++VS G GL+ A K+FDP RG + T + I+ AM + I RS V Sbjct: 13 VDDLVSVGMTGLIDAAKRFDPSRGIKFKTMAEHRIRGAMLDEI-RSADWVPRSVREKASS 71 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINS 192 + L+ L D+ + +AK L++S E +++ + S+ L Sbjct: 72 VHAVREGLRAALLREPDD-------MEMAKALSMSLDEYLTLENEIEPHHLYSIEDLFEM 124 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + S D +V + K E ++L +++ L ++R + +E Sbjct: 125 EEGAGSSILDRMVVPGEADPLSEFLKSEEA---SLLEKALDSLPEKQRLVLSLYYYEE-- 179 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++++ +++ EVS RV QI A K +++++ Sbjct: 180 LSMKEVAAVLEVSESRVSQIHTLAIKNLKKAL 211 >gi|328912710|gb|AEB64306.1| RNA polymerase sigma factor [Bacillus amyloliquefaciens LL3] Length = 242 Score = 43.5 bits (101), Expect = 0.034, Method: Compositional matrix adjust. Identities = 21/65 (32%), Positives = 36/65 (55%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +LRLV I + G +++S G IGL++ ++ + +G +LATY Sbjct: 47 GDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSAGKGTKLATY 106 Query: 105 SMWWI 109 + I Sbjct: 107 AARCI 111 >gi|308174363|ref|YP_003921068.1| RNA polymerase sporulation-specific sigma-K factor [Bacillus amyloliquefaciens DSM 7] gi|307607227|emb|CBI43598.1| RNA polymerase sporulation-specific sigma-K factor precursor (Sigma-27) (C-terminal fragment) [Bacillus amyloliquefaciens DSM 7] Length = 240 Score = 43.5 bits (101), Expect = 0.034, Method: Compositional matrix adjust. Identities = 21/65 (32%), Positives = 36/65 (55%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +LRLV I + G +++S G IGL++ ++ + +G +LATY Sbjct: 46 GDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSAGKGTKLATY 105 Query: 105 SMWWI 109 + I Sbjct: 106 AARCI 110 >gi|328554314|gb|AEB24806.1| sporulation sigma factor SigK [Bacillus amyloliquefaciens TA208] Length = 241 Score = 43.5 bits (101), Expect = 0.034, Method: Compositional matrix adjust. Identities = 21/65 (32%), Positives = 36/65 (55%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + L+ +LRLV I + G +++S G IGL++ ++ + +G +LATY Sbjct: 46 GDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSAGKGTKLATY 105 Query: 105 SMWWI 109 + I Sbjct: 106 AARCI 110 >gi|311069177|ref|YP_003974100.1| sporulation sigma factor SigK [Bacillus atrophaeus 1942] gi|310869694|gb|ADP33169.1| sporulation sigma factor SigK [Bacillus atrophaeus 1942] Length = 242 Score = 43.5 bits (101), Expect = 0.034, Method: Compositional matrix adjust. Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 3/74 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++ ++ + Sbjct: 38 KKYLELMAKGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSA 97 Query: 96 ERGFRLATYSMWWI 109 +G +LATY+ I Sbjct: 98 GKGTKLATYAARCI 111 >gi|163801862|ref|ZP_02195759.1| flagellar biosynthesis sigma factor FliA [Vibrio sp. AND4] gi|159174370|gb|EDP59174.1| flagellar biosynthesis sigma factor FliA [Vibrio sp. AND4] Length = 244 Score = 43.5 bits (101), Expect = 0.034, Method: Compositional matrix adjust. Identities = 56/250 (22%), Positives = 106/250 (42%), Gaps = 27/250 (10%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +HG ++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 AITYDQHGKFNSQQAFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAKQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +G TY+ I+ AM + I R V N +++ + L+G A+ + Sbjct: 64 GSKGASFETYAGIRIRGAMLDDI-RKGDWVPRSVHKNNRQINQAIAELEG---ALNRDPF 119 Query: 155 KPEQVVAIAKKLNVSESEVISMNC-RLAGDESL---NALINSSDKNSSQWQDWLVYDHDG 210 E + L+ S + +NC +L G E L + +I+ +D+ V D D Sbjct: 120 DSEVAEHLGMTLDQYHSALTDINCSKLVGIEDLGVSDDVISPADETDDSNPFKGVAD-DS 178 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 ++ L+E ++ R L S+ + + L+ + VS RV Sbjct: 179 FKKALVESIKQLPEREALVLSL---------------YYDEELNLKEIGDVLGVSESRVS 223 Query: 271 QIEARAFKKV 280 QI ++A +++ Sbjct: 224 QILSQAMQRL 233 >gi|1552544|emb|CAA90874.1| sigma factor [Bacillus coagulans] Length = 252 Score = 43.5 bits (101), Expect = 0.034, Method: Compositional matrix adjust. Identities = 45/184 (24%), Positives = 77/184 (41%), Gaps = 14/184 (7%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K EE R E GD A +V ++RLV + + G ++ G IGL+++V Sbjct: 15 KDEEVKNLIRRTEEGDQEARDLIVEKNIRLVWSVVHRFLNRGYEPDDLFQIGCIGLLKSV 74 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL---- 146 KFD + +TY++ I +Q + LR VK+ + K +R+++ L Sbjct: 75 DKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSL--KETGNRIRKIRDELTKKL 131 Query: 147 ------QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 I P + V +A++ + S + GD + L SD+N +W Sbjct: 132 GRSPTVHEIASELGMPVEEVVMAQEAGKAPSSIHETVYENDGD-PITLLDQISDQNDQKW 190 Query: 201 QDWL 204 D + Sbjct: 191 FDQI 194 >gi|210624023|ref|ZP_03294140.1| hypothetical protein CLOHIR_02092 [Clostridium hiranonis DSM 13275] gi|210153230|gb|EEA84236.1| hypothetical protein CLOHIR_02092 [Clostridium hiranonis DSM 13275] Length = 255 Score = 43.5 bits (101), Expect = 0.035, Method: Compositional matrix adjust. Identities = 59/255 (23%), Positives = 115/255 (45%), Gaps = 21/255 (8%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y ++ D+ + L+ HL L +A Y G+ ++ ++ L+ A+ ++D Sbjct: 18 LFRLYSDNKDIDIRNILIERHLYLARILAKKYINKGVDYEDIYQVASLALIYAIDRYDIS 77 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 +GF ++++ I +++Y K+ T +R+ +++ AI + Sbjct: 78 KGFEFSSFATPTIIGEIKKYFRD-----KVWTMRVPRRIQELSKKISNAKIAIEQEKKRH 132 Query: 157 EQVVAIAKKLNVSESEVI-SMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 V IA+ + E +V+ +M + SL+A SS +S D + D G E+ Sbjct: 133 PSVKDIAEYIGCREEDVLEAMEASYSYQPVSLDA---SSGDDSE--DDLTLSDRVGVEEK 187 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 E+K + L R M LN E +I E R ++ +++E +S+ V ++E Sbjct: 188 DFGNIEQK---DFLNRFMQTLNELEVKILEDRFFHNKTQSV--IATELNISQMTVSRLE- 241 Query: 275 RAFKKVQESIQKQVE 289 KKV E ++K+ E Sbjct: 242 ---KKVVEKLRKEYE 253 >gi|168213645|ref|ZP_02639270.1| RNA polymerase sigma factor RpoD [Clostridium perfringens CPE str. F4969] gi|170714810|gb|EDT26992.1| RNA polymerase sigma factor RpoD [Clostridium perfringens CPE str. F4969] Length = 227 Score = 43.5 bits (101), Expect = 0.035, Method: Compositional matrix adjust. Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 5/82 (6%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLMQAVKKFDPE--R 97 + GD A +L+ ++ +L+ KIA + + + +++ EG IGL+ A K+D E + Sbjct: 11 QQGDKKALDKLLENNDKLIYKIANKFYSDKTSSIEFDDLLQEGRIGLILACSKYDIEYIK 70 Query: 98 GFRLATYSMWWIKAAMQEYILR 119 + TY+ +WI + +I + Sbjct: 71 RTKFITYAFYWIYQKIHRFITK 92 >gi|291544363|emb|CBL17472.1| DNA-directed RNA polymerase specialized sigma subunit [Ruminococcus sp. 18P13] Length = 118 Score = 43.5 bits (101), Expect = 0.035, Method: Compositional matrix adjust. Identities = 28/86 (32%), Positives = 43/86 (50%), Gaps = 2/86 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ K+E A+ GD A L+ +LRLV + Y E++S G +GL Sbjct: 29 PLSPKEEADCFARL--AQGDSQARAMLIEHNLRLVAHMIKKYYANSKDQDELISIGTMGL 86 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAA 112 ++AV FD +G + ATY+ I+ A Sbjct: 87 IKAVNTFDAAKGSKFATYAGRCIEKA 112 >gi|229492054|ref|ZP_04385868.1| RNA polymerase sigma-F factor [Rhodococcus erythropolis SK121] gi|229321078|gb|EEN86885.1| RNA polymerase sigma-F factor [Rhodococcus erythropolis SK121] Length = 259 Score = 43.5 bits (101), Expect = 0.035, Method: Compositional matrix adjust. Identities = 56/244 (22%), Positives = 111/244 (45%), Gaps = 22/244 (9%) Query: 45 GDLSAAHRLVTSHLRLVVK----IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 GD + RL T + L + IA+ YRG G + ++V ++GL+ AV +FD +G Sbjct: 21 GDDARCERLRTQIIELCLPLTRHIALRYRGRGQALDDLVQAASVGLVSAVNRFDLAKGKD 80 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++ + ++++ R W V++ + + L N R A+T + + V Sbjct: 81 FLAFAIPTMMGEVRKHFRDRGWD-VRVPRSLQENCLALNKAR-----TALTQDLGREPTV 134 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 +AK+L V +EV + AGD A ++++ + + D G+ ++ Sbjct: 135 PELAKELGVEPAEVAEIVA--AGDSYHAASLDAAAVGDGRS----IADALGEFDAALDG- 187 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + + L ++ L RER I R E +T ++ + VS+ V ++ A++ K Sbjct: 188 --IDNQETLRPALLALPERERIIVIYRFFGE--LTQAEIAEKIGVSQMHVSRLLAQSLAK 243 Query: 280 VQES 283 ++ S Sbjct: 244 LRAS 247 >gi|323705323|ref|ZP_08116898.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323535225|gb|EGB25001.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 247 Score = 43.5 bits (101), Expect = 0.035, Method: Compositional matrix adjust. Identities = 38/138 (27%), Positives = 68/138 (49%), Gaps = 14/138 (10%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIA--MGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 R ++ D S+ +L+ + L+ I YRGY ++ G IG ++A+ KFD Sbjct: 17 RKSKNNDKSSMEKLLKENSGLIWSIVKKFSYRGY--EAEDLYQIGCIGFVKAINKFDESY 74 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ--KRLFFNLRRLKGHLQAITDNNLK 155 +L+TY++ I ++ + LR L+K+ + + + +F +L+ L N + Sbjct: 75 NVKLSTYAVPIIIGEIKRF-LRDDGLIKVSRSLKELSNKAYFMKDKLEKEL------NRE 127 Query: 156 PEQVVAIAKKLNVSESEV 173 P + IA KL+VS EV Sbjct: 128 P-TIQEIASKLDVSAEEV 144 >gi|296125231|ref|YP_003632483.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Brachyspira murdochii DSM 12563] gi|296017047|gb|ADG70284.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Brachyspira murdochii DSM 12563] Length = 272 Score = 43.5 bits (101), Expect = 0.036, Method: Compositional matrix adjust. Identities = 54/242 (22%), Positives = 111/242 (45%), Gaps = 38/242 (15%) Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + + MG + + ++V G+ GLM A+ K++P R + TY++ I+ A+ + LR Sbjct: 53 ISVNMGSHKH-IEFQDLVGFGSFGLMDAIDKYNPNRDIKFKTYAVTRIRGAIYDE-LRKL 110 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 + + K + + + L+A N+KP++ IA L + S+ Sbjct: 111 DYLPRSIRKDVKE----IEKAREILEARLSRNIKPQE---IADMLGIPISKY-------- 155 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK------------EERKNRRNMLT 229 +E++ I +S + S W V D D E +I+ ER++ +N + Sbjct: 156 -NETMKRYIEASPTSLSDV--WYVGD-DSDEISVIDTLKSNDKTNPEYLAEREDVKNKIV 211 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES---IQK 286 ++ L +E+++ + +TL+ + EVS R+ Q+ +A ++++ S I+K Sbjct: 212 AALKKLPEKEKQVLILYYYDD--LTLKEIGKVLEVSESRISQLHTKAIQQLRYSLSEIKK 269 Query: 287 QV 288 Q+ Sbjct: 270 QL 271 >gi|227500978|ref|ZP_03931027.1| possible DNA-directed RNA polymerase sigma subunit SigB [Anaerococcus tetradius ATCC 35098] gi|227216751|gb|EEI82149.1| possible DNA-directed RNA polymerase sigma subunit SigB [Anaerococcus tetradius ATCC 35098] Length = 256 Score = 43.5 bits (101), Expect = 0.036, Method: Compositional matrix adjust. Identities = 51/251 (20%), Positives = 111/251 (44%), Gaps = 20/251 (7%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +Y + D L+ H+ +V ++ Y G G+ ++ ++GL+ A++++DP +GF Sbjct: 19 QYYKTKDKKLRDELIEEHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIERYDPSKGF 78 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++++ I ++ Y ++++ R NL + + I L+ Sbjct: 79 AFSSFATPTIMGELKRYFRDKGWVIRV------PRRIQNLYKKINTAKKILPQELQRTPT 132 Query: 160 VA-IAKKLNVSESEVISM--NCRLAGDESLNALIN-SSDKNSSQWQDWLVYDHDGQEQVL 215 VA IA L E ++ ++ +SL+ +N+ D + G+E Sbjct: 133 VADIADYLGEDEETILETMEASKVYTPQSLDMKYQVQKGENAVDLSDMI-----GEEDKN 187 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + E K +++ +SM LN E+ I E R + T ++++ ++S+ V +IE + Sbjct: 188 FDSIELK---DLIDKSMERLNDLEKEILELRYYEGR--TQVDIANSLDISQMTVSRIEKK 242 Query: 276 AFKKVQESIQK 286 +K ++K Sbjct: 243 ILQKFSIELEK 253 >gi|312134632|ref|YP_004001970.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311774683|gb|ADQ04170.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 242 Score = 43.5 bits (101), Expect = 0.036, Method: Compositional matrix adjust. Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 PM ++EE L K + G A + L+ +LRLV IA Y + P +++S G I Sbjct: 36 PMSSEEEEMYLNKMW--EGCKEARNILIEKNLRLVAHIAKKYT-FSFPNLTDDIISVGTI 92 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + + +L+TY+ I+ + Y+ Sbjct: 93 GLIKAIETYSTAKCTKLSTYAAKCIENEILMYL 125 >gi|225619299|ref|YP_002720525.1| RNA polymerase sigma factor WhiG [Brachyspira hyodysenteriae WA1] gi|225214118|gb|ACN82852.1| RNA polymerase sigma factor WhiG [Brachyspira hyodysenteriae WA1] Length = 275 Score = 43.5 bits (101), Expect = 0.037, Method: Compositional matrix adjust. Identities = 54/242 (22%), Positives = 111/242 (45%), Gaps = 38/242 (15%) Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 + + MG + + ++V G+ GLM A+ K++P R + TY++ I+ A+ + LR Sbjct: 56 ISVNMGSHKH-IEFQDLVGFGSFGLMDAIDKYNPNRDIKFKTYAVTRIRGAIYDE-LRKL 113 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 + + K + + + L+A N+KP++ IA L + S+ Sbjct: 114 DYLPRSIRKDVKE----IEKAREILEARLSRNIKPQE---IADMLGIPISKY-------- 158 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK------------EERKNRRNMLT 229 +E++ I +S + S W V D D E +I+ ER++ +N + Sbjct: 159 -NETMKRYIEASPTSLSDV--WYVGD-DSDEISVIDTLKSNDKTNPEYLAEREDVKNKII 214 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES---IQK 286 ++ L +E+++ + +TL+ + EVS R+ Q+ +A ++++ S I+K Sbjct: 215 AALKKLPEKEQQVLILYYYDD--LTLKEIGKVLEVSESRISQLHTKAIQQLRYSLSEIKK 272 Query: 287 QV 288 Q+ Sbjct: 273 QL 274 >gi|206603135|gb|EDZ39615.1| Putative RNA polymerase sigma 28 subunit [Leptospirillum sp. Group II '5-way CG'] Length = 251 Score = 43.5 bits (101), Expect = 0.037, Method: Compositional matrix adjust. Identities = 50/215 (23%), Positives = 101/215 (46%), Gaps = 17/215 (7%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTAN 131 L I +++S G GL+ A ++FDP RG + T + I+ AM + I W + + Sbjct: 32 LDIDDLISAGMGGLLDAARRFDPARGIKFKTLAEHRIRGAMLDEIRAADW----MPRSVR 87 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--ISMNCRLAGDESLNAL 189 +K +++++K L I +P + IA ++ ++E E +S++ SL L Sbjct: 88 EK--LTHVQQVKTEL--IARYKREPTR-QEIAARMEMTEEEFDRLSVDIEPHHLVSLEDL 142 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 ++ D +S D L +G + + E + L +++ L ++R + + Sbjct: 143 MDPEDGDSPSLLDRLSAPQEGDPLASLLQNEVSEK---LCQALDRLPEKQRLVLSLYYYE 199 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 E +T++ ++ VS RV QI +A +++S+ Sbjct: 200 E--LTMKEVARVVGVSESRVSQIHGQALAALKQSL 232 >gi|220909315|ref|YP_002484626.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 7425] gi|219865926|gb|ACL46265.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 7425] Length = 262 Score = 43.5 bits (101), Expect = 0.037, Method: Compositional matrix adjust. Identities = 41/172 (23%), Positives = 82/172 (47%), Gaps = 22/172 (12%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE-VVSEGNIGLMQAVKKFDP 95 L + Y+++ S +RLV +L LV K A + Y E +V G++GL++A+++FD Sbjct: 20 LLQAYQKNPAPSLRNRLVQMNLGLVRKEAHRWLSYSTETYEDLVQVGSLGLIRAIERFDI 79 Query: 96 ERGFRLATYSMWWIKAAMQEY---------ILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 +G ++++M +I+ +Q Y I R W +++ + + L L R+ Sbjct: 80 TKGHAFSSFAMPYIRGEIQHYLRDKSPQVRIPRRWQVLQKQASLVAQELREQLHRVP--- 136 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS 198 TD+ + A+A + + E + + ++ SL+A + D S+ Sbjct: 137 ---TDDEM------ALALGIGLQEWQQVKLSSYNRSPLSLDAPVGEDDFGST 179 >gi|159029418|emb|CAO90794.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 258 Score = 43.5 bits (101), Expect = 0.037, Method: Compositional matrix adjust. Identities = 39/180 (21%), Positives = 90/180 (50%), Gaps = 18/180 (10%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK-----IAMGYRGYGLPISEVVSEGNIG 85 K E L K+Y++ G+ +++ +L LV + + + Y ++V G +G Sbjct: 10 KLETLTLFKKYQKTGENQLRDQIIRLNLGLVRREAHHWVNQCHENY----EDLVQVGCMG 65 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 L++A+K+FD +G +++++ +I+ +Q Y L G T R + +L R + Sbjct: 66 LIRAIKRFDSSKGHAFSSFAIPYIRGEIQHY------LRDKGYTVRIPRRWLDLGRQAAN 119 Query: 146 LQAI--TDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 ++ T +N +P +++A +++ E + + + + SL+A +N+ + N++ +D Sbjct: 120 MRRDFQTIHNRQPNDTEISLALNISLEEWQEVKLAFQNREPLSLDATVNNDEDNNTCLKD 179 >gi|222529010|ref|YP_002572892.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222455857|gb|ACM60119.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 310 Score = 43.5 bits (101), Expect = 0.037, Method: Compositional matrix adjust. Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 5/66 (7%) Query: 53 LVTSHLRLVVKIAMGY----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ +L+LV +A + +GY + ++VSEG IGL+ A K +DP +G +TY+ Sbjct: 17 LIVDNLKLVYHVANKFMPCPKGYYYEVDDLVSEGYIGLVVAAKNYDPAKG-SFSTYACKV 75 Query: 109 IKAAMQ 114 I++ ++ Sbjct: 76 IESKIK 81 >gi|225574955|ref|ZP_03783565.1| hypothetical protein RUMHYD_03034 [Blautia hydrogenotrophica DSM 10507] gi|225037802|gb|EEG48048.1| hypothetical protein RUMHYD_03034 [Blautia hydrogenotrophica DSM 10507] Length = 259 Score = 43.5 bits (101), Expect = 0.038, Method: Compositional matrix adjust. Identities = 60/263 (22%), Positives = 112/263 (42%), Gaps = 35/263 (13%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P+L +E+ L +R ++ GD A + +LRLV+ + + ++ G I Sbjct: 15 KLPILSNEEKEELFRRIKQ-GDQQAREEYIKGNLRLVLSVIKRFSNSNENADDLFQIGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GL++A+ FD + +TY++ I ++ Y LR + +++ + K ++ R Sbjct: 74 GLIKAIDNFDTTLDVKFSTYAVPMIIGEIRRY-LRDNNSIRVSRSLRDIAYKAIYAKERI 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL------AGDESLNALINSSDK 195 +K L+ T + E + I K++ V + I L G ++L + SDK Sbjct: 133 VKEELKEPTIEEISKE--IGIEKEMIVYALDAIQNPVSLFEPVYTEGGDALYVMDQISDK 190 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 + KEE L +M L RE+ I + R E + Sbjct: 191 KN--------------------KEEHWVEELSLREAMDRLGEREKHIIDL-RFYEGKTQM 229 Query: 256 ENLSSEFEVSRERVRQIEARAFK 278 E ++ E +S+ +V ++E A K Sbjct: 230 E-VAREIGISQAQVSRLEKNALK 251 >gi|169351116|ref|ZP_02868054.1| hypothetical protein CLOSPI_01895 [Clostridium spiroforme DSM 1552] gi|169292178|gb|EDS74311.1| hypothetical protein CLOSPI_01895 [Clostridium spiroforme DSM 1552] Length = 239 Score = 43.5 bits (101), Expect = 0.038, Method: Compositional matrix adjust. Identities = 37/130 (28%), Positives = 60/130 (46%), Gaps = 6/130 (4%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +V +L LV I ++ ++ G IGLM+A+ FD G + +TY Sbjct: 16 GDEIAKELVVNQNLGLVWSIVHRFKNNYYDKEDLFQIGCIGLMKAINNFDTNYGVQFSTY 75 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ Y R +K+ + K L + ++K L I P V AIAK Sbjct: 76 AVPIIMGEIKRY-FRDDGTIKVSRSL--KELNLKINKVKELL--INQTGQDP-TVEAIAK 129 Query: 165 KLNVSESEVI 174 LN+ +V+ Sbjct: 130 YLNIDVQDVV 139 >gi|75909293|ref|YP_323589.1| RNA polymerase sigma factor SigF [Anabaena variabilis ATCC 29413] gi|75703018|gb|ABA22694.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Anabaena variabilis ATCC 29413] Length = 261 Score = 43.5 bits (101), Expect = 0.038, Method: Compositional matrix adjust. Identities = 23/91 (25%), Positives = 50/91 (54%), Gaps = 1/91 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDP 95 L + Y + + ++LV H LV K+A + P ++ G GL++A+++FDP Sbjct: 15 LLRSYHHNPSIKLRNKLVQLHTGLVRKMAHKFSHQCNEPYEDLEQIGYFGLIRAIERFDP 74 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 +G+ +++++ +I+ M ++ +L+KI Sbjct: 75 SQGYAFSSFAVPYIRGEMLHFLRDRSTLLKI 105 >gi|300854227|ref|YP_003779211.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium ljungdahlii DSM 13528] gi|300434342|gb|ADK14109.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium ljungdahlii DSM 13528] Length = 241 Score = 43.5 bits (101), Expect = 0.039, Method: Compositional matrix adjust. Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 5/83 (6%) Query: 47 LSAAHRLVTSHLRLVVKIA----MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 L LV +L LV IA +G Y + ++VS G +GL+ A+ KFD +RG + + Sbjct: 7 LDIKEELVKKYLPLVKYIASRVIIGKTKY-IEYEDLVSYGMLGLIDAINKFDKDRGMKFS 65 Query: 103 TYSMWWIKAAMQEYILRSWSLVK 125 TY+ IK +M + + R+ + K Sbjct: 66 TYASIRIKGSMIDELRRNSPISK 88 >gi|146295621|ref|YP_001179392.1| FliA/WhiG family RNA polymerase sigma factor [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409197|gb|ABP66201.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 310 Score = 43.5 bits (101), Expect = 0.040, Method: Compositional matrix adjust. Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 5/66 (7%) Query: 53 LVTSHLRLVVKIAMGY----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ +L+LV +A + +GY + ++VSEG IGL+ A K +DP +G +TY+ Sbjct: 17 LIVDNLKLVYHVANKFMPCPKGYYYEVEDLVSEGYIGLVVAAKNYDPTKG-SFSTYACKV 75 Query: 109 IKAAMQ 114 I++ ++ Sbjct: 76 IESKIK 81 >gi|256390724|ref|YP_003112288.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Catenulispora acidiphila DSM 44928] gi|256356950|gb|ACU70447.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Catenulispora acidiphila DSM 44928] Length = 411 Score = 43.5 bits (101), Expect = 0.040, Method: Compositional matrix adjust. Identities = 26/82 (31%), Positives = 43/82 (52%), Gaps = 5/82 (6%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVK 91 +L ++ GDL RL+ H +VK G GLP ++ VS G GL+ A++ Sbjct: 165 ILWDDFKRTGDLGLRERLIL-HYSPLVKYVAGRVRVGLPGALDSADFVSSGIFGLIDAIE 223 Query: 92 KFDPERGFRLATYSMWWIKAAM 113 +F+P R + TY++ I+ A+ Sbjct: 224 RFEPHRHVKFETYAIARIRGAI 245 >gi|163815157|ref|ZP_02206538.1| hypothetical protein COPEUT_01315 [Coprococcus eutactus ATCC 27759] gi|158449566|gb|EDP26561.1| hypothetical protein COPEUT_01315 [Coprococcus eutactus ATCC 27759] Length = 260 Score = 43.5 bits (101), Expect = 0.040, Method: Compositional matrix adjust. Identities = 26/93 (27%), Positives = 45/93 (48%), Gaps = 1/93 (1%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 K+P L + E+ L R E GD SA + +LRLV+ + + ++ G I Sbjct: 15 KLPYLTEDEKNKLFDRM-EQGDESARDEFIEGNLRLVLSVIQRFGSSNENPDDLFQVGCI 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A+ FD + +TY++ I + Y+ Sbjct: 74 GLIKALDNFDRSLNVKFSTYAVPMIIGECRRYL 106 >gi|257065529|ref|YP_003151785.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Anaerococcus prevotii DSM 20548] gi|256797409|gb|ACV28064.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Anaerococcus prevotii DSM 20548] Length = 255 Score = 43.5 bits (101), Expect = 0.041, Method: Compositional matrix adjust. Identities = 18/77 (23%), Positives = 41/77 (53%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y + DL L+ H+ +V ++ Y G G+ ++ ++GL+ AV+++DP +G+ Sbjct: 20 YYQTRDLKLRDELIKEHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAVERYDPTKGYA 79 Query: 101 LATYSMWWIKAAMQEYI 117 ++++ I ++ Y Sbjct: 80 FSSFATPTIMGELKRYF 96 >gi|256832234|ref|YP_003160961.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Jonesia denitrificans DSM 20603] gi|256685765|gb|ACV08658.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Jonesia denitrificans DSM 20603] Length = 283 Score = 43.5 bits (101), Expect = 0.041, Method: Compositional matrix adjust. Identities = 57/243 (23%), Positives = 107/243 (44%), Gaps = 29/243 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ + LV IA G G LP +++VS G GL+ A+ KFDP R + TY+ Sbjct: 52 LILHYAPLVTMIA-GRVGMKLPNTVEAADLVSYGMFGLIDAIDKFDPSRDIKFETYASTR 110 Query: 109 IKAA-MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKL 166 ++ A + E W + + A + R HL+ N L E IA+ L Sbjct: 111 VRGAIIDELRALDWIPRSVRSRARE------YDRACEHLE----NTLHREPTSGEIAQHL 160 Query: 167 NVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---R 221 V E +V + +++ +L+ ++++ D+ D + QE + ++ + + Sbjct: 161 GVPEKDVWQLQWQVSSGHVIALDEVVSTGDR-----VDQISAMDSVQETLAVDPAQSFAQ 215 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +L +++ LN RER + + +TL + V+ RV Q+ + K++ Sbjct: 216 GEMREILAQAVDHLNERERAVVTLYYFRS--MTLSEIGKLLGVTESRVSQMHSAIIVKLR 273 Query: 282 ESI 284 + + Sbjct: 274 KQL 276 >gi|331082586|ref|ZP_08331709.1| RNA polymerase sigma-G factor [Lachnospiraceae bacterium 6_1_63FAA] gi|330400205|gb|EGG79847.1| RNA polymerase sigma-G factor [Lachnospiraceae bacterium 6_1_63FAA] Length = 259 Score = 43.5 bits (101), Expect = 0.042, Method: Compositional matrix adjust. Identities = 55/264 (20%), Positives = 120/264 (45%), Gaps = 37/264 (14%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L +E+ L R +E GD A + + +LRLV+ + + ++ G + Sbjct: 15 RLPILTNEEKDALFVRIKE-GDPEAREQYIKGNLRLVLSVIKRFSSSNENADDLFQIGCV 73 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GL++A+ FD + +TY++ I ++ Y LR + +++ + K ++ Sbjct: 74 GLIKAIDNFDTTLNVKFSTYAVPMIIGEIRRY-LRDNNAIRVSRSLRDVAYKAIYAKENY 132 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K NLK + IA+++ + + E++ +L+A+ S ++ Sbjct: 133 VK--------QNLKEPTINEIAEEIGIDKEEIVY---------ALDAI----QSPVSLYE 171 Query: 202 DWLVYDHDGQEQVLIEK-EERKNRRN------MLTRSMSVLNPRERRIFEARRLQENPVT 254 VY G ++++ ++KN+ + L ++ L+ RE+ I R E Sbjct: 172 P--VYTEGGDTLYVMDQISDKKNKEDNWIENIALKEALKKLDDREQHIV-TMRFYEGKTQ 228 Query: 255 LENLSSEFEVSRERVRQIEARAFK 278 +E ++ E +S+ +V ++E A K Sbjct: 229 ME-VAEEIGISQAQVSRLEKHALK 251 >gi|291544496|emb|CBL17605.1| RNA polymerase sigma factor, sigma-70 family [Ruminococcus sp. 18P13] Length = 204 Score = 43.5 bits (101), Expect = 0.042, Method: Compositional matrix adjust. Identities = 28/102 (27%), Positives = 50/102 (49%), Gaps = 10/102 (9%) Query: 29 LEKQEEYVLAKRYREHGD----LSAAH------RLVTSHLRLVVKIAMGYRGYGLPISEV 78 +E++ E L KR E D LSAA L++ +++L+ A + ++ Sbjct: 1 MEQKREQDLGKRQTERSDEELALSAAKCSDSTAELISRYMKLIWVKANTMANAVVDAEDL 60 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 EG +GLM A+ FDP R + +T++ I M+ ++R+ Sbjct: 61 AQEGMLGLMNAIAHFDPNREIKFSTFADVCITNKMKSALIRT 102 >gi|320012478|gb|ADW07328.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 290 Score = 43.5 bits (101), Expect = 0.042, Method: Compositional matrix adjust. Identities = 54/234 (23%), Positives = 103/234 (44%), Gaps = 20/234 (8%) Query: 61 VVKIAMGY---RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +V+ A G RG G + ++V G IGL++A+ +FD R ++++ +I ++ + Sbjct: 69 LVRFAAGRFRNRGSG-DMEDIVQVGTIGLIKAIDRFDLAREVEFTSFAVPYIVGEIKRFF 127 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV---- 173 + V + + R+ +L + K L D + V +A L++ E E+ Sbjct: 128 RDTTWAVHVPRRLQELRV--DLAKAKEALAVELDRD---PTVQELAGYLDLEEEEITEGL 182 Query: 174 ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 ++ N AG SL ++ D D G+ +E E + L + Sbjct: 183 VAANGYTAG--SLEMPADAGDHAGRTTAGRTYADVLGEPDPAMETVENL---HALAPLLG 237 Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L+ RERRI + R QE +T + E +S+ V ++ +R +K+ + + Q Sbjct: 238 ELDARERRIIDMRFGQE--MTQAQIGDELGISQMHVSRLLSRILRKLHDGMLAQ 289 >gi|317970333|ref|ZP_07971723.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0205] Length = 202 Score = 43.5 bits (101), Expect = 0.042, Method: Compositional matrix adjust. Identities = 31/122 (25%), Positives = 56/122 (45%), Gaps = 9/122 (7%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 +R++ + + L+R I ++ P Q + KR L A +LV +L LV Sbjct: 12 SRRHAPLPERTVLELARTIQRWQQHPAGPTQAPRAIQKR-----GLRARDQLVRHNLALV 66 Query: 62 V----KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 K G ++ + E + L++A +KFDP R +R +TY+ +WI+ + + Sbjct: 67 GFTWRKQHSGLSPEDAATADALQEAALNLLRAAEKFDPTRSYRFSTYASFWIRRGLLRFC 126 Query: 118 LR 119 R Sbjct: 127 QR 128 >gi|330984057|gb|EGH82160.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. lachrymans str. M301315] Length = 227 Score = 43.5 bits (101), Expect = 0.042, Method: Compositional matrix adjust. Identities = 27/70 (38%), Positives = 41/70 (58%), Gaps = 6/70 (8%) Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + L ++ L RE+ I AR LQ+ TL +L+++F VS ERVRQ+E+ A KK++ Sbjct: 161 STLEEGIANLPEREKLIVLARHLQDPRATLADLATKFGVSIERVRQLESSAIKKLRN--- 217 Query: 286 KQVELSSSPP 295 L+ PP Sbjct: 218 ---HLAEHPP 224 >gi|317060933|ref|ZP_07925418.1| predicted protein [Fusobacterium sp. D12] gi|313686609|gb|EFS23444.1| predicted protein [Fusobacterium sp. D12] Length = 149 Score = 43.5 bits (101), Expect = 0.042, Method: Compositional matrix adjust. Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 4/72 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD+ A + L+ ++ LV KI R YG + EG + A+ KFD + +L++Y Sbjct: 2 GDIEARNELIEKNINLVHKIN---RMYGSS-EDGFQEGILAFCHAIDKFDETKNVKLSSY 57 Query: 105 SMWWIKAAMQEY 116 + WI+ ++ Y Sbjct: 58 AFHWIRQKIKRY 69 >gi|317055657|ref|YP_004104124.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Ruminococcus albus 7] gi|315447926|gb|ADU21490.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ruminococcus albus 7] Length = 218 Score = 43.5 bits (101), Expect = 0.042, Method: Compositional matrix adjust. Identities = 46/193 (23%), Positives = 81/193 (41%), Gaps = 26/193 (13%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +L LV A +RG G+ ++ G +GL++A + FD RG + +TY++ I ++ Sbjct: 12 NLGLVHLCANRFRGRGIEYDDLYGAGCMGLVKASRAFDASRGVKFSTYAVPVILGEIKR- 70 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 + R VK+ + + K L + R Q N + V ++ +VI Sbjct: 71 LFRDGGTVKV--SRSLKELSLKITRAS---QTFAHKNGREPTVSELSDITGADPDDVI-- 123 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE---ERKNRRNMLTRSMS 233 E+LNA S + D DG+ Q + E E R L + +S Sbjct: 124 -------EALNA--------SQPTVSLTIGDEDGESQTDLPTEPPDEDITDRLALRQVLS 168 Query: 234 VLNPRERRIFEAR 246 L+ +R++ + R Sbjct: 169 ELSADDRKLIDLR 181 >gi|260589168|ref|ZP_05855081.1| RNA polymerase sigma-G factor [Blautia hansenii DSM 20583] gi|260540249|gb|EEX20818.1| RNA polymerase sigma-G factor [Blautia hansenii DSM 20583] Length = 266 Score = 43.5 bits (101), Expect = 0.043, Method: Compositional matrix adjust. Identities = 55/264 (20%), Positives = 120/264 (45%), Gaps = 37/264 (14%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNI 84 ++P+L +E+ L R +E GD A + + +LRLV+ + + ++ G + Sbjct: 22 RLPILTNEEKDALFVRIKE-GDPEAREQYIKGNLRLVLSVIKRFSSSNENADDLFQIGCV 80 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ---KRLFFNLRR 141 GL++A+ FD + +TY++ I ++ Y LR + +++ + K ++ Sbjct: 81 GLIKAIDNFDTTLNVKFSTYAVPMIIGEIRRY-LRDNNAIRVSRSLRDVAYKAIYAKENY 139 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 +K NLK + IA+++ + + E++ +L+A+ S ++ Sbjct: 140 VK--------QNLKEPTINEIAEEIGIDKEEIVY---------ALDAI----QSPVSLYE 178 Query: 202 DWLVYDHDGQEQVLIEK-EERKNRRN------MLTRSMSVLNPRERRIFEARRLQENPVT 254 VY G ++++ ++KN+ + L ++ L+ RE+ I R E Sbjct: 179 P--VYTEGGDTLYVMDQISDKKNKEDNWIENIALKEALKKLDDREQHIV-TMRFYEGKTQ 235 Query: 255 LENLSSEFEVSRERVRQIEARAFK 278 +E ++ E +S+ +V ++E A K Sbjct: 236 ME-VAEEIGISQAQVSRLEKHALK 258 >gi|222094730|ref|YP_002528790.1| RNA polymerase sigma factor sigb [Bacillus cereus Q1] gi|221238788|gb|ACM11498.1| RNA polymerase sigma-B factor [Bacillus cereus Q1] Length = 257 Score = 43.1 bits (100), Expect = 0.044, Method: Compositional matrix adjust. Identities = 54/231 (23%), Positives = 109/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPM-LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P L K++ L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTTLTKEDVMKLIAEFQQNQCDEAQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDRLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 214 >gi|148359326|ref|YP_001250533.1| flagellar biosynthesis sigma factor FliA [Legionella pneumophila str. Corby] gi|296107373|ref|YP_003619073.1| RNA polymerase sigma factor for flagellar operon FliA [Legionella pneumophila 2300/99 Alcoy] gi|148281099|gb|ABQ55187.1| flagellar biosynthesis sigma factor FliA [Legionella pneumophila str. Corby] gi|295649274|gb|ADG25121.1| RNA polymerase sigma factor for flagellar operon FliA [Legionella pneumophila 2300/99 Alcoy] Length = 238 Score = 43.1 bits (100), Expect = 0.044, Method: Compositional matrix adjust. Identities = 52/236 (22%), Positives = 108/236 (45%), Gaps = 27/236 (11%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H LV +IA +G + + +++ G +GL++A + +D +G TY+ I Sbjct: 18 LVKTHATLVKRIAHHLLGRLPQSVQLDDLIQSGMLGLLEAARHYDSSKGASFETYAGIRI 77 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 + M + + R+ W V N + + +R L+ L + DN + E V++ + Sbjct: 78 RGHMLDEVRRNDW--VPRSVYRNSRMISDAVRILEHKLGREAKDNEIAEELGVSLNDYHD 135 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + S++ L G + L D +++D +G E R +M Sbjct: 136 MLQD---SISSHLYGFDDLGV------------TDDILFDDEGNGST--EPHRNVMRSDM 178 Query: 228 LTRSMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R V++ PR+ R+ + +++ + L+ + EVS R+ QI ++A +++ Sbjct: 179 MNRLTQVIDSLPRKERLVLSLYYEQD-LNLKEIGEILEVSESRISQILSQATHRIR 233 >gi|133478|sp|P12254|RPSK_BACSU RecName: Full=RNA polymerase sigma-K factor; AltName: Full=Sigma-27; AltName: Full=Stage IV sporulation protein CB; Flags: Precursor Length = 294 Score = 43.1 bits (100), Expect = 0.044, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 3/75 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++ ++ + Sbjct: 38 KKYLELMAKGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSA 97 Query: 96 ERGFRLATYSMWWIK 110 +G +LATY+ I+ Sbjct: 98 GKGTKLATYAARCIE 112 >gi|217958581|ref|YP_002337129.1| RNA polymerase sigma factor SigB [Bacillus cereus AH187] gi|217065197|gb|ACJ79447.1| RNA polymerase sigma-B factor [Bacillus cereus AH187] Length = 257 Score = 43.1 bits (100), Expect = 0.044, Method: Compositional matrix adjust. Identities = 53/231 (22%), Positives = 109/231 (47%), Gaps = 27/231 (11%) Query: 22 EIRKIPMLEKQEEYV-LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVS 80 EI+ P +E+ + L ++++ A RLV + LV IA Y G +++ Sbjct: 2 EIQSQPTTLTKEDVIKLIAEFQQNQCDEAQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQ 61 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNL 139 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 62 VGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDL 114 Query: 140 -RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NS 192 ++K ++ +TD + +++ IA L +SE EV+ + N R++ SL+ ++ N+ Sbjct: 115 GGKIKLAIEELTDRLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENA 171 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SD +S + + G E+ RR +L +VLN E+ + Sbjct: 172 SDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 214 >gi|312622956|ref|YP_004024569.1| RNA polymerase, sigma 28 subunit, sigk [Caldicellulosiruptor kronotskyensis 2002] gi|312203423|gb|ADQ46750.1| RNA polymerase, sigma 28 subunit, SigK [Caldicellulosiruptor kronotskyensis 2002] Length = 219 Score = 43.1 bits (100), Expect = 0.045, Method: Compositional matrix adjust. Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 PM ++EE L K + G A + L+ +LRLV IA Y + P +++S G I Sbjct: 13 PMSPEEEEMYLNKMW--EGCKEARNILIEKNLRLVAHIAKKYT-FSFPNLTDDIISVGTI 69 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + + +L+TY+ I+ + Y+ Sbjct: 70 GLIKAIETYSSAKCTKLSTYAAKCIENEILMYL 102 >gi|305644356|gb|ADM53779.1| RNA polymerase sigma factor [Aeromonas hydrophila] Length = 176 Score = 43.1 bits (100), Expect = 0.045, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 27/42 (64%) Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GLM+AV KF+ RG++ +TY+ WWI+ A+ I ++I Sbjct: 1 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 42 >gi|114320145|ref|YP_741828.1| RNA polymerase, sigma 28 subunit [Alkalilimnicola ehrlichii MLHE-1] gi|114226539|gb|ABI56338.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Alkalilimnicola ehrlichii MLHE-1] Length = 242 Score = 43.1 bits (100), Expect = 0.046, Method: Compositional matrix adjust. Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 4/74 (5%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ H LV +IA G P + +++ G +GL++A ++FDP +G TY+ I Sbjct: 18 LLVQHASLVKRIAHHLAGRLPPSVQLDDLIQAGMVGLLEAARQFDPGQGASFQTYAGIRI 77 Query: 110 KAAMQEYILR-SWS 122 + AM + I R W+ Sbjct: 78 RGAMLDEIRRLDWT 91 >gi|186681796|ref|YP_001864992.1| RNA polymerase sigma factor SigF [Nostoc punctiforme PCC 73102] gi|186464248|gb|ACC80049.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Nostoc punctiforme PCC 73102] Length = 261 Score = 43.1 bits (100), Expect = 0.047, Method: Compositional matrix adjust. Identities = 22/87 (25%), Positives = 49/87 (56%), Gaps = 1/87 (1%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 Y ++ + ++LV H LV K+A + P ++ G GL++A+++FDP +G+ Sbjct: 19 YHQNPSIKLRNKLVQLHTGLVRKMAHKFSHQCNEPYEDLEQIGYFGLIRAIERFDPSQGY 78 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 +++++ +I+ M ++ +L+KI Sbjct: 79 AFSSFAVPYIRGEMLHFLRDRSTLLKI 105 >gi|257463359|ref|ZP_05627755.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. D12] Length = 155 Score = 43.1 bits (100), Expect = 0.048, Method: Compositional matrix adjust. Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 4/72 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD+ A + L+ ++ LV KI R YG + EG + A+ KFD + +L++Y Sbjct: 8 GDIEARNELIEKNINLVHKIN---RMYGSS-EDGFQEGILAFCHAIDKFDETKNVKLSSY 63 Query: 105 SMWWIKAAMQEY 116 + WI+ ++ Y Sbjct: 64 AFHWIRQKIKRY 75 >gi|167745425|ref|ZP_02417552.1| hypothetical protein ANACAC_00116 [Anaerostipes caccae DSM 14662] gi|317473026|ref|ZP_07932327.1| RNA polymerase sigma-70 factor [Anaerostipes sp. 3_2_56FAA] gi|167655146|gb|EDR99275.1| hypothetical protein ANACAC_00116 [Anaerostipes caccae DSM 14662] gi|316899509|gb|EFV21522.1| RNA polymerase sigma-70 factor [Anaerostipes sp. 3_2_56FAA] Length = 241 Score = 43.1 bits (100), Expect = 0.048, Method: Compositional matrix adjust. Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 1/82 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++V ++ L+ + + G G ++ G+IGL++AV KFD + +TY Sbjct: 14 GDQDAREKIVLDNMGLIWSVVKRFTGRGHEPEDLFQIGSIGLLKAVDKFDLSYDVKFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKI 126 ++ I ++ + LR ++K+ Sbjct: 74 AVPMITGEIKRF-LRDDGMIKV 94 >gi|302556969|ref|ZP_07309311.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] gi|302474587|gb|EFL37680.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] Length = 295 Score = 43.1 bits (100), Expect = 0.048, Method: Compositional matrix adjust. Identities = 44/196 (22%), Positives = 92/196 (46%), Gaps = 20/196 (10%) Query: 61 VVKIAMG-YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 +V+ A G +RG G + +VV G IGL++A+ +F+ R ++++ +I ++ + Sbjct: 75 LVRFAAGRFRGRGDDMDDVVQTGMIGLIKAIDRFELAREVEFTSFALPYIVGEIKRFFRD 134 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 + V + + R+ L + + L + D + V +A +N++E +V+ Sbjct: 135 TTWAVHVPRRLQELRV--ELAKAREELASRLD---REPTVAELATLMNITEQQVVEGQIA 189 Query: 180 LAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSV 234 G SL+A + + ++ + ++ D G E+ L+E + L M+ Sbjct: 190 ANGYNSSSLDAALTG---DGPEYGEAVLADFIGVEEEGLRLVED------FHSLAPLMAE 240 Query: 235 LNPRERRIFEARRLQE 250 L+PR+R I R ++E Sbjct: 241 LSPRDREILHLRFVEE 256 >gi|255526140|ref|ZP_05393061.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium carboxidivorans P7] gi|296187150|ref|ZP_06855547.1| RNA polymerase sigma-F factor [Clostridium carboxidivorans P7] gi|255510189|gb|EET86508.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium carboxidivorans P7] gi|296048185|gb|EFG87622.1| RNA polymerase sigma-F factor [Clostridium carboxidivorans P7] Length = 251 Score = 43.1 bits (100), Expect = 0.049, Method: Compositional matrix adjust. Identities = 54/253 (21%), Positives = 116/253 (45%), Gaps = 32/253 (12%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 +Y +G+ A ++L+ +L LV I+ + G ++ G +GL++AV FD + Sbjct: 21 KYARNGNKDALNKLIEVNLPLVSAISKKFLNRGYEYEDIFQIGCMGLVKAVNNFDEKYNV 80 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY++ I ++ +I R ++K+ + ++L +A+T Sbjct: 81 KFSTYAVPMILGEIKRFI-RDDGMIKVSRSVKN-----TAKKLHYAKEALTKQ------- 127 Query: 160 VAIAKKLNVSE-SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 I+++ + E SE + G E + + SS NS Q+ ++ DG +LI+K Sbjct: 128 --ISREPTIEELSEYSGI-----GVEDIIFAMESS--NSLQYLYDTIHQDDGAPVLLIDK 178 Query: 219 EERKNRRN-------MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 + R+ L ++ L+ + R+I R ++ T ++ +S+ +V + Sbjct: 179 LSESSDRDSEIVDRIALKEALKNLDVKSRQIIMLRYFKDK--TQIQVAKMLGISQVQVSR 236 Query: 272 IEARAFKKVQESI 284 IE + K ++E++ Sbjct: 237 IEKKVLKVMRENL 249 >gi|238927435|ref|ZP_04659195.1| DNA-directed RNA polymerase sigma subunit D [Selenomonas flueggei ATCC 43531] gi|238884717|gb|EEQ48355.1| DNA-directed RNA polymerase sigma subunit D [Selenomonas flueggei ATCC 43531] Length = 252 Score = 43.1 bits (100), Expect = 0.049, Method: Compositional matrix adjust. Identities = 61/267 (22%), Positives = 123/267 (46%), Gaps = 31/267 (11%) Query: 28 MLEKQEEY---VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVS 80 M E+ EE L + Y ++ +R+ +L LV ++ G LP +++S Sbjct: 4 MAEQTEEENIEALWQEYEREKTVAVRNRIAEYYLPLV-RLVAGRIAISLPQHVDREDLLS 62 Query: 81 EGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLR 140 G GL+ A+++++ RG + TY+ ++ AM ++ LR+ V + N K+ + Sbjct: 63 SGFFGLLDAIERYELARGNKFETYAGVRVRGAMLDH-LRAKDWVPVSVRQNIKKYEKTVA 121 Query: 141 RLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ 199 +L+G L +A TD L E ++I ++L+ ES+V S + +E L A +S ++ Sbjct: 122 QLEGELGRAATDKELAEELNLSI-EELHHLESQV-SAATVIPLEEYLRADTQASLEDGP- 178 Query: 200 WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS 259 +E E + L ++ L +ER + E +TL+ ++ Sbjct: 179 ----------------VEHAEWTEVKETLAAAIEKLPEKERTVIALYYYDE--MTLKEIA 220 Query: 260 SEFEVSRERVRQIEARAFKKVQESIQK 286 + +S R+ Q+ +A +++ S+ + Sbjct: 221 AILHLSEARISQLHTKAIFRMRGSLAR 247 >gi|188025882|ref|ZP_02960155.2| hypothetical protein PROSTU_02069 [Providencia stuartii ATCC 25827] gi|188020848|gb|EDU58888.1| hypothetical protein PROSTU_02069 [Providencia stuartii ATCC 25827] Length = 246 Score = 43.1 bits (100), Expect = 0.050, Method: Compositional matrix adjust. Identities = 47/225 (20%), Positives = 101/225 (44%), Gaps = 34/225 (15%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 I +++ G IGL+ A+++FD +G ATY++ I+ +M E R W+ + + Sbjct: 45 IDDLIQAGGIGLLHALERFDASQGASFATYAVQRIRGSMLDELRSRDWAPRSV------R 98 Query: 134 RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 R + ++ G L Q+++ + + E IA+ LN+ +E AL+++ Sbjct: 99 RQAREMAKVIGELEQSLSRSATESE----IAQALNIDVTEY------------RQALLDT 142 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE--------RKNRRNMLTRSMSVLNPRERRIFE 244 ++ + +W + E + E + N R + ++ L RE+ + Sbjct: 143 NNSQLYSYDEWHEIHGESCEPAIDESDGGNPLSLLMESNLRAQIIEAIEQLPEREKLVLT 202 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +E + L+ + + EV RV Q+ ++A K+++ ++ E Sbjct: 203 LYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRGRLKSLTE 245 >gi|17226799|gb|AAL37943.1|AF359562_4 SigB [Staphylococcus epidermidis] Length = 256 Score = 43.1 bits (100), Expect = 0.051, Method: Compositional matrix adjust. Identities = 53/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K+++E+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KQHQENEDSQAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSERERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|253998499|ref|YP_003050562.1| flagellar biosynthesis sigma factor [Methylovorus sp. SIP3-4] gi|313200585|ref|YP_004039243.1| RNA polymerase sigma-28 subunit FliA/WhiG [Methylovorus sp. MP688] gi|253985178|gb|ACT50035.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Methylovorus sp. SIP3-4] gi|312439901|gb|ADQ84007.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Methylovorus sp. MP688] Length = 244 Score = 43.1 bits (100), Expect = 0.051, Method: Compositional matrix adjust. Identities = 53/251 (21%), Positives = 108/251 (43%), Gaps = 16/251 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPER 97 Y G + L+ H LV K+A + P + ++V G +GL+ A+ +++ Sbjct: 2 YTATGKPNQKDSLLHQHATLVKKLAYQLKAKLPPSVELDDLVQAGMMGLLDAINRYEDTH 61 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G + TY+ I+ AM + LR+ + + + N+R ++G + + +P Sbjct: 62 GAQFETYAAQRIRGAMIDE-LRNADWLP-------RSIRKNMRDVEGAINQLEQVLGRPP 113 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 +AK+L +S + M +G + L + + D + D G I+ Sbjct: 114 TEGEVAKQLKMSLDDYYDMLGECSGHQLLYYEDFHESEGGDHFLDRFLQDDSGNP---IK 170 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 N R L ++ L RE+ + QE + L+ + + VS RV Q+ ++A Sbjct: 171 GLLDSNFRETLIEAIENLPEREQILMGLYYEQE--LNLKEIGAVMNVSESRVCQLHSQAI 228 Query: 278 KKVQESIQKQV 288 +++ +++Q+ Sbjct: 229 ARLRAYMKEQL 239 >gi|329735692|gb|EGG71975.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis VCU028] Length = 256 Score = 43.1 bits (100), Expect = 0.051, Method: Compositional matrix adjust. Identities = 53/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K+++E+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KQHQENEDSQAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSERERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|323698081|ref|ZP_08109993.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio sp. ND132] gi|323458013|gb|EGB13878.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio desulfuricans ND132] Length = 261 Score = 43.1 bits (100), Expect = 0.051, Method: Compositional matrix adjust. Identities = 19/45 (42%), Positives = 31/45 (68%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 ++E++S G++GL+ A+ KF+PE G + TYS IK AM + + R Sbjct: 64 LNELISAGSLGLLDALGKFNPELGIKFDTYSENRIKGAMLDELRR 108 >gi|160936421|ref|ZP_02083790.1| hypothetical protein CLOBOL_01313 [Clostridium bolteae ATCC BAA-613] gi|158440704|gb|EDP18442.1| hypothetical protein CLOBOL_01313 [Clostridium bolteae ATCC BAA-613] Length = 199 Score = 43.1 bits (100), Expect = 0.051, Method: Compositional matrix adjust. Identities = 27/76 (35%), Positives = 39/76 (51%), Gaps = 1/76 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+R I LE+ +E V GD A RLV L V+++ Y LP+S++ Sbjct: 10 YLEEMRSITPLER-DEMVSVLEGTARGDAGARSRLVEGCLGEVLEMVREYGDSELPLSDL 68 Query: 79 VSEGNIGLMQAVKKFD 94 V E N LM A ++D Sbjct: 69 VQEANTALMLAAIEYD 84 >gi|154499842|ref|ZP_02037880.1| hypothetical protein BACCAP_03499 [Bacteroides capillosus ATCC 29799] gi|150271440|gb|EDM98697.1| hypothetical protein BACCAP_03499 [Bacteroides capillosus ATCC 29799] Length = 235 Score = 43.1 bits (100), Expect = 0.051, Method: Compositional matrix adjust. Identities = 24/83 (28%), Positives = 43/83 (51%), Gaps = 1/83 (1%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A R++ + L+ I Y G G+ ++ G +G ++AV+ FDP G + +T Sbjct: 14 QGDNDACARMMEENSGLIWSIVRRYYGRGVDPEDLYQLGCMGFLKAVRGFDPAFGCQFST 73 Query: 104 YSMWWIKAAMQEYILRSWSLVKI 126 Y++ I ++ + LR VK+ Sbjct: 74 YAVPKIAGEIRRF-LRDDGAVKV 95 >gi|296121398|ref|YP_003629176.1| RNA polymerase sigma factor, FliA/WhiG family [Planctomyces limnophilus DSM 3776] gi|296013738|gb|ADG66977.1| RNA polymerase sigma factor, FliA/WhiG family [Planctomyces limnophilus DSM 3776] Length = 259 Score = 43.1 bits (100), Expect = 0.052, Method: Compositional matrix adjust. Identities = 18/42 (42%), Positives = 28/42 (66%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 G+ I++++S G GLM A++ FD ERG + TY + I+ AM Sbjct: 51 GVDINDLISAGVFGLMDAIEAFDMERGVKFETYCVPRIRGAM 92 >gi|269792915|ref|YP_003317819.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermanaerovibrio acidaminovorans DSM 6589] gi|269100550|gb|ACZ19537.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermanaerovibrio acidaminovorans DSM 6589] Length = 245 Score = 43.1 bits (100), Expect = 0.053, Method: Compositional matrix adjust. Identities = 49/219 (22%), Positives = 98/219 (44%), Gaps = 26/219 (11%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++S G +GL+ A+ +FDP RGF T+++ I+ A+ + + R + + G Sbjct: 46 GLDYDDILSFGVMGLLDAMDRFDPSRGFCFQTFAVPRIRGAILDELRRYDWISRTGRDKL 105 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES------EVISMNCRLAGDES 185 Q+ + D+ A+ ++L ++E E+ S + ++ DE Sbjct: 106 QR--LERAMEEAAAEGTLLDDE-------ALMERLGMNEKSYRELLEIASRSYVVSLDEV 156 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 L ++ +D L+ D Q E+ ER+ ++ R++ L RER + + Sbjct: 157 LGL------EDGEVKRDGLLEDPSPSPQ---EEVERREELALVRRALEELPERERLLL-S 206 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 QE +TL+ + + V+ R Q+ RA ++ + Sbjct: 207 LYYQEG-LTLKEVGAVLGVTESRASQLHGRAIAMLRSKL 244 >gi|251798285|ref|YP_003013016.1| sporulation sigma factor SigK [Paenibacillus sp. JDR-2] gi|247545911|gb|ACT02930.1| RNA polymerase, sigma 28 subunit, SigK [Paenibacillus sp. JDR-2] Length = 232 Score = 43.1 bits (100), Expect = 0.053, Method: Compositional matrix adjust. Identities = 20/66 (30%), Positives = 39/66 (59%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ + + L+ +LRLV I + G + +++S G IGL++A++ F +G +LAT+ Sbjct: 45 GNAHSRNLLIEHNLRLVAHIVKKFDNTGEDLEDLISIGTIGLIKAIESFQTGKGTKLATF 104 Query: 105 SMWWIK 110 + I+ Sbjct: 105 AARCIE 110 >gi|167462564|ref|ZP_02327653.1| sporulation sigma factor SigF [Paenibacillus larvae subsp. larvae BRL-230010] Length = 251 Score = 43.1 bits (100), Expect = 0.053, Method: Compositional matrix adjust. Identities = 55/246 (22%), Positives = 114/246 (46%), Gaps = 22/246 (8%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A LV ++RLV + + G ++ G IGL+++V KF+ + + Sbjct: 26 QSGDTIARDTLVNCNIRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFNLSYEVKFS 85 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR +K+ + K L +R+ K L + N + + + Sbjct: 86 TYAVPMIIGEIQRF-LRDDGTLKVSRSL--KELANKVRKTKDEL---SKNLERLPTLKEV 139 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A L ++ EV+ ++ L+++ + +N W + D Q+ + +E+ Sbjct: 140 ANALGITPEEVVFAQ---EANKPLSSIHETVFEND--WDPITLMD-----QIADDSQEKW 189 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L ++ L+ RER I R ++ T +++ +S+ +V ++E KK+ + Sbjct: 190 FDKLALNEAIEGLSERERLIVYLRYFKDQ--TQSEVANRLGISQVQVSRLE----KKILQ 243 Query: 283 SIQKQV 288 SI+ Q+ Sbjct: 244 SIRNQI 249 >gi|157826497|ref|YP_001495561.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] gi|157801801|gb|ABV78524.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] Length = 81 Score = 43.1 bits (100), Expect = 0.053, Method: Compositional matrix adjust. Identities = 22/56 (39%), Positives = 35/56 (62%), Gaps = 2/56 (3%) Query: 232 MSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ L PRE R+ R TLE + +F+V+RER+RQIE++A +K+Q I+ Sbjct: 2 LATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIR 57 >gi|167755690|ref|ZP_02427817.1| hypothetical protein CLORAM_01205 [Clostridium ramosum DSM 1402] gi|237734438|ref|ZP_04564919.1| sporulation sigma factor sigF [Mollicutes bacterium D7] gi|167704629|gb|EDS19208.1| hypothetical protein CLORAM_01205 [Clostridium ramosum DSM 1402] gi|229382668|gb|EEO32759.1| sporulation sigma factor sigF [Coprobacillus sp. D7] Length = 240 Score = 43.1 bits (100), Expect = 0.055, Method: Compositional matrix adjust. Identities = 34/130 (26%), Positives = 59/130 (45%), Gaps = 6/130 (4%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A +V+ +L LV I ++ ++ G IGLM+AV FD G + +TY Sbjct: 16 GDDRAKELVVSQNLGLVWSIVHRFKNNYYDKEDLFQIGCIGLMKAVNNFDTNYGVQFSTY 75 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ Y R +K+ + + L N R + +T+ + V IA Sbjct: 76 AVPIIMGEIKRY-FRDDGTIKVSRSLKELNLKINKAR-----ELLTNQTGQDPTVEQIAA 129 Query: 165 KLNVSESEVI 174 L+V +V+ Sbjct: 130 YLDVDVQDVV 139 >gi|239933011|ref|ZP_04689964.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291441364|ref|ZP_06580754.1| conserved hypothetical protein [Streptomyces ghanaensis ATCC 14672] gi|291344259|gb|EFE71215.1| conserved hypothetical protein [Streptomyces ghanaensis ATCC 14672] Length = 287 Score = 42.7 bits (99), Expect = 0.057, Method: Compositional matrix adjust. Identities = 60/245 (24%), Positives = 107/245 (43%), Gaps = 34/245 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT+ L + +IA +R G I ++ +GL++A+ +FDP RG +Y++ I Sbjct: 53 LVTAWLPMAHRIAGRFRDRGESIEDLRQVAALGLVKAIDRFDPGRGA-FESYAVPTITGE 111 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPEQVVA-IAKKLNVS 169 ++ + R W+L R LR +++ + +T N PE VA IA ++ Sbjct: 112 VKRHFRDRMWAL-------RVPRRVQELRNKVRVARRELTQNPGSPEPSVADIAAHTGLT 164 Query: 170 ESEVISMNCRLAGDESLNALIN-------SSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 E EV AG E+L + S+D + D L D ++I++E K Sbjct: 165 EEEVG------AGMEALESFSTLSLDAELSADDDGYSLADTLGA-SDASYDIVIDRESAK 217 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L RER I R ++ +T ++ +S+ V ++ +R+ +V+ Sbjct: 218 E-------GLRRLPERERAILYMRFFED--MTQSRIADRLGISQMHVSRLISRSCARVRA 268 Query: 283 SIQKQ 287 Q Sbjct: 269 EAMGQ 273 >gi|115377816|ref|ZP_01465004.1| RNA polymerase sigma factor for flagellar operon [Stigmatella aurantiaca DW4/3-1] gi|310820297|ref|YP_003952655.1| RNA polymerase sigma-70 factor [Stigmatella aurantiaca DW4/3-1] gi|115365148|gb|EAU64195.1| RNA polymerase sigma factor for flagellar operon [Stigmatella aurantiaca DW4/3-1] gi|309393369|gb|ADO70828.1| RNA polymerase sigma-70 factor [Stigmatella aurantiaca DW4/3-1] Length = 260 Score = 42.7 bits (99), Expect = 0.057, Method: Compositional matrix adjust. Identities = 59/228 (25%), Positives = 105/228 (46%), Gaps = 30/228 (13%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 L + E+VS G IGL++A +FDP+ G T++ + IK A+ + LR +++ G Sbjct: 16 LELDELVSYGQIGLLEAADRFDPKVGANFLTFAHYRIKGAIFDG-LRKMGILRGGDA--- 71 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 R F R +L ++D EQ + + +V ++ +AG L + + Sbjct: 72 -RSAFVGERAAAYLGNLSDR----EQ--GGGNRGGSFDDDVNDISNAVAG---LAMVFAT 121 Query: 193 S--DKNSSQWQD-WLVYDHDGQEQVLIEKEERKNR-RNMLTRSMSVLNPRERRIFEARRL 248 S +S+ + D L D +E E+ K R R + R L +ER++ + Sbjct: 122 SLEGADSAGYSDESLPADQ------RLEMEQLKRRVRAAIER----LPDKERQLLQGYYF 171 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 Q TLE SE S+ ++ ARA ++++E + ++ +SS L Sbjct: 172 QGR--TLEEAGSEIGQSKSWASRLHARAIERLKEFLDEEEAPASSDEL 217 >gi|299535877|ref|ZP_07049197.1| sporulation sigma factor SigG [Lysinibacillus fusiformis ZC1] gi|298728629|gb|EFI69184.1| sporulation sigma factor SigG [Lysinibacillus fusiformis ZC1] Length = 257 Score = 42.7 bits (99), Expect = 0.058, Method: Compositional matrix adjust. Identities = 57/258 (22%), Positives = 116/258 (44%), Gaps = 17/258 (6%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ +E L R + G+ LV +LRLV+ I + G ++ G IG Sbjct: 15 LPILKHEEMKELFIRL-QAGETEIREELVMCNLRLVLSIVGRFAYRGEQADDLFQVGCIG 73 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+A+ FD + R +TY++ I ++ + LR +++ + + ++ Sbjct: 74 LMKAIDHFDLKHNVRFSTYAVPMIIGEIRRH-LRDHHALRVSRSLRD----IAYKAMQAK 128 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 Q ITD NL+ + IA+ +++ + +V+ + SL I S ++ D L Sbjct: 129 EQWITD-NLREPTIEEIAEMIDMKKEDVLFALDAIQDPVSLQEPIYSDGGDAVYMMDQLR 187 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 D ++Q + + S+ L+ R++ I A+R E ++ E +S Sbjct: 188 DDDVSEDQWVAYVS--------VKESLQKLDERQQMIV-AKRFYYGETQTE-IAKELGIS 237 Query: 266 RERVRQIEARAFKKVQES 283 + ++ ++E A + +Q+ Sbjct: 238 QAQISRLEKNAIETMQKD 255 >gi|294013075|ref|YP_003546535.1| RNA polymerase sigma factor for flagellar operon FliA [Sphingobium japonicum UT26S] gi|292676405|dbj|BAI97923.1| RNA polymerase sigma factor for flagellar operon FliA [Sphingobium japonicum UT26S] Length = 245 Score = 42.7 bits (99), Expect = 0.058, Method: Compositional matrix adjust. Identities = 53/252 (21%), Positives = 116/252 (46%), Gaps = 25/252 (9%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFD 94 A Y S+ RL ++ LV KIA G + I +++ G + L++A F+ Sbjct: 12 ANTYGRSAHASSPERLARQYMPLVRKIAWHVHGRVSSAIEIEDLLQIGMVALVEAANGFE 71 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNN 153 +RG A+Y+ ++ AM +++ R ++ + + +Q++ +R RL+ Q + Sbjct: 72 -DRGLGFASYAQMRVRGAMIDHLRRHATMTR--SAMSQRKQLAAIRNRLE---QRLGRAP 125 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 L+ E + L+ + ++ C + S++ + SD++ W D + Sbjct: 126 LEAEMSAEMG--LDAAAYREVADGCEMVQHTSMDEVY--SDQSM-----WFADVEDRADD 176 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 ++ ER++ + L + + L RE + + ++E + LE + + ++ RV QI+ Sbjct: 177 IM----ERESLKGALAQYIGELPQREALVLQLYFVEE--LNLEEIGATLDIGAARVCQIK 230 Query: 274 ARAFKKVQESIQ 285 A K++E ++ Sbjct: 231 KAALDKLREKLR 242 >gi|91223562|ref|ZP_01258827.1| flagellar biosynthesis sigma factor [Vibrio alginolyticus 12G01] gi|269965686|ref|ZP_06179799.1| flagellar biosynthesis sigma factor FliA [Vibrio alginolyticus 40B] gi|91191648|gb|EAS77912.1| flagellar biosynthesis sigma factor [Vibrio alginolyticus 12G01] gi|269829754|gb|EEZ83990.1| flagellar biosynthesis sigma factor FliA [Vibrio alginolyticus 40B] Length = 244 Score = 42.7 bits (99), Expect = 0.058, Method: Compositional matrix adjust. Identities = 56/250 (22%), Positives = 106/250 (42%), Gaps = 27/250 (10%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +HG ++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 AITYDQHGKFNSQQAFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +G TY+ I+ AM + +R V N + + + L+G L + Sbjct: 64 GSKGASFETYAGIRIRGAMLDD-MRKGDWVPRSVHKNNREINQAIAELEGELNR---DPT 119 Query: 155 KPEQVVAIAKKLNVSESEVISMNC-RLAGDESL---NALINSSDKNSSQWQDWLVYDHDG 210 E + L+ S + +NC +L G E L + +I+ +D+ D Sbjct: 120 DSEVATHLGMTLDQYHSALTDINCSKLVGIEDLGVSDDVISPADET----------DDSN 169 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 + ++++ RK L S+ L RE + +E + L+ + VS RV Sbjct: 170 PFKGVVDESFRK----ALVESIKQLPEREALVLSLYYDEE--LNLKEIGDVLGVSESRVS 223 Query: 271 QIEARAFKKV 280 QI ++A +++ Sbjct: 224 QILSQAMQRL 233 >gi|3249725|gb|AAC26665.1| RNA polymerase sigma-like factor [Streptomyces glauceuces] Length = 162 Score = 42.7 bits (99), Expect = 0.058, Method: Compositional matrix adjust. Identities = 49/181 (27%), Positives = 75/181 (41%), Gaps = 30/181 (16%) Query: 104 YSMWWIKAAMQEYILRSWSLVK--------IGTTANQKRLFFNLRRLKGHLQAI-TDNNL 154 Y+ WWI+ AM + ++ I +R R ++ + I D +L Sbjct: 1 YATWWIRQAMSRALADQADTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIGVDLDL 60 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 PE+V I L + + V SL+A + D S + D + DG Sbjct: 61 TPERVTDI---LRLGQEPV-----------SLHAPVGEEDDVS--FGDLI---EDGDAAS 101 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQI 272 +E R L +S L RER++ + R E+ P TLE + F V+RER+RQI Sbjct: 102 PVESAVFLLLREHLEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQI 161 Query: 273 E 273 E Sbjct: 162 E 162 >gi|293375374|ref|ZP_06621655.1| putative RNA polymerase sigma-H factor [Turicibacter sanguinis PC909] gi|325844422|ref|ZP_08168149.1| putative RNA polymerase sigma-H factor [Turicibacter sp. HGF1] gi|292645927|gb|EFF63956.1| putative RNA polymerase sigma-H factor [Turicibacter sanguinis PC909] gi|325489096|gb|EGC91480.1| putative RNA polymerase sigma-H factor [Turicibacter sp. HGF1] Length = 200 Score = 42.7 bits (99), Expect = 0.059, Method: Compositional matrix adjust. Identities = 50/212 (23%), Positives = 84/212 (39%), Gaps = 30/212 (14%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 M + +Y L RE + A H ++ + L+ KIA Y G G + EG + + Sbjct: 1 MTVEYNDYELVYLVREQNE-EALHIIIEKYSPLIGKIASSYYGIGYDYQDFFQEGRMAFI 59 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 +A+ FD + +Y+M ++ A+ T + +R L+R G L Sbjct: 60 KAIYSFDENSNYSFYSYAMTCVRNAI---------------TTSYRR----LKRTSG-LD 99 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSS----QWQDW 203 +TD + P +SE +N +L + ++N SDK S Q + Sbjct: 100 QLTDYDEHPLVSTLETPGYYHYDSEYTYLNEKLIIEMAMN-----SDKILSPFEKQCLKY 154 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 + H+ E +I K N L+R S L Sbjct: 155 FLLGHNYNEIAIILNLSPKKIDNALSRCKSKL 186 >gi|220929692|ref|YP_002506601.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulolyticum H10] gi|220000020|gb|ACL76621.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulolyticum H10] Length = 249 Score = 42.7 bits (99), Expect = 0.059, Method: Compositional matrix adjust. Identities = 23/82 (28%), Positives = 44/82 (53%), Gaps = 1/82 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A LV ++ LV I ++ G + ++ G+IGL++A+ KFD + +TY Sbjct: 19 GDKQAQSVLVEKNVGLVWSIVKRFQNRGYEVDDLFQIGSIGLIKAINKFDTSYDVKFSTY 78 Query: 105 SMWWIKAAMQEYILRSWSLVKI 126 ++ I ++ +I R ++K+ Sbjct: 79 AVPMIIGEIKRFI-RDDGIIKV 99 >gi|223043961|ref|ZP_03614002.1| RNA polymerase sigma-B factor [Staphylococcus capitis SK14] gi|314934140|ref|ZP_07841501.1| RNA polymerase sigma-B factor [Staphylococcus caprae C87] gi|222442676|gb|EEE48780.1| RNA polymerase sigma-B factor [Staphylococcus capitis SK14] gi|313653045|gb|EFS16806.1| RNA polymerase sigma-B factor [Staphylococcus caprae C87] Length = 256 Score = 42.7 bits (99), Expect = 0.060, Method: Compositional matrix adjust. Identities = 52/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K ++E+ + A +LVT + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KEHQENENSQAQDKLVTHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS + K + ++++ L T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWS---VHVPRRIKEIGPRIKKISDEL---TNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSDRERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|295102468|emb|CBL00013.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii L2-6] Length = 224 Score = 42.7 bits (99), Expect = 0.061, Method: Compositional matrix adjust. Identities = 25/89 (28%), Positives = 44/89 (49%), Gaps = 1/89 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + +L LV A +RG G+ ++ S G +GL++A FD RG +TY++ I Sbjct: 11 FIEQNLGLVHSCAGRFRGRGIEYDDLYSAGCMGLVKAYDGFDESRGVCFSTYAVPVILGE 70 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRR 141 +++ + R VK+ + + L N R Sbjct: 71 IKK-LFRDGGTVKVSRSLKELSLRINAAR 98 >gi|325660705|ref|ZP_08149334.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 4_1_37FAA] gi|331085570|ref|ZP_08334654.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 9_1_43BFAA] gi|325473012|gb|EGC76221.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 4_1_37FAA] gi|330407457|gb|EGG86959.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 9_1_43BFAA] Length = 240 Score = 42.7 bits (99), Expect = 0.061, Method: Compositional matrix adjust. Identities = 60/257 (23%), Positives = 110/257 (42%), Gaps = 25/257 (9%) Query: 34 EYVLAKRYREH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 ++ +A R H GD A +LV + LV I + G G ++ G+IGL++A+ K Sbjct: 2 DHTIALIQRSHDGDEKAREQLVEENTGLVWCIVKRFFGRGTDSEDLFQIGSIGLLKAIDK 61 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGHLQAIT 150 FD + +TY++ I ++ + LR ++K+ + + + F RL+ Sbjct: 62 FDLNYDVKFSTYAVPMISGEIRRF-LRDDGMIKVSRSLKETAYKAFLARERLQ------- 113 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD-ESLNALINSSDKNSSQWQDWLVYDHD 209 E + E E ++M +G+ ESL+ I D N Q D L + Sbjct: 114 -KKYNREPTMEELAAELEVEKEELAMALDASGEVESLHKPIYQKDGNEIQLLDKLEEEEG 172 Query: 210 GQEQVLIEKEERKNRRNMLTRS-MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +E +L +ML R + L+ ER++ R T + + +S+ + Sbjct: 173 QEETIL---------NHMLIRQLLEELDREERQLIYLRYFANQ--TQSEIGKKLGISQVQ 221 Query: 269 VRQIEARAFKKVQESIQ 285 V ++E + K ++ IQ Sbjct: 222 VSRLEKKILKNMRTKIQ 238 >gi|91776300|ref|YP_546056.1| flagellar biosynthesis sigma factor [Methylobacillus flagellatus KT] gi|91710287|gb|ABE50215.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Methylobacillus flagellatus KT] Length = 244 Score = 42.7 bits (99), Expect = 0.061, Method: Compositional matrix adjust. Identities = 53/253 (20%), Positives = 110/253 (43%), Gaps = 20/253 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y HG S L+ H LV KIA + LP I +++ G +GL+ A +++ Sbjct: 2 YTLHGKTSPKEELLKQHASLVKKIAYQLKA-KLPASVDIDDLIQAGMMGLLDASNRYEDN 60 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 G + TY+ I+ +M + + R+ L + + N+R ++ + + +P Sbjct: 61 HGAQFETYAAQRIRGSMIDELRRADWL--------PRSVRKNMRDVESAVHLLEQKLGRP 112 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE-QVL 215 +A++LN+S + M +G + + S + + D D G + L Sbjct: 113 PTEGELARELNLSMDDFQGMLDDCSGHQLIYYEDFSEQDSGDHFLDRYQSDDSGDPLKAL 172 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + + R L ++ L RE+ + QE + L+++ + VS RV Q+ + Sbjct: 173 LS----SDFREALIEAIEALPEREKILMGLYYEQE--MNLKDIGAIMSVSESRVCQLHTQ 226 Query: 276 AFKKVQESIQKQV 288 A +++ +++++ Sbjct: 227 AVARLRAKLKEKL 239 >gi|302549129|ref|ZP_07301471.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] gi|302466747|gb|EFL29840.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] Length = 295 Score = 42.7 bits (99), Expect = 0.062, Method: Compositional matrix adjust. Identities = 43/195 (22%), Positives = 91/195 (46%), Gaps = 18/195 (9%) Query: 61 VVKIAMG-YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 +V+ A G +RG G + ++V G IGL++A+ +F+ R ++++ +I ++ + Sbjct: 75 LVRFAAGRFRGRGDDMEDIVQTGMIGLIKAIDRFELSREVEFTSFALPYIVGEIKRFFRD 134 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 + V + + R+ +L + + L + D + V +A +N+SE++V+ Sbjct: 135 TTWAVHVPRRLQELRV--DLAKAREELASRLD---REPTVAELATLMNISENQVVEGQIA 189 Query: 180 LAG--DESLNALINSSDKNSSQ--WQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 G SL+A + + D++ + DG L+E + L M+ L Sbjct: 190 ANGYNSSSLDAALTGDGPEGGEAVLADFIGVEEDGLR--LVED------FHSLAPLMAEL 241 Query: 236 NPRERRIFEARRLQE 250 + R+R+I R ++E Sbjct: 242 SERDRQIIHMRFVEE 256 >gi|23099037|ref|NP_692503.1| RNA polymerase sigma factor SigD [Oceanobacillus iheyensis HTE831] gi|22777265|dbj|BAC13538.1| RNA polymerase sigma-D factor [Oceanobacillus iheyensis HTE831] Length = 258 Score = 42.7 bits (99), Expect = 0.063, Method: Compositional matrix adjust. Identities = 25/83 (30%), Positives = 47/83 (56%), Gaps = 5/83 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLV----VKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 L +++ H D AA++L+ +++ LV +IA + + ++ S G +GL A+KK Sbjct: 12 LWDKWKNHQDGEAANQLINNYMYLVNYHTERIA-SHLPNNVVKDDIRSFGILGLYDALKK 70 Query: 93 FDPERGFRLATYSMWWIKAAMQE 115 FDP R + TY+ + IK ++ + Sbjct: 71 FDPSRDLKFDTYASFRIKGSIMD 93 >gi|256376481|ref|YP_003100141.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Actinosynnema mirum DSM 43827] gi|255920784|gb|ACU36295.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Actinosynnema mirum DSM 43827] Length = 294 Score = 42.7 bits (99), Expect = 0.064, Method: Compositional matrix adjust. Identities = 44/214 (20%), Positives = 87/214 (40%), Gaps = 20/214 (9%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA-MQEYILRSWSLVKIGTTANQKRL 135 E++S GN+ L+ A K FD RG A +++ ++ A M E + W+ + + Sbjct: 50 ELMSAGNLALVAAAKSFDDSRGAPFAAFAVVRVRGALMDELRGQDWA---------SRSV 100 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDK 195 R++ + + IA + V EV ++ D +AL++ Sbjct: 101 RVKARKMNAVQDEFVSKHGRTPTTAEIAGIMEVETREVTAVQ----DDVQRSALLSLQGF 156 Query: 196 NSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTL 255 ++ + G E+ L+ +E R L ++ L R R + +E P + Sbjct: 157 TGGVLEEVVPERQPGPEETLLGRE----RIGYLHSAIDALPDRLRTVVRGYFFEERP--M 210 Query: 256 ENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 ++ E V RV Q+ A A +++ + Q++ Sbjct: 211 AEIAEELGVHESRVSQLRAEAIALLRDGLNSQLD 244 >gi|312877884|ref|ZP_07737830.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311795347|gb|EFR11730.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 114 Score = 42.7 bits (99), Expect = 0.064, Method: Compositional matrix adjust. Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 PM ++EE L K + G A + L+ +LRLV IA Y + P +++S G I Sbjct: 13 PMSSEEEEMYLNKMW--EGCKEARNILIEKNLRLVAHIAKKYT-FSFPNLTDDIISVGTI 69 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + + +L+TY+ I+ + Y+ Sbjct: 70 GLIKAIETYSKAKSTKLSTYAAKCIENEILMYL 102 >gi|313115504|ref|ZP_07800969.1| putative RNA polymerase sigma-F factor [Faecalibacterium cf. prausnitzii KLE1255] gi|310622214|gb|EFQ05704.1| putative RNA polymerase sigma-F factor [Faecalibacterium cf. prausnitzii KLE1255] Length = 223 Score = 42.7 bits (99), Expect = 0.064, Method: Compositional matrix adjust. Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 1/74 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + +L LV A +RG G+ ++ S G +GL++A FD RG +TY++ I Sbjct: 11 FIEQNLGLVHACAGRFRGRGIEYDDLYSAGCMGLVKACDNFDESRGVCFSTYAVPVILGE 70 Query: 113 MQEYILRSWSLVKI 126 +++ + R VK+ Sbjct: 71 IKK-LFRDSGTVKV 83 >gi|222528742|ref|YP_002572624.1| sporulation sigma factor SigK [Caldicellulosiruptor bescii DSM 6725] gi|222455589|gb|ACM59851.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 219 Score = 42.7 bits (99), Expect = 0.066, Method: Compositional matrix adjust. Identities = 30/93 (32%), Positives = 51/93 (54%), Gaps = 5/93 (5%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNI 84 PM ++EE L K RE G A + L+ +LRLV IA Y + P +++S G I Sbjct: 13 PMSPEEEEMYLNK-MRE-GCKEARNILIEKNLRLVAHIAKKYT-FSFPNLTDDIISVGTI 69 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 GL++A++ + + +L+TY+ I+ + Y+ Sbjct: 70 GLIKAIETYSSAKCTKLSTYAAKCIENEILMYL 102 >gi|297584063|ref|YP_003699843.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus selenitireducens MLS10] gi|297142520|gb|ADH99277.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus selenitireducens MLS10] Length = 253 Score = 42.7 bits (99), Expect = 0.066, Method: Compositional matrix adjust. Identities = 58/257 (22%), Positives = 111/257 (43%), Gaps = 31/257 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 + E D SA RL+ + L LV + G LP ++ S G +GL A++KFD + Sbjct: 17 WEEKRDRSAGDRLIEAFLPLV-DYHVHRIGVHLPKNVSSDDLRSHGLMGLFDALEKFDRK 75 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN---- 152 R + TY+ + I+ A+ I + L LR ++ +T++ Sbjct: 76 RELKFDTYASFRIRGAI------------IDGLRQEDWLPRTLRDKAKKIEQVTESLEQQ 123 Query: 153 ---NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 N+ P++ IA + ++E++VI + L+ I+ + Q + + D Sbjct: 124 LGRNVSPKE---IADEAGLTEADVIKTSNENFFSHLLS--IDEPTQEGDQTETYASSIAD 178 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 Q E ++ + L ++ LN +E+ + +E +TL + +S R+ Sbjct: 179 QQTLTPAESLSKQADYDELADAIQNLNEKEQLVISLFYYEE--LTLTEIGEALSLSTSRI 236 Query: 270 RQIEARAFKKVQESIQK 286 QI ++A K+Q+ + K Sbjct: 237 SQIHSKAVYKLQQQLHK 253 >gi|283781321|ref|YP_003372076.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pirellula staleyi DSM 6068] gi|283439774|gb|ADB18216.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pirellula staleyi DSM 6068] Length = 261 Score = 42.7 bits (99), Expect = 0.066, Method: Compositional matrix adjust. Identities = 51/218 (23%), Positives = 97/218 (44%), Gaps = 17/218 (7%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G+ + +++S G GLM A+ FD RG + TY + I+ AM + LR+ V + Sbjct: 53 GVELDDLISAGIFGLMDAIDAFDMTRGVKFETYCVPRIRGAMLDE-LRTMDWVPRLVRSK 111 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +L + L+ L P V +A +++V E E + G SLN Sbjct: 112 ASKLGEATKTLEARL------GRHPTTVELAAQMEMSVPEVEKMVSEASAVGLISLNKKW 165 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV-LNPRERRIFEARRLQ 249 +D + ++ D G++ R+ ++N L R ++ LN ER I + Sbjct: 166 YETDSYKDVREIDILEDKKGEDPT------RRIQKNDLMRLVTKGLNRNERLIIILYYYE 219 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +T++ + + ++S RV Q+ + ++Q + ++ Sbjct: 220 E--LTMKEIGATLDLSESRVSQMHSSIVSRLQSQLGRR 255 >gi|328951994|ref|YP_004369328.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfobacca acetoxidans DSM 11109] gi|328452318|gb|AEB08147.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfobacca acetoxidans DSM 11109] Length = 258 Score = 42.7 bits (99), Expect = 0.067, Method: Compositional matrix adjust. Identities = 16/41 (39%), Positives = 28/41 (68%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + + +++S G IGL+ A+KKFDP++ TY+ + IK A+ Sbjct: 53 ISLDDLISSGMIGLLDAIKKFDPQKNISFKTYAEFRIKGAI 93 >gi|313116074|ref|ZP_07801498.1| sigma-70 region 2 [Faecalibacterium cf. prausnitzii KLE1255] gi|310621671|gb|EFQ05202.1| sigma-70 region 2 [Faecalibacterium cf. prausnitzii KLE1255] Length = 221 Score = 42.7 bits (99), Expect = 0.067, Method: Compositional matrix adjust. Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 8/83 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIA--------MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 + GD +A L+ ++ + K+A + G L ++ GN+G +AV KFD Sbjct: 13 QKGDATALDSLIENNKSFIGKVANDLFRSMDLAQSGLNLDTDDLKQAGNLGFWKAVPKFD 72 Query: 95 PERGFRLATYSMWWIKAAMQEYI 117 RG + TY+ I+ AM + + Sbjct: 73 AARGMKFLTYAAPAIRNAMMDMV 95 >gi|302037625|ref|YP_003797947.1| flagellar-specific RNA polymerase sigma 28 factor [Candidatus Nitrospira defluvii] gi|300605689|emb|CBK42022.1| Flagellar-specific RNA polymerase sigma 28 factor [Candidatus Nitrospira defluvii] Length = 247 Score = 42.7 bits (99), Expect = 0.067, Method: Compositional matrix adjust. Identities = 60/231 (25%), Positives = 102/231 (44%), Gaps = 36/231 (15%) Query: 61 VVKIAMGYR-GYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQE 115 VVK AM +R + LP +++S G +GLM A+ K+DP R + TY+ + I+ AM + Sbjct: 27 VVK-AMAHRLAFRLPAYMDAEDLISVGIMGLMDAMDKYDPTREAKFKTYAEFRIRGAMLD 85 Query: 116 YILRSWSLVKIGT----TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 I RS + T QK L RL +P + K+L +S Sbjct: 86 EI-RSMDWIPRSVHERITLLQKTYSELLHRLG-----------RPPTDQEVGKELKMSAE 133 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDW-----LVYDHDGQEQVLIEKEERKNRRN 226 E+ R G A++ S D Q D ++ D + + + + ER R+ Sbjct: 134 ELDEFLTRSRG-----AVVISLDDLGVQDADGHKIISVLTDSNQPDPLSVLVNERA--RH 186 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 +L ++ L +ER + +E +T++ + +V+ RV QI ++A Sbjct: 187 VLEAAIHDLPEKERLVLSLYYFEE--LTMKEIGQALKVTESRVCQIHSKAI 235 >gi|254454176|ref|ZP_05067613.1| RNA polymerase sigma factor SigA [Octadecabacter antarcticus 238] gi|198268582|gb|EDY92852.1| RNA polymerase sigma factor SigA [Octadecabacter antarcticus 238] Length = 715 Score = 42.7 bits (99), Expect = 0.067, Method: Compositional matrix adjust. Identities = 55/227 (24%), Positives = 101/227 (44%), Gaps = 30/227 (13%) Query: 56 SHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQE 115 S L + ++A + GL ++ EG GL ++V+ F RG RL TYS + I+ + Sbjct: 496 SQLTQLRRLATRFPTEGLEEDDLFQEGYFGLTRSVEMFHAGRGNRLTTYSQYRIRQTIAR 555 Query: 116 YILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 + S+V+I K +R ++ + ++ N + + A+ K + +E+ Sbjct: 556 AVDDHRSVVRIPVHFASK-----VRLIERFGERVSGNISRSDYHCALGKAFQIELAEIQK 610 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER---KNRRNMLTRSM 232 + E++ L D+N L D D + +E +R + R+ ++ + Sbjct: 611 I-------ENIPRLSIEFDEN-------LYSDAD----IELEPFQRVLEQQRQAIIKDFL 652 Query: 233 SVLNPRERRIFEARRL---QENPVTLENLSSEFEVSRERVRQIEARA 276 L R I RR + +TLE + V+RER+RQ+EA+A Sbjct: 653 EDLPERHADII-VRRFGLDGNDEMTLEQCGQVYGVTRERIRQLEAKA 698 >gi|187935479|ref|YP_001884301.1| RNA polymerase sigma-F factor [Clostridium botulinum B str. Eklund 17B] gi|187723632|gb|ACD24853.1| RNA polymerase sigma-F factor [Clostridium botulinum B str. Eklund 17B] Length = 233 Score = 42.7 bits (99), Expect = 0.068, Method: Compositional matrix adjust. Identities = 25/86 (29%), Positives = 46/86 (53%), Gaps = 6/86 (6%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKF 93 L + Y+E GD A ++L+ ++ +LV KI + + I ++ EG +GL+ A KK+ Sbjct: 6 LVELYQE-GDKQALNKLIENNKKLVFKIVNKFYINATNSIDIEDLEQEGYMGLIMAAKKY 64 Query: 94 DPERGFR--LATYSMWWIKAAMQEYI 117 + + +TYS +WI + +I Sbjct: 65 NSNMDYHASFSTYSFYWIYQKINSFI 90 >gi|317499023|ref|ZP_07957304.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 5_1_63FAA] gi|291560723|emb|CBL39523.1| RNA polymerase, sigma subunit, RpoX/SigF [butyrate-producing bacterium SSC/2] gi|316893673|gb|EFV15874.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 5_1_63FAA] Length = 241 Score = 42.7 bits (99), Expect = 0.069, Method: Compositional matrix adjust. Identities = 54/253 (21%), Positives = 112/253 (44%), Gaps = 40/253 (15%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + G+ +A +++ +++ L+ + + G ++ G+IGLM+AV KFD Sbjct: 9 RLTKEGNEAAREQIILNNVGLIWSVVRRFTNRGYESEDLFQIGSIGLMKAVDKFDLSYDV 68 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + +TY++ I ++ + LR ++K+ + + N+ ++ + + + Sbjct: 69 KFSTYAVPMITGEIRRF-LRDDGMIKVSRSLKE-----NVYKIMKAREKFCQQYQREATI 122 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK- 218 I++ ++ E+++ SL A S++ S Q Y DG E L++K Sbjct: 123 EEISEITKITREEIVT---------SLEA----SNEVESIHQS--AYQKDGSEISLLDKL 167 Query: 219 ------EERKNRRNMLTRSMSVLNPRER-----RIFEARRLQENPVTLENLSSEFEVSRE 267 E+ +L +M L +E+ R FE + QE ++ F +S+ Sbjct: 168 SKGENESEKVVDHVLLKEAMKHLEQKEQQMIYYRYFEGKTQQE-------IAKIFHISQV 220 Query: 268 RVRQIEARAFKKV 280 +V +IE R KK+ Sbjct: 221 QVSRIEKRILKKL 233 >gi|293366035|ref|ZP_06612723.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis M23864:W2(grey)] gi|291319758|gb|EFE60116.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis M23864:W2(grey)] Length = 256 Score = 42.7 bits (99), Expect = 0.069, Method: Compositional matrix adjust. Identities = 53/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K+++E+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KQHQENEDSQAQDKLVKHYRKLIESLAYRYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEVFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSERERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|148976430|ref|ZP_01813136.1| flagellar biosynthesis sigma factor [Vibrionales bacterium SWAT-3] gi|145964253|gb|EDK29509.1| flagellar biosynthesis sigma factor [Vibrionales bacterium SWAT-3] Length = 244 Score = 42.7 bits (99), Expect = 0.071, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 105/252 (41%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +H + ++ + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 ALTYDQHANHNSQQAFFEKYSVLVKRIAHHLLGRLPPNVLVDDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V N + + + L+ L N Sbjct: 64 GTKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKNNREISSAIAELESTL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK + +S S + +NC RL G E L SD D + + Sbjct: 116 RDPSD-AEVAKHMGLSLEQYHSALTDINCSRLVGIEDLGV----SD-------DVISPNE 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D Q+ + ++ R L S+ L RE + +E + L+ + VS R Sbjct: 164 DSQDNAPFQGVADESFRQALIDSIKQLPEREGLVLSLYYDEE--LNLKEIGEVLGVSESR 221 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 222 VSQILSQSMQRL 233 >gi|311900244|dbj|BAJ32652.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 310 Score = 42.7 bits (99), Expect = 0.072, Method: Compositional matrix adjust. Identities = 53/221 (23%), Positives = 97/221 (43%), Gaps = 32/221 (14%) Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQ 132 P +++ G++GL++A+ +FDP G TY++ I ++ + +WS+ + Sbjct: 110 PYEDLLQVGSVGLIKAIDRFDPSLGVEFTTYAVPTIIGEIRRHFRDTTWSV-------HV 162 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVA-IAKKLNVSESEVISMNCRLAGDESLNALIN 191 R LR Q L E VA +A+ L++SE EVI G + NA Sbjct: 163 PRRLQELRLDLAKAQDALAQTLDREPTVADLAEYLSISEEEVIE------GLAAANAHTA 216 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP-------RERRIFE 244 S +S + DGQ+ E+ R + R L ++ L P R+R+I Sbjct: 217 GSLDLTSPGE------GDGQQPA--ERLGRVDGRFALVENLVALKPLIAQLPERDRQIL- 267 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 A R E+ +T + + +S+ V ++ +R +++ + Sbjct: 268 AMRFSED-LTQSQIGARLGLSQMHVSRLLSRTLARLRTGLD 307 >gi|6010734|gb|AAF01233.1|AF184102_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 119 Score = 42.7 bits (99), Expect = 0.072, Method: Compositional matrix adjust. Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 1/56 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Y GL Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIARRYGNRGLA 115 >gi|291542064|emb|CBL15174.1| RNA polymerase sigma factor, sigma-70 family [Ruminococcus bromii L2-63] Length = 219 Score = 42.7 bits (99), Expect = 0.073, Method: Compositional matrix adjust. Identities = 29/128 (22%), Positives = 60/128 (46%), Gaps = 6/128 (4%) Query: 47 LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 ++ ++L ++ LV + G G+ E+ + G +GL +A+ FD R + +TY+ Sbjct: 1 MTDKNKLADKNMGLVHACCKRFSGKGIEYEELFASGCLGLAKAINNFDESRNLQFSTYAF 60 Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 I ++ + R +++ T K L + RL + N + V +A++L Sbjct: 61 PVIMGEIKR-LFRDGGAIRVSRTL--KELSLAISRLNNESKL---KNGRELTVSELAERL 114 Query: 167 NVSESEVI 174 + SE ++I Sbjct: 115 DTSEEKII 122 >gi|218245540|ref|YP_002370911.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 8801] gi|257058577|ref|YP_003136465.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 8802] gi|218166018|gb|ACK64755.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 8801] gi|256588743|gb|ACU99629.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 8802] Length = 255 Score = 42.4 bits (98), Expect = 0.075, Method: Compositional matrix adjust. Identities = 50/217 (23%), Positives = 100/217 (46%), Gaps = 18/217 (8%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL-PISEVVSEGNIGLMQAVKKFDPERGF 99 Y + L+ ++LV H LV ++A P ++ G +GL+ A+++F+P +G Sbjct: 17 YSRNPSLALRNQLVELHTGLVRQVAHRISNQCTEPYEDLEQIGYLGLINAIERFNPHQGC 76 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 +++++ +I+ M Y+ S+++I + L+ ++++ L K ++ Sbjct: 77 AFSSFAIPYIRGEMLHYLRDKGSVMRI--PRRWQELYNKGKKVRKQLTTSLGRTPKDQE- 133 Query: 160 VAIAKKLNVSESEVISMNCRLAGDE----SLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 +A L VS E C LA SL++ IN + ++ + + L DH Q Sbjct: 134 --LADALQVSLEEW--HECELALQNRMLVSLDSTINQNTDSTVSFGETLP-DHRYQ---- 184 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 K+ ++ R L R+MS L + + E ++E P Sbjct: 185 -AKQSQEEDRLQLQRAMSQLEDKTKEAIECVFIKELP 220 >gi|21221509|ref|NP_627288.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289771198|ref|ZP_06530576.1| SigI protein [Streptomyces lividans TK24] gi|5911753|emb|CAB55836.1| SigI protein [Streptomyces coelicolor A3(2)] gi|7672251|emb|CAB89440.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289701397|gb|EFD68826.1| SigI protein [Streptomyces lividans TK24] Length = 304 Score = 42.4 bits (98), Expect = 0.076, Method: Compositional matrix adjust. Identities = 44/167 (26%), Positives = 77/167 (46%), Gaps = 14/167 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 83 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 142 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A+ L +S+ Sbjct: 143 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLD---RAPTVSELAEHLGLSKD 196 Query: 172 EVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 EV+ + N A SL+A D + D + Y+ G E + Sbjct: 197 EVVEGMAASNAYTAS--SLDAQPEEDDAEGA-LADRIGYEDHGLEGI 240 >gi|169836116|ref|ZP_02869304.1| hypothetical protein cdivTM_03213 [candidate division TM7 single-cell isolate TM7a] Length = 54 Score = 42.4 bits (98), Expect = 0.077, Method: Compositional matrix adjust. Identities = 21/46 (45%), Positives = 30/46 (65%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 +S Y+ +I+K +L ++EEY L KR RE D A L+ S+LRLV Sbjct: 9 MSLYLSDIQKFDLLSREEEYELLKRIREDNDEQARQLLILSNLRLV 54 >gi|56964115|ref|YP_175846.1| sporulation sigma factor SigG [Bacillus clausii KSM-K16] gi|56910358|dbj|BAD64885.1| DNA-directed RNA polymerase sigma factor sigma-G [Bacillus clausii KSM-K16] Length = 261 Score = 42.4 bits (98), Expect = 0.077, Method: Compositional matrix adjust. Identities = 54/249 (21%), Positives = 112/249 (44%), Gaps = 38/249 (15%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A LV +LRLV+ + + G + ++ G IGLM+++ FD + + +TY++ Sbjct: 38 ARETLVNGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 97 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I ++ Y LR + +++ + + + + +++ + A +P V IA L V Sbjct: 98 IIGEIRRY-LRDNNPIRVSRSL--RDIAYKALQVRDQMMAEKKREKEP-TVQEIAAVLEV 153 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL-----VYDHDGQEQVLIEK--EER 221 + +V+ +L+A+ QD + +Y+ G ++++ +ER Sbjct: 154 PKEDVVF---------ALDAI-----------QDPVSLFEPIYNDGGDPIFVMDQISDER 193 Query: 222 KNRRN-----MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 N L +M LN RE+ I R Q T ++ E +S+ +V ++E A Sbjct: 194 NKDINWVEEIALKEAMVRLNDREKTILNMRFFQGK--TQMEVAEEIGISQAQVSRLEKGA 251 Query: 277 FKKVQESIQ 285 +++ + I+ Sbjct: 252 IQQMNKHIE 260 >gi|270262372|ref|ZP_06190644.1| RNA polymerase sigma factor for flagellar operon [Serratia odorifera 4Rx13] gi|270044248|gb|EFA17340.1| RNA polymerase sigma factor for flagellar operon [Serratia odorifera 4Rx13] Length = 240 Score = 42.4 bits (98), Expect = 0.079, Method: Compositional matrix adjust. Identities = 46/216 (21%), Positives = 96/216 (44%), Gaps = 32/216 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V + + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRHARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + +R+L+ L +P V +A+ LN+ DE L+++++ Sbjct: 100 VAQVMRQLEQRLG-------RPASEVEVAQTLNIP------------LDEYRQILLDTNN 140 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNR---------RNMLTRSMSVLNPRERRIFEA 245 + +W +H + L+E E N R + ++ L RE+ + Sbjct: 141 SQLFSYDEW-REEHGESAEPLLEGHEEANPLHHLLEGNLRQRVIDAIDALPEREKMVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +E + L+ + + +V RV Q+ ++A K+++ Sbjct: 200 YYQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRLR 233 >gi|94312634|ref|YP_585843.1| RNA polymerase sigma 28 (sigma F) factor [Cupriavidus metallidurans CH34] gi|93356486|gb|ABF10574.1| RNA polymerase sigma 28 (sigma F) factor [Cupriavidus metallidurans CH34] Length = 238 Score = 42.4 bits (98), Expect = 0.080, Method: Compositional matrix adjust. Identities = 63/251 (25%), Positives = 110/251 (43%), Gaps = 33/251 (13%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y G L A +V SH LV +IA+ LP I +++ G IGL+ A K+++ Sbjct: 2 YTIQGKLEQAD-VVKSHAPLVRRIALQL-AAKLPASVQIDDLIQAGMIGLLDAAKRYEDN 59 Query: 97 RGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNL 154 G R TY+ I+ AM + + W + + ++ + R + L Q + + + Sbjct: 60 HGARFETYASQRIRGAMLDEVRANDWQ------SRSLRQFTRKIERTQRQLEQKLGRSPI 113 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL-----VYDHD 209 E +AK+L + E + + G + L++ D S +D+L V D Sbjct: 114 DSE----VAKELEMGLEEYQELLNEVHGCQ----LLHYEDFERSGEEDFLDRHLGVTDEA 165 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 VL+E R+ L R++ L RE+ + QE + L + + EV+ RV Sbjct: 166 NPLTVLME----SGMRDALIRAIEKLPEREKLVLSLCYDQE--LNLREIGAVLEVTESRV 219 Query: 270 RQIEARAFKKV 280 QI ++A ++ Sbjct: 220 CQIRSQAITRL 230 >gi|256787303|ref|ZP_05525734.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 308 Score = 42.4 bits (98), Expect = 0.081, Method: Compositional matrix adjust. Identities = 44/167 (26%), Positives = 77/167 (46%), Gaps = 14/167 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 87 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 146 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A+ L +S+ Sbjct: 147 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLD---RAPTVSELAEHLGLSKD 200 Query: 172 EVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 EV+ + N A SL+A D + D + Y+ G E + Sbjct: 201 EVVEGMAASNAYTAS--SLDAQPEEDDAEGA-LADRIGYEDHGLEGI 244 >gi|27468586|ref|NP_765223.1| RNA polymerase sigma factor SigB [Staphylococcus epidermidis ATCC 12228] gi|57867587|ref|YP_189242.1| RNA polymerase sigma factor SigB [Staphylococcus epidermidis RP62A] gi|251812213|ref|ZP_04826686.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis BCM-HMP0060] gi|282876523|ref|ZP_06285389.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis SK135] gi|27316133|gb|AAO05267.1|AE016749_213 sigma factor B [Staphylococcus epidermidis ATCC 12228] gi|57638245|gb|AAW55033.1| RNA polymerase sigma-37 factor [Staphylococcus epidermidis RP62A] gi|251804310|gb|EES56967.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis BCM-HMP0060] gi|281294775|gb|EFA87303.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis SK135] gi|329726159|gb|EGG62631.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis VCU144] gi|329734176|gb|EGG70494.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis VCU045] Length = 256 Score = 42.4 bits (98), Expect = 0.081, Method: Compositional matrix adjust. Identities = 53/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K+++E+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KQHQENEDSQAQDKLVKHYRKLIESLAYRYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSERERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|89099055|ref|ZP_01171934.1| sporulation sigma factor SigF [Bacillus sp. NRRL B-14911] gi|89086185|gb|EAR65307.1| sporulation sigma factor SigF [Bacillus sp. NRRL B-14911] Length = 252 Score = 42.4 bits (98), Expect = 0.084, Method: Compositional matrix adjust. Identities = 38/171 (22%), Positives = 76/171 (44%), Gaps = 12/171 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A +V ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 27 QAGDQGARDTIVQKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVKFS 86 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAITDNN---- 153 TY++ I +Q +I R VK+ + + ++ L + G + +T+ + Sbjct: 87 TYAVPMIIGEIQRFI-RDDGTVKVSRSLKEMGNKIRKAKDELTKTFGRIPTVTELSAYLE 145 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWL 204 + PE ++ +A++ + S + GD + L D N +W D + Sbjct: 146 IPPEDII-LAQEAGRTPSSIHETVYENDGD-PITLLDQIDDGNDGKWFDQI 194 >gi|167933077|ref|ZP_02520164.1| RNA polymerase, sigma 70 subunit, RpoD family protein [candidate division TM7 single-cell isolate TM7b] Length = 103 Score = 42.4 bits (98), Expect = 0.085, Method: Compositional matrix adjust. Identities = 24/51 (47%), Positives = 34/51 (66%), Gaps = 2/51 (3%) Query: 232 MSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKV 280 +S L+ RE++I + R EN TLE + EF V+RER+RQIEA+A K+ Sbjct: 39 LSSLSDREQKIIKMRFGLENGKSHTLEEVGQEFAVTRERIRQIEAKALAKL 89 >gi|134300490|ref|YP_001113986.1| sporulation sigma factor SigK [Desulfotomaculum reducens MI-1] gi|134053190|gb|ABO51161.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Desulfotomaculum reducens MI-1] Length = 232 Score = 42.4 bits (98), Expect = 0.085, Method: Compositional matrix adjust. Identities = 33/105 (31%), Positives = 50/105 (47%), Gaps = 1/105 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 I+NG L YI L +EE L + GD A L+ +LRLV KIA Sbjct: 13 ILNGIAILVSYISSGSLPDPLSPEEERELLLKM-ATGDKLAKTILIERNLRLVAKIANKL 71 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + G+ ++ G IGL++ V FD ++ + +TY+ I+ M Sbjct: 72 KDSGVDKQDLFQVGVIGLIKGVDTFDIKKARKFSTYAGVCIQNEM 116 >gi|331006368|ref|ZP_08329678.1| RNA polymerase sigma factor for flagellar operon [gamma proteobacterium IMCC1989] gi|330419828|gb|EGG94184.1| RNA polymerase sigma factor for flagellar operon [gamma proteobacterium IMCC1989] Length = 251 Score = 42.4 bits (98), Expect = 0.086, Method: Compositional matrix adjust. Identities = 53/208 (25%), Positives = 92/208 (44%), Gaps = 27/208 (12%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL++A KK+D RG TY+ I+ A+ + I R V N + Sbjct: 51 VDDLIQSGMIGLLEAAKKYDGSRGASFETYAGIRIRGAIVDEI-RKGDWVPRSVHRNSRL 109 Query: 135 LFFNLRRLKGHL-QAITDNNLKPEQVVAI----AKKLNVSESEVISMNCRLAGDESLNAL 189 + + +L+ L + D+ + V I A + S S + S++ DES Sbjct: 110 ISNTIHQLEASLGRDAKDSEIAEAMGVDIDEYYAMSRDASSSRLFSIDESFESDES---- 165 Query: 190 INSSDKNSSQWQDWLVYDHDG-QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + S++KNS V HDG Q Q L ++ L ++ L RE+ + Sbjct: 166 VISNEKNSP-----FVDPHDGAQHQAL---------KSSLVTAIDKLPEREKLVLSLYYD 211 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARA 276 +E + L+ + V+ RV QI ++A Sbjct: 212 EE--LNLKEIGQILGVTESRVSQIHSQA 237 >gi|229492301|ref|ZP_04386108.1| RNA polymerase sigma-F factor [Rhodococcus erythropolis SK121] gi|229320710|gb|EEN86524.1| RNA polymerase sigma-F factor [Rhodococcus erythropolis SK121] Length = 260 Score = 42.4 bits (98), Expect = 0.087, Method: Compositional matrix adjust. Identities = 35/148 (23%), Positives = 69/148 (46%), Gaps = 19/148 (12%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L L +A Y+G G P ++ +GL+QAV++FD ++G ++++ + ++++ Sbjct: 44 LPLATHVARRYQGRGQPFEDLEQVARVGLIQAVQRFDVDKGSDFLSFAVPTVMGEVRKHF 103 Query: 118 L-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--- 173 WS V++ + ++ L N R L Q + + V +AK+L++ EV Sbjct: 104 RDHGWS-VRVPRSLQERHLALN-RALTTLSQTLG----RAPTVAELAKELDIEPDEVEQG 157 Query: 174 ---------ISMNCRLAGDESLNALINS 192 ++ AGD S LI++ Sbjct: 158 LTAGNSYRTTPLDTASAGDGSGLTLIDT 185 >gi|82776398|ref|YP_402747.1| flagellar biosynthesis sigma factor [Shigella dysenteriae Sd197] gi|81240546|gb|ABB61256.1| alternative sigma factor 28 [Shigella dysenteriae Sd197] Length = 239 Score = 42.4 bits (98), Expect = 0.088, Method: Compositional matrix adjust. Identities = 48/221 (21%), Positives = 102/221 (46%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQCIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DYQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + +E EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAELEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|253795563|ref|YP_003038659.1| putative RNA polymerase sigma factor [Candidatus Hodgkinia cicadicola Dsem] gi|253739871|gb|ACT34206.1| putative RNA polymerase sigma factor [Candidatus Hodgkinia cicadicola Dsem] Length = 373 Score = 42.4 bits (98), Expect = 0.089, Method: Compositional matrix adjust. Identities = 29/100 (29%), Positives = 46/100 (46%), Gaps = 7/100 (7%) Query: 46 DLSAAHR-LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 +L AA R LV S ++ + Y + S G GLM + +FD G+R A Y Sbjct: 164 NLKAAKRSLVGSSASVIADVIKAYPSCDAQDPALASAGRDGLMASANRFDLVSGYRFAAY 223 Query: 105 SMWWIKAAMQEYIL---RSWSLV---KIGTTANQKRLFFN 138 S WW+K + ++L + W+ ++ A KRL + Sbjct: 224 SKWWVKHNVIAHVLAGAKGWAAASAKQLAGAAKLKRLSLD 263 >gi|319399556|gb|EFV87811.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis FRI909] Length = 256 Score = 42.4 bits (98), Expect = 0.089, Method: Compositional matrix adjust. Identities = 53/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K+++E+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KQHQENEDSLAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSERERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|288555607|ref|YP_003427542.1| sporulation sigma factor SigK [Bacillus pseudofirmus OF4] gi|288546767|gb|ADC50650.1| sporulation sigma factor SigK [Bacillus pseudofirmus OF4] Length = 235 Score = 42.4 bits (98), Expect = 0.092, Method: Compositional matrix adjust. Identities = 37/142 (26%), Positives = 66/142 (46%), Gaps = 11/142 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A + L+ +LRLV I + +++S G IGL++A++ + +G +LA Sbjct: 44 QEGDAEARNLLIEHNLRLVAHIVKKFENTREDTEDLISIGTIGLIKAIESYSDGKGTKLA 103 Query: 103 TYSMWWIKAAMQEYILRSWSLVK--------IGTT--ANQKRLFFNLRRLKGHLQAITDN 152 TY+ I+ + + LR+ VK IGT N+ L L+ + + Sbjct: 104 TYAARCIENEILMH-LRALKKVKKDVSLHDPIGTDKEGNEISLIDVLQEDADDIVDVIQT 162 Query: 153 NLKPEQVVAIAKKLNVSESEVI 174 ++ +Q+ L+ E EVI Sbjct: 163 KMEKKQIYEYIHVLDEREKEVI 184 >gi|254519896|ref|ZP_05131952.1| sporulation sigma factor SigF [Clostridium sp. 7_2_43FAA] gi|226913645|gb|EEH98846.1| sporulation sigma factor SigF [Clostridium sp. 7_2_43FAA] Length = 251 Score = 42.4 bits (98), Expect = 0.092, Method: Compositional matrix adjust. Identities = 54/249 (21%), Positives = 119/249 (47%), Gaps = 32/249 (12%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A ++++ +L LV I+ + G ++ G+IGL++A+ FD + + +TY Sbjct: 26 GNQDAMNKVIEMNLPLVSSISKKFLNRGYDYEDIFQIGSIGLVKAINNFDDKFNVKFSTY 85 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I ++ +I R ++K+ N++ L L + EQ + K Sbjct: 86 AVPMIIGEIKRFI-RDDGIIKVSR---------NVKSLARKL------HFDKEQ---LTK 126 Query: 165 KLNVSES-EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK--EER 221 KL+ + E +S + +E L A+ +S+ S Q+ ++ DG +LI+K E+ Sbjct: 127 KLDREPTIEELSQFSGVDKEEILFAIESSA---SMQYLYDTIHQDDGAPVLLIDKLSEKG 183 Query: 222 KNRRNMLTR-----SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 ++ +M+ R ++ L+ + R+I R ++ T ++ +S+ +V +IE + Sbjct: 184 EDDSDMINRIALKEALRSLDSKARQIIMLRYFKDK--TQVQVAKMLGISQVQVSRIEKKV 241 Query: 277 FKKVQESIQ 285 +++ +Q Sbjct: 242 LVLMKQKLQ 250 >gi|302874980|ref|YP_003843613.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulovorans 743B] gi|307690403|ref|ZP_07632849.1| sporulation sigma factor SigF [Clostridium cellulovorans 743B] gi|302577837|gb|ADL51849.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulovorans 743B] Length = 265 Score = 42.4 bits (98), Expect = 0.092, Method: Compositional matrix adjust. Identities = 42/190 (22%), Positives = 89/190 (46%), Gaps = 27/190 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD A + L+ ++ LV I+ + G ++ G +GL++AV F+ + + + Sbjct: 38 QGGDNEALNDLIKKNMPLVAAISKKFLNRGYEYDDIFQIGCMGLIKAVNNFNTDFNVKFS 97 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTT--ANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY++ I ++ + LR ++KI + A K+L ++ L L N +P + Sbjct: 98 TYAVPMIMGEIKRF-LRDDGIIKISRSIKATAKKLHYDRENLTNIL------NREP-TIE 149 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-- 218 ++K +S+ ++I M +G S Q+ +++ DG +LI+K Sbjct: 150 ELSKYSGISKDDII-MATESSG--------------SLQYLYDVIHQDDGSPVLLIDKIS 194 Query: 219 EERKNRRNML 228 E ++ ++M+ Sbjct: 195 ETGEDDKDMI 204 >gi|126215794|gb|ABN81017.1| putative sigma factor sigma 70 type group 3 [Rhodococcus opacus] Length = 139 Score = 42.4 bits (98), Expect = 0.092, Method: Compositional matrix adjust. Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T L L IA + G G ++ +GL++AV +FDP+RGF +Y++ I Sbjct: 33 VITRCLPLADHIARRFGGRGEAHEDLRQVARLGLVKAVDRFDPDRGFDFVSYAVPTIMGE 92 Query: 113 MQEYILRS-WSL 123 ++ Y + WS+ Sbjct: 93 VRRYFRDTGWSM 104 >gi|229543947|ref|ZP_04433006.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus coagulans 36D1] gi|229325086|gb|EEN90762.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus coagulans 36D1] Length = 252 Score = 42.4 bits (98), Expect = 0.092, Method: Compositional matrix adjust. Identities = 47/183 (25%), Positives = 80/183 (43%), Gaps = 12/183 (6%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K EE R + GD A +V ++RLV + + G ++ G IGL+++V Sbjct: 15 KDEEVKNLIRRSQEGDQGARDLIVEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSV 74 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG----TTANQKR-----LFFNLRR 141 KFD + +TY++ I +Q + LR VK+ T N+ R L L R Sbjct: 75 DKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGTVKVSRSLKETGNRIRKTRDELTKKLGR 133 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 + ++ + E+VV +A++ + S + GD + L SD+N +W Sbjct: 134 SPTVHEIASELGMPVEEVV-MAQEAGKAPSSIHETVYENDGD-PITLLDQISDQNDQKWF 191 Query: 202 DWL 204 D + Sbjct: 192 DQI 194 >gi|46581631|ref|YP_012439.1| RNA polymerase sigma factor for flagellar operon FliA [Desulfovibrio vulgaris str. Hildenborough] gi|120601210|ref|YP_965610.1| FliA/WhiG family RNA polymerase sigma factor [Desulfovibrio vulgaris DP4] gi|46451054|gb|AAS97699.1| RNA polymerase sigma factor for flagellar operon FliA [Desulfovibrio vulgaris str. Hildenborough] gi|120561439|gb|ABM27183.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Desulfovibrio vulgaris DP4] gi|311235273|gb|ADP88127.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfovibrio vulgaris RCH1] Length = 265 Score = 42.4 bits (98), Expect = 0.092, Method: Compositional matrix adjust. Identities = 18/45 (40%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + E++S G +GLM+A+ KF P+ G R TY+ I+ AM + + R Sbjct: 64 LGELISAGTLGLMEALGKFKPQLGIRFETYAESRIRGAMLDELRR 108 >gi|295092920|emb|CBK82011.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Coprococcus sp. ART55/1] Length = 206 Score = 42.4 bits (98), Expect = 0.094, Method: Compositional matrix adjust. Identities = 21/66 (31%), Positives = 38/66 (57%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A L+ +LRLV I+ Y +++S G IGL++A+ + P++G +L+ Y Sbjct: 23 GDKAARSILIEYNLRLVAHISRKYNSAVRDPEDLLSIGTIGLIKAIDSYKPDKGCKLSGY 82 Query: 105 SMWWIK 110 + I+ Sbjct: 83 AAKCIE 88 >gi|289422613|ref|ZP_06424455.1| RNA polymerase sigma factor, sigma-70 family [Peptostreptococcus anaerobius 653-L] gi|289156964|gb|EFD05587.1| RNA polymerase sigma factor, sigma-70 family [Peptostreptococcus anaerobius 653-L] Length = 289 Score = 42.4 bits (98), Expect = 0.095, Method: Compositional matrix adjust. Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 6/78 (7%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIA------MGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 + GDL A ++++ + V I M Y+ GL ++ G IGL+ AVKKFD Sbjct: 50 KEGDLVALNKVIEKKSKYVKGIIKNDYEIMAYKKRGLDQEDLFQSGMIGLLNAVKKFDFR 109 Query: 97 RGFRLATYSMWWIKAAMQ 114 G + TY +K +++ Sbjct: 110 DGIKFDTYLAHNVKYSIK 127 >gi|309789348|ref|ZP_07683938.1| RNA polymerase sigma factor for flagellar operon [Shigella dysenteriae 1617] gi|308922742|gb|EFP68259.1| RNA polymerase sigma factor for flagellar operon [Shigella dysenteriae 1617] Length = 229 Score = 42.4 bits (98), Expect = 0.095, Method: Compositional matrix adjust. Identities = 52/238 (21%), Positives = 109/238 (45%), Gaps = 37/238 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQCIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L + ++ M Sbjct: 73 LRSRDWVPRSVRRNAREVAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM- 124 Query: 178 CRLAGDESLNALINSSDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNML 228 L+++++ + +W LV D D Q + +++ N R + Sbjct: 125 -----------LLDTNNSQLFSYDEWREEHGDSIELVTD-DYQRENPLQQLLDSNLRQRV 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE+ + +E + L+ + +E EV RV Q+ ++A K+++ + K Sbjct: 173 MEAIETLPEREKLVLTLYYQEE--LNLKEIGAELEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|225019367|ref|ZP_03708559.1| hypothetical protein CLOSTMETH_03320 [Clostridium methylpentosum DSM 5476] gi|224947998|gb|EEG29207.1| hypothetical protein CLOSTMETH_03320 [Clostridium methylpentosum DSM 5476] Length = 221 Score = 42.4 bits (98), Expect = 0.095, Method: Compositional matrix adjust. Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 1/74 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 V +L LV A + G G+ ++ S G +GL++A FD +RG + +TY++ I Sbjct: 11 FVKQNLGLVHSCAHRFTGKGIEYDDLFSAGCMGLVKATDAFDEDRGVKFSTYAVPVILGE 70 Query: 113 MQEYILRSWSLVKI 126 ++ + R VK+ Sbjct: 71 IRR-LFRDGGSVKV 83 >gi|28899006|ref|NP_798611.1| flagellar biosynthesis sigma factor [Vibrio parahaemolyticus RIMD 2210633] gi|153836996|ref|ZP_01989663.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus AQ3810] gi|260365248|ref|ZP_05777805.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus K5030] gi|260878798|ref|ZP_05891153.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus AN-5034] gi|260899951|ref|ZP_05908346.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus AQ4037] gi|28807225|dbj|BAC60495.1| flagellar-specific RNA polymerase sigma factor FliA [Vibrio parahaemolyticus RIMD 2210633] gi|149749769|gb|EDM60514.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus AQ3810] gi|308094185|gb|EFO43880.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus AN-5034] gi|308107226|gb|EFO44766.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus AQ4037] gi|308115412|gb|EFO52952.1| RNA polymerase sigma factor for flagellar operon [Vibrio parahaemolyticus K5030] gi|328474457|gb|EGF45262.1| flagellar biosynthesis sigma factor [Vibrio parahaemolyticus 10329] Length = 244 Score = 42.4 bits (98), Expect = 0.095, Method: Compositional matrix adjust. Identities = 56/250 (22%), Positives = 103/250 (41%), Gaps = 27/250 (10%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +HG ++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 AITYDQHGKFNSQQAFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +G TY+ I+ AM + +R V N + + + L+G + + Sbjct: 64 GSKGASFETYAGIRIRGAMLDD-MRKGDWVPRSVHKNNREINQAVAELEG---VLNRDPT 119 Query: 155 KPEQVVAIAKKLNVSESEVISMNC-RLAGDESL---NALINSSDKNSSQWQDWLVYDHDG 210 E + L+ S + +NC RL G E L + +I+ +D+ V D Sbjct: 120 DSEVAAHLGMSLDQYHSALTDINCSRLVGIEDLGVSDDVISPADETDDSNPFKGVAD--- 176 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 ++ R L S+ L RE + +E + L+ + VS RV Sbjct: 177 -----------ESFRKALVESIKQLPEREALVLSLYYDEE--LNLKEIGDVLGVSESRVS 223 Query: 271 QIEARAFKKV 280 QI ++A +++ Sbjct: 224 QILSQAMQRL 233 >gi|309388843|gb|ADO76723.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Halanaerobium praevalens DSM 2228] Length = 251 Score = 42.0 bits (97), Expect = 0.097, Method: Compositional matrix adjust. Identities = 63/251 (25%), Positives = 119/251 (47%), Gaps = 26/251 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKK 92 L K+Y+ + A ++ +L LV + A+G LP ++ S G IGL++A++ Sbjct: 7 LWKKYKVDDNQQAREEIILKNLGLV-RYAVGRINIMLPEHIEDQDLESYGIIGLIEAIEN 65 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F+ +RG + +T+++ IK + +Y LRS K N +R + K +A T Sbjct: 66 FNYQRGVKFSTFALPRIKGEIYDY-LRS----KDWLPDNMRRELKKVDEQKRSYKAKTGK 120 Query: 153 NLKPEQVVAIAKKLNVSES--EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 KP+Q ++K + +S E I + +LA N + S D + ++ + + D Sbjct: 121 --KPDQ-KELSKLTGIKKSRLEKIERHSQLA-----NWISLSHDFDGTELIELVAADFKQ 172 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 L EKE + L + + +L+ +E+ + +E +T ++ E+S RV Sbjct: 173 AVDRLTEKEA----VDFLAKKIDLLSEKEKLVLSLYYYEE--LTQVEIAEIIELSAARVS 226 Query: 271 QIEARAFKKVQ 281 QI RA ++++ Sbjct: 227 QIHGRAIRRLR 237 >gi|304407606|ref|ZP_07389258.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304343557|gb|EFM09399.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 232 Score = 42.0 bits (97), Expect = 0.099, Method: Compositional matrix adjust. Identities = 20/66 (30%), Positives = 39/66 (59%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ + + L+ +LRLV I + G + +++S G IGL++A++ F +G +LAT+ Sbjct: 45 GNQHSRNMLIEHNLRLVAHIVKKFDNTGEDLEDLISIGTIGLIKAIESFQVGKGTKLATF 104 Query: 105 SMWWIK 110 + I+ Sbjct: 105 AARCIE 110 >gi|315652062|ref|ZP_07905063.1| hypothetical protein HMPREF0381_2057 [Eubacterium saburreum DSM 3986] gi|315485709|gb|EFU76090.1| hypothetical protein HMPREF0381_2057 [Eubacterium saburreum DSM 3986] Length = 171 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 23/78 (29%), Positives = 44/78 (56%), Gaps = 1/78 (1%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI 75 L Y+ +++ I ++++E L HGD SA +RL+ H+ VK+ + G G + Sbjct: 7 LEMYLEDMKAIKEIDEKEIKELTDALL-HGDESARNRLIEGHMMYAVKLIKPFIGCGEEM 65 Query: 76 SEVVSEGNIGLMQAVKKF 93 S+++SE ++ L AV ++ Sbjct: 66 SDLISESHLALTMAVMEY 83 >gi|157363480|ref|YP_001470247.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermotoga lettingae TMO] gi|157314084|gb|ABV33183.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermotoga lettingae TMO] Length = 236 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 54/236 (22%), Positives = 107/236 (45%), Gaps = 37/236 (15%) Query: 61 VVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 V +IAM + LP + +++ EG + L+ A++++DP++G + ++ + IK AM +Y Sbjct: 17 VKRIAMDLL-HTLPKNVEVDDLIQEGVLALLSAIRRYDPKKGVSMYSFVVKRIKGAMYDY 75 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 LR + N K + + L+ HL K + IA +S +EV Sbjct: 76 -LRKIDWMPRNLRKNVKEVEKAIHELENHLN-------KHPSIEEIALHTGLSTNEV--- 124 Query: 177 NCRLAGDESLNALINSSD----KNSSQWQDWLVYDHDGQE----QVLIEKEERKNRRNML 228 + A DE++ + D + + D + D + E ++++EK + Sbjct: 125 --KRALDETVRKQLLRLDEFIYEGLDSFSDIIKADDEPSENAFREIILEK---------V 173 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++ L+ RE+ + R E ++L+ + + VS RV QI + + K++ I Sbjct: 174 AEAIRTLSKREQLVLSLRF--EQDLSLKEIGTVIGVSESRVSQILSSSLIKIKRYI 227 >gi|294500913|ref|YP_003564613.1| RNA polymerase sigma-D factor [Bacillus megaterium QM B1551] gi|294350850|gb|ADE71179.1| RNA polymerase sigma-D factor [Bacillus megaterium QM B1551] Length = 253 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 64/266 (24%), Positives = 127/266 (47%), Gaps = 34/266 (12%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQ 88 EE+ + + + E D A + LV ++ LV + GLP + E+ S G IGL Sbjct: 8 EEHKIWQEWIETRDSHAGNMLVKKYMPLV-NYHVQRISVGLPKNIHKEELRSLGLIGLYD 66 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 A++KFD R + TY+ + I+ A+ + + + W + +A +K +R++ + Sbjct: 67 ALEKFDYGRDLKFDTYASFRIRGAIIDGLRKEDW----LSRSAREK-----TKRIEQATE 117 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVI-SMNCRLAGDESLNALINSSDKNSSQWQD---- 202 A+ L+ +AK++ ++E++V+ +MN E A + S ++ +++D Sbjct: 118 ALEQRYLRRVAPSEVAKEVGMTEADVVHTMN------EGFLANVLSMEEQPKEYEDGEQK 171 Query: 203 WLVYDHDGQEQVLIEKEERKN--RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 + + D E+ L +EE N R L + LN +E+ + +E +T ++ Sbjct: 172 YTIKD----EKTLSPEEELINDERYQELAEVIEQLNEKEQLVVSLFYKEE--LTFTEIAQ 225 Query: 261 EFEVSRERVRQIEARAFKKVQESIQK 286 +S R+ QI ++A K++ S+ K Sbjct: 226 LLGLSTSRISQIHSKALFKMRTSLSK 251 >gi|257438785|ref|ZP_05614540.1| RNA polymerase sigma-G factor [Faecalibacterium prausnitzii A2-165] gi|257198753|gb|EEU97037.1| RNA polymerase sigma-G factor [Faecalibacterium prausnitzii A2-165] Length = 254 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 54/233 (23%), Positives = 104/233 (44%), Gaps = 29/233 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++ +LRLV+ + + G + ++ G IGL++A+ FDP + R +TY + I Sbjct: 41 MIEGNLRLVLSVVQRFAQRGENLDDLFQVGCIGLIKAIDNFDPAQPVRFSTYGVPMIIGE 100 Query: 113 MQEYI-----LR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 ++ ++ LR S SL A Q R +A+ + V +A++ Sbjct: 101 IRRFLRDNNALRVSRSLRDAAYKAMQAR------------EALEKQLGREPTVDEVARQA 148 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 +S EV + + SL + +D + + V D D ++ + E R+ Sbjct: 149 GLSRREVNAALESVVEPISLEEPL-YTDGGDAMYVIDQVRDPDSEDSWISGLEFRQ---- 203 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 +++ L PRE+RI E R L+ T ++ E +S+ +V ++E A ++ Sbjct: 204 ----TVAGLTPREKRIMELRYLKGE--TQMEVAREIGISQAQVSRLEKAALEQ 250 >gi|331092383|ref|ZP_08341209.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 2_1_46FAA] gi|330401407|gb|EGG80993.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 2_1_46FAA] Length = 237 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 27/94 (28%), Positives = 50/94 (53%), Gaps = 2/94 (2%) Query: 34 EYVLAKRYREH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 E+ +A R H GD A +LV ++ LV + + G G ++ G+IGL++A+ K Sbjct: 2 EHTIALIKRSHKGDEKARTQLVEENVGLVWCVVKRFYGRGTEPEDLFQIGSIGLLKAIDK 61 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 FD + +TY++ I ++ + LR ++K+ Sbjct: 62 FDLSYDVKFSTYAVPMISGEIKRF-LRDDGMIKV 94 >gi|225389367|ref|ZP_03759091.1| hypothetical protein CLOSTASPAR_03114 [Clostridium asparagiforme DSM 15981] gi|225044546|gb|EEG54792.1| hypothetical protein CLOSTASPAR_03114 [Clostridium asparagiforme DSM 15981] Length = 384 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 25/76 (32%), Positives = 43/76 (56%), Gaps = 1/76 (1%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEV 78 Y+ E+ +I + +EE + +R G++ A RLV +L+ V+ IA Y G LP++++ Sbjct: 9 YLEEMGQIAPMSAEEEARILERTAA-GEVQARKRLVEGNLQKVLSIAKEYEGSRLPMADI 67 Query: 79 VSEGNIGLMQAVKKFD 94 V E N L A ++D Sbjct: 68 VQEANTALTLAAVEYD 83 >gi|168206182|ref|ZP_02632187.1| sigma factor [Clostridium perfringens E str. JGS1987] gi|170662325|gb|EDT15008.1| sigma factor [Clostridium perfringens E str. JGS1987] Length = 227 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 5/80 (6%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPE--R 97 + GD A +L+ ++ +L+ KIA + + +++ EG IG + A K+D E + Sbjct: 11 QQGDKRALDKLLENNDKLIYKIASKFYSEKINAIEFDDLLQEGRIGFILACNKYDCEYIK 70 Query: 98 GFRLATYSMWWIKAAMQEYI 117 + TY+ +WI + +I Sbjct: 71 KTKFITYAFYWIYQKIHRFI 90 >gi|296164736|ref|ZP_06847300.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295899907|gb|EFG79349.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 288 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 56/243 (23%), Positives = 101/243 (41%), Gaps = 32/243 (13%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V L L +A + G + ++V +GLM AV +FDP++G +++ + Sbjct: 67 RIVARCLPLADHVASHFARRGEGLDDLVQVARLGLMNAVNRFDPDKGPSFIGFAVPTMMG 126 Query: 112 AMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVAIAKK 165 ++ Y SW + + L + R G L +A T L ++ Sbjct: 127 EVRRYFRDYSWGM---RVPRRLRELHVQISRTTGDLAQKLGRAPTAGEL--------SRA 175 Query: 166 LNVSESEVISMNCRLAGD----ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 L V E++ C +AGD +SL+A + + + + LV D G IE Sbjct: 176 LEVPHEEIV--ECLVAGDAYRLDSLDAPMGTDSSGTPR----LVADAVGGIDPQIEH--- 226 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L ++ L RER + R + +T ++ VS+ +V +I A + ++ Sbjct: 227 ITNREALRVLVAALPEREREVLRMRFFES--MTQSQIAERIGVSQMQVSRILAGTLRCLR 284 Query: 282 ESI 284 E + Sbjct: 285 EQL 287 >gi|192362157|ref|YP_001982606.1| FliA [Cellvibrio japonicus Ueda107] gi|190688322|gb|ACE86000.1| FliA [Cellvibrio japonicus Ueda107] Length = 247 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 45/211 (21%), Positives = 92/211 (43%), Gaps = 16/211 (7%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G IGL++A +K+D RG TY+ I+ A+ + + R W+ + Sbjct: 46 VEDLIQAGMIGLIEASQKYDASRGASFETYAGIRIRGAIVDEMRRGDWA---------PR 96 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N RR+ + A+ + IA +L+V E M D S + L + Sbjct: 97 SVHRNGRRISQAMAAVEARTGRDASDTEIAAELDVGLDEYYQM----LQDSSGSRLFSYE 152 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + + + DH +E +R + L ++++L RER + +E + Sbjct: 153 ETFGEEDSNIDGSDHSSVFASPLESIQRDGLKRALADAIALLPERERLVLALYYDEE--L 210 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ + VS R+ QI ++A ++++ + Sbjct: 211 NLKEIGLVLGVSESRISQIHSQAAARLRQKM 241 >gi|6952813|gb|AAF32414.1| flagellar-specific RNA polymerase sigma factor FliA [Vibrio parahaemolyticus] Length = 245 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 56/247 (22%), Positives = 102/247 (41%), Gaps = 27/247 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPER 97 Y +HG ++ + + LV +IA G P + +++ G IGL++A + +D + Sbjct: 8 YDQHGKFNSQQAFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYDGSK 67 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G TY+ I+ AM + +R V N + + + L+G L + E Sbjct: 68 GASFETYAGIRIRGAMLDD-MRKGDWVPRSVHKNNREINQAVAELEGVLNR---DPTDSE 123 Query: 158 QVVAIAKKLNVSESEVISMNC-RLAGDESL---NALINSSDKNSSQWQDWLVYDHDGQEQ 213 + L+ S + +NC RL G E L + +I+ +D+ V D Sbjct: 124 VAAHLGMSLDQYHSALTDINCSRLVGIEDLGVSDDVISPADETDDSNPFKGVAD------ 177 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 ++ R L S+ L RE + +E + L+ + VS RV QI Sbjct: 178 --------ESFRKALVESIKQLPEREALVLSLYYDEE--LNLKEIGDVLGVSESRVSQIL 227 Query: 274 ARAFKKV 280 ++A +++ Sbjct: 228 SQAMQRL 234 >gi|15895573|ref|NP_348922.1| sporulation sigma factor SigF [Clostridium acetobutylicum ATCC 824] gi|15025312|gb|AAK80262.1|AE007731_7 Sporulation-specific sigma factor F [Clostridium acetobutylicum ATCC 824] gi|325509722|gb|ADZ21358.1| sporulation sigma factor SigF [Clostridium acetobutylicum EA 2018] Length = 252 Score = 42.0 bits (97), Expect = 0.10, Method: Compositional matrix adjust. Identities = 47/251 (18%), Positives = 113/251 (45%), Gaps = 34/251 (13%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G+ A ++++ ++L LV I+ + G ++ G +GL++AV F+ + + +TY Sbjct: 27 GNKEALNKIIENNLPLVSAISRKFLNRGYEYDDIFQIGCMGLVKAVNNFNSDYKVKFSTY 86 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTT--ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 ++ I ++ + LR ++K+ + + ++L ++ +L L N +P Sbjct: 87 AVPMIMGEIKRF-LRDDGIIKVSRSVKSTARQLHYDREKLVKEL------NREP------ 133 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK---- 218 I + +G + ++ + S Q+ +V+ DG +LI+K Sbjct: 134 ----------TIDELSKFSGIDKEEIIMATESTTSMQYLYDVVHQDDGSPVLLIDKLSDP 183 Query: 219 ---EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEAR 275 + + +L + + L+ + ++I R ++ T +++ +S+ +V +IE R Sbjct: 184 YSEDSDVIDKIVLKQIIKSLDNKSKQIIMLRYFKDKTQT--QVANMLGISQVQVSRIEKR 241 Query: 276 AFKKVQESIQK 286 K ++E + K Sbjct: 242 ILKAIREKLTK 252 >gi|300717210|ref|YP_003742013.1| RNA polymerase sigma factor for flagellar operon [Erwinia billingiae Eb661] gi|299063046|emb|CAX60166.1| RNA polymerase sigma factor for flagellar operon [Erwinia billingiae Eb661] Length = 240 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 46/210 (21%), Positives = 93/210 (44%), Gaps = 22/210 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDN--NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + N R + G + + + EQ VA + +++ E I ++ N+ + Sbjct: 92 SVRRNAREVAGAMHKVEQSLGRTATEQEVAASLDVSLQEYRQILLDTN-------NSQLF 144 Query: 192 SSDKNSSQWQDWLVYDHDGQEQV-LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 S D+ + D DG E+ + + N R + ++ L RE+ + +E Sbjct: 145 SYDEFREEHGDTAELVTDGHEEANPLHQLMEGNLRERVIEAIEALPDREKMVLTLYYQEE 204 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + L+ + + EV RV Q+ ++A K++ Sbjct: 205 --LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|290962881|ref|YP_003494063.1| sigma factor [Streptomyces scabiei 87.22] gi|260652407|emb|CBG75540.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 275 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 54/234 (23%), Positives = 108/234 (46%), Gaps = 15/234 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +RG + ++V G IGL++A+ +F+ R T+++ +I Sbjct: 49 LIEMNLSLVRYAASRFRGREDSLEDIVQVGTIGLIKAIDRFELSREVEFTTFAVPYIVGE 108 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ + + V + + R+ L R LQ+ + +++ +++SE E Sbjct: 109 IKRFFRDTSWAVHVPRRLQEARV--ELARATDELQSRLGRMPTTRE---LSELMSLSEEE 163 Query: 173 VISMNCRLAG--DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 VI G SL+A + S + D ++ D G+E ++ E + L Sbjct: 164 VIEARKASNGYNTSSLDAALTSDGGDDG---DAVLGDLIGEEDHALQLVEDFHS---LAP 217 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++ L+ RERRI R ++E T ++ E VS+ V ++ +R K+++ + Sbjct: 218 LIAQLDDRERRIIHLRFVEE--WTQSQIAEELGVSQMHVSRLISRIIKRLRTGL 269 >gi|85859187|ref|YP_461389.1| RNA polymerase flagellar sigma factor [Syntrophus aciditrophicus SB] gi|85722278|gb|ABC77221.1| RNA polymerase flagellar sigma factor [Syntrophus aciditrophicus SB] Length = 261 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 54/236 (22%), Positives = 101/236 (42%), Gaps = 29/236 (12%) Query: 62 VKIAMGYRGYGLPIS-----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA-MQE 115 VK +G +PI +++ G IGLM A++K+D R R TY+ I+ A + E Sbjct: 41 VKAVVGRMASKIPIDAGDKEDLIHVGIIGLMSAIEKYDTRRNVRFETYAGIRIRGAVLDE 100 Query: 116 YILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 R W V + + + L+ L+ D++ I++ L +S E Sbjct: 101 LRARDW--VPRAVRSRDNEITKAISSLQKILRRAPDDH-------EISEYLGLSIEEYF- 150 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYD-----HDGQEQVLIEKEERKNRRNMLTR 230 +L D +LI+S D + D G LI E R L + Sbjct: 151 ---KLLDDSRCISLISSEDLPGDYLDRYSCSDVIRAVEQGSALDLITDHE---FRMQLKK 204 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +M +L +ER + +E +T++ + +++ RV Q+ ++A +++ +++K Sbjct: 205 AMELLPDKERLVLTLYYYEE--LTMKEIGKVLDLTESRVCQLHSQAIFRLRAAVKK 258 >gi|302392368|ref|YP_003828188.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetohalobium arabaticum DSM 5501] gi|302204445|gb|ADL13123.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetohalobium arabaticum DSM 5501] Length = 260 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 55/259 (21%), Positives = 110/259 (42%), Gaps = 28/259 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 ++EH + A L+ + LV +A LP ++ + G IGL+ A+++FD Sbjct: 16 FKEHNNQQAKEELMLRFMPLVKYVA-NRVAINLPDKFEFEDLQNYGIIGLIDAIERFDHR 74 Query: 97 RGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQ-----KRLFFNLRRLKGHLQAIT 150 RG + +TY++ I+ ++ + + R W I A Q L L RL T Sbjct: 75 RGMKFSTYAISRIRGSIIDQLRRLDWVPTTIRRKAKQVAEINSELANKLGRLP------T 128 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 D ++ E L+ E + + + SL++ INS + + + + Sbjct: 129 DEEIRQEL------DLDSDEYSQLMSEINIPQETSLDSFINSRQADGVTLIEVIADEDAA 182 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 + + EE K +L ++ L P+ER++ + + L + EV+ R+ Sbjct: 183 RPEQTFRYEEIK---RILGEAIEKLKPQERKVVTLYYYE--GLNLTEIGEVLEVTTARIS 237 Query: 271 QIEARAFKKVQESIQKQVE 289 Q+ +A +++ + ++ E Sbjct: 238 QLHTKAIYRLRGYLSRKKE 256 >gi|251779245|ref|ZP_04822165.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243083560|gb|EES49450.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 234 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 28/92 (30%), Positives = 48/92 (52%), Gaps = 8/92 (8%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLM 87 K EE VL + GD +L+ ++ +L+ KI + + I ++ EG IGLM Sbjct: 2 KNEELVLL---YQQGDKKELEQLIENNKKLIYKIVNKFYVNETNSIDIEDLEQEGMIGLM 58 Query: 88 QAVKK--FDPERGFRLATYSMWWIKAAMQEYI 117 A +K F+ E + +TY+++WI + E+I Sbjct: 59 IAAEKYKFNIENKAKFSTYAIYWIYGRITEFI 90 >gi|172038499|ref|YP_001805000.1| RNA polymerase sigma factor SigF [Cyanothece sp. ATCC 51142] gi|171699953|gb|ACB52934.1| group 3 sigma-70 RNA polymerase sigma factor J [Cyanothece sp. ATCC 51142] Length = 282 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 54/221 (24%), Positives = 103/221 (46%), Gaps = 18/221 (8%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDP 95 L Y + L ++LV +L LV ++A R P ++ G +GL++A+++FDP Sbjct: 40 LLSAYARNPSLELRNQLVERNLGLVRQVAHRISRQCSEPYEDLEQIGYLGLIRAIERFDP 99 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 ++G +++++ +I+ M Y+ S+++I + L+ ++++ L T + + Sbjct: 100 QQGCAFSSFAIPYIRGEMLHYLRDKGSVMRI--PRRWQELYNKAKKIRKQL---TVSLKR 154 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDE----SLNALINSSDKNSSQWQDWLVYDHDGQ 211 P IA L V E C+LA SL+A I+ + S + D L D + Q Sbjct: 155 PPSDWEIADALGVPLEEW--NECQLALQNRLLVSLDATISHNVDCSISFGDTLP-DQEYQ 211 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + +E++ R L R++ L + + E L E P Sbjct: 212 AKQKLEED-----RLQLQRALGQLEEKTKAAIECVFLHELP 247 >gi|289444245|ref|ZP_06433989.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T46] gi|289417164|gb|EFD14404.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T46] Length = 375 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 33/116 (28%), Positives = 55/116 (47%), Gaps = 31/116 (26%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 216 RKDAELTASAD-SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 274 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 AA R L+ ++LRLVV +A Y G G+ +++ EGN+GL++ Sbjct: 275 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIR 330 >gi|242241477|ref|ZP_04795922.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis W23144] gi|242235020|gb|EES37331.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis W23144] Length = 256 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 53/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K+++E+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KQHQENEDSLAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSERERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 VKKLQEA 253 >gi|238920292|ref|YP_002933807.1| flagellar biosynthesis sigma factor [Edwardsiella ictaluri 93-146] gi|238869861|gb|ACR69572.1| RNA polymerase sigma factor for flagellar operon [Edwardsiella ictaluri 93-146] Length = 240 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 48/224 (21%), Positives = 98/224 (43%), Gaps = 36/224 (16%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLHAVERYDAMQGTAFTTYAIQRIRGAMLDE-LRSRDWVPRSVRRNARG 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++R + L + ++ IA+++ +S +E + D Sbjct: 100 VSAAMQRAEQRLGRVPGDS-------EIAQEMGISLAEYQQILL---------------D 137 Query: 195 KNSSQ---WQDWLVYDHDGQEQVLIEKEE--------RKNRRNMLTRSMSVLNPRERRIF 243 N+SQ + +W D E V+ + EE + R + ++ L RE+ + Sbjct: 138 TNTSQLFSYDEWREEHGDSAEPVVEQSEESNPLHQLLESDLRGRVIAAIEALPEREKLVL 197 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E + L+ + + EV RV Q+ ++A K+++ + Q Sbjct: 198 TLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTRLLSQ 239 >gi|254392909|ref|ZP_05008077.1| sigma factor of sigB family [Streptomyces clavuligerus ATCC 27064] gi|294811525|ref|ZP_06770168.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|326440088|ref|ZP_08214822.1| putative RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197706564|gb|EDY52376.1| sigma factor of sigB family [Streptomyces clavuligerus ATCC 27064] gi|294324124|gb|EFG05767.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 289 Score = 42.0 bits (97), Expect = 0.11, Method: Compositional matrix adjust. Identities = 55/230 (23%), Positives = 101/230 (43%), Gaps = 23/230 (10%) Query: 61 VVKIAMG-YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL- 118 +VK A G +R + +++ G IGL++A+ +F+ R AT+++ +I ++ + Sbjct: 73 LVKYAAGRFRNRAEQMEDIIQVGTIGLIKAIDRFELSREVEFATFAVPYIVGEIKRFFRD 132 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI---- 174 SW+ + + L +L + L D + + +A+ L + E EVI Sbjct: 133 TSWA---VHVPRRLQELRIDLAKATDDLSQRLDRSPTTRE---LAEHLGIDEQEVIEGVV 186 Query: 175 SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 + N AG + L +SSD +S D L G +E E L + Sbjct: 187 AANGYTAGSIDM-PLEDSSDHTTSSLSDRL-----GAPDAGLEIAENVQALKPL---IEE 237 Query: 235 LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L R+RRI R +E +T + +E VS+ V ++ R +++E + Sbjct: 238 LGERDRRILRMRFGEE--LTQSEIGAELGVSQMHVSRLLTRITTRLREGL 285 >gi|218887101|ref|YP_002436422.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218758055|gb|ACL08954.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 265 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 18/45 (40%), Positives = 30/45 (66%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 ++E++S G +GLM+A+ KF P+ G R TY+ I+ AM + + R Sbjct: 64 LNELISAGTLGLMEALGKFRPQLGIRFETYAESRIRGAMLDELRR 108 >gi|253574829|ref|ZP_04852169.1| RNA polymerase sigma-K factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251845875|gb|EES73883.1| RNA polymerase sigma-K factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 110 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 25/75 (33%), Positives = 44/75 (58%), Gaps = 2/75 (2%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGL 86 P+ E++E L +R E GD + + L+ +LRLV I + G + +++S G IGL Sbjct: 38 PLTEEEETKHL-QRMAE-GDSESRNILIEHNLRLVAHIVKKFDNTGEDLEDLISIGTIGL 95 Query: 87 MQAVKKFDPERGFRL 101 ++A++ F P +G +L Sbjct: 96 IKAIESFRPNKGTKL 110 >gi|317128506|ref|YP_004094788.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus cellulosilyticus DSM 2522] gi|315473454|gb|ADU30057.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus cellulosilyticus DSM 2522] Length = 252 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 34/132 (25%), Positives = 63/132 (47%), Gaps = 6/132 (4%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + G A ++V ++ RLV + + G ++ G IGL+++V KFD + + Sbjct: 28 QDGAQEARDQIVNANTRLVWSVVQRFLNRGYEADDLFQIGCIGLIKSVDKFDLSYDVKFS 87 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY++ I +Q + LR VK+ + K +R++K L + V I Sbjct: 88 TYAVPMIIGEIQRF-LRDDGTVKVSRSI--KESANKIRKMKEELSKTLG---RTPTVNEI 141 Query: 163 AKKLNVSESEVI 174 A+KL+++ EV+ Sbjct: 142 AEKLDLTPEEVV 153 >gi|302867457|ref|YP_003836094.1| RNA polymerase sigma-70 factor [Micromonospora aurantiaca ATCC 27029] gi|315506134|ref|YP_004085021.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Micromonospora sp. L5] gi|302570316|gb|ADL46518.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Micromonospora aurantiaca ATCC 27029] gi|315412753|gb|ADU10870.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Micromonospora sp. L5] Length = 269 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 54/227 (23%), Positives = 100/227 (44%), Gaps = 20/227 (8%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L L +A Y G G P ++ +GL++AV +FD RG A +++ I ++ + Sbjct: 54 LPLANHLAARYSGRGEPAGDLAQTAALGLIKAVDRFDASRGVDFAGFAIPTILGEIKRHF 113 Query: 118 L-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS--ESEVI 174 R+W+ +++ + RL R+ +T + V IA L+V+ E Sbjct: 114 RDRTWN-IRVPRRLQELRL-----RISEANSTLTQTLNRAPTVADIAAHLDVTEEEVLEG 167 Query: 175 SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 R SL+ I D ++++ D L G E + E + R L +++ Sbjct: 168 LEGARAYNAVSLSTPIGDGD-SATELGDTL-----GTED---NEYELADLRASLGPALAT 218 Query: 235 LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L+ RE++I R +T +++ VS+ V ++ ARA K++ Sbjct: 219 LDEREQKILTLRFYGN--LTQSEIAARVGVSQMHVSRLLARALTKLR 263 >gi|225848018|ref|YP_002728181.1| RNA polymerase sigma-D factor (Sigma-28) [Sulfurihydrogenibium azorense Az-Fu1] gi|225644246|gb|ACN99296.1| RNA polymerase sigma-D factor (Sigma-28) [Sulfurihydrogenibium azorense Az-Fu1] Length = 240 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 47/217 (21%), Positives = 105/217 (48%), Gaps = 19/217 (8%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLF 136 +++ G +GL A++K+DP +G +L+TY+ I+ + ++ LR V + K L Sbjct: 39 DLIQVGVLGLYDALEKYDPSKGIKLSTYAEIRIRGYIIDH-LRQLDWVPRSVRSKIKNLE 97 Query: 137 FNLRRLKGHL--QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINS 192 + +L+ L QA T+ IA L ++ E ++ LA SL++ ++ Sbjct: 98 NKIAQLEAQLGRQAKTEE---------IANYLGMTVEEYMTYAEVLANKVLISLDSDVSK 148 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 D S + + + D ++V+ EK+ ++ +++ ++ L+ RER + +E Sbjct: 149 DDDESLHLWEVISSNDDTPDKVVEEKQLKEILSDII---LNHLDERERLLISLYYYEE-- 203 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + ++ ++ ++ RV Q+ + K++ + K +E Sbjct: 204 LNMKEIADILGITESRVSQLHTKIMLKLKNLVMKYLE 240 >gi|296101730|ref|YP_003611876.1| flagellar biosynthesis sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295056189|gb|ADF60927.1| flagellar biosynthesis sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 239 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 50/221 (22%), Positives = 97/221 (43%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + E M L+++++ Sbjct: 100 VAHAMGQLE---QELGRNATETE----VAERLGIPVEEYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D QE L E N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTDEHQQENPLHHLME-GNLRQRVMEAIEALPEREQLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|160943408|ref|ZP_02090642.1| hypothetical protein FAEPRAM212_00899 [Faecalibacterium prausnitzii M21/2] gi|158445268|gb|EDP22271.1| hypothetical protein FAEPRAM212_00899 [Faecalibacterium prausnitzii M21/2] Length = 221 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 12/90 (13%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIA--------MGYRGYGLPISEVVSEGNIGLM 87 VLA++ GD +A L+ ++ + K+A + G L ++ GN+GL Sbjct: 10 VLAQK----GDAAALDSLIDNNKSFIGKVANDLFRSMNLAQSGLNLDTDDLKQAGNLGLW 65 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +AV KFD +G + TY+ I+ AM + + Sbjct: 66 KAVPKFDAAQGMKFLTYAAPAIRNAMVDMV 95 >gi|206901181|ref|YP_002249992.1| SigD [Dictyoglomus thermophilum H-6-12] gi|206740284|gb|ACI19342.1| SigD [Dictyoglomus thermophilum H-6-12] Length = 171 Score = 41.6 bits (96), Expect = 0.13, Method: Compositional matrix adjust. Identities = 25/65 (38%), Positives = 41/65 (63%), Gaps = 2/65 (3%) Query: 225 RNMLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 R + R++ L+ RER I + R ++ P TLE + F ++RERVRQIE RA +K++ Sbjct: 104 RREIERALDALSEREREILKWRYGFKDGKPRTLEEVGKLFNITRERVRQIEERALRKLRH 163 Query: 283 SIQKQ 287 +Q++ Sbjct: 164 ILQQR 168 >gi|226323675|ref|ZP_03799193.1| hypothetical protein COPCOM_01450 [Coprococcus comes ATCC 27758] gi|225207859|gb|EEG90213.1| hypothetical protein COPCOM_01450 [Coprococcus comes ATCC 27758] Length = 205 Score = 41.6 bits (96), Expect = 0.13, Method: Compositional matrix adjust. Identities = 20/73 (27%), Positives = 39/73 (53%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A + + +LRLV+ + + G ++ G IGL++A+ F+PE + +TY Sbjct: 9 GDEEAKEQYIKGNLRLVLSVIKRFSGSSENPDDLFQIGCIGLIKAINNFNPELEVKFSTY 68 Query: 105 SMWWIKAAMQEYI 117 ++ I ++ +I Sbjct: 69 AVPMIIGEIRRFI 81 >gi|121533733|ref|ZP_01665560.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] gi|121307724|gb|EAX48639.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] Length = 252 Score = 41.6 bits (96), Expect = 0.13, Method: Compositional matrix adjust. Identities = 23/75 (30%), Positives = 43/75 (57%), Gaps = 6/75 (8%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +L+ +L LV K+ G GLP +++S G GL+ A+++FDP R + TY++ Sbjct: 30 KLIEKYLPLV-KMVAGRVAIGLPQHIDKEDLISYGFFGLLDAIERFDPSRNIKFETYAVA 88 Query: 108 WIKAAMQEYI-LRSW 121 I+ ++ + I ++ W Sbjct: 89 RIRGSIFDAIRVQDW 103 >gi|158340672|ref|YP_001521840.1| RNA polymerase sigma factor [Acaryochloris marina MBIC11017] gi|158310913|gb|ABW32526.1| RNA polymerase sigma factor [Acaryochloris marina MBIC11017] Length = 440 Score = 41.6 bits (96), Expect = 0.13, Method: Compositional matrix adjust. Identities = 53/265 (20%), Positives = 112/265 (42%), Gaps = 41/265 (15%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A ++ S+L + + G+ E+++EG GL +A+ ++DP +G L Sbjct: 36 QNGDYEARQTVIYSNLAWICSRGGQFSRKGIDDGELINEGYWGLNRAIDQWDPTKGANLR 95 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TYS + Y +S ++ + K + L +LK +++ ++ V + Sbjct: 96 TYS------ERKIYKFQSEAIRQKNHIRLPKSTYEQLSKLKKATESLGED----ATVAQL 145 Query: 163 AKKLNVSE---------SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 A++ + E S+ +S+N E+L L +D D G Sbjct: 146 AEETEIKEKRIRKLQEISQPVSLNSVTGERENLELLDQQAD------------DSLGSLD 193 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 + E L + L+PR+R I +E ++ + +S + ++VR++ Sbjct: 194 PALSSE--------LLDLVDKLHPRQREILHLYHWEE--LSFQKISDYLGLPAKQVRKLY 243 Query: 274 ARAFKKVQESIQKQVELSSSPPLLQ 298 +A +++ +Q ++ PLL+ Sbjct: 244 KKALDLLRKFLQGEINEFPPLPLLE 268 >gi|1378114|gb|AAB41955.1| whiG [Streptomyces sp.] Length = 209 Score = 41.6 bits (96), Expect = 0.13, Method: Compositional matrix adjust. Identities = 48/198 (24%), Positives = 85/198 (42%), Gaps = 27/198 (13%) Query: 57 HLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H +VK G GLP ++ VS G GL+ A++KFD +R + TY++ I+ A Sbjct: 9 HYSPLVKYVAGRVSVGLPPNVEQADFVSSGVFGLIDAIEKFDVDREIKFETYAITRIRGA 68 Query: 113 M-QEYILRSWSLVKIGTTA-NQKRLFFNL----RRLKGHLQAITDNNLKPEQVVAIAKKL 166 M E W + A N +R + L RR + ++ + E++ A+ +L Sbjct: 69 MIDELRALDWIPRSVRQKARNVERAYATLEAQFRRTPSEAEVASEMGIALEELHAVFSQL 128 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDGQEQVLIEKEERKNR 224 + LA +L L+++ + + D L D +E E + Sbjct: 129 S------------LANVVALEELLHAGGEGGGRLSLMDTL---EDTAADNPVEVAEDREL 173 Query: 225 RNMLTRSMSVLNPRERRI 242 R +L R+++ L RE+ + Sbjct: 174 RRLLARAINTLPDREKTV 191 >gi|21225555|ref|NP_631334.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|256783425|ref|ZP_05521856.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289767301|ref|ZP_06526679.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|4835317|emb|CAB42939.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289697500|gb|EFD64929.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 295 Score = 41.6 bits (96), Expect = 0.13, Method: Compositional matrix adjust. Identities = 47/206 (22%), Positives = 93/206 (45%), Gaps = 17/206 (8%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++ LV A +RG G + ++V G IGL++A+ +F+ R ++++ + Sbjct: 64 ARNTLIEMNMSLVRFAAGRFRGRGNDMEDIVQTGMIGLIKAIDRFELSREVEFTSFALPY 123 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I ++ + + V + + R+ L R + L D + V +A +N+ Sbjct: 124 IVGEIKRFFRDTTWAVHVPRRLQELRV--ELARAREELSTRLD---REPTVAELATLMNI 178 Query: 169 SESEVISMNCRLAG--DESLNALI--NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 E +VI G SL+A + + + S D++ + DG L+E Sbjct: 179 GEDQVIEGQIASNGYNSSSLDAALTGDGPENGESVLADFIGVEEDGLR--LVED------ 230 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQE 250 + L M+ L+ R+R+I R ++E Sbjct: 231 FHSLAPLMAELSERDRQIIHLRFVEE 256 >gi|124265243|ref|YP_001019247.1| RNA polymerase sigma factor for flagellar operon [Methylibium petroleiphilum PM1] gi|124258018|gb|ABM93012.1| RNA polymerase sigma factor for flagellar operon [Methylibium petroleiphilum PM1] Length = 265 Score = 41.6 bits (96), Expect = 0.13, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 104/238 (43%), Gaps = 30/238 (12%) Query: 57 HLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 H LV +IA R LP + E++ G IGL +A+ +F+ G TY+ I+ A Sbjct: 39 HGALVRRIAKRMRAR-LPANVEMDELLQAGLIGLNEAITRFEESFGASFDTYASRRIEGA 97 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 M + LR+ + A+Q R ++ +QA+ L+P + + +A +L S Sbjct: 98 MLDS-LRAADTLSRDARAHQ-------RAIRAAVQALEHRLLRPPRAMEVASELGWS--- 146 Query: 173 VISMNCRL---------AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + ++ RL AGD L+ L + + + +D L D L +R+ Sbjct: 147 LARLHQRLVEAGAAGQRAGDAPLDGLADEASARGA--EDDLHATADDHADPLAAL-QRRQ 203 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + L RE+ + + + E + ++ + VS RV Q+ A +K++ Sbjct: 204 RTTALNAAFDTLEEREQLMM--KMIYERGLDHQDAAESLGVSPSRVSQMHAVVVQKLK 259 >gi|159163074|pdb|1TTY|A Chain A, Solution Structure Of Sigma A Region 4 From Thermotoga Maritima Length = 87 Score = 41.6 bits (96), Expect = 0.14, Method: Compositional matrix adjust. Identities = 23/59 (38%), Positives = 34/59 (57%), Gaps = 2/59 (3%) Query: 225 RNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R L + + L+PRE + R L P TLE + F V+RER+RQIE +A +K++ Sbjct: 9 REELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLR 67 >gi|168700558|ref|ZP_02732835.1| RNA polymerase sigma factor whiG [Gemmata obscuriglobus UQM 2246] Length = 260 Score = 41.6 bits (96), Expect = 0.14, Method: Compositional matrix adjust. Identities = 59/256 (23%), Positives = 111/256 (43%), Gaps = 28/256 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 YRE + +RLV +L LV A G+ + +++S G GL+ A+ FD R Sbjct: 17 YRERPTVELRNRLVERYLSLVKYNAERIWSRLPDGVELDDLISAGVFGLLDAIDAFDLTR 76 Query: 98 GFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 G + TY + I+ AM E W + + A++ + + L+A KP Sbjct: 77 GVKFETYCVPRIRGAMLDELRTMDWVPRLVRSKASK------MEAARKQLEAALGRPPKP 130 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 E+ +++KL + ++ S GD + L++ + K W + Y + +L Sbjct: 131 EE---LSEKLGIPLEQLESY----VGDATAVNLVSLNKK----WYETDSYKDVREIDILE 179 Query: 217 EKEE-----RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 +K+ R R+++ LN ER I +E +T++ + + +S RV Q Sbjct: 180 DKKAESPTGRLQNRDLMKLVTRGLNRNERLIVILYYYEE--MTMKEIGATLNLSESRVSQ 237 Query: 272 IEARAFKKVQESIQKQ 287 + + ++Q + K+ Sbjct: 238 MHSSIVARLQSHLAKR 253 >gi|254228448|ref|ZP_04921874.1| RNA polymerase sigma factor, FliA/WhiG family [Vibrio sp. Ex25] gi|262393605|ref|YP_003285459.1| RNA polymerase sigma factor for flagellar operon [Vibrio sp. Ex25] gi|151939036|gb|EDN57868.1| RNA polymerase sigma factor, FliA/WhiG family [Vibrio sp. Ex25] gi|262337199|gb|ACY50994.1| RNA polymerase sigma factor for flagellar operon [Vibrio sp. Ex25] Length = 244 Score = 41.6 bits (96), Expect = 0.14, Method: Compositional matrix adjust. Identities = 55/250 (22%), Positives = 103/250 (41%), Gaps = 27/250 (10%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +HG ++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 AITYDQHGKFNSQQAFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +G TY+ I+ AM + +R V N + + + L+G L + Sbjct: 64 GSKGASFETYAGIRIRGAMLDD-MRKGDWVPRSVHKNNREINQAIAELEGELNR---DPT 119 Query: 155 KPEQVVAIAKKLNVSESEVISMNC-RLAGDESL---NALINSSDKNSSQWQDWLVYDHDG 210 E + L+ S + +NC +L G E L + +I+ +D+ V D Sbjct: 120 DSEVATHLGMTLDQYHSALTDINCSKLVGIEDLGVSDDVISPADETDDSNPFKGVAD--- 176 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 ++ R L S+ + RE + +E + L+ + VS RV Sbjct: 177 -----------ESFRKALVESIKQIPEREALVLSLYYDEE--LNLKEIGDVLGVSESRVS 223 Query: 271 QIEARAFKKV 280 QI ++A +++ Sbjct: 224 QILSQAMQRL 233 >gi|117926317|ref|YP_866934.1| FliA/WhiG family RNA polymerase sigma factor [Magnetococcus sp. MC-1] gi|117610073|gb|ABK45528.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Magnetococcus sp. MC-1] Length = 260 Score = 41.6 bits (96), Expect = 0.14, Method: Compositional matrix adjust. Identities = 44/206 (21%), Positives = 94/206 (45%), Gaps = 13/206 (6%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAA-MQEYILRSWSLVKIGTTANQKRLFFNLR 140 G +GL+ AV KFDP+RG + TY+ + I+ A + E W ++ A+Q + +N Sbjct: 61 GVMGLIDAVSKFDPDRGIKFQTYAEFRIRGAILDELRAIDWVPRQLRQNASQMQEAYN-- 118 Query: 141 RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 +L+ +P + V +A+ L +S +E ++ G ++ + + +W Sbjct: 119 QLEAKFG-------RPAEDVEVAEHLGISLNEYHEQIDQVRGISIVSFEDIRPNNDDEEW 171 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 D L D Q +E R+ + ++ L +ER + +E +T+ + Sbjct: 172 -DVLEVLADPSVQDPVEAIGLMELRHAMADAIETLPEKERLVVTLYYFEE--LTMSEIGE 228 Query: 261 EFEVSRERVRQIEARAFKKVQESIQK 286 ++ R+ Q+ ++A +++ I++ Sbjct: 229 VLGLTESRISQLHSKAALRMRARIKR 254 >gi|16332163|ref|NP_442891.1| RNA polymerase sigma factor SigF [Synechocystis sp. PCC 6803] gi|1653792|dbj|BAA18703.1| RNA polymerase sigma-37 [Synechocystis sp. PCC 6803] Length = 258 Score = 41.6 bits (96), Expect = 0.14, Method: Compositional matrix adjust. Identities = 40/166 (24%), Positives = 82/166 (49%), Gaps = 16/166 (9%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE-GNIGLMQA 89 K E L K Y E D+ +R++ +L LV K A + E +S+ G +GL++A Sbjct: 10 KLETLRLFKIYAESHDIGVRNRIMEVNLGLVRKEAHHWTAQCNESFEDLSQVGCLGLIRA 69 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI-------GTTANQKRLFFNLRRL 142 +++FD +G +++++ +++ +Q ++ + V+I G A + F L+ Sbjct: 70 IERFDVSKGNAFSSFAIPYVRGEIQHFLRDKSNCVRIPRRWLDLGRQAIAVQQEFRLK-- 127 Query: 143 KGHLQAITDNNLKPEQVVAIAK----KLNVSESEVISMNCRLAGDE 184 + +A TD + V +A KL + E++S++ ++ GD+ Sbjct: 128 --YDRAATDEEIAQILAVPLADWQETKLALQNRELVSLDTKVNGDD 171 >gi|238924178|ref|YP_002937694.1| sporulation sigma factor SigK [Eubacterium rectale ATCC 33656] gi|238875853|gb|ACR75560.1| sporulation sigma factor SigK [Eubacterium rectale ATCC 33656] gi|291529048|emb|CBK94634.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Eubacterium rectale M104/1] Length = 230 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 28/106 (26%), Positives = 52/106 (49%), Gaps = 3/106 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +++II +I Y++ LE++ E + + D A L+ ++RLV + Sbjct: 10 DLNIIYYKQIMTGCYVNTFLSPLSLERETECL---KKVAQNDKEAKDELILHNMRLVAHV 66 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 Y + E++S G IGL++AV F + G R AT+++ I+ Sbjct: 67 TKKYAVSEDEMEELISIGTIGLIKAVSSFKADYGNRFATFAIRCIE 112 >gi|85712287|ref|ZP_01043338.1| flagellar biosynthesis sigma factor FliA [Idiomarina baltica OS145] gi|85693914|gb|EAQ31861.1| flagellar biosynthesis sigma factor FliA [Idiomarina baltica OS145] Length = 241 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 58/264 (21%), Positives = 111/264 (42%), Gaps = 38/264 (14%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 A Y H D A ++ H LV +IA M + + +++ G IGL++A + FD Sbjct: 4 AAVYSAHADNRQA--IIEQHTGLVKRIAHHMMARLPASVQVDDLIQSGMIGLLEAARNFD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G T++ I+ AM + I R W+ + + N RR+ ++ + + Sbjct: 62 NSKGASFETFAGIRIRGAMLDEIRRGDWA---------PRSVHRNHRRVLEAIRQVENET 112 Query: 154 LKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNA---LINSSDKNSSQWQDWLV 205 + + V +A+KL + E ++ + R+ G E L I + ++ Sbjct: 113 GRDAKDVEVAEKLEMPLEEYHAILRDVNSGRIIGIEDLGVSEDAIMPEQVTGANYEPQKD 172 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 ++D + L+E ++S L RE + +E + L+ + VS Sbjct: 173 VENDAFHRALVE-------------TISGLPEREALVLSLYYDEE--LNLKEIGEVLSVS 217 Query: 266 RERVRQIEARAFKKVQESIQKQVE 289 RV QI ++A +++ +Q VE Sbjct: 218 ESRVSQIHSQAMMRLKTRMQSWVE 241 >gi|291524907|emb|CBK90494.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Eubacterium rectale DSM 17629] Length = 230 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 28/106 (26%), Positives = 52/106 (49%), Gaps = 3/106 (2%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +++II +I Y++ LE++ E + + D A L+ ++RLV + Sbjct: 10 DLNIIYYKQIMTGCYVNTFLSPLSLERETECL---KKVAQNDKEAKDELILHNMRLVAHV 66 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 Y + E++S G IGL++AV F + G R AT+++ I+ Sbjct: 67 TKKYAVSEDEMEELISIGTIGLIKAVSSFKADYGNRFATFAIRCIE 112 >gi|326203397|ref|ZP_08193262.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium papyrosolvens DSM 2782] gi|325986655|gb|EGD47486.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium papyrosolvens DSM 2782] Length = 249 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 40/219 (18%), Positives = 98/219 (44%), Gaps = 17/219 (7%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E L Y G+ + +V+++L L ++ + G+ ++ + L++AV++ Sbjct: 12 DEAQLFSLYISTGNQDYRNEIVSNYLSLAEYLSKKFLNRGVDFDDIYQVACLALIKAVER 71 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 F PE+G + +++ I ++ + + +KI +R++ + + + +T Sbjct: 72 FSPEKGVKFISFATPTILGEIKRFFRDKSTTIKI-----PRRIYESRQGVNKARDELTQK 126 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS--DKNSSQWQDWLVYDHDG 210 + + IA+ + +S V+ + AG S+ ++ S +N S+ D L YD Sbjct: 127 LSRVPRADEIAEYMGISVDTVLEI--LEAGSSSIVKSLDQSINQENDSELGDTLGYDEKT 184 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 E + + ++ L ++++ N E+ + R +Q Sbjct: 185 YEMI--------DNKDFLEKALTSFNDIEKEFIKYRYIQ 215 >gi|331696322|ref|YP_004332561.1| SigB/F/G subfamily RNA polymerase sigma-28 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951011|gb|AEA24708.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Pseudonocardia dioxanivorans CB1190] Length = 283 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 55/238 (23%), Positives = 102/238 (42%), Gaps = 20/238 (8%) Query: 53 LVTSHLRLVVKIAMGYR-GYGLPISEVVSEGNIGLMQAVKKFDPER-GFRLATYSMWWIK 110 L+ + L +V +A+ + GY ++V G +GL+ A+ ++DP+R G L Y + ++ Sbjct: 62 LILAFLPIVRHLALRHSAGYPGGYDDLVQVGTVGLISAIDRWDPDRAGADLLGYLVPCVR 121 Query: 111 AAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 M Y R+W+ + K L + + G L +P + +A L V Sbjct: 122 GEMLRYFRDRTWA---VRVPRRLKDLAVAINKATGPLSQQLGRAPRPSE---LAAHLGVD 175 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 SEV+ AG S + D + + + + DG+ L E R R +L Sbjct: 176 VSEVVEALTAKAGHHSDP--LEPVDPETGESSHERLGELDGE---LDHVEYRHALRPLL- 229 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L RER I R ++ +T ++ E +S+ V ++ AR+ ++ + + Sbjct: 230 ---ESLPERERTILMLRFFRD--MTQTQIAEEIGISQMHVSRLLARSLTTLRAGLAAE 282 >gi|113954054|ref|YP_730869.1| type III sigma factor [Synechococcus sp. CC9311] gi|113881405|gb|ABI46363.1| putative type III sigma factor [Synechococcus sp. CC9311] Length = 271 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 14/30 (46%), Positives = 23/30 (76%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 ++V EG +GL+ + FDP+RGFR++TY + Sbjct: 51 DLVQEGCLGLINGMANFDPQRGFRISTYVL 80 >gi|284053375|ref|ZP_06383585.1| RNA polymerase sigma factor SigC [Arthrospira platensis str. Paraca] Length = 183 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 40/178 (22%), Positives = 86/178 (48%), Gaps = 13/178 (7%) Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ + I +++ +K L ++K + I+ + + IA +L Sbjct: 2 WWIRQGITRAIATQSRTIRLPVHITEK-----LNKIKKAQRKISQEKSRTATIDDIATEL 56 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ ++ + R+ SL + + DK++ + D L + E++L+ R++ Sbjct: 57 KMTPDQIREVLLRVPRSVSLETKVGT-DKDT-ELGDLLETEESTPEELLM----RESLYR 110 Query: 227 MLTRSMSVLNPRERRIFEARRL--QENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 L ++ L+ +ER + + R +P +L + ++SRERVRQIEA+A +K+++ Sbjct: 111 ELQHILADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQ 168 >gi|153818374|ref|ZP_01971041.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae NCTC 8457] gi|126511064|gb|EAZ73658.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae NCTC 8457] Length = 232 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 44/159 (27%), Positives = 74/159 (46%), Gaps = 18/159 (11%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++G+L++ + + LV +IA G P I +++ G +GL++A K +D Sbjct: 4 ALTYDQYGNLNSQQLFLEKYSVLVKRIAHHLIGRLPPSVLIEDLIQAGMVGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREISQAIAVLEGEL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLN 187 P +AK LN+S S ++ +NC R+ G E L Sbjct: 116 RDPTD-AEVAKFLNMSLEQYHSVLMDINCSRIVGIEDLG 153 >gi|148554202|ref|YP_001261784.1| RNA polymerase sigma 28 subunit FliA/WhiG [Sphingomonas wittichii RW1] gi|148499392|gb|ABQ67646.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Sphingomonas wittichii RW1] Length = 242 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 55/239 (23%), Positives = 107/239 (44%), Gaps = 27/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H++LV KIA G + + +++ G I L++A ++ +RG +TY+ + Sbjct: 24 LVRAHMQLVRKIAWHVHGRVSTAIDVEDLIQIGMIALVEAANGYE-DRGHAFSTYASMRV 82 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM +++ R +L + + L K H ++ +++ L A+ L + Sbjct: 83 RGAMIDHLRRQAALTRSAMAKRRALLTAKADFEKKHGRSPSESEL--------AQALGLD 134 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV--LIEKEERKNRRNM 227 + ++ DE+ S D+ S W D +E+V IE+EE Sbjct: 135 GAAFHALL-----DETAATYHESIDEVYSDQSMWFA---DVEERVDQTIEREELA---GA 183 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L +S L RE + + ++E + LE + + RV QI+ A K++ S+++ Sbjct: 184 LAEHISELPEREAMVLQLYFVEE--MNLEEIGQTLGIGAARVCQIKKAALDKLRVSLRE 240 >gi|160944734|ref|ZP_02091961.1| hypothetical protein FAEPRAM212_02248 [Faecalibacterium prausnitzii M21/2] gi|158443918|gb|EDP20922.1| hypothetical protein FAEPRAM212_02248 [Faecalibacterium prausnitzii M21/2] Length = 221 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 28/101 (27%), Positives = 47/101 (46%), Gaps = 15/101 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIA--------MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 + GD +A L+ ++ + K A + G L ++ GN+GL +AV KFD Sbjct: 13 QKGDAAALDSLIDNNKSFIGKAANDLFRSMNLAQSGLNLDTDDLKQAGNMGLWKAVPKFD 72 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 RG + TY+ I AM + +V+ TA ++R+ Sbjct: 73 AARGMKFLTYAAPAIHNAMMD-------MVRDAFTAFEQRM 106 >gi|315179524|gb|ADT86438.1| RNA polymerase sigma factor for flagellar operon [Vibrio furnissii NCTC 11218] Length = 244 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 63/253 (24%), Positives = 108/253 (42%), Gaps = 31/253 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++G++++ + + LV +IA G P I +++ G +GL++A K +D Sbjct: 4 ALTYDQYGNMNSQKLFLDKYSVLVKRIAHHLIGRLPPSVLIEDLIQAGMVGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREIGQAIAVLEGEL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK L +S S + +NC R+ G E L +D S D D Sbjct: 116 RDPTD-SEVAKHLGMSLDQYHSVLTDINCSRIVGIEDLGV----TDDAISPVDD----DE 166 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D + E + R L S+ L RE + +E + L+ + VS R Sbjct: 167 DNSPFKGVADE---SFRKALVESIKSLPEREALVLSLYYDEE--LNLKEIGEVLGVSESR 221 Query: 269 VRQIEARAFKKVQ 281 V QI ++A ++++ Sbjct: 222 VSQILSQAMQRLR 234 >gi|289523531|ref|ZP_06440385.1| RNA polymerase sigma factor WhiG [Anaerobaculum hydrogeniformans ATCC BAA-1850] gi|289503223|gb|EFD24387.1| RNA polymerase sigma factor WhiG [Anaerobaculum hydrogeniformans ATCC BAA-1850] Length = 189 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 21/76 (27%), Positives = 41/76 (53%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A ++ S+ +V +A + +++ EG + L++AV ++D +RG + TY Sbjct: 26 GDEKAREEVIISYRPMVFWLAKKFHVPSDSYQDLIQEGMVALIEAVDRYDAKRGTKFITY 85 Query: 105 SMWWIKAAMQEYILRS 120 + + IK M ++ RS Sbjct: 86 AYYRIKGRMVNFLERS 101 >gi|32475302|ref|NP_868296.1| RNA polymerase sigma factor whiG [Rhodopirellula baltica SH 1] gi|32445843|emb|CAD78574.1| RNA polymerase sigma factor whiG [Rhodopirellula baltica SH 1] gi|327540927|gb|EGF27485.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rhodopirellula baltica WH47] Length = 272 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 47/214 (21%), Positives = 93/214 (43%), Gaps = 15/214 (7%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G+ + +++S G GLM A+ +D ERG + T+ + I+ AM + LR V + Sbjct: 64 GVELDDLISAGMFGLMDAIDAYDTERGVKFETFCVPRIRGAMLDE-LRKMDWVPRLVRSK 122 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 +L + L+ Q ++ +++V E E + G SLN Sbjct: 123 ASKLATATKTLEARF-----GRAPTVQELSAHMEIDVKEVEKMQSEANAVGVVSLNKKWY 177 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV-LNPRERRIFEARRLQE 250 +D + ++ D G++ R+ ++N L R ++ LN ER I +E Sbjct: 178 ETDSYKDVREIDILEDKKGEDPT------RRVQKNDLMRLVTKGLNRNERLIIILYYYEE 231 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +T++ + + ++S RV Q+ ++Q+ + Sbjct: 232 --LTMKEIGATLDLSESRVSQMHTAIVNRLQQQL 263 >gi|1419613|emb|CAA67397.1| signma factor 28 [Legionella pneumophila str. Corby] Length = 238 Score = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 54/240 (22%), Positives = 107/240 (44%), Gaps = 35/240 (14%) Query: 53 LVTSHLRLVVKI---AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H LV +I +G + + +++ G +GL++A + +D +G TY+ I Sbjct: 18 LVKTHATLVKRIRHHLLGRLPQSVQLDDLIQSGMLGLLEAARHYDSSKGASFETYAGIRI 77 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + M + + R+ W V N + + +R L+ L +N IA++L V Sbjct: 78 RGHMLDEVRRNDW--VPRSVYRNSRMISDAVRILEHKLGREAKDN-------EIAEELGV 128 Query: 169 SESEVISM-----NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 S ++ SM + L G + L D +++D +G E Sbjct: 129 SLNDYHSMLQDSISSHLYGFDDLGV------------TDDILFDDEGNGST--EPHRNVM 174 Query: 224 RRNMLTRSMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 R +M+ R V++ PR+ R+ + +++ + L+ + EVS R+ QI ++A +++ Sbjct: 175 RSDMMNRLTQVIDSLPRKERLVLSLYYEQD-LNLKEIGEILEVSESRISQILSQATHRIR 233 >gi|291549326|emb|CBL25588.1| RNA polymerase sigma-F factor [Ruminococcus torques L2-14] Length = 239 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 50/211 (23%), Positives = 96/211 (45%), Gaps = 32/211 (15%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A LV ++ L+ + + G G ++ G+IGL++A+ KFD + +TY Sbjct: 14 GDKKAREELVEKNIGLIWCVVKRFYGRGAEPEDLFQIGSIGLLKAIDKFDFSYEVQFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK-GHLQAITDNNLKPEQVVAIA 163 ++ I ++ + LR ++K+ + LR L LQA + + + Sbjct: 74 AVPMISGEIRRF-LRDDGMIKVSRS---------LRELSYKSLQA------REKMTRILG 117 Query: 164 KKLNVSE-SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 ++ + E SE + ++C E + + SS + S ++ ++ +G E +L++K E K Sbjct: 118 REPTLKELSEELQIDC-----EEIVQAMESSVEVESIYKP--IHQKEGSEILLMDKLEEK 170 Query: 223 NR-------RNMLTRSMSVLNPRERRIFEAR 246 +R R +L + L +ER I R Sbjct: 171 DRQEEKVLDRIVLKEVLETLEAKERTIIYLR 201 >gi|221319748|ref|ZP_03601042.1| RNA polymerase sporulation-specific sigma factor (sigma-K) (N-terminal half) [Bacillus subtilis subsp. subtilis str. JH642] Length = 160 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 3/75 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++ ++ + Sbjct: 42 KKYLELMAKGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSA 101 Query: 96 ERGFRLATYSMWWIK 110 +G +LATY+ I+ Sbjct: 102 GKGTKLATYAARCIE 116 >gi|220903606|ref|YP_002478918.1| RNA polymerase sigma-28 subunit FliA/WhiG [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219867905|gb|ACL48240.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 260 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 18/45 (40%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + E++S G +GLM+A+ KF P+ G R TY+ I+ AM + + R Sbjct: 60 LGELISSGTLGLMEALGKFRPQLGIRFETYAESRIRGAMLDELRR 104 >gi|54294669|ref|YP_127084.1| flagellar biosynthesis sigma factor [Legionella pneumophila str. Lens] gi|53754501|emb|CAH15985.1| sigma factor 28 [Legionella pneumophila str. Lens] Length = 238 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 51/236 (21%), Positives = 107/236 (45%), Gaps = 27/236 (11%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H LV +IA +G + + +++ G +GL++A + +D +G TY+ I Sbjct: 18 LVKTHATLVKRIAHHLLGRLPQSVQLDDLIQSGMLGLLEAARHYDSSKGASFETYAGIRI 77 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 + M + + R+ W V N + + +R L+ + DN + E V++ + Sbjct: 78 RGHMLDEVRRNDW--VPRSVYRNSRMISDAVRILEHKFGREAKDNEIAEELGVSLNDYHD 135 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + + S++ L G + L D +++D +G E R +M Sbjct: 136 MLQD---SISSHLYGFDDLGV------------TDDVLFDDEGNGST--EPHRNVMRSDM 178 Query: 228 LTRSMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R V++ PR+ R+ + +++ + L+ + EVS R+ QI ++A +++ Sbjct: 179 MNRLTQVIDSLPRKERLVLSLYYEQD-LNLKEIGEILEVSESRISQILSQATHRIR 233 >gi|307293798|ref|ZP_07573642.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Sphingobium chlorophenolicum L-1] gi|306879949|gb|EFN11166.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Sphingobium chlorophenolicum L-1] Length = 245 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 52/251 (20%), Positives = 112/251 (44%), Gaps = 23/251 (9%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRG---YGLPISEVVSEGNIGLMQAVKKFD 94 A Y S+ RL ++ LV K A G + I +++ G + L++A F+ Sbjct: 12 ANTYGRSAHASSPERLARQYMPLVRKTAWHVHGRVSSAIEIEDLLQIGMVALVEAANGFE 71 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +RG A+Y+ ++ AM +++ R ++ + A +K+L RL+ L + Sbjct: 72 -DRGLGFASYAQMRVRGAMIDHLRRHATMTR-SAMAQRKQLAGIRNRLEQKL-----GRI 124 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 E ++ L+ + ++ C + S++ + SD++ W + + V Sbjct: 125 PLESEMSAEMGLDPAAYREVADGCEMVQHTSMDEVY--SDQSM-----WFADVEERADDV 177 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 + ER++ + L + + L RE + + ++E + LE + + ++ RV QI+ Sbjct: 178 M----ERESLKAALAKCIGDLPQREALVLQLYFVEE--LNLEEIGATLDIGAARVCQIKK 231 Query: 275 RAFKKVQESIQ 285 A K++E ++ Sbjct: 232 AALDKLREKLR 242 >gi|221310502|ref|ZP_03592349.1| RNA polymerase sporulation-specific sigma factor (sigma-K) (N-terminal half) [Bacillus subtilis subsp. subtilis str. 168] gi|221314826|ref|ZP_03596631.1| RNA polymerase sporulation-specific sigma factor (sigma-K) (N-terminal half) [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221324026|ref|ZP_03605320.1| RNA polymerase sporulation-specific sigma factor (sigma-K) (N-terminal half) [Bacillus subtilis subsp. subtilis str. SMY] gi|321312063|ref|YP_004204350.1| sporulation sigma factor SigK [Bacillus subtilis BSn5] gi|143642|gb|AAA22804.1| spoIVCB peptide precursor [Bacillus subtilis] gi|320018337|gb|ADV93323.1| sporulation sigma factor SigK [Bacillus subtilis BSn5] Length = 155 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 3/75 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++ ++ + Sbjct: 37 KKYLELMAKGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSA 96 Query: 96 ERGFRLATYSMWWIK 110 +G +LATY+ I+ Sbjct: 97 GKGTKLATYAARCIE 111 >gi|332994104|gb|AEF04159.1| flagellar biosynthesis sigma factor [Alteromonas sp. SN2] Length = 243 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 60/255 (23%), Positives = 108/255 (42%), Gaps = 38/255 (14%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 A Y++ D S +LV H LV +IA M + + +++ G IGL++A + FD Sbjct: 5 AAAYQQQTDKS---QLVERHASLVKRIAHHLMARLPASVLVDDLIQSGMIGLLEAARNFD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G T++ I+ AM + I + W+ + + N R + + + Sbjct: 62 GSKGASFETFAGIRIRGAMLDEIRKGDWT---------PRSVHKNGRAITEAISQVEGET 112 Query: 154 LKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL--INSSDKNSSQWQDWLVY 206 + + V IA K+NVS + M +L G E L + S++KN Sbjct: 113 GRDARDVDIAAKMNVSMQDYHQMLNEVNAGKLVGIEDLGVSEDVISTEKNRGS------- 165 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 D + L++ +K L +++ L RE + +E + L + +VS Sbjct: 166 --DAPLEDLMQGAFQK----ALAHAITTLPEREAIVLSLYYDEE--LNLREIGEVLDVSE 217 Query: 267 ERVRQIEARAFKKVQ 281 RV QI ++A K++ Sbjct: 218 SRVSQIHSQAMLKLK 232 >gi|298528406|ref|ZP_07015810.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfonatronospira thiodismutans ASO3-1] gi|298512058|gb|EFI35960.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfonatronospira thiodismutans ASO3-1] Length = 261 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 19/62 (30%), Positives = 38/62 (61%), Gaps = 4/62 (6%) Query: 62 VKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 ++I + LP +++++S G++GL++A+ FDP +G +L T++ IK AM + + Sbjct: 47 IRITAARLKHKLPAHVDVNDLISAGSLGLIEALGNFDPTQGIKLETFADNRIKGAMLDEL 106 Query: 118 LR 119 R Sbjct: 107 RR 108 >gi|149176711|ref|ZP_01855322.1| RNA polymerase sigma factor whiG [Planctomyces maris DSM 8797] gi|148844352|gb|EDL58704.1| RNA polymerase sigma factor whiG [Planctomyces maris DSM 8797] Length = 258 Score = 41.6 bits (96), Expect = 0.16, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 27/42 (64%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 G+ +++++S G GLM A+ FD ERG + TY + I+ AM Sbjct: 51 GVDLNDLISAGVFGLMDAINAFDLERGVKFETYCVPRIRGAM 92 >gi|242371561|ref|ZP_04817135.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis M23864:W1] gi|242350713|gb|EES42314.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis M23864:W1] Length = 256 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 52/247 (21%), Positives = 117/247 (47%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K ++E+ + A +LVT + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KEHQENENSQAQDKLVTHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L V++ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SINEIAERLEVTDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RER+I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSDRERQIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|255283596|ref|ZP_05348151.1| DNA-directed RNA polymerase specialized sigma subunit [Bryantella formatexigens DSM 14469] gi|255265858|gb|EET59063.1| DNA-directed RNA polymerase specialized sigma subunit [Bryantella formatexigens DSM 14469] Length = 191 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 33/103 (32%), Positives = 51/103 (49%), Gaps = 16/103 (15%) Query: 47 LSAAHRLVTSHLRLVVKI--AMGYRGYGLPIS---EVVSEGNIGLMQAVKKFDPERGFRL 101 ++AA+RL+ HL LV KI ++ + LP+ E+ G + L QA +D ER F Sbjct: 5 ITAANRLIVEHLELVPKIVRSLTFSYSHLPVQEYEELTQIGYLALCQAASGYDWERPF-- 62 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKG 144 A Y+ I+ A+ +Y W A QK LF +L ++ Sbjct: 63 APYARTAIRNAIYDY----WR-----DCARQKNLFCSLDAIQA 96 >gi|254437394|ref|ZP_05050888.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] gi|198252840|gb|EDY77154.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] Length = 207 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 43/210 (20%), Positives = 102/210 (48%), Gaps = 19/210 (9%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 I +++ G IGL++A +++ + G +Y++ I+ A+ +Y+ ++ +L ++ Sbjct: 7 IEDLLQVGLIGLIEAAQRYTRQEGVSFESYAVLRIRGAIYDYLRKNTNL--------GRK 58 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + +K L +++ + +A+ L++S E +S + N+L + D Sbjct: 59 AILTSKAVKAALASLSQKLGREPTQPELAEALSMSLQE-LSKWAQNVNSSYHNSLQDEYD 117 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 ++S W + E ++ +R ++ L ++ L RE + + ++E + Sbjct: 118 EHSL----WFSSNEPTTEHLV----DRGRLKDALLAALVSLPKREALVLQLYYVEE--LN 167 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L +++ EV+ RV Q+++ AFKK+Q S+ Sbjct: 168 LYEIAAVLEVTPGRVSQLKSAAFKKMQPSL 197 >gi|109899335|ref|YP_662590.1| flagellar biosynthesis sigma factor [Pseudoalteromonas atlantica T6c] gi|109701616|gb|ABG41536.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Pseudoalteromonas atlantica T6c] Length = 242 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 56/252 (22%), Positives = 108/252 (42%), Gaps = 24/252 (9%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 A Y++ D +A LV H LV +IA + + + +++ G IGL++A + FD Sbjct: 5 AAAYQQLDDRNA---LVERHAPLVKRIAHHLIARLPASVLVDDLIQAGMIGLLEASRNFD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G T++ I+ +M + I + W+ + + N R + + + Sbjct: 62 GTKGASFETFAGIRIRGSMLDEIRKGDWT---------PRSVHKNGRAITDAINKVERET 112 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + + V IAKKL VS I ++ G+ + +I D S +D + + Sbjct: 113 GRDARDVDIAKKLEVS----IEQYHQMLGEVNAGKIIGMEDLGVS--EDVVTTEQTKGSD 166 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 E + + + L +++ L RE + +E + L + +VS RV QI Sbjct: 167 TPFEDLLQGSFQKALAHAITTLPEREAIVLSLYYDEE--LNLREIGEVLDVSESRVSQIH 224 Query: 274 ARAFKKVQESIQ 285 ++A K++ +Q Sbjct: 225 SQAMLKLKSKMQ 236 >gi|284041831|ref|YP_003392171.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] gi|283946052|gb|ADB48796.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] Length = 262 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 24/79 (30%), Positives = 45/79 (56%), Gaps = 5/79 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFD 94 +RY+ G+ +A LV ++ +VK G +P +++++S+G GL+ AV++F+ Sbjct: 15 RRYKGTGERAARDDLVLAY-SPIVKYVAGRVAARMPAHVDVADLISDGFKGLLDAVERFE 73 Query: 95 PERGFRLATYSMWWIKAAM 113 P RG R Y+ I+ A+ Sbjct: 74 PVRGVRFEAYADTRIRGAI 92 >gi|261366790|ref|ZP_05979673.1| RNA polymerase sigma-F factor [Subdoligranulum variabile DSM 15176] gi|282571621|gb|EFB77156.1| RNA polymerase sigma-F factor [Subdoligranulum variabile DSM 15176] Length = 232 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 46/195 (23%), Positives = 86/195 (44%), Gaps = 21/195 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + +L LV A ++G G+ E+ + G +GL++A FD RG +TY++ I Sbjct: 14 FIEKNLGLVHACAGRFKGRGIEYEELYAAGCLGLVKACDGFDTSRGVCFSTYAVPVILGE 73 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 +++ + R VK+ + + L N R + + +P V +A+ L + + Sbjct: 74 IKK-LFRDGGTVKVSRSLKELSLKINAERER----CLKKTGQEP-GVTQLAEILQTTPEQ 127 Query: 173 VISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 + LA SL A+ + +D+ Q ++W V + EE + R L Sbjct: 128 IA-----LAIRASLPAISLTPTDEEDGQ-REWDVP--------VDSPEESLSDRIGLAEV 173 Query: 232 MSVLNPRERRIFEAR 246 M L+P +R++ R Sbjct: 174 MEKLSPTDRQMIRLR 188 >gi|138894766|ref|YP_001125219.1| RNA polymerase sigma factor SigD [Geobacillus thermodenitrificans NG80-2] gi|196247611|ref|ZP_03146313.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. G11MC16] gi|134266279|gb|ABO66474.1| RNA polymerase sigma-28 factor (sigma-D) [Geobacillus thermodenitrificans NG80-2] gi|196212395|gb|EDY07152.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. G11MC16] Length = 253 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 3/71 (4%) Query: 46 DLSAAHRLVTSHLRLV---VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 D AA LV ++ LV V+ +P E+VS G +GL A++KFDP R + Sbjct: 23 DRHAAEELVQRYMPLVSYHVQRLSATLPSSVPKEELVSLGLVGLYDALEKFDPSRDLKFD 82 Query: 103 TYSMWWIKAAM 113 TY+ + I+ A+ Sbjct: 83 TYASFRIRGAI 93 >gi|307546921|ref|YP_003899400.1| flagellar biosynthesis sigma factor [Halomonas elongata DSM 2581] gi|307218945|emb|CBV44215.1| flagellar biosynthesis sigma factor [Halomonas elongata DSM 2581] Length = 235 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 63/248 (25%), Positives = 111/248 (44%), Gaps = 37/248 (14%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERG 98 E GDL + +L LV + A+ + LP S +++ G +GL++A+ +FD +G Sbjct: 9 EQGDL------LEEYLPLVRRQALALQ-VRLPASIELDDLIQAGTVGLLEALGRFDAAQG 61 Query: 99 FRLATYSMWWIKAAM-QEYILRSW--SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLK 155 +T++ I+ AM E R W V+ G A + +RRL+ L + Sbjct: 62 ASFSTFASQRIRGAMLDELRSRDWLPRSVRRGARAADE----AVRRLEQSLG-------R 110 Query: 156 PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV- 214 P + IA+ L++ I RL D + L+ D S + L + + V Sbjct: 111 PPEEAEIAEALDMD----IDAYRRLLSDTNSGQLLPFEDLMSEGGEGRLRDNETAETPVS 166 Query: 215 -LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 L++ E RR LT + L RE ++ A QE + L+ + + V+ RV Q+ Sbjct: 167 LLVDDE----RRRQLTAGIEALPERE-KLLMALYYQEE-LNLKEIGAVLGVTESRVCQLH 220 Query: 274 ARAFKKVQ 281 ++A +++ Sbjct: 221 SQAVSRLR 228 >gi|182420443|ref|ZP_02641505.2| RNA polymerase sigma factor RpoD [Clostridium perfringens NCTC 8239] gi|182382221|gb|EDT79700.1| RNA polymerase sigma factor RpoD [Clostridium perfringens NCTC 8239] Length = 237 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 24/102 (23%), Positives = 51/102 (50%), Gaps = 9/102 (8%) Query: 23 IRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVV 79 I+++ + +E VL + G+ A L+ ++ +L+ K+A + + + +++ Sbjct: 5 IKEVKAMTNEELVVLY----QQGEKKALDELLENNDKLIYKVASKFYSEKTSSIEFDDLL 60 Query: 80 SEGNIGLMQAVKKFDPE--RGFRLATYSMWWIKAAMQEYILR 119 EG IG + A K+D E + + TY+ +WI + +I R Sbjct: 61 QEGRIGFILACSKYDIEYIKSTKFITYAFYWIYQKIHRFITR 102 >gi|160893355|ref|ZP_02074142.1| hypothetical protein CLOL250_00905 [Clostridium sp. L2-50] gi|156865047|gb|EDO58478.1| hypothetical protein CLOL250_00905 [Clostridium sp. L2-50] Length = 200 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 20/69 (28%), Positives = 37/69 (53%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 RE D +A L+ ++ +V K + G +++ EG IGL++A++ FD +G Sbjct: 17 REENDNAAFEYLIKKYMGIVKKESRALYIIGAENEDIIQEGMIGLIKAIRSFDGSKGASF 76 Query: 102 ATYSMWWIK 110 +T++ IK Sbjct: 77 STFANLCIK 85 >gi|126649718|ref|ZP_01721954.1| sporulation sigma factor SigG [Bacillus sp. B14905] gi|126593437|gb|EAZ87382.1| sporulation sigma factor SigG [Bacillus sp. B14905] Length = 257 Score = 41.2 bits (95), Expect = 0.17, Method: Compositional matrix adjust. Identities = 26/84 (30%), Positives = 44/84 (52%), Gaps = 1/84 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ +E L R + G++ LV +LRLV+ I + G ++ G IG Sbjct: 15 LPILKHEEMKELFIRL-QAGEIEIREELVMCNLRLVLSIVGRFAYRGEQADDLFQVGCIG 73 Query: 86 LMQAVKKFDPERGFRLATYSMWWI 109 LM+A+ FD + R +TY++ I Sbjct: 74 LMKAIDHFDLKHNVRFSTYAVPMI 97 >gi|167470529|ref|ZP_02335233.1| alternative sigma factor RpoH [Yersinia pestis FV-1] Length = 127 Score = 41.2 bits (95), Expect = 0.18, Method: Compositional matrix adjust. Identities = 24/61 (39%), Positives = 39/61 (63%), Gaps = 1/61 (1%) Query: 226 NMLTRSMSVLNPRERRIFEARRLQ-ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L+ ++ L+ R + I AR L EN TL+ L+ ++ VS ERVRQ+E A KK++ +I Sbjct: 66 DKLSYALEGLDERSQHIIRARWLDDENKSTLQELADQYGVSAERVRQLEKNAMKKLRMAI 125 Query: 285 Q 285 + Sbjct: 126 E 126 >gi|254411015|ref|ZP_05024793.1| RNA polymerase sigma factor, sigma-70 family [Microcoleus chthonoplastes PCC 7420] gi|196182370|gb|EDX77356.1| RNA polymerase sigma factor, sigma-70 family [Microcoleus chthonoplastes PCC 7420] Length = 260 Score = 41.2 bits (95), Expect = 0.18, Method: Compositional matrix adjust. Identities = 35/135 (25%), Positives = 70/135 (51%), Gaps = 10/135 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPER 97 Y ++ + ++LV + LV KIA YR P ++V G +GL++A+++F P++ Sbjct: 17 YSQNPSIELRNQLVRLNSGLVKKIA--YRVSQQCSEPYDDLVQLGYLGLIRAIERFKPDQ 74 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G+ +++++ +I+ M ++ ++VKI + L +R+ L A +P Sbjct: 75 GYAFSSFAVPFIRGEMLHFLRDKGNIVKI--PRRWQELQQEGQRVSKRLTATLG---RPP 129 Query: 158 QVVAIAKKLNVSESE 172 + IA+ LN+S E Sbjct: 130 KEAEIAQALNISMQE 144 >gi|295095481|emb|CBK84571.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 229 Score = 41.2 bits (95), Expect = 0.18, Method: Compositional matrix adjust. Identities = 50/221 (22%), Positives = 97/221 (43%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 31 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 89 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + E M L+++++ Sbjct: 90 VAHAMGQLE---QELGRNATETE----VAERLGIPVEEYRQM------------LLDTNN 130 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D QE L E N R + ++ L RE+ + Sbjct: 131 SQLFSYDEWREEHGDSIELVTDEHQQENPLHHLLE-GNLRQRVMEAIEALPEREQLVLTL 189 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 190 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|227485765|ref|ZP_03916081.1| possible DNA-directed RNA polymerase sigma subunit SigB [Anaerococcus lactolyticus ATCC 51172] gi|227236320|gb|EEI86335.1| possible DNA-directed RNA polymerase sigma subunit SigB [Anaerococcus lactolyticus ATCC 51172] Length = 258 Score = 41.2 bits (95), Expect = 0.19, Method: Compositional matrix adjust. Identities = 17/74 (22%), Positives = 40/74 (54%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ HL +V ++ Y G G+ ++ ++GL+ AV ++DP +G+ ++++ I Sbjct: 33 LIEEHLYIVDILSNKYVGKGIEKDDLYQVASLGLINAVDRYDPSKGYAFSSFATPTIMGE 92 Query: 113 MQEYILRSWSLVKI 126 ++ Y ++K+ Sbjct: 93 IKRYFRDKGWVIKV 106 >gi|262199287|ref|YP_003270496.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Haliangium ochraceum DSM 14365] gi|262082634|gb|ACY18603.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Haliangium ochraceum DSM 14365] Length = 244 Score = 41.2 bits (95), Expect = 0.19, Method: Compositional matrix adjust. Identities = 60/255 (23%), Positives = 106/255 (41%), Gaps = 39/255 (15%) Query: 25 KIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA--MGYRGYGLPIS----EV 78 ++ + E+ A R REH D L+ H+ L + +A M R LP S ++ Sbjct: 9 RVQVQERHRRVDAAARKREHCD-----ELIKEHIELALSMARRMARR---LPASVCLDDI 60 Query: 79 VSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 S +GL +A +++D +R ++ I+ A+ + + RS L + G A +++ Sbjct: 61 ESAALLGLTEAARRYDDKRREPFMGFAAKRIRGAILDQLRRSDMLTRRGRRAA-RQVAEA 119 Query: 139 LRRLKG-HLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNS 197 R +G H + TD+ L A +L VS+ E S+ A + Sbjct: 120 ARSFEGEHGRPATDSEL--------ADQLGVSDEEF----------HSVYASVRDVTVTG 161 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 D ++ D I ER+ R L R++ L+ R R + A ++ +TL Sbjct: 162 VDDADAILPDDAAATFACI---ERQQLRAALVRALEKLDDRARVVLAA--YYQDGLTLRE 216 Query: 258 LSSEFEVSRERVRQI 272 + ++ RV QI Sbjct: 217 IGQILGITESRVCQI 231 >gi|302549077|ref|ZP_07301419.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] gi|302466695|gb|EFL29788.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] Length = 287 Score = 41.2 bits (95), Expect = 0.19, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 109/252 (43%), Gaps = 34/252 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L + +IA +R G I ++ +GL++AV +FDP RG +Y++ I Sbjct: 53 LVALWLPMAHRIAGRFRDRGESIEDLRQVAALGLVKAVDRFDPSRGA-FESYAVPTITGE 111 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPE-QVVAIAKKLNVS 169 ++ + R W+L R LR +++ + +T N PE V A+A ++ Sbjct: 112 VKRHFRDRMWAL-------RVPRRVQELRNKVRVARRELTQNPGSPEPSVPALAAHTGLT 164 Query: 170 ESEVISMNCRLAGDESLNALIN-------SSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 E EV AG E+L++ S+D + D L D V++++E K Sbjct: 165 EEEVN------AGLEALDSFSTLSLDAELSADDDGYSLADTLGA-SDTSYDVVVDRESAK 217 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + L RER I R ++ +T ++ + +S+ V ++ R+ +V++ Sbjct: 218 E-------GLRRLPERERAILYMRFFED--MTQSRIADQLGISQMHVSRLITRSCARVRD 268 Query: 283 SIQKQVELSSSP 294 + Q P Sbjct: 269 EVLGQRGAGRGP 280 >gi|284045933|ref|YP_003396273.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] gi|283950154|gb|ADB52898.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] Length = 263 Score = 41.2 bits (95), Expect = 0.19, Method: Compositional matrix adjust. Identities = 61/255 (23%), Positives = 111/255 (43%), Gaps = 30/255 (11%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 +LA R R +GD A L+ HL L +A YR + ++V ++GL++AV +FDP Sbjct: 28 MLATRAR-NGDGRAREALIAEHLPLARALARRYRRGSESLDDLVQVASVGLIKAVDRFDP 86 Query: 96 ERGFRLATYSMWWIKAAMQEYILRS-WSL-VKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +RG +T++ I + + + W + V GT + L +R ++ T Sbjct: 87 DRGHSFSTFAQPTIVGELLRHFRDTGWGVHVARGT----QELALKVRSAAEAIETETGAV 142 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN------SSDKNSSQWQDWLVYD 207 P Q IA++ V+ E+L AL N ++ D + D Sbjct: 143 ATPRQ---IAERTGAELEAVV---------EALGALANRTALSLATPAGHDDEGDATIAD 190 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 G + E R +L ++ L RE+RI R + + +T +++E VS+ Sbjct: 191 TLGDVE---EGYRAAEARALLGPALRHLPEREQRIIRMRFVDD--LTQSEIATEIGVSQM 245 Query: 268 RVRQIEARAFKKVQE 282 ++ ++ ++ K+ E Sbjct: 246 QISRLLRQSLDKLHE 260 >gi|147677483|ref|YP_001211698.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] gi|146273580|dbj|BAF59329.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] Length = 243 Score = 41.2 bits (95), Expect = 0.19, Method: Compositional matrix adjust. Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 1/91 (1%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y + G + ++V + RLV +G G ++V G GL++A K++DP RG Sbjct: 25 YLQDGSAESLQKVVEAGTRLV-HYFVGLYAPGHSREDLVQSGFEGLLKAAKRYDPGRGVS 83 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 +TY+ I ++ +I + S + G A Sbjct: 84 FSTYASHCIMGEVRHFIRKEASFSRPGWAAG 114 >gi|904172|gb|AAB38522.1| flagellin sigma factor [Yersinia enterocolitica (type O:8)] Length = 229 Score = 41.2 bits (95), Expect = 0.19, Method: Compositional matrix adjust. Identities = 46/232 (19%), Positives = 98/232 (42%), Gaps = 38/232 (16%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I + E Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIAPMLDELR 73 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 R W+ +RL N R + +Q + P +A+ L++ +E + Sbjct: 74 QRDWA---------PRRLRRNAREVASAMQKVEQRLGAPATEQEVAQNLDIDLTEYRQI- 123 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR---------RNML 228 L+++++ + +W +H + ++E E N R + Sbjct: 124 -----------LLDTNNSQLFSYDEW-REEHGRTVEPMLEGHEDANPLQHLLEGNLRQRV 171 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K++ Sbjct: 172 IEAIEALPEREKMVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 221 >gi|114566161|ref|YP_753315.1| sigma 28 (flagella/sporulation) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337096|gb|ABI67944.1| sigma 28 (flagella/sporulation) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 243 Score = 41.2 bits (95), Expect = 0.19, Method: Compositional matrix adjust. Identities = 51/248 (20%), Positives = 114/248 (45%), Gaps = 21/248 (8%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + GD A +L +++ L+ + ++ ++ G +GL++A+++FD Sbjct: 15 RLAQGGDQEAKAQLYEANVGLIYLVLERFKNTSYDQEDLFQVGAMGLLKAIERFDFSFDV 74 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI--GTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 R +TY++ I ++++ LR +VK+ G R+ + +L+G L + Sbjct: 75 RFSTYAVPMIIGEIKKF-LRDDGMVKVQRGIKELYARVRWAQDKLRGDLG-------REP 126 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 V IA L + + +++ ++ ++ S +K D LV++ +G +L Sbjct: 127 GVNEIASLLEMEKEDIVVAMEACQAPAYIHDVVPSEEKEQLSLLDKLVHE-EGNVAIL-- 183 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 + L +++ L+ RER + R Q+ T+ ++ + VS+ ++ +IE A Sbjct: 184 ------EKLALREALAKLDERERVVIIRRFFQDETQTV--IAEDLGVSQVQISRIEKSAI 235 Query: 278 KKVQESIQ 285 K++ +Q Sbjct: 236 LKLRSLLQ 243 >gi|301165903|emb|CBW25476.1| RNA polymerase sigma factor WhiG [Bacteriovorax marinus SJ] Length = 260 Score = 41.2 bits (95), Expect = 0.20, Method: Compositional matrix adjust. Identities = 27/92 (29%), Positives = 46/92 (50%), Gaps = 11/92 (11%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFD 94 K YR D ++ + L+ IA LP + +++S G IGLM A++KFD Sbjct: 12 KDYRSTVDPKVKDEIIIEYAPLIKYIAQRIASR-LPSNVELDDLISCGVIGLMDAIEKFD 70 Query: 95 PERGFRLATYSMWWIKAAM------QEYILRS 120 P R + TY+ + I+ ++ Q+++ RS Sbjct: 71 PSRDNKFKTYAEFRIRGSILDELRAQDWVPRS 102 >gi|295102717|emb|CBL00262.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii L2-6] Length = 221 Score = 41.2 bits (95), Expect = 0.20, Method: Compositional matrix adjust. Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 8/83 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIA--------MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 + GD +A L+ ++ + K+A + G L ++ GN+GL +AV KFD Sbjct: 13 QKGDAAALDSLIENNKSFIGKVANDLFRSMNLAQSGLNLDTDDLKQAGNLGLWKAVSKFD 72 Query: 95 PERGFRLATYSMWWIKAAMQEYI 117 G + TY+ I+ AM + + Sbjct: 73 AACGMKFLTYAAPAIRNAMMDMV 95 >gi|294629742|ref|ZP_06708302.1| RNA polymerase sigma factor [Streptomyces sp. e14] gi|292833075|gb|EFF91424.1| RNA polymerase sigma factor [Streptomyces sp. e14] Length = 305 Score = 41.2 bits (95), Expect = 0.20, Method: Compositional matrix adjust. Identities = 45/170 (26%), Positives = 78/170 (45%), Gaps = 20/170 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R P+ +++ G IGL++A+ +F+ RG T++M I Sbjct: 84 LVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVEFPTFAMPTIIGE 143 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SWS V++ + RL +L + L D + V +A+ L +S Sbjct: 144 IKRFFRDTSWS-VRVPRRLQELRL--DLAKAGDELAQRLD---RAPTVSELAEHLGLSAE 197 Query: 172 EVISMNCRLAGDESLNALINSS-----DKNSSQ--WQDWLVYDHDGQEQV 214 EV+ G + NA SS ++N S+ D + Y+ G E + Sbjct: 198 EVVE------GMAASNAYTASSLDAQPEENESEGALADRIGYEDHGIEGI 241 >gi|261340320|ref|ZP_05968178.1| flagellar biosynthesis sigma factor FliA [Enterobacter cancerogenus ATCC 35316] gi|288317411|gb|EFC56349.1| flagellar biosynthesis sigma factor FliA [Enterobacter cancerogenus ATCC 35316] Length = 229 Score = 41.2 bits (95), Expect = 0.20, Method: Compositional matrix adjust. Identities = 49/221 (22%), Positives = 98/221 (44%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 31 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 89 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L ++ + M L+++++ Sbjct: 90 VAHAMGQLE---QELGRNATETE----VAERLGIAVEDYRQM------------LLDTNN 130 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D QE L E N R + ++ L RE+ + Sbjct: 131 SQLFSYDEWREEHGDSIELVTDEHQQENPLHHLME-GNLRQRVMEAIEALPEREQLVLTL 189 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 190 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|294497070|ref|YP_003560770.1| RNA polymerase sigma-B factor [Bacillus megaterium QM B1551] gi|295702435|ref|YP_003595510.1| RNA polymerase sigma-B factor [Bacillus megaterium DSM 319] gi|294347007|gb|ADE67336.1| RNA polymerase sigma-B factor [Bacillus megaterium QM B1551] gi|294800094|gb|ADF37160.1| RNA polymerase sigma-B factor [Bacillus megaterium DSM 319] Length = 264 Score = 41.2 bits (95), Expect = 0.21, Method: Compositional matrix adjust. Identities = 56/250 (22%), Positives = 118/250 (47%), Gaps = 28/250 (11%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPER 97 +R+++ D A LV + LV IA Y +G L ++V G +GL+ A++++D Sbjct: 20 ERFQKTQDEEAQSDLVVHYKNLVESIARRYSKGRSLH-EDIVQVGMLGLLGAIRRYDASF 78 Query: 98 GFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 G ++++ I ++ ++ ++WS+ +R+ ++K ++ +T + Sbjct: 79 GRSFESFAVPTIIGEIKRFLRDKTWSV------HVPRRIKELGPKIKAAVEELTTRLQRS 132 Query: 157 EQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVL 215 QV IA + V+E E++ + +S AL ++ S + S + D G+++ Sbjct: 133 PQVKEIADHIGVTEEEILET---MEMGQSYQALSVDHSIEADSDGSTVTILDLVGEQESG 189 Query: 216 IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS-----SEFEVSRERVR 270 EK ++R +L + + VL+ RE+ + +ENLS + +S+ V Sbjct: 190 YEK---TDQRLVLEKILHVLSDREKEVI-------RYTFIENLSQKDAGEKLGISQMHVS 239 Query: 271 QIEARAFKKV 280 +++ RA K+ Sbjct: 240 RLQRRALDKL 249 >gi|81300593|ref|YP_400801.1| RNA polymerase sigma factor SigF [Synechococcus elongatus PCC 7942] gi|81169474|gb|ABB57814.1| group3 RNA polymerase sigma factor SigF [Synechococcus elongatus PCC 7942] Length = 260 Score = 41.2 bits (95), Expect = 0.21, Method: Compositional matrix adjust. Identities = 43/177 (24%), Positives = 85/177 (48%), Gaps = 23/177 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 Y E ++ +++V +L LV KIA R P ++ G +GL++A+++F P +G Sbjct: 18 YAETPSIALRNQIVQLNLGLVRKIAHRLSRQCSEPYEDLEQIGFMGLIRAIERFQPHQGC 77 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN---LKP 156 +++++ +I+ + ++ S ++I R + L+R L+ + + Sbjct: 78 AFSSFAVPYIRGEILHFLRDSCHSIRI------PRRWQELQRQGQQLREVLRHEWGRAPT 131 Query: 157 EQVVAIAKKLNVSESEVI----------SMNCRL--AGDESLNALINSSDKNSSQWQ 201 EQ +A A L+++E + I S++ L AGD S+ L+ + S QWQ Sbjct: 132 EQELAFALNLSMTEWQEIHLARRNRMPMSLDATLSQAGDSSVT-LVETLPDTSQQWQ 187 >gi|164686436|ref|ZP_02210464.1| hypothetical protein CLOBAR_00001 [Clostridium bartlettii DSM 16795] gi|164604447|gb|EDQ97912.1| hypothetical protein CLOBAR_00001 [Clostridium bartlettii DSM 16795] Length = 256 Score = 41.2 bits (95), Expect = 0.21, Method: Compositional matrix adjust. Identities = 52/243 (21%), Positives = 113/243 (46%), Gaps = 30/243 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV +A Y G+ ++ G++ L+ A++++D +G+ ++++ I Sbjct: 35 LIERNLYLVSILAKKYINKGVEFEDLYQVGSLALIYAIERYDISKGYEFSSFATPTIIGE 94 Query: 113 MQEYIL-RSWSL------VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKK 165 +++Y + W++ ++ N+ +L + N K +V IA+ Sbjct: 95 IKKYFRDKVWTMRVPRRVQELNKKVNEAKLL------------LEQQNKKKPKVNEIAEY 142 Query: 166 LNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + E EV+ G + SL++ +NS +S + + L+ QE + E Sbjct: 143 IGCREEEVLEALEASYGYQPVSLDSPVNS---DSEEAEISLIDKIGSQENNFSDIE---- 195 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 ++ + + S LN ER IFE R +E T L+ E ++S+ + +IE + +K+++ Sbjct: 196 YKDFIEKFTSKLNELERNIFEGRFFKEK--TQSALAKELDISQMTISRIERKVVQKLRKE 253 Query: 284 IQK 286 ++ Sbjct: 254 YER 256 >gi|304311117|ref|YP_003810715.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) [gamma proteobacterium HdN1] gi|301796850|emb|CBL45062.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) [gamma proteobacterium HdN1] Length = 244 Score = 40.8 bits (94), Expect = 0.22, Method: Compositional matrix adjust. Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 4/74 (5%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV HL LV +IA +G + + +++ G IGL+ A++K+D +G TY+ I Sbjct: 21 LVEQHLPLVRRIAHHMIGRLPSNVIVDDLIQAGVIGLIDALQKYDTGKGASFETYAGIRI 80 Query: 110 KAAMQEYILRS-WS 122 + AM + I R W+ Sbjct: 81 RGAMIDEIRRGEWA 94 >gi|153835421|ref|ZP_01988088.1| RNA polymerase sigma factor for flagellar operon [Vibrio harveyi HY01] gi|156975413|ref|YP_001446320.1| flagellar biosynthesis sigma factor [Vibrio harveyi ATCC BAA-1116] gi|148868042|gb|EDL67225.1| RNA polymerase sigma factor for flagellar operon [Vibrio harveyi HY01] gi|156527007|gb|ABU72093.1| hypothetical protein VIBHAR_03144 [Vibrio harveyi ATCC BAA-1116] Length = 244 Score = 40.8 bits (94), Expect = 0.22, Method: Compositional matrix adjust. Identities = 58/253 (22%), Positives = 104/253 (41%), Gaps = 33/253 (13%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +HG ++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 AITYDQHGKFNSQQAFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +G TY+ I+ AM + I R V N + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDI-RKGDWVPRSVHKNNREINQAIAELEGVL------NR 116 Query: 155 KP---EQVVAIAKKLNVSESEVISMNC-RLAGDESL---NALINSSDKNSSQWQDWLVYD 207 P E + L+ S + +NC +L G E L + +I+ +D+ V D Sbjct: 117 DPSDSEVAAHLGMTLDQYHSALTDINCSKLVGIEDLGVSDDVISPADETDDSNPFKGVAD 176 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 ++ + L S+ L RE + +E + L+ + VS Sbjct: 177 --------------ESFKKALVESIKQLPEREALVLSLYYDEE--LNLKEIGDVLGVSES 220 Query: 268 RVRQIEARAFKKV 280 RV QI ++A +++ Sbjct: 221 RVSQILSQAMQRL 233 >gi|226949740|ref|YP_002804831.1| RNA polymerase sigma factor, sigma-70 family [Clostridium botulinum A2 str. Kyoto] gi|226840763|gb|ACO83429.1| RNA polymerase sigma factor, sigma-70 family [Clostridium botulinum A2 str. Kyoto] Length = 183 Score = 40.8 bits (94), Expect = 0.22, Method: Compositional matrix adjust. Identities = 15/37 (40%), Positives = 25/37 (67%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 E+ EG +GLM+AV +FD RG + +TY+ ++ A+ Sbjct: 30 ELFQEGCLGLMKAVNRFDTSRGIKFSTYAYPYVDGAI 66 >gi|239826640|ref|YP_002949264.1| RNA polymerase sigma factor SigD [Geobacillus sp. WCH70] gi|239806933|gb|ACS23998.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. WCH70] Length = 254 Score = 40.8 bits (94), Expect = 0.22, Method: Compositional matrix adjust. Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 3/77 (3%) Query: 40 RYREHGDLSAAHRLVTSHLRLV---VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 R+ H D A +LV +++ LV V+ + E++S G +GL A++KFDP Sbjct: 15 RWIYHRDPQAGDKLVQTYMPLVHYHVQRIAASLPKTISKQELISLGLMGLYDALEKFDPS 74 Query: 97 RGFRLATYSMWWIKAAM 113 R + TY+ + I+ A+ Sbjct: 75 RDLKFDTYASFRIRGAI 91 >gi|87311163|ref|ZP_01093286.1| RNA polymerase sigma factor whiG [Blastopirellula marina DSM 3645] gi|87286071|gb|EAQ77982.1| RNA polymerase sigma factor whiG [Blastopirellula marina DSM 3645] Length = 261 Score = 40.8 bits (94), Expect = 0.22, Method: Compositional matrix adjust. Identities = 51/218 (23%), Positives = 102/218 (46%), Gaps = 17/218 (7%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 G+ + +++S G GLM A+ FD RG + TY + I+ AM + LR+ V + Sbjct: 52 GVELDDLISAGVFGLMDAIDAFDMSRGVKFETYCVPRIRGAMLDE-LRTMDWVPRLVRSK 110 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESEVISMNCRLAGDESLNALI 190 +L ++L+ +P ++ ++ ++V E E + + G SLN Sbjct: 111 ASKLNEANKQLEAKF------GRQPTEIELSAHMGMSVKELEKMISDANAVGLISLNKKW 164 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV-LNPRERRIFEARRLQ 249 +D ++D V + D E + E R+ ++N L R ++ LN ER I + Sbjct: 165 YETD----SYKD--VREIDILEDIKGEDPTRRIQKNDLMRLVTKGLNRNERLIIILYYYE 218 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E +T++ + + ++S RV Q+ + +++Q + ++ Sbjct: 219 E--LTMKEIGATLDLSESRVSQMHSSIVQRLQSQLGRR 254 >gi|304316787|ref|YP_003851932.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778289|gb|ADL68848.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 247 Score = 40.8 bits (94), Expect = 0.23, Method: Compositional matrix adjust. Identities = 51/220 (23%), Positives = 95/220 (43%), Gaps = 25/220 (11%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R ++ D + +L+ + L+ I + G ++ G IG ++A+ KFD Sbjct: 17 RKSKNNDKLSLEKLLKENSGLIWSIVKKFSNRGYEAEDLYQIGCIGFVKAINKFDESYNV 76 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN-----NL 154 +L+TY++ I ++ + LR L+K+ + L+ L I D N Sbjct: 77 KLSTYAVPIILGEIKRF-LRDDGLIKVSRS---------LKELSNKAYYIKDELEKELNR 126 Query: 155 KPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 +P + IA KLNVS E+ +A + + A + S+ + L+ + G E Sbjct: 127 EP-TIQEIASKLNVSAEEI-----AMAFESTATAEYLYDNSQHSEDDNMLLIEKIGSEDN 180 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 + E++ R +L + L+ RER+I R ++ T Sbjct: 181 EYDIEDKLALRMVLKK----LDSRERQIIVLRYFKDMTQT 216 >gi|237736225|ref|ZP_04566706.1| RNA polymerase sigma factor [Fusobacterium mortiferum ATCC 9817] gi|229421778|gb|EEO36825.1| RNA polymerase sigma factor [Fusobacterium mortiferum ATCC 9817] Length = 232 Score = 40.8 bits (94), Expect = 0.23, Method: Compositional matrix adjust. Identities = 25/92 (27%), Positives = 45/92 (48%), Gaps = 5/92 (5%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + +L LV IA Y G+ +VV EG +GL++ ++ ++ E+ Y +WI Sbjct: 37 GEDFIVQNLPLVASIAFNYLREGVAYLDVVQEGTMGLIKGIENYNGEKHGDFENYKKYWI 96 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 ++E +L + KI N+ + FF +R Sbjct: 97 ---IREIVLFINN--KITDIKNEFKSFFKDKR 123 >gi|317048579|ref|YP_004116227.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Pantoea sp. At-9b] gi|316950196|gb|ADU69671.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Pantoea sp. At-9b] Length = 240 Score = 40.8 bits (94), Expect = 0.23, Method: Compositional matrix adjust. Identities = 47/218 (21%), Positives = 90/218 (41%), Gaps = 38/218 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + G + + + +A +LNVS E + Sbjct: 92 SVRRNAREVAGAMHQVEQAMGRAATEQEVADQLNVSLEEYRQILL--------------- 136 Query: 194 DKNSSQWQDWLVY--DHDGQEQVLIEKEERKNR---------RNMLTRSMSVLNPRERRI 242 D N+SQ + Y +H +++ E E N R + ++ L RE+ + Sbjct: 137 DTNNSQLFSYDEYREEHGDSAELVTEGHEEANPLHQLMEGNLRERVIEAIEALPEREKLV 196 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 197 LTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|145224454|ref|YP_001135132.1| FliA/WhiG family RNA polymerase sigma factor [Mycobacterium gilvum PYR-GCK] gi|145216940|gb|ABP46344.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Mycobacterium gilvum PYR-GCK] Length = 270 Score = 40.8 bits (94), Expect = 0.23, Method: Compositional matrix adjust. Identities = 53/237 (22%), Positives = 98/237 (41%), Gaps = 26/237 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ L L A +RG G ++ ++GL+ AVK+FDP+ G Y++ I Sbjct: 34 RIIAMTLPLAQHTARRFRGRGQSHDDLFQVASVGLVNAVKRFDPDSGSDFLAYAVPTIMG 93 Query: 112 AMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ Y SW+ VK+ K L L + + L P +V A L + Sbjct: 94 EVRRYFRDCSWA-VKV--PRRLKDLNSQLAKARAELTQQLGRAPTPSEVAA---HLGIDR 147 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY-----DHDGQEQVLIEKEERKNRR 225 EV+ S N S+D S D++ + D + +++ E R Sbjct: 148 EEVVQATI-----ASSNYATLSTDSTSGPDGDFVALRETLGEPDARLDAVVDNE---TIR 199 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ + L PRE+ + + R E +T ++ S+ V ++ A+A +++ Sbjct: 200 PLIEK----LPPREQAVLKLRFFDE--MTQTQIAERMGYSQMHVSRLLAKALATLRD 250 >gi|303326430|ref|ZP_07356873.1| RNA polymerase sigma factor for flagellar operon FliA [Desulfovibrio sp. 3_1_syn3] gi|302864346|gb|EFL87277.1| RNA polymerase sigma factor for flagellar operon FliA [Desulfovibrio sp. 3_1_syn3] Length = 260 Score = 40.8 bits (94), Expect = 0.24, Method: Compositional matrix adjust. Identities = 18/45 (40%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + E++S G +GLM+A+ KF P+ G R TY+ I+ AM + + R Sbjct: 60 LGEMISSGTLGLMEALGKFRPQLGIRFETYAENRIRGAMLDELRR 104 >gi|119715014|ref|YP_921979.1| FliA/WhiG family RNA polymerase sigma factor [Nocardioides sp. JS614] gi|119535675|gb|ABL80292.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nocardioides sp. JS614] Length = 285 Score = 40.8 bits (94), Expect = 0.24, Method: Compositional matrix adjust. Identities = 51/230 (22%), Positives = 98/230 (42%), Gaps = 34/230 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTT-----A 130 ++ S G + L+QA + FD ERG Y+ ++ A+ + + R+ W+ + A Sbjct: 40 DLTSAGLLALVQAAQAFDAERGVPFNRYAATRVRGAVVDELRRTDWASRSVRRRARELDA 99 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 + RL L R P +A +S EV + +A + L+ + Sbjct: 100 TRSRLATVLGR--------------PATQAEVADTAGLSVDEVTGNDDDIARAQVLS--L 143 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 ++S+ + D LV + + L E R LT +++ L R R + E L E Sbjct: 144 DASEDDG--IGDTLVGNAPDPQGAL----EHGERLTYLTEAVAELPDRLRLVVEQYFLNE 197 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 P + +++ V+ R+ Q+ A A +++++ +++ P LL P Sbjct: 198 RP--MAEIAATLGVTESRISQLRAEALVLLRDALNHELD----PDLLPAP 241 >gi|319893019|ref|YP_004149894.1| RNA polymerase sigma factor SigB [Staphylococcus pseudintermedius HKU10-03] gi|317162715|gb|ADV06258.1| RNA polymerase sigma factor SigB [Staphylococcus pseudintermedius HKU10-03] Length = 256 Score = 40.8 bits (94), Expect = 0.24, Method: Compositional matrix adjust. Identities = 53/248 (21%), Positives = 112/248 (45%), Gaps = 16/248 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD + Sbjct: 23 YQNDEDHEAQEKLVKHYEKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRK 82 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + + + ++ Y+ ++WS+ +R+ R+K +T+ + + Sbjct: 83 FEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELGRSPSI 136 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA++L VS+ +V+ + +S NAL ++ S + + D GQ + Sbjct: 137 SEIAERLEVSDEDVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQHD---DN 190 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E +R +L R + +L RER I + + + ++ + +S+ V +++ A K Sbjct: 191 YELTEKRMILERILPILTDREREIIQCTFI--DGLSQKETGERIGLSQMHVSRLQRTAIK 248 Query: 279 KVQESIQK 286 K+QE+ +K Sbjct: 249 KLQEAARK 256 >gi|224477054|ref|YP_002634660.1| RNA polymerase sigma factor SigB [Staphylococcus carnosus subsp. carnosus TM300] gi|222421661|emb|CAL28475.1| sigma factor B [Staphylococcus carnosus subsp. carnosus TM300] Length = 256 Score = 40.8 bits (94), Expect = 0.25, Method: Compositional matrix adjust. Identities = 50/241 (20%), Positives = 112/241 (46%), Gaps = 16/241 (6%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 A +LV + +L+ +A Y ++V G +GL+ A+ +FD G + + + Sbjct: 30 DAQDKLVKHYQKLIESLAFKYSKGQSHHEDLVQVGMVGLIGAINRFDINFGRKFEAFLVP 89 Query: 108 WIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 + ++ Y+ ++WS+ +R+ R+K +T+ + + IA++L Sbjct: 90 TVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKTTDELTNELERSPSISEIAERL 143 Query: 167 NVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRR 225 V++ EV+ + +S NAL ++ S + + D G+++ + E +R Sbjct: 144 EVTDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGEQEGGYDLTE---KR 197 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +L R + +L RER I + ++ ++ + +S+ V +++ A KK+Q++ + Sbjct: 198 MILERILPILTDREREIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRNAIKKLQQAAK 255 Query: 286 K 286 K Sbjct: 256 K 256 >gi|325478815|gb|EGC81925.1| putative RNA polymerase sigma-F factor [Anaerococcus prevotii ACS-065-V-Col13] Length = 255 Score = 40.8 bits (94), Expect = 0.25, Method: Compositional matrix adjust. Identities = 21/88 (23%), Positives = 43/88 (48%), Gaps = 6/88 (6%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 EK EEY + D L+ H+ +V ++ Y G G+ ++ ++GL+ A Sbjct: 15 EKFEEYYKTR------DKKLRDELIEEHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYA 68 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYI 117 + +FDP +G+ ++++ I ++ Y Sbjct: 69 IDRFDPTKGYAFSSFATPTIMGELKRYF 96 >gi|315444787|ref|YP_004077666.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|315263090|gb|ADT99831.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 270 Score = 40.8 bits (94), Expect = 0.25, Method: Compositional matrix adjust. Identities = 53/237 (22%), Positives = 98/237 (41%), Gaps = 26/237 (10%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ L L A +RG G ++ ++GL+ AVK+FDP+ G Y++ I Sbjct: 34 RIIAMTLPLAQHTARRFRGRGQSHDDLFQVASVGLVNAVKRFDPDSGSDFLAYAVPTIMG 93 Query: 112 AMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ Y SW+ VK+ K L L + + L P +V A L + Sbjct: 94 EVRRYFRDCSWA-VKV--PRRLKDLNSQLAKARAELTQQLGRAPTPSEVAA---HLGIDR 147 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY-----DHDGQEQVLIEKEERKNRR 225 EV+ S N S+D S D++ + D + +++ E R Sbjct: 148 EEVVQATI-----ASSNYATLSTDSTSGPDGDFVALRETLGEPDARLDAVVDNE---TIR 199 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ + L PRE+ + + R E +T ++ S+ V ++ A+A +++ Sbjct: 200 PLIEK----LPPREQAVLKLRFFDE--MTQTQIAERMGYSQMHVSRLLAKALATLRD 250 >gi|291326349|ref|ZP_06124166.2| motility sigma factor FliA [Providencia rettgeri DSM 1131] gi|291314661|gb|EFE55114.1| motility sigma factor FliA [Providencia rettgeri DSM 1131] Length = 241 Score = 40.8 bits (94), Expect = 0.25, Method: Compositional matrix adjust. Identities = 46/216 (21%), Positives = 96/216 (44%), Gaps = 34/216 (15%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 I +++ G IGL+ A+++FD +G ATY++ I+ +M E R W + + Sbjct: 45 IDDLIQAGGIGLLHALERFDVTQGASFATYAVQRIRGSMLDELRSRDW------VPRSVR 98 Query: 134 RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 R + + G L Q++ + +PE IAK L++ +E AL+++ Sbjct: 99 RQAREMTKAIGALEQSLGRSATEPE----IAKALDIDLAEY------------RQALLDT 142 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKE--------ERKNRRNMLTRSMSVLNPRERRIFE 244 ++ + +W + E + E + + R+ + ++ L RE+ + Sbjct: 143 NNSQLFSYDEWHEIHGESCEPQMDEDDGGNPLSLLLDSSLRDQIAAAIEQLPEREKMVLT 202 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 203 LYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 236 >gi|304398826|ref|ZP_07380696.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Pantoea sp. aB] gi|308187260|ref|YP_003931391.1| RNA polymerase sigma factor for flagellar operon [Pantoea vagans C9-1] gi|304353530|gb|EFM17907.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Pantoea sp. aB] gi|308057770|gb|ADO09942.1| RNA polymerase sigma factor for flagellar operon [Pantoea vagans C9-1] Length = 240 Score = 40.8 bits (94), Expect = 0.25, Method: Compositional matrix adjust. Identities = 50/235 (21%), Positives = 99/235 (42%), Gaps = 43/235 (18%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + G + + + + +A++LNVS E + Sbjct: 84 RSRDWA---------PRSVRRNAREVAGAMHRVEQSLGRSASEQEVAQQLNVSMEEYRQI 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVY--DHDGQEQVLIEKEERKNR---------R 225 D N+SQ + Y +H +++ E E N R Sbjct: 135 LL---------------DTNNSQLFSYDEYREEHGDSAELVTEGHEEANPLHQLLEGSLR 179 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ L RE+ + +E + L+ + + +V RV Q+ ++A K++ Sbjct: 180 ERVIEAIEALPDREKMVLTLYYQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRL 232 >gi|149188102|ref|ZP_01866397.1| flagellar biosynthesis sigma factor [Vibrio shilonii AK1] gi|148838090|gb|EDL55032.1| flagellar biosynthesis sigma factor [Vibrio shilonii AK1] Length = 243 Score = 40.8 bits (94), Expect = 0.25, Method: Compositional matrix adjust. Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 3/86 (3%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +H +LS + + LV +IA G P + +++ G IGL++A K +D Sbjct: 4 ALTYDQHANLSGQQAFLEKYSVLVKRIAHHLIGRLPPNVLVEDLIQAGMIGLIEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS 120 +G TY+ I+ AM + I R Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRG 89 >gi|56752318|ref|YP_173019.1| RNA polymerase sigma factor SigF [Synechococcus elongatus PCC 6301] gi|56687277|dbj|BAD80499.1| group3 RNA polymerase sigma factor SigF2 [Synechococcus elongatus PCC 6301] Length = 275 Score = 40.8 bits (94), Expect = 0.25, Method: Compositional matrix adjust. Identities = 43/177 (24%), Positives = 85/177 (48%), Gaps = 23/177 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 Y E ++ +++V +L LV KIA R P ++ G +GL++A+++F P +G Sbjct: 33 YAETPSIALRNQIVQLNLGLVRKIAHRLSRQCSEPYEDLEQIGFMGLIRAIERFQPHQGC 92 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN---LKP 156 +++++ +I+ + ++ S ++I R + L+R L+ + + Sbjct: 93 AFSSFAVPYIRGEILHFLRDSCHSIRI------PRRWQELQRQGQQLREVLRHEWGRAPT 146 Query: 157 EQVVAIAKKLNVSESEVI----------SMNCRL--AGDESLNALINSSDKNSSQWQ 201 EQ +A A L+++E + I S++ L AGD S+ L+ + S QWQ Sbjct: 147 EQELAFALNLSMTEWQEIHLARRNRMPMSLDATLSQAGDSSVT-LVETLPDTSQQWQ 202 >gi|297569692|ref|YP_003691036.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfurivibrio alkaliphilus AHT2] gi|296925607|gb|ADH86417.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfurivibrio alkaliphilus AHT2] Length = 262 Score = 40.8 bits (94), Expect = 0.26, Method: Compositional matrix adjust. Identities = 23/75 (30%), Positives = 39/75 (52%), Gaps = 3/75 (4%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERG 98 RE D + L+ ++ L+ IA P + +++S G +GL+ A+ KFDP + Sbjct: 22 REQLDPAKREELILNYTPLIKYIASRLASRLPPQVAVDDLISCGIVGLIDAINKFDPAKN 81 Query: 99 FRLATYSMWWIKAAM 113 + TY+ + IK AM Sbjct: 82 VQFKTYAEFRIKGAM 96 >gi|229016304|ref|ZP_04173251.1| RNA polymerase sigma-B factor [Bacillus cereus AH1273] gi|229022543|ref|ZP_04179074.1| RNA polymerase sigma-B factor [Bacillus cereus AH1272] gi|228738763|gb|EEL89228.1| RNA polymerase sigma-B factor [Bacillus cereus AH1272] gi|228744996|gb|EEL95051.1| RNA polymerase sigma-B factor [Bacillus cereus AH1273] Length = 224 Score = 40.8 bits (94), Expect = 0.26, Method: Compositional matrix adjust. Identities = 54/239 (22%), Positives = 113/239 (47%), Gaps = 28/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V + LV IA Y G +++ G +GL+ A++++D G +++ I Sbjct: 1 MVDHYKNLVHSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNL-RRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +++Y+ ++W + + R +L ++K ++ +TD + +++ IA L +SE Sbjct: 61 IKKYLRDKTWGI-------HVPRRIKDLGGKIKLAIEELTDRLQRSPKIIEIADHLGLSE 113 Query: 171 SEVISM-----NCRLAGDESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ + N R++ SL+ ++ NSSD +S + + G EQ R Sbjct: 114 EEVLEIMDAKNNYRVS---SLDDVVENSSDGSSVARIESVGEVEQGYEQT--------ER 162 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L +VLN E+ + EN + ++ +S+ V +I+ +A K++++ Sbjct: 163 RLILDDIFNVLNDTEKSVIHY-IFGEN-LNQKDTGERLGISQMHVSRIKRQAISKLKQA 219 >gi|254387389|ref|ZP_05002636.1| sigma factor [Streptomyces sp. Mg1] gi|194346181|gb|EDX27147.1| sigma factor [Streptomyces sp. Mg1] Length = 266 Score = 40.8 bits (94), Expect = 0.26, Method: Compositional matrix adjust. Identities = 49/217 (22%), Positives = 95/217 (43%), Gaps = 12/217 (5%) Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 R G I +VV G IGL++A+ +FDP R +T +M +I ++ + + V++ Sbjct: 52 RCDGGDIEDVVQVGTIGLIKAIDRFDPARENEFSTLAMPYITGEIKRHFRDTSWAVRVPR 111 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 + R+ ++ + K L D + V +A L +++ EV+ G S + Sbjct: 112 RLQELRI--DIAKAKEELTVRLD---RSPTVTDLAGHLGLTDEEVVEGLVAANGHTSGSL 166 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQ-VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 SD + D G+E+ L E+ + +L R L+ RER + R Sbjct: 167 DAPHSDHGDGPTTGHTLADVMGEEEPALALVEDVQALAPLLQR----LSERERSMLRMRF 222 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +E +T + + +S+ +V ++ R ++ S+ Sbjct: 223 GEE--LTQAQIGTALGISQMQVSRLLNRILAHLRASL 257 >gi|238782801|ref|ZP_04626830.1| RNA polymerase sigma factor for flagellar operon [Yersinia bercovieri ATCC 43970] gi|238716224|gb|EEQ08207.1| RNA polymerase sigma factor for flagellar operon [Yersinia bercovieri ATCC 43970] Length = 241 Score = 40.8 bits (94), Expect = 0.26, Method: Compositional matrix adjust. Identities = 49/210 (23%), Positives = 93/210 (44%), Gaps = 22/210 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ A+ FDP++G L+TY ++ AM E R W ++ + A + Sbjct: 41 LDDLIQAGAIGLLTAIDHFDPKKGIGLSTYITQRVRWAMIDELRERDWVPRRVRSNAREI 100 Query: 134 RLFFN-LRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 + + + GH+ D +A + V+ E M LA S + + S Sbjct: 101 AVIIQRIEQESGHVATEAD----------VANSMGVTLPEYQKM---LADTNS--SQLYS 145 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE--RKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D+ + D D Q ++L E + N ++R + L RE+ + QE Sbjct: 146 LDELQEELADGF-EQSDTQHEMLNPLHEIMKGNLTKQISREIKALPEREQLLLNLYYQQE 204 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ +S V+ RV Q+ ++A K++ Sbjct: 205 --LNMKEISVLLNVTETRVSQLHSQAIKRL 232 >gi|284028684|ref|YP_003378615.1| B/F/G subfamily RNA polymerase sigma-28 subunit [Kribbella flavida DSM 17836] gi|283807977|gb|ADB29816.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Kribbella flavida DSM 17836] Length = 275 Score = 40.8 bits (94), Expect = 0.26, Method: Compositional matrix adjust. Identities = 51/251 (20%), Positives = 107/251 (42%), Gaps = 54/251 (21%) Query: 57 HLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +L + IA +RG G+ ++ +GL++A + ++P G Y++ I+ ++ Y Sbjct: 53 NLGIAHSIASRFRGRGVESDDLDQVAYLGLLKAARSYNPSTGTPFLAYAVPTIRGEVKRY 112 Query: 117 ILR-SWSLVKIGTTANQKRLFFNLRRLKGHL-----QAITDNNLKPEQVVAIAKKLNVSE 170 SW++ R+ L+ L+G + Q + D P + +A +L Sbjct: 113 FRDCSWTV----------RIPRRLQELQGSIASVRPQLVQDLQRDP-TLEELAAELGTDV 161 Query: 171 S------------EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 + V+S++ + GD + N +D+ + + Sbjct: 162 AEVEAAIAADGCFSVLSLDRPVDGDSTANLADTIADEEDTSF------------------ 203 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 ER ML ++ L PRER+I E R ++ + T ++ +E VS+ +V +R + Sbjct: 204 -ERTEAVAMLEPVLNDLTPRERKILELRFIEGH--TQADIGAEIGVSQMQV----SRLLR 256 Query: 279 KVQESIQKQVE 289 + + +++Q+E Sbjct: 257 GILDRLREQIE 267 >gi|312126664|ref|YP_003991538.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor hydrothermalis 108] gi|311776683|gb|ADQ06169.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor hydrothermalis 108] Length = 206 Score = 40.8 bits (94), Expect = 0.26, Method: Compositional matrix adjust. Identities = 20/81 (24%), Positives = 40/81 (49%), Gaps = 1/81 (1%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + GD AA L+ ++ L++ A Y + ++ EG ++QA +KF+ G Sbjct: 17 KQGDKKAAEELICAYEPLIISFAAKYNKPEI-FEDLKQEGYCAILQAARKFNVSLGVSFI 75 Query: 103 TYSMWWIKAAMQEYILRSWSL 123 T ++++IK M + R ++ Sbjct: 76 TLAVYYIKRNMDRCVNRDRTI 96 >gi|91792701|ref|YP_562352.1| flagellar biosynthesis sigma factor [Shewanella denitrificans OS217] gi|91714703|gb|ABE54629.1| RNA polymerase sigma factor, FliA/WhiG [Shewanella denitrificans OS217] Length = 239 Score = 40.8 bits (94), Expect = 0.26, Method: Compositional matrix adjust. Identities = 48/212 (22%), Positives = 97/212 (45%), Gaps = 19/212 (8%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ AM + I R W V NQ+ Sbjct: 41 LDDLLQAGMMGLLEAASKFDGTKGAKFETFAGIRIRGAMIDEIRRGDW--VPRSVHRNQR 98 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R+ + L+ H + + IA+KL++S E + D S+ +I Sbjct: 99 RVAQVIDELEQHFG-------RDARDTEIAEKLDMSLDEY----HHILNDVSVGKIIGIE 147 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D S QD ++ + ++ E E + ++ L ++ L R+ + + + Sbjct: 148 DLGVS--QDVIITEETSMDESFDELVETQF-QSALVEAIKTLPERDALVLSL--YYDEAL 202 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+ + + EVS RV QI ++A +++ ++ Sbjct: 203 NLKEIGAILEVSESRVSQILSQAMLRLKAKLK 234 >gi|254818833|ref|ZP_05223834.1| RNA polymerase sigma factor SigF [Mycobacterium intracellulare ATCC 13950] Length = 242 Score = 40.8 bits (94), Expect = 0.27, Method: Compositional matrix adjust. Identities = 57/264 (21%), Positives = 109/264 (41%), Gaps = 47/264 (17%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 +Q EY++A R D A+H RG GL +++ +GLM AV Sbjct: 17 RQREYIVA-RCLPLADHVASH--------------FARRGEGL--EDLIQVARLGLMNAV 59 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAI 149 +FDP +G +++ + ++ Y SW + R+ LR L + Sbjct: 60 NRFDPAKGPSFIGFAVPTMMGEVRRYFRDYSWGM----------RVPRRLRELHVQISRA 109 Query: 150 TDNNL----KPEQVVAIAKKLNVSESEVISMNCRLAGD----ESLNALINSSDKNSSQWQ 201 T + + +++ L V E++ C +AGD +SL+A + + + + Sbjct: 110 TADLAQQLGRAPNAGELSQMLEVPREEIV--ECLVAGDAYRLDSLDAPLGADSSGTPRSV 167 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 V D D Q + + +E L ++ L PRER + R + +T ++ Sbjct: 168 ADSVGDIDPQIEHITNREA-------LRALVATLPPRERDVLRMRFFES--MTQSQIAER 218 Query: 262 FEVSRERVRQIEARAFKKVQESIQ 285 VS+ +V +I A + +++ ++ Sbjct: 219 IGVSQMQVSRILANTLRCLRDQLE 242 >gi|239907027|ref|YP_002953768.1| RNA polymerase sigma factor for flagellar operon [Desulfovibrio magneticus RS-1] gi|239796893|dbj|BAH75882.1| RNA polymerase sigma factor for flagellar operon [Desulfovibrio magneticus RS-1] Length = 264 Score = 40.8 bits (94), Expect = 0.27, Method: Compositional matrix adjust. Identities = 52/215 (24%), Positives = 102/215 (47%), Gaps = 22/215 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQK 133 ++E++S G +GL++A+ +F PE G + TY+ IK AM + + R W + Q+ Sbjct: 64 LNELISAGAMGLLEALGRFRPELGIKFETYAESRIKGAMLDDLRRMDW------FSRGQR 117 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL-NALINS 192 + +R L+ + I +++ P + +A+ ++E EV SM G E+L N L S Sbjct: 118 Q---RVRTLEEASRRIENDSGGPASLEQLAEATGLTEREV-SM-----GLEALQNQLCLS 168 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 D + ++ Y + E + E K + L + L PRE+ + +E Sbjct: 169 LDAIT---ENISSYQKNQLENEPYKSAEFKELVDKLASLIDDLTPREKLVLSLYYGEE-- 223 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + + S ++ RV Q+ ++A ++++ + Q Sbjct: 224 LNMRETSEVMGITEGRVSQLHSQALARLRQKFKSQ 258 >gi|169827020|ref|YP_001697178.1| sporulation sigma factor SigG [Lysinibacillus sphaericus C3-41] gi|168991508|gb|ACA39048.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Lysinibacillus sphaericus C3-41] Length = 257 Score = 40.8 bits (94), Expect = 0.28, Method: Compositional matrix adjust. Identities = 56/258 (21%), Positives = 115/258 (44%), Gaps = 17/258 (6%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ +E L R + G+ LV +LRLV+ I + G ++ G IG Sbjct: 15 LPILKHEEMKELFIRL-QAGETEIREELVMCNLRLVLSIVGRFAYRGEQADDLFQVGCIG 73 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGH 145 LM+A+ FD + R +TY++ I ++ + LR +++ + + ++ Sbjct: 74 LMKAIDHFDLKHNVRFSTYAVPMIIGEIRRH-LRDHHALRVSRSLRD----IAYKAMQAK 128 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 Q IT+ NL+ + IA +++ + +V+ + SL I S ++ D L Sbjct: 129 EQWITE-NLREPTIEEIADMIDMKKEDVLFALDAIQDPMSLQEPIYSDGGDAVYMMDQLR 187 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 D ++Q + + S+ L+ R++ I A+R E ++ E +S Sbjct: 188 DDDVSEDQWVAYVS--------VKESLQKLDERQQMIV-AKRFYYGETQTE-IAKELGIS 237 Query: 266 RERVRQIEARAFKKVQES 283 + ++ ++E A + +Q+ Sbjct: 238 QAQISRLEKNAIETMQKD 255 >gi|325107978|ref|YP_004269046.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Planctomyces brasiliensis DSM 5305] gi|324968246|gb|ADY59024.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Planctomyces brasiliensis DSM 5305] Length = 259 Score = 40.8 bits (94), Expect = 0.28, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 27/42 (64%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 G+ +++++S G GLM A+ FD ERG + TY + I+ AM Sbjct: 52 GVDLNDLMSAGVFGLMDAIDAFDMERGVKFETYCVPRIRGAM 93 >gi|317129180|ref|YP_004095462.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus cellulosilyticus DSM 2522] gi|315474128|gb|ADU30731.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus cellulosilyticus DSM 2522] Length = 254 Score = 40.8 bits (94), Expect = 0.28, Method: Compositional matrix adjust. Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 5/78 (6%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDP 95 R+ E D A RLV ++L LV + G LP + ++ S G +GL A++KFD Sbjct: 16 RWSEDRDEVACDRLVQAYLPLV-DYHVQRIGANLPRNVQLDDLRSNGMLGLYDALEKFDE 74 Query: 96 ERGFRLATYSMWWIKAAM 113 +R + TY+ + I+ A+ Sbjct: 75 KRELKFDTYASFRIRGAI 92 >gi|312879616|ref|ZP_07739416.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Aminomonas paucivorans DSM 12260] gi|310782907|gb|EFQ23305.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Aminomonas paucivorans DSM 12260] Length = 247 Score = 40.8 bits (94), Expect = 0.28, Method: Compositional matrix adjust. Identities = 31/106 (29%), Positives = 54/106 (50%), Gaps = 5/106 (4%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY----GLPISEVVSEGNIGLM 87 E+ L + YR+ RLV +L LV +A G GL +++S G +GL+ Sbjct: 3 HEDNQLWEDYRKEPSPELKERLVRRYLPLVRYVA-GRMAVSPPPGLDFEDLLSFGAMGLL 61 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 A+++FD +RGF T+++ I+ A+ + + R + + G QK Sbjct: 62 DAIERFDLDRGFCFQTFAVPRIRGAILDELRRYDWISRTGREKLQK 107 >gi|94264039|ref|ZP_01287839.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|94266375|ref|ZP_01290074.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93453027|gb|EAT03515.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93455550|gb|EAT05737.1| Sigma-70-like protein [delta proteobacterium MLMS-1] Length = 256 Score = 40.8 bits (94), Expect = 0.28, Method: Compositional matrix adjust. Identities = 15/39 (38%), Positives = 26/39 (66%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + +++S G +GL+ A+ KFDP + + TY+ + IK AM Sbjct: 52 VDDLISCGIVGLIDAINKFDPAKNVQFKTYAEFRIKGAM 90 >gi|332527910|ref|ZP_08403946.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rubrivivax benzoatilyticus JA2] gi|332112486|gb|EGJ12279.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rubrivivax benzoatilyticus JA2] Length = 237 Score = 40.4 bits (93), Expect = 0.28, Method: Compositional matrix adjust. Identities = 41/206 (19%), Positives = 97/206 (47%), Gaps = 13/206 (6%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL A+ +FD +G + T++ I+ AM + LR + G +Q+ Sbjct: 38 LDDLIQVGMIGLSDALSRFDAAQGVQFETFATQRIRGAMLDE-LRGNDWMSRGDRRHQRS 96 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ L + + IAK++ +S +E + ++ G + + S D Sbjct: 97 IEAAVHKLEQKLHRAPNES-------EIAKEMGLSLAEYQELLTKVRGTQLIYLEDMSGD 149 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 + D V HD + L ++++ R+ ++ ++ N ER + E+ + Sbjct: 150 DGDEDYLDRHV--HDDEANPLGRLQDQRMRQALVD---AIKNLPEREQYVMSMYYEHDMN 204 Query: 255 LENLSSEFEVSRERVRQIEARAFKKV 280 L+ +++ +V+ RV Q+ +++ ++ Sbjct: 205 LKEIAAVLKVTESRVCQLHSQSIARL 230 >gi|269961637|ref|ZP_06175999.1| flagellar biosynthesis sigma factor FliA [Vibrio harveyi 1DA3] gi|269833678|gb|EEZ87775.1| flagellar biosynthesis sigma factor FliA [Vibrio harveyi 1DA3] Length = 244 Score = 40.4 bits (93), Expect = 0.28, Method: Compositional matrix adjust. Identities = 38/154 (24%), Positives = 67/154 (43%), Gaps = 8/154 (5%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +HG ++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 AITYDQHGKFNSQQAFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +G TY+ I+ AM + I R V N + + + L+G L ++ Sbjct: 64 GSKGASFETYAGIRIRGAMLDDI-RKGDWVPRSVHKNNREINQAIAELEGVLNRDPSDS- 121 Query: 155 KPEQVVAIAKKLNVSESEVISMNC-RLAGDESLN 187 E + L+ S + +NC +L G E L Sbjct: 122 --EVAAHLGMTLDQYHSALTDINCSKLVGIEDLG 153 >gi|326204596|ref|ZP_08194452.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium papyrosolvens DSM 2782] gi|325985163|gb|EGD46003.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium papyrosolvens DSM 2782] Length = 254 Score = 40.4 bits (93), Expect = 0.28, Method: Compositional matrix adjust. Identities = 51/247 (20%), Positives = 108/247 (43%), Gaps = 25/247 (10%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKK 92 L K+Y E+ + +A +L+ + L+ +A G Y G + ++V G GL+ A++K Sbjct: 9 LWKQYIENKEAAAKEKLIIQYAYLIKYVA-GRLSIYFGSNVEFDDLVGYGAFGLIDAIEK 67 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL---FFNLRRLKGHLQAI 149 +D +G + TY+ I+ ++ + I R V K L + + KGH Sbjct: 68 YDLAKGVKFETYASLRIRGSIIDSI-RDMDWVPRSLRQKNKELEKVYAEIENEKGH--TA 124 Query: 150 TDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD 209 TD +A+K+ + + +L D +++++++ + ++ L + Sbjct: 125 TDKE--------VAEKMGLGMDDF----YKLLNDVNVSSMMSLDEFMEQNYERGLEIFSE 172 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 E E + +L S+ L +E+ + +E +TL+ +S+ V+ R+ Sbjct: 173 STEDKPEASLEFNEMKQLLADSIDKLPEKEKAVITFYYFEE--LTLKEISAIMSVTESRI 230 Query: 270 RQIEARA 276 Q+ +A Sbjct: 231 SQLHTKA 237 >gi|323463926|gb|ADX76079.1| RNA polymerase sigma-B factor [Staphylococcus pseudintermedius ED99] Length = 256 Score = 40.4 bits (93), Expect = 0.29, Method: Compositional matrix adjust. Identities = 53/248 (21%), Positives = 111/248 (44%), Gaps = 16/248 (6%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD + Sbjct: 23 YQNDEDHEAQEKLVKHYEKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRK 82 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 + + + ++ Y+ ++WS+ +R+ R+K +T+ + + Sbjct: 83 FEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELGRSPSI 136 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLIEK 218 IA +L VS+ +V+ + +S NAL ++ S + + D GQ + Sbjct: 137 SEIADRLEVSDEDVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQHD---DN 190 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 E +R +L R + +L RER I + + + ++ + +S+ V +++ A K Sbjct: 191 YELTEKRMILERILPILTDREREIIQCTFI--DGLSQKETGERIGLSQMHVSRLQRTAIK 248 Query: 279 KVQESIQK 286 K+QE+ +K Sbjct: 249 KLQEAARK 256 >gi|78184762|ref|YP_377197.1| putative type III sigma factor [Synechococcus sp. CC9902] gi|78169056|gb|ABB26153.1| putative type III sigma factor [Synechococcus sp. CC9902] Length = 124 Score = 40.4 bits (93), Expect = 0.29, Method: Compositional matrix adjust. Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 3/55 (5%) Query: 54 VTSHLRLVVKIAMGYRGYGLP--ISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 V HL L +AM R G P +++ E +GL+Q ++KFDP RG R ++Y M Sbjct: 26 VLQHLGLAHCVAMRQRHRG-PEERDDLLQEACLGLIQGLQKFDPSRGLRPSSYLM 79 >gi|323484667|ref|ZP_08090029.1| sigma-70 region 3 [Clostridium symbiosum WAL-14163] gi|323694798|ref|ZP_08108953.1| hypothetical protein HMPREF9475_03817 [Clostridium symbiosum WAL-14673] gi|323402050|gb|EGA94386.1| sigma-70 region 3 [Clostridium symbiosum WAL-14163] gi|323501114|gb|EGB17021.1| hypothetical protein HMPREF9475_03817 [Clostridium symbiosum WAL-14673] Length = 192 Score = 40.4 bits (93), Expect = 0.29, Method: Compositional matrix adjust. Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 1/85 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +GE Y+ E++ +P +EE L G SA RLV L V++A Y Sbjct: 21 FTSGEDFYQLYLEELKLVPPCSPEEEERLLDEIL-AGSQSAVKRLVEGKLGRAVRMAEEY 79 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKF 93 R GL ++++V E NI L+ +++ Sbjct: 80 RDRGLSMNDLVQEANIALLLTAQEY 104 >gi|220932500|ref|YP_002509408.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Halothermothrix orenii H 168] gi|219993810|gb|ACL70413.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Halothermothrix orenii H 168] Length = 254 Score = 40.4 bits (93), Expect = 0.29, Method: Compositional matrix adjust. Identities = 63/270 (23%), Positives = 118/270 (43%), Gaps = 50/270 (18%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV----KIAMGYRGYGLPISEVVSEGNIG 85 EK E L + Y+ G A L+ ++L LV ++ M + + ++ S G IG Sbjct: 6 EKVEYLDLWEAYKGKGSQEARKELILNYLPLVKYQVERVKMIIPDF-IEEDDLESYGIIG 64 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKG 144 L+ A++K+D G + TY+ I+ ++ +++ + W L +LRR Sbjct: 65 LIDAIEKYDYRLGIKFNTYASRRIRGSIIDHLRKLDW-------------LPHSLRREGK 111 Query: 145 HLQAITDN-----NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ 199 LQ + D KP V +A K N+S +V + +L +S K S Sbjct: 112 ELQKVADKLAKELGRKP-TVAELANKTNISREKVTKIYSKL-----------NSAKWVSL 159 Query: 200 WQDW--------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 ++DW + D +++L ++K R +L R++ L+ ER + +E Sbjct: 160 YEDWGESTVFNFIKGDCLPPDRIL----DKKERIKLLARAIDRLSESERTVISLYYYEE- 214 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +T + ++ +S R+ QI RA +++ Sbjct: 215 -LTQKEIAEVMGLSPARISQIHKRAVYRLR 243 >gi|317132052|ref|YP_004091366.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Ethanoligenens harbinense YUAN-3] gi|315470031|gb|ADU26635.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Ethanoligenens harbinense YUAN-3] Length = 245 Score = 40.4 bits (93), Expect = 0.30, Method: Compositional matrix adjust. Identities = 31/116 (26%), Positives = 50/116 (43%), Gaps = 5/116 (4%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A LV+S + + ++ GL +++ EG +GL+ AV+ F P+ G Y Sbjct: 67 GDRDAMADLVSSFVPFIRAHSVPVAAAGLEADDMMQEGMLGLLGAVRHFCPQNGVPFRAY 126 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 + IK M + R+ A +L L A++ N PE+VV Sbjct: 127 AHICIKRRMASAVRRATC-----GKAVPLNYALSLDDQTNALFAVSRTNTDPEEVV 177 >gi|300788069|ref|YP_003768360.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299797583|gb|ADJ47958.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 273 Score = 40.4 bits (93), Expect = 0.30, Method: Compositional matrix adjust. Identities = 20/73 (27%), Positives = 38/73 (52%), Gaps = 1/73 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL+T HL L IA + G G P +++ GL++AV ++ +RG ++++ I Sbjct: 52 RLITEHLPLAEHIARRFSGRGEPFEDLLQVARTGLIRAVDRYAADRGSDFVSFAVPTIMG 111 Query: 112 AMQEYILR-SWSL 123 ++ + WS+ Sbjct: 112 EVRRHFRDVGWSM 124 >gi|256545958|ref|ZP_05473313.1| RNA polymerase sigma-B factor [Anaerococcus vaginalis ATCC 51170] gi|256398380|gb|EEU12002.1| RNA polymerase sigma-B factor [Anaerococcus vaginalis ATCC 51170] Length = 256 Score = 40.4 bits (93), Expect = 0.30, Method: Compositional matrix adjust. Identities = 15/72 (20%), Positives = 38/72 (52%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D + L+ H+ +V ++ Y G G+ ++ ++GL+ A+ ++DP +G+ ++++ Sbjct: 26 DKDLRNELIEDHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIDRYDPSKGYEFSSFA 85 Query: 106 MWWIKAAMQEYI 117 I ++ Y Sbjct: 86 TPTIMGELKRYF 97 >gi|229010401|ref|ZP_04167605.1| RNA polymerase sigma-B factor [Bacillus mycoides DSM 2048] gi|228750821|gb|EEM00643.1| RNA polymerase sigma-B factor [Bacillus mycoides DSM 2048] Length = 224 Score = 40.4 bits (93), Expect = 0.30, Method: Compositional matrix adjust. Identities = 53/239 (22%), Positives = 114/239 (47%), Gaps = 28/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V + LV IA Y G +++ G +GL+ A++++D G +++ I Sbjct: 1 MVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNL-RRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +++Y+ ++W + + R +L ++K ++ +TD+ + +++ IA L +SE Sbjct: 61 IKKYLRDKTWGI-------HVPRRIKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSE 113 Query: 171 SEVISM-----NCRLAGDESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ + N +++ SL+ ++ NSSD +S + + G EQ R Sbjct: 114 EEVLEIMDAKNNYQVS---SLDDVVENSSDGSSVARIESVGEVEQGYEQT--------ER 162 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L +VLN E+ + EN + ++ +S+ V +I+ +A K++++ Sbjct: 163 RLVLDDIFNVLNDTEKSVIH-YIFGEN-LNQKDTGERLGISQMHVSRIKRQAISKLKQA 219 >gi|226304764|ref|YP_002764722.1| RNA polymerase sigma factor [Rhodococcus erythropolis PR4] gi|226183879|dbj|BAH31983.1| RNA polymerase sigma factor [Rhodococcus erythropolis PR4] Length = 272 Score = 40.4 bits (93), Expect = 0.30, Method: Compositional matrix adjust. Identities = 34/148 (22%), Positives = 68/148 (45%), Gaps = 19/148 (12%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L L +A Y+G G P ++ +GL+QAV++FD ++G ++++ + ++++ Sbjct: 56 LPLATHVARRYQGRGQPFEDLEQVARVGLVQAVQRFDVDKGSDFLSFAVPTVMGEVRKHF 115 Query: 118 L-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV--- 173 WS V++ + ++ L N R L Q + + V +A +L++ EV Sbjct: 116 RDHGWS-VRVPRSLQERHLALN-RALTSLSQTLG----RAPTVAELATELDIEPDEVEQG 169 Query: 174 ---------ISMNCRLAGDESLNALINS 192 ++ AGD S LI++ Sbjct: 170 LTAGNSYRTTPLDTASAGDGSGLTLIDT 197 >gi|294636855|ref|ZP_06715188.1| flagellar biosynthesis sigma factor FliA [Edwardsiella tarda ATCC 23685] gi|291089930|gb|EFE22491.1| flagellar biosynthesis sigma factor FliA [Edwardsiella tarda ATCC 23685] Length = 240 Score = 40.4 bits (93), Expect = 0.30, Method: Compositional matrix adjust. Identities = 49/224 (21%), Positives = 95/224 (42%), Gaps = 36/224 (16%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLHAVERYDAMQGTAFTTYAIQRIRGAMLDE-LRSRDWVPRSVRRNARG 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++R + L + + IA+++ + +E + D Sbjct: 100 VSAAMQRAEQRLGRVPSDG-------EIAQEMGIPLAEYQQILL---------------D 137 Query: 195 KNSSQ---WQDWLVYDHDGQEQVLIEKEERKNRRNML--------TRSMSVLNPRERRIF 243 NSSQ + +W D E V E+E R +L ++ L RE+ + Sbjct: 138 TNSSQLFSYDEWREEHGDNAEPVWGEEESANPLRQLLESDLRGRVIAAIEALPEREKLVL 197 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 +E + L+ + + EV RV Q+ ++A K+++ + Q Sbjct: 198 TLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRSRLLSQ 239 >gi|298243403|ref|ZP_06967210.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ktedonobacter racemifer DSM 44963] gi|297556457|gb|EFH90321.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ktedonobacter racemifer DSM 44963] Length = 294 Score = 40.4 bits (93), Expect = 0.30, Method: Compositional matrix adjust. Identities = 61/254 (24%), Positives = 116/254 (45%), Gaps = 23/254 (9%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS-----EVVSEGNIGLMQAVKKF 93 +RY+EH + L+T + LV ++A+G G P S +++ G IGL+ A+ ++ Sbjct: 12 ERYQEHKSSELRNELITMYAPLV-RLAVGRLGIP-PTSIMDSEDLIGYGMIGLINAIDRY 69 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 D RG R ++ I+ A+ + I R + + + + +++ L+ L Sbjct: 70 DLSRGVRFEAFATPRIRGAVIDQI-RQLNWLPRSSVSRIRQIERTHAELEQQLG------ 122 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDE-SLNALINSS--DKNSSQWQDWLVYDHDG 210 +P AK L+VS M ++ SL+A + SS + S+ D L D Sbjct: 123 -RPATEAEAAKALDVSVERYRQMLTEMSVSVLSLDAPMGSSIQEDESASLGDML---EDE 178 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 +Q E E + L+ ++ L PRE+ + +E +T++ +S VS RV Sbjct: 179 SQQDPGEAVEHEELIQSLSAALQHLPPREQLLLSLYYKEE--LTMKEISRIMNVSESRVC 236 Query: 271 QIEARAFKKVQESI 284 Q+ +A +++ ++ Sbjct: 237 QLRMQALVRLRSTL 250 >gi|326332872|ref|ZP_08199129.1| RNA polymerase sigma-F factor [Nocardioidaceae bacterium Broad-1] gi|325949230|gb|EGD41313.1| RNA polymerase sigma-F factor [Nocardioidaceae bacterium Broad-1] Length = 265 Score = 40.4 bits (93), Expect = 0.31, Method: Compositional matrix adjust. Identities = 27/85 (31%), Positives = 43/85 (50%), Gaps = 7/85 (8%) Query: 46 DLSAAHR------LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 DLS A R LV ++ LV A + G G P ++V G +GL+ AV ++D R Sbjct: 35 DLSDAERTAAREELVHLNMALVEYCASQFYGRGEPHEDLVQVGVVGLLNAVDRYDLARDV 94 Query: 100 RLATYSMWWIKAAMQEYILRS-WSL 123 +TY++ I ++ Y S W++ Sbjct: 95 EFSTYAVPTILGEIKRYFRDSRWAV 119 >gi|257440909|ref|ZP_05616664.1| RNA polymerase sigma-F factor [Faecalibacterium prausnitzii A2-165] gi|257196689|gb|EEU94973.1| RNA polymerase sigma-F factor [Faecalibacterium prausnitzii A2-165] Length = 222 Score = 40.4 bits (93), Expect = 0.31, Method: Compositional matrix adjust. Identities = 24/89 (26%), Positives = 43/89 (48%), Gaps = 1/89 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 + +L LV A +RG G+ ++ G +GL++A FD RG +TY++ I Sbjct: 11 FIEQNLGLVHACAGRFRGRGIEYDDLYGAGCMGLVKATDGFDEGRGVCFSTYAVPVILGE 70 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRR 141 +++ + R VK+ + + L N R Sbjct: 71 IKK-LFREGGTVKVSRSLKELGLRVNAAR 98 >gi|271500098|ref|YP_003333123.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Dickeya dadantii Ech586] gi|270343653|gb|ACZ76418.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dickeya dadantii Ech586] Length = 240 Score = 40.4 bits (93), Expect = 0.32, Method: Compositional matrix adjust. Identities = 51/239 (21%), Positives = 101/239 (42%), Gaps = 35/239 (14%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + +Q + + +A+ LN+S E + Sbjct: 84 RSRDWA---------PRSVRRNAREVAQAMQQAEQSLGRAPTEQEVAQTLNISLEEYRQI 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT------R 230 L+++++ + +W +H + L+E E N N+L R Sbjct: 135 ------------LLDTNNSQLFSYDEW-REEHGDSAEALLEGNEDANPLNLLMDVNLRQR 181 Query: 231 SMSVL-NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 M + N ER + + L+ + + EV RV Q+ ++A K+++ + V Sbjct: 182 VMDAIENLPEREKMVLTLYYQEELNLKEIGAVLEVGESRVSQLHSQAIKRLRAKLMSDV 240 >gi|126697577|ref|YP_001086474.1| RNA polymerase sigma-B factor [Clostridium difficile 630] gi|254977353|ref|ZP_05273825.1| RNA polymerase sigma-B factor [Clostridium difficile QCD-66c26] gi|255102910|ref|ZP_05331887.1| RNA polymerase sigma-B factor [Clostridium difficile QCD-63q42] gi|255308730|ref|ZP_05352901.1| RNA polymerase sigma-B factor [Clostridium difficile ATCC 43255] gi|255316437|ref|ZP_05358020.1| RNA polymerase sigma-B factor [Clostridium difficile QCD-76w55] gi|255519098|ref|ZP_05386774.1| RNA polymerase sigma-B factor [Clostridium difficile QCD-97b34] gi|255652280|ref|ZP_05399182.1| RNA polymerase sigma-B factor [Clostridium difficile QCD-37x79] gi|260681780|ref|YP_003213065.1| RNA polymerase sigma-B factor [Clostridium difficile CD196] gi|260685377|ref|YP_003216510.1| RNA polymerase sigma-B factor [Clostridium difficile R20291] gi|296452670|ref|ZP_06894361.1| RNA polymerase sigma-B factor [Clostridium difficile NAP08] gi|296880077|ref|ZP_06904046.1| RNA polymerase sigma-B factor [Clostridium difficile NAP07] gi|306521994|ref|ZP_07408341.1| RNA polymerase sigma-B factor [Clostridium difficile QCD-32g58] gi|115249014|emb|CAJ66825.1| RNA polymerase sigma-B factor (Sigma-37) [Clostridium difficile] gi|260207943|emb|CBA60060.1| RNA polymerase sigma-B factor [Clostridium difficile CD196] gi|260211393|emb|CBE01463.1| RNA polymerase sigma-B factor [Clostridium difficile R20291] gi|296258452|gb|EFH05356.1| RNA polymerase sigma-B factor [Clostridium difficile NAP08] gi|296428944|gb|EFH14822.1| RNA polymerase sigma-B factor [Clostridium difficile NAP07] Length = 257 Score = 40.4 bits (93), Expect = 0.32, Method: Compositional matrix adjust. Identities = 33/142 (23%), Positives = 68/142 (47%), Gaps = 21/142 (14%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y ++ ++ + L+ HL L +A Y G+ ++ ++ L+ A+ ++D E+GF Sbjct: 22 YNKNKNVDIRNILIERHLYLARLLAKKYINKGVDFEDIYQVASLALIYAIDRYDVEKGFE 81 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ- 158 ++++ I +++Y + W+L R+ RR++ + I+D +K EQ Sbjct: 82 FSSFATPTIVGEIKKYFRDKVWTL----------RV---PRRIQELSKKISDAKIKLEQE 128 Query: 159 ------VVAIAKKLNVSESEVI 174 V IA + VSE +V+ Sbjct: 129 NKKHPKVKDIADYIGVSEEDVL 150 >gi|78217835|gb|ABB37184.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 227 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 ++E++S G +GLM+A KF P+ G + TY+ I+ AM + + R Sbjct: 26 LNELISAGTLGLMEAFGKFQPKLGIKFDTYAENRIRGAMLDELRR 70 >gi|256783387|ref|ZP_05521818.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289767263|ref|ZP_06526641.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289697462|gb|EFD64891.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 287 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 60/251 (23%), Positives = 113/251 (45%), Gaps = 46/251 (18%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT+ L + +IA +R G I ++ +GL++A+ +FDPERG +Y++ I Sbjct: 56 LVTAWLPMAHRIAGRFRDRGESIEDLRQVAALGLVKAIDRFDPERGA-FESYAVPTITGE 114 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + R W+L ++ + R N R+ A + + +P V A+A +SE Sbjct: 115 VKRHFRDRMWAL-RVPRRVQELR---NKVRVARRELAQSPGSPEP-SVAALAAHTGLSED 169 Query: 172 EV------------ISMNCRL-AGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 EV +S++ L AGD+ SL + ++D + YD +I Sbjct: 170 EVGAGMEALESFSTLSLDAELSAGDDGYSLADTLGAADTS---------YD------TVI 214 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 ++E K + L RER I R ++ +T ++ +S+ V ++ +R+ Sbjct: 215 DRESAKE-------GLRRLPERERAILYMRFFED--MTQSRIADCLGISQMHVSRLISRS 265 Query: 277 FKKVQESIQKQ 287 +V++ Q Sbjct: 266 CARVRDEAMGQ 276 >gi|302528260|ref|ZP_07280602.1| RNA polymerase sigma-B factor [Streptomyces sp. AA4] gi|302437155|gb|EFL08971.1| RNA polymerase sigma-B factor [Streptomyces sp. AA4] Length = 261 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 3/88 (3%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 LA+ EH L RL+ HL L IA + G P +++ IGL+ AV ++DP Sbjct: 22 LAEDTDEHSRLR--RRLIEEHLPLAEHIARRFARRGQPTEDLLQVARIGLINAVDRYDPA 79 Query: 97 RGFRLATYSMWWIKAAMQEYIL-RSWSL 123 R +++ + ++ Y +WS+ Sbjct: 80 RQTDFVAFAVPTVMGEVRRYFRDHTWSV 107 >gi|288553039|ref|YP_003424974.1| RNA polymerase sigma factor SigD [Bacillus pseudofirmus OF4] gi|288544199|gb|ADC48082.1| RNA polymerase sigma factor SigD [Bacillus pseudofirmus OF4] Length = 257 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 53/252 (21%), Positives = 111/252 (44%), Gaps = 26/252 (10%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRL 101 DL A L+ ++ +V + GLP + ++ S G +GL A++KF+P R + Sbjct: 21 DLDACDELIRLYMP-IVNYHVQRISVGLPKNVSKDDLTSHGMLGLYDALEKFNPNRDLKF 79 Query: 102 ATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 TY+ + ++ A+ + + + W + + +K ++R++ +Q + + Sbjct: 80 DTYASFRVRGAIIDGLRKEDW----LPRSMREK-----IKRVEACIQQLEQEFGRNVSAK 130 Query: 161 AIAKKLNVSESEVIS------MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 + KL++ E EV ++ L+ DE N S NS+ + L+ D Q + Sbjct: 131 EVGVKLDMPEEEVYQIMNEHYLSNLLSIDERTNDSDRSDSNNSASYSATLI---DKQTKT 187 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 E + + L + ++ L+ E+ + E +TL + +S R+ QI + Sbjct: 188 PEESLMFEAVKEELIKGINRLSENEKLVISLFYFDE--LTLTEIGHILNLSTSRISQIHS 245 Query: 275 RAFKKVQESIQK 286 +A ++ + I K Sbjct: 246 KALFRMNQLINK 257 >gi|78221650|ref|YP_383397.1| sigma 28 (flagella/sporulation) [Geobacter metallireducens GS-15] gi|78192905|gb|ABB30672.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Geobacter metallireducens GS-15] Length = 250 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 29/98 (29%), Positives = 48/98 (48%), Gaps = 14/98 (14%) Query: 36 VLAKRYREHGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQ 88 L K Y + S+A L+ +HL LV K +G LP +++S IGL+ Sbjct: 3 CLVKAYEQEAQRSSAQSRDELIVTHLPLV-KFLVGRIATQLPPHLDQDDLMSAAVIGLIT 61 Query: 89 AVKKFDPERGFRLATYSMWWIKAAM------QEYILRS 120 A ++FDP RG + T++ I+ + Q+++ RS Sbjct: 62 AAERFDPSRGVQFKTFAEQRIRGTIIDELRSQDWLTRS 99 >gi|22298280|ref|NP_681527.1| RNA polymerase sigma factor SigF [Thermosynechococcus elongatus BP-1] gi|22294459|dbj|BAC08289.1| group 3 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 261 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 21/82 (25%), Positives = 48/82 (58%), Gaps = 1/82 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDP 95 L + YR++ +RLV ++ LV K A + + +++ G +GL++A+++FDP Sbjct: 17 LLQAYRDNPAPELRNRLVELNIGLVRKEAHRWVQCTQESFDDLMQVGTLGLIRAIERFDP 76 Query: 96 ERGFRLATYSMWWIKAAMQEYI 117 +G +++++ +I+ +Q Y+ Sbjct: 77 TKGVAFSSFAIPYIRGEIQHYL 98 >gi|312621865|ref|YP_004023478.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor kronotskyensis 2002] gi|312202332|gb|ADQ45659.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor kronotskyensis 2002] Length = 302 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 17/50 (34%), Positives = 31/50 (62%), Gaps = 4/50 (8%) Query: 53 LVTSHLRLVVKIAMGY----RGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 L+ +++LV +A + +GY + +++SEG IGL+ A K +DP +G Sbjct: 13 LIADNIKLVYHVANKFMPCPKGYCYEVDDLISEGYIGLVVAAKNYDPAKG 62 >gi|304559365|gb|ADM42029.1| RNA polymerase sigma factor for flagellar operon [Edwardsiella tarda FL6-60] Length = 237 Score = 40.4 bits (93), Expect = 0.33, Method: Compositional matrix adjust. Identities = 47/227 (20%), Positives = 94/227 (41%), Gaps = 42/227 (18%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGT 128 + +++ G IGL+ AV+++D +G TY++ I+ AM ++++ RS G Sbjct: 38 LDDLLQAGGIGLLHAVERYDAMQGTAFTTYAIQRIRGAMLDELRSRDWVPRSVRRNARGV 97 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 +A +R L R G D+ + E + + +E Sbjct: 98 SAAMQRAEQRLGRTPG------DSEIAQEMGIPL--------------------EEYQQI 131 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML--------TRSMSVLNPRER 240 L++++ + +W D E VL + EE R +L ++ L RE+ Sbjct: 132 LLDTNTSQLFSYDEWREDHGDSAEPVLEQSEEANPLRQLLESDLRGRVIAAIEALPEREK 191 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + +E + L+ + + EV RV Q+ ++A K+++ + Q Sbjct: 192 LVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTRLLSQ 236 >gi|269139471|ref|YP_003296172.1| flagellar biosynthesis sigma factor [Edwardsiella tarda EIB202] gi|267985132|gb|ACY84961.1| flagellar biosynthesis sigma factor [Edwardsiella tarda EIB202] Length = 240 Score = 40.4 bits (93), Expect = 0.34, Method: Compositional matrix adjust. Identities = 47/227 (20%), Positives = 94/227 (41%), Gaps = 42/227 (18%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGT 128 + +++ G IGL+ AV+++D +G TY++ I+ AM ++++ RS G Sbjct: 41 LDDLLQAGGIGLLHAVERYDAMQGTAFTTYAIQRIRGAMLDELRSRDWVPRSVRRNARGV 100 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 +A +R L R G D+ + E + + +E Sbjct: 101 SAAMQRAEQRLGRTPG------DSEIAQEMGIPL--------------------EEYQQI 134 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML--------TRSMSVLNPRER 240 L++++ + +W D E VL + EE R +L ++ L RE+ Sbjct: 135 LLDTNTSQLFSYDEWREDHGDSAEPVLEQSEEANPLRQLLESDLRGRVIAAIEALPEREK 194 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + +E + L+ + + EV RV Q+ ++A K+++ + Q Sbjct: 195 LVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTRLLSQ 239 >gi|312792353|ref|YP_004025276.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor kristjanssonii 177R1B] gi|312179493|gb|ADQ39663.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor kristjanssonii 177R1B] Length = 311 Score = 40.4 bits (93), Expect = 0.34, Method: Compositional matrix adjust. Identities = 26/89 (29%), Positives = 46/89 (51%), Gaps = 10/89 (11%) Query: 47 LSAAHR--LVTSHLRLVVKIAMGY----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 L A R L+ +L+LV IA + +GY + +++SEG GL+ A + + PE G Sbjct: 9 LDKAQRQLLIADNLKLVYHIANKFMPCPKGYMYEVDDLISEGYFGLIVAAQNYKPELGTP 68 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTT 129 +Y+ I++ ++ RS K+ +T Sbjct: 69 FVSYACKVIESRIK----RSLPKYKLSST 93 >gi|322384374|ref|ZP_08058069.1| RNA polymerase sigma factor SigB-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321150809|gb|EFX44249.1| RNA polymerase sigma factor SigB-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 340 Score = 40.4 bits (93), Expect = 0.34, Method: Compositional matrix adjust. Identities = 24/65 (36%), Positives = 38/65 (58%), Gaps = 7/65 (10%) Query: 60 LVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFR----LATYSMWWIKAA 112 +V +A YR G GL ++VS G IGL+QA + +DP+R R +TY+ IK + Sbjct: 1 MVHSVARKYRSCIGAGLDYDDLVSVGMIGLIQAFRNYDPDRLNRKVSSFSTYAFNMIKWS 60 Query: 113 MQEYI 117 +Q ++ Sbjct: 61 IQRFL 65 >gi|261368117|ref|ZP_05981000.1| RNA polymerase sigma-27 factor [Subdoligranulum variabile DSM 15176] gi|282569875|gb|EFB75410.1| RNA polymerase sigma-27 factor [Subdoligranulum variabile DSM 15176] Length = 147 Score = 40.4 bits (93), Expect = 0.34, Method: Compositional matrix adjust. Identities = 20/61 (32%), Positives = 34/61 (55%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +LRLV + Y +++S G IGL++AV FDP R + ++Y+ I+ A Sbjct: 58 LIRHNLRLVAHVTKKYFAATASQDDLISIGTIGLIKAVDTFDPVRASKFSSYASRCIENA 117 Query: 113 M 113 + Sbjct: 118 I 118 >gi|255094683|ref|ZP_05324161.1| RNA polymerase sigma-B factor [Clostridium difficile CIP 107932] Length = 252 Score = 40.4 bits (93), Expect = 0.34, Method: Compositional matrix adjust. Identities = 33/142 (23%), Positives = 68/142 (47%), Gaps = 21/142 (14%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y ++ ++ + L+ HL L +A Y G+ ++ ++ L+ A+ ++D E+GF Sbjct: 22 YNKNKNVDIRNILIERHLYLARLLAKKYINKGVDFEDIYQVASLALIYAIDRYDVEKGFE 81 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ- 158 ++++ I +++Y + W+L R+ RR++ + I+D +K EQ Sbjct: 82 FSSFATPTIVGEIKKYFRDKVWTL----------RV---PRRIQELSKKISDAKIKLEQE 128 Query: 159 ------VVAIAKKLNVSESEVI 174 V IA + VSE +V+ Sbjct: 129 NKKHPKVKDIADYIGVSEEDVL 150 >gi|332708995|ref|ZP_08428965.1| RNA polymerase sigma factor, sigma-70 family [Lyngbya majuscula 3L] gi|332352184|gb|EGJ31754.1| RNA polymerase sigma factor, sigma-70 family [Lyngbya majuscula 3L] Length = 258 Score = 40.4 bits (93), Expect = 0.34, Method: Compositional matrix adjust. Identities = 40/174 (22%), Positives = 90/174 (51%), Gaps = 13/174 (7%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQA 89 K + L ++Y+++ D ++LV +L LV + A + + +++ G IGL+ A Sbjct: 10 KYQSLTLLQKYQQYPDPELRNQLVALNLGLVRREAHHWVKQCNESYEDLLQVGCIGLIVA 69 Query: 90 VKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR----LKGH 145 +++FD +G +++++ +I+ +Q Y+ ++I R + LR+ + + Sbjct: 70 IERFDSTKGIAFSSFAIPYIRGEIQHYLRDRGYSIRI------PRRWLALRQKSVEITQN 123 Query: 146 LQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI-NSSDKNSS 198 L+A T N E+ +A A +++ E + I++ + SL+ + +S D+N+S Sbjct: 124 LRA-TLNRQPTEEEIAAALNISLEEWQEITLAHQNREPLSLDTPVGDSEDRNTS 176 >gi|212697380|ref|ZP_03305508.1| hypothetical protein ANHYDRO_01950 [Anaerococcus hydrogenalis DSM 7454] gi|212675572|gb|EEB35179.1| hypothetical protein ANHYDRO_01950 [Anaerococcus hydrogenalis DSM 7454] Length = 256 Score = 40.4 bits (93), Expect = 0.34, Method: Compositional matrix adjust. Identities = 15/72 (20%), Positives = 38/72 (52%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D + L+ H+ +V ++ Y G G+ ++ ++GL+ A+ ++DP +G+ ++++ Sbjct: 26 DKDLRNELIEDHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIDRYDPSKGYEFSSFA 85 Query: 106 MWWIKAAMQEYI 117 I ++ Y Sbjct: 86 TPTIMGELKRYF 97 >gi|295104322|emb|CBL01866.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 221 Score = 40.4 bits (93), Expect = 0.35, Method: Compositional matrix adjust. Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 8/83 (9%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIA--------MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 + GD +A L+ ++ + K A + G L ++ GN+GL +AV KFD Sbjct: 13 QKGDATALDSLIENNKSFIGKEANDLFRSMNLAQSGLNLDTDDLKQAGNLGLWKAVPKFD 72 Query: 95 PERGFRLATYSMWWIKAAMQEYI 117 RG + TY+ I AM + + Sbjct: 73 AARGMKFLTYAAPAICNAMMDMV 95 >gi|325677915|ref|ZP_08157557.1| putative RNA polymerase sigma-H factor [Ruminococcus albus 8] gi|324110469|gb|EGC04643.1| putative RNA polymerase sigma-H factor [Ruminococcus albus 8] Length = 194 Score = 40.4 bits (93), Expect = 0.35, Method: Compositional matrix adjust. Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 3/76 (3%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYR---GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 D +A L+ ++ L IA G G I ++V EG + L++AV + P+RG A Sbjct: 24 DKAALTALLLRYVSLTEYIAAGLAPKAGREQMIKDLVQEGMMALLKAVNSYRPDRGAGFA 83 Query: 103 TYSMWWIKAAMQEYIL 118 TY+ I+ +M YI+ Sbjct: 84 TYAGVCIRHSMLSYIM 99 >gi|325846834|ref|ZP_08169712.1| putative RNA polymerase sigma-B factor [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325481206|gb|EGC84249.1| putative RNA polymerase sigma-B factor [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 256 Score = 40.4 bits (93), Expect = 0.35, Method: Compositional matrix adjust. Identities = 15/72 (20%), Positives = 38/72 (52%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 D + L+ H+ +V ++ Y G G+ ++ ++GL+ A+ ++DP +G+ ++++ Sbjct: 26 DKDLRNELIEDHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIDRYDPSKGYEFSSFA 85 Query: 106 MWWIKAAMQEYI 117 I ++ Y Sbjct: 86 TPTIMGELKRYF 97 >gi|229544420|ref|ZP_04433478.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus coagulans 36D1] gi|229324905|gb|EEN90582.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus coagulans 36D1] Length = 257 Score = 40.4 bits (93), Expect = 0.35, Method: Compositional matrix adjust. Identities = 57/250 (22%), Positives = 113/250 (45%), Gaps = 22/250 (8%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRL 101 D A + LV ++ LV + GLP ++ S G GL+ ++ KFDP R R Sbjct: 22 DPEAGNALVKRYMPLV-SFHVQRIAAGLPRNVSKEDLKSLGMFGLLDSLNKFDPSRELRF 80 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVA 161 TY+ + I+ A+ + LR + GT K +++ ++++ L+ Sbjct: 81 DTYASFRIRGAILDG-LRKEDWLSRGTREKAK-------KIESAIESLEQKYLRTVSPKE 132 Query: 162 IAKKLNVSESEVI-SMNCRLAGDESLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEK 218 +A +L + E+EV +MN + + L+ +D + + V + GQ + +EK Sbjct: 133 VALELGMEETEVCTTMNEQFFAN-VLSIEETGTDNDEPEAASRFVSGDRNAGQPESELEK 191 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 +E L ++ L+ +E+ + +E TL + +S R+ QI ++A Sbjct: 192 KETVKE---LAEAIRALSEKEQLVLSLFYQEE--CTLTEIGEVMGLSTSRISQIHSKAIY 246 Query: 279 KVQESIQKQV 288 K++ ++K++ Sbjct: 247 KLRNILEKRL 256 >gi|229131899|ref|ZP_04260765.1| RNA polymerase sigma-B factor [Bacillus cereus BDRD-ST196] gi|228651574|gb|EEL07543.1| RNA polymerase sigma-B factor [Bacillus cereus BDRD-ST196] Length = 224 Score = 40.4 bits (93), Expect = 0.37, Method: Compositional matrix adjust. Identities = 54/239 (22%), Positives = 114/239 (47%), Gaps = 28/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V + LV IA Y G ++V G +GL+ A++++D G +++ I Sbjct: 1 MVNHYKNLVYSIAYRYSKGGPMHEDIVQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNL-RRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +++Y+ ++W + + R +L ++K ++ +TD+ + +++ IA L +SE Sbjct: 61 IKKYLRDKTWGV-------HVPRRIKDLGGKIKLAIEELTDHLQRSPKIIEIANHLGLSE 113 Query: 171 SEVISM-----NCRLAGDESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ + N +++ SL+ ++ NSSD +S + + G EQ R Sbjct: 114 EEVLEIMDAKNNYQVS---SLDDVVENSSDGSSVARIESVGEVEQGYEQT--------ER 162 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L +VLN E+ + EN + ++ +S+ V +I+ +A K++++ Sbjct: 163 RLVLKDIFNVLNDTEKSVIH-YIFGEN-LNQKDTGERLGISQMHVSRIKRQAISKLKQA 219 >gi|21225590|ref|NP_631369.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|8347047|emb|CAB93752.1| probable RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] Length = 299 Score = 40.4 bits (93), Expect = 0.37, Method: Compositional matrix adjust. Identities = 60/251 (23%), Positives = 113/251 (45%), Gaps = 46/251 (18%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT+ L + +IA +R G I ++ +GL++A+ +FDPERG +Y++ I Sbjct: 56 LVTAWLPMAHRIAGRFRDRGESIEDLRQVAALGLVKAIDRFDPERGA-FESYAVPTITGE 114 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + R W+L ++ + R N R+ A + + +P V A+A +SE Sbjct: 115 VKRHFRDRMWAL-RVPRRVQELR---NKVRVARRELAQSPGSPEP-SVAALAAHTGLSED 169 Query: 172 EV------------ISMNCRL-AGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLI 216 EV +S++ L AGD+ SL + ++D + YD +I Sbjct: 170 EVGAGMEALESFSTLSLDAELSAGDDGYSLADTLGAADTS---------YD------TVI 214 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 ++E K + L RER I R ++ +T ++ +S+ V ++ +R+ Sbjct: 215 DRESAKE-------GLRRLPERERAILYMRFFED--MTQSRIADCLGISQMHVSRLISRS 265 Query: 277 FKKVQESIQKQ 287 +V++ Q Sbjct: 266 CARVRDEAMGQ 276 >gi|225376836|ref|ZP_03754057.1| hypothetical protein ROSEINA2194_02478 [Roseburia inulinivorans DSM 16841] gi|225211332|gb|EEG93686.1| hypothetical protein ROSEINA2194_02478 [Roseburia inulinivorans DSM 16841] Length = 244 Score = 40.0 bits (92), Expect = 0.38, Method: Compositional matrix adjust. Identities = 25/87 (28%), Positives = 43/87 (49%), Gaps = 1/87 (1%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + GD A ++V+ +L LV I + G E+ G IGL++A+ FD Sbjct: 9 RQAQDGDKKARDKVVSDNLGLVHAIVRRFEKRGHDREELFQIGCIGLIKAIDHFDLSLNL 68 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 +TY++ I ++ + LR +VK+ Sbjct: 69 AFSTYAVPMITGEIRRF-LRDDGMVKV 94 >gi|325509467|gb|ADZ21103.1| DNA-dependent RNA polymerase sigma subunit [Clostridium acetobutylicum EA 2018] Length = 246 Score = 40.0 bits (92), Expect = 0.38, Method: Compositional matrix adjust. Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 2/84 (2%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 G A L+ S ++ + KIA G+ L + +++ EG I +++A+ +D ++ + + Sbjct: 16 GSKDAKSFLIDSSMKYIKKIANGFCLNNKSLSLEDLMQEGIIAVIKAINSYDLDKNVKFS 75 Query: 103 TYSMWWIKAAMQEYILRSWSLVKI 126 TY I + I + +S KI Sbjct: 76 TYVYSMINFTLISEIKKKYSYFKI 99 >gi|134102136|ref|YP_001107797.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|291007613|ref|ZP_06565586.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133914759|emb|CAM04872.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 280 Score = 40.0 bits (92), Expect = 0.38, Method: Compositional matrix adjust. Identities = 20/66 (30%), Positives = 33/66 (50%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT HL + IA + G ++ +GL+ AV +FDP RG +Y++ I Sbjct: 43 RLVTEHLPVAEHIARRFSHRGESQEDLTQVATLGLINAVDRFDPGRGVDFLSYAVPTIMG 102 Query: 112 AMQEYI 117 ++ + Sbjct: 103 EVRRHF 108 >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 = 40.0 bits (92), Expect = 0.38, Method: Compositional matrix adjust. Identities = 19/57 (33%), Positives = 37/57 (64%), Gaps = 1/57 (1%) Query: 228 LTRSMSVLNPRERRIFEARR-LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 T+++S+L RE+ I E R + +TLE + ++F V+RER+RQI+ + ++ ++ Sbjct: 394 FTQALSLLKDREKEIIELRMGFHGHILTLEEVGTKFGVTRERIRQIQKKHVARIIDT 450 >gi|46240842|dbj|BAD15074.1| RNA polymerase alternative sigma factor [Saccharopolyspora erythraea] Length = 280 Score = 40.0 bits (92), Expect = 0.39, Method: Compositional matrix adjust. Identities = 20/66 (30%), Positives = 33/66 (50%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RLVT HL + IA + G ++ +GL+ AV +FDP RG +Y++ I Sbjct: 43 RLVTEHLPVAEHIARRFSHRGESQEDLTQVATLGLINAVDRFDPGRGVDFLSYAVPTIMG 102 Query: 112 AMQEYI 117 ++ + Sbjct: 103 EVRRHF 108 >gi|238784716|ref|ZP_04628720.1| RNA polymerase sigma factor for flagellar operon [Yersinia bercovieri ATCC 43970] gi|238714395|gb|EEQ06403.1| RNA polymerase sigma factor for flagellar operon [Yersinia bercovieri ATCC 43970] Length = 240 Score = 40.0 bits (92), Expect = 0.40, Method: Compositional matrix adjust. Identities = 44/216 (20%), Positives = 93/216 (43%), Gaps = 34/216 (15%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + +Q + +P +AK L++ +E + L++++ Sbjct: 92 SVRRNAREVASAMQQVEQRVGRPATEQEVAKILDIDLAEYRQI------------LLDTN 139 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRRNMLTRSMSVLNPRERRIFE 244 + + +W +H + L+E E N R + ++ L RE+ + Sbjct: 140 NSQLFSYDEWR-EEHGESVEPLLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLT 198 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 199 LYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|168704081|ref|ZP_02736358.1| RNA polymerase sigma factor for flagellar operon [Gemmata obscuriglobus UQM 2246] Length = 247 Score = 40.0 bits (92), Expect = 0.40, Method: Compositional matrix adjust. Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 15/124 (12%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ SHL LV + +G G+ + + S G +GL++A KFDP R + T++ I Sbjct: 25 LIVSHLPLVKHVIGRLIGDVPPGVDVENLESAGVLGLVEAAAKFDPARNAQFKTFAYLRI 84 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + A+ + + R+ L + RL R + IT V AIA +S Sbjct: 85 RGAIVDEMRRNSPLPQ----HVHARLALVRRACRTLPHPIT--------VEAIAAATGLS 132 Query: 170 ESEV 173 E EV Sbjct: 133 EDEV 136 >gi|229165937|ref|ZP_04293702.1| RNA polymerase sigma-B factor [Bacillus cereus AH621] gi|228617490|gb|EEK74550.1| RNA polymerase sigma-B factor [Bacillus cereus AH621] Length = 224 Score = 40.0 bits (92), Expect = 0.41, Method: Compositional matrix adjust. Identities = 53/239 (22%), Positives = 114/239 (47%), Gaps = 28/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V + LV IA Y G +++ G +GL+ A++++D G +++ I Sbjct: 1 MVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNL-RRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +++Y+ ++W + + R +L ++K ++ +TD+ + +++ IA L +SE Sbjct: 61 IKKYLRDKTWGV-------HVPRRIKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSE 113 Query: 171 SEVISM-----NCRLAGDESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ + N +++ SL+ ++ NSSD +S + + G EQ R Sbjct: 114 EEVLEIMDAKNNYQVS---SLDDVVENSSDGSSVARIESVGEVEQGYEQT--------ER 162 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L +VLN E+ + EN + ++ +S+ V +I+ +A K++++ Sbjct: 163 RLVLDDIFNVLNDTEKSVIH-YIFGEN-LNQKDTGERLGISQMHVSRIKRQAISKLKQA 219 >gi|226939710|ref|YP_002794783.1| FliA1 [Laribacter hongkongensis HLHK9] gi|226714636|gb|ACO73774.1| FliA1 [Laribacter hongkongensis HLHK9] Length = 247 Score = 40.0 bits (92), Expect = 0.41, Method: Compositional matrix adjust. Identities = 21/63 (33%), Positives = 36/63 (57%), Gaps = 3/63 (4%) Query: 54 VTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 +T HL LV K+A + + + ++V G IGL++A ++FDP +G T++ I+ Sbjct: 19 ITEHLTLVRKLASMMISRLPASVELDDLVQVGMIGLIEAAQQFDPAQGVLFETFASQRIR 78 Query: 111 AAM 113 AM Sbjct: 79 GAM 81 >gi|222151972|ref|YP_002561132.1| sigma factor B [Macrococcus caseolyticus JCSC5402] gi|222121101|dbj|BAH18436.1| sigma factor B [Macrococcus caseolyticus JCSC5402] Length = 255 Score = 40.0 bits (92), Expect = 0.41, Method: Compositional matrix adjust. Identities = 54/255 (21%), Positives = 116/255 (45%), Gaps = 28/255 (10%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K Y++ D A LV + +LV +A Y ++V G +GL+ A+ +FD Sbjct: 19 KLYQDTQDEFAQKELVLHYQKLVESLAYRYSKGQSHHEDLVQVGMVGLLGAINRFDVTFE 78 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS + K + ++R L T+ + Sbjct: 79 RKFEAFLVPTVIGEIKRYLRDKTWS---VHVPRRIKEIGPKIKRATDEL---TNELGRSP 132 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLI- 216 +++ IA+++ +E EV+ + +S NAL S D + + D DG L+ Sbjct: 133 KIIEIAQRIEATEEEVLEA---MEMGQSYNAL--SVDHS-------IEADKDGSTVTLLD 180 Query: 217 ------EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 E + +R +L + + +L+ RER I + L + ++ + + +S+ V Sbjct: 181 VMGNTEEGYDLTEKRMILEKVLPILSDREREIIQCTFL--DGLSQKETGEKIGLSQMHVS 238 Query: 271 QIEARAFKKVQESIQ 285 +++ A KK+++++Q Sbjct: 239 RLQRTAIKKLRDAVQ 253 >gi|124023131|ref|YP_001017438.1| type III sigma factor [Prochlorococcus marinus str. MIT 9303] gi|123963417|gb|ABM78173.1| putative type III sigma factor [Prochlorococcus marinus str. MIT 9303] Length = 269 Score = 40.0 bits (92), Expect = 0.41, Method: Compositional matrix adjust. Identities = 19/55 (34%), Positives = 33/55 (60%), Gaps = 3/55 (5%) Query: 54 VTSHLRL--VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 V HL L + RG G + +++ E +GL+ A++KFD RGF++++Y+M Sbjct: 43 VIEHLGLAHLAATRQATRG-GEELDDLIQEARLGLIMAMEKFDANRGFKVSSYAM 96 >gi|188533568|ref|YP_001907365.1| flagellar biosynthesis sigma factor [Erwinia tasmaniensis Et1/99] gi|188028610|emb|CAO96472.1| RNA polymerase sigma factor for flagellar operon [Erwinia tasmaniensis Et1/99] Length = 240 Score = 40.0 bits (92), Expect = 0.41, Method: Compositional matrix adjust. Identities = 46/218 (21%), Positives = 93/218 (42%), Gaps = 38/218 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDAMQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + G + + + +A +L+VS E + Sbjct: 92 SVRRNAREVAGAMHRVEQALGRSASEQEVAAQLDVSLEEYRQILL--------------- 136 Query: 194 DKNSSQWQDWLVY--DHDGQEQVLIEKEERKNR---------RNMLTRSMSVLNPRERRI 242 D N+SQ + Y +H +++ E E++N R+ + ++ L RE+ + Sbjct: 137 DTNNSQLFSFDEYREEHGDSAELVTEGHEQENPLHQLLEGDLRDRVIEAIEALPDREKMV 196 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 197 LTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAVKRL 232 >gi|455127|gb|AAA22315.1| RNA polymerase sigma-K subunit (cisB) [Bacillus subtilis] gi|1303780|dbj|BAA12436.1| SpoIVCB [Bacillus subtilis] Length = 156 Score = 40.0 bits (92), Expect = 0.41, Method: Compositional matrix adjust. Identities = 23/75 (30%), Positives = 41/75 (54%), Gaps = 3/75 (4%) Query: 39 KRYRE---HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 K+Y E GD A + L+ +LRLV I + G +++S G IGL++ ++ + Sbjct: 38 KKYLELMAKGDEHARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSA 97 Query: 96 ERGFRLATYSMWWIK 110 +G ++ATY+ I+ Sbjct: 98 GKGTKVATYAARCIE 112 >gi|95929871|ref|ZP_01312612.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM 684] gi|95134167|gb|EAT15825.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM 684] Length = 243 Score = 40.0 bits (92), Expect = 0.42, Method: Compositional matrix adjust. Identities = 54/234 (23%), Positives = 101/234 (43%), Gaps = 20/234 (8%) Query: 53 LVTSHLRLVVKIAMGYR----GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 LV SH+ LV + R G+ + ++ S +GLM A +FDP RG T++ Sbjct: 18 LVKSHMSLVHLVVDRMRAQVPGF-VTKDDMTSAAMMGLMDAATRFDPSRGIMFKTFAERR 76 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 I+ A+ + I R Q R+ + +++ L E+ VA A + + Sbjct: 77 IRGAIYDEI-RKMDWFSRSLREKQGRIGKTITQMEHRL-----GRTPEEEEVAEAMDMTL 130 Query: 169 SE-SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E ++ C L G SLN ++ D + + D L D +Q + E E Sbjct: 131 DEYRHMLGQVCHL-GCVSLNETLDDRD-DGRNFLDLLTDDSPSVQQRIEESELASE---- 184 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L + L+ +ER + +E +T + ++ +++ R+ Q+ ++A K++ Sbjct: 185 LAGQLDKLSEKERLVISLYYYEE--LTQKEIAEVLDLTEGRISQLHSQALVKLK 236 >gi|327441148|dbj|BAK17513.1| DNA-directed RNA polymerase specialized sigma subunit [Solibacillus silvestris StLB046] Length = 256 Score = 40.0 bits (92), Expect = 0.42, Method: Compositional matrix adjust. Identities = 26/92 (28%), Positives = 48/92 (52%), Gaps = 1/92 (1%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P+L+ E L R ++ G+ +LV +LRLV+ I Y G ++ G IG Sbjct: 15 LPVLKPDEMKDLFIRLQQ-GEWIVREQLVFCNLRLVLSIVGRYAYRGEQADDLFQVGCIG 73 Query: 86 LMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L++A+ FD + R +TY++ I ++ ++ Sbjct: 74 LLKAIDNFDLKHNVRFSTYAVPMIMGEIRRHL 105 >gi|58696753|ref|ZP_00372293.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila simulans] gi|58537061|gb|EAL60191.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila simulans] Length = 183 Score = 40.0 bits (92), Expect = 0.42, Method: Compositional matrix adjust. Identities = 24/62 (38%), Positives = 37/62 (59%), Gaps = 7/62 (11%) Query: 225 RNMLTRSMSVLNPRERRIFEAR-----RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R + T ++ L P+E RI R +E+ TLE + F V+RER+RQIEA+A +K Sbjct: 112 RGITTNVLATLTPKEERILRMRFGLGKDGKEH--TLEEVGKIFNVTRERIRQIEAKALRK 169 Query: 280 VQ 281 ++ Sbjct: 170 LK 171 >gi|257451779|ref|ZP_05617078.1| RpoS [Fusobacterium sp. 3_1_5R] gi|317058336|ref|ZP_07922821.1| predicted protein [Fusobacterium sp. 3_1_5R] gi|313684012|gb|EFS20847.1| predicted protein [Fusobacterium sp. 3_1_5R] Length = 201 Score = 40.0 bits (92), Expect = 0.43, Method: Compositional matrix adjust. Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 4/72 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 G++ A + L+ ++ L+ KI R YG + EG + A+ KFD + +L++Y Sbjct: 16 GNIQARNELIEKNINLIHKIN---RRYGSS-EDGFQEGVLAFCHAIDKFDETKKVKLSSY 71 Query: 105 SMWWIKAAMQEY 116 + WI+ ++ Y Sbjct: 72 AFHWIRQRIKRY 83 >gi|158338094|ref|YP_001519270.1| RNA polymerase sigma factor SigF [Acaryochloris marina MBIC11017] gi|158308335|gb|ABW29952.1| RNA polymerase sigma factor, group3 [Acaryochloris marina MBIC11017] Length = 266 Score = 40.0 bits (92), Expect = 0.43, Method: Compositional matrix adjust. Identities = 21/87 (24%), Positives = 48/87 (55%), Gaps = 1/87 (1%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 YR+ + +RLV ++ LV K+A P ++ G +GL+ A+++FDP +G+ Sbjct: 18 YRQKPSVQLRNRLVRLNMGLVRKVAHRLTHQCAEPYEDLEQCGFLGLITAIERFDPSQGY 77 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 +++++ +I+ + ++ + V+I Sbjct: 78 AFSSFAVPYIRGEILHFLRDRANTVRI 104 >gi|73539441|ref|YP_299808.1| sigma-70 region 4 [Ralstonia eutropha JMP134] gi|72122778|gb|AAZ64964.1| Sigma-70 region 4 [Ralstonia eutropha JMP134] Length = 238 Score = 40.0 bits (92), Expect = 0.43, Method: Compositional matrix adjust. Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 6/77 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y G L A +V +H +LV +IA+ LP I +++ G IGL+ A K+++ Sbjct: 2 YTIQGKLEQAD-VVKTHAQLVRRIALQL-AAKLPASVQIDDLIQAGMIGLLDAAKRYEDT 59 Query: 97 RGFRLATYSMWWIKAAM 113 G R TY+ I+ AM Sbjct: 60 HGARFETYASQRIRGAM 76 >gi|89094438|ref|ZP_01167378.1| flagellar biosynthesis sigma factor FliA [Oceanospirillum sp. MED92] gi|89081330|gb|EAR60562.1| flagellar biosynthesis sigma factor FliA [Oceanospirillum sp. MED92] Length = 236 Score = 40.0 bits (92), Expect = 0.43, Method: Compositional matrix adjust. Identities = 46/210 (21%), Positives = 90/210 (42%), Gaps = 31/210 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G IGL++A K+D +G TY+ I+ ++ + + R W+ + Sbjct: 38 LDDLIQAGMIGLLEAASKYDASKGASFETYAGIRIRGSIIDEVRRGDWT---------PR 88 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N RR+ +Q I + +AK+L +S DE N L +S Sbjct: 89 SVHRNSRRVTEAIQQIEARTGRDASDSEVAKELGISV------------DEYHNLLKDSL 136 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKE-------ERKNRRNMLTRSMSVLNPRERRIFEAR 246 D +++ L +H+G + + ER+ L+ +++ L RE+ + Sbjct: 137 DSRLFSFEEMLNPEHEGPGESFANDDPGPNKHIEREAFLKALSEAINNLPEREKLVLALY 196 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARA 276 +E + L+ + VS RV QI ++A Sbjct: 197 YDEE--LNLKEIGQVLGVSESRVSQIHSQA 224 >gi|239932973|ref|ZP_04689926.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291441326|ref|ZP_06580716.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291344221|gb|EFE71177.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 295 Score = 40.0 bits (92), Expect = 0.43, Method: Compositional matrix adjust. Identities = 42/195 (21%), Positives = 91/195 (46%), Gaps = 18/195 (9%) Query: 61 VVKIAMG-YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 +V+ A G +RG G + ++V G IGL++A+ +F+ R ++++ +I ++ + Sbjct: 75 LVRFAAGRFRGRGDDMDDIVQTGMIGLIKAIDRFELSREVEFTSFALPYIVGEIKRFFRD 134 Query: 120 SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR 179 + V + + R+ L + + L + D + V +A +N++E +VI Sbjct: 135 TTWAVHVPRRLQELRV--ELAKAREELASRLD---REPTVAELATLMNITEDQVIEGQIA 189 Query: 180 LAG--DESLNALI--NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 G SL+A + + + + D++ + +G L+E + L M+ L Sbjct: 190 ANGYNSSSLDAALTGDGPENGEAVLADFIGVEEEGLR--LVED------FHALAPLMAEL 241 Query: 236 NPRERRIFEARRLQE 250 + R+R+I R ++E Sbjct: 242 SERDRQIIHMRFVEE 256 >gi|302527791|ref|ZP_07280133.1| RNA polymerase sigma-F factor [Streptomyces sp. AA4] gi|302436686|gb|EFL08502.1| RNA polymerase sigma-F factor [Streptomyces sp. AA4] Length = 243 Score = 40.0 bits (92), Expect = 0.44, Method: Compositional matrix adjust. Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 VT L + IA + G G P ++V IGL+ A+ +F P+RG ++++ I + Sbjct: 23 VTEFLPVAEHIATRFTGRGEPREDLVQVARIGLINAIDRFTPDRGPDFLSFAVPTIMGEI 82 Query: 114 QEYILRS-WSL 123 + Y + WS+ Sbjct: 83 RRYFRDTGWSV 93 >gi|332140599|ref|YP_004426337.1| flagellar biosynthesis sigma factor [Alteromonas macleodii str. 'Deep ecotype'] gi|327550621|gb|AEA97339.1| flagellar biosynthesis sigma factor [Alteromonas macleodii str. 'Deep ecotype'] Length = 243 Score = 40.0 bits (92), Expect = 0.44, Method: Compositional matrix adjust. Identities = 59/253 (23%), Positives = 105/253 (41%), Gaps = 34/253 (13%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 A YR+ D S +LV H LV +IA + + + +++ G IGL++A + FD Sbjct: 5 AAAYRQQTDKS---QLVERHASLVKRIAHHLIARLPASVLVDDLIQSGMIGLLEAARNFD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G T++ I+ AM + I + W+ + + N R + + + Sbjct: 62 GSKGASFETFAGIRIRGAMLDEIRKGDWT---------PRSVHRNGRAITEAISQVESET 112 Query: 154 LKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + IA KLNVS + M +L G E L + S+ D + D Sbjct: 113 GRDARDSDIADKLNVSLQDYHQMLNEVNAGKLVGIEDLGVSEDVITTEQSRGSDAPLED- 171 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 L++ +K L +++ L RE + +E + L + +VS R Sbjct: 172 ------LMQGAFQK----ALAHAITTLPEREAIVLSLYYDEE--LNLREIGEVLDVSESR 219 Query: 269 VRQIEARAFKKVQ 281 V QI ++A K++ Sbjct: 220 VSQIHSQAMLKLK 232 >gi|146312155|ref|YP_001177229.1| flagellar biosynthesis sigma factor [Enterobacter sp. 638] gi|145319031|gb|ABP61178.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Enterobacter sp. 638] Length = 239 Score = 40.0 bits (92), Expect = 0.44, Method: Compositional matrix adjust. Identities = 48/221 (21%), Positives = 99/221 (44%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L ++ + M L+++++ Sbjct: 100 VAHAIGQLE---QELGRNATETE----VAERLGIAVQDYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D + E L + E N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSVELVTDENQHENPLHQLLE-GNLRQRVMDAIEALPEREQLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|126435251|ref|YP_001070942.1| FliA/WhiG family RNA polymerase sigma factor [Mycobacterium sp. JLS] gi|126235051|gb|ABN98451.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. JLS] Length = 284 Score = 40.0 bits (92), Expect = 0.44, Method: Compositional matrix adjust. Identities = 48/213 (22%), Positives = 95/213 (44%), Gaps = 38/213 (17%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +R+R H ++T+ + + IA + G G P +V+ IGL++ V ++DP++G Sbjct: 43 QRWRRH--------IITACVPIADHIAYRFVGRGEPSEDVIQVARIGLIKTVDRYDPDKG 94 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 LA +++ I+ ++ + + V++ + +L R++ + ++ + Sbjct: 95 HFLA-FAVPTIRGEIRRHFRDNTWTVRVPRKVQETQL-----RMRDAVNTLSQRLNRTPT 148 Query: 159 VVAIAKKLNVSESEVISMNCRLAG--------DESLNALINSSDK-NSSQWQDWLVYDHD 209 V +A++L+V E+ +C+ A D L N D S Q D Y Sbjct: 149 GVELAEELDVGSEEL--GDCQAATTAYRPVSLDAPLLTAQNDGDTVGSMQGGDDPGY--- 203 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 G+ + LI +L ++S L+PR R I Sbjct: 204 GRVEDLI----------LLQEAISDLDPRRRAI 226 >gi|228970817|ref|ZP_04131457.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228977391|ref|ZP_04137786.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis Bt407] gi|228782368|gb|EEM30551.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis Bt407] gi|228788942|gb|EEM36881.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis serovar thuringiensis str. T01001] Length = 234 Score = 40.0 bits (92), Expect = 0.45, Method: Compositional matrix adjust. Identities = 41/166 (24%), Positives = 77/166 (46%), Gaps = 15/166 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL I ++V G IGL++A + F+ E G++ +TY++ I + ++I+ S +K+ Sbjct: 34 GLEIEDLVQYGMIGLIKARRDFNHELGYQFSTYAIPKIHGEVGKFIMNSHK-IKV----- 87 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 R + LR + L E I K+L V+ EV +SL ++ Sbjct: 88 -PRALYQLRG------KMMRQGLMEEDGETICKQLEVALPEVKEALQYQPNTKSLQDVMY 140 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 +S S ++ L+ D QV+ E E+ +N + + ++ +P Sbjct: 141 TSAGGGS--EEILLEDMLEDTQVIEETEQVENHMVLQSFYQTLEHP 184 >gi|332707787|ref|ZP_08427814.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Lyngbya majuscula 3L] gi|332353490|gb|EGJ33003.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Lyngbya majuscula 3L] Length = 260 Score = 40.0 bits (92), Expect = 0.45, Method: Compositional matrix adjust. Identities = 17/53 (32%), Positives = 33/53 (62%) Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 P ++ G IGL++A+++FDP +G ++ ++ +I+ M ++ SLVKI Sbjct: 51 PYEDLEQMGYIGLIRAIERFDPHQGCAFSSLAVPYIRGEMLHFLRDRGSLVKI 103 >gi|228937937|ref|ZP_04100564.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228821728|gb|EEM67729.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis serovar berliner ATCC 10792] Length = 210 Score = 40.0 bits (92), Expect = 0.45, Method: Compositional matrix adjust. Identities = 41/166 (24%), Positives = 77/166 (46%), Gaps = 15/166 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL I ++V G IGL++A + F+ E G++ +TY++ I + ++I+ S +K+ Sbjct: 10 GLEIEDLVQYGMIGLIKARRDFNHELGYQFSTYAIPKIHGEVGKFIMNSHK-IKV----- 63 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 R + LR + L E I K+L V+ EV +SL ++ Sbjct: 64 -PRALYQLRG------KMMRQGLMEEDGETICKQLEVALPEVKEALQYQPNTKSLQDVMY 116 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 +S S ++ L+ D QV+ E E+ +N + + ++ +P Sbjct: 117 TSAGGGS--EEILLEDMLEDTQVIEETEQVENHMVLQSFYQTLEHP 160 >gi|229826254|ref|ZP_04452323.1| hypothetical protein GCWU000182_01626 [Abiotrophia defectiva ATCC 49176] gi|229789124|gb|EEP25238.1| hypothetical protein GCWU000182_01626 [Abiotrophia defectiva ATCC 49176] Length = 280 Score = 40.0 bits (92), Expect = 0.45, Method: Compositional matrix adjust. Identities = 36/140 (25%), Positives = 70/140 (50%), Gaps = 7/140 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF-DPERGFRLAT 103 GD A + L VV+IA G+ E++SEGN+GL+ +K+ + ER + Sbjct: 141 GDEKAEASYIERKLHKVVEIARGFELTEDYFKELISEGNVGLLIGLKELKNLERDDKPIE 200 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 + I++AMQ++I S +++ +TAN + + + + + + N + +A Sbjct: 201 FIESRIESAMQDFIEES---LEMESTANA--MVAKVNFVSDAAKKMKEMNGSSPTLKELA 255 Query: 164 KKLNVSESEVISMNCRLAGD 183 N++E+E+ + L+GD Sbjct: 256 SYTNLTEAELTDI-IELSGD 274 >gi|228902053|ref|ZP_04066217.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis IBL 4222] gi|228857479|gb|EEN01975.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Bacillus thuringiensis IBL 4222] Length = 237 Score = 40.0 bits (92), Expect = 0.45, Method: Compositional matrix adjust. Identities = 41/166 (24%), Positives = 77/166 (46%), Gaps = 15/166 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL I ++V G IGL++A + F+ E G++ +TY++ I + ++I+ S +K+ Sbjct: 37 GLEIEDLVQYGMIGLIKARRDFNHELGYQFSTYAIPKIHGEVGKFIMNSHK-IKV----- 90 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 R + LR + L E I K+L V+ EV +SL ++ Sbjct: 91 -PRALYQLRG------KMMRQGLMEEDGETICKQLEVALPEVKEALQYQPNTKSLQDVMY 143 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 +S S ++ L+ D QV+ E E+ +N + + ++ +P Sbjct: 144 TSAGGGS--EEILLEDMLEDTQVIEETEQVENHMVLQSFYQTLEHP 187 >gi|255606356|ref|XP_002538551.1| RNA polymerase sigma factor for flagellar operon, putative [Ricinus communis] gi|223511619|gb|EEF23833.1| RNA polymerase sigma factor for flagellar operon, putative [Ricinus communis] Length = 123 Score = 40.0 bits (92), Expect = 0.46, Method: Compositional matrix adjust. Identities = 30/119 (25%), Positives = 59/119 (49%), Gaps = 11/119 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+T H+ LV ++A + P + ++V G +GL+ A+ +++ G + TY++ I Sbjct: 13 LLTEHMPLVKRLAHQMKAKLPPSVEVDDLVQAGMMGLLDAINRYEENHGAQFETYAVLRI 72 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + AM + LRS + T A N+R+++ + A+ +P +AK L + Sbjct: 73 RGAMLDE-LRSSDWMPRSTRA-------NMRKVESAMAALQQQLGRPPSESEVAKSLKL 123 >gi|56752504|ref|YP_173205.1| RNA polymerase sigma factor SigF [Synechococcus elongatus PCC 6301] gi|81300319|ref|YP_400527.1| RNA polymerase sigma factor SigF [Synechococcus elongatus PCC 7942] gi|56687463|dbj|BAD80685.1| group3 RNA polymerase sigma factor SigF1 [Synechococcus elongatus PCC 6301] gi|81169200|gb|ABB57540.1| group3 RNA polymerase sigma factor SigF [Synechococcus elongatus PCC 7942] Length = 259 Score = 40.0 bits (92), Expect = 0.46, Method: Compositional matrix adjust. Identities = 27/90 (30%), Positives = 55/90 (61%), Gaps = 5/90 (5%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG-LPIS--EVVSEGNIGLM 87 +++ ++L ++Y++ D +RLV +L LV + A YR P S E+V G++GL+ Sbjct: 10 RRQTFLLLRQYQQTRDHRIRNRLVELNLGLVRQEA--YRWVQRCPESFEELVQIGSLGLI 67 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 A+ +F+ ERG +++++ +I+ +Q Y+ Sbjct: 68 AAIDRFELERGKAFSSFAVPYIRGEIQHYL 97 >gi|119714600|ref|YP_921565.1| FliA/WhiG family RNA polymerase sigma factor [Nocardioides sp. JS614] gi|119535261|gb|ABL79878.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nocardioides sp. JS614] Length = 300 Score = 40.0 bits (92), Expect = 0.46, Method: Compositional matrix adjust. Identities = 51/211 (24%), Positives = 85/211 (40%), Gaps = 25/211 (11%) Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 + FDPERG A Y+M I+ AM + LRS + + RL L Sbjct: 72 RSFDPERGVPFARYAMPRIRGAMVDE-LRSVDWASRSVRRRAREIEEARARLAATLGEFP 130 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQ-WQDWLVYDHD 209 D+ A+A L ++ EV ++ E+ + D + Q + L Sbjct: 131 DDE-------AVAAALGMTLDEVNRVDS-----EAARGTVLPLDAGAQQGLAEILPVREA 178 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 G E+ + E R L ++ L R R + L+E P + L++E V+ RV Sbjct: 179 GPEERAVHLE----RVRYLADAVEELPERMRLVVRGYFLEERP--MAELAAELGVTESRV 232 Query: 270 RQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 Q+ A A +++++ + + P L KP Sbjct: 233 SQVRAEALALLRDALGEAFD-----PHLPKP 258 >gi|331663420|ref|ZP_08364330.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA143] gi|331059219|gb|EGI31196.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA143] Length = 239 Score = 40.0 bits (92), Expect = 0.47, Method: Compositional matrix adjust. Identities = 48/221 (21%), Positives = 101/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + S EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGSVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|317153074|ref|YP_004121122.1| FliA/WhiG family RNA polymerase sigma factor [Desulfovibrio aespoeensis Aspo-2] gi|316943325|gb|ADU62376.1| RNA polymerase sigma factor, FliA/WhiG family [Desulfovibrio aespoeensis Aspo-2] Length = 261 Score = 39.7 bits (91), Expect = 0.49, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 ++E++S G++GL+ A+ K++ +RG + TYS IK AM + + R Sbjct: 64 LNELISAGSLGLLDALGKYNAQRGIKFDTYSENRIKGAMLDELRR 108 >gi|297196321|ref|ZP_06913719.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197722899|gb|EDY66807.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 307 Score = 39.7 bits (91), Expect = 0.49, Method: Compositional matrix adjust. Identities = 20/72 (27%), Positives = 40/72 (55%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A+ + P+ +++ G IGL++A+ +FD ER A++++ + Sbjct: 79 LVELNLSLVKFAALRFANRAEPMEDIIQVGTIGLIKAINRFDLEREVEFASFALPTVIGE 138 Query: 113 MQEYIL-RSWSL 123 ++ + SWS+ Sbjct: 139 IKRFFRDSSWSV 150 >gi|153814969|ref|ZP_01967637.1| hypothetical protein RUMTOR_01184 [Ruminococcus torques ATCC 27756] gi|145847537|gb|EDK24455.1| hypothetical protein RUMTOR_01184 [Ruminococcus torques ATCC 27756] Length = 243 Score = 39.7 bits (91), Expect = 0.49, Method: Compositional matrix adjust. Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 1/82 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A +LV ++ LV + + G ++ G+IGL++A+ KFD + +TY Sbjct: 14 GDKAAREQLVKENVGLVHCVVKRFLERGAEREDLFQIGSIGLLKAIDKFDLTYNVKFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKI 126 ++ I ++ + LR ++K+ Sbjct: 74 AVPLISGEIKRF-LRDDGMIKV 94 >gi|300782223|ref|YP_003762514.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299791737|gb|ADJ42112.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 259 Score = 39.7 bits (91), Expect = 0.49, Method: Compositional matrix adjust. Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +HL L +A +R + ++V +GL+ AV +FDP +G +++ I Sbjct: 38 LVRTHLELARNLARKFRNRDEAMEDLVQIATVGLIHAVDRFDPAQGTDFLAFAVPTISGE 97 Query: 113 MQEYIL-RSWSL 123 ++ + SWS+ Sbjct: 98 LRHHFRDNSWSV 109 >gi|260752875|ref|YP_003225768.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|258552238|gb|ACV75184.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 195 Score = 39.7 bits (91), Expect = 0.49, Method: Compositional matrix adjust. Identities = 51/210 (24%), Positives = 91/210 (43%), Gaps = 20/210 (9%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G + L++A F+ RGF ATY+ I+ AM +Y +R + + A QK Sbjct: 1 MEDLIQIGMVALIEAANAFE-NRGFAFATYASMRIRGAMIDY-MRQHAATARSSIARQKT 58 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L L L +PE IA+KLN+S SE R D ++N S D Sbjct: 59 LNKAREELSATL------GRRPED-AEIAEKLNMSPSEY-----REWADGAINIRQESLD 106 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 S D+ Q + ER+ ++ L + L RE + + ++E + Sbjct: 107 DVYSDHSSIFTDDNADQASEM----EREALQSALAEQIKTLPEREALVLQLYYVEE--LN 160 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ + ++ R+ QI+ A +++ + Sbjct: 161 LKEIGEVLDLGTARISQIKKSAVDHLRQKM 190 >gi|303239104|ref|ZP_07325634.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302593442|gb|EFL63160.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 256 Score = 39.7 bits (91), Expect = 0.50, Method: Compositional matrix adjust. Identities = 45/181 (24%), Positives = 77/181 (42%), Gaps = 40/181 (22%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 K++E +L + RE+ RLV+ +V++ Y + G IGL+ A Sbjct: 8 KKDESLLEEFIREN------QRLVS----MVIRKQFSYVYNTAEYEDYFQSGCIGLVNAA 57 Query: 91 KKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAIT 150 K+F PE G +TY++ I + Y R + I ++ N K ++ + L+ Sbjct: 58 KRFKPEYGTAFSTYAVSLIAGEIMRY-RRDYCASGIHSSRNIKDKYYRYQALRNR----- 111 Query: 151 DNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES--LNALINSSDKNSSQWQDWLVYDH 208 V+E+E CR G +S LN +IN+ + S D ++YD+ Sbjct: 112 ----------------GVAEAEA----CRELGVDSAELNKVINAMEPGYS--LDAVIYDN 149 Query: 209 D 209 D Sbjct: 150 D 150 >gi|167462462|ref|ZP_02327551.1| DNA-directed RNA polymerase sigma-37 factor (sigma-B) [Paenibacillus larvae subsp. larvae BRL-230010] gi|322381881|ref|ZP_08055835.1| RNA polymerase sigma factor SigB-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321154269|gb|EFX46591.1| RNA polymerase sigma factor SigB-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 260 Score = 39.7 bits (91), Expect = 0.51, Method: Compositional matrix adjust. Identities = 55/210 (26%), Positives = 92/210 (43%), Gaps = 32/210 (15%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLR 140 G + L++ K+FDP G + Y M I M+ Y+ +SW I K F ++ Sbjct: 62 GQMSLLKLFKQFDPSHGVQFEAYMMKSIIGHMKNYLRDKSWY---IQVPRRIKEKGFQIQ 118 Query: 141 RLKGHLQAITDNNLKPEQ---VVAIAKKLNVSESEVISMNCRLAGDE-----SLNALINS 192 QAI +K E+ V IA +L +S E I + LAG E SL+ + S Sbjct: 119 ------QAIDSLTMKLERSPNVDEIANELGLSTEETIEI---LAGRECYHYVSLDMPL-S 168 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 +++N S D L D V + R L +M L P E++ + + Sbjct: 169 TEENGSTIGDVLGIQEDEYLHV--------DNRLDLQEAMEHLKPEEKKALILAYI--DG 218 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQE 282 + ++ E ++S+ V +++ RA K++E Sbjct: 219 YSQRTIAQELDISQMSVSRMQRRALSKLRE 248 >gi|331697274|ref|YP_004333513.1| SigB/F/G subfamily RNA polymerase sigma-28 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951963|gb|AEA25660.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Pseudonocardia dioxanivorans CB1190] Length = 296 Score = 39.7 bits (91), Expect = 0.51, Method: Compositional matrix adjust. Identities = 53/234 (22%), Positives = 103/234 (44%), Gaps = 19/234 (8%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + HL L IA + G P+ ++ +GL+ AV +FDP RG +++ I + Sbjct: 32 IIEHLPLARHIAKRFSQRGEPLQDLEQVAVLGLINAVDRFDPARGPEFLAFAIPTITGEV 91 Query: 114 QEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + R+W+ I K L ++ L P + IA +L+V+ S+ Sbjct: 92 LRWFRDRAWT---IRVPRRLKELDMSISTAADRLTQELGRAPTPSE---IAARLDVALSD 145 Query: 173 VI-SMNCRLA-GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 V+ S+ R A SL+ +++ ++ S L G L+E R +L+ Sbjct: 146 VVESIQAREAYRCVSLDVPLSTESEDESVHNGILARTDPG--VALVED------REVLSP 197 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L RE+RI R ++ +T + E +S+ V ++ A +++++++ Sbjct: 198 LVDALTEREQRIVLLRFFED--MTQNEIGQEIGISQMHVSRVLTAALERLRQAL 249 >gi|42528183|ref|NP_973281.1| RNA polymerase sigma factor WhiG [Treponema denticola ATCC 35405] gi|41819453|gb|AAS13200.1| RNA polymerase sigma-27 factor [Treponema denticola ATCC 35405] gi|325474612|gb|EGC77798.1| RNA polymerase sigma-27 factor [Treponema denticola F0402] Length = 262 Score = 39.7 bits (91), Expect = 0.52, Method: Compositional matrix adjust. Identities = 54/246 (21%), Positives = 106/246 (43%), Gaps = 19/246 (7%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKK 92 L +Y++ D + + LV +A G G G+P ++V G GL+ A++K Sbjct: 14 LWDKYKKTSDPKIREYFILKYAPLVKYVA-GKVGIGMPTNVEFDDLVGYGVFGLLDAIEK 72 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 +D ++ + TY++ I+ A+ + LRS V + + + L+ L N Sbjct: 73 YDLDKNVKFNTYAVNRIRGAIFDE-LRSIDWVPRSVRQKSREIEETIADLEARLGRSASN 131 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ--DWLVYDHDG 210 + +A A L++ E + + SL L S+D +S ++ D + Sbjct: 132 -----EEIAYAMGLDIEEYNSLLLKISATSVISLTDLRFSND-DSEEFSVGDIIEAPSSL 185 Query: 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 V++E+E+ K ++ ++ L RE+++ ++ +TL + V+ RV Sbjct: 186 NPDVIVEREDIK---RVIVEAIKELPDREKKVLIMYYYED--MTLREIGEVLHVTESRVS 240 Query: 271 QIEARA 276 QI A Sbjct: 241 QIHTSA 246 >gi|320012666|gb|ADW07516.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 294 Score = 39.7 bits (91), Expect = 0.52, Method: Compositional matrix adjust. Identities = 49/214 (22%), Positives = 97/214 (45%), Gaps = 18/214 (8%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + ++ G IGL++A+ +F+ R AT+++ +I ++ + + V + + R Sbjct: 93 MEDITQVGTIGLIKAIDRFELSREVEFATFAVPYIVGEIKRFFRDTTWAVHVPRRLQELR 152 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEV----ISMNCRLAGDESLNALI 190 + L + K L D + V +A L+ +E EV I+ N AG SL+ Sbjct: 153 V--ELAKAKDELAVRLDRD---PTVKELAAHLDRTEDEVIEGIIASNGYTAG--SLDMPT 205 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 ++ + + + + D G+ +E E + L + L+ RERR+ E R QE Sbjct: 206 DTGETTGTASRTF--ADILGEPDSAMETVE---NLHALAPLLEQLDDRERRLIEMRFGQE 260 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +T + +E +VS+ V ++ R K++ + Sbjct: 261 --MTQSQIGAELDVSQMHVSRLLTRTLGKLRAGM 292 >gi|224826337|ref|ZP_03699439.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Lutiella nitroferrum 2002] gi|224601438|gb|EEG07619.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Lutiella nitroferrum 2002] Length = 248 Score = 39.7 bits (91), Expect = 0.53, Method: Compositional matrix adjust. Identities = 53/247 (21%), Positives = 104/247 (42%), Gaps = 21/247 (8%) Query: 44 HGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 HGD+ V H LV KIA + + + ++ G IGL++A ++FDP +G + Sbjct: 17 HGDID-----VELHAPLVKKIAKLLIAKLPASVELDDLAQVGIIGLIEAARQFDPTQGVQ 71 Query: 101 LATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 T++ I+ AM + + R W Q R + ++++ + + +P Q Sbjct: 72 FETFASQRIRGAMLDELRREDW-------LPRQARR--HSKQIEDAIHQLEQREGRPPQE 122 Query: 160 VAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKE 219 IA L + +E +M G SL + D++ + + D Sbjct: 123 SEIADFLGLPLAEYQTMLGECKG-VSLQHFSDFDDEDGVGAEAAVANVADDNAVDPFASL 181 Query: 220 ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 + R L ++ L R++ + QE + L+ + + VS RV Q+ ++A + Sbjct: 182 ADGDFRGALVDAIKALPERDQLVMALYYEQE--LNLKEIGAVLGVSESRVSQLHSQAIAR 239 Query: 280 VQESIQK 286 V+ +++ Sbjct: 240 VRSKLRE 246 >gi|167766746|ref|ZP_02438799.1| hypothetical protein CLOSS21_01252 [Clostridium sp. SS2/1] gi|167711500|gb|EDS22079.1| hypothetical protein CLOSS21_01252 [Clostridium sp. SS2/1] Length = 232 Score = 39.7 bits (91), Expect = 0.53, Method: Compositional matrix adjust. Identities = 21/87 (24%), Positives = 47/87 (54%), Gaps = 1/87 (1%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGF 99 R + G+ +A +++ +++ L+ + + G ++ G+IGLM+AV KFD Sbjct: 9 RLTKEGNEAAREQIILNNVGLIWSVVRRFTNRGYESEDLFQIGSIGLMKAVDKFDLSYDV 68 Query: 100 RLATYSMWWIKAAMQEYILRSWSLVKI 126 + +TY++ I ++ + LR ++K+ Sbjct: 69 KFSTYAVPMITGEIRRF-LRDDGMIKV 94 >gi|160915290|ref|ZP_02077503.1| hypothetical protein EUBDOL_01299 [Eubacterium dolichum DSM 3991] gi|158433089|gb|EDP11378.1| hypothetical protein EUBDOL_01299 [Eubacterium dolichum DSM 3991] Length = 240 Score = 39.7 bits (91), Expect = 0.53, Method: Compositional matrix adjust. Identities = 54/246 (21%), Positives = 108/246 (43%), Gaps = 28/246 (11%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GD A + V ++ LV I + + ++ G IGLM+A+ FD + +T Sbjct: 15 YGDEEALEQFVEANQPLVYAIVKRFHNRRISQEDLFQIGCIGLMKAIHNFDAAYEVKFST 74 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y++ I ++ + S I + + K + + ++K L T K IA Sbjct: 75 YAVPIIMGEIKRFFRDDGS---IRISRSLKEGYLQMLKIKEQL---TQTLGKEPTYAQIA 128 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 + +N+ EVI LA + N + S D+ +Y++DG VL ++ E Sbjct: 129 QAMNIEVGEVI-----LAFEA--NQFMYSLDEP--------IYENDGSAIVLEDRVEDPK 173 Query: 224 RRNM-----LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 + ++ L + + L RE+ I R + + E+++ +S+ +V ++E + Sbjct: 174 QTDIVMKLSLRKEFARLEQREQLILHYRY--DLNMKQEDIAKRLHISQVQVSRLEKKILW 231 Query: 279 KVQESI 284 K++E + Sbjct: 232 KLKERL 237 >gi|326938416|gb|AEA14312.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar chinensis CT-43] Length = 243 Score = 39.7 bits (91), Expect = 0.53, Method: Compositional matrix adjust. Identities = 41/166 (24%), Positives = 77/166 (46%), Gaps = 15/166 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL I ++V G IGL++A + F+ E G++ +TY++ I + ++I+ S +K+ Sbjct: 43 GLEIEDLVQYGMIGLIKARRDFNHELGYQFSTYAIPKIHGEVGKFIMNSHK-IKV----- 96 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 R + LR + L E I K+L V+ EV +SL ++ Sbjct: 97 -PRALYQLRG------KMMRQGLMEEDGETICKQLEVALPEVKEALQYQPNTKSLQDVMY 149 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 +S S ++ L+ D QV+ E E+ +N + + ++ +P Sbjct: 150 TSAGGGS--EEILLEDMLEDTQVIEETEQVENHMVLQSFYQTLEHP 193 >gi|317051537|ref|YP_004112653.1| FliA/WhiG family RNA polymerase sigma factor [Desulfurispirillum indicum S5] gi|316946621|gb|ADU66097.1| RNA polymerase sigma factor, FliA/WhiG family [Desulfurispirillum indicum S5] Length = 250 Score = 39.7 bits (91), Expect = 0.53, Method: Compositional matrix adjust. Identities = 51/222 (22%), Positives = 101/222 (45%), Gaps = 24/222 (10%) Query: 72 GLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 GLP + +++S G +GL+ A+ KFD RG TY+ I+ + + LR + G Sbjct: 41 GLPSNIELDDLISIGALGLIDAIDKFDMNRGVLFKTYAESRIRGKILDE-LRKLDWLPRG 99 Query: 128 TTANQKRLFFNLRRLK-GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-- 184 K L +L + ++D L A +L + E+EV + G Sbjct: 100 LRQKNKALDRAYSKLGINEGREVSDGEL--------AAELGIDEAEVQQYISQAGGYTML 151 Query: 185 SLNALINSSDKNSSQWQDWLVYDHD--GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SL+ + D + S L+ D + G E+ L E + L + + +L+ +E+++ Sbjct: 152 SLDEQMYDRDGSESGTLSDLIPDRENAGPEEHL----EITQNQEFLKKHIRLLSEKEQQM 207 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +E +T++ + + ++ RV QI ++A K+++++ Sbjct: 208 LALYYYEE--LTMKEIGTVLGITESRVSQIHSQALFKLKKAM 247 >gi|302872420|ref|YP_003841056.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor obsidiansis OB47] gi|302575279|gb|ADL43070.1| RNA polymerase sigma factor, sigma-70 family [Caldicellulosiruptor obsidiansis OB47] Length = 310 Score = 39.7 bits (91), Expect = 0.54, Method: Compositional matrix adjust. Identities = 21/74 (28%), Positives = 41/74 (55%), Gaps = 6/74 (8%) Query: 47 LSAAHR--LVTSHLRLVVKIAMGY----RGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 L HR L+ ++L+LV +A + +GY + +++SEG GL+ A + PE G Sbjct: 9 LDNLHRQLLIANNLKLVYHVANKFMPCPKGYMYEVDDLISEGYFGLVVAANNYKPELGTP 68 Query: 101 LATYSMWWIKAAMQ 114 ++Y+ I++ ++ Sbjct: 69 FSSYACKVIESKIK 82 >gi|228919826|ref|ZP_04083184.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228839842|gb|EEM85125.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 224 Score = 39.7 bits (91), Expect = 0.54, Method: Compositional matrix adjust. Identities = 53/239 (22%), Positives = 113/239 (47%), Gaps = 28/239 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V + LV IA Y G +++ G +GL+ A++++D G +++ I Sbjct: 1 MVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNL-RRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +++Y+ ++W + + R +L ++K ++ +TD + +++ IA L +SE Sbjct: 61 IKKYLRDKTWGI-------HVPRRIKDLGGKIKLAIEELTDRLQRSPKIIEIADHLGLSE 113 Query: 171 SEVISM-----NCRLAGDESLNALI-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 EV+ + N R++ SL+ ++ NSSD +S + + G E+ R Sbjct: 114 EEVLEIMDAKNNYRVS---SLDDVVENSSDGSSVARIESVGEVEQGYEET--------ER 162 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 R +L +VLN E+ + EN + ++ +S+ V +I+ +A K++++ Sbjct: 163 RLVLKDIFNVLNETEKSVIHY-IFGEN-LNQKDTGERLGISQMHVSRIKRQAISKLKQA 219 >gi|108798252|ref|YP_638449.1| RNA polymerase sigma factor SigF [Mycobacterium sp. MCS] gi|119867348|ref|YP_937300.1| RNA polymerase sigma factor SigF [Mycobacterium sp. KMS] gi|126433912|ref|YP_001069603.1| RNA polymerase sigma factor SigF [Mycobacterium sp. JLS] gi|108768671|gb|ABG07393.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119693437|gb|ABL90510.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. KMS] gi|126233712|gb|ABN97112.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. JLS] Length = 263 Score = 39.7 bits (91), Expect = 0.55, Method: Compositional matrix adjust. Identities = 52/235 (22%), Positives = 100/235 (42%), Gaps = 15/235 (6%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V L L IA + G G P ++V +GL+ AV +FD + G ++++ I Sbjct: 43 RIVERCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVIRFDVDAGSDFVSFAVPTIMG 102 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + SWS VK+ + L RL ++ + +A++L + Sbjct: 103 EVRRHFRDNSWS-VKVPRRLKELHL-----RLGSATAELSQRLGRAPTASELAEELGMDR 156 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTR 230 EV+ L S N L S NS + D G + +++ E R L Sbjct: 157 DEVVEG---LVAGSSYNTLSIDSGGNSGNEDAPAIADTLGDVDLGLDQIE---NREALRP 210 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 ++ L RER + R + +T ++ +S+ V ++ A++ ++++ +Q Sbjct: 211 LLAALPERERMVLLLRFFEN--LTQTQIAERVGISQMHVSRLLAKSLTRLRDQLQ 263 >gi|18311030|ref|NP_562964.1| sporulation sigma factor SigF [Clostridium perfringens str. 13] gi|110799417|ref|YP_696728.1| sporulation sigma factor SigF [Clostridium perfringens ATCC 13124] gi|110803821|ref|YP_699329.1| sporulation sigma factor SigF [Clostridium perfringens SM101] gi|168205856|ref|ZP_02631861.1| RNA polymerase sigma-F factor [Clostridium perfringens E str. JGS1987] gi|168208750|ref|ZP_02634375.1| RNA polymerase sigma-F factor [Clostridium perfringens B str. ATCC 3626] gi|168212915|ref|ZP_02638540.1| RNA polymerase sigma-F factor [Clostridium perfringens CPE str. F4969] gi|168215675|ref|ZP_02641300.1| RNA polymerase sigma-F factor [Clostridium perfringens NCTC 8239] gi|182623955|ref|ZP_02951743.1| RNA polymerase sigma-F factor [Clostridium perfringens D str. JGS1721] gi|18145712|dbj|BAB81754.1| RNA polymerase sigma-F factor [Clostridium perfringens str. 13] gi|110674064|gb|ABG83051.1| RNA polymerase sigma-F factor [Clostridium perfringens ATCC 13124] gi|110684322|gb|ABG87692.1| RNA polymerase sigma-F factor [Clostridium perfringens SM101] gi|170662589|gb|EDT15272.1| RNA polymerase sigma-F factor [Clostridium perfringens E str. JGS1987] gi|170712973|gb|EDT25155.1| RNA polymerase sigma-F factor [Clostridium perfringens B str. ATCC 3626] gi|170715517|gb|EDT27699.1| RNA polymerase sigma-F factor [Clostridium perfringens CPE str. F4969] gi|177910848|gb|EDT73202.1| RNA polymerase sigma-F factor [Clostridium perfringens D str. JGS1721] gi|182382022|gb|EDT79501.1| RNA polymerase sigma-F factor [Clostridium perfringens NCTC 8239] Length = 251 Score = 39.7 bits (91), Expect = 0.55, Method: Compositional matrix adjust. Identities = 57/260 (21%), Positives = 119/260 (45%), Gaps = 37/260 (14%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP 95 V+AK G+ A ++L+ + LV I + G ++ G++GL++A+ F+ Sbjct: 21 VMAK----EGNKEAMNKLIEVNTPLVSSICKRFTNRGYDYEDIFQIGSMGLVKAINNFND 76 Query: 96 ERGFRLATYSMWWIKAAMQEYILRSWSLVKI--GTTANQKRLFFNLRRLKGHLQAITDNN 153 + +TY++ I ++ + LR ++K+ T K+L +N L L N Sbjct: 77 SFNVKFSTYAVPMIIGEIKRF-LRDDGIIKVSRSTKTLAKKLHYNKEELIKKL------N 129 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 P V +A+ V + EVI AL ++S S Q+ ++ +G Sbjct: 130 RDP-TVDELAEYSGVDKEEVIV------------ALESAS---SMQYLYDTIHHDEGTPV 173 Query: 214 VLIEK-EERKNRRNMLTR-----SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 +LI+K E+ +M+ + ++S L+ + ++I R ++ T ++ +S+ Sbjct: 174 LLIDKLSEKGEDDDMVNKIALREAISSLDSKGKQIIMLRYFKDK--TQIQVAKMLGISQV 231 Query: 268 RVRQIEARAFKKVQESIQKQ 287 +V +IE + K ++E +++ Sbjct: 232 QVSRIEKKVLKIMKEKLEED 251 >gi|313844183|ref|YP_004061846.1| hypothetical protein OlV1_214 [Ostreococcus lucimarinus virus OlV1] gi|312599568|gb|ADQ91590.1| hypothetical protein OlV1_214 [Ostreococcus lucimarinus virus OlV1] Length = 171 Score = 39.7 bits (91), Expect = 0.55, Method: Compositional matrix adjust. Identities = 22/75 (29%), Positives = 45/75 (60%), Gaps = 7/75 (9%) Query: 53 LVTSHLRLVVKIA--MGYRGY----GLPI-SEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 L+ +H++L K++ + ++ Y G+ ++ S G GL++A +KF+PE GF+ +TY+ Sbjct: 28 LIANHVKLAYKVSNDVYFKTYPRQRGIHTRKDINSVGLHGLVRAAQKFNPELGFKFSTYA 87 Query: 106 MWWIKAAMQEYILRS 120 WI + + + R+ Sbjct: 88 YPWIYWSCKNCLRRT 102 >gi|310657328|ref|YP_003935049.1| RNA polymerase sigma-37 factor (sigma-b) [Clostridium sticklandii DSM 519] gi|308824106|emb|CBH20144.1| RNA polymerase sigma-37 factor (sigma-B) [Clostridium sticklandii] Length = 273 Score = 39.7 bits (91), Expect = 0.55, Method: Compositional matrix adjust. Identities = 51/251 (20%), Positives = 112/251 (44%), Gaps = 18/251 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y E+ + + LV HL + ++ + G+ ++ ++GL+ A+++FD +GF Sbjct: 37 YSENKAIELRNELVKRHLYIAEILSKKFLNKGIEYEDIYQVASLGLIFAIERFDVSKGFE 96 Query: 101 LATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV 159 ++++ I +++Y + WS I + L + K +LQ K E Sbjct: 97 FSSFATPTIIGEIKKYFRDKGWS---IRVPRRIQELSKKVNTAKSYLQQELHRVPKIED- 152 Query: 160 VAIAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 IAK L+ +E EV+ + +SL+ ++ + LV D D ++ Sbjct: 153 --IAKYLDCTEEEVLEAIEASHVYKPKSLDLSYDNEGDDKDILLLDLVGDEDKSFNMI-- 208 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 ++ + ++S LN E +I + R + T +++++ VS+ V ++E + Sbjct: 209 -----ENKDFIENALSKLNEIETKIIKDRFFKNK--TQMHVANDLGVSQMTVSRMEKKIL 261 Query: 278 KKVQESIQKQV 288 K+++ +K + Sbjct: 262 AKLKKDYEKSL 272 >gi|302539934|ref|ZP_07292276.1| stress response/stationary phase sigma factor SigF [Streptomyces hygroscopicus ATCC 53653] gi|302457552|gb|EFL20645.1| stress response/stationary phase sigma factor SigF [Streptomyces himastatinicus ATCC 53653] Length = 274 Score = 39.7 bits (91), Expect = 0.55, Method: Compositional matrix adjust. Identities = 49/197 (24%), Positives = 87/197 (44%), Gaps = 15/197 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V + + + ++A YR G + ++ +GL++AVK++DPE G A +++ + Sbjct: 48 RVVEAWMPMAQRLARQYRNRGESLEDLEQVAALGLVKAVKRYDPEHGTAFAGFAVPTVVG 107 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + ++ + + R +R L D+ P + AIA++ +SE Sbjct: 108 EIKRHFRDHLWVLHVPRRVQELR--NRVRAAHRELSHSLDDATVPTE--AIAERTGLSEK 163 Query: 172 EV-ISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 EV I M + SL+A + +D S L GQE +R+ R L Sbjct: 164 EVRIGMEAMGSFTPLSLDAQLTGADDGYS-----LADTLGGQEPAYDRVVDREAVRPGLG 218 Query: 230 RSMSVLNPRERRIFEAR 246 R L RER+I R Sbjct: 219 R----LPARERQILYMR 231 >gi|229817514|ref|ZP_04447796.1| hypothetical protein BIFANG_02777 [Bifidobacterium angulatum DSM 20098] gi|229785303|gb|EEP21417.1| hypothetical protein BIFANG_02777 [Bifidobacterium angulatum DSM 20098] Length = 621 Score = 39.7 bits (91), Expect = 0.56, Method: Compositional matrix adjust. Identities = 22/64 (34%), Positives = 33/64 (51%) Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LT + + RE I R + E P TL+ + EF ++RERVRQIE ++ + + Sbjct: 139 LTMLLFSFDEREYAIATQRLMAEQPSTLDEIGKEFNITRERVRQIEKALRNEITTLLDGE 198 Query: 288 VELS 291 LS Sbjct: 199 FHLS 202 >gi|56460225|ref|YP_155506.1| flagellar biosynthesis sigma factor [Idiomarina loihiensis L2TR] gi|56179235|gb|AAV81957.1| DNA-directed RNA polymerase specialized sigma 28 subunit [Idiomarina loihiensis L2TR] Length = 241 Score = 39.7 bits (91), Expect = 0.56, Method: Compositional matrix adjust. Identities = 56/246 (22%), Positives = 102/246 (41%), Gaps = 30/246 (12%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 ++ H LV +IA M + + +++ G IGL++A + FD +G T++ I Sbjct: 17 IIEQHTGLVKRIAHHMMARLPASVQVDDLIQAGMIGLLEAARNFDNSKGASFETFAGIRI 76 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + AM + I R W+ + + N RR+ ++ + + + + +A KLN+ Sbjct: 77 RGAMLDEIRRGDWA---------PRSVHRNHRRVLEAIRQVENETGRDAKDTEVAAKLNM 127 Query: 169 SESEVISM-----NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKN 223 E + R+ G E L S D + Y + Q+ V E Sbjct: 128 GMDEYHHILRDVSTGRIVGIEDLGV---SEDAIMPEQVTGSAY--EPQKDV-----ENAA 177 Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 L ++S L RE + +E + L+ + VS RV QI ++A +++ Sbjct: 178 FHKALVSTISSLPEREALVLSLYYDEE--LNLKEIGEVLSVSESRVSQIHSQAMLRLKSR 235 Query: 284 IQKQVE 289 +Q VE Sbjct: 236 MQNWVE 241 >gi|84514822|ref|ZP_01002185.1| sigma factor FliA (Sigma-28 group, flagellar) [Loktanella vestfoldensis SKA53] gi|84510981|gb|EAQ07435.1| sigma factor FliA (Sigma-28 group, flagellar) [Loktanella vestfoldensis SKA53] Length = 239 Score = 39.7 bits (91), Expect = 0.56, Method: Compositional matrix adjust. Identities = 45/208 (21%), Positives = 98/208 (47%), Gaps = 21/208 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 +++ G IGL++A +++ G Y++ ++ A+ +Y+ ++ +L + T A K Sbjct: 39 FDDLLQVGLIGLIEAAQRYTRREGVSFENYAVLRVRGAIYDYLRKNSNLGR-KTIATTKV 97 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI-NSS 193 + F L L P +V ++E+ +++ A ++SLN+ NS Sbjct: 98 VKFAQAELSQKL------GRAPTRV-------ELAEAVSMTIGELNAWEQSLNSSYQNSL 144 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 ++ W + EQ+L +R ++ L ++ L RE + + ++E + Sbjct: 145 QDEYDEYSMWFSAEEPPAEQLL----DRGRLKDALLIALKSLPQREALVLQLYYVEE--L 198 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +++ EV+ RV Q+++ AFKK+Q Sbjct: 199 NIYEIAAILEVTPGRVSQLKSMAFKKMQ 226 >gi|307264896|ref|ZP_07546458.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|306920154|gb|EFN50366.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] Length = 246 Score = 39.7 bits (91), Expect = 0.56, Method: Compositional matrix adjust. Identities = 55/256 (21%), Positives = 114/256 (44%), Gaps = 37/256 (14%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE---VVSEGNIGLMQAVKKFDP 95 K Y + D + + ++ ++ LV I + SE ++++G IGL+ A++K+ P Sbjct: 10 KTYNSNKDPNLRNEIIIKYMPLVKHIVKKLIISDITQSEYEDLINQGVIGLIDAIEKYQP 69 Query: 96 ERGFRLATYSMWWIKAAMQEYILR-SW-------SLVKIGTTANQKRLFFNLRRLKGHLQ 147 +G + TY+ I+ + +Y+ R W KI T + +N + ++ Sbjct: 70 SKGVKFETYATLRIRGEIIDYLRRKDWMPRSLKKKYKKIEETVETLQQKYN---REPTVE 126 Query: 148 AITD-NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 IT+ L V+ +NV S + S+ + + L+A+ N KN Sbjct: 127 EITEACGLNETDVLKTLSYINV--SNINSLEEAIENNLKLHAISNVELKNP--------- 175 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 +E+VL ++ +RK L ++ L +ER + ++ + +++S ++ Sbjct: 176 ----EEEVLYKELKRK-----LASAIESLPDKERLVITLYYYED--LNYKDISKILNLTE 224 Query: 267 ERVRQIEARAFKKVQE 282 R+ QI +A K+++E Sbjct: 225 SRISQIHTKAIKRIRE 240 >gi|307243701|ref|ZP_07525841.1| sigma-70, region 4 [Peptostreptococcus stomatis DSM 17678] gi|306492910|gb|EFM64923.1| sigma-70, region 4 [Peptostreptococcus stomatis DSM 17678] Length = 289 Score = 39.7 bits (91), Expect = 0.57, Method: Compositional matrix adjust. Identities = 47/242 (19%), Positives = 106/242 (43%), Gaps = 44/242 (18%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAM------GYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 +GD SA ++ + S + + KI ++ GL ++ G +G++ A+ KFD Sbjct: 49 NGDRSARNKFILSKIDYIRKIVTCDNEIKSFKARGLDDDDLFQTGVMGVLCAIDKFDFRP 108 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G ++ TY +K +++ R + + + AN ++ ++ + ++ + Sbjct: 109 GVKVKTYINNNVKYSIKN-TYRKYGSISVSREAN------SIYKICSSQMDLLEDKIDSR 161 Query: 158 QVVAIAKKLNVSESE-------VISMNC--RLAGDESLNA------------LINSSDKN 196 +++ I+++ N+ S V S NC R D L+ L+N + + Sbjct: 162 KILKISRETNIPPSRLEYGIMAVKSRNCQYRYDNDGCLDTDLVSMEKYSRKVLMNYNQEA 221 Query: 197 SSQWQDWLVYDH----DGQEQVLI------EKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 ++ WLV + +G+E ++I +K +++ R + + SV N + R + + R Sbjct: 222 KRKFNYWLVMEAISRLEGKENLVIKEIYINDKTQKEVARQLGCSTTSVGNIKRRALEKIR 281 Query: 247 RL 248 + Sbjct: 282 YM 283 >gi|304570578|ref|YP_386879.2| sigma-70 factor [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 265 Score = 39.7 bits (91), Expect = 0.57, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 ++E++S G +GLM+A KF P+ G + TY+ I+ AM + + R Sbjct: 64 LNELISAGTLGLMEAFGKFQPKLGIKFDTYAENRIRGAMLDELRR 108 >gi|301029374|ref|ZP_07192470.1| flagellar biosynthesis sigma factor [Escherichia coli MS 196-1] gi|299877729|gb|EFI85940.1| flagellar biosynthesis sigma factor [Escherichia coli MS 196-1] Length = 239 Score = 39.7 bits (91), Expect = 0.57, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 102/221 (46%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N+ + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNSTETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|37525878|ref|NP_929222.1| flagellar biosynthesis sigma factor [Photorhabdus luminescens subsp. laumondii TTO1] gi|36785307|emb|CAE14248.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) (Sigma-27) (Sigma-28) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 240 Score = 39.7 bits (91), Expect = 0.57, Method: Compositional matrix adjust. Identities = 44/214 (20%), Positives = 92/214 (42%), Gaps = 30/214 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV++FD +G TY++ I+ AM + LRS N + Sbjct: 41 LDDLLQAGGIGLLNAVERFDSLQGTAFTTYAVQRIRGAMLDE-LRSRDWAPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + +R+L+ L +P +AK+L + E + L+++++ Sbjct: 100 VTHIIRKLEQDLG-------RPASEQEVAKELKIDLVEYRQI------------LLDTNN 140 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE--------RKNRRNMLTRSMSVLNPRERRIFEAR 246 + +W + E V+ E E + R + ++ L RE+ + Sbjct: 141 SQLFSYDEWHEMHGESCEPVIEEGHETNPLQQLLESDVRQRVIEAIDSLPEREKMVLTLY 200 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV R+ Q+ ++A K++ Sbjct: 201 YQEE--LNLKEIGAVLEVGESRISQLHSQAIKRL 232 >gi|291617817|ref|YP_003520559.1| FliA [Pantoea ananatis LMG 20103] gi|291152847|gb|ADD77431.1| FliA [Pantoea ananatis LMG 20103] Length = 240 Score = 39.7 bits (91), Expect = 0.58, Method: Compositional matrix adjust. Identities = 46/218 (21%), Positives = 91/218 (41%), Gaps = 38/218 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + G + + + +A++LNVS E + Sbjct: 92 SVRRNAREVAGAMHQVEQMLGRAASEQEVAQQLNVSIEEYRQILL--------------- 136 Query: 194 DKNSSQWQDWLVY--DHDGQEQVLIEKEERKNR---------RNMLTRSMSVLNPRERRI 242 D N+SQ + Y +H +++ E E N R + ++ L RE+ + Sbjct: 137 DTNNSQLFSYDEYREEHGDSAELVTEGHEEANPLHQLMEGSLRERVIEAIEALPEREKMV 196 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + +V RV Q+ ++A K++ Sbjct: 197 LTLYYQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRL 232 >gi|51892300|ref|YP_074991.1| putative RNA polymerase sigma factor SigI [Symbiobacterium thermophilum IAM 14863] gi|51855989|dbj|BAD40147.1| RNA polymerase sigma factor [Symbiobacterium thermophilum IAM 14863] Length = 251 Score = 39.7 bits (91), Expect = 0.58, Method: Compositional matrix adjust. Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 2/84 (2%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS--EVVSEGNIGLMQAVKKFDPERGFRLA 102 GD +A L+ ++ LV+++ G L + E VS G I L +A+ KFDPERG Sbjct: 31 GDKAAREELIRAYTPLVLRVGSQVTGRYLRVGRDEEVSVGLIALNEAIDKFDPERGNAFI 90 Query: 103 TYSMWWIKAAMQEYILRSWSLVKI 126 ++ I+ + ++ R+ V++ Sbjct: 91 PFAEMVIRRRLVDFYRRNAGRVEV 114 >gi|88813218|ref|ZP_01128458.1| flagellar biosynthesis sigma factor FliA [Nitrococcus mobilis Nb-231] gi|88789540|gb|EAR20667.1| flagellar biosynthesis sigma factor FliA [Nitrococcus mobilis Nb-231] Length = 240 Score = 39.7 bits (91), Expect = 0.59, Method: Compositional matrix adjust. Identities = 25/75 (33%), Positives = 40/75 (53%), Gaps = 6/75 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 LV H LV +IA G LP + +++ G IGL++A +++D +G TY+ Sbjct: 19 LVVRHAPLVKRIAHHLAGR-LPASVLVDDLIQAGMIGLLEAARQYDATQGASFQTYAAIR 77 Query: 109 IKAAMQEYILR-SWS 122 I+ AM + I R W+ Sbjct: 78 IRGAMLDEIRRLDWT 92 >gi|323356683|ref|YP_004223079.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Microbacterium testaceum StLB037] gi|323273054|dbj|BAJ73199.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Microbacterium testaceum StLB037] Length = 538 Score = 39.7 bits (91), Expect = 0.59, Method: Compositional matrix adjust. Identities = 20/41 (48%), Positives = 29/41 (70%), Gaps = 1/41 (2%) Query: 237 PRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARA 276 PRE++I R + P TL ++ EF++SRER+RQIE+RA Sbjct: 177 PREQKILRMRVGFEGAPRTLAEIAREFDLSRERIRQIESRA 217 >gi|314055297|ref|YP_004063635.1| RNA-polymerase sigma factor-possible host origin [Ostreococcus tauri virus 2] gi|313575188|emb|CBI70201.1| RNA-polymerase sigma factor-possible host origin [Ostreococcus tauri virus 2] Length = 172 Score = 39.7 bits (91), Expect = 0.59, Method: Compositional matrix adjust. Identities = 22/75 (29%), Positives = 45/75 (60%), Gaps = 7/75 (9%) Query: 53 LVTSHLRLVVKIA--MGYRGY----GLPI-SEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 L+ +H++L K++ + ++ Y G+ ++ S G GL++A +KF+PE GF+ +TY+ Sbjct: 28 LIANHVKLAYKVSNDVYFKTYPRQRGIHTRKDINSVGLHGLVRAAQKFNPELGFKFSTYA 87 Query: 106 MWWIKAAMQEYILRS 120 WI + + + R+ Sbjct: 88 YPWIYWSCKNCLRRT 102 >gi|108799609|ref|YP_639806.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119868720|ref|YP_938672.1| FliA/WhiG family RNA polymerase sigma factor [Mycobacterium sp. KMS] gi|108770028|gb|ABG08750.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119694809|gb|ABL91882.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. KMS] Length = 284 Score = 39.7 bits (91), Expect = 0.60, Method: Compositional matrix adjust. Identities = 48/213 (22%), Positives = 94/213 (44%), Gaps = 38/213 (17%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 +R+R H ++T+ + + IA + G G P +V+ IGL++ V ++DP++G Sbjct: 43 ERWRRH--------IITACVPIADHIAYRFVGRGEPSEDVIQVARIGLIKTVDRYDPDKG 94 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQ 158 LA +++ I+ ++ + + V++ + +L R++ + ++ + Sbjct: 95 HFLA-FAVPTIRGEIRRHFRDNTWTVRVPRKVQETQL-----RMRDAVNTLSQRLNRTPT 148 Query: 159 VVAIAKKLNVSESEVISMNCRLAG--------DESLNALINSSDK-NSSQWQDWLVYDHD 209 V +A +L+V E+ +C+ A D L N D S Q D Y Sbjct: 149 GVELADELDVGSEEL--GDCQAATTAYRPVSLDAPLLTAQNDGDTVGSMQGGDDPGY--- 203 Query: 210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 G+ + LI +L ++S L+PR R I Sbjct: 204 GRVEDLI----------LLQEAISDLDPRRRAI 226 >gi|303248004|ref|ZP_07334270.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfovibrio fructosovorans JJ] gi|302490561|gb|EFL50466.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfovibrio fructosovorans JJ] Length = 225 Score = 39.7 bits (91), Expect = 0.60, Method: Compositional matrix adjust. Identities = 16/39 (41%), Positives = 26/39 (66%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + E++S G +GL++A+ +F PE G + TY+ IK AM Sbjct: 25 LGELLSAGAMGLLEALGRFRPELGIKFETYAESRIKGAM 63 >gi|332753464|gb|EGJ83844.1| RNA polymerase sigma factor rpoS domain protein [Shigella flexneri 4343-70] Length = 114 Score = 39.7 bits (91), Expect = 0.61, Method: Compositional matrix adjust. Identities = 21/47 (44%), Positives = 31/47 (65%), Gaps = 1/47 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 Y+ EI P+L +EE A+R GD+++ R++ S+LRLVVKIA Sbjct: 61 YLGEIGYSPLLTAEEEVYFARRAL-RGDVASRRRMIESNLRLVVKIA 106 >gi|74317198|ref|YP_314938.1| RNA polymerase sigma-70 factor [Thiobacillus denitrificans ATCC 25259] gi|74056693|gb|AAZ97133.1| RNA polymerase sigma-70 factor [Thiobacillus denitrificans ATCC 25259] Length = 236 Score = 39.7 bits (91), Expect = 0.61, Method: Compositional matrix adjust. Identities = 54/248 (21%), Positives = 109/248 (43%), Gaps = 25/248 (10%) Query: 45 GDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRL 101 G S+ +T + LV +IA M + + +++ G IGLM AV +FD +G + Sbjct: 3 GKPSSQDEQITKYAPLVKRIAYHMMARLPASVEVDDLIQVGLIGLMDAVSRFDGTQGAQF 62 Query: 102 ATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 +Y+ I+ AM + + + W + QK R+++ + + + K Sbjct: 63 ESYATQRIRGAMLDELREADW----LPRHVRQKS-----RQIEAAIHKLEQRHGKAPSES 113 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALI---NSSDKNSSQWQDWLVYDHDGQEQVLIE 217 I+ +L + + SM GD + L+ + SD++S+ + + + D ++E Sbjct: 114 EISAELGIPIDQYQSM----LGDVKCSQLLYYEDFSDEDSASFLERYLVDGSNDPLAVLE 169 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 E R L ++ L RER + E + L+ + + VS RV Q+ ++A Sbjct: 170 DE---GFRASLIAAIHHLPERERSMMGM--YYEQDMNLKEIGAVLGVSESRVCQLHSQAV 224 Query: 278 KKVQESIQ 285 +++ ++ Sbjct: 225 ARLRAQLK 232 >gi|237734715|ref|ZP_04565196.1| sporulation sigma factor sigG [Mollicutes bacterium D7] gi|229382043|gb|EEO32134.1| sporulation sigma factor sigG [Coprobacillus sp. D7] Length = 97 Score = 39.7 bits (91), Expect = 0.62, Method: Composition-based stats. Identities = 27/102 (26%), Positives = 50/102 (49%), Gaps = 9/102 (8%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N +I+NG E +K L E Y L Y+ + + RLV + +LV+ + Sbjct: 3 NYQVIING-------YQEPKK--RLTTDETYKLIDEYQATKNEAIKDRLVNDNTKLVLSM 53 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 A + G + ++ G IGL++A++ F+ G + +TY++ Sbjct: 54 ARRFYGREDSMDDLFQVGMIGLIKAIENFNTSFGLKFSTYAV 95 >gi|15895322|ref|NP_348671.1| DNA-dependent RNA polymerase sigma subunit [Clostridium acetobutylicum ATCC 824] gi|15025038|gb|AAK80011.1|AE007708_7 DNA-dependent RNA polymerase sigma subunit [Clostridium acetobutylicum ATCC 824] Length = 237 Score = 39.7 bits (91), Expect = 0.62, Method: Compositional matrix adjust. Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 2/84 (2%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGY--RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 G A L+ S ++ + KIA G+ L + +++ EG I +++A+ +D ++ + + Sbjct: 18 GSKDAKSFLIDSSMKYIKKIANGFCLNNKSLSLEDLMQEGIIAVIKAINSYDLDKNVKFS 77 Query: 103 TYSMWWIKAAMQEYILRSWSLVKI 126 TY I + I + +S KI Sbjct: 78 TYVYSMINFTLISEIKKKYSYFKI 101 >gi|167037640|ref|YP_001665218.1| RNA polymerase sigma-28 subunit FliA/WhiG [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167040301|ref|YP_001663286.1| RNA polymerase sigma-28 subunit FliA/WhiG [Thermoanaerobacter sp. X514] gi|256750769|ref|ZP_05491654.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacter ethanolicus CCSD1] gi|300914385|ref|ZP_07131701.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307724379|ref|YP_003904130.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter sp. X513] gi|320116055|ref|YP_004186214.1| FliA/WhiG family RNA polymerase sigma factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166854541|gb|ABY92950.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacter sp. X514] gi|166856474|gb|ABY94882.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256750352|gb|EEU63371.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacter ethanolicus CCSD1] gi|300889320|gb|EFK84466.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307581440|gb|ADN54839.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X513] gi|319929146|gb|ADV79831.1| RNA polymerase sigma factor, FliA/WhiG family [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 246 Score = 39.7 bits (91), Expect = 0.62, Method: Compositional matrix adjust. Identities = 57/260 (21%), Positives = 115/260 (44%), Gaps = 45/260 (17%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE---VVSEGNIGLMQAVKKFDP 95 K Y + D + + ++ ++ LV I + SE ++++G IGL+ A++K+ P Sbjct: 10 KTYNSNKDPNLRNEIIIKYMPLVKHIVKKLIISDITQSEYEDLINQGVIGLIDAIEKYQP 69 Query: 96 ERGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL 154 +G + TY+ I+ + +Y+ + W R LK + I Sbjct: 70 SKGVKFETYATLRIRGEIIDYLRKKDWM----------------PRSLKKKYRKI----- 108 Query: 155 KPEQVVAIAKKLNVSES-EVISMNCRLAGDESLNAL--INSSDKNS------SQWQDWLV 205 E V + +K N + E I+ C L + L L IN S+ NS + ++ + Sbjct: 109 -EETVETLQQKYNREPTVEEITEACGLNETDVLKTLSYINVSNINSLEEAIENNFKLHAI 167 Query: 206 YD---HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 D + +E+VL ++ +RK L ++ L +ER + ++ + +++S Sbjct: 168 SDVELKNPEEEVLYKELKRK-----LANAIENLPDKERLVITLYYYED--LNYKDISKIL 220 Query: 263 EVSRERVRQIEARAFKKVQE 282 ++ R+ QI +A K+++E Sbjct: 221 NLTESRISQIHTKAIKRIRE 240 >gi|295399836|ref|ZP_06809817.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|312111652|ref|YP_003989968.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. Y4.1MC1] gi|294978239|gb|EFG53836.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|311216753|gb|ADP75357.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. Y4.1MC1] Length = 254 Score = 39.7 bits (91), Expect = 0.62, Method: Compositional matrix adjust. Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 3/71 (4%) Query: 46 DLSAAHRLVTSHLRLV---VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 D A ++LV +++ LV V+ + E++S G +GL A++KFDP R + Sbjct: 21 DPQAGNKLVQTYMPLVHYHVQRIAASLPKNISKQELISLGLVGLYDALEKFDPSRDLKFD 80 Query: 103 TYSMWWIKAAM 113 TY+ + I+ A+ Sbjct: 81 TYASFRIRGAI 91 >gi|328885789|emb|CCA59028.1| hypothetical protein SVEN_5742 [Streptomyces venezuelae ATCC 10712] Length = 750 Score = 39.3 bits (90), Expect = 0.63, Method: Compositional matrix adjust. Identities = 21/41 (51%), Positives = 23/41 (56%) Query: 233 SVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 S + RER I R E P T L FEVSRERVRQ+E Sbjct: 256 STWDERERTIAARRIFAEQPETFAALGDRFEVSRERVRQLE 296 >gi|307131576|ref|YP_003883592.1| RNA polymerase sigma-28 (sigma F) factor [Dickeya dadantii 3937] gi|306529105|gb|ADM99035.1| RNA polymerase, sigma 28 (sigma F) factor [Dickeya dadantii 3937] Length = 240 Score = 39.3 bits (90), Expect = 0.63, Method: Compositional matrix adjust. Identities = 51/240 (21%), Positives = 101/240 (42%), Gaps = 37/240 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + +Q + + +A+ LN+S E + Sbjct: 84 RSRDWA---------PRSVRRNAREVAQAMQQAEQSLGRAPTEQEVAQTLNISLEEYRQI 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT------R 230 L+++++ + +W +H + L+E E N N L R Sbjct: 135 ------------LLDTNNSQLFSYDEW-REEHGDSAEALLEGNEEANPLNQLMDVNLRQR 181 Query: 231 SMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 M + P ++ QE + L+ + + EV RV Q+ ++A K+++ + V Sbjct: 182 VMDAIESLPEREKMVLTLYYQEE-LNLKEIGAVLEVGESRVSQLHSQAIKRLRAKLMSDV 240 >gi|327394234|dbj|BAK11656.1| RNA polymerase sigma factor for flagellar operon FliA [Pantoea ananatis AJ13355] Length = 230 Score = 39.3 bits (90), Expect = 0.63, Method: Compositional matrix adjust. Identities = 50/235 (21%), Positives = 98/235 (41%), Gaps = 43/235 (18%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDEL 73 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + G + + + +A++LNVS E + Sbjct: 74 RSRDWA---------PRSVRRNAREVAGAMHQVEQMLGRAASEQEVAQQLNVSIEEYRQI 124 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVY--DHDGQEQVLIEKEERKNR---------R 225 D N+SQ + Y +H +++ E E N R Sbjct: 125 LL---------------DTNNSQLFSYDEYREEHGDSAELVTEGHEEANPLHQLMEGSLR 169 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ L RE+ + +E + L+ + + +V RV Q+ ++A K++ Sbjct: 170 ERVIEAIEALPEREKMVLTLYYQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRL 222 >gi|253990087|ref|YP_003041443.1| flagellar biosynthesis sigma factor [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253781537|emb|CAQ84700.1| rna polymerase sigma factor for flagellar operon (sigma-f factor (sigma-27) (sigma-28) [Photorhabdus asymbiotica] Length = 244 Score = 39.3 bits (90), Expect = 0.64, Method: Compositional matrix adjust. Identities = 44/214 (20%), Positives = 92/214 (42%), Gaps = 30/214 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV++FD +G TY++ I+ AM + LRS N + Sbjct: 45 LDDLLQAGGIGLLNAVERFDSLQGTAFTTYAVQRIRGAMLDE-LRSRDWAPRSVRRNARE 103 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + +R+L+ L +P +AK+L + E + L+++++ Sbjct: 104 VTQTIRKLEQDLG-------RPASEQEVAKELKIDLVEYRQI------------LLDTNN 144 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEE--------RKNRRNMLTRSMSVLNPRERRIFEAR 246 + +W + E V+ E E + R + ++ L RE+ + Sbjct: 145 SQLFSYDEWHEMHGESCEPVIEEGHETNPLQQLLESDVRQRVIDAIDSLPEREKMVLTLY 204 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV R+ Q+ ++A K++ Sbjct: 205 YQEE--LNLKEIGAVLEVGESRISQLHSQAIKRL 236 >gi|116694211|ref|YP_728422.1| DNA-directed RNA polymerase sigma subunit / flagellum specific [Ralstonia eutropha H16] gi|113528710|emb|CAJ95057.1| DNA-directed RNA polymerase sigma subunit / flagellum specific [Ralstonia eutropha H16] Length = 238 Score = 39.3 bits (90), Expect = 0.65, Method: Compositional matrix adjust. Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 6/77 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y G L A +V +H +LV +IA+ LP I +++ G IGL+ A K+++ Sbjct: 2 YTIQGKLEQAD-VVKAHAQLVRRIALQLAAR-LPASVQIDDLIQAGMIGLLDAAKRYEDT 59 Query: 97 RGFRLATYSMWWIKAAM 113 G R TY+ I+ AM Sbjct: 60 HGARFETYASQRIRGAM 76 >gi|323705419|ref|ZP_08116994.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323535321|gb|EGB25097.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 246 Score = 39.3 bits (90), Expect = 0.66, Method: Compositional matrix adjust. Identities = 22/81 (27%), Positives = 41/81 (50%), Gaps = 3/81 (3%) Query: 40 RYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPE 96 +Y + D S+ ++ ++ LV I L +++S+G IGL+ AV K+D Sbjct: 11 KYEKQKDGSSKEDIIIKYMPLVKHIVKRICLSELSKEDTDDLISQGMIGLIDAVNKYDVS 70 Query: 97 RGFRLATYSMWWIKAAMQEYI 117 +G + TY+ IK + +Y+ Sbjct: 71 KGVKFETYASIRIKGEIIDYL 91 >gi|256831228|ref|YP_003159956.1| RNA polymerase sigma-28 subunit FliA/WhiG [Desulfomicrobium baculatum DSM 4028] gi|256580404|gb|ACU91540.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfomicrobium baculatum DSM 4028] Length = 267 Score = 39.3 bits (90), Expect = 0.66, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 +S+++S G +GLM+A+ KF PE R T++ I+ AM + + R Sbjct: 68 LSDLISAGTLGLMEALGKFQPELNIRFETFADSRIRGAMLDELRR 112 >gi|119714598|ref|YP_921563.1| sigma-70 region 4 domain-containing protein [Nocardioides sp. JS614] gi|119535259|gb|ABL79876.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nocardioides sp. JS614] Length = 278 Score = 39.3 bits (90), Expect = 0.66, Method: Compositional matrix adjust. Identities = 48/211 (22%), Positives = 89/211 (42%), Gaps = 20/211 (9%) Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 S G + L+QA + FDPERG A Y+ I+ A+ + LRS + + Sbjct: 39 SAGLLALVQAARAFDPERGVPFAGYASTRIRGALVDE-LRSVDWASRSVRRRAREIEAAR 97 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKN-SS 198 RL L D+ A+A+ L ++ E+ + +A A++ D ++ Sbjct: 98 ARLAATLGQFPDD-------AAVAEALGITPEEIGKADSEVA-----RAVVLPLDAGPNA 145 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 + + L G E+ + E R L ++ L R R + + + P+ L Sbjct: 146 GFVESLAGRDPGPEEEALHAE----RAQYLAAAIEELPERLRHVVRGYFVAQRPMA--EL 199 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 ++E VS R+ Q+ A A +++++ + E Sbjct: 200 AAELGVSESRISQLRAEALVLLRDALAEAFE 230 >gi|331088539|ref|ZP_08337452.1| hypothetical protein HMPREF1025_01035 [Lachnospiraceae bacterium 3_1_46FAA] gi|330407801|gb|EGG87295.1| hypothetical protein HMPREF1025_01035 [Lachnospiraceae bacterium 3_1_46FAA] Length = 239 Score = 39.3 bits (90), Expect = 0.67, Method: Compositional matrix adjust. Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 1/82 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A +LV ++ LV + + G ++ G+IGL++A+ KFD + +TY Sbjct: 14 GDKAAREQLVKENVGLVHCVVKRFLERGAEREDLFQIGSIGLLKAIDKFDLTYNVKFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKI 126 ++ I ++ + LR ++K+ Sbjct: 74 AVPLISGEIKRF-LRDDGMIKV 94 >gi|157161393|ref|YP_001458711.1| flagellar biosynthesis sigma factor [Escherichia coli HS] gi|157067073|gb|ABV06328.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli HS] Length = 239 Score = 39.3 bits (90), Expect = 0.67, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 101/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VVQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|88704270|ref|ZP_01101984.1| RNA polymerase sigma factor for flagellar operon [Congregibacter litoralis KT71] gi|88701321|gb|EAQ98426.1| RNA polymerase sigma factor for flagellar operon [Congregibacter litoralis KT71] Length = 236 Score = 39.3 bits (90), Expect = 0.67, Method: Compositional matrix adjust. Identities = 59/251 (23%), Positives = 108/251 (43%), Gaps = 46/251 (18%) Query: 48 SAAHRLVTSHLRLVVKIAMGYR-GYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLA 102 S+A LV L LV KI G R LP + +++ G IGL++A + +D +G A Sbjct: 13 SSADALVREFLPLVKKI--GLRLAAKLPAEIEVDDLMQVGLIGLLRARESYDASQGASFA 70 Query: 103 TYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 TY+ IK AM + I R+ + +++ + R L P Q I Sbjct: 71 TYAGIRIKGAMLDEI-RAHDWLPRSVQTQLRQVSVAIERADARLG-------HPAQDADI 122 Query: 163 AKKLNVSESEVISMNCRLA---------GDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 A +L++ +E ++ +LA E+ NA++N+ + +D G+E Sbjct: 123 AAELDMPLAEYQQLSGQLACARMTHIEDSAEAENAVLNTVNP----------FDEVGEE- 171 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 R L S++ L +ER + ++ + L+ + + VS RV Q+ Sbjct: 172 ---------GFREALAESVAQLPEKERLMMSLYYAED--LNLKEIGAVLGVSESRVSQLH 220 Query: 274 ARAFKKVQESI 284 +A +++ ++ Sbjct: 221 GQALARLRVTL 231 >gi|304316881|ref|YP_003852026.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778383|gb|ADL68942.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 246 Score = 39.3 bits (90), Expect = 0.68, Method: Compositional matrix adjust. Identities = 15/43 (34%), Positives = 28/43 (65%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 + +++S+G IGL+ AV K+D +G + TY+ IK + +Y+ Sbjct: 49 VDDLISQGMIGLIDAVNKYDISKGVKFETYASIRIKGEIIDYL 91 >gi|197301393|ref|ZP_03166474.1| hypothetical protein RUMLAC_00124 [Ruminococcus lactaris ATCC 29176] gi|197299550|gb|EDY34069.1| hypothetical protein RUMLAC_00124 [Ruminococcus lactaris ATCC 29176] Length = 206 Score = 39.3 bits (90), Expect = 0.68, Method: Compositional matrix adjust. Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 1/77 (1%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L K +R +GD L+ + +V K A +G +++ EG IGL++AV+ +DP+ Sbjct: 12 LIKDFR-NGDREIMDHLMMKYKAMVRKKARAMYLFGGENEDLIQEGMIGLIKAVRDYDPD 70 Query: 97 RGFRLATYSMWWIKAAM 113 +G A+++ + M Sbjct: 71 QGASFASFAELCVSRQM 87 >gi|317501595|ref|ZP_07959789.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|316897012|gb|EFV19089.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] Length = 239 Score = 39.3 bits (90), Expect = 0.68, Method: Compositional matrix adjust. Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 1/82 (1%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD +A +LV ++ LV + + G ++ G+IGL++A+ KFD + +TY Sbjct: 14 GDKAAREQLVKENVGLVHCVVKRFLERGAEREDLFQIGSIGLLKAIDKFDLTYNVKFSTY 73 Query: 105 SMWWIKAAMQEYILRSWSLVKI 126 ++ I ++ + LR ++K+ Sbjct: 74 AVPLISGEIKRF-LRDDGMIKV 94 >gi|158337871|ref|YP_001519047.1| RNA polymerase sigma factor SigF [Acaryochloris marina MBIC11017] gi|158308112|gb|ABW29729.1| RNA polymerase sigma factor, group 3 [Acaryochloris marina MBIC11017] Length = 265 Score = 39.3 bits (90), Expect = 0.68, Method: Compositional matrix adjust. Identities = 21/88 (23%), Positives = 51/88 (57%), Gaps = 3/88 (3%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIA--MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 YR+ + +RLV ++ LV K+A + ++ P ++ G +GL+ A+++FDP +G Sbjct: 18 YRQKPSVQLRNRLVRLNMGLVRKVAHRLAHQ-CAEPYEDLEQCGFLGLITAIERFDPTQG 76 Query: 99 FRLATYSMWWIKAAMQEYILRSWSLVKI 126 + +++++ +I+ + ++ + V+I Sbjct: 77 YAFSSFAVPYIRGEILHFLRDRANTVRI 104 >gi|169834851|ref|YP_001715950.1| putative sporulation sigma factor SigK [Clostridium botulinum A3 str. Loch Maree] gi|169408958|gb|ACA57368.1| putative sporulation sigma factor SigK [Clostridium botulinum A3 str. Loch Maree] Length = 271 Score = 39.3 bits (90), Expect = 0.70, Method: Compositional matrix adjust. Identities = 46/221 (20%), Positives = 96/221 (43%), Gaps = 31/221 (14%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW----SLVKIG 127 G+ +++ + +G ++A++KFD +G L+TY+ M+ YIL S +++K+ Sbjct: 64 GMEFDDLLIDAKLGFLKALEKFDINKGNALSTYAT----HCMRNYILNSIRVNNNMIKLS 119 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + KR+ + ++ K ++ + N K N+ N RL Sbjct: 120 SREVNKRIKLS-KKFKANI--LNKGNYKFN--------YNIYNKIFSQHNVRLIDTHEYQ 168 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + ++ NSS Q+ E++ +EKE+++ + ++ +L+ E I Sbjct: 169 SYLD----NSSIEQEI------SSEEMFMEKEQKRFNTRQIISALKILDKTELFIIVHYF 218 Query: 248 --LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + TL LS + E R+I+ +A K++ +K Sbjct: 219 GLFNKKKRTLRELSKRLNIGYENTRKIKGKALSKIECHFKK 259 >gi|311030733|ref|ZP_07708823.1| sporulation sigma factor SigF [Bacillus sp. m3-13] Length = 251 Score = 39.3 bits (90), Expect = 0.70, Method: Compositional matrix adjust. Identities = 20/75 (26%), Positives = 38/75 (50%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 + G+ A +V ++RLV + + G ++ G IGL+++V KFD + + Sbjct: 26 QSGEQEARDTIVQKNMRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVKFS 85 Query: 103 TYSMWWIKAAMQEYI 117 TY++ I +Q +I Sbjct: 86 TYAVPMIIGEIQRFI 100 >gi|302544308|ref|ZP_07296650.1| RNA polymerase sigma-F factor [Streptomyces hygroscopicus ATCC 53653] gi|302461926|gb|EFL25019.1| RNA polymerase sigma-F factor [Streptomyces himastatinicus ATCC 53653] Length = 288 Score = 39.3 bits (90), Expect = 0.70, Method: Compositional matrix adjust. Identities = 51/229 (22%), Positives = 100/229 (43%), Gaps = 13/229 (5%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R + + +VV G IGL++A+ +FD R T+++ +I Sbjct: 47 LIELNLSLVRYAARRFRNRSVEMEDVVQVGTIGLIKAIDRFDLSREVEFTTFAVPYIVGE 106 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SW+ + + L +L + L D + +A+ LN+SE Sbjct: 107 IKRFFRDTSWA---VHVPRRLQELRIDLAKANEELFQRFD---RSPTTTELAEHLNLSED 160 Query: 172 EVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 EV+ + S ++L +D + + D G+ +E E + L Sbjct: 161 EVLD-GLVASNGYSTSSLDAPADPETGTTRVTTYADRIGEVDPAMEVVENLHALKPLVEQ 219 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L R+RRI + R +E +T + +E VS+ V ++ ++ ++ Sbjct: 220 ---LGERDRRILQMRFGEE--MTQSEIGAELGVSQMHVSRLLTKSLTRL 263 >gi|169827282|ref|YP_001697440.1| RNA polymerase sigma-F factor [Lysinibacillus sphaericus C3-41] gi|168991770|gb|ACA39310.1| RNA polymerase sigma-F factor (Stage II sporulation protein AC) (Sporulation sigma factor) [Lysinibacillus sphaericus C3-41] Length = 195 Score = 39.3 bits (90), Expect = 0.70, Method: Compositional matrix adjust. Identities = 44/199 (22%), Positives = 89/199 (44%), Gaps = 26/199 (13%) Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL 146 M++V KFD + +TY++ I +Q + LR +VK+ + +R L + Sbjct: 1 MKSVDKFDLSYDVKFSTYAVPMIIGEIQRF-LRDDGMVKVSRS---------IRELNFKI 50 Query: 147 QAITDNNLK----PEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 + TD +K P + +A+ L V+ E+++ + L SL+ + S+ +S D Sbjct: 51 RHATDEFIKRNEHPPTIQELAQVLGVTTEEIVTASDALRDPASLHEQLYESEGDSITLMD 110 Query: 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEF 262 Q+ EK E+ L ++ L PRE+ I R + T +++ Sbjct: 111 ----------QMKDEKSEQPFDYIPLKEVLTRLEPREQSIIYLRYFSD--CTQTEIANRL 158 Query: 263 EVSRERVRQIEARAFKKVQ 281 +S+ +V ++E + +++ Sbjct: 159 GISQVQVSRLEKKILAQLK 177 >gi|251789202|ref|YP_003003923.1| flagellar biosynthesis sigma factor [Dickeya zeae Ech1591] gi|247537823|gb|ACT06444.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dickeya zeae Ech1591] Length = 240 Score = 39.3 bits (90), Expect = 0.71, Method: Compositional matrix adjust. Identities = 51/240 (21%), Positives = 101/240 (42%), Gaps = 37/240 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + +Q + + +A+ LN+S E + Sbjct: 84 RSRDWA---------PRSVRRNAREVAQAMQQAEQSLGRAPSEQEVAQTLNISLEEYRQI 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT------R 230 L+++++ + +W +H + L+E E N N L R Sbjct: 135 ------------LLDTNNSQLFSYDEW-REEHGDSAEALLEGNEDANPLNQLMDVSLRQR 181 Query: 231 SMSVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 M + P ++ QE + L+ + + EV RV Q+ ++A K+++ + V Sbjct: 182 VMDAIENLPEREKMVLTLYYQEE-LNLKEIGAVLEVGESRVSQLHSQAIKRLRAKLMSDV 240 >gi|304438454|ref|ZP_07398394.1| DNA-directed RNA polymerase sigma subunit FliA [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304368537|gb|EFM22222.1| DNA-directed RNA polymerase sigma subunit FliA [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 256 Score = 39.3 bits (90), Expect = 0.71, Method: Compositional matrix adjust. Identities = 62/266 (23%), Positives = 121/266 (45%), Gaps = 30/266 (11%) Query: 28 MLEKQEEYVLA--KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPI----SEVVSE 81 M E EE + A K Y + +R+ +L LV ++ G LP +++S Sbjct: 9 MAEPIEEDIEALWKAYETEKTIEVRNRIAEYYLPLV-RLVAGRIAISLPQHVDREDLLSS 67 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G GL+ A+++++ RG + TY+ ++ A+ ++ LR+ + + N KR + Sbjct: 68 GFFGLLDAIERYELTRGNKFETYAGVRVRGAILDH-LRAKDWIPVSVRQNIKRYEKAVAH 126 Query: 142 LKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 L+G L + TD L E ++I ++L+ ES+V S + +E L +D +S Sbjct: 127 LEGTLGRTATDQELAEEMDLSI-EELHRLESQV-SAATVIPLEEYLR-----TDAQASL- 178 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 DG +E E + L ++ L +ER + E +TL+ +++ Sbjct: 179 -------EDGP----VEHAEWTEIKETLAAAIEKLPEKERTVVALYYYDE--MTLKEIAA 225 Query: 261 EFEVSRERVRQIEARAFKKVQESIQK 286 +S R+ Q+ +A +++ S+ + Sbjct: 226 VLHLSEARISQLHTKAIFRMRGSLAR 251 >gi|300722632|ref|YP_003711922.1| sigma F (sigma 28) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|297629139|emb|CBJ89735.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Xenorhabdus nematophila ATCC 19061] Length = 240 Score = 39.3 bits (90), Expect = 0.71, Method: Compositional matrix adjust. Identities = 52/230 (22%), Positives = 99/230 (43%), Gaps = 33/230 (14%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV++FD +G TY++ I+ AM + Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERFDSMQGTAFTTYAVQRIRGAMLDE- 82 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS N + + +R+L+ L EQ VA K+N+ E I Sbjct: 83 LRSRDWAPRSVRRNAREVTQTIRKLEQEL-----GRPASEQEVAKELKINLIEYRQI--- 134 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM--SVL 235 L+++++ + +W + E V+ E+ E + +L + V+ Sbjct: 135 -----------LLDTNNSQLFSYDEWHEIHGESCEPVIEEEHETNPLQQLLEGDLRQRVI 183 Query: 236 N-----PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 N P ++ QE + L+ + + V RV Q+ ++A K++ Sbjct: 184 NIIESLPEREKMVLTLYYQEE-LNLKEIGAVLNVGESRVSQLHSQAIKRL 232 >gi|304399206|ref|ZP_07381073.1| sigma-70 region 1.2 [Pantoea sp. aB] gi|304353260|gb|EFM17640.1| sigma-70 region 1.2 [Pantoea sp. aB] Length = 113 Score = 39.3 bits (90), Expect = 0.72, Method: Compositional matrix adjust. Identities = 21/47 (44%), Positives = 30/47 (63%), Gaps = 1/47 (2%) Query: 19 YIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 Y+ EI P+L +EE A+R GD+ + R++ S+LRLVVKIA Sbjct: 61 YLGEIGYSPLLTAEEEVFFARRAL-RGDIPSRRRMIESNLRLVVKIA 106 >gi|166368033|ref|YP_001660306.1| RNA polymerase sigma factor SigF [Microcystis aeruginosa NIES-843] gi|166090406|dbj|BAG05114.1| group 3 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 258 Score = 39.3 bits (90), Expect = 0.72, Method: Compositional matrix adjust. Identities = 34/134 (25%), Positives = 70/134 (52%), Gaps = 10/134 (7%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT-ANQKRL 135 ++V G++GL++A+++FD +G +++++ +I+ +Q ++ V+I + R Sbjct: 57 DLVQVGSMGLIRAIERFDSSKGHAFSSFAIPYIRGEIQHHLRDKSYTVRIPRRWLDLGRQ 116 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSS 193 N+RR Q I +N +P I++ LN+S E + E SL+ +N+ Sbjct: 117 ATNVRR---DFQTI--HNRQPND-TEISRALNISSEEWQEVKLAFQNREPLSLDVTVNND 170 Query: 194 DKNSSQWQDWLVYD 207 + N++ +D LV D Sbjct: 171 EDNNTCLKD-LVPD 183 >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 = 39.3 bits (90), Expect = 0.73, Method: Composition-based stats. Identities = 22/46 (47%), Positives = 31/46 (67%), Gaps = 3/46 (6%) Query: 235 LNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 LN RE + +R+Q TLE++ E V+RER+RQIEA+A KK+ Sbjct: 302 LNEREYNVL-LQRIQGK--TLEDVGLEMNVTRERIRQIEAKAIKKL 344 >gi|171741952|ref|ZP_02917759.1| hypothetical protein BIFDEN_01055 [Bifidobacterium dentium ATCC 27678] gi|283456904|ref|YP_003361468.1| RNA polymerase sigma factor [Bifidobacterium dentium Bd1] gi|171277566|gb|EDT45227.1| hypothetical protein BIFDEN_01055 [Bifidobacterium dentium ATCC 27678] gi|283103538|gb|ADB10644.1| RNA polymerase sigma factor [Bifidobacterium dentium Bd1] Length = 596 Score = 39.3 bits (90), Expect = 0.74, Method: Compositional matrix adjust. Identities = 17/46 (36%), Positives = 29/46 (63%) Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 L+ ++ L+ RE +IF R L E P + + + + ++RER+RQIE Sbjct: 116 LSSAICDLDEREYKIFNERFLMEEPRSFKAIGGDLGITRERIRQIE 161 >gi|114777586|ref|ZP_01452567.1| RNA polymerase sigma factor for flagellar operon [Mariprofundus ferrooxydans PV-1] gi|114552057|gb|EAU54574.1| RNA polymerase sigma factor for flagellar operon [Mariprofundus ferrooxydans PV-1] Length = 243 Score = 39.3 bits (90), Expect = 0.74, Method: Compositional matrix adjust. Identities = 25/101 (24%), Positives = 49/101 (48%), Gaps = 14/101 (13%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 ++++ G +GL+ ++FD R + T+ + ++ AM +Y LR++ + G + K Sbjct: 41 FDDLINAGVLGLLDGAQRFDHSRDVQFKTFVSYRVRGAMIDY-LRAFDWMPRGLRDHAKE 99 Query: 135 L---FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 + F L ++ G +P + IAK LN+S E Sbjct: 100 MQTAFQQLEQVYG----------RPAEETEIAKHLNISLDE 130 >gi|3249731|gb|AAC26668.1| RNA polymerase sigma-like factor [Streptomyces spectabilis] Length = 161 Score = 39.3 bits (90), Expect = 0.74, Method: Compositional matrix adjust. Identities = 47/175 (26%), Positives = 73/175 (41%), Gaps = 19/175 (10%) Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ AM + +++ + L + R++ + PE+V A Sbjct: 1 YATWWIRQAMSRAMADQARTIRVPVHVVE--LINRVVRVQRRMLQERGYEPSPEEVAA-- 56 Query: 164 KKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEE 220 L++ V RLA + SL+A + D D + D DG +E Sbjct: 57 -HLDLPHERV--RGLRLAQEPVSLHAPVGEED-------DVALGDLIEDGDAASPVESAA 106 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 R L +S L RER++ + R P TLE + F V+RER+RQIE Sbjct: 107 FLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIE 161 >gi|20807860|ref|NP_623031.1| DNA-directed RNA polymerase specialized sigma subunit [Thermoanaerobacter tengcongensis MB4] gi|254478885|ref|ZP_05092249.1| RNA polymerase sigma factor, FliA/WhiG family [Carboxydibrachium pacificum DSM 12653] gi|20516424|gb|AAM24635.1| DNA-directed RNA polymerase specialized sigma subunit [Thermoanaerobacter tengcongensis MB4] gi|214035198|gb|EEB75908.1| RNA polymerase sigma factor, FliA/WhiG family [Carboxydibrachium pacificum DSM 12653] Length = 246 Score = 39.3 bits (90), Expect = 0.74, Method: Compositional matrix adjust. Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 4/87 (4%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE---VVSEGNIGLMQAVKKFDP 95 K Y D A + ++ +L LV I + SE ++ +G +GL+ A++K+ P Sbjct: 10 KVYNLQKDPDARNEIIVKYLPLVKHIVKKLVISDIAQSEYEDLIHQGILGLIDAIEKYQP 69 Query: 96 ERGFRLATYSMWWIKAAMQEYI-LRSW 121 ++G + TY+ I+ + +Y+ R W Sbjct: 70 DKGVKFETYATLRIRGEIIDYLRKRDW 96 >gi|291436144|ref|ZP_06575534.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291339039|gb|EFE65995.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 282 Score = 39.3 bits (90), Expect = 0.75, Method: Compositional matrix adjust. Identities = 52/240 (21%), Positives = 110/240 (45%), Gaps = 23/240 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V + L + ++A +R G ++ +GL++AV ++DPE G +Y++ I Sbjct: 56 IVEAWLPMADRLAGRFRSRGESFDDLRQVAALGLVKAVDRYDPELGNAFESYAVPTITGE 115 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAIT-DNNLKPEQVVAIAKKLNVS 169 ++ + W+L + R LR R++ Q ++ + +P V IA+ ++S Sbjct: 116 IKRHFRDHMWTL-------HVPRRVQELRNRVRSASQDLSLSGSGRPPTVAEIAEHADLS 168 Query: 170 ESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E +V + L SL+A + S D S D L D ++++E + R Sbjct: 169 EEDVRTGQGALDSFTALSLDAELTSGDDGYS-LGDTLGA-PDPALDTVVDREAVRER--- 223 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ L RE+ I R + +T ++++E +S+ V ++ +R +++E + + Sbjct: 224 ----LAALPEREQAILYMRFFGD--MTQSSIAAELGISQMHVSRLISRCCGRIREQVMRD 277 >gi|218548541|ref|YP_002382332.1| flagellar biosynthesis sigma factor [Escherichia fergusonii ATCC 35469] gi|218356082|emb|CAQ88699.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia fergusonii ATCC 35469] gi|324113640|gb|EGC07615.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia fergusonii B253] gi|325496958|gb|EGC94817.1| flagellar biosynthesis sigma factor [Escherichia fergusonii ECD227] Length = 238 Score = 39.3 bits (90), Expect = 0.76, Method: Compositional matrix adjust. Identities = 51/236 (21%), Positives = 105/236 (44%), Gaps = 37/236 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV ++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + A + + + G L+ N +V AK+L +S E M Sbjct: 84 RSRDWAPRSVRRNARE------VAQAIGQLEQELGRNASETEV---AKRLGISTEEYRQM 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS---MS 233 L+++++ + +W +H +++ E+ ++ N + L S Sbjct: 135 ------------LLDTNNSQLFSYDEW-REEHGDSAELITEEHQQANPLHQLLESDLRQQ 181 Query: 234 VLNPRERRIFEARRL-----QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 V++ E R+ E +L + + L+ + + EV RV Q+ ++A K+++ + Sbjct: 182 VMDAIE-RLPEREKLVLTLYYQEELNLKEIGAVLEVGESRVSQLHSQAIKRLRSKL 236 >gi|153812846|ref|ZP_01965514.1| hypothetical protein RUMOBE_03253 [Ruminococcus obeum ATCC 29174] gi|149831058|gb|EDM86147.1| hypothetical protein RUMOBE_03253 [Ruminococcus obeum ATCC 29174] Length = 107 Score = 39.3 bits (90), Expect = 0.77, Method: Compositional matrix adjust. Identities = 26/95 (27%), Positives = 49/95 (51%), Gaps = 2/95 (2%) Query: 42 REH-GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 R H GD A L + L+ +A + G G + ++ G+IGL++AV KFD + Sbjct: 11 RAHQGDKEARDILFHENTGLIYSVAHRFLGRGAEMEDLFQIGSIGLLKAVDKFDLSYDVK 70 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +TY++ I ++ + LR ++K+ + +K + Sbjct: 71 FSTYAVPMIAGEIKRF-LRDDGMLKVSRSIKRKSI 104 >gi|15618277|ref|NP_224562.1| RNA polymerase sigma factor sigma-28 [Chlamydophila pneumoniae CWL029] gi|15835895|ref|NP_300419.1| RNA polymerase sigma factor sigma-28 [Chlamydophila pneumoniae J138] gi|16752677|ref|NP_444944.1| RNA polymerase sigma factor sigma-28 [Chlamydophila pneumoniae AR39] gi|33241705|ref|NP_876646.1| RNA polymerase sigma factor sigma-28 [Chlamydophila pneumoniae TW-183] gi|4376638|gb|AAD18506.1| Sigma-28/WhiG Family [Chlamydophila pneumoniae CWL029] gi|7189319|gb|AAF38240.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pneumoniae AR39] gi|8978734|dbj|BAA98570.1| sigma-28/WhiG family [Chlamydophila pneumoniae J138] gi|33236214|gb|AAP98303.1| transcription initiation factor sigmaD protein [Chlamydophila pneumoniae TW-183] gi|269303237|gb|ACZ33337.1| RNA polymerase sigma factor, FliA [Chlamydophila pneumoniae LPCoLN] Length = 257 Score = 39.3 bits (90), Expect = 0.79, Method: Compositional matrix adjust. Identities = 51/222 (22%), Positives = 106/222 (47%), Gaps = 23/222 (10%) Query: 72 GLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKI 126 G+P ++ + G GL++AV++++PER R Y+++ IKAA+ + + + W + Sbjct: 46 GMPSHVKTEDLYASGVEGLVRAVERYNPERSRRFEGYAVFLIKAAIIDDLRKQDWVPRSV 105 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS--MNCRLAGDE 184 AN +L G + ++ + K + + + LN+S+ E+ ++ R A Sbjct: 106 HQKAN---------KLSGAMDSLRQSLGKEPTDLELCEYLNISQQELSGWFVSARPALIV 156 Query: 185 SLNALINS-SDKNSSQWQDWLVYDHDGQEQV-LIEKEERKNRRNMLTRSMSVLNPRERRI 242 SLN S SD+ + + + D + +++K+E L ++ L +ER++ Sbjct: 157 SLNEEWPSQSDEGAGMALEERIPDERAETGYDVVDKQEFS---LCLANAIQELEEKERKV 213 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +E + L+ + VS RV QI ++A K++ ++ Sbjct: 214 MALYYYEE--LVLKEIGKVLGVSESRVSQIHSKALLKLRAAL 253 >gi|117924589|ref|YP_865206.1| sigma-70 region 4 domain-containing protein [Magnetococcus sp. MC-1] gi|117608345|gb|ABK43800.1| sigma-70 region 4 domain protein [Magnetococcus sp. MC-1] Length = 187 Score = 39.3 bits (90), Expect = 0.79, Method: Compositional matrix adjust. Identities = 26/70 (37%), Positives = 45/70 (64%), Gaps = 3/70 (4%) Query: 224 RRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +R ML R+M L+ RE ++ R EN + E+++ +++RERVR IEA+A KK++ Sbjct: 121 KRIMLGRAMQHLSAREAQVVNMR--MEN-LRYEDVAKVMKITRERVRIIEAKASKKIKAV 177 Query: 284 IQKQVELSSS 293 I++ E S++ Sbjct: 178 IEQIKESSTT 187 >gi|333003010|gb|EGK22564.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri VA-6] Length = 239 Score = 39.3 bits (90), Expect = 0.80, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 101/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|331657967|ref|ZP_08358929.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA206] gi|331056215|gb|EGI28224.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA206] Length = 239 Score = 39.3 bits (90), Expect = 0.80, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 102/221 (46%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ +L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIEMLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|182412226|ref|YP_001817292.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Opitutus terrae PB90-1] gi|177839440|gb|ACB73692.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Opitutus terrae PB90-1] Length = 262 Score = 39.3 bits (90), Expect = 0.80, Method: Compositional matrix adjust. Identities = 34/140 (24%), Positives = 60/140 (42%), Gaps = 40/140 (28%) Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKR 134 ++ S G GL+ AV+KFDPE+G A+Y+ I+ A+ + + R W +R Sbjct: 59 DDLYSVGVTGLIAAVRKFDPEQGCTFASYAAMRIRGAVLDELRRMDWC---------PRR 109 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 R+LK E ++ + +KL R A DE + + + + Sbjct: 110 ARARSRKLK-------------ETIIEVEQKLG-----------RAASDEEICSALGLTQ 145 Query: 195 KNSSQWQD------WLVYDH 208 K+ ++W + +L DH Sbjct: 146 KDYAKWVEDARPVTFLAIDH 165 >gi|94968665|ref|YP_590713.1| sigma 28 [Candidatus Koribacter versatilis Ellin345] gi|94550715|gb|ABF40639.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Candidatus Koribacter versatilis Ellin345] Length = 262 Score = 39.3 bits (90), Expect = 0.80, Method: Compositional matrix adjust. Identities = 47/223 (21%), Positives = 93/223 (41%), Gaps = 33/223 (14%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTAN 131 +PI ++++ G +GL+ A K+D E+ + +Y+ + I+ A+ + + WS Sbjct: 44 VPIEDLINAGILGLIDAAGKYDSEKNVQFQSYAKFRIRGAILDSLRDLDWS--------- 94 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + L R L+ +T P +A++L + + L G Sbjct: 95 PRDLRRKARALEAAELRLTSETGHPPLEDELARELGMDLDGFRELTRELEG--------- 145 Query: 192 SSDKNSSQWQDWLVYDHDGQE-QVLIEKEE--------RKNRRNMLTRSMSVLNPRERRI 242 S Q+ L + G+E +V++E E R +L ++ L RER++ Sbjct: 146 ---LGISSLQEGLPAEGFGEEREVVVESHEESPLDAFLRSENHELLVEAIEQLPARERQV 202 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +E +T++ + V RV QI ++A +V+ +Q Sbjct: 203 LALYYFEE--LTMKEVGDVLGVGESRVSQIHSQALTRVRARLQ 243 >gi|226310092|ref|YP_002769986.1| RNA polymerase sigma-B factor [Brevibacillus brevis NBRC 100599] gi|226093040|dbj|BAH41482.1| RNA polymerase sigma-B factor [Brevibacillus brevis NBRC 100599] Length = 262 Score = 39.3 bits (90), Expect = 0.81, Method: Compositional matrix adjust. Identities = 64/267 (23%), Positives = 122/267 (45%), Gaps = 41/267 (15%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDP--ERG 98 Y E D + +LV ++ LV +A + + ++V G IGL+ + ++FDP ER Sbjct: 22 YGETKDPTIQEQLVRAYTPLVESLAKKFVRGQVMYEDLVQVGLIGLLASFRRFDPSFERT 81 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 F ++++ I ++ YI ++WS + K L ++R+ + +T + Sbjct: 82 FE--SFAIPTIVGEIKRYIRDKTWS---VYVPRRVKELSPKIKRV---VDELTIKLQRSP 133 Query: 158 QVVAIAKKLNVSES---EVISMN---CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 Q+ IA L VSE E + M L+ D L A + D N+ D + +G Sbjct: 134 QIADIANSLGVSEEAILETLEMGRSYHSLSMDSELEADL---DGNTISLLDLVGTMEEGY 190 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE-----FEVSR 266 V + ML R++ +L+ RE+ I + Q NLS + +S+ Sbjct: 191 GAV--------EQNLMLERALQILDHREKEIIQLTFYQ-------NLSQKQAGDIMGMSQ 235 Query: 267 ERVRQIEARAFKKVQESIQ-KQVELSS 292 + +++ RA K++E+++ +Q+E ++ Sbjct: 236 MHISRLQRRALGKLREALRVEQLETAT 262 >gi|318075206|ref|ZP_07982538.1| sigma factor [Streptomyces sp. SA3_actF] Length = 293 Score = 39.3 bits (90), Expect = 0.81, Method: Compositional matrix adjust. Identities = 19/65 (29%), Positives = 36/65 (55%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV + L + +IA YRG G + ++ +GL++AV +FDPE TY++ ++ Sbjct: 41 LVEAWLPMAHRIAGRYRGRGESLEDLCQVAALGLLRAVDRFDPEVSDAFETYAVPTMQGE 100 Query: 113 MQEYI 117 ++ + Sbjct: 101 LKRHF 105 >gi|229587513|ref|YP_002860551.1| putative sporulation sigma factor SigK [Clostridium botulinum Ba4 str. 657] gi|229260138|gb|ACQ51175.1| putative sporulation sigma factor SigK [Clostridium botulinum Ba4 str. 657] Length = 271 Score = 39.3 bits (90), Expect = 0.81, Method: Compositional matrix adjust. Identities = 46/221 (20%), Positives = 96/221 (43%), Gaps = 31/221 (14%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW----SLVKIG 127 G+ +++ + +G ++A++KFD +G L+TY+ M+ YIL S +++K+ Sbjct: 64 GMEFDDLLIDAKLGFLKALEKFDINKGNALSTYAT----HCMRNYILNSIRVNNNMIKLS 119 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 + KR+ + ++ K ++ + N K N+ N RL Sbjct: 120 SREVNKRIKLS-KKFKANI--LNKGNYKFN--------YNIYNKIFSQHNVRLIDTHEYQ 168 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF--EA 245 + ++ NSS Q+ E++ +EKE+++ + ++ +L+ E I Sbjct: 169 SYLD----NSSIEQEI------SSEEMFMEKEQKRFNTRQIISALKILDKTELFIIVHYF 218 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + TL LS + E R+I+ +A K++ +K Sbjct: 219 GLFNKKKRTLRELSKRLNIGYENTRKIKGKALSKIECYFKK 259 >gi|326332685|ref|ZP_08198948.1| putative stress response/stationary phase sigma factor SigF [Nocardioidaceae bacterium Broad-1] gi|325949513|gb|EGD41590.1| putative stress response/stationary phase sigma factor SigF [Nocardioidaceae bacterium Broad-1] Length = 176 Score = 38.9 bits (89), Expect = 0.82, Method: Compositional matrix adjust. Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 1/61 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL + +A Y G G+ + ++ +GL++A +++DPE+G L +Y++ K Sbjct: 18 LVVRHLPVARSLAARYSGRGIEVEDLRQAARMGLVKAARRYDPEQGAFL-SYAVPMAKGE 76 Query: 113 M 113 M Sbjct: 77 M 77 >gi|326389454|ref|ZP_08211021.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacter ethanolicus JW 200] gi|325994459|gb|EGD52884.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacter ethanolicus JW 200] Length = 246 Score = 38.9 bits (89), Expect = 0.83, Method: Compositional matrix adjust. Identities = 56/256 (21%), Positives = 114/256 (44%), Gaps = 37/256 (14%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE---VVSEGNIGLMQAVKKFDP 95 K Y + D + + ++ ++ LV I + SE ++++G IGL+ A++K+ P Sbjct: 10 KTYNSNKDPNLRNEIIIKYMPLVKHIVKKLIISDITQSEYEDLINQGVIGLIDAIEKYQP 69 Query: 96 ERGFRLATYSMWWIKAAMQEYILR-SW-------SLVKIGTTANQKRLFFNLRRLKGHLQ 147 +G + TY+ I+ + +Y+ R W KI T + +N + ++ Sbjct: 70 SKGVKFETYATLRIRGEIIDYLRRKDWMPRSLKKKYKKIEETVETLQQKYN---REPTVE 126 Query: 148 AITD-NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY 206 IT+ L V+ +NV S V S+ + + L+A+ N KN Sbjct: 127 EITEACGLNEIDVLKTLSYINV--SNVNSLEEAIENNFKLHAISNVELKNP--------- 175 Query: 207 DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 +E+VL ++ +RK L ++ L +ER + ++ + +++S ++ Sbjct: 176 ----EEEVLYKELKRK-----LASAIESLPDKERLVITLYYYED--LNYKDISKILNLTE 224 Query: 267 ERVRQIEARAFKKVQE 282 R+ QI +A K+++E Sbjct: 225 SRISQIHTKAIKRIRE 240 >gi|307152337|ref|YP_003887721.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Cyanothece sp. PCC 7822] gi|306982565|gb|ADN14446.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 7822] Length = 257 Score = 38.9 bits (89), Expect = 0.84, Method: Compositional matrix adjust. Identities = 41/180 (22%), Positives = 85/180 (47%), Gaps = 11/180 (6%) Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P ++ G +GL++A+++F+P++G +++++ +++ + Y+ S+++I + Sbjct: 53 PYEDLEQVGYLGLIRAIERFNPQQGCAFSSFAIPYVRGEILHYLRDRGSVMRI--PRRWQ 110 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L+ ++L+ L K + IA+ L VS E C+LA N L+ S Sbjct: 111 DLYTKGKKLRKQLAQTLGRQPKESE---IAQALGVSYQE--WNECQLALQ---NRLLVSL 162 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEER-KNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 D +Q D ++ D + ++R + R L R+MS L + + E L + P Sbjct: 163 DATINQVHDGVITFGDTLPDPKSQGQQRMQEDRLQLQRAMSQLEDKTKAAIECVFLWDLP 222 >gi|91211141|ref|YP_541127.1| flagellar biosynthesis sigma factor [Escherichia coli UTI89] gi|117624064|ref|YP_852977.1| flagellar biosynthesis sigma factor [Escherichia coli APEC O1] gi|218558780|ref|YP_002391693.1| flagellar biosynthesis sigma factor [Escherichia coli S88] gi|237705878|ref|ZP_04536359.1| flagellar biosynthesis sigma factor FliA [Escherichia sp. 3_2_53FAA] gi|91072715|gb|ABE07596.1| flagellar biosynthesis; alternative sigma factor 28; regulation of flagellar operons [Escherichia coli UTI89] gi|115513188|gb|ABJ01263.1| flagellar biosynthesis sigma factor FliA [Escherichia coli APEC O1] gi|218365549|emb|CAR03276.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli S88] gi|226900635|gb|EEH86894.1| flagellar biosynthesis sigma factor FliA [Escherichia sp. 3_2_53FAA] gi|294492788|gb|ADE91544.1| flagellar operon sigma factor FliA [Escherichia coli IHE3034] gi|323952417|gb|EGB48290.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H252] gi|323956319|gb|EGB52062.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H263] Length = 239 Score = 38.9 bits (89), Expect = 0.84, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 101/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMETIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|238794024|ref|ZP_04637642.1| RNA polymerase sigma factor for flagellar operon [Yersinia intermedia ATCC 29909] gi|238726656|gb|EEQ18192.1| RNA polymerase sigma factor for flagellar operon [Yersinia intermedia ATCC 29909] Length = 240 Score = 38.9 bits (89), Expect = 0.84, Method: Compositional matrix adjust. Identities = 47/218 (21%), Positives = 94/218 (43%), Gaps = 38/218 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + N R + +Q + +P EQ VA ++++E I ++ N Sbjct: 92 SVRRNAREVASAMQKVEQRVGRPATEQEVAQILDIDLAEYRQILLDTN-----------N 140 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRRNMLTRSMSVLNPRERRI 242 S + +W++ +H + L+E E N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWRE----EHGESVEPLLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMV 196 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 197 LTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|300928953|ref|ZP_07144457.1| flagellar biosynthesis sigma factor [Escherichia coli MS 187-1] gi|300463107|gb|EFK26600.1| flagellar biosynthesis sigma factor [Escherichia coli MS 187-1] Length = 229 Score = 38.9 bits (89), Expect = 0.86, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 102/221 (46%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 31 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 89 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 90 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 130 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ +L RE+ + Sbjct: 131 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIEMLPEREKLVLTL 189 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 190 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|33322911|gb|AAQ07192.1|AF496500_1 RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. lactis] Length = 141 Score = 38.9 bits (89), Expect = 0.86, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 3/60 (5%) Query: 225 RNMLTRSMS-VLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L+ M L RE ++ + R EN P TLE + V+RERVRQIEA+A KK++ Sbjct: 69 KDQLSSMMGEFLTDREAKVLKLRFGLENDEPHTLEEVGRSLGVTRERVRQIEAKAVKKLK 128 >gi|3249719|gb|AAC26662.1| RNA polymerase sigma-like factor [Streptomyces lividans TK24] Length = 162 Score = 38.9 bits (89), Expect = 0.89, Method: Compositional matrix adjust. Identities = 46/175 (26%), Positives = 75/175 (42%), Gaps = 18/175 (10%) Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 Y+ WWI+ AM + +++ + L + R++ + P++V A Sbjct: 1 YATWWIRQAMSRALADQARTIRVPVHVVE--LINRVVRVQRRMLQERGCEPTPQEV---A 55 Query: 164 KKLNVSESEVISMNCRLAGDE-SLNALINSSDKNSSQWQDWLVYD--HDGQEQVLIEKEE 220 L+++ E + RLA + SL+A + D D + D DG +E Sbjct: 56 AHLDLA-PERVGEVLRLAQEPVSLHAPVGEED-------DVALGDLIEDGDAASPVESAA 107 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIE 273 R L +S L RER++ + R P TLE + F V+RER+RQIE Sbjct: 108 FLLLRQHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIE 162 >gi|1588993|prf||2209422A fliA gene Length = 237 Score = 38.9 bits (89), Expect = 0.89, Method: Compositional matrix adjust. Identities = 48/234 (20%), Positives = 97/234 (41%), Gaps = 43/234 (18%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I + E Sbjct: 28 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIAPMLDELR 82 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 R W+ +R+ N R + +Q + P +A+ L++ +E + Sbjct: 83 QRDWA---------PRRIRRNAREVASAMQKVEQRLGAPATEQEVAQNLDIDLTEYRQI- 132 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L+++++ + +W +H + ++E E N L N Sbjct: 133 -----------LLDTNNSQLFSYDEW-REEHGRTVEPMLEGHEDANPLQHLLEG----NL 176 Query: 238 RERRIFEARRLQE-----------NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+ R+ EA L E + L+ + + EV RV Q+ ++A K++ Sbjct: 177 RQ-RVIEAEALPEREKMVLTLYYQEELNLKEIGAVLEVGESRVSQLHSQAIKRL 229 >gi|238758082|ref|ZP_04619262.1| RNA polymerase sigma factor for flagellar operon [Yersinia aldovae ATCC 35236] gi|238703620|gb|EEP96157.1| RNA polymerase sigma factor for flagellar operon [Yersinia aldovae ATCC 35236] Length = 240 Score = 38.9 bits (89), Expect = 0.90, Method: Compositional matrix adjust. Identities = 47/233 (20%), Positives = 100/233 (42%), Gaps = 39/233 (16%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + +Q + +P +A+ L++ SE + Sbjct: 84 RSRDWA---------PRSVRRNAREVATAMQKVEQRVGRPATEQEVAQTLDIELSEYRQI 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRRNM 227 L+++++ + +W +H + L+E E N R Sbjct: 135 ------------LLDTNNSQLFSYDEWR-EEHGESVEPLLEGHEDANPLQHLLEGNLRQR 181 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ L RE+ + +E + L+ + + +V RV Q+ ++A K++ Sbjct: 182 VIDAIEALPDREKMVLTLYYQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRL 232 >gi|158334762|ref|YP_001515934.1| hypothetical protein AM1_1596 [Acaryochloris marina MBIC11017] gi|158305003|gb|ABW26620.1| hypothetical protein AM1_1596 [Acaryochloris marina MBIC11017] Length = 51 Score = 38.9 bits (89), Expect = 0.90, Method: Composition-based stats. Identities = 14/28 (50%), Positives = 23/28 (82%) Query: 78 VVSEGNIGLMQAVKKFDPERGFRLATYS 105 ++ EG IGL ++V+KFDP +G+R +TY+ Sbjct: 23 LIQEGTIGLRRSVEKFDPTKGYRFSTYA 50 >gi|220927856|ref|YP_002504765.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium cellulolyticum H10] gi|219998184|gb|ACL74785.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium cellulolyticum H10] Length = 249 Score = 38.9 bits (89), Expect = 0.90, Method: Compositional matrix adjust. Identities = 18/94 (19%), Positives = 47/94 (50%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E L +Y G+L + +V+++L L ++ + G+ ++ + L+ AV++ Sbjct: 12 DEVQLFSQYISTGNLEYRNEIVSNYLSLAEYLSKKFLNRGVDFDDIYQVACLALINAVER 71 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 F P++G + +++ I ++ + + +KI Sbjct: 72 FSPDKGVKFISFATPTILGEIKRFFRDKSTTIKI 105 >gi|5327289|emb|CAB46360.1| FliA, sigma 28 [Xenorhabdus nematophila] gi|139522465|gb|ABO77651.1| FliA [Xenorhabdus nematophila] Length = 230 Score = 38.9 bits (89), Expect = 0.92, Method: Compositional matrix adjust. Identities = 52/230 (22%), Positives = 99/230 (43%), Gaps = 33/230 (14%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV++FD +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERFDSMQGTAFTTYAVQRIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS N + + +R+L+ L EQ VA K+N+ E I Sbjct: 73 LRSRDWAPRSVRRNAREVTQTIRKLEQEL-----GRPASEQEVAKELKINLIEYRQI--- 124 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM--SVL 235 L+++++ + +W + E V+ E+ E + +L + V+ Sbjct: 125 -----------LLDTNNSQLFSYDEWHEIHGESCEPVIEEEHETNPLQQLLEGDLRQRVI 173 Query: 236 N-----PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 N P ++ QE + L+ + + V RV Q+ ++A K++ Sbjct: 174 NIIESLPEREKMVLTLYYQEE-LNLKEIGAVLNVGESRVSQLHSQAIKRL 222 >gi|282854097|ref|ZP_06263434.1| sigma-70, region 4 [Propionibacterium acnes J139] gi|282583550|gb|EFB88930.1| sigma-70, region 4 [Propionibacterium acnes J139] gi|314923070|gb|EFS86901.1| sigma-70, region 4 [Propionibacterium acnes HL001PA1] gi|314966840|gb|EFT10939.1| sigma-70, region 4 [Propionibacterium acnes HL082PA2] gi|314981182|gb|EFT25276.1| sigma-70, region 4 [Propionibacterium acnes HL110PA3] gi|315092002|gb|EFT63978.1| sigma-70, region 4 [Propionibacterium acnes HL110PA4] gi|315093239|gb|EFT65215.1| sigma-70, region 4 [Propionibacterium acnes HL060PA1] gi|315103504|gb|EFT75480.1| sigma-70, region 4 [Propionibacterium acnes HL050PA2] gi|327327666|gb|EGE69442.1| RNA polymerase sigma factor [Propionibacterium acnes HL103PA1] Length = 270 Score = 38.9 bits (89), Expect = 0.93, Method: Compositional matrix adjust. Identities = 19/67 (28%), Positives = 39/67 (58%), Gaps = 6/67 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V +H R + A+ YR + +++ G +GL +A++++D RG R +T + WI+ Sbjct: 71 IVLTHAR---QAAVSYR---CSVEDLIQAGCVGLGEAIERYDVRRGARFSTVAWTWIRRR 124 Query: 113 MQEYILR 119 + E ++R Sbjct: 125 IGEEVVR 131 >gi|123442749|ref|YP_001006726.1| flagellar biosynthesis sigma factor [Yersinia enterocolitica subsp. enterocolitica 8081] gi|332161358|ref|YP_004297935.1| flagellar biosynthesis sigma factor [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|122089710|emb|CAL12562.1| RNA polymerase sigma factor for flagellar operon [Yersinia enterocolitica subsp. enterocolitica 8081] gi|318605283|emb|CBY26781.1| RNA polymerase sigma factor for flagellar operon [Yersinia enterocolitica subsp. palearctica Y11] gi|325665588|gb|ADZ42232.1| flagellar biosynthesis sigma factor [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330859514|emb|CBX69857.1| RNA polymerase sigma factor for flagellar operon [Yersinia enterocolitica W22703] Length = 240 Score = 38.9 bits (89), Expect = 0.93, Method: Compositional matrix adjust. Identities = 46/232 (19%), Positives = 99/232 (42%), Gaps = 37/232 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + +Q + +P +A+ L++ +E + Sbjct: 84 RSRDWA---------PRSVRRNAREVASAMQKVEQRLGRPATEQEVAQNLDIDLTEYRQI 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE--------RKNRRNML 228 L+++++ + +W + E +L E+ N R + Sbjct: 135 ------------LLDTNNSQLFSYDEWREEHGESVEPMLEGHEDANPLQHLLEGNLRQRV 182 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K++ Sbjct: 183 IEAIEALPEREKMVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|160896045|ref|YP_001561627.1| RNA polymerase sigma 28 subunit FliA/WhiG [Delftia acidovorans SPH-1] gi|160361629|gb|ABX33242.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Delftia acidovorans SPH-1] Length = 237 Score = 38.9 bits (89), Expect = 0.93, Method: Compositional matrix adjust. Identities = 53/233 (22%), Positives = 106/233 (45%), Gaps = 18/233 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ H+ LV +IA+ P + +++ G IGL +A+ +F+ E+G + T++ I Sbjct: 13 LIRRHVPLVRRIALHMIAKLPPNVELDDLIQVGMIGLAEALSRFESEQGVQFETFASQRI 72 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM + LR + + +QK + L RL+ Q + L+ E IA +L + Sbjct: 73 RGAMLDE-LREGDWMSRSSRKSQKDIEHALHRLE---QRLGRTPLESE----IADELGMD 124 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR-RNML 228 + S+ ++ G + + S + + V D L+ R +R R L Sbjct: 125 LDDYQSLLGKVRGTQLVYLEDMSGGDEGEDFLERHVADSGADPFALL----RDHRLRVAL 180 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L RE+ I E+ + L+ +++ V+ RV Q+ ++A +++ Sbjct: 181 VEAIKALPEREQYIMGM--YYEHDMNLKEIAAVLGVTESRVCQLHSQAIARLR 231 >gi|300935898|ref|ZP_07150854.1| flagellar biosynthesis sigma factor [Escherichia coli MS 21-1] gi|300458917|gb|EFK22410.1| flagellar biosynthesis sigma factor [Escherichia coli MS 21-1] gi|307626601|gb|ADN70905.1| flagellar biosynthesis sigma factor [Escherichia coli UM146] gi|315286624|gb|EFU46057.1| flagellar biosynthesis sigma factor [Escherichia coli MS 110-3] Length = 229 Score = 38.9 bits (89), Expect = 0.94, Method: Compositional matrix adjust. Identities = 51/238 (21%), Positives = 108/238 (45%), Gaps = 37/238 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L + ++ M Sbjct: 73 LRSRDWVPRSVRRNAREVAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM- 124 Query: 178 CRLAGDESLNALINSSDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNML 228 L+++++ + +W LV D D Q + +++ N R + Sbjct: 125 -----------LLDTNNSQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRV 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 173 METIETLPEREKLVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|238798562|ref|ZP_04642039.1| RNA polymerase sigma factor for flagellar operon [Yersinia mollaretii ATCC 43969] gi|238717582|gb|EEQ09421.1| RNA polymerase sigma factor for flagellar operon [Yersinia mollaretii ATCC 43969] Length = 240 Score = 38.9 bits (89), Expect = 0.94, Method: Compositional matrix adjust. Identities = 44/216 (20%), Positives = 92/216 (42%), Gaps = 34/216 (15%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + +Q + +P +AK L++ E + L++++ Sbjct: 92 SVRRNAREVASAMQQVEQRVGRPATEQEVAKILDIDLVEYRQI------------LLDTN 139 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRRNMLTRSMSVLNPRERRIFE 244 + + +W +H + L+E E N R + ++ L RE+ + Sbjct: 140 NSQLFSYDEWR-EEHGESVEPLLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLT 198 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 199 LYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|15802357|ref|NP_288383.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 EDL933] gi|15831915|ref|NP_310688.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. Sakai] gi|26248189|ref|NP_754229.1| flagellar biosynthesis sigma factor [Escherichia coli CFT073] gi|49176170|ref|NP_416432.3| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. MG1655] gi|74311731|ref|YP_310150.1| flagellar biosynthesis sigma factor [Shigella sonnei Ss046] gi|89108757|ref|AP_002537.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. W3110] gi|110642027|ref|YP_669757.1| flagellar biosynthesis sigma factor [Escherichia coli 536] gi|157158016|ref|YP_001463226.1| flagellar biosynthesis sigma factor [Escherichia coli E24377A] gi|170019740|ref|YP_001724694.1| flagellar biosynthesis sigma factor [Escherichia coli ATCC 8739] gi|170081570|ref|YP_001730890.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. DH10B] gi|170684004|ref|YP_001743321.1| flagellar biosynthesis sigma factor [Escherichia coli SMS-3-5] gi|187776391|ref|ZP_02802353.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4196] gi|188025223|ref|ZP_02776870.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4113] gi|189010650|ref|ZP_02808323.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4076] gi|189402557|ref|ZP_02783240.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4401] gi|189403603|ref|ZP_02796533.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4486] gi|189404441|ref|ZP_02789463.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4501] gi|189405427|ref|ZP_02815329.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC869] gi|189406256|ref|ZP_02827273.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC508] gi|191168296|ref|ZP_03030089.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B7A] gi|191173335|ref|ZP_03034865.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli F11] gi|193066383|ref|ZP_03047431.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E22] gi|193071158|ref|ZP_03052082.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E110019] gi|194429934|ref|ZP_03062444.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B171] gi|194439580|ref|ZP_03071653.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 101-1] gi|208810387|ref|ZP_03252263.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4206] gi|209399914|ref|YP_002271036.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4115] gi|209919344|ref|YP_002293428.1| flagellar biosynthesis sigma factor [Escherichia coli SE11] gi|215487127|ref|YP_002329558.1| flagellar biosynthesis sigma factor [Escherichia coli O127:H6 str. E2348/69] gi|218554506|ref|YP_002387419.1| flagellar biosynthesis sigma factor [Escherichia coli IAI1] gi|218689915|ref|YP_002398127.1| flagellar biosynthesis sigma factor [Escherichia coli ED1a] gi|218695529|ref|YP_002403196.1| flagellar biosynthesis sigma factor [Escherichia coli 55989] gi|218699514|ref|YP_002407143.1| flagellar biosynthesis sigma factor [Escherichia coli IAI39] gi|218705417|ref|YP_002412936.1| flagellar biosynthesis sigma factor [Escherichia coli UMN026] gi|238901131|ref|YP_002926927.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli BW2952] gi|253773125|ref|YP_003035956.1| flagellar biosynthesis sigma factor [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254793572|ref|YP_003078409.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. TW14359] gi|260844326|ref|YP_003222104.1| RNA polymerase, sigma 28 factor [Escherichia coli O103:H2 str. 12009] gi|260855902|ref|YP_003229793.1| RNA polymerase, sigma 28 factor [Escherichia coli O26:H11 str. 11368] gi|260868514|ref|YP_003234916.1| RNA polymerase, sigma 28 factor [Escherichia coli O111:H- str. 11128] gi|291283099|ref|YP_003499917.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O55:H7 str. CB9615] gi|293405408|ref|ZP_06649400.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1412] gi|293410281|ref|ZP_06653857.1| conserved hypothetical protein [Escherichia coli B354] gi|293446304|ref|ZP_06662726.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B088] gi|298381052|ref|ZP_06990651.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1302] gi|307314171|ref|ZP_07593781.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Escherichia coli W] gi|312967123|ref|ZP_07781341.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 2362-75] gi|312973866|ref|ZP_07788038.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1827-70] gi|331642544|ref|ZP_08343679.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H736] gi|331668616|ref|ZP_08369464.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA271] gi|331673440|ref|ZP_08374208.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA280] gi|331677807|ref|ZP_08378482.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H591] gi|331683474|ref|ZP_08384075.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H299] gi|332278907|ref|ZP_08391320.1| transcription initiation factor alternative sigma factor 28 [Shigella sp. D9] gi|84028136|sp|P0AEM8|FLIA_ECO57 RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|84028137|sp|P0AEM7|FLIA_ECOL6 RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|84028138|sp|P0AEM6|FLIA_ECOLI RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|12516023|gb|AAG56937.1|AE005415_2 flagellar biosynthesis; alternative sigma factor 28; regulation of flagellar operons [Escherichia coli O157:H7 str. EDL933] gi|26108593|gb|AAN80796.1|AE016762_49 RNA polymerase sigma factor for flagellar operon [Escherichia coli CFT073] gi|556180|gb|AAC37011.1| sigma factor 28 [Escherichia coli] gi|687650|gb|AAC43543.1| sigma F [Escherichia coli] gi|1736581|dbj|BAA15742.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K12 substr. W3110] gi|1788231|gb|AAC74989.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. MG1655] gi|13362129|dbj|BAB36084.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli O157:H7 str. Sakai] gi|73855208|gb|AAZ87915.1| alternative sigma factor 28 [Shigella sonnei Ss046] gi|110343619|gb|ABG69856.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 536] gi|157080046|gb|ABV19754.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E24377A] gi|169754668|gb|ACA77367.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli ATCC 8739] gi|169889405|gb|ACB03112.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. DH10B] gi|170521722|gb|ACB19900.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli SMS-3-5] gi|187767374|gb|EDU31218.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4196] gi|188014157|gb|EDU52279.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4113] gi|188999325|gb|EDU68311.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4076] gi|189354876|gb|EDU73295.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4401] gi|189359713|gb|EDU78132.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4486] gi|189365564|gb|EDU83980.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4501] gi|189370194|gb|EDU88610.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC869] gi|189375693|gb|EDU94109.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC508] gi|190901668|gb|EDV61424.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B7A] gi|190906452|gb|EDV66061.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli F11] gi|192925968|gb|EDV80614.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E22] gi|192955553|gb|EDV86032.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E110019] gi|194412023|gb|EDX28335.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B171] gi|194421489|gb|EDX37503.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 101-1] gi|208724903|gb|EDZ74610.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4206] gi|209161314|gb|ACI38747.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4115] gi|209748392|gb|ACI72503.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli] gi|209748394|gb|ACI72504.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli] gi|209748396|gb|ACI72505.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli] gi|209912603|dbj|BAG77677.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli SE11] gi|215265199|emb|CAS09588.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli O127:H6 str. E2348/69] gi|218352261|emb|CAU98017.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli 55989] gi|218361274|emb|CAQ98858.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli IAI1] gi|218369500|emb|CAR17267.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli IAI39] gi|218427479|emb|CAR08375.2| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli ED1a] gi|218432514|emb|CAR13407.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli UMN026] gi|222033663|emb|CAP76404.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli LF82] gi|238863498|gb|ACR65496.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli BW2952] gi|253324169|gb|ACT28771.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254592972|gb|ACT72333.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli O157:H7 str. TW14359] gi|257754551|dbj|BAI26053.1| RNA polymerase, sigma 28 factor [Escherichia coli O26:H11 str. 11368] gi|257759473|dbj|BAI30970.1| RNA polymerase, sigma 28 factor [Escherichia coli O103:H2 str. 12009] gi|257764870|dbj|BAI36365.1| RNA polymerase, sigma 28 factor [Escherichia coli O111:H- str. 11128] gi|260448961|gb|ACX39383.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli DH1] gi|284921835|emb|CBG34908.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 042] gi|290762972|gb|ADD56933.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O55:H7 str. CB9615] gi|291323134|gb|EFE62562.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B088] gi|291427616|gb|EFF00643.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1412] gi|291470749|gb|EFF13233.1| conserved hypothetical protein [Escherichia coli B354] gi|298278494|gb|EFI20008.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1302] gi|306906140|gb|EFN36658.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Escherichia coli W] gi|307553936|gb|ADN46711.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli ABU 83972] gi|309702217|emb|CBJ01534.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli ETEC H10407] gi|310332461|gb|EFP99696.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1827-70] gi|312288587|gb|EFR16489.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 2362-75] gi|315061222|gb|ADT75549.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli W] gi|315617855|gb|EFU98453.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 3431] gi|320191897|gb|EFW66544.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC1212] gi|320194366|gb|EFW68997.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli WV_060327] gi|320198616|gb|EFW73216.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli EC4100B] gi|323158594|gb|EFZ44608.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E128010] gi|323165278|gb|EFZ51066.1| RNA polymerase sigma factor for flagellar operon [Shigella sonnei 53G] gi|323180827|gb|EFZ66367.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1180] gi|323186802|gb|EFZ72122.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli RN587/1] gi|323378201|gb|ADX50469.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli KO11] gi|323937197|gb|EGB33477.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli E1520] gi|323940415|gb|EGB36606.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli E482] gi|323948197|gb|EGB44185.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H120] gi|323961971|gb|EGB57570.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H489] gi|323968339|gb|EGB63746.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli M863] gi|323972715|gb|EGB67916.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli TA007] gi|323977897|gb|EGB72983.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli TW10509] gi|324118976|gb|EGC12865.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli E1167] gi|326342331|gb|EGD66112.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. 1044] gi|326344837|gb|EGD68584.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. 1125] gi|327253053|gb|EGE64707.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli STEC_7v] gi|331039342|gb|EGI11562.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H736] gi|331063810|gb|EGI35721.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA271] gi|331069638|gb|EGI41025.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA280] gi|331074267|gb|EGI45587.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H591] gi|331079689|gb|EGI50886.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H299] gi|332089656|gb|EGI94758.1| RNA polymerase sigma factor for flagellar operon [Shigella boydii 5216-82] gi|332101259|gb|EGJ04605.1| transcription initiation factor alternative sigma factor 28 [Shigella sp. D9] gi|332343648|gb|AEE56982.1| RNA polymerase sigma factor for flagellar operon protein [Escherichia coli UMNK88] gi|332756073|gb|EGJ86426.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri 4343-70] gi|333003239|gb|EGK22785.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri K-218] gi|333004180|gb|EGK23712.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri K-272] gi|333017792|gb|EGK37099.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri K-227] Length = 239 Score = 38.9 bits (89), Expect = 0.94, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 101/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|302556917|ref|ZP_07309259.1| stress response/stationary phase sigma factor SigF [Streptomyces griseoflavus Tu4000] gi|302474535|gb|EFL37628.1| stress response/stationary phase sigma factor SigF [Streptomyces griseoflavus Tu4000] Length = 263 Score = 38.9 bits (89), Expect = 0.95, Method: Compositional matrix adjust. Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LVT+ L + +IA+ +RG G + ++ +GL++AV +DP RG Y++ + Sbjct: 41 LVTAWLPMAERIAVRFRGRGEALEDLYQVAALGLVKAVDHYDPARGNAFEAYAVPTVTGE 100 Query: 113 MQEYIL-RSWSL 123 ++ + W+L Sbjct: 101 IKRHFRDHMWTL 112 >gi|331653330|ref|ZP_08354335.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M718] gi|323174562|gb|EFZ60183.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli LT-68] gi|331049428|gb|EGI21500.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M718] Length = 239 Score = 38.9 bits (89), Expect = 0.95, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 101/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|229918653|ref|YP_002887299.1| RNA polymerase sigma factor SigD [Exiguobacterium sp. AT1b] gi|229470082|gb|ACQ71854.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Exiguobacterium sp. AT1b] Length = 256 Score = 38.9 bits (89), Expect = 0.95, Method: Compositional matrix adjust. Identities = 55/244 (22%), Positives = 105/244 (43%), Gaps = 19/244 (7%) Query: 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRL 101 D+ A+ L+ +H ++ + LP S E+ S G +GL A+ K+DPE + Sbjct: 17 DMDTANELL-AHYEFLIHYHVQRMIVTLPKSVERDELKSLGYMGLYDALMKYDPEHNNKF 75 Query: 102 ATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNNLKPEQVV 160 TY+ + I+ A+ + LR + K++ +L+ L A T + L Sbjct: 76 DTYAAFRIRGAIIDG-LRKVDWLPRSVREKVKKIDHVAEQLEQSLHRAPTKSEL------ 128 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE 220 A A L +SE E A S++ + ++ + D + E L+++E Sbjct: 129 ASACDLPISEIERTMAEGYFANMLSIDEAVTLQEEGKVMSVTYFDPDSEKPEDTLLQRE- 187 Query: 221 RKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++L + L+ +ER + E +TL + E+S R+ QI ++A K + Sbjct: 188 ---LIDVLAAEVDHLSEKERLVVSLFYFDE--LTLTEIGEVLELSTSRISQIHSKALKTL 242 Query: 281 QESI 284 + ++ Sbjct: 243 KHAL 246 >gi|238788344|ref|ZP_04632138.1| RNA polymerase sigma factor for flagellar operon [Yersinia frederiksenii ATCC 33641] gi|238723590|gb|EEQ15236.1| RNA polymerase sigma factor for flagellar operon [Yersinia frederiksenii ATCC 33641] Length = 240 Score = 38.9 bits (89), Expect = 0.96, Method: Compositional matrix adjust. Identities = 47/218 (21%), Positives = 94/218 (43%), Gaps = 38/218 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + N R + +Q + +P EQ VA ++++E I ++ N Sbjct: 92 SVRRNAREVASAMQKVEQRLGRPATEQEVAQILDIDLAEYRQILLDTN-----------N 140 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRRNMLTRSMSVLNPRERRI 242 S + +W++ +H + L+E E N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWRE----EHGESVEPLLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMV 196 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 197 LTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|317057764|ref|YP_004106231.1| LuxR family transcriptional regulator [Ruminococcus albus 7] gi|315450033|gb|ADU23597.1| transcriptional regulator, LuxR family [Ruminococcus albus 7] Length = 195 Score = 38.9 bits (89), Expect = 0.97, Method: Compositional matrix adjust. Identities = 21/68 (30%), Positives = 37/68 (54%), Gaps = 1/68 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R + + R+ IA G G + ++V EG + L++AV + P+RG A Y+ I+ Sbjct: 34 RYMGTAERIAAGIAPG-AGREQTVKDLVQEGMMALLRAVNSYRPDRGAGFAAYAGVCIRH 92 Query: 112 AMQEYILR 119 +M YI++ Sbjct: 93 SMLSYIMK 100 >gi|242238998|ref|YP_002987179.1| flagellar biosynthesis sigma factor [Dickeya dadantii Ech703] gi|242131055|gb|ACS85357.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dickeya dadantii Ech703] Length = 240 Score = 38.9 bits (89), Expect = 0.97, Method: Compositional matrix adjust. Identities = 50/223 (22%), Positives = 97/223 (43%), Gaps = 32/223 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS N + Sbjct: 41 LDDLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDE-LRSRDWAPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVI-SMNCRLAGDESLNALINSS 193 + +R + EQ++ A +E EV S+N L +E L++++ Sbjct: 100 VAHAMR--------------QAEQLLGRAP----TEQEVAQSLNISL--EEYRQILLDTN 139 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERK--------NRRNMLTRSMSVLNPRERRIFEA 245 + + +W D E +L EE N R + ++ L RE+ + Sbjct: 140 NSQLFSYDEWREEHGDSAEALLEGNEEANPLHQLMDVNLRQRVMEAIENLPEREKMVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +E + L+ + + EV RV Q+ ++A K+++ + V Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRVKLMNDV 240 >gi|328880523|emb|CCA53762.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 325 Score = 38.9 bits (89), Expect = 0.98, Method: Compositional matrix adjust. Identities = 39/169 (23%), Positives = 74/169 (43%), Gaps = 15/169 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV +L LV A +R ++V G +GL++A+ +FDP RG ++++ + Sbjct: 74 LVELNLSLVKYAATRFRHSSENWEDLVQVGTVGLIKAINRFDPARGNEFMSFALPTVLGE 133 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNL-KPEQVVAIAKKLNVSE 170 ++ ++ SWS+ + R LR + L +P ++ +L+++E Sbjct: 134 IRRHLRDTSWSV-------HVPRRLQELRLDVAKANDALEQELGRPPTAAELSDRLHITE 186 Query: 171 SEVISMNCRLAGD----ESLNALINSSDKNSSQWQDWLVYDHDGQEQVL 215 E+ R+A + SL+ ++ D L D D E+VL Sbjct: 187 DEL--REGRIAANGFASRSLDVPVDDEDAGPGMLARCLGSDDDAFEKVL 233 >gi|308205502|gb|ADO18992.1| RNA polymerase sigma 70 subunit [Nostoc flagelliforme str. Sunitezuoqi] Length = 165 Score = 38.9 bits (89), Expect = 0.98, Method: Compositional matrix adjust. Identities = 20/55 (36%), Positives = 31/55 (56%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 H A ++VT++LRLVV IA Y+ L +++ EG +GL + V+K R Sbjct: 76 HQGERAKQKMVTANLRLVVAIAKKYQNRNLEFLDLIQEGTLGLYRGVEKLIQTRA 130 >gi|90411040|ref|ZP_01219054.1| flagellar biosynthesis sigma factor FliA [Photobacterium profundum 3TCK] gi|90328253|gb|EAS44564.1| flagellar biosynthesis sigma factor FliA [Photobacterium profundum 3TCK] Length = 240 Score = 38.9 bits (89), Expect = 0.99, Method: Compositional matrix adjust. Identities = 52/235 (22%), Positives = 104/235 (44%), Gaps = 33/235 (14%) Query: 60 LVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 LV +IA MG + + +++ G IGL++A + +DP +G T++ I+ AM + Sbjct: 24 LVKRIAYHLMGRLPSSVQVEDLIQSGMIGLLEAQQNYDPTKGASFETFAGIRIRGAMLDD 83 Query: 117 ILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESE-- 172 I R W + ++ N RR+ + A+ +N L + IA+ L ++ + Sbjct: 84 IRRGDWV---------PRSVYKNNRRITEAM-ALLENKLGRDPTDTEIAEHLEMTLDQYH 133 Query: 173 --VISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLT 229 + +NC RL G + L +D + + +E + + N R L Sbjct: 134 QALNDVNCGRLVGMDDLGV-----------SEDAVTTEASREENLPFQGVVDDNFRQSLA 182 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 ++ L RE + +E + L+ + + VS R+ QI ++A ++++ + Sbjct: 183 DAIKTLPEREALVLSLYYDEE--LNLKEIGAVVGVSESRICQIHSQAMQRLRSKL 235 >gi|320647130|gb|EFX15963.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H- str. 493-89] gi|320652413|gb|EFX20711.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H- str. H 2687] Length = 228 Score = 38.9 bits (89), Expect = 1.00, Method: Compositional matrix adjust. Identities = 51/238 (21%), Positives = 108/238 (45%), Gaps = 37/238 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L + ++ M Sbjct: 73 LRSRDWVPRSVRRNAREVAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM- 124 Query: 178 CRLAGDESLNALINSSDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNML 228 L+++++ + +W LV D D Q + +++ N R + Sbjct: 125 -----------LLDTNNSQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRV 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 173 MEAIETLPEREKLVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|56964009|ref|YP_175740.1| RNA polymerase sigma factor SigD [Bacillus clausii KSM-K16] gi|56910252|dbj|BAD64779.1| DNA-directed RNA polymerase sigma-28 factor sigma-D [Bacillus clausii KSM-K16] Length = 254 Score = 38.9 bits (89), Expect = 1.00, Method: Compositional matrix adjust. Identities = 54/229 (23%), Positives = 97/229 (42%), Gaps = 32/229 (13%) Query: 72 GLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 GLP S E+ S GL+ A+ KFD +R + TY+ + I+ A+ I Sbjct: 41 GLPSSISKDELKSHALSGLLDAIAKFDSKRALKFDTYASFRIRGAI------------ID 88 Query: 128 TTANQKRLFFNLRRLKGHLQAITDN-------NLKPEQVVAIAKKLNVSESEVISMNCRL 180 + RL +R L+ IT+ ++ P +V A A L E E + Sbjct: 89 GLRKEDRLPRTIRDKVKKLEQITEQLEQEKGRSVLPGEVAA-AMGLPEKEIEALKREQFA 147 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEERKNRRNMLTRSMSVLNPR 238 + SL+ +++ +D + D + L+E++ RK M+ L Sbjct: 148 SHTLSLDDVMHMNDHLDPSAVAYQFEDEQAIMPDDKLVEEDTRKELAEMIKE----LGRN 203 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E+ + + +E ++L + +S R+ QI ARA K+++ +QK+ Sbjct: 204 EQLVIQLSYYEE--LSLTEIGRILNLSTSRISQIHARAIAKLRKGLQKK 250 >gi|188495466|ref|ZP_03002736.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 53638] gi|293415233|ref|ZP_06657876.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B185] gi|331647515|ref|ZP_08348607.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M605] gi|188490665|gb|EDU65768.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 53638] gi|281178984|dbj|BAI55314.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli SE15] gi|291432881|gb|EFF05860.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B185] gi|330911730|gb|EGH40240.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli AA86] gi|331043239|gb|EGI15377.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M605] Length = 239 Score = 38.9 bits (89), Expect = 1.00, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 101/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDNNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|319787083|ref|YP_004146558.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pseudoxanthomonas suwonensis 11-1] gi|317465595|gb|ADV27327.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pseudoxanthomonas suwonensis 11-1] Length = 248 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 5/71 (7%) Query: 54 VTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 V H LV +IA + LP + +++ G IGL++A + +DPE+G TY+ I Sbjct: 20 VVRHADLVRRIAH-HLAARLPASVEVDDLIQAGMIGLIEASRSYDPEQGASFETYASIRI 78 Query: 110 KAAMQEYILRS 120 + +M + I R Sbjct: 79 RGSMIDEIRRG 89 >gi|310777972|ref|YP_003966305.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Ilyobacter polytropus DSM 2926] gi|309747295|gb|ADO81957.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Ilyobacter polytropus DSM 2926] Length = 203 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 19/68 (27%), Positives = 34/68 (50%) Query: 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLA 102 ++GD A ++ + V A Y G ++V EG IGL++A++ +D E+ Sbjct: 15 QNGDQEAVRKVFDYYKNFVFLKAKNYFLIGADRDDLVQEGMIGLLKAIRAYDTEKAASFK 74 Query: 103 TYSMWWIK 110 T++ IK Sbjct: 75 TFATICIK 82 >gi|221635447|ref|YP_002523323.1| RNA polymerase sigma-D factor (Sigma-28) [Thermomicrobium roseum DSM 5159] gi|221157679|gb|ACM06797.1| RNA polymerase sigma-D factor (Sigma-28) [Thermomicrobium roseum DSM 5159] Length = 262 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 16/49 (32%), Positives = 30/49 (61%), Gaps = 1/49 (2%) Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 +++ G IGL++A+ +FD RG + TY+ I+ A+ + LR+ +V Sbjct: 54 DDLIGYGTIGLLEALDRFDDTRGVKFETYAAMRIRGAILD-ALRTLDIV 101 >gi|110805895|ref|YP_689415.1| flagellar biosynthesis sigma factor [Shigella flexneri 5 str. 8401] gi|195939226|ref|ZP_03084608.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. EC4024] gi|208816591|ref|ZP_03257711.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4045] gi|208820391|ref|ZP_03260711.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4042] gi|217328583|ref|ZP_03444664.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. TW14588] gi|227885651|ref|ZP_04003456.1| flagellar biosynthesis sigma factor [Escherichia coli 83972] gi|256017880|ref|ZP_05431745.1| flagellar biosynthesis sigma factor [Shigella sp. D9] gi|256022420|ref|ZP_05436285.1| flagellar biosynthesis sigma factor [Escherichia sp. 4_1_40B] gi|261227583|ref|ZP_05941864.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli O157:H7 str. FRIK2000] gi|261255813|ref|ZP_05948346.1| RNA polymerase, sigma 28 factor [Escherichia coli O157:H7 str. FRIK966] gi|300818654|ref|ZP_07098862.1| flagellar biosynthesis sigma factor [Escherichia coli MS 107-1] gi|300822306|ref|ZP_07102447.1| flagellar biosynthesis sigma factor [Escherichia coli MS 119-7] gi|300899176|ref|ZP_07117454.1| flagellar biosynthesis sigma factor [Escherichia coli MS 198-1] gi|300904809|ref|ZP_07122636.1| flagellar biosynthesis sigma factor [Escherichia coli MS 84-1] gi|300917364|ref|ZP_07134033.1| flagellar biosynthesis sigma factor [Escherichia coli MS 115-1] gi|300925015|ref|ZP_07140938.1| flagellar biosynthesis sigma factor [Escherichia coli MS 182-1] gi|300951546|ref|ZP_07165380.1| flagellar biosynthesis sigma factor [Escherichia coli MS 116-1] gi|300956562|ref|ZP_07168843.1| flagellar biosynthesis sigma factor [Escherichia coli MS 175-1] gi|300982291|ref|ZP_07176001.1| flagellar biosynthesis sigma factor [Escherichia coli MS 200-1] gi|300993927|ref|ZP_07180602.1| flagellar biosynthesis sigma factor [Escherichia coli MS 45-1] gi|301018228|ref|ZP_07182743.1| flagellar biosynthesis sigma factor [Escherichia coli MS 69-1] gi|301050723|ref|ZP_07197582.1| flagellar biosynthesis sigma factor [Escherichia coli MS 185-1] gi|301305263|ref|ZP_07211360.1| flagellar biosynthesis sigma factor [Escherichia coli MS 124-1] gi|301327712|ref|ZP_07220918.1| flagellar biosynthesis sigma factor [Escherichia coli MS 78-1] gi|301645559|ref|ZP_07245489.1| flagellar biosynthesis sigma factor [Escherichia coli MS 146-1] gi|306814254|ref|ZP_07448420.1| flagellar biosynthesis sigma factor [Escherichia coli NC101] gi|307138589|ref|ZP_07497945.1| flagellar biosynthesis sigma factor [Escherichia coli H736] gi|309795968|ref|ZP_07690381.1| flagellar biosynthesis sigma factor [Escherichia coli MS 145-7] gi|110615443|gb|ABF04110.1| flagellar biosynthesis sigma factor FliA [Shigella flexneri 5 str. 8401] gi|208730934|gb|EDZ79623.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4045] gi|208740514|gb|EDZ88196.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4042] gi|217317930|gb|EEC26357.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. TW14588] gi|227837224|gb|EEJ47690.1| flagellar biosynthesis sigma factor [Escherichia coli 83972] gi|300297591|gb|EFJ53976.1| flagellar biosynthesis sigma factor [Escherichia coli MS 185-1] gi|300307268|gb|EFJ61788.1| flagellar biosynthesis sigma factor [Escherichia coli MS 200-1] gi|300316625|gb|EFJ66409.1| flagellar biosynthesis sigma factor [Escherichia coli MS 175-1] gi|300357213|gb|EFJ73083.1| flagellar biosynthesis sigma factor [Escherichia coli MS 198-1] gi|300399815|gb|EFJ83353.1| flagellar biosynthesis sigma factor [Escherichia coli MS 69-1] gi|300403277|gb|EFJ86815.1| flagellar biosynthesis sigma factor [Escherichia coli MS 84-1] gi|300406428|gb|EFJ89966.1| flagellar biosynthesis sigma factor [Escherichia coli MS 45-1] gi|300415410|gb|EFJ98720.1| flagellar biosynthesis sigma factor [Escherichia coli MS 115-1] gi|300418834|gb|EFK02145.1| flagellar biosynthesis sigma factor [Escherichia coli MS 182-1] gi|300449221|gb|EFK12841.1| flagellar biosynthesis sigma factor [Escherichia coli MS 116-1] gi|300525189|gb|EFK46258.1| flagellar biosynthesis sigma factor [Escherichia coli MS 119-7] gi|300528826|gb|EFK49888.1| flagellar biosynthesis sigma factor [Escherichia coli MS 107-1] gi|300839469|gb|EFK67229.1| flagellar biosynthesis sigma factor [Escherichia coli MS 124-1] gi|300845756|gb|EFK73516.1| flagellar biosynthesis sigma factor [Escherichia coli MS 78-1] gi|301076168|gb|EFK90974.1| flagellar biosynthesis sigma factor [Escherichia coli MS 146-1] gi|305852413|gb|EFM52864.1| flagellar biosynthesis sigma factor [Escherichia coli NC101] gi|308120418|gb|EFO57680.1| flagellar biosynthesis sigma factor [Escherichia coli MS 145-7] gi|312946514|gb|ADR27341.1| flagellar biosynthesis sigma factor [Escherichia coli O83:H1 str. NRG 857C] gi|315136559|dbj|BAJ43718.1| RNA polymerase sigma factor [Escherichia coli DH1] gi|315257247|gb|EFU37215.1| flagellar biosynthesis sigma factor [Escherichia coli MS 85-1] gi|315290288|gb|EFU49666.1| flagellar biosynthesis sigma factor [Escherichia coli MS 153-1] gi|315296505|gb|EFU55802.1| flagellar biosynthesis sigma factor [Escherichia coli MS 16-3] gi|320641770|gb|EFX11158.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. G5101] gi|320658015|gb|EFX25777.1| flagellar biosynthesis sigma factor [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320658587|gb|EFX26281.1| flagellar biosynthesis sigma factor [Escherichia coli O55:H7 str. USDA 5905] gi|320668485|gb|EFX35312.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. LSU-61] gi|323152745|gb|EFZ39017.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli EPECa14] gi|323186302|gb|EFZ71652.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1357] gi|324007273|gb|EGB76492.1| flagellar biosynthesis sigma factor [Escherichia coli MS 57-2] gi|324013514|gb|EGB82733.1| flagellar biosynthesis sigma factor [Escherichia coli MS 60-1] gi|324017957|gb|EGB87176.1| flagellar biosynthesis sigma factor [Escherichia coli MS 117-3] Length = 229 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 51/238 (21%), Positives = 108/238 (45%), Gaps = 37/238 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L + ++ M Sbjct: 73 LRSRDWVPRSVRRNAREVAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM- 124 Query: 178 CRLAGDESLNALINSSDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNML 228 L+++++ + +W LV D D Q + +++ N R + Sbjct: 125 -----------LLDTNNSQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRV 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 173 MEAIETLPEREKLVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|168069803|ref|XP_001786584.1| predicted protein [Physcomitrella patens subsp. patens] gi|162660945|gb|EDQ48604.1| predicted protein [Physcomitrella patens subsp. patens] Length = 406 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 51/192 (26%), Positives = 84/192 (43%), Gaps = 29/192 (15%) Query: 42 REHGD---LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKF-DPER 97 R H D L +T +LRLV A Y Y +VVSEG IGL+ A ++ D Sbjct: 3 RNHPDNPLLGPRDAFITQNLRLVHMCAKRY-AYNRGYDDVVSEGTIGLILAYDRYSDATV 61 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 F +T++ +I+ ++ Y RS GT + +R N RR I + L+ + Sbjct: 62 AF--STFAATYIRGYIRNY-FRSLR----GTVSVPRRTLDNSRR-------IAEAGLEDK 107 Query: 158 QVVAIAKKLNV----SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 +A+ L + +E + + +G + IN+ K+ + D V D + Sbjct: 108 APETVAEALGIAVKHAEDALYYLAVTESGSRDYDEEINA--KSVHTFDDDTVPDVNA--- 162 Query: 214 VLIEKEERKNRR 225 IE++ KN+R Sbjct: 163 -FIERQVPKNQR 173 >gi|318061849|ref|ZP_07980570.1| sigma factor [Streptomyces sp. SA3_actG] Length = 295 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 19/65 (29%), Positives = 36/65 (55%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV + L + +IA YRG G + ++ +GL++AV +FDPE TY++ ++ Sbjct: 41 LVEAWLPMAHRIAGRYRGRGESLEDLCQVAALGLLRAVDRFDPEVSDAFETYAVPTMQGE 100 Query: 113 MQEYI 117 ++ + Sbjct: 101 LKRHF 105 >gi|311279128|ref|YP_003941359.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Enterobacter cloacae SCF1] gi|308748323|gb|ADO48075.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Enterobacter cloacae SCF1] Length = 243 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 51/232 (21%), Positives = 105/232 (45%), Gaps = 37/232 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE- 82 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L ++ E M Sbjct: 83 LRSRDWVPRSVRRNAREVAQAMGQLE---QELGRNATETE----VAQRLGIAVEEYRQM- 134 Query: 178 CRLAGDESLNALINSSDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNML 228 L+++++ + +W LV + + QE L + E N R + Sbjct: 135 -----------LLDTNNSQLFSYDEWREEHGDSIELVTEENQQENPLHQLME-SNLRQRV 182 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L RE+ + +E + L+ + + +V RV Q+ ++A K++ Sbjct: 183 IEAIEALPEREQLVLTLYYQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRL 232 >gi|302671184|ref|YP_003831144.1| RNA polymerase sigma factor sigma-70 family protein [Butyrivibrio proteoclasticus B316] gi|302395657|gb|ADL34562.1| RNA polymerase sigma factor sigma-70 family [Butyrivibrio proteoclasticus B316] Length = 207 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 2/86 (2%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK 91 EE +L+ R+ D A ++ + LV K A G +++ EG IGL +AV+ Sbjct: 11 DEELILS--IRDGDDPGAVDHIMNKYKNLVRKKAASMFALGADKDDLIQEGMIGLFKAVR 68 Query: 92 KFDPERGFRLATYSMWWIKAAMQEYI 117 +D R AT++ I M I Sbjct: 69 DYDCGRDASFATFAELCISRQMYSAI 94 >gi|284053747|ref|ZP_06383957.1| RNA polymerase sigma factor [Arthrospira platensis str. Paraca] Length = 179 Score = 38.9 bits (89), Expect = 1.0, Method: Compositional matrix adjust. Identities = 38/173 (21%), Positives = 82/173 (47%), Gaps = 13/173 (7%) Query: 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 WWI+ A+ I ++ +++ +K ++R++ L N P + IAK L Sbjct: 2 WWIRQAITRAIAQNSRTIRLPIHITEK--LNKIKRVQRELFQQYGRNATPTE---IAKAL 56 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRN 226 ++ S++ + LA ++ + D ++ QD L + + + ++ R++ ++ Sbjct: 57 DLEPSQI--RDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADSYVTQQLLRQDLKD 114 Query: 227 MLTRSMSVLNPRERRIFEARRLQEN--PVTLENLSSEFEVSRERVRQIEARAF 277 M M+ L P++R + R + ++L + + +SRERVRQ+E +A Sbjct: 115 M----MADLTPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQAL 163 >gi|325922773|ref|ZP_08184506.1| DNA-directed RNA polymerase specialized sigma subunit [Xanthomonas gardneri ATCC 19865] gi|325546748|gb|EGD17869.1| DNA-directed RNA polymerase specialized sigma subunit [Xanthomonas gardneri ATCC 19865] Length = 128 Score = 38.9 bits (89), Expect = 1.1, Method: Compositional matrix adjust. Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A+ +VT H LV +IA + LP S +++ G IGL++A + +D E+G TY+ Sbjct: 23 ANDIVTQHADLVRRIAH-HLAARLPASVEVDDLIQAGMIGLIEASRSYDSEQGASFETYA 81 Query: 106 MWWIKAAMQEYILRS 120 I+ +M + I R Sbjct: 82 SIRIRGSMIDEIRRG 96 >gi|302556259|ref|ZP_07308601.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] gi|302473877|gb|EFL36970.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] Length = 281 Score = 38.9 bits (89), Expect = 1.1, Method: Compositional matrix adjust. Identities = 51/231 (22%), Positives = 109/231 (47%), Gaps = 25/231 (10%) Query: 61 VVKIAMG-YRGYGLP--ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +V+ A G +R G P + ++V G IGL++A+ +FD R ++++ +I ++ + Sbjct: 65 LVRFAAGRFRSRG-PEEMEDIVQVGMIGLIKAIDRFDLSREAEFTSFAVPYIVGEIKRFF 123 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 + V + + R+ L R L++ + V +++ +++ E EV Sbjct: 124 RDTTWAVHVPRRLQEARV--QLARATEELRSRLG---RTPTVKELSELMSLPEQEV--RE 176 Query: 178 CRLAGD----ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 R+A + SL+A I+ SD + QD++ + E L+E + L ++ Sbjct: 177 ARIAANGYNSSSLDATISGSDDGEAALQDFIGAEDQAME--LVED------FHALAPLLA 228 Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L+ R+R I R ++E +T + VS+ +V ++ +R +++E + Sbjct: 229 ELDERDRHIIRMRFVEE--LTQAQIGERLGVSQMQVSRLLSRTLARLREGM 277 >gi|323341369|ref|ZP_08081613.1| DNA-directed RNA polymerase sigma subunit FliA [Lactobacillus ruminis ATCC 25644] gi|323091246|gb|EFZ33874.1| DNA-directed RNA polymerase sigma subunit FliA [Lactobacillus ruminis ATCC 25644] Length = 250 Score = 38.9 bits (89), Expect = 1.1, Method: Compositional matrix adjust. Identities = 52/213 (24%), Positives = 102/213 (47%), Gaps = 27/213 (12%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR--SWSLVKIGTTANQKRLFFNL 139 G IGL+ A++KFD + Y+ I+ A+ + + R S K+G + F+ Sbjct: 53 GVIGLIDAMQKFDSSKKVPFENYAAIRIRGAIIDEVRRHSKISRYKMGNVNS----FYQA 108 Query: 140 RR-LKGHLQ-AITDNNLKPEQVVAIAKKLNVSESEV--ISMNCRLAGDESLNALINSSDK 195 ++ L+ ++ +TD I KK+ ++ S++ I + + SL + + S++ Sbjct: 109 KQELEQEMKREVTDKE--------IMKKMGITSSQLGDIYDSIQYLSSVSLESTLYSNND 160 Query: 196 NSSQWQDWLVYDH--DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + QD L G+++++ K+ERK L ++ L+ RE+ + E Sbjct: 161 ETVMVQDTLRDSKAPSGEKELM--KQERKKE---LIEAIKRLSEREQLVLSL--YYEEDA 213 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 TL+ +++ +VS RV QI RA K++ I++ Sbjct: 214 TLKEIAAILDVSIARVSQIHGRAIAKIRGYIEE 246 >gi|108756900|ref|YP_630657.1| FliA/WhiG family RNA polymerase sigma factor [Myxococcus xanthus DK 1622] gi|108460780|gb|ABF85965.1| RNA polymerase sigma factor, FliA/WhiG/SigD family [Myxococcus xanthus DK 1622] Length = 278 Score = 38.9 bits (89), Expect = 1.1, Method: Compositional matrix adjust. Identities = 15/41 (36%), Positives = 28/41 (68%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 L + E+++ G IGL++A ++FDP+ G T++ + IK A+ Sbjct: 33 LELDELLAYGQIGLLEAAERFDPKVGANFLTFAHYRIKGAI 73 >gi|110678161|ref|YP_681168.1| RNA polymerase sigma factor, putative [Roseobacter denitrificans OCh 114] gi|109454277|gb|ABG30482.1| RNA polymerase sigma factor, putative [Roseobacter denitrificans OCh 114] Length = 1005 Score = 38.9 bits (89), Expect = 1.1, Method: Compositional matrix adjust. Identities = 24/62 (38%), Positives = 40/62 (64%), Gaps = 6/62 (9%) Query: 231 SMSVLNPRERRIFEAR----RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +S LN R++ I + R R Q TLE ++S+++V+RER+RQIE +A +K++ K Sbjct: 466 CISTLNDRQQDILQRRYGINRGQTE--TLEQVASDYDVTRERIRQIEKKAKQKLETKRTK 523 Query: 287 QV 288 +V Sbjct: 524 KV 525 >gi|82543610|ref|YP_407557.1| flagellar biosynthesis sigma factor [Shigella boydii Sb227] gi|81245021|gb|ABB65729.1| alternative sigma factor 28 [Shigella boydii Sb227] gi|320176074|gb|EFW51142.1| RNA polymerase sigma factor for flagellar operon [Shigella dysenteriae CDC 74-1112] gi|320184751|gb|EFW59543.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri CDC 796-83] Length = 239 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 47/221 (21%), Positives = 100/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + ++ M L+++++ Sbjct: 100 VAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV D D Q + +++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLSTKLGK 238 >gi|261886011|ref|ZP_06010050.1| RNA polymerase sigma factor RpoD [Campylobacter fetus subsp. venerealis str. Azul-94] Length = 190 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 34/103 (33%), Positives = 51/103 (49%), Gaps = 14/103 (13%) Query: 185 SLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 SL A I S D ++ D+ V D EQ+L + + + + + LN RE+ Sbjct: 81 SLEAPIGSED--DGKYGDF-VEDKTNLSPMEQIL-----KGDLKEQIDEVLDQLNDREKA 132 Query: 242 IFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 133 VIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 175 >gi|213419842|ref|ZP_03352908.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 115 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 16/35 (45%), Positives = 27/35 (77%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 74 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 108 >gi|56962590|ref|YP_174316.1| RNA polymerase sigma factor SigB [Bacillus clausii KSM-K16] gi|56908828|dbj|BAD63355.1| DNA-directed RNA polymerase general stress sigma factor sigma-B [Bacillus clausii KSM-K16] Length = 261 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 59/264 (22%), Positives = 124/264 (46%), Gaps = 32/264 (12%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY---RGYGLPISEVVSEGNIGLM 87 K + Y+ ++Y++ G A +LV LV ++ + R Y + +V G +GL+ Sbjct: 12 KDDIYLWIEQYQKTGSEEAQIKLVNHFEALVRSLSRKFSKGREYDEDLYQV---GMVGLL 68 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHL 146 A+K+++ + G ++++ + ++ +I ++WS+ +R+ ++K Sbjct: 69 AAMKRYNEDYGRSFESFAVPTVVGEIKRFIRDKTWSV------HVPRRIKELGPKIKKAA 122 Query: 147 QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLV 205 +T + V IA+ L V+E EV+ + +S AL +N + + + + Sbjct: 123 DTLTIELQRSPYVHEIAEYLQVTEEEVLET---MEMSKSYQALSVNRPLEADQEGGEVTL 179 Query: 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLS-----S 260 D G E+ E+ ++K +L ++ VLN RE+ I + ENLS Sbjct: 180 LDLVGNEEAGYEQADQKL---LLEKAFEVLNEREKDILQC-------TYYENLSQKETGE 229 Query: 261 EFEVSRERVRQIEARAFKKVQESI 284 + +S+ V +++ RA +K+++SI Sbjct: 230 KLGISQMHVSRLQRRALQKLRDSI 253 >gi|307328229|ref|ZP_07607407.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306886063|gb|EFN17071.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 307 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 53/239 (22%), Positives = 103/239 (43%), Gaps = 31/239 (12%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A + + + ++V G IGL++A+ +FD R T+++ +I Sbjct: 83 LIELNLSLVRYAARRFHNRSVEMEDIVQVGTIGLIKAIDRFDLSREVEFTTFAVPYIVGE 142 Query: 113 MQEYIL-RSWSL--------VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA 163 ++ + SW++ ++I + LF L R P +A Sbjct: 143 IKRFFRDTSWAVHVPRRLQELRIDLAKANEELFQRLDR-------------SP-TTAELA 188 Query: 164 KKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVY-DHDGQEQVLIEKEERK 222 + L +SE EV+ + +A + L + +++ + S Y D G +E E Sbjct: 189 EHLQLSEDEVV--DGLVASNGYLTSSLDAPAEQESGATRVTTYADRFGDVDPAMEAVENL 246 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L L R+RRI + R +E +T + +E VS+ V ++ +RA +++ Sbjct: 247 HALKPLVEE---LGERDRRILQLRFGEE--MTQSEIGAELGVSQMHVSRLLSRALSRLR 300 >gi|213610106|ref|ZP_03369932.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 103 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 16/35 (45%), Positives = 27/35 (77%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 62 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 96 >gi|254459646|ref|ZP_05073062.1| flagellar-specific RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2083] gi|206676235|gb|EDZ40722.1| flagellar-specific RNA polymerase sigma factor [Rhodobacteraceae bacterium HTCC2083] Length = 219 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 51/225 (22%), Positives = 102/225 (45%), Gaps = 43/225 (19%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL----VKIGTTANQKR--L 135 G +GL++A +++ + G +Y++ ++ A+ +++ ++ +L +KI N+ R L Sbjct: 26 GLMGLIEAAQRYTRQEGISFESYAVIRVRGAINDFLRKNSALSRKSMKINKEVNEARNKL 85 Query: 136 FFNLRRL-KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 +L R +GH +AK + +S E + L NSS Sbjct: 86 VHDLGRAPEGH---------------EVAKAVGLSLDEFTAWEQTL----------NSSY 120 Query: 195 KNSSQWQDWLVYDHD----GQEQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 NS Q + YD IE+E +R + L ++ L RE + + ++ Sbjct: 121 HNSIQDE----YDEHSMWFATADAPIEQELDRARLKEALLYALKTLPEREALVLQLYYVE 176 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 E + L +++ +V+ RV QI++ AFKK+Q ++ ++ S + Sbjct: 177 E--LNLFEIAAVLDVTSGRVSQIKSSAFKKMQPLLKDYIDNSQAA 219 >gi|166712012|ref|ZP_02243219.1| RNA polymerase sigma factor [Xanthomonas oryzae pv. oryzicola BLS256] gi|289666124|ref|ZP_06487705.1| RNA polymerase sigma factor [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 255 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 5/75 (6%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A+ +VT H LV +IA + LP + +++ G IGL++A + +D E+G TY+ Sbjct: 21 ANDVVTQHADLVRRIAH-HLAARLPASVEVDDLIQAGMIGLIEASRSYDSEQGASFETYA 79 Query: 106 MWWIKAAMQEYILRS 120 I+ +M + I R Sbjct: 80 SIRIRGSMIDEIRRG 94 >gi|289670573|ref|ZP_06491648.1| RNA polymerase sigma factor [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 255 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 5/75 (6%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A+ +VT H LV +IA + LP + +++ G IGL++A + +D E+G TY+ Sbjct: 21 ANDVVTQHADLVRRIAH-HLAARLPASVEVDDLIQAGMIGLIEASRSYDSEQGASFETYA 79 Query: 106 MWWIKAAMQEYILRS 120 I+ +M + I R Sbjct: 80 SIRIRGSMIDEIRRG 94 >gi|289808389|ref|ZP_06539018.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 148 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 16/35 (45%), Positives = 27/35 (77%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 107 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 141 >gi|291461239|ref|ZP_06027789.2| RNA polymerase sigma factor [Fusobacterium periodonticum ATCC 33693] gi|291378120|gb|EFE85638.1| RNA polymerase sigma factor [Fusobacterium periodonticum ATCC 33693] Length = 259 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 22/64 (34%), Positives = 37/64 (57%), Gaps = 2/64 (3%) Query: 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 V +L+ V +IA+ G+ ++ EG IGLM+A + F+ ++ F+L Y ++I AM Sbjct: 69 VEKNLKKVYQIALYMLRDGILYQDLTQEGVIGLMKAHELFEDDKDFKL--YKDYYIARAM 126 Query: 114 QEYI 117 YI Sbjct: 127 FNYI 130 >gi|21242677|ref|NP_642259.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. citri str. 306] gi|294664736|ref|ZP_06730065.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|21108148|gb|AAM36795.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. citri str. 306] gi|292605490|gb|EFF48812.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 255 Score = 38.5 bits (88), Expect = 1.1, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 5/75 (6%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A+ +VT H LV +IA + LP + +++ G IGL++A + +D E+G TY+ Sbjct: 21 ANDVVTQHADLVRRIAH-HLAARLPASVEVDDLIQAGMIGLIEASRSYDSEQGASFETYA 79 Query: 106 MWWIKAAMQEYILRS 120 I+ +M + I R Sbjct: 80 SIRIRGSMIDEIRRG 94 >gi|149201624|ref|ZP_01878598.1| sigma factor FliA (Sigma-28 group, flagellar) [Roseovarius sp. TM1035] gi|149144672|gb|EDM32701.1| sigma factor FliA (Sigma-28 group, flagellar) [Roseovarius sp. TM1035] Length = 242 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 3/85 (3%) Query: 52 RLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 RLV H+ LV ++A G G + I +++ G +GL+ A +++ G A Y+ Sbjct: 16 RLVEQHMPLVQRLAWHFHGRVGRFIEIDDLLQAGYLGLIDASQRYSVCDGVSFAAYATIR 75 Query: 109 IKAAMQEYILRSWSLVKIGTTANQK 133 I+ ++ +++ R+ +L + T QK Sbjct: 76 IRGSIIDHLRRNSNLCRNSITMRQK 100 >gi|78047533|ref|YP_363708.1| RNA polymerase sigma factor for flagellar operon FliA [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|325928018|ref|ZP_08189235.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Xanthomonas perforans 91-118] gi|78035963|emb|CAJ23654.1| RNA polymerase sigma factor for flagellar operon FliA [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|325541614|gb|EGD13139.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Xanthomonas perforans 91-118] Length = 255 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 5/75 (6%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A+ +VT H LV +IA + LP + +++ G IGL++A + +D E+G TY+ Sbjct: 21 ANDVVTQHADLVRRIAH-HLAARLPASVEVDDLIQAGMIGLIEASRSYDSEQGASFETYA 79 Query: 106 MWWIKAAMQEYILRS 120 I+ +M + I R Sbjct: 80 SIRIRGSMIDEIRRG 94 >gi|317492397|ref|ZP_07950826.1| FliA/WhiG family RNA polymerase sigma factor [Enterobacteriaceae bacterium 9_2_54FAA] gi|316919736|gb|EFV41066.1| FliA/WhiG family RNA polymerase sigma factor [Enterobacteriaceae bacterium 9_2_54FAA] Length = 240 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 50/239 (20%), Positives = 104/239 (43%), Gaps = 37/239 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLHAVERYDAMQGTAFTTYAVQRIRGAMLDE- 82 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNNLKPEQVVAIAKKLNVSESEVISM 176 LRS V N + + ++R + L A T+ IA++L++ E + Sbjct: 83 LRSRDWVPRSVRRNAREVSAAMQRAEQRLHRAPTETE--------IAQELDMPLVEYQQI 134 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML-------- 228 L++++ + + +W D E V + E+ + +L Sbjct: 135 ------------LLDTNTSHLFSYDEWREEHGDSAEPVFQQHEDANPLKQLLEGDLRQRV 182 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K+++ + Q Sbjct: 183 IAAIEALPEREKLVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLASQ 239 >gi|260776433|ref|ZP_05885328.1| RNA polymerase sigma factor for flagellar operon [Vibrio coralliilyticus ATCC BAA-450] gi|260607656|gb|EEX33921.1| RNA polymerase sigma factor for flagellar operon [Vibrio coralliilyticus ATCC BAA-450] Length = 244 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 57/252 (22%), Positives = 106/252 (42%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++ + + + + LV +IA G P + +++ G IGL++A K +D Sbjct: 4 ALTYDQYANQDSQRAFLEKYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V N + + + +L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKNSREISQAIAQLEGEL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMN-CRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK+L +S S + +N RL G + L +D + ++ Sbjct: 116 RDPTD-AEVAKRLEMSLEQYHSALTDINSSRLIGIDDLGV-----------SEDAISHED 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +E + + + R L S+ L RE + +E + L+ + VS R Sbjct: 164 ADEENIPFQGVADEYFRTALVESIKSLPEREALVLSLYYDEE--LNLKEIGEVIGVSESR 221 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 222 VSQILSQSMQRL 233 >gi|238752744|ref|ZP_04614214.1| RNA polymerase sigma factor for flagellar operon [Yersinia rohdei ATCC 43380] gi|238709075|gb|EEQ01323.1| RNA polymerase sigma factor for flagellar operon [Yersinia rohdei ATCC 43380] Length = 240 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 51/235 (21%), Positives = 102/235 (43%), Gaps = 43/235 (18%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVI 174 R W+ + + N R + +Q + +P EQ VA +++++E I Sbjct: 84 RSRDWA---------PRSVRRNAREVASAMQKVEQRLGRPATEQEVAQNLEIDLAEYRQI 134 Query: 175 SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRR 225 ++ NS + +W++ +H + L+E E N R Sbjct: 135 LLDTN-----------NSQLFSYDEWRE----EHGESVEPLLEGHEDANPLQHLLEGNLR 179 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + ++ L RE+ + +E + L+ + + EV RV Q+ ++A K++ Sbjct: 180 QRVIDAIEALPEREKMVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|83589646|ref|YP_429655.1| sigma 28 (flagella/sporulation) [Moorella thermoacetica ATCC 39073] gi|83572560|gb|ABC19112.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Moorella thermoacetica ATCC 39073] Length = 255 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 47/209 (22%), Positives = 96/209 (45%), Gaps = 26/209 (12%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-W---SLVKIGTTANQ 132 +++ G +GL++AV ++DP RG T++ I+ A+ + + R+ W SL++ A+Q Sbjct: 51 DLLGYGIVGLLEAVDRYDPSRGVNFETFASQRIRGAILDALRRAHWAPRSLIEKLRRASQ 110 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE----SLNA 188 ++ L + +G ++D A+A+ L ++E+E+ + R G + SL Sbjct: 111 --VYRQLEQEQGG--EVSDG--------AVARALGITEAELRELMER--GSQMAILSLED 156 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + + L+ D + V I E+ R L ++ L ++R + Sbjct: 157 FLLDQEGEEGTTRGELLADPGSPDPVGI--YEQGELRRALAAALENLKEKDRLVLTLYYY 214 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAF 277 + +TL+ + +S RV Q+ RA Sbjct: 215 E--GLTLKEIGKVLGISESRVCQLHGRAI 241 >gi|58582244|ref|YP_201260.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae KACC10331] gi|84624137|ref|YP_451509.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188576807|ref|YP_001913736.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae PXO99A] gi|188577000|ref|YP_001913929.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae PXO99A] gi|6969595|gb|AAF33832.1|AF226282_6 RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae] gi|58426838|gb|AAW75875.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae KACC10331] gi|84368077|dbj|BAE69235.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188521259|gb|ACD59204.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae PXO99A] gi|188521452|gb|ACD59397.1| RNA polymerase sigma factor FliA [Xanthomonas oryzae pv. oryzae PXO99A] Length = 251 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 5/75 (6%) Query: 50 AHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 A +VT H LV +IA + LP + +++ G IGL++A + +D E+G TY+ Sbjct: 17 ADNVVTQHADLVRRIAH-HLAARLPASVEVDDLIQAGMIGLIEASRSYDSEQGASFETYA 75 Query: 106 MWWIKAAMQEYILRS 120 I+ +M + I R Sbjct: 76 SIRIRGSMIDEIRRG 90 >gi|330862243|emb|CBX72404.1| RNA polymerase sigma factor rpoD [Yersinia enterocolitica W22703] Length = 113 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 16/35 (45%), Positives = 27/35 (77%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 72 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 106 >gi|332675354|gb|AEE72170.1| RNA polymerase sigma factor [Propionibacterium acnes 266] Length = 266 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGEAIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|289523542|ref|ZP_06440396.1| RNA polymerase sigma factor [Anaerobaculum hydrogeniformans ATCC BAA-1850] gi|289503234|gb|EFD24398.1| RNA polymerase sigma factor [Anaerobaculum hydrogeniformans ATCC BAA-1850] Length = 251 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 40/161 (24%), Positives = 78/161 (48%), Gaps = 15/161 (9%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL +++S G +GL+ A+ ++DP RG T++ I+ A+ + LR + + G Sbjct: 51 GLSQDDLLSFGAMGLLDAIDRYDPSRGVSFNTFAFSRIRGAILDE-LRRYDWLSRGARDK 109 Query: 132 QKRL-----FFNLRRLKGHLQAITDNNLKPEQVV-----AIAKKLNVSESEVISMNCRLA 181 +RL N + LK + + + + E+ + +++ VS EVIS++ Sbjct: 110 IQRLEKAIAEMNEQGLKANDEMLMEKLQMDEKELRWLYELMSRSYVVSLDEVISLD---E 166 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 GD +AL+ + N ++ + + D D + L + EER+ Sbjct: 167 GDVERSALVPDTSPNPEEYMEAM-EDCDTLKGALEKLEERE 206 >gi|126664990|ref|ZP_01735973.1| flagellar biosynthesis sigma factor FliA [Marinobacter sp. ELB17] gi|126630360|gb|EBA00975.1| flagellar biosynthesis sigma factor FliA [Marinobacter sp. ELB17] Length = 246 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 58/244 (23%), Positives = 103/244 (42%), Gaps = 44/244 (18%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRLAT 103 S A L+ H LV KIA+ LP S +++ G IGL++A +++ +G T Sbjct: 16 SDASWLIEEHAPLVKKIALHLLAR-LPSSVQLEDLMQAGMIGLLEASQRYTTGKGATFET 74 Query: 104 YSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAI 162 Y+ I+ AM + I + W + + N RR+ ++A+ + V + Sbjct: 75 YAGIRIRGAMVDEIRKGDWV---------PRSVHRNSRRISSAIKAVEGREGRESHDVEV 125 Query: 163 AKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 A +L+++ SE S C D + L + + N S ++ IE+ E Sbjct: 126 AAELDMTLSEYHS--C--LADSNSGRLFSLDELNDSG-------------ELPIEQSETD 168 Query: 223 NR----------RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 + RN L ++ L RE+ + +E + L + + +VS RV QI Sbjct: 169 DNPLHGVSEFAFRNSLAAAIETLPEREKLVLSLYYQEE--LNLREIGAVLDVSESRVSQI 226 Query: 273 EARA 276 ++A Sbjct: 227 HSQA 230 >gi|126659553|ref|ZP_01730685.1| sigma factor SigF [Cyanothece sp. CCY0110] gi|126619192|gb|EAZ89929.1| sigma factor SigF [Cyanothece sp. CCY0110] Length = 258 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 33/140 (23%), Positives = 71/140 (50%), Gaps = 23/140 (16%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY---------ILRSWSLVKIG 127 ++V G++GL++A+++F E+G +++++ +I+ +Q Y I R W +++G Sbjct: 57 DLVQVGSLGLIRAIERFSIEKGHAFSSFAIPYIRGEIQHYLRDKKYTVRIPRRW--LELG 114 Query: 128 -TTANQKRLF---FNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-- 181 + N +R F FN + + + + +LK Q + KL E +S++ +++ Sbjct: 115 RQSMNVRREFREKFNRQPTDSEIAQVLEISLKEWQEI----KLAFQNREPVSLDVKVSSE 170 Query: 182 --GDESLNALINSSDKNSSQ 199 G SL L+ ++ S Q Sbjct: 171 GEGQTSLGDLVPDANYRSFQ 190 >gi|307824496|ref|ZP_07654721.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Methylobacter tundripaludum SV96] gi|307734480|gb|EFO05332.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Methylobacter tundripaludum SV96] Length = 237 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 49/237 (20%), Positives = 100/237 (42%), Gaps = 31/237 (13%) Query: 54 VTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 V H LV +IA +G + + +++ G +GL++A+K +D +G TY+ I+ Sbjct: 14 VMQHAPLVKRIAYHLLGRLPDSVQVDDLIQAGMLGLLEAIKNYDASQGASFDTYAGIRIR 73 Query: 111 AAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 +M + + RS W+ + + R + ++ I + + + V +AK L ++ Sbjct: 74 GSMLDEVRRSDWT---------PRSVHKKSRMVSDAIRTIENKTGREARDVDVAKYLGIA 124 Query: 170 ESEV-----ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 E S +CR+ E L ++ + D + +G ++ R+ Sbjct: 125 IDEYNHILQDSSSCRVFSVEELA-------QDGDHYMDETLSHEEGP----VDGLSREGF 173 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + L ++ L RER + +E L + +S RV QI +A +++ Sbjct: 174 QQALANAIMGLPERERLVISLYYDEE--FNLREIGEVLNISESRVSQICTQAVLRLR 228 >gi|295798118|emb|CAX68947.1| RNA polymerase sigma factor 70 [uncultured bacterium] Length = 259 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 24/88 (27%), Positives = 48/88 (54%), Gaps = 5/88 (5%) Query: 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLM 87 + ++ L K+Y++ +V ++ LV +A G GLP +++VS G +GL Sbjct: 3 EADFKLWKKYKQRRTKLLREEIVRKYMYLVKYVA-GRVAIGLPSNVEFNDLVSYGLLGLF 61 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQE 115 A++K+D +G + TY++ I+ A+ + Sbjct: 62 DAIEKYDVMQGNKFETYAVSRIRGAIMD 89 >gi|266623350|ref|ZP_06116285.1| RNA polymerase sigma factor WhiG [Clostridium hathewayi DSM 13479] gi|288864870|gb|EFC97168.1| RNA polymerase sigma factor WhiG [Clostridium hathewayi DSM 13479] Length = 131 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 3/80 (3%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE---VVSEGNIGLMQAVKKFDPER 97 Y ++G ++L+ L +V A RG +E ++ +G + LM+ + ++D + Sbjct: 18 YLKNGSQELRNKLIVHFLPIVRSAAAQLRGMAGSFTEEEDLIDQGVLALMECLDRYDASK 77 Query: 98 GFRLATYSMWWIKAAMQEYI 117 G + TY+ ++ AM +YI Sbjct: 78 GAQFETYAFIRVRGAMIDYI 97 >gi|23097664|ref|NP_691130.1| positive control sigma-like factor [Oceanobacillus iheyensis HTE831] gi|22775887|dbj|BAC12165.1| sigma factor-like positive control facor [Oceanobacillus iheyensis HTE831] Length = 170 Score = 38.5 bits (88), Expect = 1.2, Method: Compositional matrix adjust. Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 5/86 (5%) Query: 198 SQWQDWLVYDHDGQEQVLIEKEERK---NRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 S +Q ++YD D + IE ERK N + M+T + VL+PRER+ + Q + Sbjct: 76 SAYQRRVIYDMDLLPSLEIEPTERKLTENEKVMITEILLVLSPRERQCYLLHMAQ--GWS 133 Query: 255 LENLSSEFEVSRERVRQIEARAFKKV 280 + +S E + + V+Q RA KKV Sbjct: 134 MGEISEELNIGKSSVQQFIQRAKKKV 159 >gi|114562377|ref|YP_749890.1| flagellar biosynthesis sigma factor [Shewanella frigidimarina NCIMB 400] gi|114333670|gb|ABI71052.1| RNA polymerase, sigma 28 subunit [Shewanella frigidimarina NCIMB 400] Length = 239 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 49/212 (23%), Positives = 97/212 (45%), Gaps = 19/212 (8%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ AM + I R W V N + Sbjct: 41 LDDLLQAGMMGLLEASSKFDNSKGAKFETFAGIRIRGAMIDEIRRGDW--VPRSVHRNNR 98 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + + L G L N+ + IA+KL++S E + D S+ +I Sbjct: 99 LVAHAIDEL-GQLLGRDANDTE------IAEKLDMSLDEY----HHILNDVSVGKIIGIE 147 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D S QD L+ D++ ++ E + ++ L ++ L R+ + + + Sbjct: 148 DLGVS--QDVLITDNESPDETFDSLAEIQ-FQSALVEAIKTLPERDALVLSL--YYDEAL 202 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+ + + EVS RV QI ++A +++ ++ Sbjct: 203 NLKEIGAILEVSESRVSQILSQAMLRLKAKLK 234 >gi|33322905|gb|AAQ07189.1|AF496497_1 RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. lactis] Length = 167 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 23/58 (39%), Positives = 34/58 (58%), Gaps = 2/58 (3%) Query: 225 RNMLTRSMSVLNPRERRIFEAR-RLQE-NPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L + L RE + R L + NP TLE + F V+RER+RQIEA+A +K+ Sbjct: 96 KDQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKL 153 >gi|315108409|gb|EFT80385.1| sigma-70, region 4 [Propionibacterium acnes HL030PA2] Length = 270 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGEAIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|85859095|ref|YP_461297.1| putative cytoplasmic protein [Syntrophus aciditrophicus SB] gi|85722186|gb|ABC77129.1| hypothetical cytosolic protein [Syntrophus aciditrophicus SB] Length = 94 Score = 38.5 bits (88), Expect = 1.3, Method: Composition-based stats. Identities = 17/35 (48%), Positives = 24/35 (68%) Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 P TLE + V+RER+RQIEA+A KK+Q ++ Sbjct: 44 PFTLEEVGDMMGVTRERIRQIEAKALKKLQHKKRR 78 >gi|332096706|gb|EGJ01697.1| RNA polymerase sigma factor for flagellar operon [Shigella boydii 3594-74] Length = 229 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 51/238 (21%), Positives = 107/238 (44%), Gaps = 37/238 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L + ++ M Sbjct: 73 LRSRDWVPRSVRRNAREVAQAIGQLE---QELGRNATETE----VAERLGIDIADYRQM- 124 Query: 178 CRLAGDESLNALINSSDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNML 228 L+++++ + +W LV D D Q + +++ N R + Sbjct: 125 -----------LLDTNNSQLFSYDEWREEHGDSIELVTD-DHQRENPLQQLLDSNLRQRV 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K++ + K Sbjct: 173 MEAIETLPEREKLVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLSTKLGK 228 >gi|50842442|ref|YP_055669.1| RNA polymerase sigma factor [Propionibacterium acnes KPA171202] gi|50840044|gb|AAT82711.1| RNA polymerase sigma factor [Propionibacterium acnes KPA171202] gi|315105463|gb|EFT77439.1| sigma-70, region 4 [Propionibacterium acnes HL030PA1] Length = 270 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGEAIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|222833283|gb|EEE71760.1| predicted protein [Populus trichocarpa] Length = 152 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 6/77 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y G L A +V SH LV +IA+ LP I +++ G IGL+ A K+++ Sbjct: 2 YTIQGKLEQAD-VVKSHAPLVRRIALQLAAK-LPASVQIDDLIQAGMIGLLDAAKRYEDN 59 Query: 97 RGFRLATYSMWWIKAAM 113 G R TY+ I+ AM Sbjct: 60 HGARFETYASQRIRGAM 76 >gi|188592109|ref|YP_001796707.1| RNA polymerase sigma factor for flagellar operon; sigma-70 factor family; sigma-f factor; sigma-27; sigma-28 [Cupriavidus taiwanensis LMG 19424] gi|170938483|emb|CAP63470.1| RNA polymerase sigma factor for flagellar operon; sigma-70 factor family; Sigma-F factor; Sigma-27; Sigma-28 [Cupriavidus taiwanensis LMG 19424] Length = 238 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 26/77 (33%), Positives = 39/77 (50%), Gaps = 6/77 (7%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y G L A +V +H LV +IA+ LP I +++ G IGL+ A K+++ Sbjct: 2 YTIQGKLEQAD-VVKAHAPLVRRIALQLAAR-LPASVQIDDLIQAGMIGLLDAAKRYEDT 59 Query: 97 RGFRLATYSMWWIKAAM 113 G R TY+ I+ AM Sbjct: 60 HGARFETYASQRIRGAM 76 >gi|314918186|gb|EFS82017.1| sigma-70, region 4 [Propionibacterium acnes HL050PA1] Length = 270 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGEAIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|289425371|ref|ZP_06427148.1| sigma-70, region 4 [Propionibacterium acnes SK187] gi|289427143|ref|ZP_06428859.1| sigma-70, region 4 [Propionibacterium acnes J165] gi|295130519|ref|YP_003581182.1| sigma-70, region 4 [Propionibacterium acnes SK137] gi|289154349|gb|EFD03037.1| sigma-70, region 4 [Propionibacterium acnes SK187] gi|289159612|gb|EFD07800.1| sigma-70, region 4 [Propionibacterium acnes J165] gi|291375175|gb|ADD99029.1| sigma-70, region 4 [Propionibacterium acnes SK137] gi|313764535|gb|EFS35899.1| sigma-70, region 4 [Propionibacterium acnes HL013PA1] gi|313772426|gb|EFS38392.1| sigma-70, region 4 [Propionibacterium acnes HL074PA1] gi|313792224|gb|EFS40325.1| sigma-70, region 4 [Propionibacterium acnes HL110PA1] gi|313801827|gb|EFS43061.1| sigma-70, region 4 [Propionibacterium acnes HL110PA2] gi|313807437|gb|EFS45924.1| sigma-70, region 4 [Propionibacterium acnes HL087PA2] gi|313809944|gb|EFS47665.1| sigma-70, region 4 [Propionibacterium acnes HL083PA1] gi|313813018|gb|EFS50732.1| sigma-70, region 4 [Propionibacterium acnes HL025PA1] gi|313816077|gb|EFS53791.1| sigma-70, region 4 [Propionibacterium acnes HL059PA1] gi|313818482|gb|EFS56196.1| sigma-70, region 4 [Propionibacterium acnes HL046PA2] gi|313825126|gb|EFS62840.1| sigma-70, region 4 [Propionibacterium acnes HL063PA1] gi|313827695|gb|EFS65409.1| sigma-70, region 4 [Propionibacterium acnes HL063PA2] gi|313830275|gb|EFS67989.1| sigma-70, region 4 [Propionibacterium acnes HL007PA1] gi|313834076|gb|EFS71790.1| sigma-70, region 4 [Propionibacterium acnes HL056PA1] gi|313838653|gb|EFS76367.1| sigma-70, region 4 [Propionibacterium acnes HL086PA1] gi|314915531|gb|EFS79362.1| sigma-70, region 4 [Propionibacterium acnes HL005PA4] gi|314920001|gb|EFS83832.1| sigma-70, region 4 [Propionibacterium acnes HL050PA3] gi|314932014|gb|EFS95845.1| sigma-70, region 4 [Propionibacterium acnes HL067PA1] gi|314955884|gb|EFT00284.1| sigma-70, region 4 [Propionibacterium acnes HL027PA1] gi|314958197|gb|EFT02300.1| sigma-70, region 4 [Propionibacterium acnes HL002PA1] gi|314960081|gb|EFT04183.1| sigma-70, region 4 [Propionibacterium acnes HL002PA2] gi|314962882|gb|EFT06982.1| sigma-70, region 4 [Propionibacterium acnes HL082PA1] gi|314967752|gb|EFT11851.1| sigma-70, region 4 [Propionibacterium acnes HL037PA1] gi|314973281|gb|EFT17377.1| sigma-70, region 4 [Propionibacterium acnes HL053PA1] gi|314975956|gb|EFT20051.1| sigma-70, region 4 [Propionibacterium acnes HL045PA1] gi|314978286|gb|EFT22380.1| sigma-70, region 4 [Propionibacterium acnes HL072PA2] gi|314984025|gb|EFT28117.1| sigma-70, region 4 [Propionibacterium acnes HL005PA1] gi|314988208|gb|EFT32299.1| sigma-70, region 4 [Propionibacterium acnes HL005PA2] gi|314990010|gb|EFT34101.1| sigma-70, region 4 [Propionibacterium acnes HL005PA3] gi|315078096|gb|EFT50147.1| sigma-70, region 4 [Propionibacterium acnes HL053PA2] gi|315080726|gb|EFT52702.1| sigma-70, region 4 [Propionibacterium acnes HL078PA1] gi|315084397|gb|EFT56373.1| sigma-70, region 4 [Propionibacterium acnes HL027PA2] gi|315085736|gb|EFT57712.1| sigma-70, region 4 [Propionibacterium acnes HL002PA3] gi|315088845|gb|EFT60821.1| sigma-70, region 4 [Propionibacterium acnes HL072PA1] gi|315096194|gb|EFT68170.1| sigma-70, region 4 [Propionibacterium acnes HL038PA1] gi|315098455|gb|EFT70431.1| sigma-70, region 4 [Propionibacterium acnes HL059PA2] gi|327326110|gb|EGE67900.1| RNA polymerase sigma factor [Propionibacterium acnes HL096PA2] gi|327332019|gb|EGE73756.1| RNA polymerase sigma factor [Propionibacterium acnes HL096PA3] gi|327443222|gb|EGE89876.1| sigma-70, region 4 [Propionibacterium acnes HL013PA2] gi|327446006|gb|EGE92660.1| sigma-70, region 4 [Propionibacterium acnes HL043PA2] gi|327448014|gb|EGE94668.1| sigma-70, region 4 [Propionibacterium acnes HL043PA1] gi|327450862|gb|EGE97516.1| sigma-70, region 4 [Propionibacterium acnes HL087PA3] gi|327453061|gb|EGE99715.1| sigma-70, region 4 [Propionibacterium acnes HL092PA1] gi|327453790|gb|EGF00445.1| sigma-70, region 4 [Propionibacterium acnes HL083PA2] gi|328753549|gb|EGF67165.1| sigma-70, region 4 [Propionibacterium acnes HL020PA1] gi|328754281|gb|EGF67897.1| sigma-70, region 4 [Propionibacterium acnes HL087PA1] gi|328754466|gb|EGF68082.1| sigma-70, region 4 [Propionibacterium acnes HL025PA2] gi|328760671|gb|EGF74238.1| RNA polymerase sigma factor [Propionibacterium acnes HL099PA1] Length = 270 Score = 38.5 bits (88), Expect = 1.3, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGEAIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|300864899|ref|ZP_07109744.1| RNA polymerase sigma factor SigF [Oscillatoria sp. PCC 6506] gi|300337103|emb|CBN54894.1| RNA polymerase sigma factor SigF [Oscillatoria sp. PCC 6506] Length = 292 Score = 38.5 bits (88), Expect = 1.4, Method: Compositional matrix adjust. Identities = 28/126 (22%), Positives = 61/126 (48%), Gaps = 21/126 (16%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY---------ILRSWSLVKIGTTANQ 132 G+IGL++A+++FD +G +++++ +I+ +Q Y + R W ++ +++ Sbjct: 99 GSIGLIRAIERFDMSKGNAFSSFAIPYIRGEIQHYLRDKSPSVRVPRHWLTLERQSSSIV 158 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 K L L R ++ VA A ++V E + I + CR SL+A + Sbjct: 159 KDLQVRLNRHPTDIE------------VATALNISVGEWQEIKLACRNRSPLSLDAPLQD 206 Query: 193 SDKNSS 198 ++ ++ Sbjct: 207 EEEGAT 212 >gi|269103161|ref|ZP_06155858.1| RNA polymerase sigma factor for flagellar operon [Photobacterium damselae subsp. damselae CIP 102761] gi|268163059|gb|EEZ41555.1| RNA polymerase sigma factor for flagellar operon [Photobacterium damselae subsp. damselae CIP 102761] Length = 240 Score = 38.5 bits (88), Expect = 1.4, Method: Compositional matrix adjust. Identities = 51/238 (21%), Positives = 104/238 (43%), Gaps = 23/238 (9%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + H LV +IA M + I +++ G IGL++A + +DP +G T++ I Sbjct: 17 FIARHSSLVKRIAHHLMARLPPNILIEDLIQAGMIGLLEAQQNYDPTKGASFETFAGIRI 76 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + AM + I R W V N +R+ + +L+ L +++ E + ++ + Sbjct: 77 RGAMLDDIRRGDW--VPRSVYKNSRRISEAMAQLEHELGRDPNDHEVAEHLEMSLEQYHQ 134 Query: 169 SESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + ++V NC RL G + L +D + D +E + + + R Sbjct: 135 ALNDV---NCGRLVGIDDLGI-----------SEDAVANDELLEENLPFQGVVDDSFRQA 180 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L ++ L RE + +E + L+ + + VS R+ QI +A ++++ ++ Sbjct: 181 LAEAIKTLPEREALVLSLYYDEE--LNLKEIGAVIGVSESRICQIHTQAMQRLKAKLK 236 >gi|260437950|ref|ZP_05791766.1| RNA polymerase sigma-H factor [Butyrivibrio crossotus DSM 2876] gi|292809701|gb|EFF68906.1| RNA polymerase sigma-H factor [Butyrivibrio crossotus DSM 2876] Length = 205 Score = 38.5 bits (88), Expect = 1.4, Method: Compositional matrix adjust. Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 2/87 (2%) Query: 33 EEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKK 92 +E ++AK + GD AA L+ + LV K Y G +++ EG +GL +A++ Sbjct: 12 DEELVAKYH--SGDEKAADYLIEKYKNLVRKNVRSYYLAGADNEDLLQEGMLGLFKAIRD 69 Query: 93 FDPERGFRLATYSMWWIKAAMQEYILR 119 ++P+R T++ + ++ I R Sbjct: 70 YNPDRDALFMTFASLCVSRHIRSTITR 96 >gi|302531661|ref|ZP_07284003.1| RNA polymerase sigma-B factor [Streptomyces sp. AA4] gi|302440556|gb|EFL12372.1| RNA polymerase sigma-B factor [Streptomyces sp. AA4] Length = 258 Score = 38.5 bits (88), Expect = 1.4, Method: Compositional matrix adjust. Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV HL L +A +R + ++V +GL+ AV ++DP +G +++ I Sbjct: 37 LVREHLELARNLARKFRNRDEAMDDLVQIATVGLIHAVDRYDPTQGTDFLAFAVPTISGE 96 Query: 113 MQEYIL-RSWSL 123 ++ + SWS+ Sbjct: 97 LRHHFRDNSWSV 108 >gi|259908158|ref|YP_002648514.1| flagellar biosynthesis sigma factor [Erwinia pyrifoliae Ep1/96] gi|224963780|emb|CAX55281.1| RNA polymerase sigma factor for flagellar operon [Erwinia pyrifoliae Ep1/96] gi|283478078|emb|CAY73994.1| RNA polymerase sigma factor FliA/RpoD [Erwinia pyrifoliae DSM 12163] gi|310767931|gb|ADP12881.1| flagellar biosynthesis sigma factor [Erwinia sp. Ejp617] Length = 240 Score = 38.5 bits (88), Expect = 1.4, Method: Compositional matrix adjust. Identities = 47/220 (21%), Positives = 92/220 (41%), Gaps = 42/220 (19%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDAMQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + N R + G + + EQ VA + + E I + Sbjct: 92 SVRRNAREVAGAMHQVEQALGRTATEQEVAAQLDVPLEEYRQILL--------------- 136 Query: 192 SSDKNSSQWQDWLVY--DHDGQEQVLIEKEERKNR---------RNMLTRSMSVLNPRER 240 D N+SQ + Y +H +++ E E++N R+ + ++ L RE+ Sbjct: 137 --DTNNSQLFSFDEYREEHGDSAELVTEGHEQENPLHQLLEGDLRDRVIEAIDGLPEREK 194 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + +E + L+ + + EV RV Q+ ++A K++ Sbjct: 195 MVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|254506869|ref|ZP_05119008.1| flagellar biosynthesis sigma factor FliA [Vibrio parahaemolyticus 16] gi|219550154|gb|EED27140.1| flagellar biosynthesis sigma factor FliA [Vibrio parahaemolyticus 16] Length = 220 Score = 38.1 bits (87), Expect = 1.4, Method: Compositional matrix adjust. Identities = 49/213 (23%), Positives = 89/213 (41%), Gaps = 28/213 (13%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G IGL++A K +D +G TY+ I+ AM + I R W V + + Sbjct: 20 VEDLIQAGMIGLLEAQKNYDGTKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHSR 77 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNA 188 + + L+G L N P +A+ L +S + + +NC RL G E L Sbjct: 78 EISQAISVLEGEL------NRDPTD-AEVAQHLGLSLTQYHTALTDINCSRLVGIEDLGV 130 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 +D + D D + + + R L S+ L RE + Sbjct: 131 -----------SEDVITPDGDEEANTPFQGVADEYFRKALIDSIKSLPEREALVLSLYYD 179 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 +E + L+ + VS RV QI +++ ++++ Sbjct: 180 EE--LNLKEIGDVIGVSESRVSQILSQSMQRLR 210 >gi|327330175|gb|EGE71924.1| RNA polymerase sigma factor [Propionibacterium acnes HL097PA1] Length = 270 Score = 38.1 bits (87), Expect = 1.4, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGEAIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|312879625|ref|ZP_07739425.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Aminomonas paucivorans DSM 12260] gi|310782916|gb|EFQ23314.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Aminomonas paucivorans DSM 12260] Length = 210 Score = 38.1 bits (87), Expect = 1.4, Method: Compositional matrix adjust. Identities = 31/92 (33%), Positives = 48/92 (52%), Gaps = 3/92 (3%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR-GYGLPISEVVSEGNIGLM 87 LE +EE L R + GD A RL+ ++ LV +A +R YG ++V EG + L+ Sbjct: 27 LEPEEEERLWSRCCQ-GDEEARERLILAYRPLVFWLAKRFRVPYGT-YPDLVQEGMLALI 84 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 AV FD R R TY+ + ++ M ++ R Sbjct: 85 FAVDHFDALRKNRFITYAYYRVRGRMINFLQR 116 >gi|319649539|ref|ZP_08003695.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] gi|317398701|gb|EFV79383.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] Length = 251 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 55/221 (24%), Positives = 99/221 (44%), Gaps = 30/221 (13%) Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 ++ S G +GL A++KFDP R + TY+ + I+ A+ + LR + T K++ Sbjct: 53 DDIRSLGLMGLYDALEKFDPARDLKFDTYASFRIRGAILDG-LRKEDWLPRSTRDKAKKI 111 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS-MNCRLAGDESLNALINSSD 194 + +L+ L ++ V IA++ + E EV S MN E A I S D Sbjct: 112 DAAIEKLEQRL-------MRNATVHEIAEEAEMQEDEVYSVMN------EHFYANILSID 158 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKE---ERKNRRNMLTRSMS----VLNPRERRIFEARR 247 + + DG + EK E K +N L M+ LN +E+ + Sbjct: 159 EQPD------ADEKDGSYSIKDEKAIIPEEKVLKNELLEEMAEKILQLNEKEQMVLSLFY 212 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 +E +TL + +S R+ QI +++ K+++ ++K + Sbjct: 213 KEE--LTLTEIGEVMGLSTSRISQIHSKSIFKLRQLLEKAI 251 >gi|323499559|ref|ZP_08104529.1| flagellar biosynthesis sigma factor [Vibrio sinaloensis DSM 21326] gi|323315432|gb|EGA68473.1| flagellar biosynthesis sigma factor [Vibrio sinaloensis DSM 21326] Length = 244 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 57/252 (22%), Positives = 104/252 (41%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++ + ++ + + LV +IA G P + +++ G IGL++A K +D Sbjct: 4 ALTYDQYANQNSQRAFLEKYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREISQAISVLEGEL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +A+ L +S S + +NC RL G E L +D + + Sbjct: 116 RDPTD-AEVAQHLGMSLAQYHSALADINCSRLVGIEDLGV-----------SEDVISPED 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D + + + R L S+ L RE + +E + L+ + VS R Sbjct: 164 DDEANTPFQGVADEYFRKALVDSIKALPEREALVLSLYYDEE--LNLKEIGDVIGVSESR 221 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 222 VSQILSQSMQRL 233 >gi|189916711|gb|ACE62866.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] gi|189916713|gb|ACE62867.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] gi|189916715|gb|ACE62868.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] Length = 161 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%) Query: 232 MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 95 LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 146 >gi|313837242|gb|EFS74956.1| sigma-70, region 4 [Propionibacterium acnes HL037PA2] gi|314927738|gb|EFS91569.1| sigma-70, region 4 [Propionibacterium acnes HL044PA1] gi|314972014|gb|EFT16112.1| sigma-70, region 4 [Propionibacterium acnes HL037PA3] gi|328907208|gb|EGG26974.1| sigma-70, region 4 [Propionibacterium sp. P08] Length = 270 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 14/49 (28%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G +GL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQSGCVGLGEAIERYDERRGARFSTVAWTWIRRRIGEEVVR 131 >gi|160946612|ref|ZP_02093815.1| hypothetical protein PEPMIC_00570 [Parvimonas micra ATCC 33270] gi|158446996|gb|EDP23991.1| hypothetical protein PEPMIC_00570 [Parvimonas micra ATCC 33270] Length = 254 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 51/254 (20%), Positives = 116/254 (45%), Gaps = 23/254 (9%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPE 96 L + Y E+ +L+ +L + +A Y G+ ++ ++GL+ A+ ++D Sbjct: 16 LFREYFENPTPELRDKLIEKNLYMAEILAKKYVNRGIDYDDLFQVASLGLIYAIDRYDIS 75 Query: 97 RGFRLATYSMWWIKAAMQEYILRSWSLVKIG--TTANQKRLF---FNLRRLKGHLQAITD 151 +GF ++++M I ++ Y ++++ N K++ ++L + G I D Sbjct: 76 KGFEFSSFAMPTIVGEIKRYFRDKGWVIRVPRRIQENSKKVNNAKYHLTQELGRTPTIKD 135 Query: 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 +A +L+ E I ++ +SL+ +SD S+ +D + D G+ Sbjct: 136 --------IADYVELSEEEVLEIMEASKVYTPQSLDQSFENSD---SEDKDTNLIDIVGE 184 Query: 212 EQVLIEKE-ERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 E +KE + + ++ + +++ L E++I R ++ T L+ E +S+ V Sbjct: 185 E----DKEFDFIDNQDFIRKTLDKLTEVEKQIILGRYFEQK--TQVALAKELNISQMTVS 238 Query: 271 QIEARAFKKVQESI 284 ++E +A K +E + Sbjct: 239 RLEKKALAKFREEL 252 >gi|167768028|ref|ZP_02440081.1| hypothetical protein CLOSS21_02571 [Clostridium sp. SS2/1] gi|317498378|ref|ZP_07956673.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] gi|167710357|gb|EDS20936.1| hypothetical protein CLOSS21_02571 [Clostridium sp. SS2/1] gi|291561028|emb|CBL39828.1| Sigma-70 region 3./Sigma-70 region 2 [butyrate-producing bacterium SSC/2] gi|316894272|gb|EFV16459.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] Length = 256 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 40/151 (26%), Positives = 79/151 (52%), Gaps = 15/151 (9%) Query: 26 IPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIG 85 +P E+Q+E + A E GD A ++ S L +++IA + G G+ ++V EGNIG Sbjct: 97 LPGEEEQKELIHA-WLVEKGDGEA---VIESFLPQILEIARTHTGKGVLFGDLVQEGNIG 152 Query: 86 LMQAVKKF---DPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRL 142 L++A+ + D E GF + K+A+++ IL + ++ + G+ + + + RL Sbjct: 153 LLEAMAIYQGKDAE-GF------LAHAKSAVEDSILDAIAIQR-GSDSVGEAMAIKANRL 204 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEV 173 ++ + ++ +AK L+++E EV Sbjct: 205 DDASTFLSKELGREPKIEELAKYLSMTEEEV 235 >gi|312140062|ref|YP_004007398.1| sigma-70 factor [Rhodococcus equi 103S] gi|311889401|emb|CBH48717.1| sigma-70 factor [Rhodococcus equi 103S] Length = 289 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 1/72 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL + L + ++A YR G+P +E+ + L+ A ++FDP RG Y++ ++ Sbjct: 66 RLCVAALPMAYRVAGRYRNRGVPTAELRQVAALALVGAARRFDPSRGTDFIPYAVTSVRG 125 Query: 112 AMQEYILR-SWS 122 +++Y +WS Sbjct: 126 EIRKYFRDFTWS 137 >gi|189916709|gb|ACE62865.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] Length = 161 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%) Query: 232 MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 95 LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 146 >gi|159795060|pdb|2P7V|B Chain B, Crystal Structure Of The Escherichia Coli Regulator Of Sigma 70, Rsd, In Complex With Sigma 70 Domain 4 Length = 68 Score = 38.1 bits (87), Expect = 1.5, Method: Compositional matrix adjust. Identities = 16/35 (45%), Positives = 27/35 (77%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 27 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 61 >gi|266621294|ref|ZP_06114229.1| DNA-directed RNA polymerase sigma subunit [Clostridium hathewayi DSM 13479] gi|288867054|gb|EFC99352.1| DNA-directed RNA polymerase sigma subunit [Clostridium hathewayi DSM 13479] Length = 188 Score = 38.1 bits (87), Expect = 1.6, Method: Compositional matrix adjust. Identities = 18/54 (33%), Positives = 31/54 (57%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 G+ A RL+ +L +K A Y G G+ ++++V+E N+ L AV +F + G Sbjct: 25 GNEGAKKRLIEGNLEAALKCAKEYDGKGVLLTDLVAEANMALTMAVTEFLTDAG 78 >gi|119718035|ref|YP_925000.1| sigma-70 region 2 domain-containing protein [Nocardioides sp. JS614] gi|119538696|gb|ABL83313.1| sigma-70 region 2 domain protein [Nocardioides sp. JS614] Length = 257 Score = 38.1 bits (87), Expect = 1.6, Method: Compositional matrix adjust. Identities = 16/65 (24%), Positives = 36/65 (55%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ ++ + V +RG G+ ++ +GL++AVK FDP+RG ++++ I+ Sbjct: 35 LIRLNMAVAVDATRRFRGRGIATDDLEQVAYVGLVKAVKGFDPDRGHDFLSFAIPTIRGE 94 Query: 113 MQEYI 117 ++ + Sbjct: 95 VRRHF 99 >gi|188997568|ref|YP_001931819.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Sulfurihydrogenibium sp. YO3AOP1] gi|188932635|gb|ACD67265.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Sulfurihydrogenibium sp. YO3AOP1] Length = 242 Score = 38.1 bits (87), Expect = 1.6, Method: Compositional matrix adjust. Identities = 48/214 (22%), Positives = 102/214 (47%), Gaps = 25/214 (11%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G +GL A++KFDP +G + +TY+ ++ + ++ LR + N + NL Sbjct: 44 GVLGLYDALEKFDPAKGVKFSTYAEIRVRGYILDH-LRQLDWI----PRNIRNKVKNLEN 98 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQ 201 L+ KPE+ IA+ L +S E + + ++++N ++ S D + S+ Sbjct: 99 KIVELETKLGREAKPEE---IAEYLGMSLEEYM-----IYAEKAVNKILISLDSDVSKDD 150 Query: 202 D-----WLVY--DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 D W V + D E+ + EK+ ++ +++ M+ L+ RE+ I ++ + Sbjct: 151 DESLHLWEVISTNDDTPEKYVEEKQLKEILSDII---MNKLDEREKLIVTLYYYED--LN 205 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++ ++ + RV Q+ + K+++ I+K V Sbjct: 206 MKEIAEILGCTESRVSQLHTKIMLKIRKLIEKYV 239 >gi|14994233|gb|AAK73284.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] Length = 144 Score = 38.1 bits (87), Expect = 1.6, Method: Compositional matrix adjust. Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%) Query: 232 MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 78 LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 129 >gi|292488613|ref|YP_003531497.1| RNA polymerase sigma factor FliA/RpoD [Erwinia amylovora CFBP1430] gi|292899773|ref|YP_003539142.1| RNA polymerase sigma factor for flagellar operon (sigma-F factor) [Erwinia amylovora ATCC 49946] gi|291199621|emb|CBJ46740.1| RNA polymerase sigma factor for flagellar operon (sigma-F factor) [Erwinia amylovora ATCC 49946] gi|291554044|emb|CBA21132.1| RNA polymerase sigma factor FliA/RpoD [Erwinia amylovora CFBP1430] gi|312172755|emb|CBX81011.1| RNA polymerase sigma factor FliA/RpoD [Erwinia amylovora ATCC BAA-2158] Length = 240 Score = 38.1 bits (87), Expect = 1.6, Method: Compositional matrix adjust. Identities = 47/220 (21%), Positives = 92/220 (41%), Gaps = 42/220 (19%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDAMQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + N R + G + + EQ VA + + E I + Sbjct: 92 SVRRNAREVAGAMHQVEQALGRTATEQEVAAQLDVPLEEYRQILL--------------- 136 Query: 192 SSDKNSSQWQDWLVY--DHDGQEQVLIEKEERKNR---------RNMLTRSMSVLNPRER 240 D N+SQ + Y +H +++ E E++N R+ + ++ L RE+ Sbjct: 137 --DTNNSQLFSFDEYREEHGDSAELVTEGHEQENPLHQLLEGDLRDRVIEAIDGLPEREK 194 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + +E + L+ + + EV RV Q+ ++A K++ Sbjct: 195 MVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|51596050|ref|YP_070241.1| flagellar biosynthesis sigma factor [Yersinia pseudotuberculosis IP 32953] gi|153949581|ref|YP_001401249.1| flagellar biosynthesis sigma factor [Yersinia pseudotuberculosis IP 31758] gi|170024605|ref|YP_001721110.1| flagellar biosynthesis sigma factor [Yersinia pseudotuberculosis YPIII] gi|186895155|ref|YP_001872267.1| flagellar biosynthesis sigma factor [Yersinia pseudotuberculosis PB1/+] gi|51589332|emb|CAH20954.1| RNA polymerase sigma factor for flagellar operon [Yersinia pseudotuberculosis IP 32953] gi|152961076|gb|ABS48537.1| RNA polymerase sigma factor for flagellar operon [Yersinia pseudotuberculosis IP 31758] gi|169751139|gb|ACA68657.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Yersinia pseudotuberculosis YPIII] gi|186698181|gb|ACC88810.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Yersinia pseudotuberculosis PB1/+] Length = 240 Score = 38.1 bits (87), Expect = 1.6, Method: Compositional matrix adjust. Identities = 43/216 (19%), Positives = 92/216 (42%), Gaps = 34/216 (15%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + +Q + +P +A+ L++ E + L++++ Sbjct: 92 SVRRNAREVASAMQQVEQRVGRPATEQEVAQVLDIGLVEYRQI------------LLDTN 139 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRRNMLTRSMSVLNPRERRIFE 244 + + +W +H + L+E E N R + ++ L RE+ + Sbjct: 140 NSQLFSYDEWR-EEHGESVEPLLEGHEDANPLKHLLEGNLRQRVIEAIEALPEREKMVLT 198 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 199 LYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|325674464|ref|ZP_08154152.1| stress response/stationary phase sigma factor SigF [Rhodococcus equi ATCC 33707] gi|325554724|gb|EGD24398.1| stress response/stationary phase sigma factor SigF [Rhodococcus equi ATCC 33707] Length = 269 Score = 38.1 bits (87), Expect = 1.6, Method: Compositional matrix adjust. Identities = 20/72 (27%), Positives = 39/72 (54%), Gaps = 1/72 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 RL + L + ++A YR G+P +E+ + L+ A ++FDP RG Y++ ++ Sbjct: 46 RLCVAALPMAYRVAGRYRNRGVPTAELRQVAALALVGAARRFDPSRGTDFIPYAVTSVRG 105 Query: 112 AMQEYILR-SWS 122 +++Y +WS Sbjct: 106 EIRKYFRDFTWS 117 >gi|332654157|ref|ZP_08419901.1| RNA polymerase sigma-F factor [Ruminococcaceae bacterium D16] gi|332517243|gb|EGJ46848.1| RNA polymerase sigma-F factor [Ruminococcaceae bacterium D16] Length = 239 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 22/83 (26%), Positives = 43/83 (51%), Gaps = 1/83 (1%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A +++ + L+ + Y G G+ ++ G +G ++AV+ FDP G + +T Sbjct: 16 EGDNRACEQVLEENNGLIWSVVRRYYGRGVEPDDLYQLGCLGFLKAVRGFDPAFGTQFST 75 Query: 104 YSMWWIKAAMQEYILRSWSLVKI 126 Y++ I ++ + LR VK+ Sbjct: 76 YAVPKIAGEIRRF-LRDDGAVKV 97 >gi|189916717|gb|ACE62869.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] Length = 161 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%) Query: 232 MSVLNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 ++ L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 95 LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 146 >gi|29833942|ref|NP_828576.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29611067|dbj|BAC75111.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 264 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 18/65 (27%), Positives = 35/65 (53%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V + L + +IA YRG G ++ +GL++AV ++DP RG +Y++ I Sbjct: 41 IVRAWLPMAERIAWRYRGRGESTEDLCQVAAVGLVKAVDRYDPARGNAFESYAVPTITGE 100 Query: 113 MQEYI 117 ++ + Sbjct: 101 IKRHF 105 >gi|164415557|gb|ABY53195.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415559|gb|ABY53196.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415561|gb|ABY53197.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415563|gb|ABY53198.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415565|gb|ABY53199.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415567|gb|ABY53200.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415569|gb|ABY53201.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415571|gb|ABY53202.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415573|gb|ABY53203.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415575|gb|ABY53204.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415577|gb|ABY53205.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415579|gb|ABY53206.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415581|gb|ABY53207.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415583|gb|ABY53208.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415585|gb|ABY53209.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415587|gb|ABY53210.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415589|gb|ABY53211.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415591|gb|ABY53212.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415593|gb|ABY53213.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] Length = 166 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 21/49 (42%), Positives = 33/49 (67%), Gaps = 2/49 (4%) Query: 235 LNPRERRIFEAR-RLQENPV-TLENLSSEFEVSRERVRQIEARAFKKVQ 281 L PRE ++ R + N TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 103 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 151 >gi|78485092|ref|YP_391017.1| sigma 28 (flagella/sporulation) [Thiomicrospira crunogena XCL-2] gi|78363378|gb|ABB41343.1| sigma 28 (Flagella/Sporulation) [Thiomicrospira crunogena XCL-2] Length = 241 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 26/84 (30%), Positives = 44/84 (52%), Gaps = 6/84 (7%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGF 99 H S A + + L LV +IA +G LP + +++ G IGL+++ +KFD +G Sbjct: 11 HKQTSGAAINIEAFLPLVKRIAYHLKGR-LPDSVMVDDLIQSGIIGLIESSQKFDATQGA 69 Query: 100 RLATYSMWWIKAAMQEYILRS-WS 122 TY+ I+ AM + I + W+ Sbjct: 70 SFETYAGIRIRGAMLDEIRKGDWT 93 >gi|307327205|ref|ZP_07606393.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306887096|gb|EFN18094.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 272 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 32/155 (20%), Positives = 74/155 (47%), Gaps = 20/155 (12%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V + + + ++A YR G + ++ +GL++AVK++DPE G A +++ I Sbjct: 48 RVVEAWMPMAERLARQYRNRGESLEDLEQVAALGLVKAVKRYDPEHGTAFAGFAVPTIVG 107 Query: 112 AMQEYILRSWSLVKIGTTANQKRLFFNLR-RLK-GHLQAITDNNLKPEQVVAIAKKLNVS 169 ++ + ++ + R +LR R++ H + + +P + IA++ ++ Sbjct: 108 EIKRHFRDHLWVLHV------PRRVQDLRNRVRAAHRELSHSADDRPPRTQDIAERTGLT 161 Query: 170 ESEV------------ISMNCRLAGDESLNALINS 192 E EV +S++ +L G + +L ++ Sbjct: 162 EKEVRAGMEAMGSFTPLSLDAQLTGSDDGYSLADT 196 >gi|154484618|ref|ZP_02027066.1| hypothetical protein EUBVEN_02334 [Eubacterium ventriosum ATCC 27560] gi|149734466|gb|EDM50383.1| hypothetical protein EUBVEN_02334 [Eubacterium ventriosum ATCC 27560] Length = 237 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 54/235 (22%), Positives = 103/235 (43%), Gaps = 36/235 (15%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 GD A +++ + L+ I + G ++ G IG+++A+ +FD E +T Sbjct: 12 QGDKLARDKILIENTGLIWSIVRRFLNRGHEGEDLFQIGCIGMLKAIDRFDTEFDVAFST 71 Query: 104 YSMWWIKAAMQEYILRSWSLVKIG--TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV- 160 Y++ I ++ +I R +VKI NQ ++ H + I N K E + Sbjct: 72 YAVPMIAGEIRRFI-RDDGIVKISRKIKENQMKIM--------HQREIYINEKKQEPTIE 122 Query: 161 AIAKKLNVSESEVISMNCRLAGDESLNALINSSDK------NSSQWQDWLVYDHDGQEQV 214 + K ++++ E++ +A D S N + S DK ++ D D + +E V Sbjct: 123 ELEKVCDLTKEEIV-----MAMDASRN--VESIDKEMYSKDSAYTLMDLAEDDTNIEETV 175 Query: 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ---ENPVTLENLSSEFEVSR 266 L + M+ + M +L +ER+I R + ++ V E ++ +VSR Sbjct: 176 L--------NKIMVQQLMDMLESKERKIINLRYFKNKTQSQVAKEMGMTQVQVSR 222 >gi|212634384|ref|YP_002310909.1| flagellar biosynthesis sigma factor [Shewanella piezotolerans WP3] gi|212555868|gb|ACJ28322.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Shewanella piezotolerans WP3] Length = 239 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 47/213 (22%), Positives = 93/213 (43%), Gaps = 29/213 (13%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ +M + I R W V NQ+ Sbjct: 41 LDDLLQAGMMGLLEASSKFDGSKGAKFETFAGIRIRGSMLDEIRRGDW--VPRSVHRNQR 98 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNA 188 R+ + L+ Q + + PE IA++L +S E S+ ++ G E L Sbjct: 99 RVAQVIDELE---QELGRDARDPE----IAERLEMSLDEYYSILNDVSVGKVVGIEDLGV 151 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 ++ +V D + V E + L ++ +L R+ + Sbjct: 152 AVD------------VVNHEDNHDDVAYESLAEVEFHSALVAAIKLLPERDALVLSL--Y 197 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L+ + + EVS RV QI ++A +++ Sbjct: 198 YDEALNLKEIGAILEVSESRVSQIHSQAMLRLK 230 >gi|225871941|ref|YP_002753395.1| flagellar operon sigma factor FliA [Acidobacterium capsulatum ATCC 51196] gi|225792596|gb|ACO32686.1| flagellar operon sigma factor FliA [Acidobacterium capsulatum ATCC 51196] Length = 336 Score = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 43/203 (21%), Positives = 89/203 (43%), Gaps = 15/203 (7%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTANQK 133 + ++VS G +GL+ A++KFDP + + +Y+ + I+ A+ + + + WS + Sbjct: 105 LDDLVSAGVVGLLDAMRKFDPAKKVQFRSYAQFRIRGAILDSLRMLDWS---------PR 155 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L R ++ ++A+T + Q +A ++ + E + L G E + S Sbjct: 156 ELRRKGRAVEEAIRAVTARLGRAPQESEVAGEMGLPLHEYQQLLGELKGLEIGTLHVERS 215 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + + + +L D + K E + R L ++ L RER + +E + Sbjct: 216 EDSGEEELAFLPNDPEDDPLFRCLKGEMRER---LMAAIDALPERERLVMTLYYYEE--M 270 Query: 254 TLENLSSEFEVSRERVRQIEARA 276 T++ + V RV Q+ + A Sbjct: 271 TMKEIGLTLGVVESRVSQMHSSA 293 >gi|302343749|ref|YP_003808278.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfarculus baarsii DSM 2075] gi|301640362|gb|ADK85684.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfarculus baarsii DSM 2075] Length = 260 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 13/39 (33%), Positives = 26/39 (66%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 + +++ G +GL+ AV KFDPE+ + TY+ + ++ A+ Sbjct: 54 MEDLIGAGVLGLIDAVDKFDPEKNVKFKTYAEFRVRGAI 92 >gi|226364233|ref|YP_002782015.1| RNA polymerase sigma factor [Rhodococcus opacus B4] gi|226242722|dbj|BAH53070.1| RNA polymerase sigma factor [Rhodococcus opacus B4] Length = 285 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 18/114 (15%) Query: 22 EIRKIPMLEKQEEYVLAK---RYREH-------GDLSAA--------HRLVTSHLRLVVK 63 EIR+IP K ++ +YR+ G L+A+ RL+ L L Sbjct: 13 EIRRIPARTKPTHRTASRERDQYRDVPAQCAAIGRLAASDPRRELLRQRLIERCLPLAEH 72 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 IA + G G P+ +++ +GL++AV +FD G +Y++ I ++ + Sbjct: 73 IARRFLGRGEPLDDLIQVARLGLVKAVDRFDARCGASFVSYAVPTITGEVRRHF 126 >gi|169629597|ref|YP_001703246.1| RNA polymerase sigma factor SigF [Mycobacterium abscessus ATCC 19977] gi|169241564|emb|CAM62592.1| Alternative sigma factor SigF [Mycobacterium abscessus] Length = 272 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 56/242 (23%), Positives = 100/242 (41%), Gaps = 33/242 (13%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +VT L L +A + G + +++ +GL+ AV +FDPE+G A++ + + Sbjct: 53 IVTRCLPLADNVARHFDRRGEDLEDLIQVARVGLLNAVNRFDPEKG---ASFLGFAVPTM 109 Query: 113 MQE----YILRSWSL-VKIGTTANQKRLFFNLRRLKGHLQ-AITDNNLKPEQVVAIAKKL 166 M E + WSL V ++ L LQ A T L A +L Sbjct: 110 MGEVRRHFRDHGWSLHVPRAIRDRHAQISRATAELTQELQRAPTAGEL--------AAEL 161 Query: 167 NVSESEVISMNCRLAGD----ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 + EV+ +A D +S+ A ++ D+ S D L + E V + R Sbjct: 162 GIDREEVV--ESLIAADAYQPQSIEAPLSHGDQESKHLSDLLGNEDPALEHVTNREAVRP 219 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 N+ R +VL E R F+ +T ++++ VS+ V +I + + ++E Sbjct: 220 LLANLPLRERTVL---ELRFFKG-------MTQSQIAAQIGVSQMHVSRILSDTLRYLRE 269 Query: 283 SI 284 + Sbjct: 270 QM 271 >gi|317970336|ref|ZP_07971726.1| RNA polymerase sigma factor SigF [Synechococcus sp. CB0205] Length = 138 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 1/54 (1%) Query: 52 RLVTSHLRLVVKIAMGY-RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 R HL L + A Y R +G+PI E++S GL + +FD +G+R ++Y Sbjct: 11 RFACQHLGLARQQAHRYARRWGIPIEELLSPAYEGLCKGAAQFDAAKGYRPSSY 64 >gi|302549049|ref|ZP_07301391.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] gi|302466667|gb|EFL29760.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] Length = 263 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 31/124 (25%), Positives = 62/124 (50%), Gaps = 10/124 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV + L + +IA+ +RG G + ++ +GL++AV +DP RG Y++ + Sbjct: 41 LVEAWLPMAERIAVRFRGRGEALEDLYQVAALGLVKAVDHYDPARGNAFEAYAVPTVTGE 100 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPEQVVA-IAKKLNVS 169 ++ + W+L + R +LR R++ ++ ++ L VA IA+ +++ Sbjct: 101 IKRHFRDHMWTL-------HVPRRVQDLRNRVRHAVKELSQTTLGRAPTVAEIAEYAHLT 153 Query: 170 ESEV 173 E EV Sbjct: 154 EGEV 157 >gi|227498999|ref|ZP_03929136.1| RNA polymerase [Acidaminococcus sp. D21] gi|226904448|gb|EEH90366.1| RNA polymerase [Acidaminococcus sp. D21] Length = 232 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 2/68 (2%) Query: 36 VLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVK--KF 93 VL KR +E GD A L+ + LV K Y G ++V EG IGL +A++ +F Sbjct: 14 VLLKRIQEEGDGKAQDILLARYKELVKKKTSLYYMAGAERDDIVQEGMIGLFKAIRDYRF 73 Query: 94 DPERGFRL 101 D + F++ Sbjct: 74 DQKASFKV 81 >gi|302670826|ref|YP_003830786.1| RNA polymerase sigma factor sigma-70 family protein [Butyrivibrio proteoclasticus B316] gi|302395299|gb|ADL34204.1| RNA polymerase sigma factor sigma-70 family [Butyrivibrio proteoclasticus B316] Length = 258 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 11/85 (12%) Query: 16 LSRYIHEIRKIPMLEKQEEYVLA-KRYRE----HGDLSAAHRLVTSHLRLVVKIAMGYRG 70 L+ Y+ ++++P EY KR E GD A +L+ L LVV +A Y Sbjct: 81 LNDYLESLKELP------EYTDGEKRAIEMSAISGDKEAQSKLIECFLPLVVDVARMYTE 134 Query: 71 YGLPISEVVSEGNIGLMQAVKKFDP 95 G+ + +++ EGN L + V D Sbjct: 135 QGVYLEDLIGEGNFALTKGVTMLDA 159 >gi|212709528|ref|ZP_03317656.1| hypothetical protein PROVALCAL_00570 [Providencia alcalifaciens DSM 30120] gi|212687866|gb|EEB47394.1| hypothetical protein PROVALCAL_00570 [Providencia alcalifaciens DSM 30120] Length = 242 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 44/220 (20%), Positives = 96/220 (43%), Gaps = 34/220 (15%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 I +++ G IGL+ A+++FD G ATY++ I+ +M E R W + + Sbjct: 45 IDDLIQAGGIGLLHALERFDASLGASFATYAVQRIRGSMLDELRSRDW------VPRSVR 98 Query: 134 RLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 R + + G L Q++ + +PE IAK L++ +E L+++ Sbjct: 99 RQAREMTKAIGELEQSLGRSATEPE----IAKALDIDLAEY------------RQVLLDT 142 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEE--------RKNRRNMLTRSMSVLNPRERRIFE 244 ++ + +W + E + E + + ++ + ++ L RE+ + Sbjct: 143 NNSQLFSYDEWHEVHGESCEPSMDEDDGGNPLSLLMESSLKDQIVAAIEQLPEREKMVLT 202 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 +E + L+ + + EV RV Q+ ++A K+++ + Sbjct: 203 LYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRSKL 240 >gi|330721193|gb|EGG99303.1| RNA polymerase sigma factor for flagellar operon [gamma proteobacterium IMCC2047] Length = 246 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 51/228 (22%), Positives = 100/228 (43%), Gaps = 21/228 (9%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV H LV +IA M + ++++V G +GL++A +KFD +G T++ + Sbjct: 22 LVEQHAPLVKRIAHHLMARLPSTVQLNDLVQSGMVGLLEAAQKFDASKGASFETFAGIRV 81 Query: 110 KAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + AM + + + W+ + + N RR+ ++A+ + +A ++ + Sbjct: 82 RGAMLDDVRKDDWA---------PRSVHRNARRVSEAIKAVEGRTGRDASDQEVAAEMGI 132 Query: 169 SESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML 228 + + AG + S D+ + Q D + E +R+ ++ L Sbjct: 133 PLEDYYAYLQDSAGTR-----LFSYDEVTEQ-DDSSILLAASATPTPHENVQRQAFKDNL 186 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 +++ L RER + A QE + L+ + S VS RV QI ++A Sbjct: 187 AQAIEALPERERMVL-ALYYQEE-LNLKEIGSVLGVSESRVSQIHSQA 232 >gi|90406802|ref|ZP_01214994.1| flagellar biosynthesis sigma factor FliA [Psychromonas sp. CNPT3] gi|90312039|gb|EAS40132.1| flagellar biosynthesis sigma factor FliA [Psychromonas sp. CNPT3] Length = 235 Score = 38.1 bits (87), Expect = 1.8, Method: Compositional matrix adjust. Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 3/75 (4%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 R G + L+ H LV KIA M + + +++ G IGL++A + FD +G Sbjct: 3 RVQGYYTDTAELIEKHTGLVQKIAYHLMARLPASVLVDDLLQSGMIGLLEAARNFDGSKG 62 Query: 99 FRLATYSMWWIKAAM 113 T+S I+ AM Sbjct: 63 ASFETFSGIRIRGAM 77 >gi|238764885|ref|ZP_04625825.1| RNA polymerase sigma factor for flagellar operon [Yersinia kristensenii ATCC 33638] gi|238696904|gb|EEP89681.1| RNA polymerase sigma factor for flagellar operon [Yersinia kristensenii ATCC 33638] Length = 240 Score = 37.7 bits (86), Expect = 1.8, Method: Compositional matrix adjust. Identities = 46/218 (21%), Positives = 94/218 (43%), Gaps = 38/218 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 + N R + +Q + +P EQ VA ++++E I ++ N Sbjct: 92 SVRRNAREVASAMQKVEQRLGRPATEQEVAQILDIDLAEYRQILLDTN-----------N 140 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEE---------RKNRRNMLTRSMSVLNPRERRI 242 S + +W++ +H + ++E E N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWRE----EHGESVEPMLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMV 196 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 197 LTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|289809217|ref|ZP_06539846.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 52 Score = 37.7 bits (86), Expect = 1.8, Method: Compositional matrix adjust. Identities = 23/49 (46%), Positives = 30/49 (61%), Gaps = 1/49 (2%) Query: 226 NMLTRSMSVLNPRERRIFEARRLQE-NPVTLENLSSEFEVSRERVRQIE 273 N LT +M L+ R + I AR L E N TL+ L+ + VS ERVRQ+E Sbjct: 2 NRLTDAMQGLDERSQDIIRARWLDEDNKSTLQELADRYGVSAERVRQLE 50 >gi|119491111|ref|ZP_01623269.1| Sigma 32 (RpoH) [Lyngbya sp. PCC 8106] gi|119453656|gb|EAW34816.1| Sigma 32 (RpoH) [Lyngbya sp. PCC 8106] Length = 304 Score = 37.7 bits (86), Expect = 1.8, Method: Compositional matrix adjust. Identities = 35/134 (26%), Positives = 66/134 (49%), Gaps = 15/134 (11%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ-----KRLF 136 G IGL+QA+++FD +G +++++ +I+ + Y+ L+++ +Q +L Sbjct: 105 GCIGLIQAIERFDLTKGCAFSSFAVPYIRGEILHYLRDKSLLIRVPRRCSQLKQEAAKLV 164 Query: 137 FNLRRLKGHLQAITDNNLKPEQVVAIAK----KLNVSESEVISMNCRLAGD----ESLNA 188 L+ K H + TD + ++I K KL V S V+S++ L + L Sbjct: 165 ILLQE-KLHRKP-TDLEIANSLGISIEKWNQVKLTVKNSSVLSLDIPLNDEFNEKHCLGE 222 Query: 189 LINSSDKNSSQWQD 202 LI S+ N+S Q+ Sbjct: 223 LIVDSNPNASMSQE 236 >gi|213028661|ref|ZP_03343108.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 88 Score = 37.7 bits (86), Expect = 1.9, Method: Composition-based stats. Identities = 16/35 (45%), Positives = 27/35 (77%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 47 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 81 >gi|289578405|ref|YP_003477032.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|297544681|ref|YP_003676983.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|289528118|gb|ADD02470.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|296842456|gb|ADH60972.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 246 Score = 37.7 bits (86), Expect = 1.9, Method: Compositional matrix adjust. Identities = 48/219 (21%), Positives = 100/219 (45%), Gaps = 42/219 (19%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTANQKRL 135 +++++G +GL+ A++K+ P +G + TY+ I+ + +Y+ + W Sbjct: 51 DLINQGVLGLIDAIEKYQPSKGVKFETYATLRIRGEIIDYLRKKDWM------------- 97 Query: 136 FFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES-EVISMNCRLAGDESLNAL--INS 192 R LK + I E V + +K N + E I+ C L + L L IN Sbjct: 98 ---PRSLKKKYKKI------EETVETLQQKYNREPTVEEITEACGLNETDVLKTLSYINV 148 Query: 193 SDKNS------SQWQDWLVYD---HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 S+ NS + ++ + D + +E+VL ++ +RK L ++ L +ER + Sbjct: 149 SNINSLEEAIENNFKLHAISDVELKNPEEEVLYKELKRK-----LANAIKNLPDKERLVI 203 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ + +++S ++ R+ QI +A K+++E Sbjct: 204 TLYYYED--LNYKDISKILNLTESRISQIHTKAIKRIRE 240 >gi|225569957|ref|ZP_03778982.1| hypothetical protein CLOHYLEM_06052 [Clostridium hylemonae DSM 15053] gi|225161427|gb|EEG74046.1| hypothetical protein CLOHYLEM_06052 [Clostridium hylemonae DSM 15053] Length = 274 Score = 37.7 bits (86), Expect = 1.9, Method: Compositional matrix adjust. Identities = 60/278 (21%), Positives = 127/278 (45%), Gaps = 57/278 (20%) Query: 37 LAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGLMQAVKK 92 L + YR+ G L + +L +V IA+ Y G+ + ++V+EG I LM+A+ K Sbjct: 19 LLELYRKTGSLEVKQEIALRYLYIVKSIAVQMRNVYAGFS-QVEDIVNEGVIMLMKAIDK 77 Query: 93 FDPERGFRLATYSMWWIKAAM------QEYILR----SWSLVKIGTTANQKRLFFNLRRL 142 ++ ++ + TY I+ + Q++I R S+ +K + +F+ Sbjct: 78 YEADKNAKFETYVSKRIRGMIIDIARKQDWIPRTVRKSYRDIKEASA-----VFY----- 127 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR----LAGDESLNALINSS---DK 195 +++ +PE A++L SE++ M+ + G SL ++++ ++ Sbjct: 128 -------SEHGREPE-----AEEL----SELLHMDIEKFRDIMGKASLFSVLSLDMVLEE 171 Query: 196 NSSQWQDWLVYDHDGQEQV---LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 Q++ + +EQ L++KE R+ML + L E+ + ++E Sbjct: 172 TKEQYRSIQIPSDKKEEQPEAHLMDKE----FRHMLADGIRSLKENEQTVISLYYMEE-- 225 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVEL 290 + ++ ++ VS R+ QI A A +K++E ++ +L Sbjct: 226 LNMKEIAGILHVSEPRISQIHAGAIRKLREYFTEKTKL 263 >gi|1706832|sp|P52621|FLIA_YEREN RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|790557|gb|AAC43394.1| FliA [Yersinia enterocolitica (type O:9)] Length = 230 Score = 37.7 bits (86), Expect = 1.9, Method: Compositional matrix adjust. Identities = 46/232 (19%), Positives = 99/232 (42%), Gaps = 37/232 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM E Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDRLQGTAFTTYAVQRIRGAMLDEL 73 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 R W+ + + N R + +Q + +P +A+ L++ +E + Sbjct: 74 RSRDWA---------PRSVRRNAREVASAMQKVEQRLGRPATEQEVAQNLDIDLTEYRQI 124 Query: 177 NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEE--------RKNRRNML 228 L+++++ + +W + E +L E+ N R + Sbjct: 125 ------------LLDTNNSQLFSYDEWREEHGESVEPMLEGHEDANPLQHLLEGNLRQRV 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K++ Sbjct: 173 IEAIEALPEREKMVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 222 >gi|283785667|ref|YP_003365532.1| flagellar-specific Sigma F (Sigma 28) factor [Citrobacter rodentium ICC168] gi|282949121|emb|CBG88728.1| flagellar-specific Sigma F (Sigma 28) factor [Citrobacter rodentium ICC168] Length = 239 Score = 37.7 bits (86), Expect = 1.9, Method: Compositional matrix adjust. Identities = 49/221 (22%), Positives = 98/221 (44%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + E M L+++++ Sbjct: 100 VAQAMGQLE---QELGRNATETE----VAERLGIPVEEYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV + QE L + E N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTEEHQQENPLQQLLE-SNLRQRVMDAIEALPEREQLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|193222293|emb|CAL61487.2| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) (Sigma-27) (Sigma-28) [Herminiimonas arsenicoxydans] Length = 243 Score = 37.7 bits (86), Expect = 1.9, Method: Compositional matrix adjust. Identities = 50/241 (20%), Positives = 111/241 (46%), Gaps = 20/241 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV+ H LV K+A + P + +++ G IGL+ AV +++ G + TY++ I Sbjct: 13 LVSEHAPLVKKLAHQMKAKLPPSVEVDDLIQAGMIGLLDAVGRYEETHGAQFETYAVQRI 72 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM + LRS + + + N+R+++ + ++ +P +AK+L +S Sbjct: 73 RGAMLDE-LRSSDWMP-------RSMRQNMRKIEVAMNSLQQKLGRPPNESEVAKQLKLS 124 Query: 170 ESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV--YDHDGQEQVLIEKEERKNRRNM 227 ++ L D + L+ D + S+ + + Y D L + R+ Sbjct: 125 LADYQD----LLSDGGGHQLVYYEDFHDSEDNEHFLDRYCTDESPDPL-QNLMNTGFRSA 179 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + ++ L RE+ + QE + L+ + + V+ RV Q+ ++A +++ +++++ Sbjct: 180 VIAAIEALPEREKILMSLYYEQE--MNLKEIGAVMGVTESRVSQLHSQAIARMRANLREK 237 Query: 288 V 288 Sbjct: 238 A 238 >gi|37680648|ref|NP_935257.1| flagellar biosynthesis sigma factor [Vibrio vulnificus YJ016] gi|37199396|dbj|BAC95228.1| polar Flagellar-specific RNA polymerase sigma factor FliA [Vibrio vulnificus YJ016] Length = 245 Score = 37.7 bits (86), Expect = 2.0, Method: Compositional matrix adjust. Identities = 58/252 (23%), Positives = 104/252 (41%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +H ++++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 5 ALTYDQHANVNSQKLFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYD 64 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 65 ASKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKSNREISQAIAELEGLL------N 116 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK + +S + +NC RL G E L SD D + Sbjct: 117 RDPTD-AEVAKHMGLSLEQYHGALTDINCSRLIGIEDLGV----SD-------DVITSVE 164 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D + + + R L S+ L RE + +E + L+ + VS R Sbjct: 165 DSENNTPFKGVADEYFRKALVESIKQLPEREALVLSLYYDEE--LNLKEIGEILSVSESR 222 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 223 VSQILSQSMQRL 234 >gi|270157125|ref|ZP_06185782.1| RNA polymerase sigma-28 factor FliA [Legionella longbeachae D-4968] gi|289164470|ref|YP_003454608.1| sigma factor 28 [Legionella longbeachae NSW150] gi|269989150|gb|EEZ95404.1| RNA polymerase sigma-28 factor FliA [Legionella longbeachae D-4968] gi|288857643|emb|CBJ11483.1| sigma factor 28 [Legionella longbeachae NSW150] Length = 238 Score = 37.7 bits (86), Expect = 2.0, Method: Compositional matrix adjust. Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 3/71 (4%) Query: 53 LVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 LV +H LV +IA +G G+ + +++ G +GL++A + +D +G TY+ I Sbjct: 18 LVKNHALLVKRIAHHLLGRLPQGIQLDDLIQAGMLGLLEAARHYDSSKGASFETYAGIRI 77 Query: 110 KAAMQEYILRS 120 + M + + R+ Sbjct: 78 RGYMLDEVRRN 88 >gi|330961077|gb|EGH61337.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. maculicola str. ES4326] Length = 167 Score = 37.7 bits (86), Expect = 2.0, Method: Compositional matrix adjust. Identities = 15/28 (53%), Positives = 24/28 (85%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 126 TLEEVGKQFDVTRERIRQIEAKALRKLR 153 >gi|292669753|ref|ZP_06603179.1| DNA-directed RNA polymerase sigma subunit FliA [Selenomonas noxia ATCC 43541] gi|292648550|gb|EFF66522.1| DNA-directed RNA polymerase sigma subunit FliA [Selenomonas noxia ATCC 43541] Length = 251 Score = 37.7 bits (86), Expect = 2.0, Method: Compositional matrix adjust. Identities = 50/242 (20%), Positives = 101/242 (41%), Gaps = 35/242 (14%) Query: 54 VTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + H +V++ G LP +++S G GL+ A+++++ RG + TY+ + Sbjct: 31 IAEHYLPLVRLVAGRIAISLPQHVDREDLLSSGFFGLLDAIERYELARGNKFETYAGVRV 90 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAK---- 164 + AM ++ LR+ + + N K+ + L+G L + TD L E + I Sbjct: 91 RGAMLDH-LRAKDWIPVSVRQNIKKYEKAVAHLEGELGRTATDEELAEELDLTIEGLHHL 149 Query: 165 KLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNR 224 + VS + VI + L D + DG +E E Sbjct: 150 EGQVSAATVIPLEEYLRTDSPTSL-------------------EDGP----VEHAEWTEV 186 Query: 225 RNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + L ++ L +ER + E +TL+ +++ +S R+ Q+ +A +++ S+ Sbjct: 187 KETLAAAIEKLPEKERTVITLYYYDE--MTLKEIAAILHLSEARISQLHTKAIFRMRGSL 244 Query: 285 QK 286 + Sbjct: 245 AR 246 >gi|254973714|ref|ZP_05270186.1| RNA polymerase factor sigma-70 [Clostridium difficile QCD-66c26] gi|255091104|ref|ZP_05320582.1| RNA polymerase factor sigma-70 [Clostridium difficile CIP 107932] gi|255099216|ref|ZP_05328193.1| RNA polymerase factor sigma-70 [Clostridium difficile QCD-63q42] gi|255304999|ref|ZP_05349171.1| RNA polymerase factor sigma-70 [Clostridium difficile ATCC 43255] gi|255312759|ref|ZP_05354342.1| RNA polymerase factor sigma-70 [Clostridium difficile QCD-76w55] gi|255515519|ref|ZP_05383195.1| RNA polymerase factor sigma-70 [Clostridium difficile QCD-97b34] gi|255648612|ref|ZP_05395514.1| RNA polymerase factor sigma-70 [Clostridium difficile QCD-37x79] gi|255654145|ref|ZP_05399554.1| RNA polymerase factor sigma-70 [Clostridium difficile QCD-23m63] Length = 215 Score = 37.7 bits (86), Expect = 2.1, Method: Compositional matrix adjust. Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 1/79 (1%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 +Q+EY + R E GD A ++T + V A Y G +++ EG IGL +AV Sbjct: 16 QQDEYNIVLRASE-GDKIALEYIITKYRNFVKAKAKSYFLIGADKEDIIQEGMIGLYKAV 74 Query: 91 KKFDPERGFRLATYSMWWI 109 + FD + ++ I Sbjct: 75 RDFDGSKTNSFKCFAEICI 93 >gi|54308132|ref|YP_129152.1| flagellar biosynthesis sigma factor [Photobacterium profundum SS9] gi|46912558|emb|CAG19350.1| Putative flagellar-specific RNA polymerase sigma factor, FliA [Photobacterium profundum SS9] Length = 240 Score = 37.7 bits (86), Expect = 2.1, Method: Compositional matrix adjust. Identities = 51/231 (22%), Positives = 99/231 (42%), Gaps = 25/231 (10%) Query: 60 LVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 LV +IA MG + + +++ G IGL++A + +DP +G T++ I+ AM + Sbjct: 24 LVKRIAYHLMGRLPPSVQVEDLIQSGMIGLLEAQQNYDPTKGASFETFAGIRIRGAMLDD 83 Query: 117 ILRS-WSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLNVSESEVI 174 I R W V N +R+ + +L+ L + TD + + L+ + Sbjct: 84 IRRGDW--VPRSVYKNNRRITEAMAQLENKLGRDPTDTEIAEH----LEMTLDQYHQALN 137 Query: 175 SMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMS 233 +NC RL G + L +D + + +E + + N R L ++ Sbjct: 138 DVNCGRLVGMDDLGV-----------SEDAVTTEASREENLPFQGVVDDNFRQSLADAIK 186 Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L RE + +E + L+ + VS R+ QI ++A ++++ + Sbjct: 187 TLPEREALVLSLYYDEE--LNLKEIGVVVGVSESRICQIHSQAMQRLRSKL 235 >gi|313820245|gb|EFS57959.1| sigma-70 region 2 [Propionibacterium acnes HL036PA1] gi|313822945|gb|EFS60659.1| sigma-70 region 2 [Propionibacterium acnes HL036PA2] gi|314925132|gb|EFS88963.1| sigma-70 region 2 [Propionibacterium acnes HL036PA3] Length = 228 Score = 37.7 bits (86), Expect = 2.1, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 30/49 (61%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL +A++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGEAIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|118618107|ref|YP_906439.1| RNA polymerase sigma factor SigF [Mycobacterium ulcerans Agy99] gi|183981270|ref|YP_001849561.1| alternate RNA polymerase sigma factor SigF [Mycobacterium marinum M] gi|118570217|gb|ABL04968.1| alternate RNA polymerase sigma factor SigF [Mycobacterium ulcerans Agy99] gi|183174596|gb|ACC39706.1| alternate RNA polymerase sigma factor SigF [Mycobacterium marinum M] Length = 262 Score = 37.7 bits (86), Expect = 2.1, Method: Compositional matrix adjust. Identities = 53/239 (22%), Positives = 102/239 (42%), Gaps = 19/239 (7%) Query: 51 HR--LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 HR +V L L IA + G G P ++V +GL+ AV +FD E G ++++ Sbjct: 39 HRDTIVERCLPLADHIARRFEGRGEPRDDLVQVARVGLVNAVVRFDVETGSDFVSFAVPT 98 Query: 109 IKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLN 167 I ++ + SWS VK+ + L RL ++ + +A +L Sbjct: 99 IMGEVRRHFRDNSWS-VKVPRRLKELHL-----RLGAATAELSQRLGRAPTATELAAELE 152 Query: 168 VSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-EERKNRRN 226 + +EV+ L S N L S S + D G +++ E+R++ R Sbjct: 153 MDRAEVVEG---LVAGSSYNTLSIDSGSGSEDDDARAIADTLGDMDAGLDRIEDRESLRP 209 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +L L RER + R + +T ++ +S+ V ++ A++ ++++ ++ Sbjct: 210 LL----EALPERERTVLVLRFF--DSMTQTQIAERVGISQMHVSRLLAKSLARLRDQLE 262 >gi|332305676|ref|YP_004433527.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Glaciecola agarilytica 4H-3-7+YE-5] gi|332173005|gb|AEE22259.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Glaciecola agarilytica 4H-3-7+YE-5] Length = 242 Score = 37.7 bits (86), Expect = 2.1, Method: Compositional matrix adjust. Identities = 54/252 (21%), Positives = 107/252 (42%), Gaps = 24/252 (9%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 A Y++ D +A LV H LV +IA + + + +++ G IGL++A + FD Sbjct: 5 AAAYQQLDDRNA---LVERHAPLVKRIAHHLIARLPASVLVDDLIQAGMIGLLEASRNFD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G T++ I+ +M + I + W+ + + N R + + + Sbjct: 62 GSKGASFETFAGIRIRGSMLDEIRKGDWT---------PRSVHKNGRAITDAINKVERET 112 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 + + V IAKKL VS I ++ + + +I D + +D + + Sbjct: 113 GRDARDVDIAKKLEVS----IEQYHQMLSEVNAGKIIGMEDLGVT--EDVVTTEQTKGSD 166 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 E + + + L +++ L RE + +E + L + +VS RV QI Sbjct: 167 TPFEDLLQGSFQKALAHAITTLPEREAIVLSLYYDEE--LNLREIGEVLDVSESRVSQIH 224 Query: 274 ARAFKKVQESIQ 285 ++A K++ +Q Sbjct: 225 SQAMLKLKSKMQ 236 >gi|27365297|ref|NP_760825.1| flagellar biosynthesis sigma factor [Vibrio vulnificus CMCP6] gi|320155681|ref|YP_004188060.1| RNA polymerase sigma factor for flagellar operon [Vibrio vulnificus MO6-24/O] gi|27361444|gb|AAO10352.1| RNA polymerase sigma factor for flagellar operon [Vibrio vulnificus CMCP6] gi|319930993|gb|ADV85857.1| RNA polymerase sigma factor for flagellar operon [Vibrio vulnificus MO6-24/O] Length = 244 Score = 37.7 bits (86), Expect = 2.1, Method: Compositional matrix adjust. Identities = 58/252 (23%), Positives = 104/252 (41%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y +H ++++ + + LV +IA G P + +++ G IGL++A + +D Sbjct: 4 ALTYDQHANVNSQKLFIERYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLIEAQQNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 ASKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKSNREISQAIAELEGLL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +AK + +S + +NC RL G E L SD D + Sbjct: 116 RDPTD-AEVAKHMGLSLEQYHGALTDINCSRLIGIEDLGV----SD-------DVITSVE 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 D + + + R L S+ L RE + +E + L+ + VS R Sbjct: 164 DSENNTPFKGVADEYFRKALVESIKQLPEREALVLSLYYDEE--LNLKEIGEILSVSESR 221 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 222 VSQILSQSMQRL 233 >gi|108804234|ref|YP_644171.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765477|gb|ABG04359.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 264 Score = 37.7 bits (86), Expect = 2.1, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 29/42 (69%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 G+ ++VS G +GL++AV+ FDP RG + TY++ I+ A+ Sbjct: 69 GVEQEDLVSWGVVGLLKAVETFDPARGAKFETYAISKIRWAI 110 >gi|284007149|emb|CBA72430.1| flagellar biosynthesis sigma factor [Arsenophonus nasoniae] Length = 243 Score = 37.7 bits (86), Expect = 2.2, Method: Compositional matrix adjust. Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 1/48 (2%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSW 121 + ++V G IGL+ A+++FD +G TY++ ++ AM E R W Sbjct: 44 LDDLVQAGGIGLLDALERFDASQGTAFTTYAVQRVRGAMLDELRARDW 91 >gi|167949417|ref|ZP_02536491.1| RNA polymerase sigma factor RpoD [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 128 Score = 37.7 bits (86), Expect = 2.2, Method: Compositional matrix adjust. Identities = 15/28 (53%), Positives = 24/28 (85%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 86 TLEEVGKQFDVTRERIRQIEAKALRKLR 113 >gi|118465934|ref|YP_882149.1| RNA polymerase sigma factor SigF [Mycobacterium avium 104] gi|118167221|gb|ABK68118.1| RNA polymerase sigma-F factor [Mycobacterium avium 104] Length = 269 Score = 37.7 bits (86), Expect = 2.2, Method: Compositional matrix adjust. Identities = 59/273 (21%), Positives = 114/273 (41%), Gaps = 43/273 (15%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 E+R++P + EY +R RE R+V L L +A + G + ++V Sbjct: 31 ELRRMPA--ESHEY---RRQRE--------RIVARCLPLADHVASHFARRGEGLDDLVQV 77 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLR 140 +GLM AV +FDP +G +++ + ++ Y SW + R+ LR Sbjct: 78 ARLGLMNAVNRFDPAKGPSFIGFAVPTMMGEVRRYFRDYSWGM----------RVPRRLR 127 Query: 141 RLKGHLQAITDNNL----KPEQVVAIAKKLNVSESEVISMNCRLAGD----ESLNALINS 192 L + T + + +++ L V E++ C +AGD +SL+A + Sbjct: 128 ELHVQISRTTADLAQQLGRAPNAGELSQVLEVPREEIV--ECLVAGDAYRLDSLDAPQGA 185 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + V D D Q + + +E L ++ L RER + R + Sbjct: 186 DSSGTPRSVADSVGDIDPQIEHITNRE-------ALRVLVATLPHREREVLRMRFFES-- 236 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +T ++ VS+ +V +I A + +++ ++ Sbjct: 237 MTQSQIAERIGVSQMQVSRILANTLRCLRDQLE 269 >gi|291613029|ref|YP_003523186.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Sideroxydans lithotrophicus ES-1] gi|291583141|gb|ADE10799.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Sideroxydans lithotrophicus ES-1] Length = 247 Score = 37.7 bits (86), Expect = 2.2, Method: Compositional matrix adjust. Identities = 47/213 (22%), Positives = 94/213 (44%), Gaps = 18/213 (8%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G +GL+ A ++D RG + TY+ I+ AM + + G + Sbjct: 49 VDDLIQAGMMGLLDAASRYDELRGAQFETYAAQRIRGAMLDELR--------GADWLPRS 100 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 L ++RR++ + + K IA++L VS E M G + L+ D Sbjct: 101 LRRDMRRIETAVSRLQQQMGKTPNETEIARELGVSLHEYQQMLQEGRGAQ----LLYYED 156 Query: 195 KNSSQWQDWLV-YDHDGQEQVL-IEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + +D+ ++ G L + ++ER R L ++ L RER++ E Sbjct: 157 FHGEEGEDFFERFEFSGDSNPLELLQDERF--REALIHAIERLPERERQMMGMH--YEQD 212 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + L + VS RV Q+ ++A +++ S++ Sbjct: 213 MNLREIGEVMGVSESRVCQLHSQAVARLRASMK 245 >gi|41407572|ref|NP_960408.1| RNA polymerase sigma factor SigF [Mycobacterium avium subsp. paratuberculosis K-10] gi|41395925|gb|AAS03791.1| SigF_1 [Mycobacterium avium subsp. paratuberculosis K-10] Length = 269 Score = 37.7 bits (86), Expect = 2.2, Method: Compositional matrix adjust. Identities = 59/273 (21%), Positives = 114/273 (41%), Gaps = 43/273 (15%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 E+R++P + EY +R RE R+V L L +A + G + ++V Sbjct: 31 ELRRMPA--ESHEY---RRQRE--------RIVARCLPLADHVASHFARRGEGLDDLVQV 77 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLR 140 +GLM AV +FDP +G +++ + ++ Y SW + R+ LR Sbjct: 78 ARLGLMNAVNRFDPAKGPSFIGFAVPTMMGEVRRYFRDYSWGM----------RVPRRLR 127 Query: 141 RLKGHLQAITDNNL----KPEQVVAIAKKLNVSESEVISMNCRLAGD----ESLNALINS 192 L + T + + +++ L V E++ C +AGD +SL+A + Sbjct: 128 ELHVQISRTTADLAQQLGRAPNAGELSQVLEVPREEIV--ECLVAGDAYRLDSLDAPQGA 185 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + V D D Q + + +E L ++ L RER + R + Sbjct: 186 DSSGTPRSVADSVGDIDPQIEHITNRE-------ALRVLVATLPHREREVLRMRFFES-- 236 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +T ++ VS+ +V +I A + +++ ++ Sbjct: 237 MTQSQIAERIGVSQMQVSRILANTLRCLRDQLE 269 >gi|197294375|ref|YP_001798916.1| RNA polymerase sigma factor [Candidatus Phytoplasma australiense] gi|171853702|emb|CAM11593.1| RNA polymerase sigma factor [Candidatus Phytoplasma australiense] Length = 151 Score = 37.7 bits (86), Expect = 2.2, Method: Compositional matrix adjust. Identities = 31/123 (25%), Positives = 61/123 (49%), Gaps = 9/123 (7%) Query: 42 REHGDLSAAHRLVTSHLRLVVKIAMGYRGY--GLPISEVVSEGNIGLMQAVKKFDPERGF 99 + +L+ +L+ H LV KIA ++ + L ++ EG +GL++++ ++ + G+ Sbjct: 12 KNKNNLAIRDQLIKMHFPLVKKIANKFKYFPKSLQREDLYQEGILGLIKSLDNYE-DLGY 70 Query: 100 RLATYSMWWIKAAMQEYI--LRSWSL-VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP 156 Y+ IK + E I L++ S +K+ Q N+ + Q+I +NNL P Sbjct: 71 DFIAYATPTIKGEITELIRGLQTTSTPIKVFRKEKQTS---NIPFEENQPQSINNNNLNP 127 Query: 157 EQV 159 Q+ Sbjct: 128 HQI 130 >gi|330465518|ref|YP_004403261.1| hypothetical protein VAB18032_07705 [Verrucosispora maris AB-18-032] gi|328808489|gb|AEB42661.1| hypothetical protein VAB18032_07705 [Verrucosispora maris AB-18-032] Length = 237 Score = 37.7 bits (86), Expect = 2.2, Method: Compositional matrix adjust. Identities = 29/125 (23%), Positives = 63/125 (50%), Gaps = 14/125 (11%) Query: 186 LNALINSSDKNSSQWQD-----WLVYDHDGQEQVLIEKEER---KNRRNMLTRSMSVLNP 237 L+A +N+ D++ QW D + YD+DG+ + + ER + RR++ + + Sbjct: 2 LDAALNARDEHGRQWSDARWGCYAFYDYDGEPIYVGQTNERLRARVRRHLTNQRTDAVAM 61 Query: 238 RERRIFEARRLQENPV-TLENLSS----EFEVSRERVRQIEARAF-KKVQESIQKQVELS 291 R +FE ++ P+ E+++ ++ +++R+ +E A+ K ++ES K + Sbjct: 62 RILDVFEVAEMELWPLWEFEDVAGKRHPDYAAAQQRLNAVEYTAYLKAIRESRFKAILNE 121 Query: 292 SSPPL 296 PP+ Sbjct: 122 KIPPV 126 >gi|303240258|ref|ZP_07326777.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302592168|gb|EFL61897.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 256 Score = 37.7 bits (86), Expect = 2.3, Method: Compositional matrix adjust. Identities = 55/253 (21%), Positives = 110/253 (43%), Gaps = 27/253 (10%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG----YRGYGLPISEVVSEGNIGL 86 KQ+E + ++Y + D + +L+ + ++K G Y G + +++ G GL Sbjct: 7 KQQE--MWRQYSDTKDPAIKEKLIIEYSH-IIKYVAGRLSIYFGSNVEYDDLIGYGVFGL 63 Query: 87 MQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK---RLFFNLRRLK 143 + A+ KFD +G + TY+ I+ A+ + I R V K R++ + Sbjct: 64 IDAINKFDINKGVKFETYASLRIRGAIIDSI-RELDWVPRSLRQKNKELERVYTEVENEL 122 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 GH + TD +A+KL VS E +L + +L++LI+ + ++ Sbjct: 123 GH--SATDQE--------VAQKLGVSVDEF----YKLLNEVNLSSLISLEEFLEQNYEAG 168 Query: 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFE 263 + +E E R +L ++ L +E+ + ++ +TL+ +S + Sbjct: 169 VNIAGGCKEDRPEGYMEITELREILVDAIGKLPEKEKTVVSFYYFED--LTLKEISEIMK 226 Query: 264 VSRERVRQIEARA 276 VS R+ Q+ +A Sbjct: 227 VSESRISQLHTKA 239 >gi|269925713|ref|YP_003322336.1| sigma-70 region 4 domain protein [Thermobaculum terrenum ATCC BAA-798] gi|269789373|gb|ACZ41514.1| sigma-70 region 4 domain protein [Thermobaculum terrenum ATCC BAA-798] Length = 785 Score = 37.7 bits (86), Expect = 2.3, Method: Compositional matrix adjust. Identities = 18/51 (35%), Positives = 35/51 (68%), Gaps = 1/51 (1%) Query: 233 SVLNPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 ++ +PR RR+ EAR + +TL+ + +E ++S+ERVRQ+E R + +++ Sbjct: 332 TIKSPRVRRVLEARFGVSGKILTLQEIGAELKLSKERVRQLEERGLRLIRK 382 >gi|290475011|ref|YP_003467895.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Xenorhabdus bovienii SS-2004] gi|289174328|emb|CBJ81122.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Xenorhabdus bovienii SS-2004] Length = 240 Score = 37.7 bits (86), Expect = 2.3, Method: Compositional matrix adjust. Identities = 51/230 (22%), Positives = 99/230 (43%), Gaps = 33/230 (14%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV++FD +G TY++ I+ AM + Sbjct: 29 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERFDSLQGTAFTTYAVQRIRGAMLDE- 82 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS N + + +R+L+ L EQ VA K+N+ E I Sbjct: 83 LRSRDWAPRSVRRNAREVTQTIRKLEQEL-----GRPASEQEVAKELKINLIEYRQI--- 134 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNML-----TRSM 232 L+++++ + +W + E V+ ++ E + +L R + Sbjct: 135 -----------LLDTNNSQLFSYDEWHEIHGESCEPVIEDEHETNPLQQLLEGDLRQRVI 183 Query: 233 SVLN--PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 V+ P ++ QE + L+ + + V RV Q+ ++A K++ Sbjct: 184 DVIESLPEREKMVLTLYYQEE-LNLKEIGAVLNVGESRVSQLHSQAIKRL 232 >gi|111021699|ref|YP_704671.1| sigma factor, sigma 70 type, group 3 [Rhodococcus jostii RHA1] gi|110821229|gb|ABG96513.1| sigma factor, sigma 70 type, group 3 [Rhodococcus jostii RHA1] Length = 249 Score = 37.7 bits (86), Expect = 2.3, Method: Compositional matrix adjust. Identities = 18/67 (26%), Positives = 34/67 (50%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 RL+ L L IA + G G P+ +++ +GL++AV +FD G +Y++ I Sbjct: 23 QRLIERCLPLAEHIARRFHGRGEPLDDLIQVARLGLVKAVDRFDARCGANFVSYAVPTIT 82 Query: 111 AAMQEYI 117 ++ + Sbjct: 83 GEVRRHF 89 >gi|56966075|pdb|1TLH|B Chain B, T4 Asia Bound To Sigma70 Region 4 Length = 81 Score = 37.7 bits (86), Expect = 2.4, Method: Composition-based stats. Identities = 16/35 (45%), Positives = 27/35 (77%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 TLE + +F+V+RER+RQIEA+A +K++ + +V Sbjct: 40 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 74 >gi|283832678|ref|ZP_06352419.1| flagellar biosynthesis sigma factor FliA [Citrobacter youngae ATCC 29220] gi|291072353|gb|EFE10462.1| flagellar biosynthesis sigma factor FliA [Citrobacter youngae ATCC 29220] Length = 229 Score = 37.4 bits (85), Expect = 2.4, Method: Compositional matrix adjust. Identities = 47/220 (21%), Positives = 96/220 (43%), Gaps = 30/220 (13%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 31 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 89 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + E M L+++++ Sbjct: 90 VAQAMGQLE---QELGRNATETE----VAERLAIPVQEYRQM------------LLDTNN 130 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK--------NRRNMLTRSMSVLNPRERRIFEAR 246 + +W D E V E ++ N R + ++ L RE+ + Sbjct: 131 SQLFSYDEWREEHGDSIELVTEEHQQENPLQQLLEGNLRQRVMDAIEALPEREKLVLTLY 190 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 191 YQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|39998144|ref|NP_954095.1| RNA polymerase sigma factor for flagellar operon [Geobacter sulfurreducens PCA] gi|39985090|gb|AAR36445.1| RNA polymerase sigma factor for flagellar operon [Geobacter sulfurreducens PCA] Length = 250 Score = 37.4 bits (85), Expect = 2.4, Method: Compositional matrix adjust. Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 14/98 (14%) Query: 36 VLAKRYREHGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQ 88 + K Y + S A L+ +HL LV K +G LP +++S IGL+ Sbjct: 3 CMLKAYEQEAQRSVAQTRDELIVNHLPLV-KFLVGRIASQLPPHLDQEDLMSAAIIGLIT 61 Query: 89 AVKKFDPERGFRLATYSMWWIKAAM------QEYILRS 120 A ++FDP RG + T++ I+ + Q+++ RS Sbjct: 62 AAERFDPTRGVQFKTFAEQRIRGTIIDELRSQDWLTRS 99 >gi|312138386|ref|YP_004005722.1| sigma-70 factor [Rhodococcus equi 103S] gi|311887725|emb|CBH47037.1| putative sigma-70 factor [Rhodococcus equi 103S] Length = 262 Score = 37.4 bits (85), Expect = 2.4, Method: Compositional matrix adjust. Identities = 19/66 (28%), Positives = 32/66 (48%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V L L IA + G + ++ +GL+ AV +FDP +G A Y++ I Sbjct: 42 RIVAQSLPLARNIARRFSSRGEEMDDLYQVACVGLINAVDRFDPAQGSSFAAYAVPTIMG 101 Query: 112 AMQEYI 117 ++ Y Sbjct: 102 EVRRYF 107 >gi|325674621|ref|ZP_08154308.1| DNA-directed RNA polymerase sigma subunit SigB [Rhodococcus equi ATCC 33707] gi|325554207|gb|EGD23882.1| DNA-directed RNA polymerase sigma subunit SigB [Rhodococcus equi ATCC 33707] Length = 262 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 19/66 (28%), Positives = 32/66 (48%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V L L IA + G + ++ +GL+ AV +FDP +G A Y++ I Sbjct: 42 RIVAQSLPLARNIARRFSSRGEEMDDLYQVACVGLINAVDRFDPAQGSSFAAYAVPTIMG 101 Query: 112 AMQEYI 117 ++ Y Sbjct: 102 EVRRYF 107 >gi|226326542|ref|ZP_03802060.1| hypothetical protein PROPEN_00392 [Proteus penneri ATCC 35198] gi|225205141|gb|EEG87495.1| hypothetical protein PROPEN_00392 [Proteus penneri ATCC 35198] Length = 244 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 54/229 (23%), Positives = 107/229 (46%), Gaps = 31/229 (13%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL VK+ + + +++ G IGL+ AV+++D +G TY++ I+ +M + Sbjct: 33 LRLQVKLPAS-----VELDDLLQAGGIGLLNAVERYDSMQGAAFTTYAVQRIRGSMLDE- 86 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVIS 175 LRS N + + ++ +L+ L +P EQ VA ++ ++E I Sbjct: 87 LRSRDWAPRSVRRNAREVTHSIHQLEQDLG-------RPPLEQEVADHLQIELAEYRQIL 139 Query: 176 M---NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE-QVLIEKEERKNRRNMLTRS 231 + N +L + + + S + S QD DHD Q+L+E + R+ + + Sbjct: 140 LDTNNSQLFSYDEWHEIYGESCEPS---QD---EDHDDNPLQMLLESDIRQR----VIDA 189 Query: 232 MSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 + +L RE+ + +E + L+ + + V RV Q+ ++A K++ Sbjct: 190 IELLPEREKMVLTLYYQEE--LNLKEIGAVLNVGESRVSQLHSQAIKRL 236 >gi|10834759|gb|AAG23813.1|AF274004_5 SigB [Staphylococcus epidermidis] Length = 246 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 45/209 (21%), Positives = 97/209 (46%), Gaps = 14/209 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K+++E+ D A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KQHQENEDSQAQDKLVKHYRKLIESLAYRYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA++L VS+ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAQRLEVSDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + + +R +L + +L+ RER+I + Sbjct: 189 DNYDLTEKRMILECILPILSERERQIIQC 217 >gi|323493327|ref|ZP_08098450.1| flagellar biosynthesis sigma factor [Vibrio brasiliensis LMG 20546] gi|323312413|gb|EGA65554.1| flagellar biosynthesis sigma factor [Vibrio brasiliensis LMG 20546] Length = 244 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 56/252 (22%), Positives = 105/252 (41%), Gaps = 31/252 (12%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFD 94 A Y ++ + ++ + + LV +IA G P + +++ G IGL++A K +D Sbjct: 4 ALTYEQYANQNSQRAFLEKYSVLVKRIAHHLLGRLPPSVQVEDLIQAGMIGLLEAQKNYD 63 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G TY+ I+ AM + I R W V + + + + L+G L N Sbjct: 64 GSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREVSQAISELEGQL------N 115 Query: 154 LKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNSSQWQDWLVYDH 208 P +A+ + +S + + +NC RL G E L +D + D Sbjct: 116 RDPSD-AEVAQHMGISLEQYHTILTDINCSRLVGIEDLGV-----------SEDVISPDD 163 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +E + + + R L S+ L RE + +E + L+ + VS R Sbjct: 164 RDEENLPFQGVADEYFRKALIDSIKSLPEREALVLSLYYDEE--LNLKEIGEVIGVSESR 221 Query: 269 VRQIEARAFKKV 280 V QI +++ +++ Sbjct: 222 VSQILSQSMQRL 233 >gi|300871802|ref|YP_003786675.1| RNA polymerase sigma factor [Brachyspira pilosicoli 95/1000] gi|300689503|gb|ADK32174.1| RNA polymerase sigma factor [Brachyspira pilosicoli 95/1000] Length = 270 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 47/233 (20%), Positives = 98/233 (42%), Gaps = 41/233 (17%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQE----------YILRSWS 122 + ++V G +GL+ A++K+DP + + TY+ IK ++ + I R Sbjct: 61 IEFDDLVGYGALGLIDAIEKYDPNKEVKFKTYATTRIKGSIYDELRKIDKLPRSIRREIK 120 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 ++I + +L N+ Q I D P + + ++ S G Sbjct: 121 DIEIAREFLESKLGRNVNS-----QEIADTMGIPLSKINETMRYSIEASTTSLSEVWYHG 175 Query: 183 DE----SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 D+ S+ + +SDKN+ ++ ERK+ + + ++ L + Sbjct: 176 DDSDEISIMDTLKASDKNNPEYL-----------------AERKDVQKKIVEALDKLPEK 218 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES---IQKQV 288 ER + ++ +TL+ + +VS RV Q+ +A ++++ S I+KQ+ Sbjct: 219 ERSVLILYYYED--LTLKEIGKVLDVSESRVSQLHTKAVQQLRYSLSEIKKQL 269 >gi|298507081|gb|ADI85804.1| RNA polymerase sigma-28 factor for flagellar operon [Geobacter sulfurreducens KN400] Length = 250 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 14/98 (14%) Query: 36 VLAKRYREHGDLSAAH---RLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQ 88 + K Y + S A L+ +HL LV K +G LP +++S IGL+ Sbjct: 3 CMLKAYEQEAQRSVAQTRDELIVNHLPLV-KFLVGRIASQLPPHLDQEDLMSAAIIGLIT 61 Query: 89 AVKKFDPERGFRLATYSMWWIKAAM------QEYILRS 120 A ++FDP RG + T++ I+ + Q+++ RS Sbjct: 62 AAERFDPTRGVQFKTFAEQRIRGTIIDELRSQDWLTRS 99 >gi|264676583|ref|YP_003276489.1| RNA polymerase, sigma 28 subunit [Comamonas testosteroni CNB-2] gi|262207095|gb|ACY31193.1| RNA polymerase, sigma 28 subunit [Comamonas testosteroni CNB-2] Length = 239 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 50/233 (21%), Positives = 108/233 (46%), Gaps = 18/233 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ H+ LV +IA+ P + +++ G IGL +A+ +F+ E+G + T++ I Sbjct: 13 LIRQHVPLVRRIALHMIAKLPPNVELDDLIQVGMIGLAEALSRFESEQGVQFDTFASQRI 72 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM + LR + + +QK + L RL+ L +P IA +L ++ Sbjct: 73 RGAMLDE-LREGDWMSRSSRKSQKEIEQALNRLEQRLG-------RPPLESEIAAELGMA 124 Query: 170 ESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + S+ ++ G + L + + + + V D G + + +++R R+ Sbjct: 125 LDDYQSLLGKVRGTQLVYLEDIGGGDGDDGDDYLERHVAD-SGADPFALLRDQRM--RSA 181 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L ++ L RE+ + E+ + L+ +++ V+ RV Q+ ++A ++ Sbjct: 182 LVEAIKTLPEREQYVMGM--YYEHDMNLKEIAAVLGVTESRVCQLHSQAIARL 232 >gi|29840191|ref|NP_829297.1| RNA polymerase sigma factor sigma-28 [Chlamydophila caviae GPIC] gi|29834539|gb|AAP05175.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila caviae GPIC] Length = 257 Score = 37.4 bits (85), Expect = 2.5, Method: Compositional matrix adjust. Identities = 27/90 (30%), Positives = 48/90 (53%), Gaps = 11/90 (12%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPE 96 Y E ++ L+ +L LV K + G+P ++ + G GL++AV++FDPE Sbjct: 16 YWETQEIEYRDTLIDFYLHLV-KCVVHRLISGMPSHVKTEDLYASGVEGLVRAVERFDPE 74 Query: 97 RGFRLATYSMWWIKAAM------QEYILRS 120 + R Y+++ IKAA+ Q+++ RS Sbjct: 75 KSRRFEGYALFLIKAAIIDDLRKQDWVPRS 104 >gi|221069309|ref|ZP_03545414.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Comamonas testosteroni KF-1] gi|220714332|gb|EED69700.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Comamonas testosteroni KF-1] Length = 239 Score = 37.4 bits (85), Expect = 2.6, Method: Compositional matrix adjust. Identities = 50/233 (21%), Positives = 108/233 (46%), Gaps = 18/233 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ H+ LV +IA+ P + +++ G IGL +A+ +F+ E+G + T++ I Sbjct: 13 LIRQHVPLVRRIALHMIAKLPPNVELDDLIQVGMIGLAEALSRFESEQGVQFDTFASQRI 72 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM + LR + + +QK + L RL+ L +P IA +L ++ Sbjct: 73 RGAMLDE-LREGDWMSRSSRKSQKEIEQALNRLEQRLG-------RPPLESEIAAELGMA 124 Query: 170 ESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + S+ ++ G + L + + + + V D G + + +++R R+ Sbjct: 125 LDDYQSLLGKVRGTQLVYLEDIGGGDGDDGDDYLERHVAD-SGADPFALLRDQRM--RSA 181 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L ++ L RE+ + E+ + L+ +++ V+ RV Q+ ++A ++ Sbjct: 182 LVEAIKALPEREQYVMGM--YYEHDMNLKEIAAVLGVTESRVCQLHSQAIARL 232 >gi|330938480|gb|EGH42083.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 82 Score = 37.4 bits (85), Expect = 2.6, Method: Compositional matrix adjust. Identities = 15/28 (53%), Positives = 24/28 (85%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 41 TLEEVGKQFDVTRERIRQIEAKALRKLR 68 >gi|322833177|ref|YP_004213204.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rahnella sp. Y9602] gi|321168378|gb|ADW74077.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rahnella sp. Y9602] Length = 240 Score = 37.4 bits (85), Expect = 2.6, Method: Compositional matrix adjust. Identities = 46/220 (20%), Positives = 91/220 (41%), Gaps = 40/220 (18%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV++FD +G TY++ I+ AM E R W + Sbjct: 41 LDDLLQAGGIGLLNAVERFDAMQGTAFTTYAVQRIRGAMLDELRSRDWV---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + + + +P +A+ L++ E + Sbjct: 92 SVRRNAREVSQAMHSAEQKLGRPPSEGEVAQVLDIPIEEYRQILM--------------- 136 Query: 194 DKNSSQ---WQDWLVYDHDGQEQVLIEKEERKNR---------RNMLTRSMSVLNPRERR 241 D NSSQ + +W +H + L+E E N R+ + ++ L RE+ Sbjct: 137 DTNSSQLFSYDEWR-EEHGDTAEALMEGHEEANPLHHLLEGNLRHRVMEAIDALPEREKL 195 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + +E + L+ + + +V RV Q+ ++A K+++ Sbjct: 196 VLTLYYQEE--LNLKEIGAVLDVGESRVSQLHSQAIKRLR 233 >gi|299534757|ref|ZP_07048087.1| RNA polymerase sigma factor SigD [Lysinibacillus fusiformis ZC1] gi|298729845|gb|EFI70390.1| RNA polymerase sigma factor SigD [Lysinibacillus fusiformis ZC1] Length = 256 Score = 37.4 bits (85), Expect = 2.6, Method: Compositional matrix adjust. Identities = 27/91 (29%), Positives = 44/91 (48%), Gaps = 7/91 (7%) Query: 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEG 82 P+L +E L R+ D A L+ ++ LV + G GLP S ++ S G Sbjct: 4 PIL--NDEQKLWNRWIHERDPDAGDLLIKKYISLV-SYHVQRIGAGLPKSVSRDDLTSLG 60 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 +GL A+ KFD R + TY+ + ++ A+ Sbjct: 61 MVGLFDALNKFDINRDLKFDTYASFRVRGAI 91 >gi|237731968|ref|ZP_04562449.1| flagellar biosynthesis sigma factor [Citrobacter sp. 30_2] gi|226907507|gb|EEH93425.1| flagellar biosynthesis sigma factor [Citrobacter sp. 30_2] Length = 239 Score = 37.4 bits (85), Expect = 2.6, Method: Compositional matrix adjust. Identities = 47/220 (21%), Positives = 95/220 (43%), Gaps = 30/220 (13%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A +L + E M L+++++ Sbjct: 100 VAQAMGQLE---QELGRNATETE----VAARLAIPVQEYRQM------------LLDTNN 140 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERK--------NRRNMLTRSMSVLNPRERRIFEAR 246 + +W D E V E ++ N R + ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTEEHQQENPLQQLLEGNLRQRVMDAIEALPEREKLVLTLY 200 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 201 YQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|126697623|ref|YP_001086520.1| RNA polymerase factor sigma-70 [Clostridium difficile 630] gi|260681829|ref|YP_003213114.1| RNA polymerase factor sigma-70 [Clostridium difficile CD196] gi|260685427|ref|YP_003216560.1| RNA polymerase factor sigma-70 [Clostridium difficile R20291] gi|296449816|ref|ZP_06891583.1| DNA-directed RNA polymerase sigma subunit SigH [Clostridium difficile NAP08] gi|296877880|ref|ZP_06901900.1| DNA-directed RNA polymerase sigma subunit SigH [Clostridium difficile NAP07] gi|115249060|emb|CAJ66871.1| RNA polymerase factor sigma-70 [Clostridium difficile] gi|260207992|emb|CBA60155.1| RNA polymerase sigma-H factor [Clostridium difficile CD196] gi|260211443|emb|CBE01550.1| RNA polymerase sigma-H factor [Clostridium difficile R20291] gi|296261303|gb|EFH08131.1| DNA-directed RNA polymerase sigma subunit SigH [Clostridium difficile NAP08] gi|296431077|gb|EFH16904.1| DNA-directed RNA polymerase sigma subunit SigH [Clostridium difficile NAP07] Length = 220 Score = 37.4 bits (85), Expect = 2.6, Method: Compositional matrix adjust. Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 1/79 (1%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 +Q+EY + R E GD A ++T + V A Y G +++ EG IGL +AV Sbjct: 21 QQDEYNIVLRASE-GDKIALEYIITKYRNFVKAKAKSYFLIGADKEDIIQEGMIGLYKAV 79 Query: 91 KKFDPERGFRLATYSMWWI 109 + FD + ++ I Sbjct: 80 RDFDGSKTNSFKCFAEICI 98 >gi|302538372|ref|ZP_07290714.1| RNA polymerase sigma-E factor [Streptomyces sp. C] gi|302447267|gb|EFL19083.1| RNA polymerase sigma-E factor [Streptomyces sp. C] Length = 323 Score = 37.4 bits (85), Expect = 2.7, Method: Compositional matrix adjust. Identities = 14/43 (32%), Positives = 26/43 (60%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 + ++V G IGL++A+ +FDP R AT +M +I ++ + Sbjct: 107 VDDLVQVGTIGLIKAIDRFDPARENEFATLAMPYITGEIKRHF 149 >gi|254775435|ref|ZP_05216951.1| RNA polymerase sigma factor SigF [Mycobacterium avium subsp. avium ATCC 25291] Length = 242 Score = 37.4 bits (85), Expect = 2.7, Method: Compositional matrix adjust. Identities = 59/273 (21%), Positives = 114/273 (41%), Gaps = 43/273 (15%) Query: 22 EIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSE 81 E+R++P + EY +R RE R+V L L +A + G + ++V Sbjct: 4 ELRRMPA--ESHEY---RRQRE--------RIVARCLPLADHVASHFARRGEGLDDLVQV 50 Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SWSLVKIGTTANQKRLFFNLR 140 +GLM AV +FDP +G +++ + ++ Y SW + R+ LR Sbjct: 51 ARLGLMNAVNRFDPAKGPSFIGFAVPTMMGEVRRYFRDYSWGM----------RVPRRLR 100 Query: 141 RLKGHLQAITDNNL----KPEQVVAIAKKLNVSESEVISMNCRLAGD----ESLNALINS 192 L + T + + +++ L V E++ C +AGD +SL+A + Sbjct: 101 ELHVQISRTTADLAQQLGRAPNAGELSQVLEVPREEIV--ECLVAGDAYRLDSLDAPQGA 158 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 + + V D D Q + + +E L ++ L RER + R + Sbjct: 159 DSSGTPRSVADSVGDIDPQIEHITNRE-------ALRVLVATLPHREREVLRMRFFES-- 209 Query: 253 VTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +T ++ VS+ +V +I A + +++ ++ Sbjct: 210 MTQSQIAERIGVSQMQVSRILANTLRCLRDQLE 242 >gi|254425398|ref|ZP_05039116.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. PCC 7335] gi|196192887|gb|EDX87851.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. PCC 7335] Length = 246 Score = 37.4 bits (85), Expect = 2.7, Method: Compositional matrix adjust. Identities = 14/53 (26%), Positives = 33/53 (62%) Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 P ++ G IGL++++++FDP +G +++++ +I+ M ++ + VKI Sbjct: 37 PYEDLEQIGYIGLIRSIERFDPGQGCAFSSFAVPYIRGEMLHFLRDRGTTVKI 89 >gi|113473821|ref|YP_718084.1| RNA polymerase sigma factor (RpoD) [Sphingomonas sp. KA1] gi|112821501|dbj|BAF03372.1| Probable RNA polymerase sigma factor (RpoD) [Sphingomonas sp. KA1] Length = 328 Score = 37.4 bits (85), Expect = 2.7, Method: Compositional matrix adjust. Identities = 20/64 (31%), Positives = 37/64 (57%), Gaps = 2/64 (3%) Query: 226 NMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +LT ++S L+ RE R+ R TL+ + EF V+ +R+RQIE +A ++++ Sbjct: 52 GVLTAALSCLSAREERVIRLRFGLGGHGEWTLQQIGDEFGVNPQRIRQIEMKALRRLRHQ 111 Query: 284 IQKQ 287 +K+ Sbjct: 112 FRKR 115 >gi|332800097|ref|YP_004461596.1| ECF subfamily RNA polymerase sigma-24 subunit SigH [Tepidanaerobacter sp. Re1] gi|332697832|gb|AEE92289.1| RNA polymerase, sigma-24 subunit, SigH, ECF subfamily [Tepidanaerobacter sp. Re1] Length = 215 Score = 37.4 bits (85), Expect = 2.8, Method: Compositional matrix adjust. Identities = 26/95 (27%), Positives = 42/95 (44%), Gaps = 9/95 (9%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GD A L+ + V A Y G +++ EG IGL +A++ F+PE RL++ Sbjct: 27 NGDHEALEYLINKYKNFVKSKARSYFLIGADREDIIQEGMIGLYKAIRDFNPE---RLSS 83 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + A E + + I T QK + N Sbjct: 84 FR------AFAELCITRQIITAIKTATRQKHIPLN 112 >gi|170780849|ref|YP_001709181.1| putative sigma factor [Clavibacter michiganensis subsp. sepedonicus] gi|169155417|emb|CAQ00524.1| putative sigma factor [Clavibacter michiganensis subsp. sepedonicus] Length = 337 Score = 37.4 bits (85), Expect = 2.8, Method: Compositional matrix adjust. Identities = 48/240 (20%), Positives = 108/240 (45%), Gaps = 27/240 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V HL L ++A + G S++ G +GL++A +++DP G ++++ I Sbjct: 91 IVLDHLELADQLARQHSGRAHDWSDLRQVGYLGLVKAARRYDPGFGAPFVSFAIPTISGE 150 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ ++ + +V R ++ L+ L A+ V A+ ++L + ++ Sbjct: 151 IKRHLRDNGWMV---------RPPRQIQELRHALLAV---------VPALTQRLGRTPTD 192 Query: 173 V-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG--QEQVLIEKEE---RKNRRN 226 ++ + +E + AL S + D V++H+G L + R R Sbjct: 193 AELAAHTGHPREEVMEALAAHSSLRPASL-DHTVHEHEGISLADTLGADDPGYARAERTV 251 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +L + VL+ R+RRI R + E + +++E V++ +V ++ AR ++ + + Sbjct: 252 LLDAARGVLSERDRRILHLRFVDE--CSQSEIAAELGVTQMQVSRLLARILGALRAELTR 309 >gi|306518735|ref|ZP_07405082.1| RNA polymerase factor sigma-70 [Clostridium difficile QCD-32g58] Length = 205 Score = 37.4 bits (85), Expect = 2.8, Method: Compositional matrix adjust. Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 1/79 (1%) Query: 31 KQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAV 90 +Q+EY + R E GD A ++T + V A Y G +++ EG IGL +AV Sbjct: 16 QQDEYNIVLRASE-GDKIALEYIITKYRNFVKAKAKSYFLIGADKEDIIQEGMIGLYKAV 74 Query: 91 KKFDPERGFRLATYSMWWI 109 + FD + ++ I Sbjct: 75 RDFDGSKTNSFKCFAEICI 93 >gi|163856407|ref|YP_001630705.1| flagellar-specific RNA polymerase sigma factor [Bordetella petrii DSM 12804] gi|163260135|emb|CAP42436.1| flagellar-specific RNA polymerase sigma factor [Bordetella petrii] Length = 246 Score = 37.4 bits (85), Expect = 2.9, Method: Compositional matrix adjust. Identities = 45/215 (20%), Positives = 95/215 (44%), Gaps = 15/215 (6%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ A +++ + TY+ I+ AM + LRS + + KR Sbjct: 32 LDDLIQAGMIGLLDAARRYQETPDAQFETYATARIRGAMLDE-LRSQDWLPRSVRSKGKR 90 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN-ALINSS 193 + ++R + L ++P IA +L + E +M G + L+ I S+ Sbjct: 91 IEAAIQRKEHEL-------MRPPSESEIADELELPLDEYQAMLNDARGIQILHYDDIGSN 143 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + W+D + D G ++ + R L ++ L RE+ + E + Sbjct: 144 DPDERGWRD-VPADSGGDP---LDALLTGDLRRALVNAIETLPEREKLVLSL--CYEQGL 197 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L+ + + EV+ RV Q+ ++A +++ +++ Sbjct: 198 NLKEIGAVLEVTEARVCQLRSQATARIRARLKEDA 232 >gi|121488755|emb|CAJ18262.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 37.4 bits (85), Expect = 2.9, Method: Compositional matrix adjust. Identities = 13/50 (26%), Positives = 29/50 (58%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 + +EG G ++A K+ D RGF+ +Y++WW + + + + +V++ Sbjct: 1 DXXNEGXXGXIKAAKRXDETRGFKFISYAVWWXRQSXLQALAEQSRIVRL 50 >gi|331002428|ref|ZP_08325946.1| hypothetical protein HMPREF0491_00808 [Lachnospiraceae oral taxon 107 str. F0167] gi|330410244|gb|EGG89678.1| hypothetical protein HMPREF0491_00808 [Lachnospiraceae oral taxon 107 str. F0167] Length = 172 Score = 37.4 bits (85), Expect = 2.9, Method: Compositional matrix adjust. Identities = 19/79 (24%), Positives = 44/79 (55%), Gaps = 3/79 (3%) Query: 16 LSRYIHEIRKI-PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP 74 L Y+ +++ I P+ E +++ +L GD +A +RL+ +H+ ++ + G G Sbjct: 7 LEMYLEDMKNIKPLDEAKKDDLLKALCT--GDNNAKNRLIEAHMMYATELVQPFMGCGQE 64 Query: 75 ISEVVSEGNIGLMQAVKKF 93 + +++SE ++ L AV ++ Sbjct: 65 VMDLISESHLALTMAVTEY 83 >gi|169840343|ref|ZP_02873531.1| RNA polymerase factor sigma-32 [candidate division TM7 single-cell isolate TM7a] Length = 54 Score = 37.4 bits (85), Expect = 3.0, Method: Compositional matrix adjust. Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 5/49 (10%) Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 +LFFNLR ++ L A++ P++ AIA L V SEV+ M R+ G Sbjct: 1 QLFFNLRSMRKSLSALS-----PKEAQAIADDLGVKLSEVLEMEQRMTG 44 >gi|284041500|ref|YP_003391840.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] gi|283945721|gb|ADB48465.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] Length = 270 Score = 37.4 bits (85), Expect = 3.0, Method: Compositional matrix adjust. Identities = 63/267 (23%), Positives = 113/267 (42%), Gaps = 29/267 (10%) Query: 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNI 84 + ++ L ++Y+E GD + RLV + +V K + + +P + + +S G Sbjct: 11 ISAEDALALWRQYKESGDRAVRDRLVLTFAPMV-KYIVYKKVREIPARCEVEDFISCGLE 69 Query: 85 GLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR-SW---SLVKIGTTANQKRLFFNLR 140 L+ +++++DPE+G L +S I A+ + + R W SL + NQ R F Sbjct: 70 ALIHSIERYDPEKGATLEQFSWTRIHGAVLDELRRQDWAPRSLRRWERDINQAREHF--- 126 Query: 141 RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQW 200 + H + + L + +L E E+++ + SLN L+ S D+ + + Sbjct: 127 -IGVHSRRPSREELAG-ALGTTPAELRAREDEIVASDV-----TSLNTLVLSDDETAIER 179 Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTR---SMSVLNPRERRIFEARRLQENPVTLEN 257 D LV E + E R R + L RER + A L +TL Sbjct: 180 IDTLV-----SEDRFADPEHHTARDQAKMRFREAFERLPRREREV--AVLLYVKNLTLRE 232 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESI 284 + VS RV QI + + ++E + Sbjct: 233 IGGILGVSESRVCQIHGQLKRMLKEEL 259 >gi|326566649|gb|EGE16790.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 12P80B1] Length = 48 Score = 37.4 bits (85), Expect = 3.1, Method: Compositional matrix adjust. Identities = 15/28 (53%), Positives = 24/28 (85%) Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQ 281 TLE + +F+V+RER+RQIEA+A +K++ Sbjct: 6 TLEEVGKQFDVTRERIRQIEAKALRKLR 33 >gi|194365639|ref|YP_002028249.1| RNA polymerase sigma-28 subunit, FliA/WhiG [Stenotrophomonas maltophilia R551-3] gi|194348443|gb|ACF51566.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Stenotrophomonas maltophilia R551-3] Length = 247 Score = 37.4 bits (85), Expect = 3.1, Method: Compositional matrix adjust. Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 6/87 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKF 93 A +YRE SAA+ ++ H LV +IA + LP S +++ G +GL++A + + Sbjct: 4 AAQYREV-QRSAANEVIAQHSDLVRRIAH-HLAARLPASVEVDDLIQAGMMGLIEASRSY 61 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRS 120 D ++G TY+ I+ +M + I R Sbjct: 62 DADQGASFETYASIRIRGSMIDEIRRG 88 >gi|256783362|ref|ZP_05521793.1| RNA polymerase secondary sigma factor [Streptomyces lividans TK24] gi|289767236|ref|ZP_06526614.1| RNA polymerase secondary sigma factor [Streptomyces lividans TK24] gi|289697435|gb|EFD64864.1| RNA polymerase secondary sigma factor [Streptomyces lividans TK24] Length = 263 Score = 37.4 bits (85), Expect = 3.1, Method: Compositional matrix adjust. Identities = 18/67 (26%), Positives = 36/67 (53%), Gaps = 1/67 (1%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L + +IA+ +RG G + ++ +GL++AV +DPERG Y++ + ++ + Sbjct: 46 LPMAERIAVRFRGRGENLEDLYQVAALGLVKAVDHYDPERGHAFEAYAVPTVTGEIKRHF 105 Query: 118 L-RSWSL 123 W+L Sbjct: 106 RDHMWTL 112 >gi|254523268|ref|ZP_05135323.1| RNA polymerase sigma factor [Stenotrophomonas sp. SKA14] gi|219720859|gb|EED39384.1| RNA polymerase sigma factor [Stenotrophomonas sp. SKA14] Length = 247 Score = 37.4 bits (85), Expect = 3.1, Method: Compositional matrix adjust. Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 6/87 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKF 93 A +YRE SAA+ ++ H LV +IA + LP S +++ G +GL++A + + Sbjct: 4 AAQYREV-QRSAANEVIAQHSDLVRRIAH-HLAARLPASVEVDDLIQAGMMGLIEASRSY 61 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRS 120 D ++G TY+ I+ +M + I R Sbjct: 62 DADQGASFETYTSIRIRGSMIDEIRRG 88 >gi|21225616|ref|NP_631395.1| RNA polymerase secondary sigma factor [Streptomyces coelicolor A3(2)] gi|2687404|gb|AAC01582.1| putative RNA polymerase secondary sigma factor [Streptomyces coelicolor A3(2)] gi|8246836|emb|CAB92887.1| putative RNA polymerase secondary sigma factor [Streptomyces coelicolor A3(2)] Length = 263 Score = 37.0 bits (84), Expect = 3.1, Method: Compositional matrix adjust. Identities = 18/67 (26%), Positives = 36/67 (53%), Gaps = 1/67 (1%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L + +IA+ +RG G + ++ +GL++AV +DPERG Y++ + ++ + Sbjct: 46 LPMAERIAVRFRGRGENLEDLYQVAALGLVKAVDHYDPERGHAFEAYAVPTVTGEIKRHF 105 Query: 118 L-RSWSL 123 W+L Sbjct: 106 RDHMWTL 112 >gi|282599758|ref|ZP_05971750.2| motility sigma factor FliA [Providencia rustigianii DSM 4541] gi|282567697|gb|EFB73232.1| motility sigma factor FliA [Providencia rustigianii DSM 4541] Length = 242 Score = 37.0 bits (84), Expect = 3.2, Method: Compositional matrix adjust. Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 1/48 (2%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSW 121 I +++ G IGL+ A+++FD G ATY++ I+ +M E R W Sbjct: 45 IDDLIQAGGIGLLHALERFDASLGASFATYAVQRIRGSMLDELRSRDW 92 >gi|158341129|ref|YP_001522296.1| RNA polymerase sigma factor domain-containing protein [Acaryochloris marina MBIC11017] gi|158311370|gb|ABW32982.1| RNA polymerase sigma factor domain protein [Acaryochloris marina MBIC11017] Length = 476 Score = 37.0 bits (84), Expect = 3.2, Method: Compositional matrix adjust. Identities = 59/286 (20%), Positives = 118/286 (41%), Gaps = 44/286 (15%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 I I + P L ++E L + ++ GD A ++ S+L + + G+ E++ Sbjct: 14 IATIARHPNLSPEQEAELILKAQD-GDNDARQTVIYSNLAWICSMGGSLSRKGIEDGELI 72 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 SEG GL +A+ ++ E+G + T+S I Y +S ++ + K + L Sbjct: 73 SEGYFGLNKAIDQWSSEKGANIRTFSRDKI------YKFQSEAVHQKNHIRLPKSTYEQL 126 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSE---------SEVISMNCRLAGDESLNALI 190 +LK + ++ V +A+ + E S+ +S+N E+L L Sbjct: 127 SKLKKATAVLGED----ATVAQLAEGTEIKEKRIRTLQEISQPVSLNSVTGTRENLELLD 182 Query: 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 +D D G + E L + L+PR+R I +E Sbjct: 183 QQAD------------DCQGSLDPALSSE--------LLDLVDKLHPRQREILHLYHWEE 222 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 ++ + +S + ++VR++ +A +++ +Q E++ PPL Sbjct: 223 --LSFQKISDYLGLPAKKVRKLYKQALDLLRKFLQG--EINEFPPL 264 >gi|119485331|ref|ZP_01619659.1| sigma factor SigF [Lyngbya sp. PCC 8106] gi|119457087|gb|EAW38213.1| sigma factor SigF [Lyngbya sp. PCC 8106] Length = 259 Score = 37.0 bits (84), Expect = 3.2, Method: Compositional matrix adjust. Identities = 28/98 (28%), Positives = 51/98 (52%), Gaps = 7/98 (7%) Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRL 135 +++ G IGL++A+++FD +G +++++ +I+ +Q Y LR SL R Sbjct: 56 DDLLQVGCIGLIRAIERFDLSKGHAFSSFAIPYIRGEIQHY-LRDKSL-----PLRVPRH 109 Query: 136 FFNLRRLKGHLQAITDNNLKPEQV-VAIAKKLNVSESE 172 + L+R L LK + IA+ LN+SE+E Sbjct: 110 WLTLQRQGMKLAQELQVKLKRQPTDTEIARGLNISETE 147 >gi|148273835|ref|YP_001223396.1| putative RNA polymerase sigma factor SigF [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147831765|emb|CAN02734.1| putative RNA polymerase sigma factor, SigF-homolog (stress response/stationary phase sigma factor) [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 335 Score = 37.0 bits (84), Expect = 3.2, Method: Compositional matrix adjust. Identities = 47/240 (19%), Positives = 111/240 (46%), Gaps = 27/240 (11%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 +V HL L ++A + G S++ G +GL++A +++DP G ++++ I Sbjct: 89 IVLDHLELADQLARQHSGRAHDWSDLRQVGYLGLVKAARRYDPGFGAPFVSFAIPTISGE 148 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESE 172 ++ ++ + +V R +++ L+ L A+ V A+ ++L + ++ Sbjct: 149 IKRHLRDNGWVV---------RPPRHVQELRHALLAV---------VPALTQRLGRTPTD 190 Query: 173 V-ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG---QEQVLIEKE--ERKNRRN 226 ++ + A +E + AL S + D+ V++ +G + + + R R Sbjct: 191 AELAAHTGHAREEVVEALAAHSSLRPASL-DFTVHEDEGISLADTIGADDPGYARAERTV 249 Query: 227 MLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +L + VL+ R+RRI R + E + +++E V++ +V ++ AR ++ + + Sbjct: 250 LLDAARGVLSDRDRRILHLRFVDE--CSQSEIAAELGVTQMQVSRLLARILGALRAELTR 307 >gi|197285477|ref|YP_002151349.1| flagellar biosynthesis sigma factor [Proteus mirabilis HI4320] gi|6959882|gb|AAF33246.1|AF221596_2 FliA [Proteus mirabilis] gi|194682964|emb|CAR43378.1| RNA polymerase sigma factor for flagellar operon [Proteus mirabilis HI4320] Length = 240 Score = 37.0 bits (84), Expect = 3.2, Method: Compositional matrix adjust. Identities = 53/230 (23%), Positives = 106/230 (46%), Gaps = 33/230 (14%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL VK+ + + +++ G IGL+ AV+++D +G TY++ I+ +M E Sbjct: 29 LRLQVKLPAS-----VELDDLLQAGGIGLLNAVERYDSMQGAAFTTYAVQRIRGSMLDEL 83 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVI 174 R W+ + + N R + + + + +P EQ VA ++ ++E I Sbjct: 84 RSRDWA---------PRSVRRNAREVTQSIHQLEQDLGRPPSEQEVADHLQIELAEYRQI 134 Query: 175 SM---NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE-QVLIEKEERKNRRNMLTR 230 + N +L + + + S + S QD DHD Q+L+E + R+ + Sbjct: 135 LLDTNNSQLFSYDEWHEIYGESCEPS---QD---EDHDDNPLQMLLESDIRQR----VID 184 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ +L RE+ + +E + L+ + + V RV Q+ ++A K++ Sbjct: 185 AIELLPEREKMVLTLYYQEE--LNLKEIGAVLNVGESRVSQLHSQAIKRL 232 >gi|330684827|gb|EGG96520.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis VCU121] Length = 256 Score = 37.0 bits (84), Expect = 3.2, Method: Compositional matrix adjust. Identities = 50/247 (20%), Positives = 113/247 (45%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K ++E + A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KEHQEDQNSGAQDKLVRHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA +L V++ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAARLEVTDEEVLEA---IEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RE+ I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSDREKEIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|283850718|ref|ZP_06368005.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio sp. FW1012B] gi|283573961|gb|EFC21934.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio sp. FW1012B] Length = 264 Score = 37.0 bits (84), Expect = 3.2, Method: Compositional matrix adjust. Identities = 55/240 (22%), Positives = 105/240 (43%), Gaps = 26/240 (10%) Query: 54 VTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 + H +KI LP + E++S G +GL++A+ +F PE G + TY+ I Sbjct: 39 IVRHYSPKIKIVASRLKAKLPQSVEMGELLSAGAMGLIEALGRFRPELGIKFETYAESRI 98 Query: 110 KAAMQEYILR-SWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 K +M + + R W + Q+ +R L+ + I +++ K V +A+ + Sbjct: 99 KGSMLDDLRRMDW------FSRGQRH---RVRTLEEASRRIENDSGKAATVEQLAEATGL 149 Query: 169 SESEVISMNCRLAGDESL-NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 +E EV G E+L N L S D + ++ Y + E + E K + Sbjct: 150 TEREVTQ------GLEALQNQLCLSLDAIT---ENISSYQKNQLENEPYKSAEFKELVDK 200 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 L + L PRE+ + +E + + S ++ RV Q+ ++A ++++ + Q Sbjct: 201 LASLIDDLTPREKLVLSLYYGEE--LNMRETSEVMGITEGRVSQLHSQALARLRQKFKAQ 258 >gi|239927803|ref|ZP_04684756.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 220 Score = 37.0 bits (84), Expect = 3.3, Method: Compositional matrix adjust. Identities = 50/230 (21%), Positives = 105/230 (45%), Gaps = 23/230 (10%) Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSW 121 ++A +R G ++ +GL++AV ++DPE G +Y++ I ++ + W Sbjct: 4 RLAGRFRSRGESFDDLRQVAALGLVKAVDRYDPELGNAFESYAVPTITGEIKRHFRDHMW 63 Query: 122 SLVKIGTTANQKRLFFNLR-RLKGHLQAIT-DNNLKPEQVVAIAKKLNVSESEVISMNCR 179 +L + R LR R++ Q ++ + +P V IA+ ++SE +V + Sbjct: 64 TL-------HVPRRVQELRNRVRSASQDLSLSGSGRPPTVAEIAEHADLSEEDVRTGQGA 116 Query: 180 LAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L SL+A + S D S D L D ++++E + R ++ L Sbjct: 117 LDSFTALSLDAELTSGDDGYS-LGDTLGA-PDPALDTVVDREAVRER-------LAALPE 167 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 RE+ I R + +T ++++E +S+ V ++ +R +++E + + Sbjct: 168 REQAILYMRFFGD--MTQSSIAAELGISQMHVSRLISRCCGRIREQVMRD 215 >gi|227355968|ref|ZP_03840360.1| RNA polymerase sigma factor for flagellar operon [Proteus mirabilis ATCC 29906] gi|227163956|gb|EEI48858.1| RNA polymerase sigma factor for flagellar operon [Proteus mirabilis ATCC 29906] Length = 244 Score = 37.0 bits (84), Expect = 3.3, Method: Compositional matrix adjust. Identities = 53/230 (23%), Positives = 106/230 (46%), Gaps = 33/230 (14%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEY 116 LRL VK+ + + +++ G IGL+ AV+++D +G TY++ I+ +M E Sbjct: 33 LRLQVKLPAS-----VELDDLLQAGGIGLLNAVERYDSMQGAAFTTYAVQRIRGSMLDEL 87 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKP--EQVVAIAKKLNVSESEVI 174 R W+ + + N R + + + + +P EQ VA ++ ++E I Sbjct: 88 RSRDWA---------PRSVRRNAREVTQSIHQLEQDLGRPPSEQEVADHLQIELAEYRQI 138 Query: 175 SM---NCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE-QVLIEKEERKNRRNMLTR 230 + N +L + + + S + S QD DHD Q+L+E + R+ + Sbjct: 139 LLDTNNSQLFSYDEWHEIYGESCEPS---QD---EDHDDNPLQMLLESDIRQR----VID 188 Query: 231 SMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 ++ +L RE+ + +E + L+ + + V RV Q+ ++A K++ Sbjct: 189 AIELLPEREKMVLTLYYQEE--LNLKEIGAVLNVGESRVSQLHSQAIKRL 236 >gi|239637364|ref|ZP_04678346.1| RNA polymerase sigma-B factor [Staphylococcus warneri L37603] gi|239596964|gb|EEQ79479.1| RNA polymerase sigma-B factor [Staphylococcus warneri L37603] Length = 256 Score = 37.0 bits (84), Expect = 3.3, Method: Compositional matrix adjust. Identities = 50/247 (20%), Positives = 113/247 (45%), Gaps = 16/247 (6%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 K ++E + A +LV + +L+ +A Y ++V G +GL+ A+ +FD Sbjct: 21 KEHQEDQNSGAQDKLVRHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFD 80 Query: 99 FRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 + + + + ++ Y+ ++WS+ +R+ R+K +T+ + Sbjct: 81 RKFEAFLVPTVIGEIKRYLRDKTWSV------HVPRRIKEIGPRIKKVSDELTNELERSP 134 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNAL-INSSDKNSSQWQDWLVYDHDGQEQVLI 216 + IA +L V++ EV+ + +S NAL ++ S + + D GQ+ Sbjct: 135 SISEIAARLEVTDEEVLEA---MEMGQSYNALSVDHSIEADKDGSTVTLLDIMGQQD--- 188 Query: 217 EKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARA 276 + + +R +L R + +L+ RE+ I + ++ ++ + +S+ V +++ A Sbjct: 189 DNYDLTEKRMILERILPILSDREKEIIQCTFIE--GLSQKETGERIGLSQMHVSRLQRTA 246 Query: 277 FKKVQES 283 KK+QE+ Sbjct: 247 IKKLQEA 253 >gi|229074589|ref|ZP_04207614.1| RNA polymerase sigma-B factor [Bacillus cereus Rock4-18] gi|229095607|ref|ZP_04226590.1| RNA polymerase sigma-B factor [Bacillus cereus Rock3-29] gi|229114558|ref|ZP_04243973.1| RNA polymerase sigma-B factor [Bacillus cereus Rock1-3] gi|228668908|gb|EEL24335.1| RNA polymerase sigma-B factor [Bacillus cereus Rock1-3] gi|228687817|gb|EEL41712.1| RNA polymerase sigma-B factor [Bacillus cereus Rock3-29] gi|228708547|gb|EEL60695.1| RNA polymerase sigma-B factor [Bacillus cereus Rock4-18] Length = 203 Score = 37.0 bits (84), Expect = 3.3, Method: Compositional matrix adjust. Identities = 40/175 (22%), Positives = 86/175 (49%), Gaps = 26/175 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + NSSD +S + + G EQ RR +L +VLN E+ + Sbjct: 114 VENSSDGSSVARIESVGEVEQGYEQT--------ERRLVLEDIFNVLNETEKSVI 160 >gi|297197353|ref|ZP_06914750.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] gi|197714848|gb|EDY58882.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] Length = 263 Score = 37.0 bits (84), Expect = 3.3, Method: Compositional matrix adjust. Identities = 33/139 (23%), Positives = 65/139 (46%), Gaps = 15/139 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV L + +IA+ +RG G + ++ +GL++AV +DP RG Y++ + Sbjct: 41 LVELWLPMAERIAVRFRGRGESLEDLYQVAALGLVKAVDHYDPARGSAFEAYAVPTVTGE 100 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + W+L + R +LR R++ + ++ + V IA++ +++E Sbjct: 101 IKRHFRDHMWTL-------HVPRRVQDLRNRVRQASKELSQTPGRAPTVAEIAERAHLTE 153 Query: 171 SEVISMNCRLAGDESLNAL 189 EV AG E+L Sbjct: 154 DEV------RAGAEALECF 166 >gi|190574220|ref|YP_001972065.1| putative RNA polymerase sigma factor for flagellar regulon FliA [Stenotrophomonas maltophilia K279a] gi|190012142|emb|CAQ45765.1| putative RNA polymerase sigma factor for flagellar regulon FliA [Stenotrophomonas maltophilia K279a] Length = 247 Score = 37.0 bits (84), Expect = 3.4, Method: Compositional matrix adjust. Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 6/87 (6%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKF 93 A +YRE SAA+ ++ H LV +IA + LP S +++ G +GL++A + + Sbjct: 4 AAQYREV-QRSAANEVIAQHSDLVRRIAH-HLAARLPASVEVDDLIQAGMMGLIEASRSY 61 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRS 120 D ++G TY+ I+ +M + I R Sbjct: 62 DADQGASFETYASIRIRGSMIDEIRRG 88 >gi|228906737|ref|ZP_04070609.1| RNA polymerase sigma-B factor [Bacillus thuringiensis IBL 200] gi|228964059|ref|ZP_04125186.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228795629|gb|EEM43109.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228852914|gb|EEM97696.1| RNA polymerase sigma-B factor [Bacillus thuringiensis IBL 200] Length = 203 Score = 37.0 bits (84), Expect = 3.5, Method: Compositional matrix adjust. Identities = 40/175 (22%), Positives = 86/175 (49%), Gaps = 26/175 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + NSSD +S + + G EQ RR +L +VLN E+ + Sbjct: 114 VENSSDGSSVARIESVGEVEQGYEQT--------ERRLVLEDIFNVLNDTEKSVI 160 >gi|320107038|ref|YP_004182628.1| RNA polymerase sigma 28 subunit FliA/WhiG [Terriglobus saanensis SP1PR4] gi|319925559|gb|ADV82634.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Terriglobus saanensis SP1PR4] Length = 294 Score = 37.0 bits (84), Expect = 3.5, Method: Compositional matrix adjust. Identities = 50/224 (22%), Positives = 101/224 (45%), Gaps = 23/224 (10%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-LRSWSLVKIGTTANQK 133 + ++++ G IGL+ A KFD + + +Y+ + I+ A+ + + WS + Sbjct: 87 LDDLIAAGMIGLIDAFSKFDHSKKVQFKSYAQFRIRGAILDSLRTLDWS---------PR 137 Query: 134 RLFFNLRRLKGHLQAITD--NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNAL 189 L R ++ ++A+T + EQ IA+++N+S SE + L G E SL+A Sbjct: 138 ELRRKGRAVEEAIRAVTQRFGCVPAEQ--EIAREMNLSLSEYQGLLGELKGLEIGSLHA- 194 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 ++ ++ L Y E + + + + L ++ L RER + + Sbjct: 195 ----ERGEDSGEEELAYVPGSPEDGPLFRCLKGELKQHLMEAIDDLPERERMVLTLYYYE 250 Query: 250 ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 E +T++ + V RV QI + A +++ S+ + +SS Sbjct: 251 E--LTMKEVGLTLGVVESRVSQIHSSAVARLRVSLAELANKTSS 292 >gi|205352349|ref|YP_002226150.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205272130|emb|CAR36983.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|326627399|gb|EGE33742.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 239 Score = 37.0 bits (84), Expect = 3.5, Method: Compositional matrix adjust. Identities = 48/221 (21%), Positives = 100/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + +E M L+++++ Sbjct: 100 VAQAMGQLE---QKLGRNATETE----VAERLGIPVAEYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV + QE L + E R+ ++ ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTEEHQQENPLHQLLEGDLRQRVMD-AIESLPEREQLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|167745714|ref|ZP_02417841.1| hypothetical protein ANACAC_00407 [Anaerostipes caccae DSM 14662] gi|317472694|ref|ZP_07932009.1| RNA polymerase sigma-H factor [Anaerostipes sp. 3_2_56FAA] gi|167655026|gb|EDR99155.1| hypothetical protein ANACAC_00407 [Anaerostipes caccae DSM 14662] gi|316899871|gb|EFV21870.1| RNA polymerase sigma-H factor [Anaerostipes sp. 3_2_56FAA] Length = 192 Score = 37.0 bits (84), Expect = 3.5, Method: Compositional matrix adjust. Identities = 34/126 (26%), Positives = 57/126 (45%), Gaps = 7/126 (5%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GD A L+ + LV + + + G +++ EG IGL +AVK +D E+ +T+ Sbjct: 19 GDDRAMDFLLNRYGGLVRRESRKFFLAGADEEDLIQEGMIGLFKAVKNYDDEKNASFSTF 78 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 + +K Q Y + S K N FN + G + + PEQV + + Sbjct: 79 ASLCVKR--QIYTTVTASKRKKHGPLNNYISLFNEQ---GEEDQFMEEDTNPEQV--LIQ 131 Query: 165 KLNVSE 170 K N+S+ Sbjct: 132 KENISD 137 >gi|299531273|ref|ZP_07044683.1| RNA polymerase, sigma 28 subunit [Comamonas testosteroni S44] gi|298720680|gb|EFI61627.1| RNA polymerase, sigma 28 subunit [Comamonas testosteroni S44] Length = 239 Score = 37.0 bits (84), Expect = 3.6, Method: Compositional matrix adjust. Identities = 50/233 (21%), Positives = 107/233 (45%), Gaps = 18/233 (7%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ H+ LV +IA+ P + +++ G IGL +A+ +F+ E+G + T++ I Sbjct: 13 LIRQHVPLVRRIALHMIAKLPPNVELDDLIQVGMIGLAEALSRFESEQGVQFDTFASQRI 72 Query: 110 KAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVS 169 + AM + LR + + +QK + L RL+ L +P IA +L ++ Sbjct: 73 RGAMLDE-LREGDWMSRSSRKSQKEIEQALNRLEQRLG-------RPPLESEIAAELGMA 124 Query: 170 ESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 + S+ ++ G + L + + + + V D G + + ++ R R+ Sbjct: 125 LDDYQSLLGKVRGTQLVYLEDIGGGDGDDGDDYLERHVAD-SGADPFALLRDHRM--RSA 181 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 L ++ L RE+ + E+ + L+ +++ V+ RV Q+ ++A ++ Sbjct: 182 LVEAIKALPEREQYVMGM--YYEHDMNLKEIAAVLGVTESRVCQLHSQAIARL 232 >gi|124268265|ref|YP_001022269.1| DNA-directed RNA polymerase specialized sigma subunit [Methylibium petroleiphilum PM1] gi|124261040|gb|ABM96034.1| DNA-directed RNA polymerase specialized sigma subunit [Methylibium petroleiphilum PM1] Length = 237 Score = 37.0 bits (84), Expect = 3.6, Method: Compositional matrix adjust. Identities = 43/206 (20%), Positives = 91/206 (44%), Gaps = 13/206 (6%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 I +++ G IGL A+ +FD +G + T++ I+ AM + LR + G Q+ Sbjct: 38 IDDLIQVGLIGLTDAMSRFDSAQGVQFETFATQRIRGAMLDE-LRGSDWMSRGNRKQQRE 96 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ L P + IAK++ +S ++ + ++ G + + S D Sbjct: 97 IEVAVHKLQQQL------GRAPAE-SEIAKQMGLSLADYQELLGKVRGTQLVYLEDMSGD 149 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 + + D V D + L++ R L ++ L RE+ F E + Sbjct: 150 DGDNDFLDRHVADENENPVALLQDH---RMRLALIEAIKTLPEREQ--FVMGMYYEQDMN 204 Query: 255 LENLSSEFEVSRERVRQIEARAFKKV 280 L+ +++ V+ RV Q+ +++ ++ Sbjct: 205 LKEIAAVLGVTESRVCQLHSQSIARL 230 >gi|161613481|ref|YP_001587446.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167993526|ref|ZP_02574620.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168234127|ref|ZP_02659185.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168244804|ref|ZP_02669736.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168259759|ref|ZP_02681732.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168822997|ref|ZP_02834997.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194445382|ref|YP_002041220.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194450090|ref|YP_002046006.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194471287|ref|ZP_03077271.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|197251137|ref|YP_002146068.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197362055|ref|YP_002141692.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198242943|ref|YP_002215131.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200390898|ref|ZP_03217509.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|213053507|ref|ZP_03346385.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213650343|ref|ZP_03380396.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213855803|ref|ZP_03384043.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|238912471|ref|ZP_04656308.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|289824078|ref|ZP_06543676.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|56127386|gb|AAV76892.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|161362845|gb|ABX66613.1| hypothetical protein SPAB_01198 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194404045|gb|ACF64267.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194408394|gb|ACF68613.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194457651|gb|EDX46490.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|197093532|emb|CAR58994.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197214840|gb|ACH52237.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197937459|gb|ACH74792.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199603343|gb|EDZ01889.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|205328422|gb|EDZ15186.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205331884|gb|EDZ18648.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205336383|gb|EDZ23147.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205340661|gb|EDZ27425.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205350810|gb|EDZ37441.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|312912946|dbj|BAJ36920.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|321224599|gb|EFX49662.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322616949|gb|EFY13857.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322618189|gb|EFY15081.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322625859|gb|EFY22678.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322626311|gb|EFY23121.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322632726|gb|EFY29471.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322639068|gb|EFY35761.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322640509|gb|EFY37162.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322647255|gb|EFY43754.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322649897|gb|EFY46318.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322655505|gb|EFY51813.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322660283|gb|EFY56521.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322662964|gb|EFY59171.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322668149|gb|EFY64308.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322674091|gb|EFY70185.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322675556|gb|EFY71630.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322683032|gb|EFY79048.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322686726|gb|EFY82704.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323195385|gb|EFZ80565.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323199276|gb|EFZ84371.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323204441|gb|EFZ89447.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323207531|gb|EFZ92479.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323211856|gb|EFZ96687.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323217516|gb|EGA02235.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323219591|gb|EGA04075.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323223594|gb|EGA07909.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323231538|gb|EGA15651.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323235981|gb|EGA20060.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323240551|gb|EGA24594.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323245443|gb|EGA29443.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323253976|gb|EGA37800.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323255497|gb|EGA39258.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323262094|gb|EGA45657.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323266217|gb|EGA49707.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323270674|gb|EGA54115.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326622879|gb|EGE29224.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Dublin str. 3246] Length = 229 Score = 37.0 bits (84), Expect = 3.6, Method: Compositional matrix adjust. Identities = 48/221 (21%), Positives = 100/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 31 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 89 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + +E M L+++++ Sbjct: 90 VAQAMGQLE---QELGRNATETE----VAERLGIPVAEYRQM------------LLDTNN 130 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV + QE L + E R+ ++ ++ L RE+ + Sbjct: 131 SQLFSYDEWREEHGDSIELVTEEHQQENPLHQLLEGDLRQRVMD-AIESLPEREQLVLTL 189 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 190 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|34496477|ref|NP_900692.1| RNA polymerase sigma factor for flagellar operon [Chromobacterium violaceum ATCC 12472] gi|34102331|gb|AAQ58697.1| RNA polymerase sigma factor for flagellar operon [Chromobacterium violaceum ATCC 12472] Length = 248 Score = 37.0 bits (84), Expect = 3.6, Method: Compositional matrix adjust. Identities = 15/45 (33%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + ++V G IGL++A ++FDP +G + T++ I+ AM + + R Sbjct: 46 LGDLVQVGMIGLIEAARQFDPAQGVQFETFASQRIRGAMLDELRR 90 >gi|119716157|ref|YP_923122.1| sigma-70 region 4 domain-containing protein [Nocardioides sp. JS614] gi|119536818|gb|ABL81435.1| sigma-70 region 4 domain protein [Nocardioides sp. JS614] Length = 282 Score = 37.0 bits (84), Expect = 3.7, Method: Compositional matrix adjust. Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 1/73 (1%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R+V + + +A +R G+P ++ GL +AV +FDPE L TY++ I+ Sbjct: 61 RVVVINRGVADAVAARFRNRGIPQEDLRQVAYEGLTKAVHRFDPELRNDLLTYAVPTIRG 120 Query: 112 AMQEYIL-RSWSL 123 +Q Y + W++ Sbjct: 121 ELQRYFRDQGWTV 133 >gi|290956233|ref|YP_003487415.1| sigma factor [Streptomyces scabiei 87.22] gi|260645759|emb|CBG68850.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 262 Score = 37.0 bits (84), Expect = 3.7, Method: Compositional matrix adjust. Identities = 53/256 (20%), Positives = 112/256 (43%), Gaps = 51/256 (19%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 R++ + L + ++A +R G ++ ++GL++AV ++DPE G +Y++ I Sbjct: 38 RIIEAWLPMAERLAGRFRSRGESYEDLRQVASLGLVKAVDRYDPELGNAFESYAVPTITG 97 Query: 112 AMQEYILRS-WSLVKIGTTANQKRLFFNLR-RLKGHLQAI--TDNNLKPEQVVAIAKKLN 167 ++ + W+L + R +LR R++ Q + T + +P V IA+ N Sbjct: 98 EIKRHFRDHMWTL-------HVPRRVQDLRNRVRFATQDLSQTISGRRP-TVAEIAEHAN 149 Query: 168 VSESEV------------ISMNCRLAGDE---SLNALINSSDKNSSQWQDWLVYDHDGQE 212 +SE +V +S++ L G E SL+ + S+D Sbjct: 150 MSEEDVRVGLEALESFTALSLDAELPGSEDGYSLSDALGSADPAL--------------- 194 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 ++++E K R ++ L RER I R + +T ++ E +S+ V ++ Sbjct: 195 DTVVDREAVKPR-------LAALPERERAILYMRFFGD--MTQSRIADELGISQMHVSRL 245 Query: 273 EARAFKKVQESIQKQV 288 +R ++++ + + Sbjct: 246 ISRCCDRLRDQVMRDA 261 >gi|116626504|ref|YP_828660.1| FliA/WhiG family RNA polymerase sigma factor [Candidatus Solibacter usitatus Ellin6076] gi|116229666|gb|ABJ88375.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Solibacter usitatus Ellin6076] Length = 251 Score = 37.0 bits (84), Expect = 3.7, Method: Compositional matrix adjust. Identities = 56/249 (22%), Positives = 105/249 (42%), Gaps = 37/249 (14%) Query: 52 RLVTSHL---RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 RL+ HL RL+ + + + ++VS G +GL+ A+ FD +L TY+ + Sbjct: 17 RLILEHLPQVRLIARRIQERLPESISLDDLVSTGVLGLISAIDNFDASHNVKLKTYAEYK 76 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIA-KKLN 167 I+ A+ + SL + QKR R+ K + E +A+A ++L+ Sbjct: 77 IRGAILD------SLRGLDWAPRQKR-----RKSK-----------QIEAAIAVAEQRLH 114 Query: 168 VSES-EVISMNCRLAGDESLNALINSSDKNSS--------QWQDWLVYDHDGQEQVLIEK 218 S E I+ + DE L+ N + Q +D L Y DG + + Sbjct: 115 ASPGEEEIAGELGITVDEYHEWLVEIRGLNVASLEYAGNEQGRDLLHYIPDGSDNLPSTL 174 Query: 219 EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 ER +L S+ + ER + +E +TL ++ + R+ Q++++A Sbjct: 175 LERSELERLLASSIDGIPAIERTVLSLYFHEE--LTLREIAQVVNLHESRISQLKSQAIL 232 Query: 279 KVQESIQKQ 287 +++ + Q Sbjct: 233 RLRGQMASQ 241 >gi|24374722|ref|NP_718765.1| flagellar biosynthesis sigma factor [Shewanella oneidensis MR-1] gi|24349382|gb|AAN56209.1|AE015759_1 RNA polymerase sigma-27 factor [Shewanella oneidensis MR-1] Length = 237 Score = 37.0 bits (84), Expect = 3.7, Method: Compositional matrix adjust. Identities = 53/223 (23%), Positives = 100/223 (44%), Gaps = 39/223 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ AM + I R W + Sbjct: 41 LDDLLQAGMMGLLEASSKFDGGKGAKFETFAGIRIRGAMLDEIRRGDWV---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVA-------IAKKLNVSESEVISMNCRLAGDESL 186 + N RR+ QAI + EQV+ IA+KL+++ E + D S+ Sbjct: 92 SVHRNNRRIA---QAID----ELEQVLGRDARDTEIAEKLDMTLDEY----HHILNDVSV 140 Query: 187 NALINSSDKNSSQWQDWLVYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +I D S +D L DG +VL E + + L ++ +L R+ + Sbjct: 141 GKIIGIEDLGVS--EDILTTSDNVSDGTFEVLAETQ----FHSALVEAIKILPERDALVL 194 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + + L+ + + EVS RV QI ++A +++ +++ Sbjct: 195 SL--YYDEALNLKEIGAILEVSESRVSQILSQAMLRLKGKLKQ 235 >gi|218439022|ref|YP_002377351.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 7424] gi|218171750|gb|ACK70483.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 7424] Length = 257 Score = 37.0 bits (84), Expect = 3.8, Method: Compositional matrix adjust. Identities = 41/183 (22%), Positives = 86/183 (46%), Gaps = 17/183 (9%) Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 P ++ G +GL++A+++F+P++G +++++ +I+ + Y+ S+++I + Sbjct: 53 PYEDLEQVGYLGLIRAIERFNPQQGSAFSSFAIPYIRGEILHYLRDRGSVMRI--PRRWQ 110 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE----SLNAL 189 L+ ++L+ L + + IA+ L +S E C+LA SL+A Sbjct: 111 DLYTKGKKLRKELAQTLGRQPRESE---IAQALGISSQEW--NECQLALQNRLLVSLDAT 165 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 +N + + D L D Q Q I+++ R L ++MS L + + E L Sbjct: 166 VNQAHDGMISFGDTLP-DPKSQGQQKIQED-----RLQLQKAMSQLEDKTKAAIECVFLW 219 Query: 250 ENP 252 + P Sbjct: 220 DLP 222 >gi|16760902|ref|NP_456519.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16765294|ref|NP_460909.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29141406|ref|NP_804748.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62180530|ref|YP_216947.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|161936245|ref|YP_150204.2| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|194736051|ref|YP_002114988.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195873263|ref|ZP_02696436.2| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197263158|ref|ZP_03163232.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197301170|ref|ZP_02664251.2| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|204931059|ref|ZP_03221885.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205357293|ref|ZP_02346566.2| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|207856530|ref|YP_002243181.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224583543|ref|YP_002637341.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|289810757|ref|ZP_06541386.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. AG3] gi|61224055|sp|P0A2E8|FLIA_SALTY RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|61224057|sp|P0A2E9|FLIA_SALTI RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|25331353|pir||AF0750 RNA polymerase sigma transcription factor for flagellar operon fliA [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|556579|dbj|BAA00389.1| sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium] gi|4115509|dbj|BAA36397.1| FliA [Salmonella enterica subsp. enterica serovar Typhimurium] gi|16420491|gb|AAL20868.1| sigma F (sigma 28) factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16503199|emb|CAD05705.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhi] gi|29137033|gb|AAO68597.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62128163|gb|AAX65866.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|194711553|gb|ACF90774.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195634506|gb|EDX52858.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197241413|gb|EDY24033.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197288040|gb|EDY27427.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|204320103|gb|EDZ05308.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205322652|gb|EDZ10491.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|206708333|emb|CAR32636.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224468070|gb|ACN45900.1| flagellar biosynthesis sigma factor FliA [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261247122|emb|CBG24945.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267993942|gb|ACY88827.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301158470|emb|CBW17980.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|320085426|emb|CBY95207.1| RNA polymerase sigma factor rpoD Sigma-70 [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|322715006|gb|EFZ06577.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] gi|323130234|gb|ADX17664.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323250213|gb|EGA34105.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|332988845|gb|AEF07828.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 239 Score = 37.0 bits (84), Expect = 3.8, Method: Compositional matrix adjust. Identities = 48/221 (21%), Positives = 100/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + +E M L+++++ Sbjct: 100 VAQAMGQLE---QELGRNATETE----VAERLGIPVAEYRQM------------LLDTNN 140 Query: 195 KNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + +W LV + QE L + E R+ ++ ++ L RE+ + Sbjct: 141 SQLFSYDEWREEHGDSIELVTEEHQQENPLHQLLEGDLRQRVMD-AIESLPEREQLVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|120554892|ref|YP_959243.1| FliA/WhiG family RNA polymerase sigma factor [Marinobacter aquaeolei VT8] gi|120324741|gb|ABM19056.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Marinobacter aquaeolei VT8] Length = 247 Score = 37.0 bits (84), Expect = 3.8, Method: Compositional matrix adjust. Identities = 29/124 (23%), Positives = 56/124 (45%), Gaps = 13/124 (10%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 L+ H LV KIA+ P + +++ G IGL++A +++ +G TY+ I Sbjct: 21 LIEEHAPLVKKIALHLMARLPPSVQLEDLMQAGMIGLLEAAQRYSSGKGATFETYAGIRI 80 Query: 110 KAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 + AM + I + W + + N RR+ ++ + D + Q +A++L + Sbjct: 81 RGAMVDEIRKGDWV---------PRSVHRNARRIASAIKQVEDRTGREAQDAEVAEELGI 131 Query: 169 SESE 172 E Sbjct: 132 GLDE 135 >gi|161502922|ref|YP_001570034.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160864269|gb|ABX20892.1| hypothetical protein SARI_00981 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 229 Score = 37.0 bits (84), Expect = 3.9, Method: Compositional matrix adjust. Identities = 46/221 (20%), Positives = 100/221 (45%), Gaps = 32/221 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N + Sbjct: 31 LDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 89 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L + E M L+++++ Sbjct: 90 VAQAMGQLE---QELGRNATETE----VAERLGIPVEEYRQM------------LLDTNN 130 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS---------MSVLNPRERRIFEA 245 + +W +H +++ E+ +++N + L S + L RE+ + Sbjct: 131 SQLFSYDEW-REEHGDSIELVTEEHQKENPLHQLLESDLRQRVMGAIESLPEREQLVLTL 189 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 190 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|320120593|gb|EFE29148.2| RNA polymerase sigma-H factor [Filifactor alocis ATCC 35896] Length = 227 Score = 37.0 bits (84), Expect = 4.0, Method: Compositional matrix adjust. Identities = 26/80 (32%), Positives = 43/80 (53%), Gaps = 5/80 (6%) Query: 19 YIHEIRKIPMLEKQEEYV-LAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISE 77 Y ++ IP E +E+ V LA++ GD A + T ++ LV A Y G + Sbjct: 16 YSVDLDNIPQEEWEEQIVHLAQK----GDSYAIDYIFTKYMGLVRSKAKLYFLVGADKED 71 Query: 78 VVSEGNIGLMQAVKKFDPER 97 +V EG IGL +A++ F+P++ Sbjct: 72 IVQEGLIGLHKAIRDFNPDK 91 >gi|228899672|ref|ZP_04063925.1| RNA polymerase sigma-B factor [Bacillus thuringiensis IBL 4222] gi|228859981|gb|EEN04388.1| RNA polymerase sigma-B factor [Bacillus thuringiensis IBL 4222] Length = 203 Score = 37.0 bits (84), Expect = 4.0, Method: Compositional matrix adjust. Identities = 40/175 (22%), Positives = 86/175 (49%), Gaps = 26/175 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + NSSD +S + + G EQ RR +L +VLN E+ + Sbjct: 114 VENSSDGSSVARIESVGEVEQGYEQT--------ERRLVLEDIFNVLNDMEKSVI 160 >gi|237653596|ref|YP_002889910.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thauera sp. MZ1T] gi|237624843|gb|ACR01533.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thauera sp. MZ1T] Length = 257 Score = 36.6 bits (83), Expect = 4.1, Method: Compositional matrix adjust. Identities = 53/251 (21%), Positives = 110/251 (43%), Gaps = 26/251 (10%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 Y HG L LV ++ LV +IA M + + +++ G +GL+ A+ +++ Sbjct: 2 YDAHGKLDKGG-LVENYAPLVKRIAYQLMSRLPASVDVDDLIQNGMMGLLDALGRYEQGL 60 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 G + TY++ I+ AM + + + L + L ++RR++ + ++ N +P Sbjct: 61 GAQFETYAVQRIRGAMLDGLRENDWL--------PRSLRRDMRRIEAAIHSLEQQNGRPP 112 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ---- 213 +A L++ + R+ D + L+ D N + D+L H QE Sbjct: 113 SESELAAALDLPLEDY----QRMLQDARGHQLVYLEDFNREEDDDYLDR-HLAQEGNDPL 167 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIE 273 L+E + + R L ++ L RE+ + +E + L + V+ RV Q+ Sbjct: 168 TLLEDTDLRRR---LVGAIEHLPEREQLVMALYYDEE--LNLREIGEVLGVTESRVCQLH 222 Query: 274 ARAFKKVQESI 284 ++A +++ + Sbjct: 223 SQAVARLRACV 233 >gi|213583576|ref|ZP_03365402.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 201 Score = 36.6 bits (83), Expect = 4.1, Method: Compositional matrix adjust. Identities = 48/223 (21%), Positives = 101/223 (45%), Gaps = 32/223 (14%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 + + +++ G IGL+ AV ++D +G TY++ I+ AM + LRS V N Sbjct: 1 MELDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNA 59 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 + + + +L+ Q + N + E +A++L + +E M L+++ Sbjct: 60 REVAQAMGQLE---QELGRNATETE----VAERLGIPVAEYRQM------------LLDT 100 Query: 193 SDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 ++ + +W LV + QE L + E R+ ++ ++ L RE+ + Sbjct: 101 NNSQLFSYDEWREEHGDSIELVTEEHQQENPLHQLLEGDLRQRVMD-AIESLPEREQLVL 159 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 160 TLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 200 >gi|118443284|ref|YP_877182.1| RNA polymerase factor sigma-70 [Clostridium novyi NT] gi|118133740|gb|ABK60784.1| RNA polymerase sigma-H factor [Clostridium novyi NT] Length = 219 Score = 36.6 bits (83), Expect = 4.3, Method: Compositional matrix adjust. Identities = 24/95 (25%), Positives = 41/95 (43%), Gaps = 9/95 (9%) Query: 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLAT 103 +GD+ A L+ + V A Y G ++ EG IGL +A++ F P+ +L++ Sbjct: 30 NGDIKAQEYLINKYKNFVKAKAKSYFLVGADKEDIYQEGMIGLYKAIRDFKPD---KLSS 86 Query: 104 YSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 + A E + + I T QK + N Sbjct: 87 FK------AFAELCVTRQIITAIKTATRQKHIPLN 115 >gi|152980386|ref|YP_001353773.1| RNA polymerase sigma factor for flagellar operon [Janthinobacterium sp. Marseille] gi|151280463|gb|ABR88873.1| RNA polymerase sigma factor for flagellar operon [Janthinobacterium sp. Marseille] Length = 243 Score = 36.6 bits (83), Expect = 4.3, Method: Compositional matrix adjust. Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 3/69 (4%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 S + LV H LV K+A + P + +++ G IGL+ AV +++ G + TY Sbjct: 8 SDKNHLVGEHAPLVKKLAHQMKAKLPPSVEVDDLIQAGMIGLLDAVSRYEETHGAQFETY 67 Query: 105 SMWWIKAAM 113 ++ I+ AM Sbjct: 68 AVQRIRGAM 76 >gi|315101187|gb|EFT73163.1| sigma-70, region 4 [Propionibacterium acnes HL046PA1] Length = 270 Score = 36.6 bits (83), Expect = 4.3, Method: Compositional matrix adjust. Identities = 14/49 (28%), Positives = 29/49 (59%) Query: 71 YGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 Y + +++ G IGL + ++++D RG R +T + WI+ + E ++R Sbjct: 83 YRCSVEDLIQAGCIGLGETIERYDVRRGARFSTVAWTWIRRRIGEEVVR 131 >gi|288561068|ref|YP_003424554.1| DnaK-related protein [Methanobrevibacter ruminantium M1] gi|288543778|gb|ADC47662.1| DnaK-related protein [Methanobrevibacter ruminantium M1] Length = 584 Score = 36.6 bits (83), Expect = 4.3, Method: Compositional matrix adjust. Identities = 29/98 (29%), Positives = 55/98 (56%), Gaps = 11/98 (11%) Query: 155 KPEQVVAIAKKLNVSESEVISMNCR-LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQ 213 +P+ VAI KL V ++ ++ ++ + L+ ++ L+A +SS++ SS+ D+ E Sbjct: 443 RPKGEVAIQVKLKVDKNGIMGLSAKELSTNKKLSATFDSSNRMSSEEIKKAGLDN---EN 499 Query: 214 VLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 +L + EE+ +RN ++N E IFE ++L EN Sbjct: 500 LLSDYEEKIKQRN-------IINDAEEVIFEGKKLIEN 530 >gi|327481248|gb|AEA84558.1| flagellar biosynthesis sigma factor [Pseudomonas stutzeri DSM 4166] Length = 241 Score = 36.6 bits (83), Expect = 4.4, Method: Compositional matrix adjust. Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 3/69 (4%) Query: 48 SAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 A +RL+ + LV +IA + + + +++ G IGL++A KK+D +G TY Sbjct: 10 DAQYRLIDQYAPLVKRIAYHLLARLPASVQVDDLIQAGMIGLLEAAKKYDAGKGASFETY 69 Query: 105 SMWWIKAAM 113 + I+ M Sbjct: 70 AGIRIRGTM 78 >gi|319944142|ref|ZP_08018420.1| DNA-directed RNA polymerase sigma subunit FliA [Lautropia mirabilis ATCC 51599] gi|319742636|gb|EFV95045.1| DNA-directed RNA polymerase sigma subunit FliA [Lautropia mirabilis ATCC 51599] Length = 241 Score = 36.6 bits (83), Expect = 4.4, Method: Compositional matrix adjust. Identities = 47/207 (22%), Positives = 92/207 (44%), Gaps = 15/207 (7%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV +FD G + T++M ++ AM + LR+ + +Q Sbjct: 41 LDDLIQAGLIGLVDAVSRFDAAMGVQFDTFAMQRVRGAMLDE-LRNADWMPRSVRKSQ-- 97 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS- 193 R ++ + A+ +P Q IA +L V E + G + L ++S Sbjct: 98 -----RSIEQAIHAVEQRLGRPAQEREIADELQVPLEEYQRLLSSAKGSQLLYFEDSASE 152 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D + S+ + L D ++ L E R L ++ L RE+ + ++E + Sbjct: 153 DDDESRIEQMLPDDAPTPDRRL----EDARFRESLVAAIDGLPEREKLLMNLYYVEE--L 206 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKV 280 TL+ + V+ RV Q+ ++A ++ Sbjct: 207 TLKEIGEVLGVTESRVSQLHSQAVARL 233 >gi|289758832|ref|ZP_06518210.1| predicted protein [Mycobacterium tuberculosis T85] gi|289714396|gb|EFD78408.1| predicted protein [Mycobacterium tuberculosis T85] Length = 170 Score = 36.6 bits (83), Expect = 4.4, Method: Compositional matrix adjust. Identities = 31/129 (24%), Positives = 62/129 (48%), Gaps = 7/129 (5%) Query: 162 IAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +AK+++++ +V+ + SL+ I D+ SQ D++ D + V ++ Sbjct: 41 LAKEMDITPEKVLEIQQYAREPISLDQTIG--DEGDSQLGDFI---EDSEAVVAVDAVSF 95 Query: 222 KNRRNMLTRSMSVLNPRERRIFEAR--RLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 ++ L + L+ RE + R P TL+ + + V+RER+RQIE++ K Sbjct: 96 TLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 155 Query: 280 VQESIQKQV 288 ++ + QV Sbjct: 156 LRHPSRSQV 164 >gi|300717856|ref|YP_003742659.1| peptide ABC transporter permease [Erwinia billingiae Eb661] gi|299063692|emb|CAX60812.1| peptide ABC transporter, permease protein [Erwinia billingiae Eb661] Length = 322 Score = 36.6 bits (83), Expect = 4.4, Method: Compositional matrix adjust. Identities = 26/88 (29%), Positives = 40/88 (45%), Gaps = 19/88 (21%) Query: 15 GLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDL------------SAAHRLVTSHLRLVV 62 G +Y IR + +LEKQ+EYV A R G L S L T HL + + Sbjct: 194 GWMQYARTIRSLTLLEKQKEYVQASRVSGGGTLHIMFAHILPNVISPLSVLATLHLGMAI 253 Query: 63 --KIAMGYRGYGLP-----ISEVVSEGN 83 + + + G G+P + +++EGN Sbjct: 254 LTEATLSFLGVGMPPDQPSLGTLINEGN 281 >gi|73532520|dbj|BAE19818.1| RNA polymerase sigma factor for flagellar operon [Edwardsiella tarda] Length = 168 Score = 36.6 bits (83), Expect = 4.4, Method: Compositional matrix adjust. Identities = 25/102 (24%), Positives = 48/102 (47%), Gaps = 6/102 (5%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM------QEYILRSWSLVKIGT 128 + +++ G IGL+ AV+++D +G TY++ I+ AM ++++ RS G Sbjct: 13 LDDLLQAGGIGLLHAVERYDAMQGTAFTTYAIQRIRGAMLDELRSRDWVPRSVRRNARGV 72 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 +A +R L R G + + + E+ I N S+ Sbjct: 73 SAAMQRAEQRLGRTPGDSEIAQEMGIPLEEYQQILLDTNTSQ 114 >gi|300857263|ref|YP_003782247.1| RNA polymerase sigma-H factor [Clostridium ljungdahlii DSM 13528] gi|300437378|gb|ADK17145.1| RNA polymerase sigma-H factor [Clostridium ljungdahlii DSM 13528] Length = 213 Score = 36.6 bits (83), Expect = 4.5, Method: Compositional matrix adjust. Identities = 30/116 (25%), Positives = 53/116 (45%), Gaps = 12/116 (10%) Query: 24 RKI-PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEG 82 RK+ P EK +E ++ + + GD+SA L+ + V + Y G ++ EG Sbjct: 9 RKVSPFEEKLDEEIVIEAKK--GDVSAQEYLINKYGNFVKSKSKSYFLIGADKEDIYQEG 66 Query: 83 NIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 IGL +A++ F P+ +L+++ A E + + I T QK + N Sbjct: 67 MIGLYKAIRDFKPD---KLSSFK------AFAELCVTRQIITAIKTATRQKHIPLN 113 >gi|47168808|pdb|1RP3|A Chain A, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma Complex, Sigma-28FLGM gi|47168810|pdb|1RP3|C Chain C, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma Complex, Sigma-28FLGM gi|47168812|pdb|1RP3|E Chain E, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma Complex, Sigma-28FLGM gi|47168814|pdb|1RP3|G Chain G, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma Complex, Sigma-28FLGM gi|47169132|pdb|1SC5|A Chain A, Sigma-28(Flia)FLGM COMPLEX Length = 239 Score = 36.6 bits (83), Expect = 4.5, Method: Compositional matrix adjust. Identities = 56/241 (23%), Positives = 108/241 (44%), Gaps = 35/241 (14%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ +L LV IA + + LP I +++S G IGL++AV E R Y Sbjct: 17 LILKYLPLVKAIATNIKKH-LPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLR 75 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 IK A+ +Y LRS ++R+ + +LK L + TD +AK+L Sbjct: 76 IKGAIYDY-LRSLDFGSRQVREKERRIKEVVEKLKEKLGREPTDEE--------VAKELG 126 Query: 168 VSESEV------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +S E+ I+ + L+ +E + + + + + +E+V+ + Sbjct: 127 ISTEELFKTLDKINFSYILSLEEVFRDF-------ARDYSELIPSSTNVEEEVI-----K 174 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + ++S L RE+ + + +E P + ++ E S RV Q++A+A ++++ Sbjct: 175 RELTEKVKEAVSKLPEREKLVIQLIFYEELPA--KEVAKILETSVSRVSQLKAKALERLR 232 Query: 282 E 282 E Sbjct: 233 E 233 >gi|103488379|ref|YP_617940.1| RNA polymerase, sigma 28 subunit [Sphingopyxis alaskensis RB2256] gi|98978456|gb|ABF54607.1| RNA polymerase, sigma 28 subunit [Sphingopyxis alaskensis RB2256] Length = 248 Score = 36.6 bits (83), Expect = 4.7, Method: Compositional matrix adjust. Identities = 57/260 (21%), Positives = 112/260 (43%), Gaps = 29/260 (11%) Query: 29 LEKQEEYVLA--KRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGN 83 +E E++ A + R HG + LVT + LV KIA + +++ G Sbjct: 3 IEPAEQFAGAPGRALRPHGYGESVDALVTEYAPLVRKIAWQVFSRVSRTSELDDLIQTGL 62 Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 I L++A + ++ ERGF ATY+ I+ AM + + R +G +A +RL+ Sbjct: 63 IALIEASRHYE-ERGFAFATYASTRIRGAMIDQLRRE---ADVGRSA-----MVAAKRLQ 113 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISM--NCRLAGDESLNALINSSDKNSSQWQ 201 A+ L+ +A L+++ + ++ N SL+ L Sbjct: 114 ATRAALEQQLLRAPTAAEMAVALDMAAEDYFALERNATHGRSTSLDELT----------- 162 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSE 261 D + ++ + ++ E+++ L + + L+ RE+ + + +E + L + Sbjct: 163 DIGAFLAADEDALADDRCEQEDLMGALRQCVGRLSEREQLVLQLYFFEE--LNLHEIGLT 220 Query: 262 FEVSRERVRQIEARAFKKVQ 281 +VS R+ QI+ A KV+ Sbjct: 221 LDVSAARICQIKREAMIKVE 240 >gi|120598267|ref|YP_962841.1| flagellar biosynthesis sigma factor [Shewanella sp. W3-18-1] gi|120558360|gb|ABM24287.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Shewanella sp. W3-18-1] Length = 237 Score = 36.6 bits (83), Expect = 4.7, Method: Compositional matrix adjust. Identities = 49/215 (22%), Positives = 95/215 (44%), Gaps = 25/215 (11%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ AM + I R W V N + Sbjct: 41 LDDLLQAGMMGLLEASSKFDGGKGAKFETFAGIRIRGAMLDEIRRGDW--VPRSVHRNNR 98 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R+ + L+ L + + IA+KL+++ E + D S+ +I Sbjct: 99 RVAQAIDELEKELG-------RDARDTEIAEKLDMTLDEY----HHILNDVSVGKIIGIE 147 Query: 194 DKNSSQWQDWLVY---DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D S QD L DG + L E + + L ++ +L R+ + + Sbjct: 148 DLGVS--QDILTLSDRSDDGSFEALAETQ----FHSALVEAIKLLPERDALVLSL--YYD 199 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + L+ + + EVS RV QI ++A +++ ++ Sbjct: 200 EALNLKEIGAILEVSESRVSQILSQAMLRLKAKLK 234 >gi|238789522|ref|ZP_04633307.1| RNA polymerase sigma factor [Yersinia frederiksenii ATCC 33641] gi|238722472|gb|EEQ14127.1| RNA polymerase sigma factor [Yersinia frederiksenii ATCC 33641] Length = 531 Score = 36.6 bits (83), Expect = 4.7, Method: Compositional matrix adjust. Identities = 20/49 (40%), Positives = 32/49 (65%), Gaps = 1/49 (2%) Query: 233 SVLNPRERRIFEAR-RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 S+ R+R I R + E+P TL ++ + +SRERVRQI+ RAF+++ Sbjct: 167 SLSKERDRDILLMRLGMDEHPHTLAEIAIKLGISRERVRQIQERAFRRL 215 >gi|146282908|ref|YP_001173061.1| flagellar biosynthesis sigma factor [Pseudomonas stutzeri A1501] gi|145571113|gb|ABP80219.1| flagellar biosynthesis sigma factor FliA [Pseudomonas stutzeri A1501] Length = 241 Score = 36.6 bits (83), Expect = 4.9, Method: Compositional matrix adjust. Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 3/69 (4%) Query: 48 SAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 A +RL+ + LV +IA + + + +++ G IGL++A KK+D +G TY Sbjct: 10 DAQYRLIDQYAPLVKRIAYHLLARLPASVQVDDLIQAGMIGLLEAAKKYDAGKGASFETY 69 Query: 105 SMWWIKAAM 113 + I+ M Sbjct: 70 AGIRIRGTM 78 >gi|206558549|ref|YP_002229309.1| flagellar biosynthesis sigma factor [Burkholderia cenocepacia J2315] gi|198034586|emb|CAR50452.1| RNA polymerase sigma factor for flagellar regulon FliA [Burkholderia cenocepacia J2315] Length = 243 Score = 36.6 bits (83), Expect = 4.9, Method: Compositional matrix adjust. Identities = 48/231 (20%), Positives = 97/231 (41%), Gaps = 19/231 (8%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L+LV K+ + + +++ G IGLM A ++ ++G + TY+ I+ AM + Sbjct: 26 LQLVAKMPAS-----VDLDDLIQAGMIGLMDAAGRYKEDQGAQFETYATQRIRGAMLDE- 79 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS + + + + +++ HL + IA+ LN+ E M Sbjct: 80 LRSNDWLPRSLRKTSREVEHAVHQVEQHLG-------RSASETEIAQHLNMPLDEYQGML 132 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L G + + + + D DH L++ ++ R L ++ L Sbjct: 133 QDLHGSQLIYYEDFDRAADDEPFLDRYRVDHADPLSALLD----EHLREALVEAIERLPE 188 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE+ + E + L + + EVS RV Q+ ++A +++ +++Q Sbjct: 189 REKLLMSL--YYERGLNLREIGAVLEVSESRVCQLHSQAVARLRARLREQA 237 >gi|116748823|ref|YP_845510.1| FliA/WhiG family RNA polymerase sigma factor [Syntrophobacter fumaroxidans MPOB] gi|116697887|gb|ABK17075.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Syntrophobacter fumaroxidans MPOB] Length = 279 Score = 36.6 bits (83), Expect = 4.9, Method: Compositional matrix adjust. Identities = 50/231 (21%), Positives = 97/231 (41%), Gaps = 31/231 (13%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI-LRSW---SLVKIGTTA 130 I +++S G IGL+ AV K+D +G Y+ I+ AM + I W SL + G Sbjct: 60 IDDLISAGVIGLIDAVDKYDSGQGIPFKFYAKIRIRGAMLDEIRAMDWVPRSLRQKGNVL 119 Query: 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG----DESL 186 +R F L + G + EQV A +LN+ + + + G E++ Sbjct: 120 --ERTFSALEQKLGRCPS-------DEQV---AGELNIGIEDYHRLLDEIKGISFLPENI 167 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 N + + ++ S D + L + R+ + L ++ L +E+ + Sbjct: 168 NEALLENGESGSLASD---------SEELFQHAYRQEIQRHLADAIRTLTEKEQLVLSLY 218 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 E +T++ + + + R+ QI +A K++ + K++ PP + Sbjct: 219 YYDE--LTMKEVGTALGYTESRISQIHTKAIIKLRSRLAKRLTADDLPPYI 267 >gi|219670137|ref|YP_002460572.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfitobacterium hafniense DCB-2] gi|219540397|gb|ACL22136.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfitobacterium hafniense DCB-2] Length = 248 Score = 36.6 bits (83), Expect = 4.9, Method: Compositional matrix adjust. Identities = 13/38 (34%), Positives = 24/38 (63%) Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++ G GL+ A+++FDP RG + TY+ I+ A+ Sbjct: 43 DDLIGYGVFGLLDALERFDPVRGVKFETYATLRIRGAI 80 >gi|297195554|ref|ZP_06912952.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197721376|gb|EDY65284.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 291 Score = 36.6 bits (83), Expect = 4.9, Method: Compositional matrix adjust. Identities = 51/237 (21%), Positives = 103/237 (43%), Gaps = 22/237 (9%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 L+ +L LV A +R + +++ G IGL++A+ +F+ R AT+++ +I Sbjct: 68 LIELNLALVKYAAGRFRNRAEQMEDIIQVGTIGLIKAIDRFELSREVEFATFAVPYIIGE 127 Query: 113 MQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSES 171 ++ + SW+ + + L +L + L D+ +A+ L + E Sbjct: 128 IKRFFRDTSWA---VHVPRRLQELRIDLAKAVDELSQKLDHT---PTTAELAEHLGMDEE 181 Query: 172 EVI----SMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNM 227 E+I + N AG + + ++SD + D L G +E E Sbjct: 182 EIIEGVVASNGYTAGSIDM-PMDDASDHGAVPLSDRL-----GAPDAELEIAENVQALKP 235 Query: 228 LTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 L L+ R+R+I + R +E +T + +E VS+ V ++ +R +++E + Sbjct: 236 LIEE---LDERDRQILQMRFGEE--MTQSEIGAELGVSQMHVSRLLSRITARLREGL 287 >gi|89895713|ref|YP_519200.1| hypothetical protein DSY2967 [Desulfitobacterium hafniense Y51] gi|89335161|dbj|BAE84756.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 248 Score = 36.6 bits (83), Expect = 5.0, Method: Compositional matrix adjust. Identities = 13/38 (34%), Positives = 24/38 (63%) Query: 76 SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++ G GL+ A+++FDP RG + TY+ I+ A+ Sbjct: 43 DDLIGYGVFGLLDALERFDPVRGVKFETYATLRIRGAI 80 >gi|228932399|ref|ZP_04095281.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228984185|ref|ZP_04144367.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229183301|ref|ZP_04310530.1| RNA polymerase sigma-B factor [Bacillus cereus BGSC 6E1] gi|228600171|gb|EEK57762.1| RNA polymerase sigma-B factor [Bacillus cereus BGSC 6E1] gi|228775472|gb|EEM23856.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228827335|gb|EEM73087.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] Length = 203 Score = 36.6 bits (83), Expect = 5.1, Method: Compositional matrix adjust. Identities = 44/215 (20%), Positives = 105/215 (48%), Gaps = 28/215 (13%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + N+SD +S + + G E+ RR +L +VLN E+ + + Sbjct: 114 VENASDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI--HYI 163 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E + ++ +S+ V +I+ +A K++++ Sbjct: 164 FEENLNQKDTGERLGISQMHVSRIKRQAISKLKQA 198 >gi|15606452|ref|NP_213832.1| RNA polymerase sigma factor FliA [Aquifex aeolicus VF5] gi|2983663|gb|AAC07229.1| RNA polymerase sigma factor FliA [Aquifex aeolicus VF5] Length = 236 Score = 36.6 bits (83), Expect = 5.1, Method: Compositional matrix adjust. Identities = 56/241 (23%), Positives = 108/241 (44%), Gaps = 35/241 (14%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 L+ +L LV IA + + LP I +++S G IGL++AV E R Y Sbjct: 14 LILKYLPLVKAIATNIKKH-LPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLR 72 Query: 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPEQVVAIAKKLN 167 IK A+ +Y LRS ++R+ + +LK L + TD +AK+L Sbjct: 73 IKGAIYDY-LRSLDFGSRQVREKERRIKEVVEKLKEKLGREPTDEE--------VAKELG 123 Query: 168 VSESEV------ISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEER 221 +S E+ I+ + L+ +E + + + + + +E+V+ + Sbjct: 124 ISTEELFKTLDKINFSYILSLEEVFRDF-------ARDYSELIPSSTNVEEEVI-----K 171 Query: 222 KNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + ++S L RE+ + + +E P + ++ E S RV Q++A+A ++++ Sbjct: 172 RELTEKVKEAVSKLPEREKLVIQLIFYEELPA--KEVAKILETSVSRVSQLKAKALERLR 229 Query: 282 E 282 E Sbjct: 230 E 230 >gi|138897001|ref|YP_001127454.1| sigma-B general stress transcription factor [Geobacillus thermodenitrificans NG80-2] gi|134268514|gb|ABO68709.1| Sigma-B general stress transcription factor [Geobacillus thermodenitrificans NG80-2] Length = 258 Score = 36.6 bits (83), Expect = 5.1, Method: Compositional matrix adjust. Identities = 44/207 (21%), Positives = 99/207 (47%), Gaps = 27/207 (13%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G + ++ ++ +DP +G +Y+M + M+ Y+ +++ +R+ N + Sbjct: 64 GRLSFLRLLEHYDPNQGTSFESYAMKSLIGYMKNYLRDKAWYIQV-----PRRVKENGSK 118 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-----SLNALINSSDKN 196 ++ + +T + + IA L +S E I + LAG + S++A + +K+ Sbjct: 119 VQKAIDELTVTLERSPNIEEIANHLGLSVEETIEI---LAGRDHYQAISIDAPVQDGEKD 175 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA--RRLQENPVT 254 ++ ++L D + + LIE+ + L ++ L+ +ER + EA RR + T Sbjct: 176 ATTIGEFLA-DDTNEVEALIERLD-------LQEAIGKLSEQERIVIEAVFRRGE----T 223 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 +L+ VS+ + +I+ RA +K++ Sbjct: 224 QRSLAKRLGVSQMTISRIQKRAIEKLK 250 >gi|262273680|ref|ZP_06051493.1| putative RNA polymerase sigma-38 factor [Grimontia hollisae CIP 101886] gi|262222095|gb|EEY73407.1| putative RNA polymerase sigma-38 factor [Grimontia hollisae CIP 101886] Length = 78 Score = 36.6 bits (83), Expect = 5.2, Method: Compositional matrix adjust. Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 4/56 (7%) Query: 235 LNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LNP++R + ARR L TLE++ E ++RERVRQI+ +++++ + Q Sbjct: 12 LNPKQREVL-ARRFGLLGHEASTLEDVGREIGLTRERVRQIQVEGLRRLRDMLTHQ 66 >gi|293395614|ref|ZP_06639897.1| DNA-directed RNA polymerase sigma subunit FliA [Serratia odorifera DSM 4582] gi|291421933|gb|EFE95179.1| DNA-directed RNA polymerase sigma subunit FliA [Serratia odorifera DSM 4582] Length = 240 Score = 36.2 bits (82), Expect = 5.3, Method: Compositional matrix adjust. Identities = 43/214 (20%), Positives = 94/214 (43%), Gaps = 30/214 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V + + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRHARD 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + ++RL+ L +P + +A+ +N+S ++ + L+++++ Sbjct: 100 VAQAMQRLEQQLG-------RPAGELEVAQAMNMSLADYRQI------------LMDTNN 140 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSM--------SVLNPRERRIFEAR 246 + +W + E +L E +L S+ L RE+ + Sbjct: 141 SQLFSYDEWREEQGESAEPLLEGHAEANPLHQLLEGSLRQRVIDAIEALPEREKLVLTLY 200 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 201 YQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|119718669|ref|YP_925634.1| sigma-70 region 4 domain-containing protein [Nocardioides sp. JS614] gi|119539330|gb|ABL83947.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nocardioides sp. JS614] Length = 300 Score = 36.2 bits (82), Expect = 5.3, Method: Compositional matrix adjust. Identities = 15/34 (44%), Positives = 21/34 (61%) Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 S G + L+QA + FDPERG A Y+ I+ A+ Sbjct: 47 SAGLLALVQAARAFDPERGVPFAGYASTRIRGAL 80 >gi|146293655|ref|YP_001184079.1| flagellar biosynthesis sigma factor [Shewanella putrefaciens CN-32] gi|145565345|gb|ABP76280.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Shewanella putrefaciens CN-32] gi|319427054|gb|ADV55128.1| RNA polymerase sigma-28 factor for flagellar operon, FliA [Shewanella putrefaciens 200] Length = 237 Score = 36.2 bits (82), Expect = 5.4, Method: Compositional matrix adjust. Identities = 49/215 (22%), Positives = 95/215 (44%), Gaps = 25/215 (11%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ AM + I R W V N + Sbjct: 41 LDDLLQAGMMGLLEASSKFDGGKGAKFETFAGIRIRGAMLDEIRRGDW--VPRSVHRNNR 98 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 R+ + L+ L + + IA+KL+++ E + D S+ +I Sbjct: 99 RVAQAIDELEQELG-------RDARDTEIAEKLDMTLDEY----HHILNDVSVGKIIGIE 147 Query: 194 DKNSSQWQDWLVY---DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE 250 D S QD L DG + L E + + L ++ +L R+ + + Sbjct: 148 DLGVS--QDILTLSDRSDDGSFEALAETQ----FHSALVEAIKLLPERDALVLSL--YYD 199 Query: 251 NPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + L+ + + EVS RV QI ++A +++ ++ Sbjct: 200 EALNLKEIGAILEVSESRVSQILSQAMLRLKAKLK 234 >gi|297196439|ref|ZP_06913837.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197722266|gb|EDY66174.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 292 Score = 36.2 bits (82), Expect = 5.5, Method: Compositional matrix adjust. Identities = 20/76 (26%), Positives = 41/76 (53%), Gaps = 1/76 (1%) Query: 49 AAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 A + L+ ++ LV +A +R ++V G IGL++A+ +FD R AT+++ + Sbjct: 67 ARNTLIEMNISLVRYVARRFRNRAESDEDIVQVGTIGLIKAIDRFDLSREVEFATFAVPY 126 Query: 109 IKAAMQEYIL-RSWSL 123 I ++ + SW++ Sbjct: 127 ILGEIKRFFRDTSWAV 142 >gi|254246774|ref|ZP_04940095.1| Sigma-70 region 3 [Burkholderia cenocepacia PC184] gi|124871550|gb|EAY63266.1| Sigma-70 region 3 [Burkholderia cenocepacia PC184] Length = 306 Score = 36.2 bits (82), Expect = 5.5, Method: Compositional matrix adjust. Identities = 48/231 (20%), Positives = 96/231 (41%), Gaps = 19/231 (8%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L+LV K+ + + +++ G IGLM A ++ ++G + TY+ I+ AM + Sbjct: 89 LQLVAKMPAS-----VDLDDLIQAGMIGLMDAAGRYKEDQGAQFETYATQRIRGAMLDE- 142 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS + + + + +++ HL + IA+ LN+ E M Sbjct: 143 LRSNDWLPRSLRKTSREVEHAVHQVEQHLG-------RSASETEIAQHLNMPLDEYQGML 195 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L G + + + + D DH L++ + R L ++ L Sbjct: 196 QDLHGSQLIYYEDFDRAADDEPFLDRYRVDHADPLSALLD----DHLREALVEAIERLPE 251 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE+ + E + L + + EVS RV Q+ ++A +++ +++Q Sbjct: 252 REKLLMSL--YYERGLNLREIGAVLEVSESRVCQLHSQAVARLRARLREQA 300 >gi|332533108|ref|ZP_08408977.1| RNA polymerase sigma factor for flagellar operon [Pseudoalteromonas haloplanktis ANT/505] gi|332037390|gb|EGI73844.1| RNA polymerase sigma factor for flagellar operon [Pseudoalteromonas haloplanktis ANT/505] Length = 236 Score = 36.2 bits (82), Expect = 5.6, Method: Compositional matrix adjust. Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 4/74 (5%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWI 109 +V H LV K+A P + +++ G IGL++A K FD +G T++ I Sbjct: 12 IVEKHASLVKKVACHLIARLPPSVQLDDLIQSGMIGLIEASKNFDATKGASFETFAGIRI 71 Query: 110 KAAMQEYILR-SWS 122 + AM + + R W+ Sbjct: 72 RGAMLDEMRRGDWA 85 >gi|228950124|ref|ZP_04112308.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229120608|ref|ZP_04249853.1| RNA polymerase sigma-B factor [Bacillus cereus 95/8201] gi|228662893|gb|EEL18488.1| RNA polymerase sigma-B factor [Bacillus cereus 95/8201] gi|228809547|gb|EEM55984.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] Length = 203 Score = 36.2 bits (82), Expect = 5.6, Method: Compositional matrix adjust. Identities = 44/215 (20%), Positives = 105/215 (48%), Gaps = 28/215 (13%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + N+SD +S + + G E+ RR +L +VLN E+ + + Sbjct: 114 VENASDGSSVARIESVGEVEKGYEET--------ERRLVLKDIFNVLNETEKSVI--HYI 163 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 E + ++ +S+ V +I+ +A K++++ Sbjct: 164 FEENLNQKDTGERLGISQMHVSRIKRQAISKLKQA 198 >gi|226944861|ref|YP_002799934.1| motility sigma factor 28 [Azotobacter vinelandii DJ] gi|226719788|gb|ACO78959.1| motility sigma factor 28 [Azotobacter vinelandii DJ] Length = 231 Score = 36.2 bits (82), Expect = 5.6, Method: Compositional matrix adjust. Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 1/72 (1%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ A+ ++D +G AT++ ++ AM + LRS V N + Sbjct: 38 LDDLIQAGTIGLLDALSRYDAAQGASFATFASQRVRGAMLDE-LRSRDWVPRSVRRNARA 96 Query: 135 LFFNLRRLKGHL 146 L LR+L+ L Sbjct: 97 LEDTLRQLEQRL 108 >gi|229171759|ref|ZP_04299331.1| RNA polymerase sigma-B factor [Bacillus cereus MM3] gi|228611656|gb|EEK68906.1| RNA polymerase sigma-B factor [Bacillus cereus MM3] Length = 203 Score = 36.2 bits (82), Expect = 5.6, Method: Compositional matrix adjust. Identities = 39/175 (22%), Positives = 86/175 (49%), Gaps = 26/175 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDCSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + NSSD +S + + G E+ RR +L +VLN E+ + Sbjct: 114 VENSSDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI 160 >gi|157145286|ref|YP_001452605.1| flagellar biosynthesis sigma factor [Citrobacter koseri ATCC BAA-895] gi|157082491|gb|ABV12169.1| hypothetical protein CKO_01023 [Citrobacter koseri ATCC BAA-895] Length = 229 Score = 36.2 bits (82), Expect = 5.6, Method: Compositional matrix adjust. Identities = 53/238 (22%), Positives = 105/238 (44%), Gaps = 37/238 (15%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV ++D +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L + E M Sbjct: 73 LRSRDWVPRSVRRNAREVAQAMGQLE---QELGRNATETE----VAERLAIPVEEYRQM- 124 Query: 178 CRLAGDESLNALINSSDKNSSQWQDW---------LVYDHDGQEQVLIEKEERKNRRNML 228 L+++++ + +W LV + QE L + E N R + Sbjct: 125 -----------LLDTNNSQLFSYDEWREEHGDSIELVTEEHQQENPLQQLLE-SNLRQRV 172 Query: 229 TRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ L RE+ + +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 173 MDAIESLPEREQLVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|90021809|ref|YP_527636.1| flagellar protein FliS [Saccharophagus degradans 2-40] gi|89951409|gb|ABD81424.1| RNA polymerase sigma factor, FliA/WhiG [Saccharophagus degradans 2-40] Length = 250 Score = 36.2 bits (82), Expect = 5.6, Method: Compositional matrix adjust. Identities = 47/214 (21%), Positives = 95/214 (44%), Gaps = 20/214 (9%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 I +++ G +GL++A +K+D +G TYS I+ A+ + + R W+ + Sbjct: 48 IEDLIQAGMLGLLEAAQKYDASKGASFETYSGIRIRGAIVDEMRRGDWA---------PR 98 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N RR+ + + + + + IA+++ +S E +M R + L + + Sbjct: 99 SVHRNSRRVAEAIATVEARHGRDARDHEIAEEMGLSLDEYYAM-ARDSASTRLFSYEETY 157 Query: 194 DKNSSQWQDWLVYD--HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 + + S++ ++ D EQV R L ++ L RER + QE Sbjct: 158 ENDESRFDEYEPSDGLRGPSEQV-----HRNALYTDLVAAIGKLPERERLVLSLYYEQE- 211 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + L+ + VS RV QI ++A +++ +Q Sbjct: 212 -MNLKEIGLVLGVSESRVSQIHSQAALRLKSRMQ 244 >gi|196249822|ref|ZP_03148518.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|196210698|gb|EDY05461.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 256 Score = 36.2 bits (82), Expect = 5.7, Method: Compositional matrix adjust. Identities = 44/207 (21%), Positives = 99/207 (47%), Gaps = 27/207 (13%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRR 141 G + ++ ++ +DP +G +Y+M + M+ Y+ +++ +R+ N + Sbjct: 62 GRLSFLRLLEHYDPNQGTSFESYAMKSLIGYMKNYLRDKAWYIQV-----PRRVKENGSK 116 Query: 142 LKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE-----SLNALINSSDKN 196 ++ + +T + + IA L +S E I + LAG + S++A + +K+ Sbjct: 117 VQKAIDELTVTLERSPNIEEIANHLGLSVEETIEI---LAGRDHYQAISIDAPVQDGEKD 173 Query: 197 SSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA--RRLQENPVT 254 ++ ++L D + + LIE+ + L ++ L+ +ER + EA RR + T Sbjct: 174 ATTIGEFLA-DDTNEVEALIERLD-------LQEAIGKLSEQERIVIEAVFRRGE----T 221 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 +L+ VS+ + +I+ RA +K++ Sbjct: 222 QRSLAKRLGVSQMTISRIQKRAIEKLK 248 >gi|72161291|ref|YP_288948.1| RNA polymerase sigma-B factor [Thermobifida fusca YX] gi|71915023|gb|AAZ54925.1| RNA polymerase sigma-B factor [Thermobifida fusca YX] Length = 307 Score = 36.2 bits (82), Expect = 5.7, Method: Compositional matrix adjust. Identities = 21/88 (23%), Positives = 42/88 (47%), Gaps = 2/88 (2%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 +L H + +IA YR G P ++ +GL A++ FDP G +Y++ + Sbjct: 85 KLTELHAPVARRIARQYRNRGEPEEDLRQVAMVGLYNAIRNFDPAYGKEFISYALPMMTG 144 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFN 138 ++ + R+W+ +++ +KR N Sbjct: 145 EVKRHFRDRTWA-IRVPRKYQEKRAELN 171 >gi|238756654|ref|ZP_04617944.1| RNA polymerase sigma factor for flagellar operon [Yersinia ruckeri ATCC 29473] gi|238705123|gb|EEP97550.1| RNA polymerase sigma factor for flagellar operon [Yersinia ruckeri ATCC 29473] Length = 240 Score = 36.2 bits (82), Expect = 5.8, Method: Compositional matrix adjust. Identities = 42/215 (19%), Positives = 93/215 (43%), Gaps = 32/215 (14%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM-QEYILRSWSLVKIGTTANQK 133 + +++ G IGL+ AV+++D +G TY++ I+ AM E R W+ + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 + N R + ++ + +P +A+ L++S E + L++++ Sbjct: 92 SVRRNAREVAQAMRQVEQKVGRPASEQEVAQILDISLVEYRQI------------LLDTN 139 Query: 194 DKNSSQWQDWLVYDHDGQEQVL--------IEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 + + +W + E VL +++ N R + ++ L RE+ + Sbjct: 140 NSQLFSYDEWREEHGESVEPVLDGLDDANPLQQLLEGNLRQRVIEAIEALPEREKMVLTL 199 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 +E + L+ + + EV RV Q+ ++A K++ Sbjct: 200 YYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRL 232 >gi|311030102|ref|ZP_07708192.1| RNA polymerase sigma factor SigD [Bacillus sp. m3-13] Length = 254 Score = 36.2 bits (82), Expect = 5.8, Method: Compositional matrix adjust. Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 4/46 (8%) Query: 72 GLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 GLP S E+ S +GL A++KFDP R + TY+ + I+ ++ Sbjct: 46 GLPKSVKREELKSLAFVGLFDAIEKFDPSRDLKFDTYASFRIRGSI 91 >gi|237808347|ref|YP_002892787.1| sigma-70 region 4 domain-containing protein [Tolumonas auensis DSM 9187] gi|237500608|gb|ACQ93201.1| sigma-70 region 4 domain protein [Tolumonas auensis DSM 9187] Length = 913 Score = 36.2 bits (82), Expect = 5.9, Method: Composition-based stats. Identities = 19/47 (40%), Positives = 27/47 (57%) Query: 234 VLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 V N +E R L N TLE L + + V+RER+RQ+E+ A K+ Sbjct: 401 VKNEKELATIVCRLLSNNKKTLEELGAIYGVTRERIRQLESLAIAKL 447 >gi|119775415|ref|YP_928155.1| flagellar biosynthesis sigma factor [Shewanella amazonensis SB2B] gi|119767915|gb|ABM00486.1| RNA polymerase sigma factor, FliA/WhiG [Shewanella amazonensis SB2B] Length = 239 Score = 36.2 bits (82), Expect = 5.9, Method: Compositional matrix adjust. Identities = 47/207 (22%), Positives = 92/207 (44%), Gaps = 17/207 (8%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL++A KFD +G + T++ I+ AM + I R V NQ+R Sbjct: 41 LDDLLQAGMIGLLEASAKFDGGKGAKFETFAGIRIRGAMLDEI-RKGDWVPRSVHRNQRR 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + L+ L + + IA++L++S E + D S+ +I D Sbjct: 100 VAQVIDELEQELG-------RDARDTEIAERLDMSMEEY----HHILNDVSVGKIIGIED 148 Query: 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVT 254 S D LV D + Q + + + + L ++ L R+ + + + Sbjct: 149 LGVS--HDVLVPDGE-QTNDIYDDLAQSQFQQALADAIRQLPERDALVLSL--YYDEALN 203 Query: 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 L+ + + +VS RV QI ++A +++ Sbjct: 204 LKEIGAILDVSESRVCQIHSQAMLRLK 230 >gi|256393983|ref|YP_003115547.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] gi|256360209|gb|ACU73706.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] Length = 265 Score = 36.2 bits (82), Expect = 5.9, Method: Compositional matrix adjust. Identities = 41/188 (21%), Positives = 79/188 (42%), Gaps = 18/188 (9%) Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 +GL++AV FDP+ G TY+ I ++ + + V + A + L ++ Sbjct: 73 LGLVKAVDNFDPDYGATFLTYATPMIAGEVRRHFRDTTWHVHVPRRAQENAL-----AVR 127 Query: 144 GHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQ 201 + +T + I ++L++S EV A SL+ + +D + + Sbjct: 128 AVERELTQQLGRAPSAAEIGRRLDLSADEVAEAYEASAAHHTASLDVPVAMADGDGASLG 187 Query: 202 DWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA---RRLQENPVTLENL 258 D L + G + V+ R L ++ L+PR++RI R + + + E Sbjct: 188 DLLGDEDPGFDSVV--------DREALKPLLAELSPRDKRILLMKFFRNMSQAQIGAEIG 239 Query: 259 SSEFEVSR 266 S+ +VSR Sbjct: 240 VSQMQVSR 247 >gi|296168913|ref|ZP_06850582.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295896382|gb|EFG76035.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 262 Score = 36.2 bits (82), Expect = 6.0, Method: Compositional matrix adjust. Identities = 51/236 (21%), Positives = 103/236 (43%), Gaps = 17/236 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 ++V L L IA + G G P ++V +GL+ AV +FD + G ++++ I Sbjct: 42 KIVERCLPLADHIARRFEGRGEPRDDLVQVARVGLVNAVVRFDVDAGSDFVSFAVPTIMG 101 Query: 112 AMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSE 170 ++ + SWS VK+ +RL RL ++ + +A +L + Sbjct: 102 EVRRHFRDNSWS-VKV-----PRRLKELHLRLGTATAELSQRLGRAPTATELAAELGMDR 155 Query: 171 SEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEK-EERKNRRNMLT 229 EV+ L S N L S S + + + D G +++ E++++ R +L Sbjct: 156 EEVVEG---LVAGSSYNTLSIDSGGGSDEDEARAIADTLGDVDTGLDRIEDQESLRPLL- 211 Query: 230 RSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L RER + R + +T ++ +S+ V ++ A++ ++++ +Q Sbjct: 212 ---EALPERERTVLVLRFFES--MTQTQIAERVGISQMHVSRLLAKSLTRLRDQLQ 262 >gi|317126839|ref|YP_004093121.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Bacillus cellulosilyticus DSM 2522] gi|315471787|gb|ADU28390.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Bacillus cellulosilyticus DSM 2522] Length = 217 Score = 36.2 bits (82), Expect = 6.1, Method: Compositional matrix adjust. Identities = 27/98 (27%), Positives = 42/98 (42%), Gaps = 9/98 (9%) Query: 41 YREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFR 100 Y GD SA L+ + V A Y G ++V EG IGL +A++ F +G + Sbjct: 25 YVREGDSSALEYLINKYKNFVRAKARSYFLIGADHEDIVQEGMIGLYKAIRDF---KGDK 81 Query: 101 LATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 L+++ A E + + I T QK + N Sbjct: 82 LSSFK------AFAELCITRQIITAIKTATRQKHIPLN 113 >gi|228913674|ref|ZP_04077301.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229090035|ref|ZP_04221286.1| RNA polymerase sigma-B factor [Bacillus cereus Rock3-42] gi|228693265|gb|EEL46975.1| RNA polymerase sigma-B factor [Bacillus cereus Rock3-42] gi|228845962|gb|EEM90986.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] Length = 196 Score = 36.2 bits (82), Expect = 6.1, Method: Compositional matrix adjust. Identities = 45/210 (21%), Positives = 102/210 (48%), Gaps = 28/210 (13%) Query: 82 GNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLR 140 G +GL+ A++++D G +++ I +++Y+ ++W + + R +L Sbjct: 2 GMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRRIKDLG 54 Query: 141 -RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALI-NSS 193 ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ ++ N+S Sbjct: 55 GKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDVVENAS 111 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D +S + + G EQ RR +L +VLN E+ + + E + Sbjct: 112 DGSSVARIESVGEVEQGYEQT--------ERRLVLKDIFNVLNETEKSVI--HYIFEENL 161 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQES 283 ++ +S+ V +I+ +A K++++ Sbjct: 162 NQKDTGERLGISQMHVSRIKRQAISKLKQA 191 >gi|239933042|ref|ZP_04689995.1| RNA polymerase secondary sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291441393|ref|ZP_06580783.1| conserved hypothetical protein [Streptomyces ghanaensis ATCC 14672] gi|291344288|gb|EFE71244.1| conserved hypothetical protein [Streptomyces ghanaensis ATCC 14672] Length = 263 Score = 36.2 bits (82), Expect = 6.1, Method: Compositional matrix adjust. Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV + L + +IA+ +RG G + ++ +GL++AV +DP RG Y++ I Sbjct: 41 LVQAWLPMAERIAVRFRGRGEALEDLYQVAALGLVKAVDHYDPVRGNAFEAYAVPTITGE 100 Query: 113 MQEYIL-RSWSL 123 ++ + W+L Sbjct: 101 IKRHFRDHMWTL 112 >gi|229108567|ref|ZP_04238180.1| RNA polymerase sigma-B factor [Bacillus cereus Rock1-15] gi|228674898|gb|EEL30129.1| RNA polymerase sigma-B factor [Bacillus cereus Rock1-15] Length = 203 Score = 36.2 bits (82), Expect = 6.2, Method: Compositional matrix adjust. Identities = 46/215 (21%), Positives = 106/215 (49%), Gaps = 28/215 (13%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + NSSD +S + + G E+ RR +L +VLN E+ + Sbjct: 114 VENSSDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVIHY-IF 164 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 +EN + ++ +S+ V +I+ +A K++++ Sbjct: 165 REN-LNQKDTGERLGISQMHVSRIKRQAISKLKQA 198 >gi|254387242|ref|ZP_05002505.1| sigma factor [Streptomyces sp. Mg1] gi|194346050|gb|EDX27016.1| sigma factor [Streptomyces sp. Mg1] Length = 272 Score = 36.2 bits (82), Expect = 6.2, Method: Compositional matrix adjust. Identities = 12/45 (26%), Positives = 28/45 (62%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 + + ++V G IGL++A+ ++DPER +T ++ +I ++ + Sbjct: 64 IDMDDIVQVGTIGLIKAIDRYDPEREVEFSTLALPYITGEIKRHF 108 >gi|158319526|ref|YP_001512033.1| RNA polymerase factor sigma-70 [Alkaliphilus oremlandii OhILAs] gi|158139725|gb|ABW18037.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Alkaliphilus oremlandii OhILAs] Length = 213 Score = 36.2 bits (82), Expect = 6.3, Method: Compositional matrix adjust. Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 9/94 (9%) Query: 45 GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 GDL A L+ + V A Y G ++V EG IGL +A++ F P+ +L+++ Sbjct: 27 GDLEALEYLIKKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFKPD---KLSSF 83 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFN 138 A E + + I T QK + N Sbjct: 84 R------AFAELCITRQIITAIKTATRQKHIPLN 111 >gi|291165889|gb|EFE27936.1| hypothetical protein HMPREF0389_01188 [Filifactor alocis ATCC 35896] Length = 217 Score = 36.2 bits (82), Expect = 6.3, Method: Compositional matrix adjust. Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 1/48 (2%) Query: 82 GNIGLMQAVKKFDPERGFRLAT-YSMWWIKAAMQEYILRSWSLVKIGT 128 G IG+ V + DP G ++ Y W + Q+Y LR W + K GT Sbjct: 169 GIIGINHFVAEGDPNHGIKITCIYKEWKVTKGGQKYTLRDWKVEKFGT 216 >gi|78064851|ref|YP_367620.1| flagellar biosynthesis sigma factor [Burkholderia sp. 383] gi|77965596|gb|ABB06976.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Burkholderia sp. 383] Length = 244 Score = 36.2 bits (82), Expect = 6.3, Method: Compositional matrix adjust. Identities = 50/233 (21%), Positives = 98/233 (42%), Gaps = 23/233 (9%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L+LV K+ + + +++ G IGLM A ++ ++G + TY+ I+ AM + Sbjct: 27 LQLVAKMPAS-----VDLDDLIQAGMIGLMDAAGRYKEDQGAQFETYATQRIRGAMLDE- 80 Query: 118 LRS--WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVIS 175 LRS W + T+ R ++ + + N + IA+ LN+ E Sbjct: 81 LRSNDWLPRSLRKTS---------REVEHAVHQVEQNLGRSASETEIAQHLNMPLDEYQG 131 Query: 176 MNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 M L G + + + + D DH L++ ++ R L ++ L Sbjct: 132 MLQDLHGSQLIYYEDFDRAADDEPFLDRYRVDHADPLSALLD----EHLREALVEAIERL 187 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE+ + E + L + + EVS RV Q+ ++A +++ +++Q Sbjct: 188 PEREKLLMSL--YYERGLNLREIGAVLEVSESRVCQLHSQAVARLRARLREQA 238 >gi|313895821|ref|ZP_07829375.1| RNA polymerase sigma factor, FliA/WhiG family [Selenomonas sp. oral taxon 137 str. F0430] gi|320529404|ref|ZP_08030492.1| putative RNA polymerase sigma factor WhiG [Selenomonas artemidis F0399] gi|312975246|gb|EFR40707.1| RNA polymerase sigma factor, FliA/WhiG family [Selenomonas sp. oral taxon 137 str. F0430] gi|320138370|gb|EFW30264.1| putative RNA polymerase sigma factor WhiG [Selenomonas artemidis F0399] Length = 246 Score = 36.2 bits (82), Expect = 6.4, Method: Compositional matrix adjust. Identities = 27/102 (26%), Positives = 51/102 (50%), Gaps = 6/102 (5%) Query: 61 VVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEY 116 +V++ G LP +++S G GL+ A+++++ RG + TY+ ++ AM ++ Sbjct: 33 LVRLVAGRIAISLPQHVDREDLLSSGFFGLLDAIERYELTRGNKFETYAGVRVRGAMLDH 92 Query: 117 ILRSWSLVKIGTTANQKRLFFNLRRLKGHL-QAITDNNLKPE 157 LRS + + N K+ + L+G L + TD L E Sbjct: 93 -LRSKDWIPVSVRQNIKKYEKAVASLEGKLGRTATDEELAAE 133 >gi|107024379|ref|YP_622706.1| flagellar biosynthesis sigma factor [Burkholderia cenocepacia AU 1054] gi|116688295|ref|YP_833918.1| flagellar biosynthesis sigma factor [Burkholderia cenocepacia HI2424] gi|170731608|ref|YP_001763555.1| flagellar biosynthesis sigma factor [Burkholderia cenocepacia MC0-3] gi|105894568|gb|ABF77733.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Burkholderia cenocepacia AU 1054] gi|116646384|gb|ABK07025.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Burkholderia cenocepacia HI2424] gi|169814850|gb|ACA89433.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Burkholderia cenocepacia MC0-3] Length = 243 Score = 36.2 bits (82), Expect = 6.5, Method: Compositional matrix adjust. Identities = 48/231 (20%), Positives = 96/231 (41%), Gaps = 19/231 (8%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L+LV K+ + + +++ G IGLM A ++ ++G + TY+ I+ AM + Sbjct: 26 LQLVAKMPAS-----VDLDDLIQAGMIGLMDAAGRYKEDQGAQFETYATQRIRGAMLDE- 79 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS + + + + +++ HL + IA+ LN+ E M Sbjct: 80 LRSNDWLPRSLRKTSREVEHAVHQVEQHLG-------RSASETEIAQHLNMPLDEYQGML 132 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L G + + + + D DH L++ + R L ++ L Sbjct: 133 QDLHGSQLIYYEDFDRAADDEPFLDRYRVDHADPLSALLD----DHLREALVEAIERLPE 188 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE+ + E + L + + EVS RV Q+ ++A +++ +++Q Sbjct: 189 REKLLMSL--YYERGLNLREIGAVLEVSESRVCQLHSQAVARLRARLREQA 237 >gi|260598417|ref|YP_003210988.1| flagellar biosynthesis sigma factor [Cronobacter turicensis z3032] gi|260217594|emb|CBA31853.1| RNA polymerase sigma factor for flagellar operon [Cronobacter turicensis z3032] Length = 239 Score = 36.2 bits (82), Expect = 6.6, Method: Compositional matrix adjust. Identities = 47/213 (22%), Positives = 100/213 (46%), Gaps = 16/213 (7%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 + +++ G IGL+ AV+++D +G TY++ I+ AM + LRS V N + Sbjct: 41 LDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE-LRSRDWVPRSVRRNARE 99 Query: 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 + + +L+ Q + N + E +A++L++ E M ++ N+ + S D Sbjct: 100 VAQAIGQLE---QELGRNATELE----VAERLSIPLEEYRQMLL-----DTNNSQLFSYD 147 Query: 195 KNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 + + D + + D Q + + + N R + ++ L RE+ + +E + Sbjct: 148 EWREEHGDSIELVTEDNQNENPLHQLLEGNLRERVMEAIESLPEREQMVLTLYYQEE--L 205 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L+ + + EV RV Q+ ++A K+++ + K Sbjct: 206 NLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 238 >gi|257056691|ref|YP_003134523.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] gi|256586563|gb|ACU97696.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 266 Score = 36.2 bits (82), Expect = 6.6, Method: Compositional matrix adjust. Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 1/72 (1%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 ++T L L IA + G G P ++V +GL+ A+ +FD RG +++ I Sbjct: 48 IITRCLPLAEHIARRFVGRGEPRDDLVQVARLGLLNAIDRFDASRGTEFVAFAVPTIMGE 107 Query: 113 MQEYIL-RSWSL 123 ++ + SW++ Sbjct: 108 VRRHFRDSSWAV 119 >gi|239995147|ref|ZP_04715671.1| flagellar biosynthesis sigma factor [Alteromonas macleodii ATCC 27126] Length = 243 Score = 36.2 bits (82), Expect = 6.8, Method: Compositional matrix adjust. Identities = 54/253 (21%), Positives = 103/253 (40%), Gaps = 34/253 (13%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIA---MGYRGYGLPISEVVSEGNIGLMQAVKKFD 94 A Y++ D + +LV H LV +IA + + + +++ G IGL++A + FD Sbjct: 5 AAAYQQQTDKA---QLVERHAPLVKRIAHHLIARLPASVLVDDLIQSGMIGLLEAARNFD 61 Query: 95 PERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNN 153 +G T++ I+ AM + I + W+ + + N R + + + Sbjct: 62 GSKGASFETFAGIRIRGAMLDEIRKGDWT---------PRSVHRNGRAITEAISQVESET 112 Query: 154 LKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNALINSSDKNSSQWQDWLVYDH 208 + + IA KLNVS + M +L G E L +D + + Sbjct: 113 GRDARDSDIADKLNVSLQDYHQMLNEVNAGKLVGIEDLGV-----------SEDVISTEQ 161 Query: 209 DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 + +E + + L +++ L RE + +E + L + +VS R Sbjct: 162 NRGSDAPLEDLMQGAFQKALAHAITTLPEREAIVLSLYYDEE--LNLREIGEVLDVSESR 219 Query: 269 VRQIEARAFKKVQ 281 V QI ++A K++ Sbjct: 220 VSQIHSQAMLKLK 232 >gi|156933482|ref|YP_001437398.1| flagellar biosynthesis sigma factor [Cronobacter sakazakii ATCC BAA-894] gi|156531736|gb|ABU76562.1| hypothetical protein ESA_01300 [Cronobacter sakazakii ATCC BAA-894] Length = 229 Score = 35.8 bits (81), Expect = 7.1, Method: Compositional matrix adjust. Identities = 51/230 (22%), Positives = 107/230 (46%), Gaps = 21/230 (9%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRL V++ + + +++ G IGL+ AV+++D +G TY++ I+ AM + Sbjct: 19 LRLQVRLPAS-----VELDDLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDE- 72 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS V N + + + +L+ Q + N + E +A++L++ E M Sbjct: 73 LRSRDWVPRSVRRNAREVAQAIGQLE---QELGRNATELE----VAERLSIPLEEYRQML 125 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWL-VYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 ++ N+ + S D+ + D + + D Q + + + N R + ++ L Sbjct: 126 L-----DTNNSQLFSYDEWREEHGDSIELVTEDNQNENPLHQLLESNLRERVMEAIESLP 180 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RE+ + +E + L+ + + EV RV Q+ ++A K+++ + K Sbjct: 181 EREQMVLTLYYQEE--LNLKEIGAVLEVGESRVSQLHSQAIKRLRTKLGK 228 >gi|74055051|gb|AAZ95856.1| FliA [Aeromonas hydrophila] Length = 239 Score = 35.8 bits (81), Expect = 7.1, Method: Compositional matrix adjust. Identities = 55/249 (22%), Positives = 102/249 (40%), Gaps = 26/249 (10%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKF 93 A+ Y H D ++ LV H LV +IA LP + +++ G IGL++A + F Sbjct: 4 AQAYLRHQD---SYVLVERHAPLVKRIAQHLLAR-LPSSVLLDDLIQAGMIGLLEASRNF 59 Query: 94 DPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRLKGHLQAITDN 152 D +G TY+ I+ +M + I R W + + N R + ++ + Sbjct: 60 DGSKGASFETYAGIRIRGSMLDEIRRGDWV---------PRSVHRNSRSIAEAIENVEQA 110 Query: 153 NLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQE 212 + + + +A ++ VS E +M D S +I D S +D + + D Sbjct: 111 HGRDARDTEVAAQMGVSLGEYHTM----LQDVSCGKIIGIEDLGVS--EDVIGHPDDAAS 164 Query: 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQI 272 ++ + + L + L RE + +E + L + VS RV QI Sbjct: 165 NSGFDELAAERFQGALAEHIGRLPEREALVLSLYYDEE--LNLREIGEVLNVSESRVSQI 222 Query: 273 EARAFKKVQ 281 ++A +++ Sbjct: 223 HSQAMHRLR 231 >gi|269795656|ref|YP_003315111.1| RNA polymerase sigma-28 subunit SigD/FliA/WhiG [Sanguibacter keddieii DSM 10542] gi|269097841|gb|ACZ22277.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Sanguibacter keddieii DSM 10542] Length = 345 Score = 35.8 bits (81), Expect = 7.1, Method: Compositional matrix adjust. Identities = 58/255 (22%), Positives = 112/255 (43%), Gaps = 21/255 (8%) Query: 39 KRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFD 94 + Y+ D RL+ + LV +A G LP + ++VS G GL+ A++KF+ Sbjct: 101 REYKACADAPTRERLILHYAPLVTSVA-SRVGMKLPSTVEHADLVSYGMFGLIDAIEKFE 159 Query: 95 PERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ-AITDNN 153 +R + TY+ I+ A+ + LR+ V + + + L+ L A TD Sbjct: 160 LDREIKFETYATSRIRGAILDE-LRANDWVPRSVRSKARAVDRAHAELEARLHRAPTD-- 216 Query: 154 LKPEQVVAIAKKLNVSESEVISMNCRLAGDE--SLNALINSSDKNSSQWQDWLVYDHDGQ 211 PE IA+ + ++ SE+ S+ ++ +L+ + + D+ L H + Sbjct: 217 --PE----IAEHMEIALSELRSIRHLVSTVNLVALDEVFGAGDQVEPVGH--LDTGHGAR 268 Query: 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 E K + +L+++M L RE +I E +TL + + V+ R+ Q Sbjct: 269 STDPARTFESKETKFLLSQAMDQLGERE-KIMLVLYYYEG-MTLAEIGAVLGVTESRISQ 326 Query: 272 IEARAFKKVQESIQK 286 + A +++E + + Sbjct: 327 MHTAAMGRLREKLSR 341 >gi|329904712|ref|ZP_08273913.1| RNA polymerase sigma factor for flagellar operon [Oxalobacteraceae bacterium IMCC9480] gi|327547856|gb|EGF32614.1| RNA polymerase sigma factor for flagellar operon [Oxalobacteraceae bacterium IMCC9480] Length = 244 Score = 35.8 bits (81), Expect = 7.2, Method: Compositional matrix adjust. Identities = 47/238 (19%), Positives = 105/238 (44%), Gaps = 19/238 (7%) Query: 48 SAAHRLVTSHLRLVVKIAMGYRGYGLP---ISEVVSEGNIGLMQAVKKFDPERGFRLATY 104 S + L+ H LV ++A + P + +++ G IGL A+ +++ G + TY Sbjct: 8 SDKNHLLVQHAPLVKRLAHQMKAKLPPSVEVDDLIQAGMIGLFDAINRYEDTHGAQFETY 67 Query: 105 SMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAK 164 ++ I+ +M + LRS + + + N+R+++ +QA+ + +AK Sbjct: 68 AVQRIRGSMLDE-LRSSDWLP-------RSMRQNMRKIEVAMQALQQKLGRAPLEAEVAK 119 Query: 165 KLNVSESEVISMNCRLAGDESL--NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERK 222 + +S +E ++ G + + +SS+ N + D Q L+ Sbjct: 120 HMKLSLAEYQNLLGEGGGHQLVYYEDFHDSSEGNEHFLDRYCTDLSDNPLQSLL----NA 175 Query: 223 NRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKV 280 R+ + R++ L RE+ + QE + L+ + + V+ R+ Q+ ++A ++ Sbjct: 176 GFRDAVIRAIEALPEREKILMGLYYEQE--MNLKEIGAVLGVTESRISQLHSQAIARM 231 >gi|212639538|ref|YP_002316058.1| RNA polymerase sigma factor SigD [Anoxybacillus flavithermus WK1] gi|212561018|gb|ACJ34073.1| DNA-directed RNA polymerase specialized sigma subunit [Anoxybacillus flavithermus WK1] Length = 243 Score = 35.8 bits (81), Expect = 7.3, Method: Compositional matrix adjust. Identities = 25/94 (26%), Positives = 47/94 (50%), Gaps = 10/94 (10%) Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLK 143 +GL A++KFDP R + TY+ + I+ A+ + LR + K++ + RL+ Sbjct: 52 LGLYDALEKFDPSRDLKFDTYASFRIRGAILDG-LRKEDWLPRSVREKAKKIEATIERLQ 110 Query: 144 G-HLQAITDNNLKPEQVVAIAKKLNVSESEVISM 176 H++ ++ +A LN+SE EV ++ Sbjct: 111 QMHMRDVSAKE--------VADALNISEDEVYAV 136 >gi|229101713|ref|ZP_04232430.1| RNA polymerase sigma-B factor [Bacillus cereus Rock3-28] gi|228681661|gb|EEL35821.1| RNA polymerase sigma-B factor [Bacillus cereus Rock3-28] Length = 203 Score = 35.8 bits (81), Expect = 7.3, Method: Compositional matrix adjust. Identities = 39/175 (22%), Positives = 86/175 (49%), Gaps = 26/175 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + N+SD +S + + G EQ RR +L +VLN E+ + Sbjct: 114 VENASDGSSVARIESVGEVEQGYEQT--------ERRLVLNDIFNVLNETEKSVI 160 >gi|293392778|ref|ZP_06637096.1| DNA-directed RNA polymerase sigma subunit RpoS [Serratia odorifera DSM 4582] gi|291424637|gb|EFE97848.1| DNA-directed RNA polymerase sigma subunit RpoS [Serratia odorifera DSM 4582] Length = 119 Score = 35.8 bits (81), Expect = 7.4, Method: Compositional matrix adjust. Identities = 21/56 (37%), Positives = 34/56 (60%), Gaps = 4/56 (7%) Query: 235 LNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LN ++R + ARR L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 55 LNAKQREVL-ARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQMQ 109 >gi|326942736|gb|AEA18632.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar chinensis CT-43] Length = 248 Score = 35.8 bits (81), Expect = 7.6, Method: Compositional matrix adjust. Identities = 38/125 (30%), Positives = 59/125 (47%), Gaps = 13/125 (10%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL I ++ G IGL++A FD E G + +TY++ I + I R VK+ Sbjct: 50 GLDIEDLTQFGMIGLIKARDNFDLEYGCKFSTYAVPKIIGEIGRAI-RDHQKVKV----- 103 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 Q+ ++ +KG I NL+ E IA LN S V + G +SLN +++ Sbjct: 104 QRSVY----SIKG---KILRQNLEYEIPEEIASILNEDVSVVSNALHYQPGTQSLNKVVH 156 Query: 192 SSDKN 196 S+ N Sbjct: 157 QSNGN 161 >gi|228957370|ref|ZP_04119129.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|229028783|ref|ZP_04184888.1| RNA polymerase sigma-B factor [Bacillus cereus AH1271] gi|228732530|gb|EEL83407.1| RNA polymerase sigma-B factor [Bacillus cereus AH1271] gi|228802319|gb|EEM49177.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar pakistani str. T13001] Length = 203 Score = 35.8 bits (81), Expect = 7.7, Method: Compositional matrix adjust. Identities = 39/175 (22%), Positives = 86/175 (49%), Gaps = 26/175 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + NSSD +S + + G E+ RR +L +VLN E+ + Sbjct: 114 VENSSDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 160 >gi|207109684|ref|ZP_03243846.1| RNA polymerase sigma factor RpoD [Helicobacter pylori HPKX_438_CA4C1] Length = 84 Score = 35.8 bits (81), Expect = 7.7, Method: Compositional matrix adjust. Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 3/50 (6%) Query: 235 LNPRERRIFEAR---RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 LN RE+ + R E+ TLE + E V+RERVRQIE+ A KK++ Sbjct: 21 LNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR 70 >gi|197250155|ref|YP_002147819.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197213858|gb|ACH51255.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Agona str. SL483] Length = 68 Score = 35.8 bits (81), Expect = 7.8, Method: Compositional matrix adjust. Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 4/59 (6%) Query: 232 MSVLNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 M LN ++R + ARR L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 1 MFELNAKQREVL-ARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 58 >gi|228943596|ref|ZP_04106021.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228976443|ref|ZP_04136903.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228981654|ref|ZP_04141950.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407] gi|228778139|gb|EEM26410.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407] gi|228783244|gb|EEM31363.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228816045|gb|EEM62245.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar berliner ATCC 10792] Length = 232 Score = 35.8 bits (81), Expect = 8.0, Method: Compositional matrix adjust. Identities = 38/125 (30%), Positives = 59/125 (47%), Gaps = 13/125 (10%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL I ++ G IGL++A FD E G + +TY++ I + I R VK+ Sbjct: 34 GLDIEDLTQFGMIGLIKARDNFDLEYGCKFSTYAVPKIIGEIGRAI-RDHQKVKV----- 87 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 Q+ ++ +KG I NL+ E IA LN S V + G +SLN +++ Sbjct: 88 QRSVY----SIKG---KILRQNLEYEIPEEIASILNEDVSVVSNALHYQPGTQSLNKVVH 140 Query: 192 SSDKN 196 S+ N Sbjct: 141 QSNGN 145 >gi|91200244|emb|CAJ73289.1| strongly similar to RNA polymerase sigma factor for flagellar operon [Candidatus Kuenenia stuttgartiensis] Length = 259 Score = 35.8 bits (81), Expect = 8.1, Method: Compositional matrix adjust. Identities = 52/241 (21%), Positives = 106/241 (43%), Gaps = 19/241 (7%) Query: 52 RLVTSHLRLVVKIAMGYRGYGLPI----SEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 +LVT +L LV + + Y LP +++ G IGL++A ++FDP + T+++ Sbjct: 28 KLVTENLSLVKYVVNKFIIY-LPSFVDKEDLIEYGVIGLLEASERFDPCMDTKFGTFAVS 86 Query: 108 WIKAAMQEYI-LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKL 166 I+ A+ +++ + W + + R + L+ + + PE++ A K+ Sbjct: 87 RIRGAILDHLRAQDWLPRSVREKVSLAREAY------ATLEQKLNRHPLPEEIAA-ELKI 139 Query: 167 NVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRR 225 + +E E + + SL + S+ + + L D G IE EE K Sbjct: 140 DTAEWEKLLVEINFGMFLSLEEMNAKSEDGNKEAVGMLFADSKIGDPLSNIETEEEK--- 196 Query: 226 NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 +L ++ L RE+ + ++ + L +S ++S RV QI + ++ ++ Sbjct: 197 ELLVAAIKELPAREKLVITLYYYED--LMLREISQMLDISESRVSQIHHQGLFMLRSKVR 254 Query: 286 K 286 K Sbjct: 255 K 255 >gi|153803628|ref|ZP_01958214.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae MZO-3] gi|124120837|gb|EAY39580.1| RNA polymerase sigma factor for flagellar operon FliA [Vibrio cholerae MZO-3] Length = 193 Score = 35.8 bits (81), Expect = 8.1, Method: Compositional matrix adjust. Identities = 50/204 (24%), Positives = 89/204 (43%), Gaps = 28/204 (13%) Query: 84 IGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQKRLFFNLRRL 142 +GL++A K +D +G TY+ I+ AM + I R W V + + + + L Sbjct: 2 VGLLEAQKNYDGSKGASFETYAGIRIRGAMLDDIRRGDW--VPRSVHKHNREISQAIAVL 59 Query: 143 KGHLQAITDNNLKPEQVVAIAKKLNVS----ESEVISMNC-RLAGDESLNALINSSDKNS 197 +G L N P +AK LN+S S ++ +NC R+ G E L SD Sbjct: 60 EGEL------NRDPTD-AEVAKFLNMSLEQYHSVLMDINCSRIVGIEDLGV----SDDAI 108 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 S ++ +G++ ++ R L S+ L RE + +E + L+ Sbjct: 109 SPFE-------EGEDNSPFHGVAEESFRKALVESIKSLPEREALVLSLYYDEE--LNLKE 159 Query: 258 LSSEFEVSRERVRQIEARAFKKVQ 281 + VS RV QI +++ ++++ Sbjct: 160 IGEVLGVSESRVSQILSQSMQRLR 183 >gi|313647806|gb|EFS12252.1| RNA polymerase sigma factor rpoS domain protein [Shigella flexneri 2a str. 2457T] Length = 76 Score = 35.8 bits (81), Expect = 8.3, Method: Compositional matrix adjust. Identities = 21/56 (37%), Positives = 34/56 (60%), Gaps = 4/56 (7%) Query: 235 LNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LN ++R + ARR L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 12 LNAKQREVL-ARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQ 66 >gi|20151058|pdb|1KU3|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment, Region 4 gi|20151059|pdb|1KU7|A Chain A, Crystal Structure Of Thermus Aquatics Rna Polymerase Sigmaa Subunit Region 4 Bound To-35 Element Dna gi|20151062|pdb|1KU7|D Chain D, Crystal Structure Of Thermus Aquatics Rna Polymerase Sigmaa Subunit Region 4 Bound To-35 Element Dna Length = 73 Score = 35.8 bits (81), Expect = 8.3, Method: Compositional matrix adjust. Identities = 20/56 (35%), Positives = 36/56 (64%), Gaps = 2/56 (3%) Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K++ Sbjct: 4 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLK 59 >gi|242280062|ref|YP_002992191.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio salexigens DSM 2638] gi|242122956|gb|ACS80652.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfovibrio salexigens DSM 2638] Length = 263 Score = 35.8 bits (81), Expect = 8.4, Method: Compositional matrix adjust. Identities = 16/45 (35%), Positives = 29/45 (64%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILR 119 + E++S G++GL++++ KF PE + TY+ IK AM + + R Sbjct: 64 LGELISAGSLGLVESLGKFRPELKIKFETYAENRIKGAMLDELRR 108 >gi|315445714|ref|YP_004078593.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|315264017|gb|ADU00759.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 262 Score = 35.8 bits (81), Expect = 8.6, Method: Compositional matrix adjust. Identities = 59/258 (22%), Positives = 106/258 (41%), Gaps = 23/258 (8%) Query: 37 LAKRYREHGDL---SAA-----HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 +A +RE +L SAA R+V L L IA + G G P ++V +GL+ Sbjct: 19 VADMFRELAELEEGSAAFQRQRDRIVERCLPLADHIARRFDGRGEPRDDLVQVARVGLVN 78 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 AV +FD G ++++ I ++ + SWS VK+ K L L L Sbjct: 79 AVIRFDVNAGSDFVSFAVPTIMGEVRRHFRDNSWS-VKV--PRRLKELHLRLGAATAELS 135 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 P + +A +L + EV+ L S N L S S + D Sbjct: 136 QRLGRAPTPSE---LAAELEMDRDEVVEG---LVAGSSYNTLSIDSGGGSGNEDAPAIAD 189 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 G + +++ E R L ++ L RER + R + +T ++ +S+ Sbjct: 190 TLGDVDLTLDQIE---NREALRPLLAALPERERTVLVLRFFES--MTQTQIAERVGISQM 244 Query: 268 RVRQIEARAFKKVQESIQ 285 V ++ A++ ++++ ++ Sbjct: 245 HVSRLLAKSLTRLRDQLE 262 >gi|228943728|ref|ZP_04106130.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228976238|ref|ZP_04136717.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228977712|ref|ZP_04138098.1| RNA polymerase sigma-B factor [Bacillus thuringiensis Bt407] gi|229042834|ref|ZP_04190570.1| RNA polymerase sigma-B factor [Bacillus cereus AH676] gi|229143711|ref|ZP_04272133.1| RNA polymerase sigma-B factor [Bacillus cereus BDRD-ST24] gi|228639767|gb|EEK96175.1| RNA polymerase sigma-B factor [Bacillus cereus BDRD-ST24] gi|228726494|gb|EEL77715.1| RNA polymerase sigma-B factor [Bacillus cereus AH676] gi|228782010|gb|EEM30202.1| RNA polymerase sigma-B factor [Bacillus thuringiensis Bt407] gi|228783483|gb|EEM31583.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228815947|gb|EEM62170.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar berliner ATCC 10792] Length = 203 Score = 35.8 bits (81), Expect = 8.7, Method: Compositional matrix adjust. Identities = 39/175 (22%), Positives = 86/175 (49%), Gaps = 26/175 (14%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRL 135 +++ G +GL+ A++++D G +++ I +++Y+ ++W + + R Sbjct: 4 DIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGI-------HVPRR 56 Query: 136 FFNLR-RLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLNAL 189 +L ++K ++ +TD+ + +++ IA L +SE EV+ + N R++ SL+ + Sbjct: 57 IKDLGGKIKLAIEELTDHLQRSPKIIEIANHLGLSEEEVLEIMDAKNNYRVS---SLDDV 113 Query: 190 I-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 + NSSD +S + + G E+ RR +L +VLN E+ + Sbjct: 114 VENSSDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNDTEKSVI 160 >gi|83647839|ref|YP_436274.1| flagellar biosynthesis sigma factor FliA [Hahella chejuensis KCTC 2396] gi|83635882|gb|ABC31849.1| flagellar biosynthesis sigma factor FliA [Hahella chejuensis KCTC 2396] Length = 275 Score = 35.8 bits (81), Expect = 8.8, Method: Compositional matrix adjust. Identities = 14/43 (32%), Positives = 27/43 (62%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 + +++ G IGL++A +K+D +G + TY+ I+ AM + I Sbjct: 76 VEDLIQAGMIGLLEAAQKYDAGKGAKFETYAGIRIRGAMVDEI 118 >gi|291562040|emb|CBL40856.1| RNA polymerase sigma factor, sigma-70 family [butyrate-producing bacterium SS3/4] Length = 265 Score = 35.8 bits (81), Expect = 8.9, Method: Compositional matrix adjust. Identities = 10/45 (22%), Positives = 28/45 (62%) Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 + + + V+EG + +++ + +DP++ + +TY ++ AM +Y+ Sbjct: 51 MQMEDAVNEGVVAIIKGIDMYDPDKNIKFSTYITTRVRGAMLDYV 95 >gi|210623158|ref|ZP_03293612.1| hypothetical protein CLOHIR_01562 [Clostridium hiranonis DSM 13275] gi|210153791|gb|EEA84797.1| hypothetical protein CLOHIR_01562 [Clostridium hiranonis DSM 13275] Length = 216 Score = 35.8 bits (81), Expect = 8.9, Method: Compositional matrix adjust. Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 1/80 (1%) Query: 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQA 89 +++EEY + KR +GD A ++ + V A Y G +++ EG IGL +A Sbjct: 16 QQKEEYEIVKR-AANGDRMALEYIMAKYKNFVRVKAKSYFLIGADREDIIQEGMIGLYKA 74 Query: 90 VKKFDPERGFRLATYSMWWI 109 ++ FD + +++ I Sbjct: 75 IRDFDETKAHSFRSFAEVCI 94 >gi|145225367|ref|YP_001136045.1| RNA polymerase sigma factor SigF [Mycobacterium gilvum PYR-GCK] gi|145217853|gb|ABP47257.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium gilvum PYR-GCK] Length = 262 Score = 35.8 bits (81), Expect = 8.9, Method: Compositional matrix adjust. Identities = 60/259 (23%), Positives = 108/259 (41%), Gaps = 25/259 (9%) Query: 37 LAKRYREHGDL---SAA-----HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 +A +RE +L SAA R+V L L IA + G G P ++V +GL+ Sbjct: 19 VADMFRELAELEEGSAAFQRQRDRIVERCLPLADHIARRFDGRGEPRDDLVQVARVGLVN 78 Query: 89 AVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 AV +FD G ++++ I ++ + SWS VK+ K L L L Sbjct: 79 AVIRFDVTAGSDFVSFAVPTIMGEVRRHFRDNSWS-VKV--PRRLKELHLRLGAATAELS 135 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 P + +A +L + EV+ L S N L S S + D Sbjct: 136 QRLGRAPTPSE---LAAELEMDRDEVVEG---LVAGSSYNTLSIDSGGGSGNEDAPAIAD 189 Query: 208 HDGQEQVLIEK-EERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 G + +++ E R+ R +L + L RER + R + +T ++ +S+ Sbjct: 190 TLGDVDLTLDQIENREALRPLL----AALPERERTVLVLRFFES--MTQTQIAERVGISQ 243 Query: 267 ERVRQIEARAFKKVQESIQ 285 V ++ A++ ++++ ++ Sbjct: 244 MHVSRLLAKSLTRLRDQLE 262 >gi|119470003|ref|ZP_01612808.1| flagellar biosynthesis sigma factor [Alteromonadales bacterium TW-7] gi|119446713|gb|EAW27986.1| flagellar biosynthesis sigma factor [Alteromonadales bacterium TW-7] Length = 240 Score = 35.4 bits (80), Expect = 9.3, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 6/75 (8%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPIS----EVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 +V H LV K+A LP S +++ G IGL++A K FD +G T++ Sbjct: 16 IVEKHASLVKKVACHLIAR-LPASVQLDDLIQSGMIGLIEASKSFDATKGASFETFAGIR 74 Query: 109 IKAAMQEYILRS-WS 122 I+ AM + + R W+ Sbjct: 75 IRGAMLDEMRRGDWA 89 >gi|167587836|ref|ZP_02380224.1| flagellar biosynthesis sigma factor [Burkholderia ubonensis Bu] Length = 244 Score = 35.4 bits (80), Expect = 9.4, Method: Compositional matrix adjust. Identities = 48/231 (20%), Positives = 97/231 (41%), Gaps = 19/231 (8%) Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 L+LV K+ + + +++ G IGLM A ++ ++G + TY+ I+ AM + Sbjct: 27 LQLVAKMPAS-----VDLDDLIQAGMIGLMDAAGRYKEDQGAQFETYATQRIRGAMLDE- 80 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRS + + + + +++ HL + IA+ LN+ E M Sbjct: 81 LRSNDWLPRSLRKTSREVEHAVHQVEQHLG-------RAASEAEIAQHLNMPLDEYQGML 133 Query: 178 CRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNP 237 L G + + + + D DH L++ ++ R L ++ L Sbjct: 134 QDLHGSQLIYYEDFDRAADDEPFLDRYRVDHADPLSSLLD----EHLREALIEAIERLPE 189 Query: 238 RERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RE+ + E + L + + EVS RV Q+ ++A +++ +++Q Sbjct: 190 REKLLMSL--YYERGLNLREIGAVLEVSESRVCQLHSQAVARLRARLREQA 238 >gi|239815268|ref|YP_002944178.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Variovorax paradoxus S110] gi|239801845|gb|ACS18912.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Variovorax paradoxus S110] Length = 272 Score = 35.4 bits (80), Expect = 9.5, Method: Compositional matrix adjust. Identities = 24/82 (29%), Positives = 45/82 (54%), Gaps = 4/82 (4%) Query: 36 VLAKRYREHGDLSAAHRLVTSHL---RLVVKIAMGYRGYG-LPISEVVSEGNIGLMQAVK 91 L +R+RE GD A +L+ HL R++ A G R + + ++ +GL++AV Sbjct: 15 ALWRRWREEGDEGARAQLIEHHLPYARMMAAAAYGRRTHNEVEFADYHQLARLGLIEAVD 74 Query: 92 KFDPERGFRLATYSMWWIKAAM 113 +FDP +G + T++ ++ A+ Sbjct: 75 RFDPAQGAQFKTFAAKRVQGAI 96 >gi|291165879|gb|EFE27926.1| RNA polymerase sigma-B factor [Filifactor alocis ATCC 35896] Length = 273 Score = 35.4 bits (80), Expect = 9.5, Method: Compositional matrix adjust. Identities = 14/74 (18%), Positives = 41/74 (55%), Gaps = 1/74 (1%) Query: 51 HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 + L+ +L + ++ Y G+ ++ ++GL+ A++++D +GF+ ++++ I Sbjct: 45 NELIQKNLYIAEILSKKYLNKGIEYDDIFQVASLGLILAIERYDVTKGFKFSSFATPTII 104 Query: 111 AAMQEYIL-RSWSL 123 +++Y + WS+ Sbjct: 105 GEIKKYFRDKGWSI 118 >gi|289754805|ref|ZP_06514183.1| predicted protein [Mycobacterium tuberculosis EAS054] gi|289695392|gb|EFD62821.1| predicted protein [Mycobacterium tuberculosis EAS054] Length = 473 Score = 35.4 bits (80), Expect = 9.5, Method: Compositional matrix adjust. Identities = 34/122 (27%), Positives = 58/122 (47%), Gaps = 32/122 (26%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYR-------------EHGD-LS 48 RK+ + + + + Y+ +I K+ +L +EE LAKR E G+ L Sbjct: 218 RKDAELTASADS-VRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP 276 Query: 49 AAHR----------------LVTSHLRLVVKIAMGYRGYGLPISEVV-SEGNIGLMQAVK 91 AA R L+ ++LRLVV +A Y G G+ +++ + +GL++AV+ Sbjct: 277 AAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIPGKATLGLIRAVE 336 Query: 92 KF 93 KF Sbjct: 337 KF 338 >gi|251765105|sp|Q1LWB0|TXB1A_DANRE RecName: Full=Tax1-binding protein 1 homolog A gi|148725290|emb|CAK04430.2| novel protein similar to vertebrate Tax1 (human T-cell leukemia virus type I) binding protein 1 (TAX1BP1) [Danio rerio] Length = 781 Score = 35.4 bits (80), Expect = 9.5, Method: Compositional matrix adjust. Identities = 28/99 (28%), Positives = 52/99 (52%), Gaps = 1/99 (1%) Query: 201 QDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSS 260 ++ L + DG +L+ EE + L +++ +L +ER + ++ Q+N ++L Sbjct: 138 EELLTVEDDGNSDILVRVEEVQQECKELQKALRLLT-QERDQLQEKQRQQNQELQKSLIE 196 Query: 261 EFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQK 299 E E ++ RVRQ+E K Q+++ K+ EL LQK Sbjct: 197 EKEEAQSRVRQLEQDLLKITQKAVLKETELDCLRDKLQK 235 >gi|42543555|pdb|1RIO|H Chain H, Structure Of Bacteriophage Lambda Ci-Ntd In Complex With Sigma-Region4 Of Thermus Aquaticus Bound To Dna Length = 73 Score = 35.4 bits (80), Expect = 9.6, Method: Compositional matrix adjust. Identities = 20/56 (35%), Positives = 36/56 (64%), Gaps = 2/56 (3%) Query: 228 LTRSMSVLNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L +++S L+ RE + + R+ + TLE + + F V+RER+RQIE +A +K++ Sbjct: 4 LEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLK 59 >gi|330828816|ref|YP_004391768.1| RNA polymerase sigma factor [Aeromonas veronii B565] gi|328803952|gb|AEB49151.1| RNA polymerase sigma factor [Aeromonas veronii B565] Length = 225 Score = 35.4 bits (80), Expect = 9.7, Method: Compositional matrix adjust. Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 5/72 (6%) Query: 53 LVTSHLRLVVKIAMGYRGYGLP----ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 LV H LV +IA LP + +++ G IGL++A + FD +G TY+ Sbjct: 2 LVERHAPLVKRIAQHLLAR-LPSSVLLDDLIQAGMIGLLEASRNFDGSKGASFETYAGIR 60 Query: 109 IKAAMQEYILRS 120 I+ AM + I R Sbjct: 61 IRGAMLDEIRRG 72 >gi|320354339|ref|YP_004195678.1| RNA polymerase sigma-28 subunit SigD/FliA/WhiG [Desulfobulbus propionicus DSM 2032] gi|320122841|gb|ADW18387.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Desulfobulbus propionicus DSM 2032] Length = 244 Score = 35.4 bits (80), Expect = 9.7, Method: Compositional matrix adjust. Identities = 11/37 (29%), Positives = 24/37 (64%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAM 113 +++S +GL+ A KFDP +G + T++ + ++ A+ Sbjct: 41 DMISAAMVGLVDAANKFDPTKGVKFKTFAEYRVRGAI 77 >gi|228912145|ref|ZP_04075860.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200] gi|228847482|gb|EEM92421.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200] Length = 232 Score = 35.4 bits (80), Expect = 9.7, Method: Compositional matrix adjust. Identities = 38/125 (30%), Positives = 58/125 (46%), Gaps = 13/125 (10%) Query: 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 GL I ++ G IGL++A FD E G + +TY++ I + I R VK+ Sbjct: 34 GLDIEDLTQFGMIGLIKARDNFDLEYGCKFSTYAVPKIIGEIGRAI-RDHQKVKV----- 87 Query: 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 Q+ ++ +KG I NL E IA LN S V + G +SLN +++ Sbjct: 88 QRSVY----SVKG---KILRQNLGDEIPEEIASILNEDVSVVSNALHYQPGTQSLNKVVH 140 Query: 192 SSDKN 196 S+ N Sbjct: 141 QSNGN 145 >gi|72161738|ref|YP_289395.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71915470|gb|AAZ55372.1| RNA polymerase sigma factor [Thermobifida fusca YX] Length = 308 Score = 35.4 bits (80), Expect = 9.7, Method: Compositional matrix adjust. Identities = 23/86 (26%), Positives = 42/86 (48%) Query: 53 LVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAA 112 LV ++ LV + A YR G P+ ++ G +GLM+A+K FDP G Y + + Sbjct: 89 LVRLYMPLVRREARRYRNRGEPMDDLYQVGMLGLMKAIKGFDPSYGKPFVAYLLPMVTGE 148 Query: 113 MQEYILRSWSLVKIGTTANQKRLFFN 138 ++ + + V++ ++R N Sbjct: 149 LKRHFRDTTWAVRVPRVHQERRSELN 174 >gi|304399205|ref|ZP_07381072.1| sigma-70 region 3 domain protein [Pantoea sp. aB] gi|304353259|gb|EFM17639.1| sigma-70 region 3 domain protein [Pantoea sp. aB] Length = 172 Score = 35.4 bits (80), Expect = 9.8, Method: Compositional matrix adjust. Identities = 21/56 (37%), Positives = 34/56 (60%), Gaps = 4/56 (7%) Query: 235 LNPRERRIFEARR---LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 LN ++R + ARR L TLE++ E ++RERVRQI+ ++++E +Q Q Sbjct: 108 LNAKQREVL-ARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQ 162 >gi|229189193|ref|ZP_04316217.1| RNA polymerase sigma-B factor [Bacillus cereus ATCC 10876] gi|228594237|gb|EEK52032.1| RNA polymerase sigma-B factor [Bacillus cereus ATCC 10876] Length = 203 Score = 35.4 bits (80), Expect = 9.8, Method: Compositional matrix adjust. Identities = 40/177 (22%), Positives = 83/177 (46%), Gaps = 30/177 (16%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL-RSWSLV---KIGTTANQ 132 +++ G IGL+ A++++D G +++ I +++Y+ ++W + +I + Sbjct: 4 DIIQVGMIGLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGK 63 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISM-----NCRLAGDESLN 187 RL ++ +TD + +++ IA L +SE EV+ + N R++ SL+ Sbjct: 64 IRL---------AIEELTDRLQRSPKIIEIADHLGLSEEEVLEIMDAKNNYRVS---SLD 111 Query: 188 ALI-NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 ++ NSSD +S + + G E+ RR +L +VLN E+ + Sbjct: 112 DVVENSSDGSSVARIESVGEVEQGYEET--------ERRLVLKDIFNVLNETEKSVI 160 >gi|271969632|ref|YP_003343828.1| hypothetical protein Sros_8441 [Streptosporangium roseum DSM 43021] gi|270512807|gb|ACZ91085.1| hypothetical protein Sros_8441 [Streptosporangium roseum DSM 43021] Length = 615 Score = 35.4 bits (80), Expect = 9.9, Method: Compositional matrix adjust. Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 2/65 (3%) Query: 211 QEQVLIEKEERKNRR--NMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 +E V + R +R ++ + L+ R+R I R TL++L+ F V+RER Sbjct: 112 EESVAQVRPSRPDRPLPELIDEVFAALDDRQRAIARDRLYASQRATLDDLAQRFSVTRER 171 Query: 269 VRQIE 273 +RQIE Sbjct: 172 IRQIE 176 >gi|284050443|ref|ZP_06380653.1| RNA polymerase sigma factor SigF [Arthrospira platensis str. Paraca] gi|291567732|dbj|BAI90004.1| group 3 RNA polymerase sigma factor SigF [Arthrospira platensis NIES-39] Length = 261 Score = 35.4 bits (80), Expect = 10.0, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 29/41 (70%) Query: 77 EVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 +++ G IGL++A+++FD +G +++++ +I+ +Q Y+ Sbjct: 57 DLLQVGCIGLIRAIERFDMSKGHAFSSFAIPYIRGEIQHYL 97 >gi|117919807|ref|YP_868999.1| flagellar biosynthesis sigma factor [Shewanella sp. ANA-3] gi|117612139|gb|ABK47593.1| RNA polymerase, sigma 28 subunit [Shewanella sp. ANA-3] Length = 237 Score = 35.4 bits (80), Expect = 10.0, Method: Compositional matrix adjust. Identities = 53/218 (24%), Positives = 96/218 (44%), Gaps = 39/218 (17%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ AM + I R W + Sbjct: 41 LDDLLQAGMMGLLEASSKFDGGKGAKFETFAGIRIRGAMLDEIRRGDWV---------PR 91 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVA-------IAKKLNVSESEVISMNCRLAGDESL 186 + N RR+ QAI + EQV+ IA+KL+++ E + D S+ Sbjct: 92 SVHRNNRRVA---QAIDE----LEQVLGRDARDTEIAEKLDMTLDEY----HHILNDVSV 140 Query: 187 NALINSSDKNSSQWQDWLVYDH---DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 +I D S QD L DG + L E + + L ++ +L R+ + Sbjct: 141 GKIIGIEDLGVS--QDILTSSDNVSDGTYEALAETQ----FHSALVEAIKLLPERDALVL 194 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 + + L+ + + EVS RV QI ++A +++ Sbjct: 195 SL--YYDEALNLKEIGAILEVSESRVSQILSQAMLRLK 230 >gi|126175111|ref|YP_001051260.1| flagellar biosynthesis sigma factor [Shewanella baltica OS155] gi|153001435|ref|YP_001367116.1| flagellar biosynthesis sigma factor [Shewanella baltica OS185] gi|160876160|ref|YP_001555476.1| flagellar biosynthesis sigma factor [Shewanella baltica OS195] gi|217972633|ref|YP_002357384.1| flagellar biosynthesis sigma factor [Shewanella baltica OS223] gi|304409942|ref|ZP_07391561.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Shewanella baltica OS183] gi|307302345|ref|ZP_07582103.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Shewanella baltica BA175] gi|125998316|gb|ABN62391.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Shewanella baltica OS155] gi|151366053|gb|ABS09053.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Shewanella baltica OS185] gi|160861682|gb|ABX50216.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Shewanella baltica OS195] gi|217497768|gb|ACK45961.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Shewanella baltica OS223] gi|304351351|gb|EFM15750.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Shewanella baltica OS183] gi|306914383|gb|EFN44804.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Shewanella baltica BA175] gi|315268356|gb|ADT95209.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Shewanella baltica OS678] Length = 237 Score = 35.4 bits (80), Expect = 10.0, Method: Compositional matrix adjust. Identities = 48/212 (22%), Positives = 94/212 (44%), Gaps = 19/212 (8%) Query: 75 ISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS-WSLVKIGTTANQK 133 + +++ G +GL++A KFD +G + T++ I+ AM + I R W V N + Sbjct: 41 LDDLLQAGMMGLLEASSKFDGGKGAKFETFAGIRIRGAMLDEIRRGDW--VPRSVHRNNR 98 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 ++ + L+ QA+ + E IA+KL+++ E + D S+ +I Sbjct: 99 KVAHAIDELE---QALGRDARDTE----IAEKLDMTLDEY----HHILNDVSVGKIIGIE 147 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPV 253 D S QD L D + E + L ++ +L R+ + + + Sbjct: 148 DLGVS--QDILTVS-DRSDDDSFEALAENQFHSALVEAIKLLPERDALVLSL--YYDEAL 202 Query: 254 TLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L+ + + EVS RV QI ++A +++ ++ Sbjct: 203 NLKEIGAILEVSESRVSQILSQAMLRLKAKLK 234 Searching..................................................done Results from round 2 >gi|254780611|ref|YP_003065024.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] gi|254040288|gb|ACT57084.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] Length = 302 Score = 394 bits (1013), Expect = e-108, Method: Composition-based stats. Identities = 302/302 (100%), Positives = 302/302 (100%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL Sbjct: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS Sbjct: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL Sbjct: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER Sbjct: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP Sbjct: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 Query: 301 RY 302 RY Sbjct: 301 RY 302 >gi|315121811|ref|YP_004062300.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313495213|gb|ADR51812.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 300 Score = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 247/289 (85%), Positives = 269/289 (93%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+R+NMSI+++GEIGL RYIHEI+KIPMLEKQEEY+LAKRY EH DL+A H+LVTSHLRL Sbjct: 1 MSRRNMSIMIDGEIGLRRYIHEIKKIPMLEKQEEYMLAKRYHEHHDLNAVHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VVKIAMGYRGYGLPISEV+SEGNIGLMQAVKKFDPERGFRLATY +WWIKAA+QEYILRS Sbjct: 61 VVKIAMGYRGYGLPISEVISEGNIGLMQAVKKFDPERGFRLATYGIWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLRRLKG LQA+ D NLKPEQVV IA KLNVSE+EVISMNCRL Sbjct: 121 WSLVKIGTTANQKRLFFNLRRLKGRLQAVNDTNLKPEQVVEIATKLNVSEAEVISMNCRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GDESLN L+NSSDK+SSQWQD LVY+HD QEQ LI+KEERKNRRNMLTRSMS LNPRER Sbjct: 181 SGDESLNVLMNSSDKDSSQWQDLLVYNHDSQEQTLIDKEERKNRRNMLTRSMSTLNPRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RIFEARRL ENP TLENLSSEF VSRER+RQIEARAF+KVQ S+QKQ E Sbjct: 241 RIFEARRLNENPSTLENLSSEFAVSRERIRQIEARAFEKVQASVQKQTE 289 >gi|327190963|gb|EGE58017.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CNPAF512] Length = 332 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 213/288 (73%), Positives = 247/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 31 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 90 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 91 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 150 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 151 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 210 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E + RR ML+++MSVLN RER Sbjct: 211 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELETRRRMLSKAMSVLNERER 270 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 271 RIFEARRLAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDAVRKEA 318 >gi|190893168|ref|YP_001979710.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|190698447|gb|ACE92532.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] Length = 302 Score = 332 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 213/288 (73%), Positives = 247/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E + RR ML+++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELETRRRMLSKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|86358940|ref|YP_470832.1| RNA polymerase factor sigma-32 [Rhizobium etli CFN 42] gi|86283042|gb|ABC92105.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN 42] Length = 302 Score = 331 bits (848), Expect = 1e-88, Method: Composition-based stats. Identities = 211/288 (73%), Positives = 246/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WS VK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSAVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DH+ QE VLIE++E + RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHESQEDVLIEQDELETRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSAEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|74099847|gb|AAZ99132.1| RpoH [Rhizobium leguminosarum] Length = 302 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 212/288 (73%), Positives = 245/288 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|116253507|ref|YP_769345.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. viciae 3841] gi|115258155|emb|CAK09256.1| putative RNA polymerase sigma-32 factor [Rhizobium leguminosarum bv. viciae 3841] Length = 302 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 211/288 (73%), Positives = 244/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ + QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDGGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|209550663|ref|YP_002282580.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209536419|gb|ACI56354.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 302 Score = 329 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 211/289 (73%), Positives = 245/289 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ +S QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ + Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEAQ 289 >gi|222149598|ref|YP_002550555.1| RNA polymerase factor sigma-32 [Agrobacterium vitis S4] gi|221736580|gb|ACM37543.1| alternative sigma factor RpoH [Agrobacterium vitis S4] Length = 300 Score = 328 bits (842), Expect = 6e-88, Method: Composition-based stats. Identities = 214/288 (74%), Positives = 242/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++ I GE GL+RY+ EIRK PMLE Q EY+LAKRY EHGD AAHRLVTSHLRL Sbjct: 1 MARNSLPSITAGEGGLNRYLDEIRKFPMLEPQVEYMLAKRYAEHGDRDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI + +LKP+QV IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGKIQAIEEGDLKPDQVTEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ S QWQDWLV DHD QE LIE++E + RRNML+R+M VLN RER Sbjct: 181 SGDASLNAPIRASEGESGQWQDWLVDDHDSQEDTLIEQDELETRRNMLSRAMGVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIF ARRL E PVTLE LSSEF++SRERVRQIE RAF+KVQ+++QK Sbjct: 241 RIFAARRLAEEPVTLEELSSEFDISRERVRQIEVRAFEKVQDAVQKDA 288 >gi|241206034|ref|YP_002977130.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240859924|gb|ACS57591.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 302 Score = 328 bits (842), Expect = 6e-88, Method: Composition-based stats. Identities = 210/288 (72%), Positives = 243/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE Q+EY+LAKRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNTLPSITAGEAGLNRYLDEIRKFPMLEPQQEYMLAKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFD ERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +++ + QWQDWLV DHD QE VLIE++E RR ML ++MSVLN RER Sbjct: 181 SGDASLNAPIKAAEGDGGQWQDWLVDDHDSQEDVLIEQDELDTRRRMLAKAMSVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LS+EF++SRERVRQIE RAF+KVQ++++K+ Sbjct: 241 RIFEARRLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQDAVRKEA 288 >gi|325293796|ref|YP_004279660.1| RNA polymerase sigma-32 factor [Agrobacterium sp. H13-3] gi|1710644|sp|P50507|RP32_AGRTU RecName: Full=RNA polymerase sigma-32 factor gi|1143324|dbj|BAA09439.1| sigma-32 homolog [Agrobacterium tumefaciens] gi|325061649|gb|ADY65340.1| RNA polymerase sigma-32 factor [Agrobacterium sp. H13-3] Length = 300 Score = 328 bits (841), Expect = 8e-88, Method: Composition-based stats. Identities = 214/292 (73%), Positives = 244/292 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++ I GE GL+RY+ EIRK PMLE QEEY+L KRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNSLPTITAGEAGLNRYLDEIRKFPMLEPQEEYMLGKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVKEIATKLQVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I +S+ S QWQDWLV DH+ QE VLIE++E + RR ML ++M VLN RER Sbjct: 181 HGDASLNAPIKASEGESGQWQDWLVDDHESQEAVLIEQDELETRRRMLAKAMGVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 RIFEARRL E+PVTLE LSSEF++SRERVRQIE RAF+KVQE++QK+ ++ Sbjct: 241 RIFEARRLAEDPVTLEELSSEFDISRERVRQIEVRAFEKVQEAVQKEALEAA 292 >gi|10952458|gb|AAG24943.1|AF128845_2 RpoH [Sinorhizobium meliloti] Length = 301 Score = 327 bits (840), Expect = 9e-88, Method: Composition-based stats. Identities = 207/293 (70%), Positives = 246/293 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEEEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV DHD QEQ+LIE++E ++RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDDHDNQEQILIEQDELESRRALLANAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 RIFEARRL E P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K +S Sbjct: 241 RIFEARRLTEEPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRKAALERAS 293 >gi|15889716|ref|NP_355397.1| RNA polymerase factor sigma-32 [Agrobacterium tumefaciens str. C58] gi|15157628|gb|AAK88182.1| RNA polymerase sigma-32 factor [Agrobacterium tumefaciens str. C58] Length = 300 Score = 327 bits (840), Expect = 9e-88, Method: Composition-based stats. Identities = 214/292 (73%), Positives = 244/292 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++ I GE GL+RY+ EIRK PMLE QEEY+L KRY EHGD AAH+LVTSHLRL Sbjct: 1 MARNSLPTITAGEAGLNRYLDEIRKFPMLEPQEEYMLGKRYAEHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPEHVKEIATKLQVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I +S+ S QWQDWLV DH+ QE VLIE++E + RR ML ++M VLN RER Sbjct: 181 HGDASLNAPIKASEGESGQWQDWLVDDHESQEAVLIEQDELETRRRMLAKAMGVLNERER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 RIFEARRL E+PVTLE LSSEF++SRERVRQIE RAF+KVQE++QK+ ++ Sbjct: 241 RIFEARRLAEDPVTLEELSSEFDISRERVRQIEVRAFEKVQEAVQKEALEAA 292 >gi|15966479|ref|NP_386832.1| RNA polymerase factor sigma-32 [Sinorhizobium meliloti 1021] gi|307300484|ref|ZP_07580264.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] gi|307318349|ref|ZP_07597784.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|15075750|emb|CAC47305.1| RNA polymerase sigma factor (Sigma-32) [Sinorhizobium meliloti 1021] gi|306896031|gb|EFN26782.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|306904650|gb|EFN35234.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] Length = 301 Score = 327 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 207/293 (70%), Positives = 246/293 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEEEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV DHD QEQ+LIE++E ++RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDDHDNQEQILIEQDELESRRALLANAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 RIFEARRL E P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K +S Sbjct: 241 RIFEARRLTEEPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRKAALERAS 293 >gi|10129883|dbj|BAB13517.1| sigma factor [Sinorhizobium meliloti] Length = 301 Score = 327 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 206/293 (70%), Positives = 246/293 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE +V+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEEKVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV DHD QEQ+LIE++E ++RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDDHDNQEQILIEQDELESRRGLLANAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 RIFEARRL E P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K +S Sbjct: 241 RIFEARRLTEEPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRKAALERAS 293 >gi|150397812|ref|YP_001328279.1| RNA polymerase factor sigma-32 [Sinorhizobium medicae WSM419] gi|150029327|gb|ABR61444.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium medicae WSM419] Length = 301 Score = 327 bits (838), Expect = 1e-87, Method: Composition-based stats. Identities = 205/286 (71%), Positives = 244/286 (85%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D AAH+LVTSHLRL Sbjct: 1 MARNTLPTIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV ++D QEQ+LIE++E NRR +L ++ VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDENDNQEQILIEQDELDNRRALLANALKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL E+P+TLE+LS+EF++SRERVRQIE RAF+KVQE+++K Sbjct: 241 RIFEARRLTEDPITLEDLSTEFDISRERVRQIEVRAFEKVQEAVRK 286 >gi|227823295|ref|YP_002827267.1| RNA polymerase factor sigma-32 [Sinorhizobium fredii NGR234] gi|227342296|gb|ACP26514.1| RNA polymerase sigma factor, sigma-70 family [Sinorhizobium fredii NGR234] Length = 301 Score = 325 bits (834), Expect = 5e-87, Method: Composition-based stats. Identities = 206/286 (72%), Positives = 243/286 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY+EH D SAAH+LVTSHLRL Sbjct: 1 MARSTLPSIAAGEGGLNRYLDEIRKFPMLEPQEEYMLAKRYQEHDDRSAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P+RGFRLATY+MWWIKAA+QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVMSEGNVGLMQAVKKFEPDRGFRLATYAMWWIKAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA L VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQALDEGDLKPEQVKEIATTLKVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ +S QWQDWLV +HD QE++LIE++E +RR +L +M VLN RER Sbjct: 181 SGDASLNAPIKASEGDSGQWQDWLVDEHDNQEEILIEQDELDSRRALLASAMKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL E PVTLE LS+EF++SRERVRQIE RAF+KVQE+++K Sbjct: 241 RIFEARRLTEEPVTLEELSTEFDISRERVRQIEVRAFEKVQEAVRK 286 >gi|222086841|ref|YP_002545375.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] gi|221724289|gb|ACM27445.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] Length = 302 Score = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 216/288 (75%), Positives = 242/288 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R + I GE GL+RY+ EIRK PMLE QEEY+LAKRY EH D AAHRLVTSHLRL Sbjct: 1 MARNTLPSIAAGEAGLNRYLDEIRKFPMLEPQEEYMLAKRYAEHADREAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLRRLKG +QAI + +LKPE V IA KL VSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRRLKGRIQAIDEGDLKPEHVSEIATKLKVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ S QWQDWLV DH+ QE VLIE++E RR ML R+MSVLN RER Sbjct: 181 SGDASLNAPIKASEGESGQWQDWLVDDHESQEAVLIEQDELDTRRRMLARAMSVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE+LSSEF++SRERVRQIE RAF+KVQE++QK Sbjct: 241 RIFEARRLSEDPVTLEDLSSEFDISRERVRQIEVRAFEKVQEAVQKDA 288 >gi|163758761|ref|ZP_02165848.1| RNA polymerase sigma factor [Hoeflea phototrophica DFL-43] gi|162284051|gb|EDQ34335.1| RNA polymerase sigma factor [Hoeflea phototrophica DFL-43] Length = 300 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 197/292 (67%), Positives = 244/292 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + ++ I GE GL+RY+ EIR+ PMLE QEEY+LAKR+ +H D AAH+LVTSHLRL Sbjct: 1 MAQTSLPTISAGENGLNRYLAEIRRFPMLEPQEEYMLAKRFLQHEDTKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKFDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L+P+QV IA KLNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKVKSKIQAVEDGDLRPDQVAEIATKLNVSEEEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA I +S+ S QWQDWLV + D QE +L+E++E ++RR ML ++ VLN RE+ Sbjct: 181 SGDASLNAPIKASEGESGQWQDWLVDESDSQEDMLVEQDELESRRAMLKSALEVLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSS 292 RIFEARRL+++P+TLE+LS EF++SRERVRQIE RAF+KVQ+++QK S Sbjct: 241 RIFEARRLRDDPITLEDLSGEFDISRERVRQIEVRAFEKVQDAVQKAAAASD 292 >gi|254473077|ref|ZP_05086475.1| alternative sigma factor RpoH [Pseudovibrio sp. JE062] gi|211957798|gb|EEA93000.1| alternative sigma factor RpoH [Pseudovibrio sp. JE062] Length = 297 Score = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 195/290 (67%), Positives = 238/290 (82%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ + GE GLSRY+ EIRK PML+ QEEY+LAKRYREH + AA +LV SHLRLV K Sbjct: 3 RNLPALTGGEGGLSRYLDEIRKFPMLQPQEEYMLAKRYREHDEPKAAEKLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLP+ EV+SEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILR+WSL Sbjct: 63 IAMGYRGYGLPLGEVISEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRTWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRR+KG +QA D +L+PEQV IA L V+E+EV+SMN RL GD Sbjct: 123 VKMGTTANQKRLFFNLRRVKGKIQAFEDGDLRPEQVQQIATTLGVTENEVVSMNRRLGGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA + SS+ SS+WQDWLV D + QE VL E+EE RR+ML +MSVLN RE RIF Sbjct: 183 SSLNAPLRSSEGESSEWQDWLVDDSESQEAVLAEQEEYDVRRDMLKNAMSVLNERETRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSS 293 EARRL ENP+TLE LS+EF VSRERVRQIE RAF+KVQ+++Q+ ++ Sbjct: 243 EARRLSENPITLEELSTEFGVSRERVRQIEVRAFEKVQKAVQESAMAMAA 292 >gi|328542558|ref|YP_004302667.1| RNA polymerase sigma factor [polymorphum gilvum SL003B-26A1] gi|326412304|gb|ADZ69367.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1] Length = 296 Score = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 193/293 (65%), Positives = 238/293 (81%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ ++ GE GLSRY+ EIR+ PMLE QEEY+LAKRY+EH D +AA RLV SHLRLV K Sbjct: 3 QNVPMLTAGEGGLSRYLDEIRRFPMLEPQEEYMLAKRYKEHDDPAAAERLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLP+ EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPLGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRRLKG +QA+ + +LKPEQV IA KL V E +V+SMN RLAGD Sbjct: 123 VKMGTTANQKRLFFNLRRLKGRIQALEEGDLKPEQVQEIATKLGVPEEDVVSMNRRLAGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ +S +WQDWLV + + QE +L +EE RR +L +M +L RERRIF Sbjct: 183 ASLNAPIRAAEADSGEWQDWLVDESESQETLLANQEELDIRRKLLGDAMDILTERERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 EARRL E+P+TLE LS+EF VSRERVRQIE RAF+K+Q++++K P L Sbjct: 243 EARRLAEDPITLEELSTEFGVSRERVRQIEVRAFEKIQKAVRKSARDLEQPSL 295 >gi|110635485|ref|YP_675693.1| RNA polymerase factor sigma-32 [Mesorhizobium sp. BNC1] gi|110286469|gb|ABG64528.1| RNA polymerase, sigma 32 subunit, RpoH [Chelativorans sp. BNC1] Length = 308 Score = 321 bits (824), Expect = 6e-86, Method: Composition-based stats. Identities = 200/297 (67%), Positives = 248/297 (83%), Gaps = 4/297 (1%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + + IV+GE GL+RY+ EIR+ PML+ +EEY+LAKRYREH D AAH+LVTSHLRLV K Sbjct: 3 QTLPSIVSGEGGLTRYLEEIRRFPMLQPEEEYMLAKRYREHDDTDAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ + +L PEQV IA +LNVSE EVISMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDEGDLNPEQVSEIATRLNVSEEEVISMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ S +WQDWLV +H+ QE++L+E++E ++RR ML +M VLN RERRIF Sbjct: 183 ASLNAPIRATEGESGEWQDWLVDEHENQEEMLVEQDELESRRRMLEDAMDVLNDRERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI----QKQVELSSSPPL 296 EARRL + P+TLE LS EF++SRERVRQIE RAF+KVQE++ ++Q + S PL Sbjct: 243 EARRLSDEPMTLEELSGEFDISRERVRQIEVRAFEKVQEAVKASAKRQAQALRSAPL 299 >gi|153008567|ref|YP_001369782.1| RNA polymerase factor sigma-32 [Ochrobactrum anthropi ATCC 49188] gi|151560455|gb|ABS13953.1| RNA polymerase, sigma 32 subunit, RpoH [Ochrobactrum anthropi ATCC 49188] Length = 303 Score = 321 bits (824), Expect = 7e-86, Method: Composition-based stats. Identities = 194/278 (69%), Positives = 234/278 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAHRLVTSHLRL Sbjct: 1 MAQMNLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHTDPKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KL VSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLKVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D QEQVLIE++E +NRR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSSSQEQVLIEQDELENRRSMLEQAMDTLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL ++P+TLE+LSSEF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLSDDPMTLEDLSSEFGISRERVRQIEVRAFE 278 >gi|298292657|ref|YP_003694596.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] gi|296929168|gb|ADH89977.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] Length = 303 Score = 320 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 189/299 (63%), Positives = 237/299 (79%), Gaps = 1/299 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R MS+ + E GLSRY+ EIR+ PMLE QEEY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARSAMSLP-SAEGGLSRYLAEIRRFPMLEPQEEYMLAKRWREHEDPEAAHKLVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEV+SEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPISEVISEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A+ D +L+P+QV IA KL V+E EV+ MN RL Sbjct: 120 WSLVKMGTTAAQKKLFFNLRKAKSQISALEDGDLRPDQVQQIATKLGVTEQEVVDMNRRL 179 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + + +WQDWL D D QE L + EE NRR+ L ++SVLN RER Sbjct: 180 SGDASLNAPLRGDVEGGGEWQDWLADDRDDQETTLADLEETDNRRSALAGALSVLNERER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQK 299 RIFEARRL ++P+TLE+L+SEF VSRERVRQIE RAF+KVQ+++ +V + P+ ++ Sbjct: 240 RIFEARRLSDDPMTLEDLASEFGVSRERVRQIEVRAFEKVQKAVIDRVHAMETAPMRRE 298 >gi|239832766|ref|ZP_04681095.1| alternative sigma factor RpoH [Ochrobactrum intermedium LMG 3301] gi|239825033|gb|EEQ96601.1| alternative sigma factor RpoH [Ochrobactrum intermedium LMG 3301] Length = 303 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 193/278 (69%), Positives = 234/278 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMNLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHTDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D QEQ+LIE++E NRR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSSSQEQILIEQDELDNRRSMLEQAMDTLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL ++P+TLE+LSSEF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLSDDPMTLEDLSSEFSISRERVRQIEVRAFE 278 >gi|319781136|ref|YP_004140612.1| RNA polymerase sigma factor RpoH [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317167024|gb|ADV10562.1| RNA polymerase sigma factor RpoH [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 303 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 200/283 (70%), Positives = 248/283 (87%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +++ IV+GE GLSRY+ EIR+ PML+ QEEY+LAKRY EH D SAAH+LVTSHLRLV K Sbjct: 3 QSLPSIVSGEGGLSRYLEEIRRFPMLQPQEEYMLAKRYAEHEDTSAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKA++QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKASIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ D +LKP+Q+ IA +LNVSE+EV+SMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDDGDLKPDQIAEIATRLNVSEAEVVSMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +S+ S +WQDWLV DH+ QE++LIE++E +NRR ML+ +++VLN RERRIF Sbjct: 183 ASLNAPIRASEGESGEWQDWLVDDHESQEEMLIEQDELENRRGMLSGALAVLNERERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 EARRL E P+TLE LSSEF++SRERVRQIE RAF+KVQ++++ Sbjct: 243 EARRLAEEPLTLEELSSEFDISRERVRQIEVRAFEKVQDAVKA 285 >gi|13473215|ref|NP_104782.1| RNA polymerase factor sigma-32 [Mesorhizobium loti MAFF303099] gi|14023963|dbj|BAB50568.1| sigma factor [Mesorhizobium loti MAFF303099] Length = 303 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 197/283 (69%), Positives = 248/283 (87%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +++ IV+GE GLSRY+ EIR+ PML+ QEEY+LAKRY EH D SAAH+LVTSHLRLV K Sbjct: 3 QSLPSIVSGEGGLSRYLEEIRRFPMLQPQEEYMLAKRYAEHEDTSAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKA++QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKASIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ D +LKP+Q+ IA +LNV+E+EV+SMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDDGDLKPDQIAEIATRLNVTEAEVVSMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ S +WQDWLV DH+ QE++LIE++E +NRR ML+ +++VLN RERRIF Sbjct: 183 ASLNAPIRATEGESGEWQDWLVDDHESQEEMLIEQDELENRRGMLSGALAVLNERERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 EARRL E P+TLE LS+EF++SRERVRQIE RAF+KVQ++++ Sbjct: 243 EARRLAEEPLTLEELSAEFDISRERVRQIEVRAFEKVQDAVKA 285 >gi|118588309|ref|ZP_01545718.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] gi|118439015|gb|EAV45647.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] Length = 294 Score = 319 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 195/291 (67%), Positives = 233/291 (80%), Gaps = 1/291 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ + GE GLSRY+ EIRK PML+ QEEY+LAKRY+EH D AA RLV SHLRLV K Sbjct: 3 QNVPTLTAGEGGLSRYLDEIRKFPMLQPQEEYMLAKRYKEHEDPEAAERLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRRLKG +QA+ + +LKP QV IA KL VSE EV+SMN RL GD Sbjct: 123 VKMGTTANQKRLFFNLRRLKGKIQALDEGDLKPHQVSEIATKLGVSEEEVVSMNRRLGGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA + ++ ++ +WQDWLV + D QE +L +EE RR ML +M VLN RERRIF Sbjct: 183 ASLNAPVR-AEADAGEWQDWLVDESDSQETLLANQEELDMRRKMLNDAMDVLNERERRIF 241 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 EARRL E+P+TLE+LS EF VSRERVRQIE RAF+KVQ++++ P Sbjct: 242 EARRLSEDPMTLEDLSGEFGVSRERVRQIEVRAFEKVQKAVRNSARTMDQP 292 >gi|260461535|ref|ZP_05809782.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] gi|259032605|gb|EEW33869.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] Length = 303 Score = 319 bits (818), Expect = 3e-85, Method: Composition-based stats. Identities = 198/283 (69%), Positives = 248/283 (87%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +++ IV+GE GLSRY+ EIR+ PML+ QEEY+LAKRY EH D SAAH+LVTSHLRLV K Sbjct: 3 QSLPSIVSGEGGLSRYLEEIRRFPMLQPQEEYMLAKRYAEHEDTSAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PERGFRLATY+MWWIKA++QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWWIKASIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR++KG +QA+ D +LKP+Q+ IA +LNVSE+EV+SMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKVKGKIQALDDGDLKPDQIAEIATRLNVSEAEVVSMNRRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ S +WQDWLV DH+ QE++LIE++E +NRR ML+ +++VLN RERRIF Sbjct: 183 ASLNAPIRATEGESGEWQDWLVDDHESQEEMLIEQDELENRRGMLSGALAVLNDRERRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 EARRL E P+TLE LS+EF++SRERVRQIE RAF+KVQ++++ Sbjct: 243 EARRLAEEPLTLEELSAEFDISRERVRQIEVRAFEKVQDAVKA 285 >gi|158425877|ref|YP_001527169.1| RNA polymerase factor sigma-32 [Azorhizobium caulinodans ORS 571] gi|158332766|dbj|BAF90251.1| sigma-70 factor [Azorhizobium caulinodans ORS 571] Length = 300 Score = 318 bits (816), Expect = 5e-85, Method: Composition-based stats. Identities = 185/288 (64%), Positives = 230/288 (79%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + I + E GL+RY+ EIR+ PMLE QEEY+LAK +REHGD AAH+LVTSHLRL Sbjct: 1 MAGSRQAPIPSAEGGLTRYLEEIRRFPMLEPQEEYMLAKSWREHGDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEV+SEGN+GLMQAVK+F+PE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVISEGNVGLMQAVKRFEPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A+ + +L+P+QV IA KL V+E +V+ MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRKAKSQISALEEGDLRPDQVKQIATKLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +WQDWL DH QE L+E EE NRR L+ +++VLNPRER Sbjct: 181 SGDASLNAPLREDGDGGGEWQDWLQDDHQDQETNLVESEELDNRRTALSSALAVLNPRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+PVTLE L++EF VSRERVRQIE RAF+KVQ+++ +V Sbjct: 241 RIFEARRLSEDPVTLEELAAEFGVSRERVRQIEVRAFEKVQKAVVDKV 288 >gi|49475181|ref|YP_033222.1| RNA polymerase factor sigma-32 [Bartonella henselae str. Houston-1] gi|49237986|emb|CAF27191.1| RNA polymerase sigma-32 factor [Bartonella henselae str. Houston-1] Length = 294 Score = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 188/286 (65%), Positives = 236/286 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + G+ GLSRY+ E+R+ PMLE QEEY+LA+RYR+H DL AAH+LVTSHLRL Sbjct: 1 MAHMNLLSVTTGDGGLSRYLEEVRRFPMLEPQEEYMLAQRYRKHNDLKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGN+GLM+AVK+F+PERGFRLATY++WWIKA++QEY+LRS Sbjct: 61 VAKIAVGYRGYGLPIGEVISEGNVGLMKAVKRFEPERGFRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ + +L EQV IA +LNV+E EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKSRLQALDNGDLNAEQVKEIAIQLNVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+WQDWLV D + QEQ LIE+ E +NRR+MLT ++ LN RE+ Sbjct: 181 GGDTSLNAPLRTKEGENSEWQDWLVDDSNNQEQTLIEQNELENRRSMLTNALDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIF+ARRL + P+TLE LSSEF +SRERVRQIE RAF+K+Q SI+ Sbjct: 241 RIFKARRLSDIPLTLEELSSEFNISRERVRQIEMRAFEKIQNSIKA 286 >gi|27382448|ref|NP_773977.1| RNA polymerase factor sigma-32 [Bradyrhizobium japonicum USDA 110] gi|1834373|emb|CAA70697.1| rpoH2 [Bradyrhizobium japonicum] gi|27355619|dbj|BAC52602.1| sigma32-like transcription factor [Bradyrhizobium japonicum USDA 110] Length = 299 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 188/285 (65%), Positives = 232/285 (81%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE Q+EY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARTAALPVLNGESGLSRYLAEIRKFPMLEPQQEYMLAKRWREHDDRDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L+P+QV IAK+L V++ +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKINALDEGDLRPDQVATIAKRLGVTDQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV + QE ++ E EE +RR+ L +M VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEAGEWQDWLVDNTPNQEAMMAEHEEYDHRRDALNGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVK 284 >gi|307944600|ref|ZP_07659940.1| alternative sigma factor RpoH [Roseibium sp. TrichSKD4] gi|307772349|gb|EFO31570.1| alternative sigma factor RpoH [Roseibium sp. TrichSKD4] Length = 294 Score = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 191/291 (65%), Positives = 235/291 (80%), Gaps = 1/291 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ ++ GE GLSRY+ EIRK P+L+ QEEY+LAKRY+EH D AA RLV SHLRLV K Sbjct: 3 QNVPMLTAGEGGLSRYLDEIRKFPLLQPQEEYMLAKRYKEHADPEAAERLVNSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLPI EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSL Sbjct: 63 IAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLRRLKG +QA+ + +LKP QV IA KL VSE EVISMN RL GD Sbjct: 123 VKMGTTANQKRLFFNLRRLKGKIQALEEGDLKPHQVQEIATKLGVSEEEVISMNRRLGGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLN+ + ++ ++ +WQDWLV + D QE +L +EE RR +L+++M LN RERRIF Sbjct: 183 TSLNSPVR-AEADAGEWQDWLVDEADSQETLLANQEELDQRRELLSQAMDELNERERRIF 241 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ARRL E+P+TLE+LS+EF VSRERVRQIE RAF+KVQ++++ P Sbjct: 242 TARRLSEDPITLEDLSTEFGVSRERVRQIEVRAFEKVQKAVKNSARAKELP 292 >gi|319898405|ref|YP_004158498.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] gi|319402369|emb|CBI75908.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] Length = 305 Score = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 187/285 (65%), Positives = 231/285 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + + GLSRY+ E+R+ P+LE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAHINLPSFIANDSGLSRYLEEVRRFPVLEPQEEYMLAKRYHEHNDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ +L EQV IA +L V+E EV+SMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKNKLQMFDSGDLNAEQVKEIATRLKVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + ++ S +WQDWLV D + QEQ+LIE++E +NR +ML ++M LN RE+ Sbjct: 181 SGDASLNAPLLTNKGESYEWQDWLVDDSNSQEQILIEQDELENRHSMLIQAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL++ P+TLE LS+EF +SRERVRQIE RAF+K+Q SI+ Sbjct: 241 RIFKARRLRDEPMTLEELSNEFNISRERVRQIEMRAFEKIQNSIK 285 >gi|209886261|ref|YP_002290118.1| alternative sigma factor RpoH [Oligotropha carboxidovorans OM5] gi|209874457|gb|ACI94253.1| alternative sigma factor RpoH [Oligotropha carboxidovorans OM5] Length = 299 Score = 315 bits (809), Expect = 3e-84, Method: Composition-based stats. Identities = 193/288 (67%), Positives = 229/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R I+NGE GLS Y+ EIRK PMLE QEEY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARTATLPILNGESGLSHYLAEIRKFPMLEPQEEYMLAKRWREHDDRDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ D ++ +QV IAK+L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALEDGDMHEDQVKLIAKRLGVTERDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE ++ E EE +RRN LT +M VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDTSPNQETIMAESEEYDHRRNALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ V Sbjct: 240 RIFEARRLAEEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQAAVKSTV 287 >gi|114707401|ref|ZP_01440298.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] gi|114537282|gb|EAU40409.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] Length = 304 Score = 315 bits (809), Expect = 3e-84, Method: Composition-based stats. Identities = 192/288 (66%), Positives = 240/288 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +GE GL+RY+ EIR+ PML+ EEY+LAKRY EH D +AAH+LVTSHLRL Sbjct: 1 MAQMNLPSIASGEGGLNRYLEEIRRFPMLQPDEEYMLAKRYAEHDDRNAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVK+FDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA +L VS+ EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSRIQALEDGDLNPDQVKQIATQLGVSDDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLN+ + +++ S +WQDWLV +++ QE VL +++E RR ML R+M +LN RER Sbjct: 181 SGDASLNSPLRATEGESGEWQDWLVDENESQEDVLAQQDELDQRRGMLKRAMGILNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E+P+TLE LS EF++SRERVRQIE RAF+KVQ+++Q+ V Sbjct: 241 RIFEARRLSEDPITLEALSGEFDISRERVRQIEVRAFEKVQKAVQENV 288 >gi|17986661|ref|NP_539295.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. 16M] gi|62290526|ref|YP_222319.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 1 str. 9-941] gi|82700442|ref|YP_415016.1| RNA polymerase factor sigma-32 [Brucella melitensis biovar Abortus 2308] gi|189024748|ref|YP_001935516.1| RNA polymerase factor sigma-32 [Brucella abortus S19] gi|225853116|ref|YP_002733349.1| RNA polymerase factor sigma-32 [Brucella melitensis ATCC 23457] gi|237816032|ref|ZP_04595028.1| alternative sigma factor RpoH [Brucella abortus str. 2308 A] gi|254689824|ref|ZP_05153078.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|254694316|ref|ZP_05156144.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|254697972|ref|ZP_05159800.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|254730858|ref|ZP_05189436.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|256045266|ref|ZP_05448160.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|256114225|ref|ZP_05454970.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|256258077|ref|ZP_05463613.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|256263396|ref|ZP_05465928.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|260547226|ref|ZP_05822964.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|260565841|ref|ZP_05836324.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260755355|ref|ZP_05867703.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260758577|ref|ZP_05870925.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260762409|ref|ZP_05874746.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260884371|ref|ZP_05895985.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|261214622|ref|ZP_05928903.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|265991691|ref|ZP_06104248.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|265995528|ref|ZP_06108085.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|297248928|ref|ZP_06932636.1| alternative sigma factor RpoH [Brucella abortus bv. 5 str. B3196] gi|17982279|gb|AAL51559.1| RNA polymerase sigma-32 factor [Brucella melitensis bv. 1 str. 16M] gi|62196658|gb|AAX74958.1| RNA polymerase sigma-70 factor family protein [Brucella abortus bv. 1 str. 9-941] gi|82616543|emb|CAJ11621.1| Sigma-70 factor family:Sigma-70 region 2:Sigma-70 region 4 [Brucella melitensis biovar Abortus 2308] gi|189020320|gb|ACD73042.1| Sigma-70 factor family [Brucella abortus S19] gi|225641481|gb|ACO01395.1| alternative sigma factor RpoH [Brucella melitensis ATCC 23457] gi|237788695|gb|EEP62907.1| alternative sigma factor RpoH [Brucella abortus str. 2308 A] gi|260095591|gb|EEW79469.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|260151214|gb|EEW86309.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260668895|gb|EEX55835.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260672835|gb|EEX59656.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260675463|gb|EEX62284.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260873899|gb|EEX80968.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|260916229|gb|EEX83090.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|262766812|gb|EEZ12430.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|263002647|gb|EEZ15050.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|263093393|gb|EEZ17462.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|297174061|gb|EFH33418.1| alternative sigma factor RpoH [Brucella abortus bv. 5 str. B3196] gi|326409662|gb|ADZ66727.1| Sigma-70 factor family [Brucella melitensis M28] gi|326539369|gb|ADZ87584.1| alternative sigma factor RpoH [Brucella melitensis M5-90] Length = 303 Score = 315 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 191/278 (68%), Positives = 232/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 IFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 HIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|306844673|ref|ZP_07477258.1| alternative sigma factor RpoH [Brucella sp. BO1] gi|306274845|gb|EFM56615.1| alternative sigma factor RpoH [Brucella sp. BO1] Length = 303 Score = 315 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 193/278 (69%), Positives = 234/278 (84%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LSSEF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSSEFGISRERVRQIEVRAFE 278 >gi|254719685|ref|ZP_05181496.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|265984700|ref|ZP_06097435.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|306840038|ref|ZP_07472825.1| alternative sigma factor RpoH [Brucella sp. NF 2653] gi|264663292|gb|EEZ33553.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|306404852|gb|EFM61144.1| alternative sigma factor RpoH [Brucella sp. NF 2653] Length = 303 Score = 315 bits (808), Expect = 4e-84, Method: Composition-based stats. Identities = 192/278 (69%), Positives = 233/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|23502510|ref|NP_698637.1| RNA polymerase factor sigma-32 [Brucella suis 1330] gi|161619585|ref|YP_001593472.1| RNA polymerase factor sigma-32 [Brucella canis ATCC 23365] gi|163845234|ref|YP_001622889.1| RNA polymerase factor sigma-32 [Brucella suis ATCC 23445] gi|225628222|ref|ZP_03786256.1| alternative sigma factor RpoH [Brucella ceti str. Cudo] gi|254708479|ref|ZP_05170307.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|254708670|ref|ZP_05170481.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|254714517|ref|ZP_05176328.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|254717415|ref|ZP_05179226.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|256030196|ref|ZP_05443810.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|256061694|ref|ZP_05451831.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|256160370|ref|ZP_05458060.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|256255578|ref|ZP_05461114.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260167873|ref|ZP_05754684.1| RNA polymerase factor sigma-32 [Brucella sp. F5/99] gi|260568745|ref|ZP_05839213.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|261219245|ref|ZP_05933526.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261222781|ref|ZP_05937062.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|261315977|ref|ZP_05955174.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261316160|ref|ZP_05955357.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261322306|ref|ZP_05961503.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261325699|ref|ZP_05964896.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261757310|ref|ZP_06001019.1| sigma-70 factor family [Brucella sp. F5/99] gi|265987224|ref|ZP_06099781.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|265998739|ref|ZP_06111296.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|23348506|gb|AAN30552.1| RNA polymerase sigma-70 factor family protein [Brucella suis 1330] gi|161336396|gb|ABX62701.1| alternative sigma factor RpoH [Brucella canis ATCC 23365] gi|163675957|gb|ABY40067.1| alternative sigma factor RpoH [Brucella suis ATCC 23445] gi|225616068|gb|EEH13116.1| alternative sigma factor RpoH [Brucella ceti str. Cudo] gi|260154129|gb|EEW89211.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|260921365|gb|EEX88018.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260924334|gb|EEX90902.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261294996|gb|EEX98492.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261295383|gb|EEX98879.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261301679|gb|EEY05176.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261305003|gb|EEY08500.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261737294|gb|EEY25290.1| sigma-70 factor family [Brucella sp. F5/99] gi|262553428|gb|EEZ09197.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|264659421|gb|EEZ29682.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] Length = 303 Score = 315 bits (808), Expect = 4e-84, Method: Composition-based stats. Identities = 192/278 (69%), Positives = 233/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|115522843|ref|YP_779754.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisA53] gi|115516790|gb|ABJ04774.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris BisA53] Length = 299 Score = 315 bits (808), Expect = 5e-84, Method: Composition-based stats. Identities = 186/285 (65%), Positives = 227/285 (79%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE Q+EY+LAKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLSRYLAEIRKFPMLEPQQEYMLAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IA +L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIATRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE +RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDHSPSQEAVMAEHEELDHRRAALNGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL ++P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADDPMTLEDLAAEFGVSRERVRQIEVRAFEKVQAAVK 284 >gi|306841398|ref|ZP_07474101.1| alternative sigma factor RpoH [Brucella sp. BO2] gi|306288583|gb|EFM59932.1| alternative sigma factor RpoH [Brucella sp. BO2] Length = 303 Score = 315 bits (808), Expect = 5e-84, Method: Composition-based stats. Identities = 192/278 (69%), Positives = 233/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|299134310|ref|ZP_07027503.1| RNA polymerase, sigma 32 subunit, RpoH [Afipia sp. 1NLS2] gi|298591057|gb|EFI51259.1| RNA polymerase, sigma 32 subunit, RpoH [Afipia sp. 1NLS2] Length = 299 Score = 315 bits (807), Expect = 6e-84, Method: Composition-based stats. Identities = 192/288 (66%), Positives = 230/288 (79%), Gaps = 1/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLS Y+ EIRK PMLE QEEY+LAKR+REH D AAHRLVTSHLRL Sbjct: 1 MARTATLPVLNGESGLSHYLAEIRKFPMLEPQEEYMLAKRWREHDDRDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +++ +QV IAK+L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALEEGDMREDQVKLIAKRLGVTERDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE ++ E EE +RRN LT +M VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDTSPNQEAIMAESEEYDHRRNALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RIFEARRL E P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ V Sbjct: 240 RIFEARRLAEEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQAAVKSTV 287 >gi|316931591|ref|YP_004106573.1| RNA polymerase sigma 32 subunit RpoH [Rhodopseudomonas palustris DX-1] gi|315599305|gb|ADU41840.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris DX-1] Length = 299 Score = 315 bits (807), Expect = 6e-84, Method: Composition-based stats. Identities = 186/285 (65%), Positives = 226/285 (79%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE ++EY+LAKR+REHGD AAH+LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLARYLAEIRKFPMLEPEQEYMLAKRWREHGDRDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L P+ V IA +L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDLHPDHVKLIASRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE VL E EE RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDQSPSQEAVLAEHEELDQRRAALNGAIQVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVK 284 >gi|146338455|ref|YP_001203503.1| RNA polymerase factor sigma-32 [Bradyrhizobium sp. ORS278] gi|146191261|emb|CAL75266.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Bradyrhizobium sp. ORS278] Length = 299 Score = 314 bits (804), Expect = 1e-83, Method: Composition-based stats. Identities = 187/296 (63%), Positives = 232/296 (78%), Gaps = 1/296 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE QEEY+LAKR+REH D AAH+LVTSHLRL Sbjct: 1 MARTATLPVLNGESGLARYLSEIRKFPMLEPQEEYMLAKRWREHDDSDAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L+P+QV IAK+L V++ +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDLRPDQVKLIAKRLGVTDQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR L ++ VLN RER Sbjct: 181 GGDASLNAPIRD-DGEAGEWQDWLVDTSPNQEAIMAEHEEYDHRRQALNGAIGVLNARER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + + L Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGAIAKQEAAAL 295 >gi|148560551|ref|YP_001259508.1| RNA polymerase factor sigma-32 [Brucella ovis ATCC 25840] gi|294850906|ref|ZP_06791582.1| alternative sigma factor RpoH [Brucella sp. NVSL 07-0026] gi|148371808|gb|ABQ61787.1| alternative sigma factor RpoH [Brucella ovis ATCC 25840] gi|294821549|gb|EFG38545.1| alternative sigma factor RpoH [Brucella sp. NVSL 07-0026] Length = 303 Score = 314 bits (804), Expect = 1e-83, Method: Composition-based stats. Identities = 191/278 (68%), Positives = 232/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGL I EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLSIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|39933444|ref|NP_945720.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris CGA009] gi|192288802|ref|YP_001989407.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris TIE-1] gi|39647290|emb|CAE25811.1| RNA polymerase sigma 32 subunit, RpoH, stress response sigma factor [Rhodopseudomonas palustris CGA009] gi|192282551|gb|ACE98931.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris TIE-1] Length = 299 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 189/285 (66%), Positives = 227/285 (79%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R I+NGE GL+RY+ EIRK PMLE Q+EY+LAKR+REHGD AAH+LVTSHLRL Sbjct: 1 MARAATLPILNGESGLARYLAEIRKFPMLEPQQEYMLAKRWREHGDRDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L P+QV IA +L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDLHPDQVKLIATRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDQSPSQEAVMAEHEELDQRRAALNGAIQVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L+SEF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLASEFGVSRERVRQIEVRAFEKVQSAVK 284 >gi|315498780|ref|YP_004087584.1| RNA polymerase, sigma 32 subunit, rpoh [Asticcacaulis excentricus CB 48] gi|315416792|gb|ADU13433.1| RNA polymerase, sigma 32 subunit, RpoH [Asticcacaulis excentricus CB 48] Length = 344 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 175/285 (61%), Positives = 221/285 (77%), Gaps = 3/285 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 +++ + GL+RY+ EIRK PML K EE++LAKR+ EH D AAH+LVTSHLRLV KIAM Sbjct: 60 PSVLSPDGGLNRYLSEIRKFPMLAKDEEFMLAKRWAEHADPKAAHKLVTSHLRLVAKIAM 119 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWIKAA+QEY+LRSWSLVK+ Sbjct: 120 GYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIKAAIQEYVLRSWSLVKM 179 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLR++K + A+ + +++ EQV IA KL VSE +VISMN R++ D S Sbjct: 180 GTTAAQKKLFFNLRKVKSEISALEEGDMRHEQVAQIATKLGVSEDDVISMNRRMSSPDSS 239 Query: 186 LNALINSSDKNSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LNA + S+ + S+WQDWL D QE VL + EE K R ++L +M LN RER I Sbjct: 240 LNAPLRVSEGD-SEWQDWLADDSTPSQETVLADSEEYKLRMSLLEEAMGELNERERAILT 298 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 ARRLQENP TLE+L+ F VSRERVRQIE RAF+K+Q+++ + Sbjct: 299 ARRLQENPTTLEDLADRFGVSRERVRQIEVRAFEKLQKAMMASAQ 343 >gi|319408110|emb|CBI81763.1| RNA polymerase sigma-32 factor [Bartonella schoenbuchensis R1] Length = 308 Score = 313 bits (802), Expect = 2e-83, Method: Composition-based stats. Identities = 185/288 (64%), Positives = 235/288 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ I+ G+ GL+RY+ EIR+ PML+ +EEY+LAKRYREH D AAH+LVTSHLRL Sbjct: 1 MAHVNLPSIIAGDGGLNRYLEEIRRFPMLKPKEEYMLAKRYREHDDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ + +L EQV IA +LNV+E EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKNKLQALDNGDLNAEQVKEIATRLNVTEDEVVSMNHRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + + + ++WQDWLV D + QEQ+LIE++E +NRR+ML ++ LN RE+ Sbjct: 181 SGDTSLNAPLRTKEGEKTEWQDWLVDDSNSQEQILIEQDELENRRSMLIHAIDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 IF+ARRL + +TLE LS+ F +SRERVRQIE RAF+KV+ SI+ + Sbjct: 241 HIFKARRLSDESLTLEELSNTFNISRERVRQIEMRAFEKVRNSIKAAI 288 >gi|90418989|ref|ZP_01226900.1| sigma factor [Aurantimonas manganoxydans SI85-9A1] gi|90337069|gb|EAS50774.1| sigma factor [Aurantimonas manganoxydans SI85-9A1] Length = 303 Score = 312 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 194/285 (68%), Positives = 235/285 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + N+ I +GE GLSRY+ EIR+ PMLE QEEY+LAKRY EH D AAHRLVTSHLRL Sbjct: 1 MAQANLPSISSGEAGLSRYLEEIRRFPMLEPQEEYMLAKRYAEHDDRDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EVVSEGN+GLMQAVK+FDPERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ + +L+P+QV IA L VS+ EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSRIQALDEGDLRPDQVSQIATNLGVSDEEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +++ S +WQDWLV D + QE +L +E RR ML ++M VLN RER Sbjct: 181 SGDASLNAPLRATEGESGEWQDWLVDDSETQEDLLARNDELDQRRGMLQQAMGVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL E+P+TLE LS EFE+SRERVRQIE RAF+KVQ++++ Sbjct: 241 RIFEARRLAEDPLTLETLSGEFEISRERVRQIEVRAFEKVQKAVR 285 >gi|148257972|ref|YP_001242557.1| RNA polymerase factor sigma-32 [Bradyrhizobium sp. BTAi1] gi|146410145|gb|ABQ38651.1| RNA polymerase, sigma 32 subunit, RpoH [Bradyrhizobium sp. BTAi1] Length = 299 Score = 312 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 185/296 (62%), Positives = 230/296 (77%), Gaps = 1/296 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE QEEY+LAKR+REH D AA +LVTSHLRL Sbjct: 1 MARTATLPVLNGESGLARYLAEIRKFPMLEPQEEYMLAKRWREHDDSDAAQKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +L P+QV IAK+L V++ +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSRISALDEGDLHPDQVKLIAKRLGVTDQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR L ++ VLN RER Sbjct: 181 GGDASLNAPIRD-DGEAGEWQDWLVDTSPNQEAIMAEHEEYDHRRQALNGAIGVLNARER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPL 296 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ + + L Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVKGAIAKQEAAAL 295 >gi|254703436|ref|ZP_05165264.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261754065|ref|ZP_05997774.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261743818|gb|EEY31744.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] Length = 300 Score = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 191/273 (69%), Positives = 231/273 (84%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRLV KIA Sbjct: 3 LPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRLVAKIA 62 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 MGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRSWSLVK Sbjct: 63 MGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRSWSLVK 122 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 +GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL+GD S Sbjct: 123 MGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRLSGDAS 182 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RERRIFEA Sbjct: 183 LNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRERRIFEA 242 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 243 RRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 275 >gi|86747581|ref|YP_484077.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris HaA2] gi|86570609|gb|ABD05166.1| sigma 32 (RpoH) [Rhodopseudomonas palustris HaA2] Length = 299 Score = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 185/285 (64%), Positives = 226/285 (79%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE Q+EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLARYLAEIRKFPMLEPQQEYMFAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IAK+L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIAKRLGVTEQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE +RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDQSPNQEAVMAEHEELDHRRAALNGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVK 284 >gi|256370062|ref|YP_003107573.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] gi|256000225|gb|ACU48624.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] Length = 303 Score = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 191/278 (68%), Positives = 232/278 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQD LV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDRLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFK 278 RIFEARRL E P+TLE+LS EF +SRERVRQIE RAF+ Sbjct: 241 RIFEARRLAEEPMTLEDLSGEFGISRERVRQIEVRAFE 278 >gi|90422128|ref|YP_530498.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisB18] gi|90104142|gb|ABD86179.1| sigma 32 (RpoH) [Rhodopseudomonas palustris BisB18] Length = 299 Score = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 186/285 (65%), Positives = 227/285 (79%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE Q+EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLSRYLAEIRKFPMLEPQQEYMFAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IAK+L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIAKRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE ++ E EE +RR LT ++ VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDHSPNQEAIMAEHEELDHRRAALTGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVK 284 >gi|312114652|ref|YP_004012248.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodomicrobium vannielii ATCC 17100] gi|311219781|gb|ADP71149.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodomicrobium vannielii ATCC 17100] Length = 308 Score = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 180/286 (62%), Positives = 223/286 (77%), Gaps = 1/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 V GL+RY+ EIR+ PMLE Q+EY+LAKR++EH D AA +LVTSHLRLV +IAMGY Sbjct: 6 SVAASGGLARYLEEIRRFPMLEPQQEYMLAKRWQEHEDAKAAQKLVTSHLRLVARIAMGY 65 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EV+SEGN+GLMQAVK+FDP++GFRLATY+MWWI+AA+QEYILRSWSLVK+GT Sbjct: 66 RGYGLPIGEVISEGNVGLMQAVKRFDPDKGFRLATYAMWWIRAAIQEYILRSWSLVKMGT 125 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TA+QK+LFFNLR+ K LQA+ + +L+P+QV IA L V E +V+SMN RL GD SLNA Sbjct: 126 TASQKKLFFNLRKAKSQLQALEEGDLRPDQVKTIATNLGVPEEDVVSMNRRLGGDASLNA 185 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + +D S +WQDWLV + QE L E EE RR L +M LN RERRIF ARRL Sbjct: 186 PLR-ADSESGEWQDWLVDEGPNQETQLAESEELSRRREYLGAAMDSLNERERRIFTARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ++P+TLE LSSEF VSRER+RQIE RAF+KVQ+++QK + +P Sbjct: 245 ADDPLTLEELSSEFNVSRERIRQIEVRAFEKVQKAVQKAALKAEAP 290 >gi|91974840|ref|YP_567499.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisB5] gi|91681296|gb|ABE37598.1| RNA polymerase sigma factor RpoH [Rhodopseudomonas palustris BisB5] Length = 299 Score = 312 bits (799), Expect = 5e-83, Method: Composition-based stats. Identities = 184/285 (64%), Positives = 225/285 (78%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GL+RY+ EIRK PMLE Q+EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARAATLPVLNGESGLARYLAEIRKFPMLEPQQEYMFAKRWREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+P++GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IA +L V+E +VI MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMHPDQVKLIATRLGVTEQDVIDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D +WQDWLV QE V+ E EE +RR L ++ VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEPGEWQDWLVDQSPSQEAVMAEHEELDHRRAALNGAIGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQSAVK 284 >gi|319405171|emb|CBI78776.1| RNA polymerase sigma-32 factor [Bartonella sp. AR 15-3] Length = 305 Score = 311 bits (798), Expect = 6e-83, Method: Composition-based stats. Identities = 185/285 (64%), Positives = 232/285 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + + L+RY+ EIR+ P+LE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAHINLPSFIANDNSLNRYLEEIRRFPILEPQEEYMLAKRYHEHNDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ + +L +QV IA +L V+E EV+SMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKNKLQMLDSGDLNAQQVKEIATRLKVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + ++ S +WQDWLV D + QEQ+LIE++E +NR ++L ++M LN RE+ Sbjct: 181 SGDASLNAPLLTNKGESYEWQDWLVDDSNNQEQILIEQDELENRYSLLIQAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL++ P+TLE LS+EF +SRERVRQIEARAF+KVQ SI+ Sbjct: 241 RIFKARRLRDEPLTLEELSNEFNISRERVRQIEARAFEKVQNSIK 285 >gi|319406710|emb|CBI80343.1| RNA polymerase sigma-32 factor [Bartonella sp. 1-1C] Length = 305 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 181/285 (63%), Positives = 231/285 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + + GL+RY+ EIR+ P+LE QEEY+LAKRY E+ D AAH+LVTSHLRL Sbjct: 1 MAHINLPSFIANDNGLNRYLEEIRRFPVLEPQEEYMLAKRYHEYNDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ + + +L +QV IA +L V+E EV+SMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKNKLQMLDNGDLNAQQVKEIATRLKVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + ++ S +WQDWL+ D + QEQ LIE++E +NR ++L +M LN RE+ Sbjct: 181 NGDASLNAPLLTNKGESYEWQDWLIDDSNNQEQTLIEQDELENRYSILIHAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL+++P+TLE LS+EF +SRERVRQIEARAF+K++ I+ Sbjct: 241 RIFKARRLRDDPLTLEELSNEFNISRERVRQIEARAFEKIKNFIK 285 >gi|300023529|ref|YP_003756140.1| RNA polymerase, sigma 32 subunit, RpoH [Hyphomicrobium denitrificans ATCC 51888] gi|299525350|gb|ADJ23819.1| RNA polymerase, sigma 32 subunit, RpoH [Hyphomicrobium denitrificans ATCC 51888] Length = 296 Score = 310 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 183/293 (62%), Positives = 227/293 (77%), Gaps = 1/293 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 K + + G +GLSRY+ EIRK PML EEY+LAKR+++H D AA +LVTSHLRLV Sbjct: 3 ATKGLPTLAGGSLGLSRYLEEIRKFPMLAPNEEYMLAKRWQQHEDSDAAEKLVTSHLRLV 62 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 +IAMGYRGYGLPI EV+SEGN+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 63 ARIAMGYRGYGLPIGEVISEGNVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 122 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 SLVK+GTTA QK+LFFNLRR K LQA+ D +L+PE V AIA KL V E +V+SMN RL Sbjct: 123 SLVKMGTTAAQKKLFFNLRRAKSQLQALDDGDLRPEHVKAIATKLGVPEEDVVSMNRRLG 182 Query: 182 GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 GD SLNA I ++ S +WQDWLV D QE L+E EE + R++ L+ ++SVLN RERR Sbjct: 183 GDASLNAPIR-AESESGEWQDWLVDDTPTQEDRLVEDEELRRRKSYLSSALSVLNDRERR 241 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 +FE RRL E P TLE LS+EF VSRER+RQIE RAF+KVQ+++ + +P Sbjct: 242 VFEQRRLAEEPATLEELSAEFGVSRERIRQIEVRAFEKVQKAVTSTARRAEAP 294 >gi|49473931|ref|YP_031973.1| RNA polymerase factor sigma-32 [Bartonella quintana str. Toulouse] gi|49239434|emb|CAF25783.1| RNA polymerase sigma-32 factor [Bartonella quintana str. Toulouse] Length = 294 Score = 310 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 191/286 (66%), Positives = 234/286 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + G+ GL+RY+ E+R+ P+LE +EEY+LA+RYR+H DL AAHRLVTSHLRL Sbjct: 1 MAHINLLSVTTGDGGLNRYLEEVRRFPILEPKEEYMLAQRYRQHNDLKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERG RLATY++WWIKA++QEY+LRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGLRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ + +L EQV IA +LNV+E EVISMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKSRLQVLDKGDLNAEQVKEIATQLNVTEDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+WQDWLV D + QEQ LIE+ E +NRR+MLT +MS LN RE+ Sbjct: 181 CGDTSLNAPLRTQEGENSEWQDWLVDDSNNQEQTLIEQSELENRRSMLTYAMSNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIF+ARRL + P+TLE LSSEF +SRERVRQIE RAF+KVQ SI+ Sbjct: 241 RIFKARRLSDKPLTLEELSSEFNISRERVRQIEMRAFEKVQNSIKA 286 >gi|154245929|ref|YP_001416887.1| RNA polymerase factor sigma-32 [Xanthobacter autotrophicus Py2] gi|154160014|gb|ABS67230.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthobacter autotrophicus Py2] Length = 300 Score = 310 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 190/294 (64%), Positives = 232/294 (78%), Gaps = 1/294 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + I + E GLSRY+ EIR+ PMLE QEEY+LAK +REHGD AAHRLVTSHLRL Sbjct: 1 MAQPKSMSIPSAEGGLSRYLEEIRRFPMLEPQEEYMLAKSWREHGDRDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEV+SEGN+GLMQAVK+F+PE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVISEGNVGLMQAVKRFEPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A+ D +LKPE V IA KL V+E +V+ MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRKAKSQISALEDGDLKPEHVKQIATKLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLN+ I D +WQDWLV + QE+ L E EE NRR L+ ++SVLN RER Sbjct: 181 SGDASLNSPIR-EDSEGGEWQDWLVDERLDQEEQLAESEELDNRRAALSGALSVLNDRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 RIFEARRL E+P+TLE+L+SEF VSRERVRQIE RAF+KVQ+++ +V +P Sbjct: 240 RIFEARRLSEDPMTLEDLASEFGVSRERVRQIEVRAFEKVQKAVMDKVRQVEAP 293 >gi|319403703|emb|CBI77288.1| RNA polymerase sigma-32 factor [Bartonella rochalimae ATCC BAA-1498] Length = 305 Score = 310 bits (795), Expect = 1e-82, Method: Composition-based stats. Identities = 184/285 (64%), Positives = 231/285 (81%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + + GL+RY+ EIR+ P+LE QEEY+LAKRYRE+ D AAH+LVTSHLRL Sbjct: 1 MAHINLPSFIANDNGLNRYLEEIRRFPVLEPQEEYMLAKRYREYNDPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLR+LK LQ + + +L +QV IA +L V+E EV+SMN RL Sbjct: 121 WSLVKIGTTANQKRLFFNLRKLKNKLQMLDNGDLNAQQVKEIATRLKVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + ++ S +WQDWLV D + QEQ LIE+ E +NR ++L +M LN RE+ Sbjct: 181 NGDASLNAPLLTNKGESYEWQDWLVDDSNNQEQTLIEQNELENRYSILIHAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL+++P+TLE LS+EF +SRERVRQIEARAF+K+Q I+ Sbjct: 241 RIFKARRLRDDPLTLEELSNEFNISRERVRQIEARAFEKIQNFIK 285 >gi|163867808|ref|YP_001609012.1| RNA polymerase factor sigma-32 [Bartonella tribocorum CIP 105476] gi|161017459|emb|CAK01017.1| RNA polymerase sigma-32 factor [Bartonella tribocorum CIP 105476] Length = 294 Score = 310 bits (795), Expect = 1e-82, Method: Composition-based stats. Identities = 192/285 (67%), Positives = 235/285 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ I+ G+ GL+RY+ E+R+ PMLE +EEY+LA+RYREH DL AAHRLVTSHLRL Sbjct: 1 MAHMNLLSIITGDGGLNRYLEEVRRFPMLEPKEEYMLAQRYREHNDLKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V K+AMGYRGYGLPI EV+SEGNIGLMQAVK+F+PERGFRLATY++WWIKA++QEY+LRS Sbjct: 61 VAKVAMGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ +L EQV IA +LNV+E EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKNKLQALDSGDLNTEQVKEIATQLNVTEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+ QDWLV + + QEQ+LIEK E +NRR ML +M+ LN RER Sbjct: 181 GGDTSLNAPLRTKEGENSELQDWLVDESNNQEQILIEKSELENRRFMLVNAMNNLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL + P+TLE LSSEF +SRERVRQIE RAF+KVQ SI+ Sbjct: 241 RIFKARRLNDIPLTLEELSSEFNISRERVRQIEMRAFEKVQNSIR 285 >gi|92118359|ref|YP_578088.1| RNA polymerase factor sigma-32 [Nitrobacter hamburgensis X14] gi|91801253|gb|ABE63628.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrobacter hamburgensis X14] Length = 299 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 187/285 (65%), Positives = 227/285 (79%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R I+NGE GLSRY+ EIRK PMLE +EY+ AKR+REH D AAH LVTSHLRL Sbjct: 1 MARTATVPILNGESGLSRYLAEIRKFPMLEPHQEYMFAKRWREHDDREAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + ++ P+QV IAK+L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALEEGDMHPDQVKLIAKRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR LT +M VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEAGEWQDWLVDHSPTQEAIMAEHEELNHRRQALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLAAEFNVSRERVRQIEVRAFEKVQSAVK 284 >gi|75676615|ref|YP_319036.1| RNA polymerase factor sigma-32 [Nitrobacter winogradskyi Nb-255] gi|74421485|gb|ABA05684.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrobacter winogradskyi Nb-255] Length = 299 Score = 309 bits (791), Expect = 4e-82, Method: Composition-based stats. Identities = 187/285 (65%), Positives = 227/285 (79%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M R ++NGE GLSRY+ EIRK PMLE EEY+ AKR REH D AAH LVTSHLRL Sbjct: 1 MARTATLPVLNGENGLSRYLSEIRKFPMLEPHEEYMFAKRLREHDDRDAAHHLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQK+LFFNLR+ K + A+ + +++P+QV IAK+L V+E +V+ MN RL Sbjct: 121 WSLVKMGTTANQKKLFFNLRKAKSKISALDEGDMRPDQVKLIAKRLGVTEQDVVDMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I D + +WQDWLV QE ++ E EE +RR LT +M VLNPRER Sbjct: 181 GGDASLNAPIRD-DGEAGEWQDWLVDQSPNQEAIMAEHEEFDHRRRALTGAMGVLNPRER 239 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIFEARRL + P+TLE+L++EF VSRERVRQIE RAF+KVQ +++ Sbjct: 240 RIFEARRLADEPMTLEDLAAEFNVSRERVRQIEVRAFEKVQSAVK 284 >gi|240850016|ref|YP_002971409.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] gi|240267139|gb|ACS50727.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] Length = 294 Score = 309 bits (791), Expect = 5e-82, Method: Composition-based stats. Identities = 191/285 (67%), Positives = 234/285 (82%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + G+ GL+RY+ E+R PML+ +EEY+LA+RYREH DL AAHRLVTSHLRL Sbjct: 1 MAHMNLLSVTAGDGGLNRYLEEVRHFPMLDPKEEYMLAQRYREHNDLKAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY++WWIKA++QEY+LRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAIWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR+LK LQA+ + +L EQV IA +LNVSE EVISMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKLKSKLQALDNGDLNAEQVKEIATQLNVSEDEVISMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + +S+ QDWLV + + QEQVLIEK E +NRR+ML +M LN RE+ Sbjct: 181 GGDTSLNAPLRTKEGENSELQDWLVDESNDQEQVLIEKSELENRRSMLINAMDNLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RIF+ARRL + P+TLE LS EF +SRERVRQIE RAF+KVQ+SI+ Sbjct: 241 RIFKARRLNDIPLTLEELSGEFNISRERVRQIEMRAFEKVQDSIR 285 >gi|154252606|ref|YP_001413430.1| RNA polymerase sigma-32 subunit RpoH [Parvibaculum lavamentivorans DS-1] gi|154156556|gb|ABS63773.1| RNA polymerase, sigma 32 subunit, RpoH [Parvibaculum lavamentivorans DS-1] Length = 340 Score = 308 bits (789), Expect = 7e-82, Method: Composition-based stats. Identities = 180/281 (64%), Positives = 220/281 (78%), Gaps = 2/281 (0%) Query: 6 MSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 ++ N E LSRY+ EIRK PMLE QEEY+LAKR+REH D AAH+LVTSHLRLV KIA Sbjct: 44 LAPAPNPEGSLSRYLQEIRKFPMLEPQEEYMLAKRWREHEDTEAAHQLVTSHLRLVAKIA 103 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 MGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWI+A++QEYILRSWSLVK Sbjct: 104 MGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIRASIQEYILRSWSLVK 163 Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DE 184 +GTTA QK+LFFNLR++KG +QAI + +L PEQV I+ +L V+E EVISMN RL+G D Sbjct: 164 MGTTAAQKKLFFNLRKVKGQIQAIEEGDLHPEQVKVISDRLGVTEDEVISMNRRLSGPDN 223 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SLNA + D +WQDWLV D QE L E EE RR ML +M+ LN RE I Sbjct: 224 SLNAPLRQ-DSEGGEWQDWLVDDTADQEATLGEAEELDQRREMLAAAMATLNEREMHILT 282 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 RRL++ P TLE+LS E+ +SRERVRQIE RAF+K+Q++++ Sbjct: 283 ERRLKDEPATLEDLSQEYGISRERVRQIEVRAFEKLQKAMK 323 >gi|103487228|ref|YP_616789.1| RNA polymerase factor sigma-32 [Sphingopyxis alaskensis RB2256] gi|98977305|gb|ABF53456.1| RNA polymerase sigma factor RpoH [Sphingopyxis alaskensis RB2256] Length = 300 Score = 305 bits (783), Expect = 3e-81, Method: Composition-based stats. Identities = 172/290 (59%), Positives = 221/290 (76%), Gaps = 7/290 (2%) Query: 2 NRKNMSIIVN---GEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHL 58 N+ N+ +V GE L+RY+ EIRK P+L ++EY+LAKR++EHGD AA +LVTSHL Sbjct: 3 NKSNVPAVVPALGGEASLNRYLAEIRKFPLLTPEQEYMLAKRFQEHGDNEAAAQLVTSHL 62 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLV KIAMGYRGYGLP+SE++SEGNIGLMQ VKKFDPERGFRLATY+MWWI+A++QE+IL Sbjct: 63 RLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAMWWIRASIQEFIL 122 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 RSWSLVK+GTTA QK+LFFNLRR+K +L+A D +L PE V IA L V+E EV+SMN Sbjct: 123 RSWSLVKMGTTAAQKKLFFNLRRMKNNLEAFEDGDLSPEHVAKIATDLGVTEDEVVSMNR 182 Query: 179 RLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 R+A GD SLN + + SQWQD L D Q++ + E +ER R ++LT ++ LN Sbjct: 183 RMAMGGDTSLNVPM--GEDGDSQWQDLLGDDGPLQDERVAEAQERDVRHDLLTEALETLN 240 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RER I RRL ++P TLE+LS ++VSRERVRQIE RAF+K+Q+++ K Sbjct: 241 ERERHILTERRLTDDPKTLEDLSQLYDVSRERVRQIEVRAFEKLQKAMLK 290 >gi|121602451|ref|YP_988610.1| RNA polymerase factor sigma-32 [Bartonella bacilliformis KC583] gi|120614628|gb|ABM45229.1| RNA polymerase sigma-32 factor [Bartonella bacilliformis KC583] Length = 303 Score = 305 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 186/286 (65%), Positives = 231/286 (80%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ I + GLSRY+ EIR+ P+LE +EEY+L KRY EH DL AAH+LVTSHLRL Sbjct: 1 MAHISLPSIAANDGGLSRYLEEIRRFPILEPKEEYMLVKRYNEHNDLKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYRGYGLP+ EV+SEGNIGLMQAVK+F+PERGFRLATY+MWWIKA++QEY+LRS Sbjct: 61 VAKIAIGYRGYGLPMGEVISEGNIGLMQAVKRFEPERGFRLATYAMWWIKASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTT NQKRLFFNLR+LK LQA+ + L EQV IA +LNV+E EV+SMN RL Sbjct: 121 WSLVKIGTTTNQKRLFFNLRKLKSKLQALDNGELNTEQVKEIATRLNVTEDEVVSMNHRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +++ S+WQD LV + QEQVLIEK+E +NRR++L +M+ LN RE+ Sbjct: 181 SGDTSLNAPLRTNEDEHSEWQDCLVDEASSQEQVLIEKDELENRRSLLIHAMANLNEREK 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RIFEARRL + +TLE LSSEF +SRERVRQIE RAF+KVQ+ ++ Sbjct: 241 RIFEARRLSDEVLTLEELSSEFNISRERVRQIEMRAFEKVQDFVRA 286 >gi|304393314|ref|ZP_07375242.1| alternative sigma factor RpoH [Ahrensia sp. R2A130] gi|303294321|gb|EFL88693.1| alternative sigma factor RpoH [Ahrensia sp. R2A130] Length = 300 Score = 305 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 190/295 (64%), Positives = 231/295 (78%), Gaps = 1/295 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + I GL RY+ EIRK PML+ EEY+L KRY EH D AAH++VTSHLRLV K Sbjct: 3 NTLPSISASGNGLQRYMEEIRKFPMLKPDEEYMLGKRYSEHDDTEAAHKMVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLP+SEV+SEGN+GLMQAVKKFDPE+GFRLATY+MWWIKA++QEY+LRSWSL Sbjct: 63 IAMGYRGYGLPVSEVISEGNVGLMQAVKKFDPEKGFRLATYAMWWIKASIQEYVLRSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VK+GTTANQKRLFFNLR+LKG L+A+ + LK E V IA L VS EV SMN RL+GD Sbjct: 123 VKMGTTANQKRLFFNLRKLKGKLKALEEGELKQENVEKIASTLGVSHDEVRSMNQRLSGD 182 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SLNA I +++ S QWQDWLV D + QEQ+LI+++E RR+ML +M VLN RE+RIF Sbjct: 183 ASLNAPIKAAEGESGQWQDWLVDDSESQEQMLIKQDELDVRRDMLAEAMDVLNDREKRIF 242 Query: 244 EARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI-QKQVELSSSPPLL 297 ARRL+E+P+TLE LS EF++SRERVRQIE RAF+KVQ+++ EL+ P L Sbjct: 243 MARRLEEDPLTLEVLSGEFDISRERVRQIEVRAFEKVQKAMVTANKELAKPAPQL 297 >gi|170752008|ref|YP_001758268.1| RNA polymerase factor sigma-32 [Methylobacterium radiotolerans JCM 2831] gi|170658530|gb|ACB27585.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium radiotolerans JCM 2831] Length = 297 Score = 305 bits (781), Expect = 6e-81, Method: Composition-based stats. Identities = 185/286 (64%), Positives = 228/286 (79%), Gaps = 2/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRKFPMLEPSEEFTLAKAWRDAGDREAAHRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +LKP+QV IA +L V E +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGKISALDEGDLKPDQVKQIATRLGVPEQDVIDMNRRLSGDTSLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV + QE VL ++E +NR + L ++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDNSPSQETVLAREQEGQNRLSALKDALGVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 E+P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 245 AEDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNIATRELP 290 >gi|170744871|ref|YP_001773526.1| RNA polymerase factor sigma-32 [Methylobacterium sp. 4-46] gi|168199145|gb|ACA21092.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium sp. 4-46] Length = 296 Score = 304 bits (780), Expect = 8e-81, Method: Composition-based stats. Identities = 188/280 (67%), Positives = 229/280 (81%), Gaps = 2/280 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIR+ PMLE EEY+LAK +REHGD AAH+LVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRRFPMLEPTEEYMLAKSWREHGDREAAHKLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+PEQV IA +L V E +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPEQVKQIATRLGVPEQDVIEMNRRLSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE VL +EE +NR L ++SVLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDSPSQEAVLAREEEGQNRLAALRDALSVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E P+TLE+LSSEF VSRERVRQIE RAF+KVQ+++++ + Sbjct: 245 AEEPITLEDLSSEFGVSRERVRQIEVRAFEKVQDAVKRNL 284 >gi|220927320|ref|YP_002502622.1| RNA polymerase factor sigma-32 [Methylobacterium nodulans ORS 2060] gi|219951927|gb|ACL62319.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium nodulans ORS 2060] Length = 296 Score = 304 bits (780), Expect = 9e-81, Method: Composition-based stats. Identities = 187/280 (66%), Positives = 229/280 (81%), Gaps = 2/280 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIR+ PMLE EEY+LAK +REHGD AAH+LVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRRFPMLEPTEEYMLAKSWREHGDREAAHKLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+PEQV IA +L V E +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPEQVKQIATRLGVPEQDVIDMNRRLSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE VL +EE +NR L ++SVLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDSPSQEAVLAREEEGQNRLAALRDALSVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 E P+TLE+LS+EF VSRERVRQIE RAF+KVQ+++++ + Sbjct: 245 AEEPITLEDLSTEFGVSRERVRQIEVRAFEKVQDAVKRNL 284 >gi|162148038|ref|YP_001602499.1| RNA polymerase factor sigma-32 [Gluconacetobacter diazotrophicus PAl 5] gi|161786615|emb|CAP56197.1| putative RNA polymerase sigma-32 factor [Gluconacetobacter diazotrophicus PAl 5] Length = 325 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 172/289 (59%), Positives = 220/289 (76%), Gaps = 3/289 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + + + V E LSRY+ +IRK PML ++E L++R+++ GD AAH LVTSHLRLV Sbjct: 30 SMASSVLNVGPESNLSRYLQDIRKFPMLSPEDEQRLSRRWKDKGDTEAAHALVTSHLRLV 89 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP+ E++SEGNIG+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SW Sbjct: 90 AKIAMGYRGYGLPLGELISEGNIGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSW 149 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 SLVK+GTTA QK+LFFNLRRLKG +QAI D +LKPEQV IA+ L V E +VI+MN RL+ Sbjct: 150 SLVKMGTTAAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIAESLGVPEQDVINMNRRLS 209 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 D SLNA + + + +WQDWLV +HD QEQ L E EE R+ +L +M LN RER Sbjct: 210 APDHSLNAPLRA--DSEGEWQDWLVDEHDNQEQTLAENEEFSGRKALLDNAMKTLNDRER 267 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 I RRL+++P TLE LS + +SRERVRQIE RAF+KVQ +++ +VE Sbjct: 268 HILTERRLKDDPATLEELSHTYNISRERVRQIEVRAFEKVQAAMKAEVE 316 >gi|296445492|ref|ZP_06887449.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] gi|296257058|gb|EFH04128.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] Length = 294 Score = 304 bits (778), Expect = 1e-80, Method: Composition-based stats. Identities = 181/296 (61%), Positives = 235/296 (79%), Gaps = 3/296 (1%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 N ++G+ GLSRY+ EIR+ PMLE ++EY+LAKR+REH D +AA +LVTSHLRLV Sbjct: 1 MANALPTLSGDSGLSRYLAEIRRFPMLEPEQEYMLAKRWREHEDPNAAQKLVTSHLRLVA 60 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 KIAMGYRGYGLPI E+VSEGN+GLMQAVK+F+PERGFRLATY+MWWI+A++QEYILRSWS Sbjct: 61 KIAMGYRGYGLPIGEIVSEGNVGLMQAVKRFEPERGFRLATYAMWWIRASIQEYILRSWS 120 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 LVK+GTTA+QK+LFFNLR+ K + A D +L PE V IA++L V+ +VI MN R++G Sbjct: 121 LVKMGTTASQKKLFFNLRKAKSKISAFEDGDLTPEHVGEIARRLGVTNQDVIEMNRRMSG 180 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D SLNA + ++ +WQDWLV D QE++L+++EE NR + L +++VLNPRERRI Sbjct: 181 DASLNAPLR--EEGEGEWQDWLVDDSSDQERILVDQEEAGNRLDALRGALTVLNPRERRI 238 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK-QVELSSSPPLL 297 FEARRL E+PVTLE+LS+EF VSRERVRQIE RAF+KVQ +++ +L + P + Sbjct: 239 FEARRLSEDPVTLEDLSTEFGVSRERVRQIEVRAFEKVQSAVRAGMAQLEALPAPM 294 >gi|114327512|ref|YP_744669.1| RNA polymerase sigma-32 factor [Granulibacter bethesdensis CGDNIH1] gi|114315686|gb|ABI61746.1| RNA polymerase sigma-32 factor [Granulibacter bethesdensis CGDNIH1] Length = 375 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 168/282 (59%), Positives = 216/282 (76%), Gaps = 3/282 (1%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I + E LSRY+ EIRK PML +EE L++R+R+ D+ AAHRLVTSHLRLV KIAMG Sbjct: 76 IKIAPEGNLSRYLQEIRKYPMLTPEEELDLSRRWRDTEDMGAAHRLVTSHLRLVAKIAMG 135 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 YRGYGLP+ E++SEGN+G+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+G Sbjct: 136 YRGYGLPVGELISEGNVGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMG 195 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TTA QK+LFFNLRRLKG +QAI D +LKPEQV IA LNV E +V+ MN R++ D SL Sbjct: 196 TTAAQKKLFFNLRRLKGQMQAIDDGDLKPEQVSKIATSLNVPEQDVVQMNRRMSAPDHSL 255 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + + +WQDWLV D + QE VL + EE R+ +L ++ LN RER I R Sbjct: 256 NAPLRQ--EGEGEWQDWLVDDAETQETVLADTEELGGRKTLLANALKTLNDRERHILTER 313 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RL++ P TLE+LS + +SRERVRQIE RAF+K+Q++++ +V Sbjct: 314 RLKDEPTTLEDLSQHYNISRERVRQIEVRAFEKLQKAMKAEV 355 >gi|85707639|ref|ZP_01038705.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] gi|85689173|gb|EAQ29176.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] Length = 298 Score = 303 bits (776), Expect = 2e-80, Method: Composition-based stats. Identities = 162/288 (56%), Positives = 216/288 (75%), Gaps = 3/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M++ + + +GE L+RY+ EI+K P+L ++EY+LAKRY EH D AA +LV+SHLRL Sbjct: 1 MSKATVPAL-SGEQSLNRYLSEIKKYPVLTAEQEYMLAKRYAEHEDPEAASQLVSSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+S+++SEGN+GLMQ VKKF+P+RGFRLATY+MWWIKA++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPVSDLISEGNVGLMQGVKKFEPDRGFRLATYAMWWIKASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR- 179 WSLVK+GTTA QK+LFFNLRR+K L+A D++L P+ V IA L V E EV++MN R Sbjct: 120 WSLVKMGTTAAQKKLFFNLRRMKKQLEAYEDSDLHPDDVTKIATDLGVPEQEVVNMNRRM 179 Query: 180 -LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 + GD SLN + + + S +WQDWL D Q++ + + EE + R ML +M LN R Sbjct: 180 MMGGDGSLNTPMRNGEDGSGEWQDWLTDDRPLQDETVADAEEAEVRHEMLVEAMDSLNER 239 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ I RRL E P TLE LS ++VSRER+RQIE RAF+K+Q+++Q+ Sbjct: 240 EQHILTERRLTEKPQTLEELSQVYDVSRERIRQIEVRAFEKLQKAMQR 287 >gi|258543198|ref|YP_003188631.1| RNA polymerase factor sigma-32 [Acetobacter pasteurianus IFO 3283-01] gi|256634276|dbj|BAI00252.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-01] gi|256637336|dbj|BAI03305.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-03] gi|256640388|dbj|BAI06350.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-07] gi|256643445|dbj|BAI09400.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-22] gi|256646500|dbj|BAI12448.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-26] gi|256649553|dbj|BAI15494.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-32] gi|256652539|dbj|BAI18473.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-01-42C] gi|256655597|dbj|BAI21524.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-12] Length = 319 Score = 303 bits (776), Expect = 2e-80, Method: Composition-based stats. Identities = 176/281 (62%), Positives = 220/281 (78%), Gaps = 3/281 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V E LSRY+ EIRK P+L +EE L++ +R+ GD+ AAH+LVTSHLRLV KIAMGYR Sbjct: 31 VGPENNLSRYLQEIRKYPLLTPEEELSLSRLWRDKGDVKAAHQLVTSHLRLVAKIAMGYR 90 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLPI+E++SEGNIG+MQAVK+FDPE+GFRLATY+MWWI+AA+QEYIL SWSLVK+GTT Sbjct: 91 GYGLPINELISEGNIGMMQAVKRFDPEKGFRLATYAMWWIRAAIQEYILHSWSLVKMGTT 150 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 A QK+LFFNLRRLKG +QAI D +LKPEQV IA L VSE +V+ MN R+A D SLNA Sbjct: 151 AAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIATTLGVSEQDVVDMNRRMAAPDHSLNA 210 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + S+WQD LV DH QE V E EE R+ +L+ +M LN RERRIF RRL Sbjct: 211 PMRA--DQDSEWQDRLVDDHTNQEDVYAENEELSGRKALLSSAMENLNERERRIFTERRL 268 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +++P TLE L+ E+ +SRERVRQIE RAF+KVQ +++K+V+ Sbjct: 269 KDDPSTLEELAHEYGISRERVRQIEVRAFEKVQAAMKKEVQ 309 >gi|329114085|ref|ZP_08242849.1| RNA polymerase sigma-32 factor [Acetobacter pomorum DM001] gi|326696624|gb|EGE48301.1| RNA polymerase sigma-32 factor [Acetobacter pomorum DM001] Length = 319 Score = 302 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 176/281 (62%), Positives = 220/281 (78%), Gaps = 3/281 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V E LSRY+ EIRK P+L +EE L++ +R+ GD+ AAH+LVTSHLRLV KIAMGYR Sbjct: 31 VGPENNLSRYLQEIRKYPLLTPEEELSLSRLWRDKGDVKAAHQLVTSHLRLVAKIAMGYR 90 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLPI+E++SEGNIG+MQAVK+FDPE+GFRLATY+MWWI+AA+QEYIL SWSLVK+GTT Sbjct: 91 GYGLPINELISEGNIGMMQAVKRFDPEKGFRLATYAMWWIRAAIQEYILHSWSLVKMGTT 150 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 A QK+LFFNLRRLKG +QAI D +LKPEQV IA L VSE +V+ MN R+A D SLNA Sbjct: 151 AAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIATTLGVSEQDVVDMNRRMAAPDHSLNA 210 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + S+WQD LV DH QE V E EE R+ +L+ +M LN RERRIF RRL Sbjct: 211 PMRA--DQDSEWQDRLVDDHTNQEDVYAENEELSGRKALLSSAMENLNERERRIFTERRL 268 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +++P TLE L+ E+ +SRERVRQIE RAF+KVQ +++K+V+ Sbjct: 269 KDDPSTLEELAHEYGISRERVRQIEVRAFEKVQAAMKKEVQ 309 >gi|218528993|ref|YP_002419809.1| RNA polymerase factor sigma-32 [Methylobacterium chloromethanicum CM4] gi|240137510|ref|YP_002961981.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|254559688|ref|YP_003066783.1| RNA polymerase sigma-32 [Methylobacterium extorquens DM4] gi|218521296|gb|ACK81881.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium chloromethanicum CM4] gi|240007478|gb|ACS38704.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|254266966|emb|CAX22766.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens DM4] Length = 297 Score = 302 bits (774), Expect = 4e-80, Method: Composition-based stats. Identities = 184/286 (64%), Positives = 227/286 (79%), Gaps = 2/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRKFPMLEPAEEFTLAKSWRDDGDREAAHRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+P+QV IA L V +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPDQVQHIATSLGVPAQDVIDMNRRLSGDTSLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV + QE VL +EE +NR + L ++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDNSPSQETVLAREEEGRNRLSALRDALGVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ++P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 245 ADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNLATRELP 290 >gi|182677344|ref|YP_001831490.1| RNA polymerase, sigma 32 subunit, RpoH [Beijerinckia indica subsp. indica ATCC 9039] gi|182633227|gb|ACB94001.1| RNA polymerase, sigma 32 subunit, RpoH [Beijerinckia indica subsp. indica ATCC 9039] Length = 299 Score = 302 bits (774), Expect = 4e-80, Method: Composition-based stats. Identities = 179/278 (64%), Positives = 228/278 (82%), Gaps = 2/278 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++GE GL+RY++EIR+ PMLE QEEY+LAKR+REH D AA RLVTSHLRLV KIAMGY Sbjct: 7 MISGESGLTRYLNEIRRFPMLEPQEEYMLAKRWREHEDPDAAQRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPI EVVSEGN+GLMQAVK+F+P++GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 67 RGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TA+QK+LFFNLR+ K + A+ + +L+P+QV IA +L V+ EVI MN R++GD SLNA Sbjct: 127 TASQKKLFFNLRKAKSQISALDEGDLRPDQVALIATRLGVTGQEVIDMNRRMSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE VL ++EE NR L +++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDQANQEHVLADQEESANRLGALRQALDVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++PVTLE LS EF++SRERVRQIE RAF+KVQ +++ Sbjct: 245 ADDPVTLEALSDEFDISRERVRQIEVRAFEKVQAAVKA 282 >gi|329890478|ref|ZP_08268821.1| alternative sigma factor RpoH [Brevundimonas diminuta ATCC 11568] gi|328845779|gb|EGF95343.1| alternative sigma factor RpoH [Brevundimonas diminuta ATCC 11568] Length = 294 Score = 302 bits (773), Expect = 5e-80, Method: Composition-based stats. Identities = 173/290 (59%), Positives = 218/290 (75%), Gaps = 4/290 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++++ + E GLSRY+ EIRK PML K EE++LAKR+ EH D AAHRLVTSHLRL Sbjct: 1 MANNTLTVM-SPEQGLSRYLTEIRKFPMLTKDEEFMLAKRWSEHQDPEAAHRLVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A + +L PE + AIA KL VSE EV +MN RL Sbjct: 120 WSLVKMGTTAAQKKLFFNLRKAKSQISAFEEGDLHPEHLTAIATKLGVSEEEVTNMNRRL 179 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA + + S+WQDWL D QE L E EE+ R ++L +M L RE Sbjct: 180 GGDASLNAPLRA--DGESEWQDWLADDDAVSQETQLAENEEKSIRMSLLQEAMEELTDRE 237 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + I RRL+++PVTLE L+ ++ VSRERVRQIE RAF+K+Q++++ E Sbjct: 238 KHILTERRLKDDPVTLEELAGQYGVSRERVRQIEVRAFEKLQKAMRAAAE 287 >gi|163850434|ref|YP_001638477.1| RNA polymerase factor sigma-32 [Methylobacterium extorquens PA1] gi|163662039|gb|ABY29406.1| RNA polymerase sigma factor RpoH [Methylobacterium extorquens PA1] Length = 297 Score = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 184/286 (64%), Positives = 227/286 (79%), Gaps = 2/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRKFPMLEPAEEFTLAKSWRDDGDREAAHRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+P+QV IA L V +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPDQVQHIATSLGVPAQDVIDMNRRLSGDTSLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV + QE VL +EE +NR + L ++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDNSPSQETVLAREEEGRNRLSALRDALGVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ++P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 245 ADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNLATRELP 290 >gi|85373062|ref|YP_457124.1| RNA polymerase factor sigma-32 [Erythrobacter litoralis HTCC2594] gi|84786145|gb|ABC62327.1| RNA polymerase sigma-32 factor [Erythrobacter litoralis HTCC2594] Length = 301 Score = 301 bits (772), Expect = 6e-80, Method: Composition-based stats. Identities = 164/279 (58%), Positives = 211/279 (75%), Gaps = 2/279 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EI+K P+L ++EY+LAKRY+EH D AA +LV+SHLRLV KIAMGYR Sbjct: 12 LGGEQSLNRYLSEIKKYPVLTAEQEYMLAKRYQEHEDPEAAAQLVSSHLRLVAKIAMGYR 71 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+S+++SEGN+GLMQ VKKF+P+RGFRLATY+MWWIKA+MQE+ILRSWSLVK+GTT Sbjct: 72 GYGLPVSDLISEGNVGLMQGVKKFEPDRGFRLATYAMWWIKASMQEFILRSWSLVKMGTT 131 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLN 187 A QK+LFFNLRR+K L+A D +L PE V IA L V E EVI+MN R + GD SLN Sbjct: 132 AAQKKLFFNLRRMKKQLEAYEDTDLSPEDVTKIATDLGVPEQEVINMNRRMMMGGDGSLN 191 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + + S +WQDWL D Q++ + EE + R ML +M LN RE+ I RR Sbjct: 192 TPMRNGEDGSGEWQDWLTDDRPLQDETVANAEEAQVRHEMLVEAMDALNEREQHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ENP TLE LS ++VSRER+RQIE RAF+K+Q+++Q+ Sbjct: 252 LTENPQTLEELSQVYDVSRERIRQIEVRAFEKLQKAMQR 290 >gi|83592446|ref|YP_426198.1| RNA polymerase factor sigma-32 [Rhodospirillum rubrum ATCC 11170] gi|83575360|gb|ABC21911.1| Sigma 32 (RpoH) [Rhodospirillum rubrum ATCC 11170] Length = 299 Score = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 167/285 (58%), Positives = 212/285 (74%), Gaps = 3/285 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + E L+RY+ IRK PML +EEY LA+R R+ GD AAHRLVTSHLRL Sbjct: 1 MATVAPGLSIGPESNLTRYLQNIRKFPMLAPEEEYTLAQRLRDSGDSEAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+ EV+SEGN+GLMQAVK+FDPERGFRLATY+MWWI+AA+QEYIL S Sbjct: 61 VAKIAMGYRGYGLPMGEVISEGNVGLMQAVKRFDPERGFRLATYAMWWIRAAIQEYILHS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR++KG LQ + + ++ P++V IA KL V E +VI+MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRKMKGQLQLMDEGDMHPDKVTQIATKLGVPEQDVINMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 + D SLNA + +WQDWLV + D QE L E +E RR +L+ ++ LN RE Sbjct: 181 SSPDHSLNAPVRM--DGDGEWQDWLVDESDDQETTLAESQEMGQRRALLSGALKSLNERE 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R I RRL+++PVTLE+LS + +SRERVRQIE RAF+K+Q+ + Sbjct: 239 RHILTQRRLRDDPVTLEDLSQHYGISRERVRQIEVRAFEKLQKWM 283 >gi|217978453|ref|YP_002362600.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocella silvestris BL2] gi|217503829|gb|ACK51238.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocella silvestris BL2] Length = 303 Score = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 177/278 (63%), Positives = 232/278 (83%), Gaps = 2/278 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 +++GE GL+RY++EIR+ PMLE Q+EY+LAKR+REH D AAH+LVTSHLRLV KIAMGY Sbjct: 7 MISGESGLARYLNEIRRFPMLEPQQEYMLAKRWREHADSDAAHKLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+F+PE+GFRLATY+MWWI+A++QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TA+QK+LFFNLR++K + A+ + +L+PE V IA +L VS+ +VI MN R++GD SLNA Sbjct: 127 TASQKKLFFNLRKVKSQISALEEGDLRPEHVDKIAHRLGVSKQDVIDMNRRMSGDASLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV D QE++L+++EE NR L +++VLN RERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDDSASQEKLLVDREETDNRLGALHTALNVLNDRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++P+TLE LS EF++SRERVRQIE RAF+KVQ +++ Sbjct: 245 ADDPMTLEALSDEFDISRERVRQIEVRAFEKVQSAVKA 282 >gi|326386899|ref|ZP_08208513.1| RNA polymerase factor sigma-32 [Novosphingobium nitrogenifigens DSM 19370] gi|326208579|gb|EGD59382.1| RNA polymerase factor sigma-32 [Novosphingobium nitrogenifigens DSM 19370] Length = 300 Score = 301 bits (771), Expect = 8e-80, Method: Composition-based stats. Identities = 168/291 (57%), Positives = 219/291 (75%), Gaps = 7/291 (2%) Query: 1 MNRKNMSIIV---NGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSH 57 M+ +N ++ V +GE L+RY+ EIRK P+L ++EY+LAKRY+EHGD AA +LVTSH Sbjct: 1 MSEQNKALSVPALSGEASLNRYLTEIRKFPLLTAEQEYMLAKRYQEHGDPQAAAQLVTSH 60 Query: 58 LRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYI 117 LRLV KIAMGYRGYGLP+SE++SEGNIGLMQ VKKFDP+RGFRLATY+MWWIKA++QE+I Sbjct: 61 LRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPDRGFRLATYAMWWIKASIQEFI 120 Query: 118 LRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMN 177 LRSWSLVK+GTTA QK+LFFNLRR+K +L+A D++L P+ V IA L V E++V+SMN Sbjct: 121 LRSWSLVKMGTTAAQKKLFFNLRRMKKNLEAFEDSDLHPDDVKKIATDLGVPEADVVSMN 180 Query: 178 CRL--AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVL 235 R+ GD SLN + + WQDWL + Q++ + + EE + R ++L +M L Sbjct: 181 RRMMMGGDASLNVPLR--EDGEGSWQDWLADERPLQDEAVADAEEAQVRHDLLVEAMQDL 238 Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 N RER I RRL + P TLE LS + VSRERVRQIE RAF+K+Q++IQ+ Sbjct: 239 NDRERHILIDRRLVDEPKTLEELSQVYHVSRERVRQIEVRAFEKLQKAIQR 289 >gi|294085881|ref|YP_003552641.1| RNA polymerase sigma-32 subunit RpoH [Candidatus Puniceispirillum marinum IMCC1322] gi|292665456|gb|ADE40557.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Puniceispirillum marinum IMCC1322] Length = 312 Score = 301 bits (771), Expect = 9e-80, Method: Composition-based stats. Identities = 172/287 (59%), Positives = 226/287 (78%), Gaps = 2/287 (0%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 R M I + + LSRY+ +IR PMLE ++EY+LAK ++E GD+ +AH+LVTSHLRLV Sbjct: 9 RSTMPAI-SPDGNLSRYLEQIRAFPMLEPKQEYMLAKAWKEKGDVESAHQLVTSHLRLVA 67 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 KIAMGYRGYGLP+++++SEGN+G+M AVKKF+PE+GFRLATY+MWWIKAA+QEYILRSWS Sbjct: 68 KIAMGYRGYGLPVADLISEGNLGMMHAVKKFEPEKGFRLATYAMWWIKAAIQEYILRSWS 127 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 LVKIGTTA QK+LFFNLRR+KG +QAI + +LKPEQV IA +LNV+E+EV+SMN R+AG Sbjct: 128 LVKIGTTAGQKKLFFNLRRIKGQIQAIDEGDLKPEQVTHIADELNVTEAEVMSMNQRMAG 187 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SLN ++ + + +WQDWL D QE E EE R N++ +M LN RE+R Sbjct: 188 NDRSLNVPLSRDGEGTGEWQDWLEDDTVDQETSFAEHEEYSARANLMMDAMKGLNEREQR 247 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 I +ARRL E P+TLE+L+ EF VSRER+RQIE RAF+K+Q++++ + Sbjct: 248 ILQARRLAEPPLTLEDLAGEFNVSRERIRQIEVRAFEKLQKAVRDKA 294 >gi|188580210|ref|YP_001923655.1| RNA polymerase factor sigma-32 [Methylobacterium populi BJ001] gi|179343708|gb|ACB79120.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium populi BJ001] Length = 297 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 184/286 (64%), Positives = 227/286 (79%), Gaps = 2/286 (0%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E GLSRY+ EIRK PMLE EE+ LAK +R+ GD AAHRLVTSHLRLV KIAMGY Sbjct: 7 VLANEGGLSRYLDEIRKFPMLEPAEEFTLAKSWRDEGDREAAHRLVTSHLRLVAKIAMGY 66 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLPISEVVSEGN+GLMQAVK+FDP++GFRLATY+MWWIKAA+QEYILRSWSLVK+GT Sbjct: 67 RGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGT 126 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 TANQK+LFFNLR+ KG + A+ + +L+P+QV IA L V +VI MN RL+GD SLNA Sbjct: 127 TANQKKLFFNLRKAKGRISALDEGDLRPDQVQQIATSLGVPTQDVIDMNRRLSGDTSLNA 186 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + ++ +WQDWLV + QE VL +EE +NR + L ++ VLNPRERRIFEARRL Sbjct: 187 PLR--EEGEGEWQDWLVDNSPSQETVLAREEEGRNRLSALRDALGVLNPRERRIFEARRL 244 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 ++P+TLE+LS EF VSRERVRQIE RAF+KVQE++++ + P Sbjct: 245 ADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQEAVKRNLATRELP 290 >gi|77462968|ref|YP_352472.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides 2.4.1] gi|126461842|ref|YP_001042956.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17029] gi|221638824|ref|YP_002525086.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides KD131] gi|332557843|ref|ZP_08412165.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] gi|1769585|gb|AAC46050.1| RpoH [Rhodobacter sphaeroides] gi|77387386|gb|ABA78571.1| sigma factor RpoH1 (Sigma-32 group, heat shock) [Rhodobacter sphaeroides 2.4.1] gi|126103506|gb|ABN76184.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17029] gi|221159605|gb|ACM00585.1| RNA polymerase sigma factor [Rhodobacter sphaeroides KD131] gi|332275555|gb|EGJ20870.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] Length = 298 Score = 300 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 171/287 (59%), Positives = 218/287 (75%), Gaps = 1/287 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ +H D AAH+LVTSHLRL Sbjct: 1 MSTYTSLPAPSPEQGLNRYMQEIRKFPLLEPEEEYMLAKRWVDHQDNRAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K L A+ + +L+PE V IAK L VSE+EVI MN RL Sbjct: 121 WSLVKLGTTSAQKKLFFNLRKAKAKLGALEEGDLRPENVAQIAKDLGVSETEVIDMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 +G D SLNA I S + S+QWQDWL + Q E++E + RR +L +SMSVLN RE Sbjct: 181 SGSDASLNATIGSDGEGSTQWQDWLEDEDSDQAADYAERDELEIRRELLAQSMSVLNDRE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + I RRL ++PVTLE LS + VSRER+RQIE RAF+K+Q +++ Sbjct: 241 KDILVQRRLTDDPVTLEELSEGYGVSRERIRQIEVRAFEKLQAKMRE 287 >gi|302382389|ref|YP_003818212.1| RNA polymerase, sigma 32 subunit, RpoH [Brevundimonas subvibrioides ATCC 15264] gi|302193017|gb|ADL00589.1| RNA polymerase, sigma 32 subunit, RpoH [Brevundimonas subvibrioides ATCC 15264] Length = 295 Score = 300 bits (769), Expect = 1e-79, Method: Composition-based stats. Identities = 171/290 (58%), Positives = 216/290 (74%), Gaps = 3/290 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M +++ E GLSRY+ EIRK PML K EE++LAKR+ EH D +AHRLVTSHLRL Sbjct: 1 MAAMKSLAVMSPEQGLSRYLTEIRKFPMLTKDEEFMLAKRWSEHQDSESAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A + +L+PE + AIA KL VSE EV +MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRKAKSQISAFEEGDLRPEHLAAIATKLGVSEEEVTNMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA + S+WQDWL D+ QE L + EE+ R +L +M L RE Sbjct: 181 GGDASLNAPLRV--DGESEWQDWLSDDNAVSQETALADSEEKSLRMGLLQEAMGELTERE 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + I RRL+++PVTLE L+ ++ VSRERVRQIE RAF+K+Q++++ E Sbjct: 239 KHILTERRLKDDPVTLEELAGQYGVSRERVRQIEVRAFEKLQKAMRAAAE 288 >gi|296536196|ref|ZP_06898318.1| DNA-directed RNA polymerase sigma subunit RpoH [Roseomonas cervicalis ATCC 49957] gi|296263478|gb|EFH09981.1| DNA-directed RNA polymerase sigma subunit RpoH [Roseomonas cervicalis ATCC 49957] Length = 295 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 168/290 (57%), Positives = 220/290 (75%), Gaps = 3/290 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M I + E LSRY+ EIRK PML +EE+ LAK ++EHGD AAH+LVTSHLRL Sbjct: 1 MASTTSMIPIAPEGNLSRYLQEIRKFPMLTPEEEFRLAKDWKEHGDQKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+ E++SEGN+G+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL S Sbjct: 61 VAKIAMGYRGYGLPVGELISEGNVGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLRRLKG + A+ + +L+PEQV IA+ L V E +V+SMN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRRLKGQMAALEEGDLQPEQVEKIARVLQVPEQDVVSMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 A D SLNA + + + +WQDWLV + + QE + E+++ NRR +L ++ LN RE Sbjct: 181 ASPDNSLNAPVRA--DSEGEWQDWLVDESESQETEIAERQDMSNRRELLGEALKTLNERE 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 R I RRL++ P TLE LS ++ +SRERVRQIE RAF+K+Q+S++ Q+ Sbjct: 239 RHILIERRLKDEPTTLEELSQQYNISRERVRQIEVRAFEKLQKSMKSQIM 288 >gi|144897893|emb|CAM74757.1| RNA polymerase sigma-32 factor [Magnetospirillum gryphiswaldense MSR-1] Length = 288 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 176/289 (60%), Positives = 220/289 (76%), Gaps = 3/289 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M S+ + E LSRY+ EIRK PMLE EEY LAKRYREHGD AA RL+TSHLRL Sbjct: 1 MTAIPTSLSLAPEGNLSRYLQEIRKFPMLEPTEEYQLAKRYREHGDFEAADRLITSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+ E++SEGN+G+MQAVK+FDP+RGFRLATY+MWWI+AA+QEYIL S Sbjct: 61 VAKIAMGYRGYGLPLGELISEGNVGMMQAVKRFDPDRGFRLATYAMWWIRAAVQEYILHS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+LKG +QA+ + +L E V +IA KLNV E++VI+MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRKLKGQMQAMDEGDLPQETVTSIATKLNVPENDVINMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 A D SLNA + +WQDWLV + D QE L +++ER R +L+ ++ LN RE Sbjct: 181 ASPDHSLNAPVRM--DGEGEWQDWLVDESDDQETELADRQERGIRSKLLSTALDTLNERE 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 R I RRL E+P TLE+LS ++ +SRERVRQIE RAF+K+Q+SI+ V Sbjct: 239 RSILSQRRLTEDPATLEDLSQQYGISRERVRQIEVRAFEKLQKSIRASV 287 >gi|330993273|ref|ZP_08317209.1| RNA polymerase sigma-32 factor [Gluconacetobacter sp. SXCC-1] gi|329759675|gb|EGG76183.1| RNA polymerase sigma-32 factor [Gluconacetobacter sp. SXCC-1] Length = 298 Score = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 169/299 (56%), Positives = 221/299 (73%), Gaps = 3/299 (1%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 + ++I E LS+Y+ +IRK PML +EE L++R+++ GD AAH+LVTSHLRLV Sbjct: 1 MASSALISGPENNLSKYLRDIRKFPMLSPEEELRLSRRWKDKGDTEAAHKLVTSHLRLVA 60 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 KIAMGYRGYGLP+ E++SEGNIG+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWS Sbjct: 61 KIAMGYRGYGLPVGELISEGNIGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWS 120 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 LVKIGTTA QK+LFFNLRRLKG +QAI D +L+PEQV IA+ L V E +V++MN RLA Sbjct: 121 LVKIGTTAAQKKLFFNLRRLKGQMQAIDDGDLRPEQVNKIAQSLGVPEQDVVNMNRRLAA 180 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SLNA + +WQDWLV D+D QE+ L + EE R+ +L ++ LN RER Sbjct: 181 PDHSLNAPLRM--DGEGEWQDWLVDDNDNQEETLAQSEEYSGRQALLANALKTLNERERH 238 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 I RRL++ P TLE+LS + +SRERVRQIE RAF+K+Q +++ +V + Q P Sbjct: 239 ILTERRLKDEPATLEDLSHVYNISRERVRQIEVRAFEKLQAAMKAEVAARRARHGEQAP 297 >gi|254294740|ref|YP_003060763.1| RNA polymerase factor sigma-32 [Hirschia baltica ATCC 49814] gi|254043271|gb|ACT60066.1| RNA polymerase, sigma 32 subunit, RpoH [Hirschia baltica ATCC 49814] Length = 295 Score = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 170/288 (59%), Positives = 223/288 (77%), Gaps = 3/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + SI ++ E GLSRY+ EIRK P+LEK +E++LA R+R+H D AA ++VTSHLRL Sbjct: 1 MAQLSTSIALSPEQGLSRYLTEIRKYPLLEKDQEFMLANRWRDHEDPEAAEKMVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLRRLKG +QA+ + +L+PE V IA +LNVSE+EVISMN R+ Sbjct: 121 WSLVKLGTTAAQKKLFFNLRRLKGEIQALEEGDLRPENVAEIATRLNVSETEVISMNRRM 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYD-HDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 GD SLNA I +D + +W DWL D Q + + +E R ++L +M LN R Sbjct: 181 TGGDASLNAPIGGADGD-GEWMDWLSDDNQQNQAEEYEQNDEFSTRMSLLETAMEGLNER 239 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ I RRL++ P TLE LS+ + VSRER+RQIE RAF+K+Q+++++ Sbjct: 240 EKHIIAERRLKDEPSTLEELSAVYNVSRERIRQIEVRAFEKLQKAMKE 287 >gi|114569135|ref|YP_755815.1| RNA polymerase factor sigma-32 [Maricaulis maris MCS10] gi|114339597|gb|ABI64877.1| RNA polymerase, sigma 32 subunit, RpoH [Maricaulis maris MCS10] Length = 295 Score = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 171/284 (60%), Positives = 219/284 (77%), Gaps = 3/284 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ ++ E GLS Y+ EIR+ PMLEK EE++L KR+REH D AA +LVTSHLRLV KIAM Sbjct: 6 SMTLSPEQGLSSYLSEIRRFPMLEKDEEFMLGKRWREHEDGGAAEKLVTSHLRLVAKIAM 65 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLPI+EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLVK+ Sbjct: 66 GYRGYGLPIAEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLVKM 125 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLRR+K +QA+ + +LKP+QV AIA KL V+ EV+SMN RL+G D S Sbjct: 126 GTTAAQKKLFFNLRRMKSQMQALDEGDLKPDQVEAIATKLGVTNDEVMSMNGRLSGPDAS 185 Query: 186 LNALINSSDKNSSQWQDWLVYDH-DGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 LNA + ++ QWQDWL D + QE L E +E R +L +M LN RE+ I + Sbjct: 186 LNAPLRGTEGE-GQWQDWLSDDTAESQEDELAESDEFDTRMQLLQSAMGELNEREQHILQ 244 Query: 245 ARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RRL E+P TLE L+ + VSRER+RQIE RAF+K+Q++++ Sbjct: 245 ERRLSEDPKTLEELAEHYGVSRERIRQIEVRAFEKLQKAMKAMA 288 >gi|332185869|ref|ZP_08387616.1| alternative sigma factor RpoH [Sphingomonas sp. S17] gi|332014227|gb|EGI56285.1| alternative sigma factor RpoH [Sphingomonas sp. S17] Length = 301 Score = 298 bits (764), Expect = 6e-79, Method: Composition-based stats. Identities = 167/279 (59%), Positives = 212/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EI+K P+L ++EY+LAKR++EHGD AA +LVTSHLRLV KIAMGYR Sbjct: 14 LGGEQSLNRYLAEIKKFPILAPEQEYMLAKRFQEHGDPEAAAQLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWI+A++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPTSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIRASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRR+K L A D +L+PE V IA L V+E EVISMN R+A GD SLN Sbjct: 134 AAQKKLFFNLRRMKSKLDAFEDGDLRPEDVTKIATDLGVNEDEVISMNRRMAMGGDTSLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 ++ + QWQDWL D Q+ V+ E++E R +ML +M LN RE+ I RR Sbjct: 194 --VSMREDGEGQWQDWLADDAPLQDSVVAEQQEADVRHDMLVSAMDDLNDREKHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ++P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 252 LTDDPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 290 >gi|146277611|ref|YP_001167770.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17025] gi|145555852|gb|ABP70465.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17025] Length = 298 Score = 298 bits (764), Expect = 7e-79, Method: Composition-based stats. Identities = 169/287 (58%), Positives = 217/287 (75%), Gaps = 1/287 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ +H D AAHRLVTSHLRL Sbjct: 1 MSSYTSLPAPSPEQGLNRYMQEIRKFPLLEPEEEYMLAKRWVDHQDNRAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K L A+ + +L+PE V IAK L+V+E+EVI MN RL Sbjct: 121 WSLVKLGTTSAQKKLFFNLRKAKAKLGALEEGDLRPENVAQIAKDLSVTEAEVIDMNRRL 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 A D SLNA I S ++QWQDWL + Q E++E + RR +L ++MSVLN RE Sbjct: 181 SASDASLNATIGSDGDGATQWQDWLEDEDSDQASDYAERDELEIRRELLAQAMSVLNDRE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + I RRL ++PVTLE LS + VSRER+RQIE RAF+K+Q +++ Sbjct: 241 KDILVQRRLTDDPVTLEELSDGYGVSRERIRQIEVRAFEKLQARMRE 287 >gi|148552989|ref|YP_001260571.1| RNA polymerase factor sigma-32 [Sphingomonas wittichii RW1] gi|148498179|gb|ABQ66433.1| RNA polymerase sigma factor RpoH [Sphingomonas wittichii RW1] Length = 301 Score = 297 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 169/279 (60%), Positives = 210/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L +EEY+LAKR++EHGD AA RLVTSHLRLV KIAMGYR Sbjct: 14 LGGEQSLNRYLAEIRKFPLLTAEEEYMLAKRFQEHGDPEAATRLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWIKA++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPASELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIKASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL--AGDESLN 187 A QK+LFFNLRR+K L+A D +LKPE + IA L VSE EV SMN R+ GD SLN Sbjct: 134 AAQKKLFFNLRRMKSQLEAFEDGDLKPEDLKKIATDLGVSEEEVTSMNRRMSMGGDASLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 ++ ++ +WQD LV Q++ L E EE+ R NML +++ LN RE+ I RR Sbjct: 194 --VSMNEDGEGEWQDMLVDQGPLQDERLAEVEEKSVRHNMLNEALAALNDREKHILVERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L + P TLE LS + VSRERVRQIE RAF K+Q+++ + Sbjct: 252 LVDEPKTLEELSQVYGVSRERVRQIEVRAFDKLQKAMMR 290 >gi|149187051|ref|ZP_01865358.1| RNA polymerase sigma factor [Erythrobacter sp. SD-21] gi|148829340|gb|EDL47784.1| RNA polymerase sigma factor [Erythrobacter sp. SD-21] Length = 319 Score = 297 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 161/279 (57%), Positives = 211/279 (75%), Gaps = 2/279 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EI+K P+L +++EY+LAKRY EHGD AA +LVTSHLRLV KIAMGYR Sbjct: 30 LGGEQSLNRYLSEIKKFPILTQEQEYMLAKRYEEHGDSEAAAQLVTSHLRLVSKIAMGYR 89 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+S+++SEGN+GLMQ VKKF+ +RGFRLATY+MWWIKA++QEYILRSWSLVK+GTT Sbjct: 90 GYGLPVSDLISEGNVGLMQGVKKFEADRGFRLATYAMWWIKASIQEYILRSWSLVKMGTT 149 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLN 187 A QK+LFFNLRR+K +L A D +L P+ V IA L V E EV++MN R + GD SLN Sbjct: 150 AAQKKLFFNLRRMKKNLDAYEDTDLHPDDVQKIATDLGVPEQEVVNMNRRMMMGGDGSLN 209 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + ++ S +W DWL D Q++ + + EE++ R ML +M LN RE+ I RR Sbjct: 210 VPMRNGEEGSGEWMDWLTDDRPLQDETVADAEEKEVRHEMLGEAMEALNEREQHILTERR 269 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ENP TLE LS + VSRER+RQIE RAF+K+Q++++ Sbjct: 270 LTENPQTLEELSQVYNVSRERIRQIEVRAFEKLQKAMKA 308 >gi|254419521|ref|ZP_05033245.1| alternative sigma factor RpoH [Brevundimonas sp. BAL3] gi|196185698|gb|EDX80674.1| alternative sigma factor RpoH [Brevundimonas sp. BAL3] Length = 286 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 171/281 (60%), Positives = 214/281 (76%), Gaps = 3/281 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ E GLSRY+ EIRK PML K EE++LAKR+ EH D AAHRLVTSHLRLV KIAMGYR Sbjct: 1 MSPEQGLSRYLTEIRKFPMLTKDEEFMLAKRWSEHQDPEAAHRLVTSHLRLVAKIAMGYR 60 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLVK+GTT Sbjct: 61 GYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGTT 120 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 A QK+LFFNLR+ K + A + +L PE + AIA KL VSE EV +MN RL GD SLNA Sbjct: 121 AAQKKLFFNLRKAKSQISAFEEGDLHPEHLAAIATKLGVSEEEVTNMNRRLGGDASLNAP 180 Query: 190 INSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + S+WQDWL D QE L + EE+ R ++L +M L RE+ I RRL Sbjct: 181 LRA--DGESEWQDWLADDTAVSQETQLADDEEKGIRMSLLQEAMEELTDREKHILTERRL 238 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +++PVTLE L+ ++ VSRERVRQIE RAF+K+Q++++ E Sbjct: 239 KDDPVTLEELAGQYGVSRERVRQIEVRAFEKLQKAMRAAAE 279 >gi|114797392|ref|YP_759060.1| RNA polymerase factor sigma-32 [Hyphomonas neptunium ATCC 15444] gi|114737566|gb|ABI75691.1| alternative sigma factor RpoH [Hyphomonas neptunium ATCC 15444] Length = 298 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 169/289 (58%), Positives = 220/289 (76%), Gaps = 3/289 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 S+ ++ E G+SRY+ EIRK PMLEK EE++LA+R+ EH D AA ++VTSHLRLV KIAM Sbjct: 9 SVALSPEQGMSRYLSEIRKFPMLEKNEEFMLARRWHEHEDTEAAEKMVTSHLRLVAKIAM 68 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLP++EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+AA+QEYILRSWSLVK+ Sbjct: 69 GYRGYGLPMAEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRAAIQEYILRSWSLVKL 128 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DES 185 GTTA QK+LFFNLRRLKG +QA+ + +LKPEQ IA+KLNV+E+EV SMN R++G D S Sbjct: 129 GTTAAQKKLFFNLRRLKGEMQALEEGDLKPEQARLIAEKLNVTETEVYSMNGRMSGSDAS 188 Query: 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEA 245 LN + +WQDWL D G + +E R +LT++M L+ RER I Sbjct: 189 LNVPM--GTDGDMEWQDWLADDEPGTAETFANSQELDARMTLLTQAMEDLSERERHILTE 246 Query: 246 RRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 RRL + P TLE LS ++ VSRER+RQIE RAF+K+Q+++++ + P Sbjct: 247 RRLVDEPKTLEELSEQYNVSRERIRQIEVRAFEKLQKAMKRMAKEQGLP 295 >gi|209965020|ref|YP_002297935.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] gi|209958486|gb|ACI99122.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] Length = 294 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 175/282 (62%), Positives = 222/282 (78%), Gaps = 3/282 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++N E L+RY+ EIRK PMLE +EEY+LAK +REHGD AAHRLVTSHLRLV KIAMGY Sbjct: 10 VINSESNLARYLQEIRKFPMLEAEEEYMLAKSWREHGDTDAAHRLVTSHLRLVAKIAMGY 69 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLP+SE++SEGN+G+MQAVK+FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+GT Sbjct: 70 RGYGLPLSELISEGNVGMMQAVKRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMGT 129 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLR+LKG +QAI + +L PE V IA+ L+V ES+V++MN RLA D SLN Sbjct: 130 TAAQKKLFFNLRKLKGQMQAIDEGDLHPETVRKIAETLDVPESDVVNMNRRLASPDHSLN 189 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + +WQDWLV + + QE L E+EE R+ +L +M LN RER I RR Sbjct: 190 APLRV--DGEGEWQDWLVDESESQEIRLGEREELGKRKALLAEAMKTLNDRERHILVERR 247 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 L++NP TLE+LS ++ +SRERVRQIE RAF+K+Q++I+ E Sbjct: 248 LRDNPTTLEDLSQQYGISRERVRQIEVRAFEKLQKAIRSAAE 289 >gi|260434077|ref|ZP_05788048.1| alternative sigma factor RpoH [Silicibacter lacuscaerulensis ITI-1157] gi|260417905|gb|EEX11164.1| alternative sigma factor RpoH [Silicibacter lacuscaerulensis ITI-1157] Length = 298 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 169/297 (56%), Positives = 218/297 (73%), Gaps = 5/297 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N KN+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH+LVTSHLRL Sbjct: 3 NYKNLPVPTP-EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEDHDTEAAHKLVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L P+ V IA L V+E EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLHPDNVKQIAHDLGVTEDEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q +EE + RR +L ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDESADQAGDYETREELEVRRELLAEALEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 I RRL + PVTLE LSS++ VSRER+RQIE RAF+K+Q+ ++ EL+ +L Sbjct: 242 DILTQRRLMDQPVTLEELSSQYNVSRERIRQIEVRAFEKLQKKMR---ELAREKGML 295 >gi|323137119|ref|ZP_08072198.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] gi|322397477|gb|EFX99999.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] Length = 294 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 177/292 (60%), Positives = 228/292 (78%), Gaps = 5/292 (1%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAM 66 ++ V E GL+RY+ EIR+ PMLE Q+EY+LAKR+REH D AA LVTSHLRLV KIAM Sbjct: 3 NLPVIAEGGLARYLAEIRRFPMLEPQQEYMLAKRWREHEDPKAAQELVTSHLRLVAKIAM 62 Query: 67 GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKI 126 GYRGYGLPI E++SEGN+GLMQAVK+F+P+RGFRLATY+MWWI+A++QEYILRSWSLVK+ Sbjct: 63 GYRGYGLPIGEIISEGNVGLMQAVKRFEPDRGFRLATYAMWWIRASIQEYILRSWSLVKM 122 Query: 127 GTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 GTTA+QK+LFFNLR+ K + A + +++PE V IA +L VS+ +VI MN R+ GD SL Sbjct: 123 GTTASQKKLFFNLRKAKSRISAFEEGDMRPENVEKIATRLGVSQQDVIEMNRRMGGDASL 182 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + ++ +WQDWLV D + QE++L+ +EE NR L ++ VLNPRERRIFEAR Sbjct: 183 NAPLR--EEGEGEWQDWLVDDSEDQERILVAQEENNNRLKALRGALDVLNPRERRIFEAR 240 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK---QVELSSSPP 295 RL ++PVTLE LS EF VSRERVRQIE RAF+KVQ +++ ++E + P Sbjct: 241 RLADDPVTLEQLSEEFGVSRERVRQIEVRAFEKVQAAVRSGVARIEAAHHAP 292 >gi|209542656|ref|YP_002274885.1| RNA polymerase factor sigma-32 [Gluconacetobacter diazotrophicus PAl 5] gi|209530333|gb|ACI50270.1| RNA polymerase, sigma 32 subunit, RpoH [Gluconacetobacter diazotrophicus PAl 5] Length = 295 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 172/281 (61%), Positives = 217/281 (77%), Gaps = 3/281 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V E LSRY+ +IRK PML ++E L++R+++ GD AAH LVTSHLRLV KIAMGYR Sbjct: 8 VGPESNLSRYLQDIRKFPMLSPEDEQRLSRRWKDKGDTEAAHALVTSHLRLVAKIAMGYR 67 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+ E++SEGNIG+MQAV++FDP+RGFRLATY+MWWI+AA+QEYIL SWSLVK+GTT Sbjct: 68 GYGLPLGELISEGNIGMMQAVRRFDPDRGFRLATYAMWWIRAAIQEYILHSWSLVKMGTT 127 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 A QK+LFFNLRRLKG +QAI D +LKPEQV IA+ L V E +VI+MN RL+ D SLNA Sbjct: 128 AAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNKIAESLGVPEQDVINMNRRLSAPDHSLNA 187 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + + +WQDWLV +HD QEQ L E EE R+ +L +M LN RER I RRL Sbjct: 188 PLRA--DSEGEWQDWLVDEHDNQEQTLAENEEFSGRKALLDNAMKTLNDRERHILTERRL 245 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 +++P TLE LS + +SRERVRQIE RAF+KVQ +++ +VE Sbjct: 246 KDDPATLEELSHTYNISRERVRQIEVRAFEKVQAAMKAEVE 286 >gi|167644630|ref|YP_001682293.1| RNA polymerase factor sigma-32 [Caulobacter sp. K31] gi|167347060|gb|ABZ69795.1| RNA polymerase, sigma 32 subunit, RpoH [Caulobacter sp. K31] Length = 295 Score = 296 bits (758), Expect = 3e-78, Method: Composition-based stats. Identities = 171/288 (59%), Positives = 222/288 (77%), Gaps = 5/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++S++ + + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRL Sbjct: 1 MAVSSLSVM-SPDGGLSRYLTEIRKFPMLPKDEEFMLAQRWKEHQDSEAAHKMVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P++GFRLATY+MWWI+A++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDKGFRLATYAMWWIRASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A D +L P+QV IA KL V +SEVISMN RL Sbjct: 120 WSLVKMGTTAAQKKLFFNLRKAKSQIAAFQDGDLHPDQVSYIATKLGVLDSEVISMNRRL 179 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYD-HDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 G D SLNA + + S+WQDWL D QE V+ E +E+ R +L +M L R Sbjct: 180 GGPDASLNAPLRA--DGESEWQDWLADDNQVSQETVVAENQEKSMRMTLLEEAMVELTDR 237 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ER I RRL+++P TLE+L++E+ VSRERVRQIE RAF+K+Q+S+++ Sbjct: 238 ERHILTERRLKDDPTTLEDLATEYGVSRERVRQIEVRAFEKLQKSMRE 285 >gi|94497521|ref|ZP_01304090.1| sigma 32 (RpoH) [Sphingomonas sp. SKA58] gi|94422938|gb|EAT07970.1| sigma 32 (RpoH) [Sphingomonas sp. SKA58] Length = 310 Score = 296 bits (758), Expect = 3e-78, Method: Composition-based stats. Identities = 165/290 (56%), Positives = 216/290 (74%), Gaps = 6/290 (2%) Query: 1 MNRKNMSII--VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHL 58 M + N+ + + GE L+RY+ EIRK P+L ++EY+LAKRY+EH D AA +LVTSHL Sbjct: 8 MAKSNVPAVPALGGEASLNRYLSEIRKFPLLTPEQEYMLAKRYQEHQDPEAAAQLVTSHL 67 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLV KIAMGYRGYGLP+SE++SEGNIGLMQ VKKF+ +RGFRLATY+MWWI+A++QE+IL Sbjct: 68 RLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFEADRGFRLATYAMWWIRASIQEFIL 127 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 RSWSLVK+GTTA QK+LFFNLRR+K +++A D +L+PE V IA L VSE +VISMN Sbjct: 128 RSWSLVKMGTTAAQKKLFFNLRRMKNNIEAFEDGDLRPEDVTKIATDLGVSEDDVISMNR 187 Query: 179 RLA--GDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 R+A GD SLN + + QWQDWL Q++ + +++E+ R +ML +M LN Sbjct: 188 RMAMGGDTSLNVPMR--EDGEGQWQDWLADTDPLQDERVADEQEKVQRHDMLVEAMDDLN 245 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 RE+ I RRL E P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 246 DREKHILAERRLAEEPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 295 >gi|148261701|ref|YP_001235828.1| RNA polymerase factor sigma-32 [Acidiphilium cryptum JF-5] gi|326405194|ref|YP_004285276.1| RNA polymerase sigma factor RpoH [Acidiphilium multivorum AIU301] gi|146403382|gb|ABQ31909.1| RNA polymerase, sigma 32 subunit, RpoH [Acidiphilium cryptum JF-5] gi|325052056|dbj|BAJ82394.1| RNA polymerase sigma factor RpoH [Acidiphilium multivorum AIU301] Length = 296 Score = 295 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 170/281 (60%), Positives = 217/281 (77%), Gaps = 3/281 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 + E L+RY+ EIRK PML +EE LA+ +R++ D +AAH+LVTSHLRLV KIAMGY Sbjct: 1 MAPSEGNLARYLQEIRKFPMLSPEEEDRLARAWRDNEDQAAAHKLVTSHLRLVAKIAMGY 60 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLP+ E++SEGN+G+MQAVK+FDPERGFRLATY+MWWI+AA+QEYIL SWSLVK+GT Sbjct: 61 RGYGLPLGELISEGNVGMMQAVKRFDPERGFRLATYAMWWIRAAIQEYILHSWSLVKMGT 120 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLN 187 TA QK+LFFNLRRLKG +QAI D +++PEQV IA+ L V E +V+SMN RL A D SLN Sbjct: 121 TAAQKKLFFNLRRLKGQMQAIEDGDMQPEQVEKIARVLGVPEQDVVSMNRRLTAPDHSLN 180 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A I +WQDWLV D D QE+ + + EE RR +L ++ LN RER I RR Sbjct: 181 APIRM--DGEGEWQDWLVDDADSQEEAIGDHEEMTGRRALLATALKTLNDRERHILIQRR 238 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 L+++P TLE+LS ++ +SRERVRQIE RAF+K+Q+S++ QV Sbjct: 239 LKDDPTTLEDLSQQYNISRERVRQIEVRAFEKLQKSMKAQV 279 >gi|296114957|ref|ZP_06833602.1| RNA polymerase factor sigma-32 [Gluconacetobacter hansenii ATCC 23769] gi|295978475|gb|EFG85208.1| RNA polymerase factor sigma-32 [Gluconacetobacter hansenii ATCC 23769] Length = 299 Score = 295 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 173/286 (60%), Positives = 220/286 (76%), Gaps = 3/286 (1%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 + +I+ E LS+Y+ +IRK PML +EE L++ ++E GD AAH+LVTSHLRLV K Sbjct: 3 SSSAILSGPENNLSKYLRDIRKFPMLSPEEELKLSRLWKEKGDTEAAHKLVTSHLRLVAK 62 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IAMGYRGYGLP+ E++SEGNIG+MQAV++FDPERGFRLATY+MWWI+AA+QEYIL SWSL Sbjct: 63 IAMGYRGYGLPVGELISEGNIGMMQAVRRFDPERGFRLATYAMWWIRAAIQEYILHSWSL 122 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG- 182 VKIGTTA QK+LFFNLRRLKG +QAI D +L+PEQV IAK L V E +V++MN RL+ Sbjct: 123 VKIGTTAAQKKLFFNLRRLKGQMQAIDDGDLQPEQVDKIAKSLGVPEQDVVNMNRRLSAP 182 Query: 183 DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 D SLNA + + + +WQDWLV DHD QEQ L E EE R+ +L +M LN RER I Sbjct: 183 DHSLNAPLRT--DSEGEWQDWLVDDHDNQEQTLAENEEYSGRKALLANAMQSLNERERHI 240 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 RRL+++P TLE+LS + +SRERVRQIE RAF+KVQ +++ +V Sbjct: 241 LTERRLKDDPATLEDLSHVYNISRERVRQIEVRAFEKVQNAMKAEV 286 >gi|259417918|ref|ZP_05741837.1| alternative sigma factor RpoH [Silicibacter sp. TrichCH4B] gi|259346824|gb|EEW58638.1| alternative sigma factor RpoH [Silicibacter sp. TrichCH4B] Length = 298 Score = 295 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 166/299 (55%), Positives = 219/299 (73%), Gaps = 5/299 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL Sbjct: 3 NYANLPAP-SPEGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPEAVKKIATDLGVTEDEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA++ ++ QWQDWL + Q ++E + RR +L +MSVLN RE+ Sbjct: 182 GGDASLNAMVGGDGDSTMQWQDWLEDEGADQAGDYEAQDELQARRELLAEAMSVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQK 299 I RRL + TLE LS +++VSRER+RQIE RAF+K+Q+ ++ EL++ +LQ Sbjct: 242 DILTQRRLADQAKTLEELSVQYDVSRERIRQIEVRAFEKLQKKMR---ELAAGKGMLQP 297 >gi|260575497|ref|ZP_05843496.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] gi|259022417|gb|EEW25714.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] Length = 298 Score = 295 bits (756), Expect = 5e-78, Method: Composition-based stats. Identities = 167/287 (58%), Positives = 219/287 (76%), Gaps = 1/287 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ +H D +AAH++VTSHLRL Sbjct: 1 MSTYTNLPAPSPEQGLNRYMQEIRKFPLLEPEEEYMLAKRWVDHQDATAAHKMVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA LNVSE+EVI MN RL Sbjct: 121 WSLVKLGTTSAQKKLFFNLRKAKAKVGALEEGDLRPENVARIAHDLNVSETEVIDMNRRL 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA + S + S+QWQDWL + Q E+ E + RR +L ++M+VLN RE Sbjct: 181 SGGDASLNATVGSDGEGSTQWQDWLEDEDSDQANDYAERNELEMRRALLVQAMAVLNDRE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + I RRL + PVTLE+LS+ + VSRER+RQIE RAF+K+QE +++ Sbjct: 241 KDILMQRRLADEPVTLEDLSASYGVSRERIRQIEVRAFEKLQERMRE 287 >gi|84688065|ref|ZP_01015924.1| RNA polymerase sigma factor [Maritimibacter alkaliphilus HTCC2654] gi|84663915|gb|EAQ10420.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2654] Length = 298 Score = 295 bits (756), Expect = 5e-78, Method: Composition-based stats. Identities = 169/298 (56%), Positives = 221/298 (74%), Gaps = 5/298 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N + + E GL+RY+ +IRK PMLE +EEY+LAKR+ +H D AAH+LVTSHLRL Sbjct: 3 NYQTLPAPTP-EGGLNRYLQDIRKFPMLEPEEEYMLAKRWVDHQDTDAAHQLVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA LNV+E EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPENVAQIAHDLNVTEEEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I + ++ QWQDWL + Q +++E RR ML ++M VLN RE+ Sbjct: 182 GGDASLNATITNDGDSTMQWQDWLEDEDADQAGDYEQRDELTVRREMLAQAMDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 I RRL + VTLE+LS +++VSRER+RQIE RAF+K+Q+ +Q EL+S + + Sbjct: 242 DILTQRRLSDETVTLEDLSGQYDVSRERIRQIEVRAFEKLQKRMQ---ELASEKGMAE 296 >gi|197103875|ref|YP_002129252.1| heat shock sigma factor RpoH [Phenylobacterium zucineum HLK1] gi|196477295|gb|ACG76823.1| heat shock sigma factor RpoH [Phenylobacterium zucineum HLK1] Length = 295 Score = 295 bits (756), Expect = 5e-78, Method: Composition-based stats. Identities = 178/287 (62%), Positives = 222/287 (77%), Gaps = 4/287 (1%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 N +++ E GLSRY+ EIRK PML K EE++LAKR++EH D AAHRLVTSHLRLV KI Sbjct: 4 NALAVMSPEGGLSRYLTEIRKFPMLAKDEEFMLAKRWQEHQDPEAAHRLVTSHLRLVAKI 63 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 AMGYRGYGLPI EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRSWSLV Sbjct: 64 AMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLV 123 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA-GD 183 K+GTTA QK+LFFNLR+ K + A+ + +L+PEQV IA KL V + EVISMN RLA GD Sbjct: 124 KMGTTAAQKKLFFNLRKAKSEISALEEGDLRPEQVRQIATKLGVLDEEVISMNRRLAGGD 183 Query: 184 ESLNALINSSDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 SLN+ + + + S+WQDWLV D QE V+ E EER R +L +M+ L RER I Sbjct: 184 ASLNSPLRA--DSESEWQDWLVDEDTPSQESVVAEAEERGIRMELLQEAMAELTDRERHI 241 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RRL++ P TLE L+S++ VSRERVRQIE RAF+K+Q+S++ E Sbjct: 242 LTERRLKDEPTTLEELASQYGVSRERVRQIEVRAFEKLQKSMRAAAE 288 >gi|58038976|ref|YP_190940.1| RNA polymerase factor sigma-32 [Gluconobacter oxydans 621H] gi|58001390|gb|AAW60284.1| Heat shock sigma factor RpoH [Gluconobacter oxydans 621H] Length = 297 Score = 295 bits (756), Expect = 6e-78, Method: Composition-based stats. Identities = 176/283 (62%), Positives = 216/283 (76%), Gaps = 3/283 (1%) Query: 8 IIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMG 67 I V E L+RY+ EIRK P+L QEE L++R+R+ D SAAHRLVTSHLRLV KIAMG Sbjct: 7 ISVGPENNLTRYLQEIRKFPLLTPQEELDLSRRWRKDEDTSAAHRLVTSHLRLVAKIAMG 66 Query: 68 YRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIG 127 YRGYGLP++E++SEGNIG+MQAV++FDPERGFRLATY+MWWI+AAMQEYIL SWSLVK+G Sbjct: 67 YRGYGLPVNELISEGNIGMMQAVRRFDPERGFRLATYAMWWIRAAMQEYILHSWSLVKMG 126 Query: 128 TTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESL 186 TTA QK+LFFNLRRLKG +QAI D +LKPEQV +IA L V E +V+SMN RLA D SL Sbjct: 127 TTAAQKKLFFNLRRLKGQMQAIDDGDLKPEQVNSIATTLGVPEQDVVSMNQRLAAPDHSL 186 Query: 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 NA + +WQDWLV DH+ QEQ EE R+ +L +++ LN RER I R Sbjct: 187 NAPLRI--DGEGEWQDWLVDDHENQEQTYAASEEFTGRKALLDQALMTLNERERHILSER 244 Query: 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RL+E P TLE LS + VSRER+RQIEARA +K+Q+++ +VE Sbjct: 245 RLKEEPSTLEELSHHYNVSRERIRQIEARAMEKLQKAMAAEVE 287 >gi|304320253|ref|YP_003853896.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] gi|303299155|gb|ADM08754.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] Length = 304 Score = 295 bits (755), Expect = 6e-78, Method: Composition-based stats. Identities = 168/279 (60%), Positives = 220/279 (78%), Gaps = 2/279 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ E GL+RY+ EIRK P+LE+ EEY+LAKR++EH D AA RL+TSHLRLV KIAMGYR Sbjct: 13 LSPEGGLNRYLAEIRKFPLLERDEEYMLAKRFKEHEDPDAAQRLITSHLRLVAKIAMGYR 72 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP EV+SEGN+GLMQAVKKFDP++GFRL+TY+MWWI+A++QEYILRSWSLVKIGTT Sbjct: 73 GYGLPTGEVISEGNVGLMQAVKKFDPDKGFRLSTYAMWWIRASIQEYILRSWSLVKIGTT 132 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 A QK+LFFNLR+LKG + A+ + +++PE+V IA +L V+E EVISMN R+AG D SLN+ Sbjct: 133 AAQKKLFFNLRKLKGQIDAVDEGDMRPEEVELIATRLGVTEDEVISMNRRMAGSDNSLNS 192 Query: 189 LINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + S ++WQDWLV ++ E L++ +E + R +L +M LN RER I RR Sbjct: 193 PMRSDGDGGAEWQDWLVDENAVNAESQLVKDDEFETRMELLQEAMVDLNDRERHILTERR 252 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ENP TLE LS E+ VSRER+RQIE RAF+K+Q+++++ Sbjct: 253 LTENPKTLEELSGEYGVSRERIRQIEVRAFEKLQKAMKR 291 >gi|23015588|ref|ZP_00055360.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 296 Score = 295 bits (755), Expect = 7e-78, Method: Composition-based stats. Identities = 176/286 (61%), Positives = 223/286 (77%), Gaps = 3/286 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M S+ + E L+RY+ +IRK PML +EEY+LAKR+REHGDL AA+RLVTSHLRL Sbjct: 1 MTAIASSLSLAPEGNLTRYLQDIRKFPMLPPEEEYLLAKRFREHGDLPAANRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+ E++SEGN+G+MQAV++FDPERGFRLATY+MWWI+AA+QEYIL S Sbjct: 61 VAKIAMGYRGYGLPLGELISEGNVGMMQAVRRFDPERGFRLATYAMWWIRAAIQEYILHS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+LKG +QAI + ++ E V IA KL V+E EVI+MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRKLKGQMQAIEEGDMSAENVAKIATKLEVTEDEVITMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 + D SLNA + + + +WQDWLV DH+ QE L E+EE RR MLT +++ LN RE Sbjct: 181 SSPDHSLNAPVRT--EGEGEWQDWLVDDHEDQETELGEREEMGQRRGMLTSALAALNDRE 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R I RRL E+P TLE+LS + +SRERVRQIE RAF+K+Q+S++ Sbjct: 239 RAILIQRRLTEDPATLEDLSQRYGISRERVRQIEVRAFEKLQKSVK 284 >gi|295688294|ref|YP_003591987.1| RNA polymerase sigma 32 factor subunit RpoH [Caulobacter segnis ATCC 21756] gi|295430197|gb|ADG09369.1| RNA polymerase, sigma 32 subunit, RpoH [Caulobacter segnis ATCC 21756] Length = 295 Score = 295 bits (755), Expect = 7e-78, Method: Composition-based stats. Identities = 170/288 (59%), Positives = 225/288 (78%), Gaps = 5/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++S++ + + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRL Sbjct: 1 MAVNSLSVM-SPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+P++GFRLATY+MWWI+A++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDKGFRLATYAMWWIRASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A + +L+PEQV AIA KL V +SEVISMN RL Sbjct: 120 WSLVKMGTTAAQKKLFFNLRKAKSQIAAFQEGDLRPEQVSAIATKLGVLDSEVISMNRRL 179 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +G D SLNA + S + S+WQDWL + QE + E EE+ R ++L +M L R Sbjct: 180 SGPDASLNAPLRS--DSESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDR 237 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ER I RRL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 238 ERHILTERRLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 285 >gi|260425792|ref|ZP_05779772.1| alternative sigma factor RpoH [Citreicella sp. SE45] gi|260423732|gb|EEX16982.1| alternative sigma factor RpoH [Citreicella sp. SE45] Length = 298 Score = 294 bits (754), Expect = 9e-78, Method: Composition-based stats. Identities = 170/286 (59%), Positives = 217/286 (75%), Gaps = 2/286 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ + E GLSRY+ EIRK P+LE +EEY+LAKR+ E D +AH+LVTSHLRL Sbjct: 3 NYANLPAP-SPEAGLSRYLSEIRKFPLLEPEEEYMLAKRWVEDQDAPSAHKLVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L VS+ EVISMN RL Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKSRIGALEEGDLRPEHVEKIATDLGVSKDEVISMNRRLS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S D +S QWQDWL + Q E+ E + RR +L ++M VLN RE+ Sbjct: 182 GGDASLNATVGSDDDSSMQWQDWLEDEGADQASDYAERNELEARRALLAQAMDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I RRL E PVTLE+LSS ++VSRER+RQIE RAF+K+Q+ +++ Sbjct: 242 DILTQRRLAEQPVTLEDLSSVYDVSRERIRQIEVRAFEKLQKRMRE 287 >gi|83592357|ref|YP_426109.1| RNA polymerase factor sigma-32 [Rhodospirillum rubrum ATCC 11170] gi|83575271|gb|ABC21822.1| Sigma 32 (RpoH) [Rhodospirillum rubrum ATCC 11170] Length = 306 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 159/278 (57%), Positives = 204/278 (73%), Gaps = 3/278 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E GLSRY+ EI++ PML +EE++LAKR ++ GD AAHRLVTSHLRLV KIAMGYR Sbjct: 11 VSDEGGLSRYLTEIKRFPMLTPEEEFMLAKRLQDEGDRDAAHRLVTSHLRLVAKIAMGYR 70 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 YGLP+S++V+EGN+GLM+AVKKF+ +RGFRLATY+MWWIKA++ EYIL SWSLVK+GT Sbjct: 71 HYGLPVSDLVAEGNMGLMKAVKKFEADRGFRLATYAMWWIKASINEYILNSWSLVKVGTV 130 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 A QK+LFFNLRRLK L + +L PE V IA +L V+E++V+ MN RLAG D SLN Sbjct: 131 AAQKKLFFNLRRLKAKLGVYEEGDLSPEDVKTIATQLKVTEADVVMMNRRLAGPDASLNV 190 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + S D L+ + D QE+V EE+ +L ++S L RER I ARRL Sbjct: 191 PV--GEDQSMDRMDLLMDEGDNQEEVYAAHEEQSLGNRLLKDALSTLTERERHIITARRL 248 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + PVTLE L E+ VSRERVRQIE RAF+K+Q +++K Sbjct: 249 RSEPVTLEELGGEYGVSRERVRQIENRAFEKLQTAVRK 286 >gi|83312286|ref|YP_422550.1| RNA polymerase factor sigma-32 [Magnetospirillum magneticum AMB-1] gi|82947127|dbj|BAE51991.1| DNA-directed RNA polymerase, sigma subunit [Magnetospirillum magneticum AMB-1] Length = 296 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 175/287 (60%), Positives = 222/287 (77%), Gaps = 3/287 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M S+ + E L+RY+ +IRK PML +EEY+LAKR+REHGDL AA+RLVTSHLRL Sbjct: 1 MTAIASSLSLAPEGNLTRYLQDIRKFPMLPPEEEYLLAKRFREHGDLPAANRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+ E++SEGN+G+MQAV++FDPERGFRLATY+MWWI+AA+QEYIL S Sbjct: 61 VAKIAMGYRGYGLPLGELISEGNVGMMQAVRRFDPERGFRLATYAMWWIRAAIQEYILHS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+LKG +QAI + ++ E V IA KL V+E EV++MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRKLKGQMQAIEEGDMSAENVAKIATKLEVTEDEVVTMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 + D SLNA + + + +WQDWLV DH+ QE L E+EE RR MLT ++ LN RE Sbjct: 181 SSPDHSLNAPVRA--EGEGEWQDWLVDDHEDQETELGEREELGQRRQMLTSALEALNDRE 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R I RRL E+P TLE+LS + +SRERVRQIE RAF+K+Q+S++ Sbjct: 239 RAILIQRRLTEDPATLEDLSQRYGISRERVRQIEVRAFEKLQKSVKS 285 >gi|119384948|ref|YP_916004.1| RNA polymerase factor sigma-32 [Paracoccus denitrificans PD1222] gi|119374715|gb|ABL70308.1| RNA polymerase, sigma 32 subunit, RpoH [Paracoccus denitrificans PD1222] Length = 301 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 168/288 (58%), Positives = 214/288 (74%), Gaps = 2/288 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + E GL+RY+ EIRK P+LE +EEY+LAK + +H D AA RLVTSHLRL Sbjct: 1 MANYTNLPAPSPEQGLNRYLQEIRKFPLLEPEEEYMLAKAWVDHQDAEAAQRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K L A+ + +L+PE V IA LNV+E EVI MN RL Sbjct: 121 WSLVKMGTTSAQKKLFFNLRKAKSKLGALEEGDLRPENVTQIAHDLNVTEQEVIDMNRRL 180 Query: 181 -AGDESLNALINSSDKNSS-QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +GD SLNA + S D S+ QWQDWL + Q + E +E RR ML +M VLN R Sbjct: 181 SSGDASLNATVGSGDGESTAQWQDWLEDEDANQAEAFAEADELSARREMLIAAMDVLNDR 240 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+ I RRL+++P+TLE+LS+ + VSRER+RQIE RAF+K+Q I++ Sbjct: 241 EKDILMERRLRDDPMTLEDLSTRYGVSRERIRQIEVRAFEKLQNRIRE 288 >gi|114763110|ref|ZP_01442536.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601] gi|114544163|gb|EAU47172.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601] Length = 298 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 171/286 (59%), Positives = 214/286 (74%), Gaps = 1/286 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M++ + E GLSRY+ EIRK P+LE +EEY+LAKR+ E D +AHRLVTSHLRL Sbjct: 1 MSKYANLPAPSPEAGLSRYLSEIRKFPLLEPEEEYMLAKRWVEDQDAESAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA L V+ EVISMN RL Sbjct: 121 WSLVKLGTTSAQKKLFFNLRKAKSRIGALEDGDLRPEHVERIATDLGVTHDEVISMNRRL 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA + S D++S QWQDWL + Q E+ E + RR +LT +M VLN RE Sbjct: 181 SGGDASLNATVGSDDESSMQWQDWLEDESADQAGDYAERNELEARRELLTEAMDVLNERE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 R I RRL E PVTLE LS ++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 241 RDILTQRRLAEQPVTLEELSGVYDVSRERIRQIEVRAFEKLQKRMR 286 >gi|163747420|ref|ZP_02154772.1| RNA polymerase sigma factor [Oceanibulbus indolifex HEL-45] gi|161379273|gb|EDQ03690.1| RNA polymerase sigma factor [Oceanibulbus indolifex HEL-45] Length = 298 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 163/285 (57%), Positives = 216/285 (75%), Gaps = 2/285 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA +L V+E+EV+SMN R+ Sbjct: 122 SLVKLGTTSGQKKLFFNLRKAKNKIGALEEGDLRPENVTEIATQLGVTEAEVVSMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q E++E + RR ML ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYAERDELETRREMLADALDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I RRL + VTLE+LS++++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 242 DILTQRRLSDETVTLEDLSTQYDVSRERIRQIEVRAFEKLQKRMR 286 >gi|329849869|ref|ZP_08264715.1| alternative sigma factor RpoH [Asticcacaulis biprosthecum C19] gi|328841780|gb|EGF91350.1| alternative sigma factor RpoH [Asticcacaulis biprosthecum C19] Length = 299 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 172/288 (59%), Positives = 222/288 (77%), Gaps = 5/288 (1%) Query: 1 MNRKNMSII--VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHL 58 + N+S ++ + GL+RY+ EIRK PML K EE++LAKR++EH D AAH+LVTSHL Sbjct: 7 LTTSNLSSTPALSPDGGLNRYLSEIRKFPMLAKDEEFMLAKRWQEHQDPKAAHKLVTSHL 66 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLV KIAMGYRGYGLP+ EV+SEGN+GLMQAVKKFD +RGFRLATY+MWWIKA++QEY+L Sbjct: 67 RLVAKIAMGYRGYGLPVGEVISEGNVGLMQAVKKFDADRGFRLATYAMWWIKASIQEYVL 126 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 RSWSLVK+GTTA QK+LFFNLR++K + A+ + +L+ EQV IA KL VSE++VI+MN Sbjct: 127 RSWSLVKMGTTAAQKKLFFNLRKVKSEISALEEGDLRHEQVEQIATKLGVSETDVINMNR 186 Query: 179 RLAG-DESLNALINSSDKNSSQWQDWLVYD-HDGQEQVLIEKEERKNRRNMLTRSMSVLN 236 R++ D SLNA I +S+ S+WQDWLV D QE VL + EE R +L +M LN Sbjct: 187 RMSSPDSSLNAPIRASEGE-SEWQDWLVDDKQVSQETVLADSEEYSQRMGLLEAAMGELN 245 Query: 237 PRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 RER I RRL+++P TLE+L+ F VSRERVRQIE RAF+K+Q+++ Sbjct: 246 AREREILTERRLKDSPTTLEDLAERFGVSRERVRQIEVRAFEKLQKAM 293 >gi|159045149|ref|YP_001533943.1| RNA polymerase factor sigma-32 [Dinoroseobacter shibae DFL 12] gi|157912909|gb|ABV94342.1| RNA polymerase [Dinoroseobacter shibae DFL 12] Length = 298 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 165/286 (57%), Positives = 214/286 (74%), Gaps = 1/286 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + E GL+RY+ EIRK PMLE +EEY+LAKR+ +H D AAH++VTSHLRL Sbjct: 1 MASYTNLPAPSPEQGLNRYLQEIRKFPMLEPEEEYMLAKRWVDHEDTEAAHKMVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA LNV+E EVISMN R+ Sbjct: 121 WSLVKLGTTSAQKKLFFNLRKAKNRIGALEEGDLRPENVARIANDLNVTEDEVISMNRRM 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA+I S + +++WQDWL + Q EK+E RR +L +M VLN RE Sbjct: 181 SGGDASLNAMIGSDGEGATEWQDWLEDEDADQADDFAEKDELMVRRELLAEAMGVLNDRE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I RRL++ P TLE LS + VSRER+RQIE RAF+K+Q++++ Sbjct: 241 KDILMKRRLEDKPATLEELSEVYGVSRERIRQIEVRAFEKLQKAMR 286 >gi|294678332|ref|YP_003578947.1| RNA polymerase sigma-32 factor [Rhodobacter capsulatus SB 1003] gi|294477152|gb|ADE86540.1| RNA polymerase sigma-32 factor-2 [Rhodobacter capsulatus SB 1003] Length = 299 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 172/279 (61%), Positives = 216/279 (77%), Gaps = 2/279 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + E GL+RY+ EIRK P+LE +EEY+LAK + +H D AAHRLVTSHLRL KIAMGYR Sbjct: 10 PSPEQGLNRYLQEIRKFPLLEPEEEYMLAKAWVDHQDPKAAHRLVTSHLRLAAKIAMGYR 69 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+AA+QEYILRSWSLVK+GTT Sbjct: 70 GYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRAAIQEYILRSWSLVKLGTT 129 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 + QK+LFFNLR+ K + A+ + +L+P+ V IA LNVSE +VI MN RLAG D SLNA Sbjct: 130 SAQKKLFFNLRKAKSKIGALDEGDLRPDAVAKIAHDLNVSEDDVIEMNRRLAGSDASLNA 189 Query: 189 LINSSDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + +SD S +QWQDWL + Q + E +E + RR ML +M VLN RER I ARR Sbjct: 190 QVGASDGESATQWQDWLEDEDADQAEAYAEADELQARRAMLVAAMDVLNERERDILMARR 249 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L++ PVTLE LSS+++VSRER+RQIE RAF+K+Q ++ Sbjct: 250 LRDEPVTLEELSSQYDVSRERIRQIEVRAFEKLQGRMKA 288 >gi|310815299|ref|YP_003963263.1| alternative sigma factor RpoH [Ketogulonicigenium vulgare Y25] gi|308754034|gb|ADO41963.1| alternative sigma factor RpoH [Ketogulonicigenium vulgare Y25] Length = 298 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 163/285 (57%), Positives = 211/285 (74%), Gaps = 1/285 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + E GLSRY+ EIRK PMLE ++EY+LA+ + +HGD AAH+LVTSHLRL Sbjct: 1 MSTYTNLPAPSPEQGLSRYLQEIRKFPMLEPEQEYMLARNWVDHGDTQAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V E EV++MN RL Sbjct: 121 WSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPEHVQRIAHDLGVPEEEVVNMNRRL 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA++ D +S+QWQDWL + Q ++E RR +L +M LN RE Sbjct: 181 SGGDASLNAMVGGDDDSSTQWQDWLEDEDSDQAADFEARDELDARRVLLEAAMEDLNDRE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 R + RRLQ+ PVTLE LS ++ VSRER+RQIE RAF+K+Q+ + Sbjct: 241 RDVLMMRRLQDPPVTLEELSEKYSVSRERIRQIEVRAFEKLQKRM 285 >gi|2384764|gb|AAC97123.1| heat shock sigma factor [Rhodobacter capsulatus] Length = 299 Score = 293 bits (750), Expect = 2e-77, Method: Composition-based stats. Identities = 171/279 (61%), Positives = 214/279 (76%), Gaps = 2/279 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + E GL+RY+ EIRK P+LE +EEY+LAK + +H D AAHRLVTSHLRL KIAMGYR Sbjct: 10 PSPEQGLNRYLQEIRKFPLLEPEEEYMLAKAWVDHQDPKAAHRLVTSHLRLAAKIAMGYR 69 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+AA+QEYILRSWSLVK+GTT Sbjct: 70 GYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRAAIQEYILRSWSLVKLGTT 129 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNA 188 + QK+LFFNLR+ K + A + +L+P+ V IA LNVSE +VI MN RLAG D SLNA Sbjct: 130 SAQKKLFFNLRKAKSKIGAFEEGDLRPDAVAKIAHDLNVSEGDVIEMNRRLAGSDASLNA 189 Query: 189 LINSSDKNS-SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + D S +QWQDWL + Q + E +E + RR ML +M VLN RER I ARR Sbjct: 190 QVGAGDGESATQWQDWLEDEDADQAEAYAEADELQARRAMLVAAMDVLNERERDILMARR 249 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L++ PVTLE LSS+++VSRER+RQIE RAF+K+Q ++ Sbjct: 250 LRDEPVTLEELSSQYDVSRERIRQIEVRAFEKLQGRMKA 288 >gi|89067929|ref|ZP_01155373.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] gi|89046527|gb|EAR52583.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] Length = 297 Score = 293 bits (750), Expect = 2e-77, Method: Composition-based stats. Identities = 168/287 (58%), Positives = 215/287 (74%), Gaps = 2/287 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M N+ + E GL+RY+ EIR+ PMLE +EEY+LAKR+ +H D AAH+LVTSHLRL Sbjct: 1 MPTNNLPAP-SPEQGLNRYLQEIRRFPMLEPEEEYMLAKRWVDHEDTDAAHKLVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+A++QEYILRS Sbjct: 60 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V+E+EVISMN RL Sbjct: 120 WSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVAQIANDLGVTETEVISMNRRL 179 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA+I + +++QWQDWL + Q E++E RR +L +M VLN RE Sbjct: 180 SGGDASLNAMIGTEGDSATQWQDWLEDESADQAGDYEERDELSTRRELLGEAMDVLNDRE 239 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + I RRLQ+ VTLE LS ++ VSRER+RQIE RAF K+Q +Q+ Sbjct: 240 KDILTQRRLQDQAVTLEELSGQYGVSRERIRQIEVRAFDKLQARMQQ 286 >gi|99080404|ref|YP_612558.1| RNA polymerase factor sigma-32 [Ruegeria sp. TM1040] gi|99036684|gb|ABF63296.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. TM1040] Length = 299 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 168/298 (56%), Positives = 220/298 (73%), Gaps = 5/298 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ + E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL Sbjct: 3 NYANLPAP-SPEGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPEVVKKIATDLGVTEDEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA++ S ++ QWQDWL + Q ++E + RR +L +MSVLN RE+ Sbjct: 182 GGDASLNAMVGSDGDSTMQWQDWLEDEDADQAGDYEARDELQARRELLAEAMSVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 I RRL E TLE LS +++VSRER+RQIE RAF+K+Q+ ++ EL++ +LQ Sbjct: 242 DILTQRRLAEQAKTLEELSVQYDVSRERIRQIEVRAFEKLQKKMR---ELAAGKGMLQ 296 >gi|239977584|sp|P0CAW9|RP32_CAUCR RecName: Full=RNA polymerase sigma-32 factor gi|239977655|sp|B8H3C3|RP32_CAUCN RecName: Full=RNA polymerase sigma-32 factor gi|1262200|gb|AAC43981.1| RpoH [Caulobacter vibrioides] gi|1588870|prf||2209377A heat shock sigma factor 32 Length = 295 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 168/288 (58%), Positives = 222/288 (77%), Gaps = 5/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++S++ + + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRL Sbjct: 1 MAVNSLSVM-SPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A + +L P+QV IA KL V +SEVISMN RL Sbjct: 120 WSLVKMGTTAAQKKLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKLGVLDSEVISMNRRL 179 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +G D SLNA + + S+WQDWL + QE + E EE+ R ++L +M L R Sbjct: 180 SGPDASLNAPLRA--DGESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDR 237 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ER I RRL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 238 ERHILTERRLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 285 >gi|16127328|ref|NP_421892.1| RNA polymerase factor sigma-32 [Caulobacter crescentus CB15] gi|221236131|ref|YP_002518568.1| RNA polymerase factor sigma-32 [Caulobacter crescentus NA1000] gi|13424754|gb|AAK25060.1| heat shock sigma factor RpoH [Caulobacter crescentus CB15] gi|220965304|gb|ACL96660.1| RNA polymerase sigma-32 factor [Caulobacter crescentus NA1000] Length = 298 Score = 292 bits (749), Expect = 3e-77, Method: Composition-based stats. Identities = 168/288 (58%), Positives = 222/288 (77%), Gaps = 5/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++S++ + + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRL Sbjct: 4 MAVNSLSVM-SPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRL 62 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRS Sbjct: 63 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRS 122 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A + +L P+QV IA KL V +SEVISMN RL Sbjct: 123 WSLVKMGTTAAQKKLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKLGVLDSEVISMNRRL 182 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +G D SLNA + + S+WQDWL + QE + E EE+ R ++L +M L R Sbjct: 183 SGPDASLNAPLRA--DGESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDR 240 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ER I RRL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 241 ERHILTERRLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 288 >gi|307293092|ref|ZP_07572938.1| RNA polymerase, sigma 32 subunit, RpoH [Sphingobium chlorophenolicum L-1] gi|306881158|gb|EFN12374.1| RNA polymerase, sigma 32 subunit, RpoH [Sphingobium chlorophenolicum L-1] Length = 304 Score = 291 bits (746), Expect = 6e-77, Method: Composition-based stats. Identities = 162/279 (58%), Positives = 210/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L ++EY+LAKRY EH D AA +LVTSHLRLV KIAMGYR Sbjct: 13 LGGEASLNRYLSEIRKFPILTPEQEYMLAKRYAEHADSEAAAQLVTSHLRLVAKIAMGYR 72 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWI+A++QE+ILRSWSLVK+GTT Sbjct: 73 GYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIRASIQEFILRSWSLVKMGTT 132 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRR+K +++A D +L P+ V IA L V+E +VISMN R+A GD SLN Sbjct: 133 AAQKKLFFNLRRMKNNIEAFEDGDLHPDDVKKIATDLGVTEEDVISMNRRMAMGGDTSLN 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + QWQDWL Q++ + +++E + R +ML +M LN RE+ I RR Sbjct: 193 VPMR--EDGEGQWQDWLADTDPLQDERVADRQESELRHDMLVEAMDDLNDREKHILAERR 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L E P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 251 LAEEPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 289 >gi|89055891|ref|YP_511342.1| RNA polymerase factor sigma-32 [Jannaschia sp. CCS1] gi|88865440|gb|ABD56317.1| RNA polymerase, sigma 32 subunit, RpoH [Jannaschia sp. CCS1] Length = 298 Score = 291 bits (746), Expect = 7e-77, Method: Composition-based stats. Identities = 165/286 (57%), Positives = 216/286 (75%), Gaps = 2/286 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ + E GL+RY+ EIRK PMLE +EEY+LAK + E D AAH++VTSHLRL Sbjct: 3 NYANLPAP-SPEGGLNRYLQEIRKFPMLEPEEEYMLAKAWAEKEDTEAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVKKFDPE+GFRLATY+MWWI+AA+QEY+LRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKKFDPEKGFRLATYAMWWIRAAIQEYVLRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 S+VK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V+E+EV+SMN R+ Sbjct: 122 SMVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVERIANDLGVTEAEVVSMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S D+ S+QWQDWL + Q E++E ++R ++ +M VLN RE+ Sbjct: 182 GGDASLNATVGSEDEGSAQWQDWLEDEDADQATDYAERDEFQSRMALMAEAMEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I RRLQE VTLE+LS + VSRERVRQIE RAF+K+Q+ +++ Sbjct: 242 DILTQRRLQEKAVTLEDLSGVYNVSRERVRQIEVRAFEKLQKRMRE 287 >gi|254464548|ref|ZP_05077959.1| alternative sigma factor RpoH [Rhodobacterales bacterium Y4I] gi|206685456|gb|EDZ45938.1| alternative sigma factor RpoH [Rhodobacterales bacterium Y4I] Length = 298 Score = 291 bits (746), Expect = 8e-77, Method: Composition-based stats. Identities = 164/297 (55%), Positives = 218/297 (73%), Gaps = 5/297 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D ++AH++VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDAASAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPENVKRIATDLGVTEDEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR +L ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLAEALDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 I RRL + VTLE+LS+++ VSRER+RQIE RAF+K+Q+ ++ EL+ +L Sbjct: 242 DILTQRRLMDQAVTLEDLSAQYNVSRERIRQIEVRAFEKLQKKMR---ELAGEKGML 295 >gi|1184690|gb|AAB01724.1| RNA polymerase sigma 32 subunit [Caulobacter crescentus CB15] Length = 295 Score = 291 bits (746), Expect = 8e-77, Method: Composition-based stats. Identities = 168/288 (58%), Positives = 221/288 (76%), Gaps = 5/288 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++S++ + + GLSRY+ EIRK PML K EE++LA+R++EH D AAH++VTSHLRL Sbjct: 1 MAVNSLSVM-SPDGGLSRYLTEIRKFPMLSKDEEFMLAQRWKEHQDPQAAHKMVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRS Sbjct: 60 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLR+ K + A + +L P+QV IA KL V +SEVISMN RL Sbjct: 120 WSLVKMGTTAAQKKLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKLGVLDSEVISMNRRL 179 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHD-GQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +G D SLNA + S+WQDWL + QE + E EE+ R ++L +M L R Sbjct: 180 SGPDASLNAPLRR--DGESEWQDWLADEEQVSQETRVAEDEEKSLRMSLLEEAMVELTDR 237 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ER I RRL+++P TLE L++++ VSRERVRQIE RAF+K+Q+++++ Sbjct: 238 ERHILTERRLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKLQKTMRE 285 >gi|110679109|ref|YP_682116.1| RNA polymerase factor sigma-32 [Roseobacter denitrificans OCh 114] gi|109455225|gb|ABG31430.1| RNA polymerase sigma-32 factor [Roseobacter denitrificans OCh 114] Length = 298 Score = 291 bits (745), Expect = 9e-77, Method: Composition-based stats. Identities = 168/294 (57%), Positives = 217/294 (73%), Gaps = 2/294 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE QEEY+LAKR+ E D AAH++VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPLLEPQEEYMLAKRWVEEQDTEAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L P+ V IAK L V+E+EVISMN R+ Sbjct: 122 SLVKLGTTSGQKKLFFNLRKAKNKIGALEEGDLHPDNVARIAKDLGVTETEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR +L +MSVLN RER Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLADAMSVLNDRER 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 I + RRL E VTLE+LS+E+ VSRER+RQIE RAF+K+Q+ ++ + P Sbjct: 242 DILQQRRLSEQTVTLEDLSAEYNVSRERIRQIEVRAFEKLQKKMRDLAKEKGMP 295 >gi|87201057|ref|YP_498314.1| RNA polymerase factor sigma-32 [Novosphingobium aromaticivorans DSM 12444] gi|87136738|gb|ABD27480.1| RNA polymerase, sigma 32 subunit, RpoH [Novosphingobium aromaticivorans DSM 12444] Length = 299 Score = 290 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 164/279 (58%), Positives = 211/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L ++EY+LAKR++EH D AA +LVTSHLRLV KIAMGYR Sbjct: 13 LGGEASLNRYLSEIRKFPVLTAEQEYMLAKRFQEHQDPEAAAQLVTSHLRLVAKIAMGYR 72 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWIKA+MQE+ILRSWSLVK+GTT Sbjct: 73 GYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIKASMQEFILRSWSLVKMGTT 132 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL--AGDESLN 187 A QK+LFFNLRR+K +L+A D++L P+ V IA L V E EV++MN R+ GD SLN Sbjct: 133 AAQKKLFFNLRRMKKNLEAFEDSDLHPDDVRKIATDLGVPEQEVVNMNRRMMMGGDASLN 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 ++ + WQDWL D Q++ + + EE + R +L +M LN RER I RR Sbjct: 193 --VSMREDGEGSWQDWLTDDRPLQDETVADAEEAQYRHELLVEAMESLNERERHILTDRR 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L ++P TLE LS + VSRERVRQIE RAF+K+Q++IQ+ Sbjct: 251 LIDDPKTLEELSQVYNVSRERVRQIEVRAFEKLQKAIQR 289 >gi|294011928|ref|YP_003545388.1| RNA polymerase sigma-32 factor [Sphingobium japonicum UT26S] gi|292675258|dbj|BAI96776.1| RNA polymerase sigma-32 factor [Sphingobium japonicum UT26S] Length = 304 Score = 290 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 162/279 (58%), Positives = 210/279 (75%), Gaps = 4/279 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + GE L+RY+ EIRK P+L ++EY+LAKRY EH D AA +LVTSHLRLV KIAMGYR Sbjct: 13 LGGEASLNRYLSEIRKFPILTPEQEYMLAKRYAEHQDSEAAAQLVTSHLRLVAKIAMGYR 72 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKF+P+RGFRLATY+MWWI+A++QE+ILRSWSLVK+GTT Sbjct: 73 GYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIRASIQEFILRSWSLVKMGTT 132 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRR+K +++A D +L P+ V IA L V+E +VISMN R+A GD SLN Sbjct: 133 AAQKKLFFNLRRMKNNIEAFEDGDLHPDDVKKIATDLGVTEEDVISMNRRMAMGGDTSLN 192 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 + + QWQDWL Q++ + +++E + R +ML +M LN RE+ I RR Sbjct: 193 VPMR--EDGEGQWQDWLADSDPLQDERVADRQESELRHDMLVEAMDDLNDREKHILAERR 250 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 L E P TLE LS + VSRERVRQIE RAF+K+Q+++ + Sbjct: 251 LAEEPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMR 289 >gi|126727088|ref|ZP_01742925.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] gi|126703516|gb|EBA02612.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] Length = 289 Score = 290 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 165/281 (58%), Positives = 211/281 (75%), Gaps = 1/281 (0%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + E GL+RY+ EIRK PMLE +EEY+LAK + EH D AAHRLVTSHLRL KIAMGYR Sbjct: 4 PSPEQGLNRYMQEIRKFPMLEPEEEYMLAKNWVEHQDSGAAHRLVTSHLRLAAKIAMGYR 63 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP +EVVSE N+GLMQAVKKFDPE+GFRL+TY+MWWI+A++QEY+LRSWSLVK+GTT Sbjct: 64 GYGLPQAEVVSEANVGLMQAVKKFDPEKGFRLSTYAMWWIRASIQEYVLRSWSLVKLGTT 123 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNA 188 + QK+LFFNLR+ K + A+ + +L+PE V IA LNV+E+EVISMN R+ GD SLN Sbjct: 124 SAQKKLFFNLRKAKNRIGALEEGDLRPENVAKIASDLNVTETEVISMNRRMSGGDASLNV 183 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + + ++QWQDWL D Q +++E RR ++ ++M+VLN RE+ I RRL Sbjct: 184 QVGGDGEGTAQWQDWLADDSADQAGDYEKQDELDTRRELMAQAMAVLNDREKEILMERRL 243 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 Q+ P TLE LS F VSRER+RQIE RAF+K+Q ++ E Sbjct: 244 QDKPKTLEELSEVFSVSRERIRQIEVRAFEKLQTEMRSLAE 284 >gi|254477747|ref|ZP_05091133.1| alternative sigma factor RpoH [Ruegeria sp. R11] gi|214031990|gb|EEB72825.1| alternative sigma factor RpoH [Ruegeria sp. R11] Length = 298 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 160/298 (53%), Positives = 217/298 (72%), Gaps = 5/298 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D ++AH++VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDANSAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L P+ V IA L V+E EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLHPDSVKKIATDLGVTEDEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + + + + QWQDWL + Q ++E + RR +L ++ VLN RE+ Sbjct: 182 GGDASLNATVGTEGEGAMQWQDWLEDEDADQAGDYEARDELEARRELLASALEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 I RRL + TLE+LS+++ VSRER+RQIE RAF+K+Q+ ++ EL++ +L Sbjct: 242 DILTQRRLADQAKTLEDLSTQYGVSRERIRQIEVRAFEKLQKKMR---ELAAQKGMLP 296 >gi|84500884|ref|ZP_00999119.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] gi|84390951|gb|EAQ03369.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] Length = 298 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 162/290 (55%), Positives = 215/290 (74%), Gaps = 4/290 (1%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYR Sbjct: 10 PSPEGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYR 69 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT Sbjct: 70 GYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTT 129 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNA 188 + QK+LFFNLR+ K + A+ + +L P+ V IA L V+E+EVISMN R+ GD SLNA Sbjct: 130 SAQKKLFFNLRKAKARIGALEEGDLHPDNVKQIANDLGVTEAEVISMNRRMSGGDASLNA 189 Query: 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL 248 + +++ +WQDWL + Q E++E +RR +L +M+VLN RER I RRL Sbjct: 190 TVGMDAESAMEWQDWLEDEEADQAGDYAERDEMDSRRELLAEAMAVLNDRERDILTQRRL 249 Query: 249 QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 E +TLE+LS ++ VSRER+RQIE RAF+K+Q ++ EL+ +L Sbjct: 250 SEETITLEDLSEQYGVSRERIRQIEVRAFEKLQLQMR---ELAQEKGMLP 296 >gi|163733965|ref|ZP_02141406.1| RNA polymerase sigma factor [Roseobacter litoralis Och 149] gi|161392501|gb|EDQ16829.1| RNA polymerase sigma factor [Roseobacter litoralis Och 149] Length = 298 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 167/294 (56%), Positives = 217/294 (73%), Gaps = 2/294 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE QEEY+LAKR+ E D AAH++VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPLLEPQEEYMLAKRWVEEQDTEAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L P+ V IAK L V+E+EVISMN R+ Sbjct: 122 SLVKLGTTSGQKKLFFNLRKAKNKIGALEEGDLHPDNVARIAKDLGVTETEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR +L +MSVLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEGADQAGDYEARDELEARRELLADAMSVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSP 294 I + RRL E VTLE+LS+E+ VSRER+RQIE RAF+K+Q+ ++ + P Sbjct: 242 DILQQRRLSEKTVTLEDLSAEYNVSRERIRQIEVRAFEKLQKKMRDLAKEKGMP 295 >gi|163738663|ref|ZP_02146077.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] gi|163742952|ref|ZP_02150335.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161383635|gb|EDQ08021.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161387991|gb|EDQ12346.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] Length = 298 Score = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 162/297 (54%), Positives = 218/297 (73%), Gaps = 5/297 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D ++AH++VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYLQEIRKFPLLEPEEEYMLAKRWVEEQDSASAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L P+ V IA L V+E+EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLHPDSVKKIATDLGVTETEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR +L ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLASALEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 I RRL + TLE+LS+++ VSRER+RQIE RAF+K+Q+ ++ EL+S +L Sbjct: 242 DILTQRRLADQAKTLEDLSTQYGVSRERIRQIEVRAFEKLQKKMR---ELASEKGML 295 >gi|254511947|ref|ZP_05124014.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium KLH11] gi|221535658|gb|EEE38646.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium KLH11] Length = 298 Score = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 163/297 (54%), Positives = 217/297 (73%), Gaps = 5/297 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL Sbjct: 3 NYSNLPAPTP-EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVKKFDPE+GFRLATY+MWWI+A++QEY+LRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKKFDPEKGFRLATYAMWWIRASIQEYVLRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 S+VK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA+ L V+E EVISMN R+ Sbjct: 122 SMVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVARIAEDLGVTEEEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR +L ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLAAALDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 I RRL + VTLE LS+++ VSRER+RQIE RAF+K+Q+ ++ EL+ +L Sbjct: 242 DILTQRRLMDQVVTLEELSTQYNVSRERIRQIEVRAFEKLQKKMR---ELAREKGML 295 >gi|126729201|ref|ZP_01745015.1| RNA polymerase sigma factor [Sagittula stellata E-37] gi|126710191|gb|EBA09243.1| RNA polymerase sigma factor [Sagittula stellata E-37] Length = 298 Score = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 166/285 (58%), Positives = 213/285 (74%), Gaps = 2/285 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ + E GLSRY+ EIRK P+LE ++EY+LAKR+ E D AAH+LVTSHLRL Sbjct: 3 NYANLPAP-SPEAGLSRYLQEIRKFPLLEPEQEYMLAKRWVEDEDTQAAHQLVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA L V++ EVISMN RL Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKSRIGALEDGDLRPEHVEKIATDLGVTQDEVISMNRRLS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q E+ E + RR +L ++M VLN RER Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGEYAERNELEARRALLEQAMDVLNDRER 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I RRL + VTLE LS +++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 242 DILSQRRLSDQAVTLEELSGQYDVSRERIRQIEVRAFEKLQKRMR 286 >gi|288962535|ref|YP_003452830.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288914801|dbj|BAI76286.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 296 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 173/287 (60%), Positives = 223/287 (77%), Gaps = 3/287 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + E LSRY+ EIRK PMLE + EY+LAKR+++H D AAH+LVTSHLRL Sbjct: 1 MATGSNLPAIGSESNLSRYLQEIRKFPMLEPEREYMLAKRWQQHEDSGAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+SE++SEGN+G+MQAVK+FDP+RGFRLATY+MWWI+AA+QEYIL S Sbjct: 61 VAKIAMGYRGYGLPLSELISEGNVGMMQAVKRFDPDRGFRLATYAMWWIRAAIQEYILHS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLRRLKG +QAI + +L PEQV AIA KL+V E +V++MN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRRLKGQMQAIEEGDLSPEQVQAIATKLDVPEQDVVNMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 A D SLNA + + ++ +WQD+LV + QE L ++EE RR +L +M+ LN RE Sbjct: 181 ASPDHSLNAPLRA--ESEGEWQDFLVDESASQEIALADREELGKRRKLLVEAMTGLNERE 238 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R I RRL+E P TLE+LS ++ +SRERVRQIE RAF+K+Q++I+ Sbjct: 239 RDILTERRLREAPTTLEDLSQKYGISRERVRQIEVRAFEKLQKAIKA 285 >gi|126738732|ref|ZP_01754428.1| RNA polymerase sigma factor [Roseobacter sp. SK209-2-6] gi|126719913|gb|EBA16620.1| RNA polymerase sigma factor [Roseobacter sp. SK209-2-6] Length = 298 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 164/299 (54%), Positives = 217/299 (72%), Gaps = 5/299 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAK + E D AAH++VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPLLEPEEEYMLAKAWVEKEDTGAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V+E EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVAQIAHDLGVTEEEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR +L ++M VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLVQAMEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQK 299 I RRL + TLE+LS E+ VSRER+RQIE RAF+K+Q+ ++ +L+S +L + Sbjct: 242 DILTQRRLSDQATTLEDLSGEYGVSRERIRQIEVRAFEKLQKKMR---DLASEKGMLAR 297 >gi|86137868|ref|ZP_01056444.1| RNA polymerase sigma factor [Roseobacter sp. MED193] gi|85825460|gb|EAQ45659.1| RNA polymerase sigma factor [Roseobacter sp. MED193] Length = 298 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 164/297 (55%), Positives = 218/297 (73%), Gaps = 5/297 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAK + E D AAHR+VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPLLEPEEEYMLAKAWVEKEDSGAAHRMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEY+LRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYVLRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 S+VK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V+E EVISMN R+ Sbjct: 122 SMVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVAKIAHDLGVTEDEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR +L +++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARRELLGQALEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 I RRL EN TLE LS+++ VSRER+RQIE RAF+K+Q+ ++ EL+S+ +L Sbjct: 242 DILTKRRLAENVQTLEELSAQYSVSRERIRQIEVRAFEKLQKKMR---ELASAKGML 295 >gi|126733180|ref|ZP_01748927.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] gi|126716046|gb|EBA12910.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] Length = 298 Score = 289 bits (740), Expect = 4e-76, Method: Composition-based stats. Identities = 165/286 (57%), Positives = 213/286 (74%), Gaps = 2/286 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N KN+ E GL+RY+ EIRK PMLE ++EY+LAKR+ +H D AAH++VTSHLRL Sbjct: 3 NYKNLPAPTP-EGGLNRYMQEIRKFPMLEPEQEYMLAKRWVDHEDTDAAHQMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA L V+E EVISMN RL Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKNRIGALEDGDLRPENVERIANDLGVTEQEVISMNRRLS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA +++ + ++QWQDWL + +E RR +L +M VLN RE+ Sbjct: 182 GGDASLNATVSADGEGAAQWQDWLEDESANTAADYEASDELTARRELLAEAMEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I RRL E VTLE+LS +++VSRER+RQIE RAF+K+Q +Q+ Sbjct: 242 DILMQRRLSEETVTLEDLSGQYDVSRERIRQIEVRAFEKLQAKMQE 287 >gi|163794484|ref|ZP_02188455.1| RNA polymerase sigma-32 factor [alpha proteobacterium BAL199] gi|159180208|gb|EDP64731.1| RNA polymerase sigma-32 factor [alpha proteobacterium BAL199] Length = 298 Score = 289 bits (740), Expect = 4e-76, Method: Composition-based stats. Identities = 177/278 (63%), Positives = 221/278 (79%), Gaps = 3/278 (1%) Query: 9 IVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGY 68 ++ E LSRY+ EIRK PMLE EEYVLAK +REH D+ +AH+LVTSHLRLV KIAMGY Sbjct: 10 SISVEGNLSRYLQEIRKFPMLEPGEEYVLAKSWREHDDVESAHKLVTSHLRLVAKIAMGY 69 Query: 69 RGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGT 128 RGYGLP++E++SEGN+G+MQAVK+FDPERGFRLATY+MWWI+A++QEYIL SWSLVK+GT Sbjct: 70 RGYGLPLAELISEGNVGMMQAVKRFDPERGFRLATYAMWWIRASIQEYILHSWSLVKMGT 129 Query: 129 TANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLN 187 TA QK+LFFNLRRLKG +QAI D +L PE+V AIA+KL+VSE++V+SMN RLA D SLN Sbjct: 130 TAAQKKLFFNLRRLKGQMQAIEDGDLSPERVTAIAEKLDVSEADVVSMNRRLASPDHSLN 189 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 A + +WQDWLV + QE E EE RR +L +M LN RER I RR Sbjct: 190 APLRQ--DGEGEWQDWLVDEGQNQEVSFAEDEELSKRRRLLNVAMETLNDRERHILTERR 247 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 L++NP TLE+LS E+++SRERVRQIE RAF+K+Q++I+ Sbjct: 248 LRDNPTTLEDLSQEYDISRERVRQIEVRAFEKLQKAIK 285 >gi|330814385|ref|YP_004358624.1| RNA polymerase sigma factor RpoH [Candidatus Pelagibacter sp. IMCC9063] gi|327487480|gb|AEA81885.1| RNA polymerase sigma factor RpoH [Candidatus Pelagibacter sp. IMCC9063] Length = 300 Score = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 163/290 (56%), Positives = 220/290 (75%), Gaps = 3/290 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 + + N+ + E S Y+ +IRK PML+ EEYVLAK +RE GD AAH+LVTSHLRL Sbjct: 5 LTKTNLPTLTP-EGSFSSYLSKIRKFPMLDAAEEYVLAKNWREQGDKDAAHKLVTSHLRL 63 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP+SE+VSEGNIGLMQAV+KFDPE+GFRLATY+MWWIKA++QEY+LRS Sbjct: 64 VAKIAMGYRGYGLPVSELVSEGNIGLMQAVRKFDPEKGFRLATYAMWWIKASIQEYVLRS 123 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTT+ QK+LFFNL+++K + A N+ PE + IA +L+V E EV+SMN RL Sbjct: 124 WSLVKIGTTSAQKKLFFNLKKIKNQIFAAEQGNMLPEHITEIATQLDVREDEVVSMNQRL 183 Query: 181 AGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 AG E SLNA + + + ++WQDW+V ++ QE + +K+E R+++L ++ VL+ RE Sbjct: 184 AGHEHSLNAPVG-GEDSDAEWQDWVVDENADQELQISQKQELNQRQSLLKNALHVLDERE 242 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 + I RRL + P TLE LS + +VSRER+RQIE RAF+KVQ+++ + ++ Sbjct: 243 KEILHNRRLIDEPKTLEELSQKHKVSRERIRQIENRAFEKVQKAMLENIK 292 >gi|56696293|ref|YP_166650.1| RNA polymerase factor sigma-32 [Ruegeria pomeroyi DSS-3] gi|56678030|gb|AAV94696.1| RNA polymerase sigma-32 factor [Ruegeria pomeroyi DSS-3] Length = 298 Score = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 162/298 (54%), Positives = 215/298 (72%), Gaps = 4/298 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M E GL+RY+ EIRK P+LE +EEY+LAKR+ E D +AH++VTSHLRL Sbjct: 1 MANYTTLPAPTPEGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDAESAHKMVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+AA+QEYILRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRAAIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L VSE +VISMN R+ Sbjct: 121 WSLVKLGTTSAQKKLFFNLRKAKAKIGALEEGDLRPENVARIAHDLGVSEDDVISMNRRM 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA + S + + QWQDWL + Q ++E + RR +L ++ VLN RE Sbjct: 181 SGGDASLNATVGSEGEGTMQWQDWLEDEDADQAADYEARDELEARRELLASALDVLNERE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLL 297 + + RRL + VTLE+LS+++ VSRER+RQIE RAF+K+Q+ ++ EL+ +L Sbjct: 241 KDVLTQRRLLDQTVTLEDLSAQYNVSRERIRQIEVRAFEKLQKRMR---ELAREKGML 295 >gi|218670385|ref|ZP_03520056.1| RNA polymerase factor sigma-32 [Rhizobium etli GR56] Length = 266 Score = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 192/251 (76%), Positives = 221/251 (88%) Query: 38 AKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPER 97 AKRY EHGD AAH+LVTSHLRLV KIAMGYRGYGLPI EVVSEGN+GLMQAVKKFDPER Sbjct: 2 AKRYAEHGDRDAAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPER 61 Query: 98 GFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPE 157 GFRLATY+MWWIKA++QEYILRSWSLVK+GTTANQKRLFFNLRRLKG +QAI D +LKPE Sbjct: 62 GFRLATYAMWWIKASIQEYILRSWSLVKMGTTANQKRLFFNLRRLKGRIQAIDDGDLKPE 121 Query: 158 QVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIE 217 V IA KLNVSE EVISMN RL+GD SLNA I +++ +S QWQDWLV DHD QE VLIE Sbjct: 122 HVSEIATKLNVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHDSQEDVLIE 181 Query: 218 KEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAF 277 ++E + RR ML+++MSVLN RERRIFEARRL E PVTLE+LS+EF++SRERVRQIE RAF Sbjct: 182 QDELETRRRMLSKAMSVLNERERRIFEARRLAEEPVTLEDLSAEFDISRERVRQIEVRAF 241 Query: 278 KKVQESIQKQV 288 +KVQ++++K+ Sbjct: 242 EKVQDAVRKEA 252 >gi|254462386|ref|ZP_05075802.1| alternative sigma factor RpoH [Rhodobacterales bacterium HTCC2083] gi|206678975|gb|EDZ43462.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium HTCC2083] Length = 298 Score = 288 bits (738), Expect = 6e-76, Method: Composition-based stats. Identities = 165/286 (57%), Positives = 214/286 (74%), Gaps = 2/286 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK PMLE +EEY+LAK + E D +AAH++VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPMLEPEEEYMLAKSWVEKQDTAAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EVVSE N+GLMQAVK+FDPE+GFRL+TY+MWWI+AA+QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVVSEANVGLMQAVKRFDPEKGFRLSTYAMWWIRAAIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +++PE V IA L V+E+EVISMN R+ Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKNRIGALEEGDMRPENVARIAHDLGVTETEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++E + RR ML +M VLN RE+ Sbjct: 182 GGDASLNAQVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARREMLADAMDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I RRL + PVTLE+LS +++VSRER+RQIE RAF+K+QE ++ Sbjct: 242 DILVQRRLSDKPVTLEDLSGQYDVSRERIRQIEVRAFEKLQERMRS 287 >gi|83941135|ref|ZP_00953597.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] gi|83846955|gb|EAP84830.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] Length = 298 Score = 288 bits (738), Expect = 6e-76, Method: Composition-based stats. Identities = 164/285 (57%), Positives = 214/285 (75%), Gaps = 2/285 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L P+ V IA L V+E+EVISMN R+ Sbjct: 122 SLVKLGTTSGQKKLFFNLRKAKNRIGALEEGDLHPDNVKRIATDLGVTETEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q E++E + RR ML ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQATDYEERDELETRREMLAEALDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 I RRL + VTLE+LSS+++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 242 DILTQRRLSDQTVTLEDLSSQYDVSRERIRQIEVRAFEKLQKRMR 286 >gi|254700317|ref|ZP_05162145.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|261750811|ref|ZP_05994520.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|261740564|gb|EEY28490.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] Length = 262 Score = 288 bits (738), Expect = 6e-76, Method: Composition-based stats. Identities = 180/262 (68%), Positives = 219/262 (83%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M + + I +G+ GL+RY+ EIR+ PMLE QEEY+LAKRY EH D AAH+LVTSHLRL Sbjct: 1 MAQMKLPSITSGDGGLTRYLEEIRRFPMLEPQEEYMLAKRYHEHADPKAAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI EV+SEGN+GLMQAVK+F+PERGFRLATY+MWWIKA++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTANQKRLFFNLR++K +QA+ D +L P+QV IA KLNVSE EV+SMN RL Sbjct: 121 WSLVKMGTTANQKRLFFNLRKMKSKIQALDDGDLNPDQVKQIATKLNVSEDEVVSMNRRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 +GD SLNA + +S+ S +WQDWLV D + QEQVLIE++E ++RR+ML ++M LN RER Sbjct: 181 SGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRSMLEQAMETLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEF 262 RIFEARRL E P+TLE+LS EF Sbjct: 241 RIFEARRLAEEPMTLEDLSGEF 262 >gi|83949442|ref|ZP_00958175.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] gi|83837341|gb|EAP76637.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] Length = 298 Score = 288 bits (737), Expect = 7e-76, Method: Composition-based stats. Identities = 160/286 (55%), Positives = 210/286 (73%), Gaps = 2/286 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAK + E D AAHR+VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYLQEIRKFPLLEPEEEYMLAKAWVEKQDTEAAHRMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 S+VK+GTT+ QK+LFFNLR+ K + A+ + ++ P+ V IA L V+E EVISMN R+ Sbjct: 122 SMVKLGTTSAQKKLFFNLRKAKARIGALEEGDMHPDNVKRIATDLGVTEDEVISMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q ++ E + R +LT +M VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEKRNEMETRLELLTEAMDVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I RRL + VTLE+LS+E+ VSRER+RQIE RAF+K+Q+ ++ Sbjct: 242 DILSQRRLNDETVTLEDLSTEYGVSRERIRQIEVRAFEKLQKRMRS 287 >gi|254501465|ref|ZP_05113616.1| alternative sigma factor RpoH [Labrenzia alexandrii DFL-11] gi|222437536|gb|EEE44215.1| alternative sigma factor RpoH [Labrenzia alexandrii DFL-11] Length = 269 Score = 288 bits (737), Expect = 9e-76, Method: Composition-based stats. Identities = 182/268 (67%), Positives = 217/268 (80%), Gaps = 1/268 (0%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 ML+ QEEY+LAKRY+EH D AA RLV SHLRLV KIAMGYRGYGLPI EVVSEGN+GLM Sbjct: 1 MLQPQEEYMLAKRYKEHEDPEAAERLVNSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 QAVK+F+P++GFRLATY+MWWIKAA+QEYILRSWSLVK+GTTANQKRLFFNLRRLKG +Q Sbjct: 61 QAVKRFEPDKGFRLATYAMWWIKAAIQEYILRSWSLVKMGTTANQKRLFFNLRRLKGKIQ 120 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 A+ + +LKP QV IA +L VSE EV+SMN RL GD SLNA I ++ ++ +WQDWLV + Sbjct: 121 ALEEGDLKPHQVQEIATRLGVSEEEVVSMNRRLGGDASLNAPIR-AEADAGEWQDWLVDE 179 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 D QE +L +EE RR ML+ +M VLN RERRIFEARRL E+P+TLE+LS EF VSRE Sbjct: 180 SDSQETLLANQEELDMRRKMLSDAMDVLNDRERRIFEARRLSEDPMTLEDLSGEFGVSRE 239 Query: 268 RVRQIEARAFKKVQESIQKQVELSSSPP 295 RVRQIE RAF+KVQ++++ P Sbjct: 240 RVRQIEVRAFEKVQKAVRNSARTLDQQP 267 >gi|149202313|ref|ZP_01879286.1| RNA polymerase sigma factor [Roseovarius sp. TM1035] gi|149144411|gb|EDM32442.1| RNA polymerase sigma factor [Roseovarius sp. TM1035] Length = 298 Score = 287 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 164/286 (57%), Positives = 215/286 (75%), Gaps = 2/286 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL Sbjct: 3 NYNNLPAPTP-EGGLNRYMQEIRKFPLLEPEEEYMLAKRWAEEQDTEAAHKMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPERGFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 SLVK+GTT+ QK+LFFNLR+ K + A+ + +++P+ V IA L V+E+EVISMN R+A Sbjct: 122 SLVKLGTTSAQKKLFFNLRKAKAKIGALEEGDMRPDVVKKIATDLGVTEAEVISMNQRMA 181 Query: 182 G-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 G D SLNA + + + S QWQDWL + Q ++E RR +L ++M VLN RER Sbjct: 182 GADASLNATVGAEGEGSMQWQDWLEDEDADQAGDYERRDELDARRELLVQAMDVLNERER 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 I RRL + VTLE+LS+E++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 242 DILTQRRLSDETVTLEDLSAEYDVSRERIRQIEVRAFEKLQKRMRA 287 >gi|254441831|ref|ZP_05055324.1| alternative sigma factor RpoH [Octadecabacter antarcticus 307] gi|198251909|gb|EDY76224.1| alternative sigma factor RpoH [Octadecabacter antarcticus 307] Length = 298 Score = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 160/286 (55%), Positives = 213/286 (74%), Gaps = 1/286 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + E GL+RY+ EIRK PMLE EEY+LAKR+ +H D AAH++VTSHLRL Sbjct: 1 MSSYTNLPAPSPEQGLNRYMQEIRKFPMLEPDEEYMLAKRWVDHEDTDAAHKMVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEY+LRS Sbjct: 61 AAKIAMGYRGYGLPTAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WS+VK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V+E+EV+SMN R+ Sbjct: 121 WSMVKLGTTSAQKKLFFNLRKAKNRIGALEEGDLRPENVQRIANDLGVTEAEVVSMNRRM 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA + S + + QWQDWL + Q +++E + RR ++ +M VLN RE Sbjct: 181 SGGDASLNATVGSDGEGTMQWQDWLEDESADQAGDYEDRDELQQRRELMAEAMDVLNDRE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + I RRL E VTLE+LS ++ VSRER+RQIE RAF+K+Q+ +Q Sbjct: 241 KDILMQRRLAEKTVTLEDLSGQYSVSRERIRQIEVRAFEKLQKKMQ 286 >gi|84515395|ref|ZP_01002757.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] gi|84510678|gb|EAQ07133.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] Length = 303 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 169/284 (59%), Positives = 212/284 (74%), Gaps = 2/284 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 + KN+ E GL+RY+ EIRK PMLE +EEY+LAKR+ +H D AAH++VTSHLRL Sbjct: 8 DYKNLPAPTP-EGGLNRYMQEIRKFPMLEPEEEYMLAKRWVDHEDTEAAHKMVTSHLRLA 66 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 67 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 126 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +L+PE V IA L V+E EVISMN RL Sbjct: 127 SLVKMGTTSAQKKLFFNLRKAKNRIGALEEGDLRPENVKQIANDLGVTEDEVISMNRRLS 186 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA I S + S QWQDWL D E +E RR +L +M++LNPRE+ Sbjct: 187 GGDASLNAQIGSDGEGSMQWQDWLEDDSANTAADYEEHDELDARRALLVEAMTLLNPREK 246 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I RRL E VTLE+LS+ +EVSRER+RQIE RAF+K+Q + Sbjct: 247 DILVQRRLAEETVTLEDLSARYEVSRERIRQIEVRAFEKLQSRM 290 >gi|254456610|ref|ZP_05070039.1| alternative sigma factor RpoH [Candidatus Pelagibacter sp. HTCC7211] gi|207083612|gb|EDZ61038.1| alternative sigma factor RpoH [Candidatus Pelagibacter sp. HTCC7211] Length = 297 Score = 286 bits (732), Expect = 3e-75, Method: Composition-based stats. Identities = 156/284 (54%), Positives = 214/284 (75%), Gaps = 4/284 (1%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N + E GLS Y+ +I+K PML +EEY+LAK ++ G++ AA +LVTSHLRLV Sbjct: 4 TYNNNLPALTNEGGLSAYLEQIKKFPMLAAEEEYMLAKNWKTTGNVKAAEKLVTSHLRLV 63 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGY+GYGLP++E++SEGN+GLMQAVKKF+PE+GFRLATY+MWWIKA++QEYILRSW Sbjct: 64 AKIAMGYKGYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWWIKASIQEYILRSW 123 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA 181 SLVKIGTT QK+LFFNL+++K + T+ +L+ E V IA KL+VS+ EV+SMN RL+ Sbjct: 124 SLVKIGTTTAQKKLFFNLKKIKNQIAPQTEGDLRNEHVNEIANKLDVSKEEVVSMNRRLS 183 Query: 182 GDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 G E SLNA + ++ +WQDWLV + +EE + R+++L S+ VLN RER Sbjct: 184 GKEFSLNAQVG---EDGDEWQDWLVDKELDHDLKFAHQEEMEQRKDLLKNSIKVLNDRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I +RRL ++P TLE+LS ++++SRERVRQIE +AF+K+Q+ + Sbjct: 241 EILYSRRLNDDPTTLEDLSKKYKISRERVRQIENKAFEKLQKHM 284 >gi|56551645|ref|YP_162484.1| RNA polymerase factor sigma-32 [Zymomonas mobilis subsp. mobilis ZM4] gi|241761228|ref|ZP_04759316.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|260752767|ref|YP_003225660.1| RNA polymerase factor sigma-32 [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|59803027|sp|P50512|RP32_ZYMMO RecName: Full=RNA polymerase sigma-32 factor gi|56543219|gb|AAV89373.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ZM4] gi|241374135|gb|EER63632.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|258552130|gb|ACV75076.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 302 Score = 285 bits (731), Expect = 4e-75, Method: Composition-based stats. Identities = 172/291 (59%), Positives = 215/291 (73%), Gaps = 7/291 (2%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + G+ L+ Y+ +IRK P+L+ +EEY+LAKR++EH D AA RLVTSHLRLV KIAMGYR Sbjct: 14 LGGDQSLNHYLADIRKFPILKPEEEYMLAKRFQEHQDPKAASRLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKFDPERGFRLATY++WWIKA++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAIWWIKASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRRLK ++ A D +LKP++V +IA L VS EV++MN R+A GD SLN Sbjct: 134 AAQKKLFFNLRRLKSNMNAFEDGDLKPDEVDSIATNLGVSNEEVVNMNRRMAMGGDSSLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + Q QDWLV Q+Q + E+EE R +L +M LN RE+ I RR Sbjct: 194 --ITMREDGEGQMQDWLVDQEPLQDQQIEEEEESLVRHKLLIEAMDKLNDREKHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 L +NP TLE LS + VSRERVRQIE RAF K+Q++I +EL+ LL Sbjct: 252 LSDNPKTLEELSQVYGVSRERVRQIEVRAFDKLQKAI---MELAGDRKLLP 299 >gi|255263634|ref|ZP_05342976.1| alternative sigma factor RpoH [Thalassiobium sp. R2A62] gi|255105969|gb|EET48643.1| alternative sigma factor RpoH [Thalassiobium sp. R2A62] Length = 298 Score = 285 bits (730), Expect = 5e-75, Method: Composition-based stats. Identities = 163/287 (56%), Positives = 214/287 (74%), Gaps = 1/287 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + E GL+RY+ EIRK PMLE +EEY+LAK + E+ D +AH+LVTSHLRL Sbjct: 1 MSTYTNLPAPSPEQGLNRYLQEIRKFPMLEPEEEYMLAKSWVENEDSKSAHKLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 KIAMGYRGYGLP +EV+SE N+GLMQAVKKFDPE+GFRL+TY+MWWI+AA+QEY+LRS Sbjct: 61 AAKIAMGYRGYGLPQAEVISEANVGLMQAVKKFDPEKGFRLSTYAMWWIRAAIQEYVLRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WS+VK+GTT+ QK+LFFNLR+ K + A+ D +L+PE V IA L V+E EVI+MN RL Sbjct: 121 WSMVKLGTTSAQKKLFFNLRKAKSRIGALEDGDLRPEHVERIANDLGVNEQEVINMNRRL 180 Query: 181 -AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 GD SLNA + S + + QWQDWL + Q K+E +RR +L +MSVLN RE Sbjct: 181 SGGDASLNAQVGSEGEGTMQWQDWLEDEDADQAGDYEAKDELDSRRELLADAMSVLNDRE 240 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + I RRLQ+ +TLE LS +++VSRER+RQIE RAF+K+Q+ +++ Sbjct: 241 KDILMQRRLQDKAITLEELSGQYDVSRERIRQIEVRAFEKLQKKMRE 287 >gi|83859148|ref|ZP_00952669.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] gi|83852595|gb|EAP90448.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] Length = 296 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 170/297 (57%), Positives = 222/297 (74%), Gaps = 4/297 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M ++ ++ E GLSRY+ EIRK PMLEK +E++LAKR++EH D AAH+LVTSHLRL Sbjct: 1 MANMKTALTMSPEAGLSRYLAEIRKFPMLEKDQEFMLAKRWQEHEDSDAAHQLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLPI+EV+SEGN+GLMQAVKKFDP++GFRLATY+MWWI+A++QEYILRS Sbjct: 61 VAKIAMGYRGYGLPIAEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVK+GTTA QK+LFFNLRR+K ++A+ + +L+P+QV IA KL V++ +VISMN RL Sbjct: 121 WSLVKMGTTAAQKKLFFNLRRMKSQMRALDEGDLRPDQVEEIATKLGVTDDDVISMNRRL 180 Query: 181 AG-DESLNALINSSDKNSSQWQDW-LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 +G D SLNA + + ++WQDW D D E L E +E R +L +M LN R Sbjct: 181 SGPDASLNAPMRA--DGEAEWQDWLADDDADDAEDELAESDEFSMRMTLLQEAMGALNER 238 Query: 239 ERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPP 295 E+ I + RRL E P TLE+L+ + VSRER+RQIE RAF+K+Q +++ E P Sbjct: 239 EQNIIQERRLTEEPKTLEDLAQVYGVSRERIRQIEVRAFEKLQNEMKRLAEERGLMP 295 >gi|1143379|dbj|BAA09444.1| sigma-32 homolog [Zymomonas mobilis] Length = 302 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 172/291 (59%), Positives = 215/291 (73%), Gaps = 7/291 (2%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + G+ L+ Y+ +IRK P+L+ +EEY+LAKR++EH D AA RLVTSHLRLV KIAMGYR Sbjct: 14 LGGDQSLNHYLADIRKFPILKPEEEYMLAKRFQEHQDPKAASRLVTSHLRLVAKIAMGYR 73 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 GYGLP+SE++SEGNIGLMQ VKKFDPERGFRLATY++WWIKA++QEYILRSWSLVK+GTT Sbjct: 74 GYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAIWWIKASIQEYILRSWSLVKMGTT 133 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLA--GDESLN 187 A QK+LFFNLRRLK ++ A D +LKP++V +IA L VS EV++MN R+A GD SLN Sbjct: 134 AAQKKLFFNLRRLKSNMNAFEDGDLKPDEVDSIATNLGVSNEEVVNMNRRMAMGGDSSLN 193 Query: 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARR 247 I + Q QDWLV Q+Q + E+EE R +L +M LN RE+ I RR Sbjct: 194 --ITMREDGEGQMQDWLVDQEPLQDQQIEEEEESLVRHKLLIEAMDRLNDREKHILTERR 251 Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQ 298 L +NP TLE LS + VSRERVRQIE RAF K+Q++I +EL+ LL Sbjct: 252 LSDNPKTLEELSQVYGVSRERVRQIEVRAFDKLQKAI---MELAGDRKLLP 299 >gi|254486865|ref|ZP_05100070.1| alternative sigma factor RpoH [Roseobacter sp. GAI101] gi|214043734|gb|EEB84372.1| alternative sigma factor RpoH [Roseobacter sp. GAI101] Length = 298 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 163/284 (57%), Positives = 214/284 (75%), Gaps = 2/284 (0%) Query: 2 NRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLV 61 N N+ E GL+RY+ EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL Sbjct: 3 NYANLPAPTP-EGGLNRYMQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLA 61 Query: 62 VKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSW 121 KIAMGYRGYGLP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSW Sbjct: 62 AKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSW 121 Query: 122 SLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL- 180 SLVK+GTT+ QK+LFFNLR+ K + A+ + +++PE V IA L V+E+EV+SMN R+ Sbjct: 122 SLVKLGTTSGQKKLFFNLRKAKNRIGALEEGDMRPENVSRIATDLGVTEAEVVSMNRRMS 181 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 GD SLNA + S + + QWQDWL + Q E+EE + RR ML ++ VLN RE+ Sbjct: 182 GGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEEREELETRREMLAEALEVLNDREK 241 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 I RRL + +TLE+LSS+++VSRER+RQIE RAF+K+Q+ + Sbjct: 242 DILTQRRLSDETITLEDLSSQYDVSRERIRQIEVRAFEKLQKRM 285 >gi|288962386|ref|YP_003452681.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288914652|dbj|BAI76137.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 293 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 155/280 (55%), Positives = 205/280 (73%), Gaps = 2/280 (0%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + LSRYI++ + P+L ++EY+LAK + EHGD+ AAHRLVTSHLRL Sbjct: 1 MSTAIALRSPDAGESLSRYINDTHRYPVLTAEDEYMLAKAWTEHGDVDAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VVKIA GYRGYGLP+S++++EGN+GLM AVKKF+PERGFRL+TY+MWWIKA++Q+YILRS Sbjct: 61 VVKIAGGYRGYGLPLSDLIAEGNLGLMTAVKKFEPERGFRLSTYAMWWIKASIQDYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTA QK+LFF+L RLK L +L P+ V +IA L V E +V++MN RL Sbjct: 121 WSLVKIGTTAAQKKLFFSLGRLKRKLGEYGGGDLHPDSVTSIATDLAVPEDDVVAMNRRL 180 Query: 181 AGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 + SLNA S++ +S +WQD L D E+ L+E+ E + R +L +M VLN RE Sbjct: 181 SAPVASLNAP-MSAEGDSGEWQDLLADDRPSVEESLVERGEARQRSALLHEAMGVLNDRE 239 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKK 279 R I +RRL ++P+TLE+LS + VSRER+RQIE RAF+K Sbjct: 240 RDILTSRRLSDSPLTLEDLSVRYGVSRERIRQIEERAFEK 279 >gi|23014972|ref|ZP_00054764.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 292 Score = 283 bits (724), Expect = 2e-74, Method: Composition-based stats. Identities = 145/287 (50%), Positives = 214/287 (74%), Gaps = 5/287 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ N+ +V G+ GL++Y+ +I++ P+L +EE++LAKR+ ++ D AAH+LVTSHLRL Sbjct: 1 MSVANLP-VVAGDDGLAKYLRDIKEFPVLAPEEEFMLAKRWVDYEDTEAAHKLVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYR YGLP+++++SEGNIGLM+AVKKF+P+RGFRLATY+MWWIKA++ E++L S Sbjct: 60 VAKIALGYRHYGLPVADLISEGNIGLMRAVKKFEPDRGFRLATYAMWWIKASLNEFVLNS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WS+VKIGT A QK+LFFNLRR+K L+ + +L PE V IA++L+V E +V++MN R+ Sbjct: 120 WSMVKIGTLAAQKKLFFNLRRIKSRLRLLESGDLAPEHVTTIARELDVDERDVVAMNRRM 179 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 AG D SLN + + ++ QD + + D QE L ++EE R ++ R++ L RE Sbjct: 180 AGRDSSLNTPVG---EGGAEIQDLMADEADNQETSLAKREELSKGRTLIARALDSLTERE 236 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R +F RRL+++P+TLE L + VSRER+RQIE +AF+KV++ +Q Sbjct: 237 REVFVERRLRDDPLTLEELGGRYGVSRERIRQIEVKAFEKVRDLVQA 283 >gi|144898533|emb|CAM75397.1| Sigma-70 region 2:Sigma-70 region 4 [Magnetospirillum gryphiswaldense MSR-1] Length = 290 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 148/280 (52%), Positives = 208/280 (74%), Gaps = 4/280 (1%) Query: 3 RKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVV 62 R + I + GLS+Y+ EIR P+LE ++EY+LAKR+ ++ D +AAH+LVTSHLRLV Sbjct: 2 RATVPAISADDSGLSKYLREIRDFPVLEPEQEYMLAKRWVDYEDTAAAHQLVTSHLRLVA 61 Query: 63 KIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 KIAMGYR YGLP+++++SEGN+GLM+AVKKF+PERGFRL+TY+MWWIKA++ E++L SWS Sbjct: 62 KIAMGYRHYGLPMADLISEGNLGLMRAVKKFEPERGFRLSTYAMWWIKASLNEFVLNSWS 121 Query: 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG 182 LVKIGT A QK+LFFNLR++K L+ + L P V AIAK+L VSE++V++MN R+ G Sbjct: 122 LVKIGTLAAQKKLFFNLRKVKTKLRLLDATELAPADVRAIAKELGVSETDVVNMNRRMGG 181 Query: 183 -DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERR 241 D SLN + ++ ++ + L + D QE L + EE R ++ ++++ LN RER Sbjct: 182 RDSSLNTPVG---ESGTEIIELLPDETDNQETGLAKHEELSKGRKLIAQALTSLNERERE 238 Query: 242 IFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 IF RRL++ P+TLE L + F VSRER+RQIE +AF+KV+ Sbjct: 239 IFVERRLRDEPLTLEELGARFGVSRERIRQIEVKAFEKVR 278 >gi|254453399|ref|ZP_05066836.1| alternative sigma factor RpoH [Octadecabacter antarcticus 238] gi|198267805|gb|EDY92075.1| alternative sigma factor RpoH [Octadecabacter antarcticus 238] Length = 298 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 159/274 (58%), Positives = 208/274 (75%), Gaps = 1/274 (0%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 E GL+RY+ EIRK PMLE EEY+LAKR+ +H D AAH++VTSHLRL KIAMGYRGYG Sbjct: 13 EQGLNRYMQEIRKFPMLEPDEEYMLAKRWVDHEDTEAAHKMVTSHLRLAAKIAMGYRGYG 72 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 LP +EV+SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEY+LRSWS+VK+GTT+ Q Sbjct: 73 LPTAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYVLRSWSMVKLGTTSAQ 132 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALIN 191 K+LFFNLR+ K + A+ + +L+PE V IA L V+E+EV+SMN R+ GD SLNA + Sbjct: 133 KKLFFNLRKAKNRIGALEEGDLRPENVQRIATDLGVTEAEVVSMNRRMSGGDASLNATVG 192 Query: 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN 251 S + + QWQDWL + Q ++E RR ++ +M VLN RE+ I RRL E Sbjct: 193 SDGEGTMQWQDWLEDESADQAGDYEARDELTQRRELMAEAMEVLNDREKDILMQRRLAEK 252 Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 VTLE+LS ++ VSRER+RQIE RAF+K+Q+ +Q Sbjct: 253 TVTLEDLSGQYSVSRERIRQIEVRAFEKLQKKMQ 286 >gi|71083311|ref|YP_266030.1| RNA polymerase factor sigma-32 [Candidatus Pelagibacter ubique HTCC1062] gi|71062424|gb|AAZ21427.1| RNA polymerase sigma-32 factor (rpoH) RP303 [Candidatus Pelagibacter ubique HTCC1062] Length = 293 Score = 282 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 158/285 (55%), Positives = 217/285 (76%), Gaps = 6/285 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN N+ + N E GLS Y+ +I+K PML +EEY+LAK ++ G++ AA +LVTSHLRL Sbjct: 1 MN-SNLPALSN-EGGLSAYLEQIKKFPMLAAEEEYMLAKNWKATGNVKAAEKLVTSHLRL 58 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP++E++SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRS Sbjct: 59 VAKIAMGYRGYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRS 118 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTT QK+LFFNL+++K + ++ +L+PE V IA KL+V++ EVISMN RL Sbjct: 119 WSLVKIGTTTAQKKLFFNLKKIKNQIAPQSEGDLRPEHVTEIANKLDVNKDEVISMNRRL 178 Query: 181 AGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 +G E SLNA + ++ +WQDWLV + +EE R+N+L S+ +LN RE Sbjct: 179 SGKEFSLNAQVG---EDGDEWQDWLVDKELDHDLKFAHQEEMGQRQNLLKDSIKILNERE 235 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + I +RRL + P TLE+LS ++++SRERVRQIE +AF+K+Q+ + Sbjct: 236 KEILYSRRLNDEPTTLEDLSKKYKISRERVRQIENKAFEKLQKHM 280 >gi|83311906|ref|YP_422170.1| RNA polymerase factor sigma-32 [Magnetospirillum magneticum AMB-1] gi|82946747|dbj|BAE51611.1| RNA polymerase sigma-32 factor [Magnetospirillum magneticum AMB-1] Length = 292 Score = 282 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 147/287 (51%), Positives = 214/287 (74%), Gaps = 5/287 (1%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ N+ +V G+ GL++Y+ +I++ P+L +EE++LAKR+ ++ D AAHRLVTSHLRL Sbjct: 1 MSVANLP-VVAGDDGLAKYLRDIKEFPVLAPEEEFMLAKRWVDYEDTDAAHRLVTSHLRL 59 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIA+GYR YGLP+++++SEGNIGLM+AVKKF+P+RGFRLATY+MWWIKA++ E++L S Sbjct: 60 VAKIALGYRHYGLPVADLISEGNIGLMRAVKKFEPDRGFRLATYAMWWIKASLNEFVLNS 119 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WS+VKIGT A QK+LFFNLRR+K L+ + +L PE V IA++L+V E +V++MN R+ Sbjct: 120 WSMVKIGTLAAQKKLFFNLRRIKSRLRLLEAGDLAPEHVATIARELDVDERDVVAMNRRM 179 Query: 181 AG-DESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 AG D SLNA + + ++ QD + + D QE ++EE R ++ R++ L RE Sbjct: 180 AGRDSSLNAPVG---EGGTEIQDLMADEADNQETAYGKREELSKGRVLIARALDSLTERE 236 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R +F RRL+++PVTLE L + VSRER+RQIE +AF+KV++ +Q Sbjct: 237 REVFVERRLRDDPVTLEELGGRYGVSRERIRQIEVKAFEKVRDLVQA 283 >gi|91762259|ref|ZP_01264224.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] gi|91718061|gb|EAS84711.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] Length = 293 Score = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 157/285 (55%), Positives = 217/285 (76%), Gaps = 6/285 (2%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MN N+ + N E GLS Y+ +I+K PML +EEY+LAK ++ G++ AA +LVTSHLRL Sbjct: 1 MN-SNLPALSN-EGGLSAYLEQIKKFPMLAAEEEYMLAKNWKATGNVKAAEKLVTSHLRL 58 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 V KIAMGYRGYGLP++E++SEGN+GLMQAVKKF+PE+GFRLATY+MWWI+A++QEYILRS Sbjct: 59 VAKIAMGYRGYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWWIRASIQEYILRS 118 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTT QK+LFFNL+++K + ++ +L+PE V IA KL+V++ EVISMN RL Sbjct: 119 WSLVKIGTTTAQKKLFFNLKKIKNQIAPQSEGDLRPEHVTEIANKLDVNKDEVISMNRRL 178 Query: 181 AGDE-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRE 239 +G E SLNA + ++ +WQDWLV + +EE R+N+L S+ +LN RE Sbjct: 179 SGKEFSLNAQVG---EDGDEWQDWLVDKELDHDLKFAHQEEMGQRQNLLKDSIKILNERE 235 Query: 240 RRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESI 284 + I +RRL + P TLE+LS ++++SRER+RQIE +AF+K+Q+ + Sbjct: 236 KEILYSRRLNDEPTTLEDLSKKYKISRERIRQIENKAFEKLQKHM 280 >gi|262277481|ref|ZP_06055274.1| alternative sigma factor RpoH [alpha proteobacterium HIMB114] gi|262224584|gb|EEY75043.1| alternative sigma factor RpoH [alpha proteobacterium HIMB114] Length = 300 Score = 281 bits (719), Expect = 9e-74, Method: Composition-based stats. Identities = 165/287 (57%), Positives = 215/287 (74%), Gaps = 2/287 (0%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 K +++ + Y+ +IRK PML+ EEY+LAK +RE GD +AH+LVTSHLRLV K Sbjct: 7 KTNLPVLSPDGSFDSYLQKIRKFPMLDAAEEYILAKNWREKGDKESAHKLVTSHLRLVAK 66 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA GYRGYGLP+SE+VSEGNIGLM AVKKFDPERGFRLATY+MWWIKA+MQEYILRSWSL Sbjct: 67 IATGYRGYGLPMSELVSEGNIGLMTAVKKFDPERGFRLATYAMWWIKASMQEYILRSWSL 126 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 VKIGTTA QK+LFFNLR++K + +L PEQV IA +L+V+E EV SM+ R+ G Sbjct: 127 VKIGTTAAQKKLFFNLRKMKNQIMRSDQTDLLPEQVTEIANRLDVTEDEVNSMDQRMKGP 186 Query: 184 E-SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRI 242 E SLNA I S ++ S+WQDW+V ++ QE + ++E R+ +L ++MS+LN RE+ I Sbjct: 187 EASLNATI-SGEEGESEWQDWVVDENADQELQIAHRQETNKRKALLDKAMSILNEREKEI 245 Query: 243 FEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVE 289 RRL E P TLE LS ++ +SRER+RQIE RAF+K+Q+ + +Q + Sbjct: 246 LFDRRLNEEPKTLEELSQKYNISRERIRQIENRAFEKLQKEMLEQAK 292 >gi|296284608|ref|ZP_06862606.1| RNA polymerase factor sigma-32 [Citromicrobium bathyomarinum JL354] Length = 280 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 158/269 (58%), Positives = 205/269 (76%), Gaps = 2/269 (0%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + EI+K P+L ++EY+LAKRY EH D AA +LV+SHLRLV KIAMGYRGYGLP+S+++ Sbjct: 1 MSEIKKFPVLTAEQEYMLAKRYEEHEDPEAAAQLVSSHLRLVAKIAMGYRGYGLPVSDLI 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 SEGN+GLMQ VKKF+P+RGFRLATY+MWWIKA++QEYILRSWSLVK+GTTA QK+LFFNL Sbjct: 61 SEGNVGLMQGVKKFEPDRGFRLATYAMWWIKASIQEYILRSWSLVKMGTTAAQKKLFFNL 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCR--LAGDESLNALINSSDKNS 197 RR+K +L A D +L P+ V IA L V E EVI+MN R + GD SLN + ++N+ Sbjct: 121 RRMKKNLDAYEDTDLHPDDVKKIATDLGVPEQEVINMNRRMLMGGDSSLNVSMRGDEENA 180 Query: 198 SQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLEN 257 SQWQDWL D Q++ + +E + R ML +M LN RE+ I RRL E+P TLE Sbjct: 181 SQWQDWLTDDRPLQDETTADTQEAQVRHAMLLEAMDSLNDREKHILTERRLTEDPQTLEE 240 Query: 258 LSSEFEVSRERVRQIEARAFKKVQESIQK 286 LS ++VSRER+RQIE RAF+K+Q+++Q+ Sbjct: 241 LSKVYDVSRERIRQIEVRAFEKLQKAMQR 269 >gi|283797719|ref|ZP_06346872.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|291074616|gb|EFE11980.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|295092057|emb|CBK78164.1| RNA polymerase, sigma 70 subunit, RpoD [Clostridium cf. saccharolyticum K10] Length = 372 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 88/284 (30%), Positives = 144/284 (50%), Gaps = 13/284 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +M V+ E + Y+ EI K+P+L +EE LAKR E GD SA RL ++LRLVV I Sbjct: 92 SMPEGVSIEDPVRMYLKEIGKVPLLTPEEEIDLAKRM-EMGDESAKKRLAEANLRLVVSI 150 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y G G+ +++ EGN+GL++AV+K+D +GF+ +TY+ WWI+ A+ I + Sbjct: 151 AKRYVGRGMQFLDLIQEGNLGLIKAVEKYDYSKGFKFSTYATWWIRQAITRSIADQARTI 210 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 +I + + RL + + + +A+KL++ V + Sbjct: 211 RIPVHMVE-----TINRLIRTSRQLLQELGREPSAEELAEKLDMPVERVREIMKISQDPV 265 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL I ++ S D++ DH QV ++ L + L RE+++ Sbjct: 266 SLETPI--GEEEDSHLGDFIQDDHV---QVPVDAATYTLLHEQLMEVLDTLTDREQKVLR 320 Query: 245 ARRLQEN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R ++ P TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 321 LRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKALRKLRHPSRS 364 >gi|291520418|emb|CBK75639.1| RNA polymerase, sigma 70 subunit, RpoD [Butyrivibrio fibrisolvens 16/4] Length = 376 Score = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 87/284 (30%), Positives = 139/284 (48%), Gaps = 13/284 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 ++ V+ E + Y+ EI K+P+L +EE LA++ E GD A ++L ++LRLVV I Sbjct: 95 SVPDSVSIEDPVRMYLKEIGKVPLLSAEEEVELAQKM-EDGDQEAKNKLAEANLRLVVSI 153 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y G G+ +++ EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I + Sbjct: 154 AKRYVGRGMLFLDLIQEGNLGLMKAVEKFDYHKGYKFSTYATWWIRQAITRAIADQARTI 213 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 +I + L R+ L PE IA + ++ V + Sbjct: 214 RIPVHMVE--TINKLIRVSRQLLQEYGREPTPE---EIAAAMGITVDRVHEILKISQEPV 268 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL I ++ S D+L D V E + L + L RE+R+ Sbjct: 269 SLETPI--GEEEDSHLGDFLP---DENVPVPAEAATFTLLKEQLHEVLDTLTEREQRVLI 323 Query: 245 ARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 R E+ TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 324 LRFGLEDGKARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 367 >gi|210620870|ref|ZP_03292287.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275] gi|210155082|gb|EEA86088.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275] Length = 388 Score = 277 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 89/280 (31%), Positives = 146/280 (52%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ + + Y+ EI KIP+L+ EE AKR E GD A RLV ++LRLVV IA Y Sbjct: 113 ISIDDPVRMYLKEIGKIPLLKPHEEVEYAKRMHE-GDELAKQRLVEANLRLVVSIAKRYV 171 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD E+GF+ +TY+ WWI+ A+ I ++I Sbjct: 172 GRGMLFLDLIQEGNLGLIKAVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 231 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L + KPE IAK++++S +V + SL Sbjct: 232 MVE--TINKLMRVSRQLLQELGRDAKPE---EIAKEMDLSVEKVREIMKIAQDPVSLETP 286 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D + + + + LN RE+++ + R Sbjct: 287 I--GEEEDSHLGDFIPDDDAPAPDI---SAAYSLLKEQIDEVLGSLNEREQKVLKLRFGL 341 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 E+ TLE + EF+V+RER+RQIEA+A +K++ + + Sbjct: 342 EDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSK 381 >gi|291533682|emb|CBL06795.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Megamonas hypermegale ART12/1] Length = 329 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 86/280 (30%), Positives = 137/280 (48%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 +N + + Y+ EI ++P+L EE LAKR E GDL A RL ++LRLVV IA Y Sbjct: 60 INIDDPVRMYLKEIGRVPLLSADEEIKLAKRM-EDGDLEAQKRLAEANLRLVVSIAKRYV 118 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 119 GRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 178 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IAK+++VS V + SL Sbjct: 179 MVE--TINKLIRVSRQLLQSLGREPSPE---EIAKEMDVSVDRVREIMKIAQEPVSLETP 233 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D E + L + L RE ++ R Sbjct: 234 I--GEEEDSHLGDFI---EDHDAPAPAEAASFVLLKEQLEDVLDTLTEREEKVLRLRFGL 288 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 289 DDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSK 328 >gi|296133798|ref|YP_003641045.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermincola sp. JR] gi|296032376|gb|ADG83144.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermincola potens JR] Length = 366 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 85/280 (30%), Positives = 136/280 (48%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + + + Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y Sbjct: 91 IGIDDPVRMYLKEIGRVPLLTAEEEVELAKRM-ETGDEEAKRRLAEANLRLVVSIAKRYV 149 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G GL +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 150 GRGLLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 209 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IA ++++ V + SL Sbjct: 210 MVE--TINKLIRVSRQLLQELGREPTPE---EIAAEMDIPVDRVREIMKIAQEPVSLETP 264 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D E R L + L PRE ++ R Sbjct: 265 I--GEEEDSHLGDFI---EDQDAPAPAEAASFILLREQLEEVLETLTPREEKVLRLRFGL 319 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 320 DDGRSRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSK 359 >gi|218133123|ref|ZP_03461927.1| hypothetical protein BACPEC_00985 [Bacteroides pectinophilus ATCC 43243] gi|217991996|gb|EEC58000.1| hypothetical protein BACPEC_00985 [Bacteroides pectinophilus ATCC 43243] Length = 448 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 88/279 (31%), Positives = 141/279 (50%), Gaps = 13/279 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E + Y+ EI K+P+L +EE LAKR E+GD+ A +RL ++LRLVV IA Y Sbjct: 173 VSIEDPVRMYLKEIGKVPLLSAEEEIELAKRM-ENGDVEAKNRLAEANLRLVVSIAKRYV 231 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 232 GRGMLFLDLIQEGNLGLIKAVDKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 291 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IAK++++ V + SL Sbjct: 292 MVE--TINKLLRVSRQLLQELGREPTPE---EIAKEMDIPVERVREIQKISQEPVSLETP 346 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V E+ + L + L RE+++ R Sbjct: 347 I--GEEEDSHLGDFIQDD---NVPVPAEEAASTILKEQLVEVLGTLTEREQKVLRLRFGL 401 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 402 DDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHPSRS 440 >gi|323484375|ref|ZP_08089742.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323692387|ref|ZP_08106623.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323402369|gb|EGA94700.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323503527|gb|EGB19353.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 372 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 82/280 (29%), Positives = 142/280 (50%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 VN + + Y+ EI K+P+L +EE LAK+ E G+ A RL ++LRLVV IA Y Sbjct: 97 VNIDDPVRMYLKEIGKVPLLSPEEEIELAKQM-EMGNEYAKKRLAEANLRLVVSIAKRYV 155 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+K+D +GF+ +TY+ WWI+ A+ I ++I Sbjct: 156 GRGMQFLDLIQEGNLGLIKAVEKYDYSKGFKFSTYATWWIRQAITRSIADQARTIRIPVH 215 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + + RL + + + +A+++++ V + SL Sbjct: 216 MVE-----TINRLIRTSRQLLQELGREPHPEEVAERMDMPVERVREIMKISQDPVSLETP 270 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ DH QV ++ L + L RE+++ R Sbjct: 271 I--GEEEDSHLGDFIQDDHV---QVPLDAATFTLLHEQLMEVLDTLTDREQKVLRLRFGL 325 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ P TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 326 DDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 365 >gi|326791438|ref|YP_004309259.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium lentocellum DSM 5427] gi|326542202|gb|ADZ84061.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium lentocellum DSM 5427] Length = 363 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 83/286 (29%), Positives = 147/286 (51%), Gaps = 13/286 (4%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 N+ ++ + + Y+ EI K+P+L ++E +LA+R ++ GD A +L ++LRLVV Sbjct: 82 SNLPDGISIDDPVRMYLKEIGKVPLLSAEQEIILAQRMQD-GDQEAKKKLAEANLRLVVS 140 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I Sbjct: 141 IAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQART 200 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + L R+ L + +PE IAK++++ S+V + Sbjct: 201 IRIPVHMVE--TINKLMRVSRQLLQELGRDPQPE---EIAKRMDMPVSKVREIMKISQEP 255 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL I ++ S D++ + V E + L + L RE+++ Sbjct: 256 VSLETPI--GEEEDSHLGDFIPDED---IPVPAEAAAFTLLKEQLIEVLDTLTEREQKVL 310 Query: 244 EARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R ++ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 311 RLRFGLDDGRARTLEEVGKEFSVTRERIRQIEAKALRKLRHPSRSK 356 >gi|166030947|ref|ZP_02233776.1| hypothetical protein DORFOR_00628 [Dorea formicigenerans ATCC 27755] gi|166029214|gb|EDR47971.1| hypothetical protein DORFOR_00628 [Dorea formicigenerans ATCC 27755] Length = 382 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 89/290 (30%), Positives = 144/290 (49%), Gaps = 15/290 (5%) Query: 1 MNRKNMSII--VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHL 58 M + ++S+ ++ E + Y+ EI K+P+L EE LAKR E GD A RL ++L Sbjct: 96 MEKIDLSVPDGISIEDPVRMYLKEIGKVPLLSADEEVELAKRMAE-GDEDAKKRLAEANL 154 Query: 59 RLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYIL 118 RLVV IA Y G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I Sbjct: 155 RLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWWIRQAITRAIA 214 Query: 119 RSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 ++I + L R+ L PE IA +L++ V + Sbjct: 215 DQARTIRIPVHMVE--TINKLIRVSRQLLQELGREPTPE---EIAAELDMPVERVREILK 269 Query: 179 RLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPR 238 SL I ++ S D++ D V E + + L + L R Sbjct: 270 ISQEPVSLETPI--GEEEDSHLGDFIQDD---NVPVPAEAAAQTLLKEQLDEVLDTLTER 324 Query: 239 ERRIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 E+++ R ++ TLE + EF+V+RER+RQIEA+A +K++ + Sbjct: 325 EQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRS 374 >gi|85714568|ref|ZP_01045555.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] gi|85698453|gb|EAQ36323.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] Length = 272 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 172/258 (66%), Positives = 209/258 (81%), Gaps = 1/258 (0%) Query: 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLM 87 MLE EEY+ AKR REH D AAH LVTSHLRLV KIAMGYRGYGLPISEVVSEGN+GLM Sbjct: 1 MLEPHEEYMFAKRLREHDDRDAAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLM 60 Query: 88 QAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQ 147 QAVK+F+PE+GFRLATY+MWWIKA++QEYILRSWSLVK+GTTANQK+LFFNLR+ K + Sbjct: 61 QAVKRFEPEKGFRLATYAMWWIKASIQEYILRSWSLVKMGTTANQKKLFFNLRKAKSKIS 120 Query: 148 AITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYD 207 A+ + +++P+QV IA++L V+E +V+ MN RL GD SLNA I D + +WQDWLV Sbjct: 121 ALDEGDMRPDQVKLIARRLGVTEQDVVDMNRRLGGDASLNAPIRD-DGEAGEWQDWLVDQ 179 Query: 208 HDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 QE V+ E EE +RR LT +M VLNPRERRIFEARRL + P+TLE+L++EF VSRE Sbjct: 180 SPTQEAVMAEHEEFDHRRRALTGAMGVLNPRERRIFEARRLADEPMTLEDLAAEFNVSRE 239 Query: 268 RVRQIEARAFKKVQESIQ 285 RVRQIE RAF+KVQ +++ Sbjct: 240 RVRQIEVRAFEKVQSAVK 257 >gi|253580849|ref|ZP_04858112.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251847919|gb|EES75886.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 375 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 88/279 (31%), Positives = 142/279 (50%), Gaps = 13/279 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E + Y+ EI K+P+L +EE LAKR E+GD +A RL ++LRLVV IA Y Sbjct: 100 VSIEDPVRMYLKEIGKVPLLSAEEEIELAKRM-ENGDEAAKKRLAEANLRLVVSIAKRYV 158 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 159 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 218 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IAK++++S V + SL Sbjct: 219 MVE--TINKLIRVSRQLLQELGREPTPE---EIAKEMDMSVERVREILKISQEPVSLETP 273 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V + + L +S L RE+++ R Sbjct: 274 I--GEEEDSHLGDFIQDD---NVPVPADAAAFTLLKEQLVEVLSTLTDREQKVLRLRFGL 328 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 329 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 367 >gi|255282119|ref|ZP_05346674.1| RNA polymerase sigma factor RpoD [Bryantella formatexigens DSM 14469] gi|255267438|gb|EET60643.1| RNA polymerase sigma factor RpoD [Bryantella formatexigens DSM 14469] Length = 374 Score = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 90/280 (32%), Positives = 142/280 (50%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E + Y+ EI +P+L +EE LAKR E GD A RL+ ++LRLVV IA Y Sbjct: 99 VSTEDPVRMYLKEIGNVPLLTTEEEVELAKRV-EAGDEEAKKRLIEANLRLVVSIAKKYV 157 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+P +++ EGN+GLM+AV KFD +GF+ +TY+ WWI+ A+ I + +++ Sbjct: 158 GRGMPFLDLIQEGNMGLMKAVDKFDYAKGFKFSTYATWWIRQAITRGIADTGRTIRVPVH 217 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + R+ L PE+V A++LNV S V + SL+ Sbjct: 218 MVE--TINKTLRMTRTLLQELGREPTPEEV---AERLNVPVSRVREVLKISRDPVSLDTP 272 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRL- 248 I +++ S D++ D + R L ++ L RER++ + R Sbjct: 273 I--GEEDDSHLGDFIEDDS---ALSPSDSAAFSMLREELGTALESLTDRERQVVQLRFGL 327 Query: 249 -QENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 328 IDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 367 >gi|257869538|ref|ZP_05649191.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2] gi|257803702|gb|EEV32524.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2] Length = 368 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 80/276 (28%), Positives = 135/276 (48%), Gaps = 13/276 (4%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + Y+ EI ++P+L +EE LA + E GD A RL ++LRLVV IA Y G G+ Sbjct: 97 DPVRMYLKEIGRVPLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 156 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE- 214 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L R++ L PE++ A ++++ +V + SL I Sbjct: 215 -TINKLIRIQRQLLQDLGREPTPEEIGA---EMDLPTEKVREILKIAQEPVSLETPI--G 268 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 +++ S D++ D E + + L + L RE + R ++ Sbjct: 269 EEDDSHLGDFI---EDQDATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGIDDGR 325 Query: 253 -VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 326 TRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 361 >gi|315640587|ref|ZP_07895693.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952] gi|315483615|gb|EFU74105.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952] Length = 368 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 81/276 (29%), Positives = 135/276 (48%), Gaps = 13/276 (4%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + Y+ EI ++P+L EE LA + E GD A RL ++LRLVV IA Y G G+ Sbjct: 97 DPVRMYLKEIGRVPLLTAAEEVELALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 156 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE- 214 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L R++ L PE++ A ++++S +V + SL I Sbjct: 215 -TINKLIRIQRQLLQDLGREPTPEEIGA---EMDLSTEKVREILKIAQEPVSLETPI--G 268 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 +++ S D++ D E + + L + L RE + R ++ Sbjct: 269 EEDDSHLGDFI---EDQDATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGIDDGR 325 Query: 253 -VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 326 TRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 361 >gi|121534199|ref|ZP_01666024.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus carboxydivorans Nor1] gi|121307302|gb|EAX48219.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus carboxydivorans Nor1] Length = 368 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 83/280 (29%), Positives = 138/280 (49%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ + + Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y Sbjct: 93 ISIDDPVRMYLKEIGRVPLLTAEEEIQLAKRM-EQGDEEAKRRLAEANLRLVVSIAKRYV 151 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 152 GRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 211 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IA+++++S V + SL Sbjct: 212 MVE--TINKLIRVSRQLLQEKGREPTPE---EIAREMDISVERVREIMKIAQEPVSLETP 266 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D E + L + L PRE ++ R Sbjct: 267 I--GEEEDSHLGDFI---EDQDAPAPAEAASFMLLKEQLEEVLETLTPREEKVLRLRFGL 321 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 322 DDGRARTLEEVGQYFGVTRERIRQIEAKALRKLRHPSRSK 361 >gi|289450258|ref|YP_003475183.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3 str. UPII9-5] gi|289184805|gb|ADC91230.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3 str. UPII9-5] Length = 353 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 83/289 (28%), Positives = 147/289 (50%), Gaps = 13/289 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 +N + S ++N + + Y+ EI K+P+L +EE LA+ +E G A RL ++LRL Sbjct: 69 LNIDDSSDVMNVDDPVRMYLKEIGKVPLLNAEEEKDLARAMKE-GSQEAKDRLCEANLRL 127 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y G G+ +++ EGN+GL++AV KFD E+GF+ +TY+ WWI+ A+ I Sbjct: 128 VVSIAKRYVGRGMQFLDLIQEGNLGLIKAVDKFDYEKGFKFSTYATWWIRQAITRAIADQ 187 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 ++I + + +L + + + +V +A+++ +S +V + Sbjct: 188 ARTIRIPVHMVE-----TINKLIRVQRQLLQELGREPEVEELAQEMGISPEKVREIQKIS 242 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 SL I ++ S D++ D ++ + L +S L PRE Sbjct: 243 QEPVSLEKPI--GEEEDSHLGDFIPDDD---APSPADQAAFTLLKEQLLEILSGLTPREE 297 Query: 241 RIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ R ++ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 298 KVLRLRFGLDDGRSRTLEEVGREFNVTRERIRQIEAKALRKMRHPSRSK 346 >gi|313903305|ref|ZP_07836697.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter subterraneus DSM 13965] gi|313466393|gb|EFR61915.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter subterraneus DSM 13965] Length = 432 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 84/285 (29%), Positives = 140/285 (49%), Gaps = 13/285 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +M V + + Y+ EI +IP+L ++E LAKR E GD A +L+ ++LRLVV I Sbjct: 152 SMPDGVALDDPVRMYLKEIGRIPLLTPEQEIELAKRI-EQGDEEAKRKLIQANLRLVVSI 210 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y G G+ +++ EGN+GL++A +KFD +GF+ +TY+ WWI+ A+ I + Sbjct: 211 AKRYVGRGMLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYATWWIRQAITRAIADQARTI 270 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 +I + L R++ L PE IAK++ + +V + Sbjct: 271 RIPVHMVE--TINKLIRVQRQLVQELGREPTPE---EIAKEMGIEPEKVREIMKIAQEPV 325 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL I ++ S D++ D E + R L + L RE+++ Sbjct: 326 SLETPI--GEEEDSHLGDFI---EDEDALAPAEAASQLLLREQLEDVLHTLTDREQKVLR 380 Query: 245 ARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R ++ TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 381 LRFGLDDGRQRTLEEVGQIFGVTRERIRQIEAKALRKLRHPSRSK 425 >gi|78044024|ref|YP_359316.1| RNA polymerase sigma factor RpoD [Carboxydothermus hydrogenoformans Z-2901] gi|77996139|gb|ABB15038.1| RNA polymerase sigma factor RpoD [Carboxydothermus hydrogenoformans Z-2901] Length = 370 Score = 275 bits (703), Expect = 6e-72, Method: Composition-based stats. Identities = 84/277 (30%), Positives = 142/277 (51%), Gaps = 13/277 (4%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 + + Y+ EI ++P+L +EE LAKR +E GD A +L ++LRLVV IA Y G G Sbjct: 98 DDPVRMYLKEIGRVPLLTPEEEIELAKR-KEEGDEEAKRKLAEANLRLVVSIAKRYVGRG 156 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 + +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 157 MLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 216 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 L R+ +L PE IAK++ +SE +V + SL I Sbjct: 217 --TINKLIRVSRNLLQELGREPTPE---EIAKEMGISEDKVREIMKIAQEPVSLETPI-- 269 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP 252 ++ S D++ D + +E+ R L + L RE+++ R ++ Sbjct: 270 GEEEDSHLGDFV---EDPDAKAPVEEASYTLLREQLDEVLKTLTEREQKVLRLRFGLDDG 326 Query: 253 --VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 327 RARTLEEVGQIFGVTRERIRQIEAKALRKLRHPSRSK 363 >gi|317122932|ref|YP_004102935.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis DSM 12885] gi|315592912|gb|ADU52208.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis DSM 12885] Length = 433 Score = 275 bits (703), Expect = 6e-72, Method: Composition-based stats. Identities = 84/285 (29%), Positives = 140/285 (49%), Gaps = 13/285 (4%) Query: 5 NMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKI 64 +M V + + Y+ EI +IP+L ++E LAKR E GD A +L+ ++LRLVV I Sbjct: 153 SMPDGVALDDPVRMYLKEIGRIPLLTPEQEIELAKRI-EQGDEEAKRKLIQANLRLVVSI 211 Query: 65 AMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLV 124 A Y G G+ +++ EGN+GL++A +KFD +GF+ +TY+ WWI+ A+ I + Sbjct: 212 AKRYVGRGMLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYATWWIRQAITRAIADQARTI 271 Query: 125 KIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDE 184 +I + L R++ L PE IAK++ + +V + Sbjct: 272 RIPVHMVE--TINKLIRVQRQLVQELGREPTPE---EIAKEMGIEPEKVREIMKIAQEPV 326 Query: 185 SLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFE 244 SL I ++ S D++ D E + R L + L RE+++ Sbjct: 327 SLETPI--GEEEDSHLGDFI---EDEDALAPAEAASQLLLREQLEDVLHTLTDREQKVLR 381 Query: 245 ARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 R ++ TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 382 LRFGLDDGRQRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSK 426 >gi|167768032|ref|ZP_02440085.1| hypothetical protein CLOSS21_02575 [Clostridium sp. SS2/1] gi|317498375|ref|ZP_07956670.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium 5_1_63FAA] gi|167710361|gb|EDS20940.1| hypothetical protein CLOSS21_02575 [Clostridium sp. SS2/1] gi|291561030|emb|CBL39830.1| RNA polymerase, sigma 70 subunit, RpoD [butyrate-producing bacterium SSC/2] gi|316894269|gb|EFV16456.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium 5_1_63FAA] Length = 363 Score = 275 bits (703), Expect = 7e-72, Method: Composition-based stats. Identities = 83/279 (29%), Positives = 138/279 (49%), Gaps = 13/279 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E + Y+ EI K+P+L EE LA+R E GD +A +L ++LRLVV IA Y Sbjct: 88 VSIEDPVRMYLKEIGKVPLLSADEEIKLAQRM-EEGDEAAKKKLAEANLRLVVSIAKRYV 146 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 147 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 206 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IA+++++ V + SL Sbjct: 207 MVE--TINKLIRVSRQLLQELGREPSPE---EIAEEMDIPVERVREILKISQEPVSLETP 261 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V + + L + L RE+++ R Sbjct: 262 I--GEEEDSHLGDFI---QDENVPVPADAAAFTLLKEQLDEVLGTLTEREQKVLRLRFGL 316 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 317 DDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 355 >gi|169830688|ref|YP_001716670.1| RNA polymerase sigma factor RpoD [Candidatus Desulforudis audaxviator MP104C] gi|169637532|gb|ACA59038.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Desulforudis audaxviator MP104C] Length = 360 Score = 275 bits (703), Expect = 7e-72, Method: Composition-based stats. Identities = 87/280 (31%), Positives = 144/280 (51%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ + + Y+ EI +IP+L +EE LA+R E GD A RL+ ++LRLVV IA Y Sbjct: 85 VDIDDPVRMYLKEIGRIPLLTPEEEVSLARRM-EAGDDEAKRRLIEANLRLVVSIAKRYV 143 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD ++G++ +TY+ WWI+ A+ I ++I Sbjct: 144 GRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 203 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IA+++++SE +V + SL Sbjct: 204 MVE--TINKLIRISRQLLQELGREPLPE---EIAREMDISEDKVREIQKIAQEPVSLETP 258 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D Q E+ R L + L RE+R+ R Sbjct: 259 I--GEEEDSHLGDFI---EDQDAQAPAEEASFTLLREQLDDVLKTLTEREQRVLRLRFGL 313 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + EF V+RER+RQIEA+ +K++ + + Sbjct: 314 DDGRARTLEEVGQEFGVTRERIRQIEAKTLRKLRHPSRSK 353 >gi|312876451|ref|ZP_07736435.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311796809|gb|EFR13154.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 419 Score = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 89/286 (31%), Positives = 143/286 (50%), Gaps = 13/286 (4%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ + + + Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV Sbjct: 138 ENLPEGIAIDDPVRMYLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVS 196 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I Sbjct: 197 IAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQART 256 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + L R+ L PE IAK++N+ +V + Sbjct: 257 IRIPVHMVE--TINKLVRVSRQLLQEKGREPTPE---EIAKEMNMPVEKVREILKIAQEP 311 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL I ++ S D++ D E + L + LN RE+++ Sbjct: 312 VSLETPI--GEEEDSHLGDFIPDDD---ALAPSEAAAYSMLKEQLLEVLDSLNEREKKVL 366 Query: 244 EARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + R E+ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 367 KLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 412 >gi|297617785|ref|YP_003702944.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297145622|gb|ADI02379.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 361 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 81/277 (29%), Positives = 143/277 (51%), Gaps = 13/277 (4%) Query: 13 EIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG 72 + + Y+ EI ++P+L +EE LAKR E+GD A +LV ++LRLVV IA Y G G Sbjct: 89 DDPVRMYLKEIGRVPLLSAEEEIELAKRI-ENGDEDAKRKLVEANLRLVVSIAKRYVGRG 147 Query: 73 LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQ 132 + +++ EGN+GLM+AV+KFD +G++ +TY+ WWI+ A+ I ++I + Sbjct: 148 MLFLDLIQEGNLGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 207 Query: 133 KRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINS 192 + +L +A+ + +A+++++ V+ + SL I Sbjct: 208 -----TINKLSRIQRALLQKLGREPTPAEVAEEMDIPVERVMEIMKVAQEPVSLETPI-- 260 Query: 193 SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQEN- 251 +++ S D++ + + E R L +S L RE ++ R ++ Sbjct: 261 GEEDDSHLGDFITDED---AESPEESASFVLLREHLDGILSTLTDREEKVLRLRFGLDDG 317 Query: 252 -PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 P TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 318 RPRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSK 354 >gi|147677242|ref|YP_001211457.1| RNA polymerase sigma factor RpoD [Pelotomaculum thermopropionicum SI] gi|146273339|dbj|BAF59088.1| DNA-directed RNA polymerase, sigma subunit [Pelotomaculum thermopropionicum SI] Length = 363 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 86/280 (30%), Positives = 144/280 (51%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V + + Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y Sbjct: 88 VGIDDPVRMYLKEIGRVPLLTPEEEVELAKRM-EKGDEEAKRRLAEANLRLVVSIAKRYV 146 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 147 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 206 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R++ L + PE IAK++N++E +V + SL Sbjct: 207 MVE--TINKLVRVQRQLLQELGRDPSPE---EIAKEMNITEDKVREILKIAQEPVSLETP 261 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D + + E+ R L + L RE+R+ R Sbjct: 262 I--GEEEDSHLGDFI---EDHEARAPAEEASFTLLREQLDEVLKTLTEREQRVLRLRFGL 316 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + +F V+RER+RQIEA+ +K++ + + Sbjct: 317 DDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSK 356 >gi|153853334|ref|ZP_01994743.1| hypothetical protein DORLON_00730 [Dorea longicatena DSM 13814] gi|149754120|gb|EDM64051.1| hypothetical protein DORLON_00730 [Dorea longicatena DSM 13814] Length = 369 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 86/279 (30%), Positives = 138/279 (49%), Gaps = 13/279 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ E + Y+ EI K+P+L +EE LAKR + GD A RL ++LRLVV IA Y Sbjct: 94 ISIEDPVRMYLKEIGKVPLLSAEEEVELAKRMAD-GDEEAKKRLAEANLRLVVSIAKRYV 152 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 153 GRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 212 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IA +L++ V + SL Sbjct: 213 MVE--TINKLIRVSRQLLQELGREPTPE---EIAAELDMPVERVREILKISQEPVSLETP 267 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V E + + L + L RE+++ R Sbjct: 268 I--GEEEDSHLGDFIQDD---NVPVPAEAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGM 322 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 + TLE + EF+V+RER+RQIEA+A +K++ + Sbjct: 323 NDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRS 361 >gi|317473637|ref|ZP_07932926.1| RNA polymerase sigma factor RpoD [Anaerostipes sp. 3_2_56FAA] gi|316898927|gb|EFV20952.1| RNA polymerase sigma factor RpoD [Anaerostipes sp. 3_2_56FAA] Length = 364 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 83/279 (29%), Positives = 138/279 (49%), Gaps = 13/279 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E + Y+ EI K+P+L EE LA+R E GD A +L ++LRLVV IA Y Sbjct: 89 VSIEDPVRMYLKEIGKVPLLSADEEIRLAQRM-EEGDEEAKKKLAEANLRLVVSIAKRYV 147 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 148 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 207 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IA+++++ V + SL Sbjct: 208 MVE--TINKLIRVSRQLLQELGREPLPE---EIAEEMDIPVDRVREILKISQEPVSLETP 262 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V + + L+ + L RE+++ R Sbjct: 263 I--GEEEDSHLGDFIQDD---NVPVPADAAAFTLLKEQLSEVLGTLTEREQKVLRLRFGL 317 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 318 DDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 356 >gi|199598416|ref|ZP_03211835.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001] gi|258508506|ref|YP_003171257.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG] gi|199590735|gb|EDY98822.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001] gi|257148433|emb|CAR87406.1| RNA polymerase sigma factor [Lactobacillus rhamnosus GG] gi|259649816|dbj|BAI41978.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG] Length = 416 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 80/289 (27%), Positives = 137/289 (47%), Gaps = 13/289 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 M+ + V + Y+ EI ++ +L EE LA + E GD A RL ++LRL Sbjct: 132 MSDMSAPSGVKINDPVRMYLKEIGRVSLLTADEEVALALKI-EQGDQEAKQRLAEANLRL 190 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y G G+ +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I Sbjct: 191 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 250 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 ++I + L R++ L PE++ A ++++ +V + Sbjct: 251 ARTIRIPVHMVE--TINKLIRIQRQLLQDLGREPTPEEIGA---EMDMPTEKVREILKIA 305 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 SL I +++ S D++ D + + + L + L RE Sbjct: 306 QEPVSLETPI--GEEDDSHLGDFI---EDQDATSPEDHASYELLKEQLESVLDTLTDREE 360 Query: 241 RIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + R ++ TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 361 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 409 >gi|56963455|ref|YP_175186.1| RNA polymerase sigma factor RpoD [Bacillus clausii KSM-K16] gi|56909698|dbj|BAD64225.1| DNA-directed RNA polymerase major sigma-43 factor sigma-A [Bacillus clausii KSM-K16] Length = 373 Score = 273 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 83/289 (28%), Positives = 144/289 (49%), Gaps = 13/289 (4%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 +N ++ + + Y+ EI ++P+L +EE LAKR E GD A RL ++LRL Sbjct: 89 LNDLSVPPGIKINDPVRMYLKEIGRVPLLSAEEEIDLAKRI-EQGDEEAKKRLAEANLRL 147 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VV IA Y G G+ +++ EGN+GL++AV+KFD ++GF+ +TY+ WWI+ A+ I Sbjct: 148 VVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYDKGFKFSTYATWWIRQAITRAIADQ 207 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 ++I + L R++ L PE+V K++++S +V + Sbjct: 208 ARTIRIPVHMVE--TINKLIRVQRQLLQDYGREPTPEEV---GKEMDLSPDKVREILKIA 262 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 SL I +++ S D++ D + + + + L + L RE Sbjct: 263 QEPVSLETPI--GEEDDSHLGDFI---EDQEALAPSDAAAYELLKEQLEDVLDTLTDREE 317 Query: 241 RIFEARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + R ++ TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 318 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 366 >gi|83955694|ref|ZP_00964274.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83839988|gb|EAP79164.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] Length = 279 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 157/267 (58%), Positives = 205/267 (76%), Gaps = 1/267 (0%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + EIRK P+LE +EEY+LAKR+ E D AAHR+VTSHLRL KIAMGYRGYGLP +EV+ Sbjct: 1 MQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHRMVTSHLRLAAKIAMGYRGYGLPQAEVI 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 SE N+GLMQAVK+FDPE+GFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ QK+LFFNL Sbjct: 61 SEANVGLMQAVKRFDPEKGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSGQKKLFFNL 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL-AGDESLNALINSSDKNSS 198 R+ K + A+ + +L P+ V IA L V+E+EVISMN R+ GD SLNA + S + + Sbjct: 121 RKAKNRIGALEEGDLHPDNVKRIATDLGVTETEVISMNRRMSGGDASLNATVGSEGEGTM 180 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 QWQDWL + Q E++E + RR ML ++ VLN RE+ I RRL + VTLE+L Sbjct: 181 QWQDWLEDEDADQATDYEERDELETRREMLAEALDVLNDREKDILTQRRLSDQTVTLEDL 240 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQ 285 SS+++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 241 SSQYDVSRERIRQIEVRAFEKLQKRMR 267 >gi|125973412|ref|YP_001037322.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum ATCC 27405] gi|125713637|gb|ABN52129.1| RNA polymerase, sigma 38 subunit, RpoS [Clostridium thermocellum ATCC 27405] Length = 358 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 86/280 (30%), Positives = 138/280 (49%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ + + Y+ EI K+P+L +EE LA R E GD A RL ++LRLVV IA Y Sbjct: 83 ISIDDPVRMYLKEIGKVPLLTAEEEIELAHRI-EQGDAEAKRRLAEANLRLVVSIAKRYV 141 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 142 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 201 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IAK++N+ +V + SL Sbjct: 202 MVE--TINKLIRVSRQLLQELGREPHPE---EIAKEMNMPVEKVREIMKISQEPVSLETP 256 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D E + L + L PRE ++ R Sbjct: 257 I--GEEEDSHLGDFIPDDD---APAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGL 311 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 312 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 351 >gi|222528719|ref|YP_002572601.1| RpoD subfamily RNA polymerase sigma-70 factor [Caldicellulosiruptor bescii DSM 6725] gi|222455566|gb|ACM59828.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 417 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 89/286 (31%), Positives = 143/286 (50%), Gaps = 13/286 (4%) Query: 4 KNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVK 63 +N+ + + + Y+ EI KIP+L +EE LAKR E GD A RL ++LRLVV Sbjct: 136 ENLPEGIAIDDPVRMYLKEIGKIPLLTPEEEIELAKRI-EQGDEEAKKRLAEANLRLVVS 194 Query: 64 IAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 IA Y G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I Sbjct: 195 IAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQART 254 Query: 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGD 183 ++I + L R+ L PE IAK++N+ +V + Sbjct: 255 IRIPVHMVE--TINKLVRVSRQLLQEKGREPTPE---EIAKEMNMPVEKVREILKIAQEP 309 Query: 184 ESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIF 243 SL I ++ S D++ D E + L + LN RE+++ Sbjct: 310 VSLETPI--GEEEDSHLGDFIPDDD---ALAPSEAAAYSMLKEQLLEVLDSLNEREKKVL 364 Query: 244 EARRLQENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 + R E+ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 365 KLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 410 >gi|294622679|ref|ZP_06701641.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317] gi|291597877|gb|EFF29007.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317] Length = 369 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 79/276 (28%), Positives = 135/276 (48%), Gaps = 13/276 (4%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + Y+ EI ++ +L +EE LA + E GD A RL ++LRLVV IA Y G G+ Sbjct: 98 DPVRMYLKEIGRVSLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGM 156 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 157 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE- 215 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L R++ L PE++ A ++++ +V + SL I Sbjct: 216 -TINKLIRIQRQLLQDLGREPTPEEIGA---EMDLPTEKVREILKIAQEPVSLETPI--G 269 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 +++ S D++ D + E + + L + L RE + R ++ Sbjct: 270 EEDDSHLGDFI---EDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGR 326 Query: 253 -VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 327 TRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 362 >gi|281417615|ref|ZP_06248635.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum JW20] gi|281409017|gb|EFB39275.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum JW20] Length = 358 Score = 273 bits (698), Expect = 2e-71, Method: Composition-based stats. Identities = 86/280 (30%), Positives = 138/280 (49%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ + + Y+ EI K+P+L +EE LA R E GD A RL ++LRLVV IA Y Sbjct: 83 ISIDDPVRMYLKEIGKVPLLTAEEEIELAHRI-EQGDAEAKRRLAEANLRLVVSIAKRYV 141 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 142 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 201 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IAK++N+ +V + SL Sbjct: 202 MVE--TINKLIRVSRQLLQELGREPHPE---EIAKEMNMPVEKVREIMKISQEPVSLETP 256 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D E + L + L PRE ++ R Sbjct: 257 I--GEEEDSHLGDFIPDDD---APAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGL 311 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 312 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 351 >gi|1519632|gb|AAC44890.1| sigma 70-type sigma factor SigA [Heliobacillus mobilis] Length = 333 Score = 273 bits (698), Expect = 2e-71, Method: Composition-based stats. Identities = 84/280 (30%), Positives = 136/280 (48%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V + + Y+ EI ++P+L +EE LAKR E GD A RL ++LRLVV IA Y Sbjct: 58 VGIDDPVRMYLKEIGRVPLLSAEEEIELAKRM-EDGDEEAKRRLAEANLRLVVSIAKRYV 116 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 117 GRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 176 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IAK++++ V + SL Sbjct: 177 MVE--TINKLIRVSRQLLQEFGREPNPE---EIAKEMDIPVDRVREIMKIAQEPVSLETP 231 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D E + L + L RE ++ R Sbjct: 232 I--GEEEDSHLGDFI---EDQDAPAPAEAASFILLKEQLEEVLETLTAREMKVLRLRFGL 286 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 287 DDGRSRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSK 326 >gi|85704966|ref|ZP_01036066.1| RNA polymerase sigma factor [Roseovarius sp. 217] gi|85670288|gb|EAQ25149.1| RNA polymerase sigma factor [Roseovarius sp. 217] Length = 279 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 161/268 (60%), Positives = 206/268 (76%), Gaps = 1/268 (0%) Query: 20 IHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVV 79 + EIRK P+LE +EEY+LAKR+ E D AAH++VTSHLRL KIAMGYRGYGLP +EV+ Sbjct: 1 MQEIRKFPLLEPEEEYMLAKRWVEEQDTEAAHKMVTSHLRLAAKIAMGYRGYGLPQAEVI 60 Query: 80 SEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNL 139 SE N+GLMQAVK+FDPERGFRLATY+MWWI+A++QEYILRSWSLVK+GTT+ QK+LFFNL Sbjct: 61 SEANVGLMQAVKRFDPERGFRLATYAMWWIRASIQEYILRSWSLVKLGTTSAQKKLFFNL 120 Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAG-DESLNALINSSDKNSS 198 R+ K + A+ D +++PE V IA L V+E+EVISMN R+AG D SLNA + S + S Sbjct: 121 RKAKAKIGALEDGDMRPEVVKKIATDLGVTEAEVISMNQRMAGADASLNATVGSEGEGSM 180 Query: 199 QWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENL 258 QWQDWL + Q ++E RR +LT +M VLN RER I RRL + VTLE+L Sbjct: 181 QWQDWLEDEDADQAGDYERRDEMDARRELLTMAMDVLNERERDILTQRRLSDETVTLEDL 240 Query: 259 SSEFEVSRERVRQIEARAFKKVQESIQK 286 S+E++VSRER+RQIE RAF+K+Q+ ++ Sbjct: 241 SAEYDVSRERIRQIEVRAFEKLQKRMRA 268 >gi|291563082|emb|CBL41898.1| RNA polymerase, sigma 70 subunit, RpoD [butyrate-producing bacterium SS3/4] Length = 374 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 81/281 (28%), Positives = 141/281 (50%), Gaps = 13/281 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 + + + Y+ EI K+P+L EE LAK+ E GD A +L S+LRLVV IA Y Sbjct: 98 IGVDDPVRMYLKEIGKVPLLSPDEEIELAKKI-ELGDEEAKKKLAESNLRLVVSIAKRYA 156 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ + +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 157 GRGMQLLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 216 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + + RL + + + +AK+L++ V + SL Sbjct: 217 MVE-----TINRLVRTQRQLVQKLGREATPEELAKELDMPVERVREIMKISQDPVSLETP 271 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D +V + L +S L RE+++ R Sbjct: 272 I--GEEEDSHLGDFI---QDNNVEVPADAATYTLLHEQLMDVLSTLTEREQKVLRLRFGL 326 Query: 250 EN--PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 ++ P TLE + +F V+RER+RQIEA+A +K++ + ++ Sbjct: 327 DDGRPRTLEEVGRQFNVTRERIRQIEAKALRKLRHPSRSKI 367 >gi|257867642|ref|ZP_05647295.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC30] gi|257873971|ref|ZP_05653624.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC10] gi|257876550|ref|ZP_05656203.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC20] gi|325571155|ref|ZP_08146727.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus casseliflavus ATCC 12755] gi|257801725|gb|EEV30628.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC30] gi|257808135|gb|EEV36957.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC10] gi|257810716|gb|EEV39536.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC20] gi|325156240|gb|EGC68426.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus casseliflavus ATCC 12755] Length = 368 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 80/276 (28%), Positives = 135/276 (48%), Gaps = 13/276 (4%) Query: 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGL 73 + Y+ EI ++P+L +EE LA + E GD A RL ++LRLVV IA Y G G+ Sbjct: 97 DPVRMYLKEIGRVPLLTAEEEVALALKI-EEGDQEAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 74 PISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 +++ EGN+GLM+AV+KFD +GF+ +TY+ WWI+ A+ I ++I + Sbjct: 156 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE- 214 Query: 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSS 193 L R++ L PE++ A ++++ +V + SL I Sbjct: 215 -TINKLIRIQRQLLQDLGREPTPEEIGA---EMDLPTEKVREILKIAQEPVSLETPI--G 268 Query: 194 DKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENP- 252 +++ S D++ D E + + L + L RE + R ++ Sbjct: 269 EEDDSHLGDFI---EDQDATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGIDDGR 325 Query: 253 -VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 TLE + F V+RER+RQIEA+A +K++ + + Sbjct: 326 TRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 361 >gi|256004390|ref|ZP_05429371.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 2360] gi|255991674|gb|EEU01775.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 2360] gi|316940353|gb|ADU74387.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 1313] Length = 358 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 86/280 (30%), Positives = 138/280 (49%), Gaps = 13/280 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ + + Y+ EI K+P+L +EE LA R E GD A RL ++LRLVV IA Y Sbjct: 83 ISIDDPVRMYLKEIGKVPLLTAEEEIELAHRM-EQGDAEAKRRLAEANLRLVVSIAKRYV 141 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +GF+ +TY+ WWI+ A+ I ++I Sbjct: 142 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 201 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IAK++N+ +V + SL Sbjct: 202 MVE--TINKLIRVSRQLLQELGREPHPE---EIAKEMNMPVEKVREIMKISQEPVSLETP 256 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D E + L + L PRE ++ R Sbjct: 257 I--GEEEDSHLGDFIPDDD---APAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGL 311 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 ++ TLE + EF V+RER+RQIEA+A +K++ + + Sbjct: 312 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 351 >gi|167747159|ref|ZP_02419286.1| hypothetical protein ANACAC_01873 [Anaerostipes caccae DSM 14662] gi|167654119|gb|EDR98248.1| hypothetical protein ANACAC_01873 [Anaerostipes caccae DSM 14662] Length = 370 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 83/279 (29%), Positives = 138/279 (49%), Gaps = 13/279 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 V+ E + Y+ EI K+P+L EE LA+R E GD A +L ++LRLVV IA Y Sbjct: 95 VSIEDPVRMYLKEIGKVPLLSADEEIRLAQRM-EEGDEEAKKKLAEANLRLVVSIAKRYV 153 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 154 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 213 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R+ L PE IA+++++ V + SL Sbjct: 214 MVE--TINKLIRVSRQLLQELGREPLPE---EIAEEMDIPVDRVREILKISQEPVSLETP 268 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V + + L+ + L RE+++ R Sbjct: 269 I--GEEEDSHLGDFIQDD---NVPVPADAAAFTLLKEQLSEVLGTLTEREQKVLRLRFGL 323 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 324 DDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 362 >gi|160881641|ref|YP_001560609.1| RpoD family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160430307|gb|ABX43870.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium phytofermentans ISDg] Length = 372 Score = 272 bits (697), Expect = 3e-71, Method: Composition-based stats. Identities = 87/279 (31%), Positives = 141/279 (50%), Gaps = 13/279 (4%) Query: 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYR 69 ++ E + Y+ EI K+P+L EE VLA+R E GD +A RL ++LRLVV IA Y Sbjct: 97 ISTEDPVRMYLKEIGKVPLLSADEEIVLAQRM-EQGDKNAKKRLAEANLRLVVSIAKRYV 155 Query: 70 GYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT 129 G G+ +++ EGN+GL++AV+KFD +G++ +TY+ WWI+ A+ I ++I Sbjct: 156 GRGMQFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 215 Query: 130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 + L R++ L PE+V AK++N+ V + SL Sbjct: 216 MVE--TINKLIRVQRQLLQELGREPFPEEV---AKEMNIPVERVREIQKISQEPVSLETP 270 Query: 190 INSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQ 249 I ++ S D++ D V E + L + L RE+++ R Sbjct: 271 I--GEEEDSHLGDFIQDD---NVPVPAEAAAFTLLKEQLMEVLGTLTDREQKVLRLRFGL 325 Query: 250 ENP--VTLENLSSEFEVSRERVRQIEARAFKKVQESIQK 286 ++ TLE + EF V+RER+RQIEA+A +K++ + Sbjct: 326 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 364 >gi|69249285|ref|ZP_00604924.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Enterococcus faecium DO] gi|257877975|ref|ZP_05657628.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933] gi|257881238|ref|ZP_05660891.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502] gi|257884904|ref|ZP_05664557.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501] gi|257889826|ref|ZP_05669479.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410] gi|258616539|ref|ZP_05714309.1| RNA polymerase sigma factor RpoD [Enterococcus faecium DO] gi|260559026|ref|ZP_05831212.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68] gi|261207559|ref|ZP_05922244.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6] gi|289565071|ref|ZP_06445524.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF] gi|293556716|ref|ZP_06675279.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039] gi|293563374|ref|ZP_06677823.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162] gi|293568034|ref|ZP_06679372.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071] gi|294614871|ref|ZP_06694766.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636] gi|294618226|ref|ZP_06697809.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679] gi|314939477|ref|ZP_07846711.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04] gi|314941108|ref|ZP_07848006.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C] gi|314949892|ref|ZP_07853194.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082] gi|314951693|ref|ZP_07854736.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A] gi|314993960|ref|ZP_07859287.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B] gi|314996911|ref|ZP_07861912.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01] gi|68194219|gb|EAN08744.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Enterococcus faecium DO] gi|257812203|gb|EEV40961.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933] gi|257816896|gb|EEV44224.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502] gi|257820742|gb|EEV47890.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501] gi|257826186|gb|EEV52812.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410] gi|260074783|gb|EEW63099.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68] gi|260077942|gb|EEW65648.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6] gi|289163078|gb|EFD10925.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF] gi|291589255|gb|EFF21065.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071] gi|291592333|gb|EFF23947.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636] gi|291595506|gb|EFF26816.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679] gi|291601048|gb|EFF31337.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039] gi|291604635|gb|EFF34120.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162] gi|313588970|gb|EFR67815.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01] gi|313591562|gb|EFR70407.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B] gi|313596157|gb|EFR75002.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A] gi|313600109|gb|EFR78952.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C] gi|313641279|gb|EFS05859.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04] gi|313643734|gb|EFS08314.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082] Length = 369 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 79/276 (28%), Positives = 135/276 (48%), Gaps = 13/276 (4%) Query: 14 IGLSRYIHEIRK